Query 002565
Match_columns 907
No_of_seqs 403 out of 2345
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 02:33:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002565.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002565hhsearch_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 1.4E-82 3E-87 687.4 28.5 480 263-907 174-693 (791)
2 KOG0385 Chromatin remodeling c 100.0 4.4E-69 9.6E-74 609.1 30.3 373 266-902 159-537 (971)
3 KOG0387 Transcription-coupled 100.0 3.1E-68 6.7E-73 605.7 31.4 380 263-907 195-602 (923)
4 KOG4439 RNA polymerase II tran 100.0 4.9E-67 1.1E-71 587.6 30.9 503 205-907 247-802 (901)
5 KOG0389 SNF2 family DNA-depend 100.0 5E-67 1.1E-71 594.9 24.4 411 272-907 397-832 (941)
6 KOG0392 SNF2 family DNA-depend 100.0 8.6E-67 1.9E-71 611.3 26.3 428 250-907 950-1398(1549)
7 KOG1001 Helicase-like transcri 100.0 1.7E-64 3.7E-69 596.4 30.9 488 246-907 106-594 (674)
8 PLN03142 Probable chromatin-re 100.0 3.9E-62 8.4E-67 597.0 35.6 372 266-903 162-538 (1033)
9 KOG0391 SNF2 family DNA-depend 100.0 8.4E-63 1.8E-67 570.1 26.6 286 269-685 610-907 (1958)
10 KOG0384 Chromodomain-helicase 100.0 4.2E-60 9.1E-65 558.5 24.3 377 266-902 362-749 (1373)
11 KOG0388 SNF2 family DNA-depend 100.0 1.1E-57 2.4E-62 509.2 24.6 464 269-907 562-1098(1185)
12 KOG0386 Chromatin remodeling c 100.0 6E-57 1.3E-61 523.2 12.8 382 264-906 384-781 (1157)
13 KOG0390 DNA repair protein, SN 100.0 2.5E-51 5.5E-56 481.1 30.7 397 267-907 231-651 (776)
14 KOG1015 Transcription regulato 100.0 7.1E-51 1.5E-55 465.1 27.4 477 271-906 665-1218(1567)
15 COG0553 HepA Superfamily II DN 100.0 1E-46 2.3E-51 472.3 26.7 400 269-907 333-766 (866)
16 PF00176 SNF2_N: SNF2 family N 100.0 5.5E-47 1.2E-51 416.0 17.0 291 278-683 1-299 (299)
17 KOG1016 Predicted DNA helicase 100.0 1.3E-45 2.8E-50 414.8 18.2 315 272-686 252-610 (1387)
18 KOG1000 Chromatin remodeling p 100.0 4E-40 8.7E-45 358.8 24.2 346 266-906 191-546 (689)
19 PRK04914 ATP-dependent helicas 100.0 3.8E-39 8.1E-44 394.2 28.5 343 271-907 149-550 (956)
20 KOG0383 Predicted helicase [Ge 100.0 4.4E-41 9.6E-46 392.0 6.5 383 273-902 294-680 (696)
21 KOG0298 DEAD box-containing he 100.0 4.1E-33 8.8E-38 331.9 12.8 377 265-685 237-693 (1394)
22 TIGR00603 rad25 DNA repair hel 99.9 1.3E-26 2.7E-31 275.8 25.3 171 272-564 253-424 (732)
23 PRK13766 Hef nuclease; Provisi 99.9 3E-21 6.5E-26 239.6 25.0 213 273-609 14-239 (773)
24 COG1061 SSL2 DNA or RNA helica 99.8 1.2E-17 2.6E-22 193.6 26.2 209 271-647 33-244 (442)
25 COG1111 MPH1 ERCC4-like helica 99.7 4.9E-16 1.1E-20 173.4 24.8 390 273-906 14-428 (542)
26 PHA02558 uvsW UvsW helicase; P 99.7 1.3E-15 2.9E-20 179.6 28.0 49 854-902 346-394 (501)
27 KOG1123 RNA polymerase II tran 99.7 6.9E-16 1.5E-20 170.0 14.5 184 260-569 291-477 (776)
28 smart00487 DEXDc DEAD-like hel 99.4 3.5E-13 7.6E-18 137.1 10.9 161 273-552 7-173 (201)
29 PF04851 ResIII: Type III rest 99.4 7.2E-13 1.6E-17 134.4 12.7 167 273-550 2-183 (184)
30 PTZ00110 helicase; Provisional 99.4 3.5E-11 7.6E-16 143.5 25.1 71 806-906 360-430 (545)
31 cd00046 DEXDc DEAD-like helica 99.4 2.1E-12 4.7E-17 123.6 11.6 137 298-549 2-144 (144)
32 PRK11448 hsdR type I restricti 99.4 1.9E-11 4E-16 154.6 22.9 113 273-446 412-525 (1123)
33 KOG0354 DEAD-box like helicase 99.4 1.7E-10 3.6E-15 136.4 26.5 168 273-565 61-236 (746)
34 PRK11776 ATP-dependent RNA hel 99.3 2.4E-10 5.1E-15 134.1 24.0 54 853-907 243-296 (460)
35 PRK11192 ATP-dependent RNA hel 99.3 5.3E-10 1.1E-14 130.2 24.1 54 853-907 246-299 (434)
36 TIGR00643 recG ATP-dependent D 99.2 9.6E-10 2.1E-14 133.5 25.5 112 271-444 232-350 (630)
37 PRK11634 ATP-dependent RNA hel 99.2 1.1E-09 2.5E-14 132.2 24.9 52 854-906 247-298 (629)
38 TIGR00614 recQ_fam ATP-depende 99.2 8.7E-10 1.9E-14 129.6 22.4 53 854-907 228-280 (470)
39 PRK10590 ATP-dependent RNA hel 99.2 1.2E-09 2.7E-14 127.8 22.9 54 853-907 246-299 (456)
40 PLN00206 DEAD-box ATP-dependen 99.2 1.8E-09 4E-14 128.3 24.4 53 854-907 369-422 (518)
41 PRK04837 ATP-dependent RNA hel 99.2 2E-09 4.4E-14 125.0 24.1 54 853-907 256-309 (423)
42 PRK10689 transcription-repair 99.2 1.8E-09 4E-14 137.2 25.2 53 854-907 811-865 (1147)
43 PRK04537 ATP-dependent RNA hel 99.2 2.2E-09 4.9E-14 128.7 24.4 54 853-907 258-311 (572)
44 PRK10917 ATP-dependent DNA hel 99.2 2.1E-09 4.6E-14 131.5 23.7 113 271-445 258-377 (681)
45 PRK01297 ATP-dependent RNA hel 99.2 3.9E-09 8.4E-14 124.4 24.8 53 853-906 336-388 (475)
46 TIGR00580 mfd transcription-re 99.2 3.1E-09 6.7E-14 132.4 25.0 52 854-906 662-715 (926)
47 KOG0331 ATP-dependent RNA heli 99.1 2.1E-09 4.6E-14 123.7 20.2 69 806-902 323-391 (519)
48 TIGR01389 recQ ATP-dependent D 99.1 2.4E-09 5.2E-14 129.5 21.7 52 854-906 226-277 (591)
49 PTZ00424 helicase 45; Provisio 99.1 3.9E-09 8.4E-14 121.5 22.1 53 854-907 269-321 (401)
50 PRK11057 ATP-dependent DNA hel 99.1 3.2E-09 6.9E-14 128.5 20.8 53 853-906 237-289 (607)
51 TIGR00348 hsdR type I site-spe 99.0 8.6E-10 1.9E-14 134.4 10.6 162 271-552 235-405 (667)
52 cd00268 DEADc DEAD-box helicas 99.0 5.2E-09 1.1E-13 108.7 13.1 159 274-550 21-185 (203)
53 TIGR03714 secA2 accessory Sec 98.9 2E-08 4.3E-13 121.2 18.2 68 805-901 406-473 (762)
54 PRK02362 ski2-like helicase; P 98.9 4.2E-08 9.2E-13 121.6 20.8 103 274-445 23-126 (737)
55 PRK13767 ATP-dependent helicas 98.8 2.7E-07 5.8E-12 116.1 23.6 52 854-906 286-343 (876)
56 COG4096 HsdR Type I site-speci 98.8 1.9E-08 4.1E-13 119.2 11.8 160 271-551 162-322 (875)
57 PF13872 AAA_34: P-loop contai 98.8 7.1E-08 1.5E-12 104.2 14.6 247 274-641 37-302 (303)
58 PLN03137 ATP-dependent DNA hel 98.8 9.6E-08 2.1E-12 118.4 17.3 53 854-907 682-734 (1195)
59 PF00270 DEAD: DEAD/DEAH box h 98.8 2.1E-08 4.5E-13 100.6 9.2 158 277-556 2-168 (169)
60 TIGR03817 DECH_helic helicase/ 98.7 6.1E-07 1.3E-11 110.8 22.6 52 854-906 273-332 (742)
61 PRK09401 reverse gyrase; Revie 98.7 5.3E-07 1.2E-11 115.4 22.4 48 854-907 330-380 (1176)
62 COG1200 RecG RecG-like helicas 98.7 1.5E-06 3.3E-11 102.1 22.6 160 271-555 259-427 (677)
63 PRK09200 preprotein translocas 98.6 1.5E-06 3.3E-11 106.0 20.9 66 806-900 411-476 (790)
64 COG0513 SrmB Superfamily II DN 98.6 4E-06 8.7E-11 99.6 23.9 53 854-907 275-327 (513)
65 TIGR01587 cas3_core CRISPR-ass 98.6 2.9E-06 6.2E-11 96.3 21.0 48 854-901 224-277 (358)
66 PRK01172 ski2-like helicase; P 98.6 4.8E-07 1E-11 111.3 15.1 103 273-445 21-124 (674)
67 PRK00254 ski2-like helicase; P 98.5 8.7E-07 1.9E-11 109.7 15.4 160 274-559 23-187 (720)
68 PRK12898 secA preprotein trans 98.5 1.5E-05 3.2E-10 95.7 24.6 64 806-900 456-519 (656)
69 PRK13104 secA preprotein trans 98.5 9E-06 2E-10 99.5 22.8 71 805-905 426-496 (896)
70 TIGR01054 rgy reverse gyrase. 98.5 3.8E-06 8.2E-11 107.8 20.1 49 854-907 328-379 (1171)
71 TIGR02621 cas3_GSU0051 CRISPR- 98.4 2E-05 4.4E-10 96.6 23.7 45 854-900 274-323 (844)
72 COG1204 Superfamily II helicas 98.4 1.1E-06 2.4E-11 107.8 12.7 104 274-445 31-135 (766)
73 TIGR00963 secA preprotein tran 98.4 1.1E-05 2.3E-10 97.4 20.7 66 806-902 388-453 (745)
74 PRK14701 reverse gyrase; Provi 98.3 4.2E-05 9.2E-10 100.6 21.8 48 854-907 332-382 (1638)
75 PHA02653 RNA helicase NPH-II; 98.3 7.4E-05 1.6E-09 90.8 22.2 52 854-907 397-450 (675)
76 PRK05580 primosome assembly pr 98.2 9.1E-06 2E-10 99.6 14.5 105 272-444 142-253 (679)
77 COG1201 Lhr Lhr-like helicases 98.2 7.1E-05 1.5E-09 91.5 21.8 52 854-906 255-307 (814)
78 COG1205 Distinct helicase fami 98.2 5.3E-06 1.2E-10 103.3 11.8 159 275-549 71-242 (851)
79 TIGR03158 cas3_cyano CRISPR-as 98.2 9.7E-06 2.1E-10 92.1 12.6 43 853-895 273-317 (357)
80 KOG0333 U5 snRNP-like RNA heli 98.2 6.4E-05 1.4E-09 85.3 18.5 70 805-905 501-571 (673)
81 KOG0335 ATP-dependent RNA heli 98.2 6.5E-05 1.4E-09 85.9 18.2 75 805-901 312-386 (482)
82 PRK12904 preprotein translocas 98.2 7.7E-05 1.7E-09 91.3 20.0 66 806-902 413-478 (830)
83 PRK13107 preprotein translocas 98.1 0.00019 4.1E-09 88.0 21.7 69 805-902 431-499 (908)
84 KOG0339 ATP-dependent RNA heli 98.1 0.00019 4E-09 81.2 18.9 66 806-901 452-517 (731)
85 KOG0330 ATP-dependent RNA heli 98.1 6.1E-05 1.3E-09 82.8 14.2 49 854-902 302-350 (476)
86 PF11496 HDA2-3: Class II hist 98.0 3.4E-05 7.4E-10 84.9 11.6 143 623-890 4-155 (297)
87 KOG0328 Predicted ATP-dependen 98.0 0.00011 2.3E-09 77.7 13.9 49 854-902 268-316 (400)
88 TIGR00595 priA primosomal prot 98.0 3.9E-05 8.4E-10 90.9 11.7 55 386-444 27-88 (505)
89 PLN03208 E3 ubiquitin-protein 97.9 4.9E-06 1.1E-10 84.3 2.9 54 717-772 17-85 (193)
90 KOG0350 DEAD-box ATP-dependent 97.9 0.00013 2.9E-09 82.5 14.2 118 273-447 158-285 (620)
91 COG4889 Predicted helicase [Ge 97.9 1.4E-05 3E-10 94.7 6.3 44 272-318 159-202 (1518)
92 KOG0320 Predicted E3 ubiquitin 97.9 3.5E-06 7.6E-11 83.0 1.2 44 717-761 130-175 (187)
93 KOG0823 Predicted E3 ubiquitin 97.9 4.7E-06 1E-10 85.7 2.1 56 716-773 45-102 (230)
94 PRK12906 secA preprotein trans 97.8 0.00048 1E-08 84.2 18.2 67 806-901 423-489 (796)
95 smart00504 Ubox Modified RING 97.8 5.8E-06 1.3E-10 69.3 1.2 50 719-771 2-51 (63)
96 PRK09751 putative ATP-dependen 97.8 0.00057 1.2E-08 88.9 19.4 52 854-906 246-330 (1490)
97 TIGR01970 DEAH_box_HrpB ATP-de 97.8 0.0018 3.9E-08 80.8 22.3 48 854-901 211-261 (819)
98 PF07652 Flavi_DEAD: Flaviviru 97.8 0.00016 3.4E-09 70.5 10.0 100 385-550 34-137 (148)
99 PF13923 zf-C3HC4_2: Zinc fing 97.7 1.1E-05 2.5E-10 60.9 1.3 37 721-758 1-38 (39)
100 COG1197 Mfd Transcription-repa 97.7 0.00033 7.1E-09 87.4 13.8 159 272-555 592-758 (1139)
101 KOG4284 DEAD box protein [Tran 97.7 0.00015 3.2E-09 84.0 10.0 47 854-900 274-320 (980)
102 PRK11664 ATP-dependent RNA hel 97.6 0.004 8.7E-08 77.8 22.3 48 854-901 214-264 (812)
103 KOG0317 Predicted E3 ubiquitin 97.6 2.2E-05 4.7E-10 83.2 2.0 51 717-770 238-288 (293)
104 KOG0348 ATP-dependent RNA heli 97.6 0.0051 1.1E-07 70.5 20.7 71 807-904 407-499 (708)
105 PF15227 zf-C3HC4_4: zinc fing 97.6 3.1E-05 6.7E-10 59.6 1.9 37 721-757 1-40 (42)
106 KOG0343 RNA Helicase [RNA proc 97.6 0.0014 3.1E-08 75.0 15.3 66 806-902 298-365 (758)
107 KOG0338 ATP-dependent RNA heli 97.5 0.00084 1.8E-08 76.2 13.1 53 854-907 428-480 (691)
108 PRK12326 preprotein translocas 97.5 0.01 2.2E-07 71.8 22.6 63 805-897 409-471 (764)
109 KOG0952 DNA/RNA helicase MER3/ 97.5 0.00056 1.2E-08 83.4 11.5 136 385-579 165-310 (1230)
110 KOG2164 Predicted E3 ubiquitin 97.5 4.2E-05 9.2E-10 86.8 2.0 54 718-771 186-241 (513)
111 KOG0978 E3 ubiquitin ligase in 97.4 3.3E-05 7.2E-10 91.7 0.3 51 718-770 643-693 (698)
112 COG0610 Type I site-specific r 97.4 0.00052 1.1E-08 87.1 10.8 169 271-556 245-420 (962)
113 KOG0336 ATP-dependent RNA heli 97.4 0.0017 3.8E-08 71.8 12.8 54 853-907 466-519 (629)
114 KOG0342 ATP-dependent RNA heli 97.4 0.0058 1.3E-07 69.6 17.2 49 854-902 332-380 (543)
115 PRK12900 secA preprotein trans 97.4 0.025 5.4E-07 70.4 24.1 66 806-902 581-646 (1025)
116 PF13920 zf-C3HC4_3: Zinc fing 97.3 9.1E-05 2E-09 59.2 1.3 46 718-766 2-48 (50)
117 PF00097 zf-C3HC4: Zinc finger 97.3 0.00011 2.4E-09 56.1 1.6 38 721-758 1-40 (41)
118 COG0514 RecQ Superfamily II DN 97.3 0.0028 6.2E-08 75.2 14.0 49 854-902 232-280 (590)
119 PHA02929 N1R/p28-like protein; 97.2 0.00016 3.4E-09 76.6 2.7 47 717-766 173-227 (238)
120 TIGR00599 rad18 DNA repair pro 97.2 0.00012 2.5E-09 82.9 1.6 49 717-768 25-73 (397)
121 PRK15483 type III restriction- 97.2 0.0028 6.1E-08 78.9 13.1 37 514-551 204-240 (986)
122 COG1202 Superfamily II helicas 97.1 0.012 2.7E-07 68.0 16.5 48 854-901 442-489 (830)
123 PF04564 U-box: U-box domain; 97.1 0.0002 4.4E-09 62.1 1.2 51 718-770 4-54 (73)
124 KOG0298 DEAD box-containing he 97.0 0.0002 4.3E-09 88.7 0.9 113 718-900 1153-1266(1394)
125 PRK12899 secA preprotein trans 97.0 0.005 1.1E-07 76.1 12.5 52 806-886 551-602 (970)
126 PRK09694 helicase Cas3; Provis 97.0 0.0057 1.2E-07 76.6 13.0 40 273-319 285-324 (878)
127 PF13639 zf-RING_2: Ring finge 96.9 0.00021 4.6E-09 55.4 -0.2 38 720-758 2-42 (44)
128 COG5574 PEX10 RING-finger-cont 96.9 0.00039 8.4E-09 73.0 1.5 48 717-766 214-262 (271)
129 PF13445 zf-RING_UBOX: RING-ty 96.9 0.00024 5.1E-09 54.8 -0.1 30 721-751 1-34 (43)
130 smart00184 RING Ring finger. E 96.9 0.00055 1.2E-08 50.5 1.8 38 721-758 1-38 (39)
131 cd00079 HELICc Helicase superf 96.8 0.0044 9.6E-08 58.8 8.4 67 807-902 12-78 (131)
132 COG1110 Reverse gyrase [DNA re 96.8 0.003 6.5E-08 77.4 8.3 63 385-447 126-196 (1187)
133 cd00162 RING RING-finger (Real 96.8 0.00063 1.4E-08 52.1 1.8 42 720-763 1-43 (45)
134 KOG1513 Nuclear helicase MOP-3 96.8 0.0073 1.6E-07 71.8 11.0 115 513-645 407-540 (1300)
135 PHA02926 zinc finger-like prot 96.8 0.0006 1.3E-08 70.0 1.9 48 717-766 169-230 (242)
136 PF14634 zf-RING_5: zinc-RING 96.8 0.00083 1.8E-08 52.2 2.2 38 720-758 1-41 (44)
137 PRK11131 ATP-dependent RNA hel 96.8 0.021 4.5E-07 73.7 15.7 45 854-898 288-335 (1294)
138 COG5432 RAD18 RING-finger-cont 96.7 0.00053 1.2E-08 72.2 1.3 41 718-759 25-65 (391)
139 TIGR01407 dinG_rel DnaQ family 96.7 0.01 2.3E-07 75.1 12.9 46 854-902 676-725 (850)
140 PF13086 AAA_11: AAA domain; P 96.7 0.031 6.8E-07 58.5 14.1 40 274-319 1-40 (236)
141 PF14835 zf-RING_6: zf-RING of 96.5 0.0018 3.9E-08 53.7 2.5 42 719-765 8-50 (65)
142 KOG0287 Postreplication repair 96.5 0.00065 1.4E-08 73.0 -0.2 48 718-768 23-70 (442)
143 TIGR01967 DEAH_box_HrpA ATP-de 96.4 0.062 1.3E-06 69.6 16.4 45 854-898 281-328 (1283)
144 COG4098 comFA Superfamily II D 96.4 0.044 9.5E-07 60.2 12.7 103 272-444 95-198 (441)
145 COG4581 Superfamily II RNA hel 96.3 0.019 4.1E-07 72.0 10.9 164 271-564 116-283 (1041)
146 PRK13103 secA preprotein trans 96.3 0.024 5.2E-07 70.1 11.6 58 385-446 124-185 (913)
147 smart00488 DEXDc2 DEAD-like he 96.2 0.029 6.2E-07 62.0 11.0 43 274-319 8-50 (289)
148 smart00489 DEXDc3 DEAD-like he 96.2 0.029 6.2E-07 62.0 11.0 43 274-319 8-50 (289)
149 TIGR00570 cdk7 CDK-activating 96.2 0.0032 6.9E-08 68.7 3.2 50 718-769 3-57 (309)
150 TIGR03117 cas_csf4 CRISPR-asso 96.2 0.036 7.8E-07 67.2 12.3 39 385-423 47-88 (636)
151 TIGR00596 rad1 DNA repair prot 96.2 0.085 1.8E-06 65.8 15.9 53 805-877 268-320 (814)
152 PF11789 zf-Nse: Zinc-finger o 96.1 0.0022 4.7E-08 52.8 1.1 46 717-762 10-57 (57)
153 KOG0824 Predicted E3 ubiquitin 96.1 0.0038 8.2E-08 66.8 2.8 56 718-775 7-62 (324)
154 KOG1785 Tyrosine kinase negati 95.7 0.0051 1.1E-07 67.6 2.1 50 714-763 365-415 (563)
155 KOG0947 Cytoplasmic exosomal R 95.7 0.025 5.4E-07 69.0 7.9 101 271-448 294-395 (1248)
156 KOG4172 Predicted E3 ubiquitin 95.7 0.0025 5.4E-08 50.6 -0.3 47 718-766 7-54 (62)
157 PRK12902 secA preprotein trans 95.6 0.25 5.4E-06 61.3 15.9 63 806-897 422-485 (939)
158 KOG2879 Predicted E3 ubiquitin 95.6 0.0068 1.5E-07 64.1 2.3 49 715-765 236-286 (298)
159 PF02562 PhoH: PhoH-like prote 95.3 0.026 5.7E-07 58.9 5.6 44 510-555 118-161 (205)
160 KOG0311 Predicted E3 ubiquitin 95.3 0.0028 6E-08 69.1 -1.7 49 717-767 42-91 (381)
161 CHL00122 secA preprotein trans 95.2 2.4 5.1E-05 52.9 22.6 63 806-897 407-470 (870)
162 KOG1802 RNA helicase nonsense 95.2 0.13 2.9E-06 60.7 11.2 80 274-424 410-490 (935)
163 PRK10536 hypothetical protein; 95.0 0.074 1.6E-06 57.3 8.1 41 512-554 177-217 (262)
164 KOG0332 ATP-dependent RNA heli 95.0 0.055 1.2E-06 60.0 7.2 49 854-902 332-380 (477)
165 COG1203 CRISPR-associated heli 94.9 0.13 2.8E-06 64.1 11.0 44 274-320 195-238 (733)
166 COG5540 RING-finger-containing 94.6 0.013 2.8E-07 62.6 1.0 47 718-766 323-372 (374)
167 PF07517 SecA_DEAD: SecA DEAD- 94.6 0.084 1.8E-06 57.4 7.2 57 385-445 119-179 (266)
168 PF12678 zf-rbx1: RING-H2 zinc 94.2 0.025 5.5E-07 49.0 1.8 41 717-758 18-71 (73)
169 KOG2177 Predicted E3 ubiquitin 94.2 0.017 3.8E-07 63.1 1.0 43 717-762 12-54 (386)
170 TIGR00631 uvrb excinuclease AB 93.9 0.15 3.2E-06 62.6 8.2 71 806-906 425-495 (655)
171 PRK12903 secA preprotein trans 93.9 1.4 3.1E-05 54.7 16.2 53 805-886 408-460 (925)
172 PRK05298 excinuclease ABC subu 93.8 0.16 3.5E-06 62.5 8.4 67 806-901 429-495 (652)
173 COG5222 Uncharacterized conser 93.6 0.028 6.1E-07 59.7 1.1 41 718-758 274-315 (427)
174 KOG0948 Nuclear exosomal RNA h 93.6 0.12 2.6E-06 61.9 6.2 106 266-449 121-228 (1041)
175 KOG2660 Locus-specific chromos 93.4 0.017 3.6E-07 62.9 -0.8 47 717-766 14-61 (331)
176 COG3587 Restriction endonuclea 93.3 0.29 6.2E-06 59.7 9.0 35 514-549 208-242 (985)
177 PRK07246 bifunctional ATP-depe 93.2 0.5 1.1E-05 59.7 11.6 46 854-902 649-694 (820)
178 KOG0334 RNA helicase [RNA proc 93.2 0.15 3.2E-06 63.4 6.4 68 805-902 596-663 (997)
179 PRK14873 primosome assembly pr 92.9 0.57 1.2E-05 57.5 10.9 58 385-445 189-253 (665)
180 TIGR00376 DNA helicase, putati 92.8 1.4 3.1E-05 54.0 14.4 41 273-319 156-196 (637)
181 KOG1813 Predicted E3 ubiquitin 92.8 0.052 1.1E-06 58.2 1.6 47 717-766 240-286 (313)
182 KOG0802 E3 ubiquitin ligase [P 92.4 0.041 9E-07 66.1 0.4 45 716-761 289-338 (543)
183 KOG0341 DEAD-box protein abstr 92.4 0.27 5.9E-06 54.7 6.5 48 854-901 423-470 (610)
184 COG5152 Uncharacterized conser 92.3 0.04 8.6E-07 55.4 0.0 31 717-747 195-225 (259)
185 PRK08074 bifunctional ATP-depe 92.3 0.95 2.1E-05 58.1 12.3 49 854-902 754-804 (928)
186 KOG0826 Predicted E3 ubiquitin 91.7 0.068 1.5E-06 58.1 0.9 49 714-763 296-345 (357)
187 KOG1132 Helicase of the DEAD s 91.6 1.9 4E-05 53.2 12.9 46 273-321 20-65 (945)
188 PHA02533 17 large terminase pr 91.4 2.3 4.9E-05 51.2 13.4 42 271-319 56-97 (534)
189 COG5243 HRD1 HRD ubiquitin lig 90.9 0.13 2.9E-06 56.5 2.2 52 712-766 281-345 (491)
190 KOG0345 ATP-dependent RNA heli 90.7 1.4 3E-05 50.7 10.0 57 386-445 81-144 (567)
191 KOG0353 ATP-dependent DNA heli 90.7 0.89 1.9E-05 50.4 8.2 56 507-562 211-273 (695)
192 KOG4159 Predicted E3 ubiquitin 90.7 0.11 2.5E-06 59.2 1.5 48 717-767 83-130 (398)
193 PF13604 AAA_30: AAA domain; P 90.6 2.3 5E-05 44.1 11.1 39 274-317 1-39 (196)
194 KOG0951 RNA helicase BRR2, DEA 90.5 5.2 0.00011 51.3 15.3 54 386-441 366-420 (1674)
195 KOG0828 Predicted E3 ubiquitin 90.3 0.096 2.1E-06 59.5 0.5 45 717-761 570-631 (636)
196 KOG0340 ATP-dependent RNA heli 90.1 0.66 1.4E-05 51.5 6.6 50 853-902 255-304 (442)
197 KOG4628 Predicted E3 ubiquitin 89.9 0.17 3.6E-06 56.5 1.9 47 719-767 230-279 (348)
198 KOG4692 Predicted E3 ubiquitin 89.6 0.19 4E-06 54.9 2.0 47 717-766 421-467 (489)
199 COG5220 TFB3 Cdk activating ki 89.6 0.08 1.7E-06 54.8 -0.7 51 718-768 10-66 (314)
200 smart00490 HELICc helicase sup 89.4 0.53 1.2E-05 40.2 4.4 36 867-902 2-37 (82)
201 KOG1803 DNA helicase [Replicat 89.3 0.33 7.1E-06 57.3 3.8 44 271-320 182-225 (649)
202 KOG4265 Predicted E3 ubiquitin 89.2 0.16 3.4E-06 56.2 1.1 49 717-768 289-338 (349)
203 COG0556 UvrB Helicase subunit 89.0 1.2 2.6E-05 52.0 7.8 48 853-900 447-494 (663)
204 PF09848 DUF2075: Uncharacteri 88.9 1.4 3E-05 50.2 8.5 16 510-525 82-97 (352)
205 KOG1131 RNA polymerase II tran 88.8 3.7 7.9E-05 47.9 11.4 46 275-323 17-62 (755)
206 TIGR01447 recD exodeoxyribonuc 88.7 2.8 6E-05 51.0 11.3 41 511-553 259-299 (586)
207 KOG0347 RNA helicase [RNA proc 88.5 0.58 1.3E-05 54.5 5.0 59 386-445 265-326 (731)
208 KOG0297 TNF receptor-associate 88.0 0.3 6.5E-06 56.3 2.4 45 718-765 21-66 (391)
209 PF14447 Prok-RING_4: Prokaryo 87.2 0.42 9.2E-06 38.7 2.1 46 718-768 7-52 (55)
210 COG1198 PriA Primosomal protei 87.1 3.5 7.5E-05 51.0 10.8 106 273-445 197-309 (730)
211 KOG0340 ATP-dependent RNA heli 87.1 4.9 0.00011 44.9 10.8 59 387-446 78-139 (442)
212 KOG4739 Uncharacterized protei 86.9 0.3 6.6E-06 51.4 1.4 45 719-768 4-50 (233)
213 PF00271 Helicase_C: Helicase 86.7 0.62 1.3E-05 40.2 3.1 33 870-902 1-33 (78)
214 KOG1039 Predicted E3 ubiquitin 86.3 0.34 7.3E-06 54.3 1.5 48 717-766 160-221 (344)
215 PRK12901 secA preprotein trans 86.2 4.2 9.1E-05 51.6 10.8 54 805-887 610-663 (1112)
216 PRK04296 thymidine kinase; Pro 86.2 2.1 4.6E-05 44.2 7.3 20 300-319 6-25 (190)
217 KOG3039 Uncharacterized conser 86.0 0.46 1E-05 49.7 2.2 53 717-772 220-276 (303)
218 PRK10875 recD exonuclease V su 85.9 4.8 0.0001 49.2 11.1 42 510-553 264-305 (615)
219 TIGR01448 recD_rel helicase, p 85.6 6.2 0.00013 49.3 12.2 41 511-553 416-456 (720)
220 KOG1814 Predicted E3 ubiquitin 84.4 0.42 9.1E-06 53.7 1.1 53 716-768 182-244 (445)
221 KOG3039 Uncharacterized conser 83.8 0.48 1E-05 49.6 1.1 33 718-750 43-75 (303)
222 PF02399 Herpes_ori_bp: Origin 83.2 5.6 0.00012 49.3 9.9 38 512-549 143-190 (824)
223 KOG0326 ATP-dependent RNA heli 83.1 1.1 2.3E-05 49.2 3.4 48 854-901 324-371 (459)
224 KOG3800 Predicted E3 ubiquitin 83.0 0.58 1.3E-05 50.4 1.4 48 720-769 2-54 (300)
225 PF06733 DEAD_2: DEAD_2; Inte 82.3 0.65 1.4E-05 47.1 1.4 17 429-445 116-132 (174)
226 PF14570 zf-RING_4: RING/Ubox 81.5 1 2.2E-05 35.6 1.9 43 721-765 1-47 (48)
227 PF05876 Terminase_GpA: Phage 80.7 5.3 0.00011 48.4 8.6 56 507-562 130-192 (557)
228 KOG0337 ATP-dependent RNA heli 80.1 4.2 9.1E-05 46.4 6.8 105 386-549 92-205 (529)
229 KOG0327 Translation initiation 80.0 3.4 7.3E-05 46.6 6.0 49 854-902 265-313 (397)
230 KOG1805 DNA replication helica 79.9 13 0.00028 46.8 11.3 41 274-320 669-709 (1100)
231 KOG1812 Predicted E3 ubiquitin 79.4 0.84 1.8E-05 52.4 1.2 52 718-769 146-206 (384)
232 KOG1734 Predicted RING-contain 79.1 0.7 1.5E-05 49.1 0.4 52 717-770 223-285 (328)
233 KOG2932 E3 ubiquitin ligase in 78.3 0.98 2.1E-05 48.8 1.2 35 720-757 92-127 (389)
234 KOG0922 DEAH-box RNA helicase 78.0 10 0.00022 45.7 9.5 50 511-564 163-220 (674)
235 PF12861 zf-Apc11: Anaphase-pr 78.0 1.7 3.6E-05 38.7 2.4 32 732-765 48-81 (85)
236 COG1875 NYN ribonuclease and A 77.9 4.5 9.7E-05 45.6 6.1 41 274-319 228-268 (436)
237 PF04641 Rtf2: Rtf2 RING-finge 77.0 1.8 3.9E-05 47.1 2.8 52 717-772 112-167 (260)
238 KOG0345 ATP-dependent RNA heli 76.6 6 0.00013 45.7 6.8 67 805-902 239-307 (567)
239 KOG0926 DEAH-box RNA helicase 76.0 5.1 0.00011 49.0 6.3 20 299-318 274-293 (1172)
240 COG0653 SecA Preprotein transl 75.0 17 0.00037 45.4 10.6 64 805-899 411-474 (822)
241 KOG1571 Predicted E3 ubiquitin 74.6 1.2 2.6E-05 49.5 0.7 44 717-766 304-347 (355)
242 KOG0334 RNA helicase [RNA proc 74.5 6.3 0.00014 49.6 6.8 57 387-444 441-500 (997)
243 KOG0349 Putative DEAD-box RNA 74.5 5.4 0.00012 45.4 5.7 48 853-900 506-556 (725)
244 KOG1815 Predicted E3 ubiquitin 73.8 2.2 4.7E-05 50.2 2.6 54 717-770 69-130 (444)
245 PF13401 AAA_22: AAA domain; P 72.5 2.6 5.5E-05 40.0 2.3 35 513-549 89-125 (131)
246 PRK11747 dinG ATP-dependent DN 72.5 2.3 5E-05 52.9 2.5 43 854-900 536-579 (697)
247 PF12340 DUF3638: Protein of u 72.0 17 0.00036 38.8 8.4 111 272-445 21-143 (229)
248 TIGR03158 cas3_cyano CRISPR-as 71.8 11 0.00023 43.0 7.6 100 278-445 1-126 (357)
249 TIGR02881 spore_V_K stage V sp 70.9 8.4 0.00018 41.8 6.2 20 299-318 45-64 (261)
250 KOG0346 RNA helicase [RNA proc 67.8 6.7 0.00015 45.0 4.6 48 854-901 270-317 (569)
251 KOG0347 RNA helicase [RNA proc 67.6 4.9 0.00011 47.3 3.5 52 853-904 464-515 (731)
252 KOG0329 ATP-dependent RNA heli 67.4 7 0.00015 41.7 4.3 60 386-445 112-174 (387)
253 TIGR00631 uvrb excinuclease AB 67.2 21 0.00046 44.1 9.2 25 385-409 55-80 (655)
254 KOG0827 Predicted E3 ubiquitin 65.6 3.2 7E-05 46.4 1.5 46 718-765 4-55 (465)
255 KOG1133 Helicase of the DEAD s 64.7 5 0.00011 48.4 3.0 32 410-446 306-337 (821)
256 KOG4275 Predicted E3 ubiquitin 64.2 1.9 4E-05 46.5 -0.6 41 718-765 300-341 (350)
257 KOG2979 Protein involved in DN 63.4 16 0.00034 39.2 6.1 48 717-764 175-224 (262)
258 KOG0344 ATP-dependent RNA heli 62.9 7.6 0.00016 46.1 4.0 61 386-446 211-276 (593)
259 PRK07003 DNA polymerase III su 62.8 22 0.00047 44.3 7.9 57 511-569 119-178 (830)
260 COG0553 HepA Superfamily II DN 61.9 4.1 9E-05 51.7 1.8 65 507-571 205-289 (866)
261 KOG0351 ATP-dependent DNA heli 61.7 14 0.0003 47.3 6.2 58 512-569 386-450 (941)
262 KOG0825 PHD Zn-finger protein 60.7 1.5 3.3E-05 52.7 -2.1 49 719-770 124-175 (1134)
263 COG1643 HrpA HrpA-like helicas 60.7 34 0.00075 43.3 9.4 20 299-318 68-87 (845)
264 PHA03368 DNA packaging termina 59.6 39 0.00084 41.5 9.1 19 507-525 348-366 (738)
265 PRK09694 helicase Cas3; Provis 58.7 29 0.00063 44.3 8.4 46 854-899 562-614 (878)
266 TIGR03420 DnaA_homol_Hda DnaA 57.8 58 0.0012 34.0 9.4 38 514-551 93-134 (226)
267 PHA03096 p28-like protein; Pro 57.2 4.3 9.3E-05 44.6 0.7 34 719-752 179-220 (284)
268 KOG0804 Cytoplasmic Zn-finger 57.0 4.5 9.8E-05 46.2 0.8 38 718-758 175-216 (493)
269 KOG2114 Vacuolar assembly/sort 56.1 8.8 0.00019 47.2 3.0 39 719-763 841-880 (933)
270 KOG0346 RNA helicase [RNA proc 55.9 17 0.00037 41.9 5.0 58 387-446 96-159 (569)
271 PRK04195 replication factor C 55.7 96 0.0021 36.9 11.8 22 297-318 40-61 (482)
272 KOG0344 ATP-dependent RNA heli 55.3 30 0.00066 41.2 7.1 66 805-901 371-437 (593)
273 KOG4185 Predicted E3 ubiquitin 55.0 6.9 0.00015 43.3 1.9 45 719-765 4-54 (296)
274 PF13245 AAA_19: Part of AAA d 53.6 27 0.00059 30.4 5.0 22 300-321 14-35 (76)
275 smart00744 RINGv The RING-vari 53.2 8.1 0.00017 30.8 1.5 39 720-758 1-47 (49)
276 KOG0950 DNA polymerase theta/e 52.4 40 0.00086 42.6 7.8 57 386-445 271-328 (1008)
277 KOG0924 mRNA splicing factor A 52.2 61 0.0013 39.6 8.9 20 299-318 374-393 (1042)
278 PHA03372 DNA packaging termina 52.1 45 0.00098 40.4 7.9 19 507-525 295-313 (668)
279 TIGR02880 cbbX_cfxQ probable R 51.9 31 0.00066 38.1 6.3 22 298-319 60-81 (284)
280 PRK05298 excinuclease ABC subu 51.3 64 0.0014 40.0 9.6 72 273-409 11-83 (652)
281 CHL00181 cbbX CbbX; Provisiona 50.5 38 0.00082 37.4 6.8 20 300-319 63-82 (287)
282 KOG0351 ATP-dependent DNA heli 50.1 20 0.00043 45.9 4.9 54 852-906 485-538 (941)
283 PRK01172 ski2-like helicase; P 50.0 36 0.00079 42.3 7.3 53 854-907 238-315 (674)
284 COG5236 Uncharacterized conser 49.9 6.7 0.00014 43.2 0.7 46 717-764 60-106 (493)
285 PF13177 DNA_pol3_delta2: DNA 49.9 2.2E+02 0.0047 28.5 11.6 22 300-321 23-44 (162)
286 KOG4367 Predicted Zn-finger pr 49.8 6.7 0.00014 44.3 0.7 33 718-750 4-36 (699)
287 cd00009 AAA The AAA+ (ATPases 49.7 1.3E+02 0.0028 27.9 9.6 41 512-552 85-132 (151)
288 TIGR00604 rad3 DNA repair heli 49.6 6.4 0.00014 49.2 0.6 44 274-320 10-53 (705)
289 COG0556 UvrB Helicase subunit 49.3 58 0.0013 38.7 8.0 26 385-410 58-84 (663)
290 KOG1645 RING-finger-containing 49.0 4.5 9.8E-05 45.7 -0.8 58 718-777 4-67 (463)
291 PRK14087 dnaA chromosomal repl 48.5 79 0.0017 37.3 9.4 37 512-548 207-247 (450)
292 PF13173 AAA_14: AAA domain 47.8 17 0.00037 34.7 3.1 36 513-552 63-101 (128)
293 TIGR02768 TraA_Ti Ti-type conj 47.7 1.3E+02 0.0028 38.0 11.5 40 273-318 351-390 (744)
294 COG4098 comFA Superfamily II D 46.5 50 0.0011 37.1 6.7 59 804-891 125-185 (441)
295 PRK00254 ski2-like helicase; P 46.0 43 0.00094 42.0 7.1 29 878-907 297-325 (720)
296 PRK12402 replication factor C 45.3 29 0.00063 38.7 5.0 22 298-319 38-59 (337)
297 PHA02544 44 clamp loader, smal 45.2 1.5E+02 0.0032 32.8 10.6 37 512-550 101-141 (316)
298 TIGR00604 rad3 DNA repair heli 43.8 63 0.0014 40.4 8.0 46 854-900 524-576 (705)
299 PRK09112 DNA polymerase III su 43.8 60 0.0013 37.0 7.2 45 275-320 25-69 (351)
300 KOG0949 Predicted helicase, DE 43.6 93 0.002 39.7 8.9 49 512-562 633-682 (1330)
301 KOG0920 ATP-dependent RNA heli 43.5 2.3E+02 0.0051 36.3 12.6 41 273-320 172-212 (924)
302 cd03418 GRX_GRXb_1_3_like Glut 42.7 91 0.002 26.2 6.6 47 854-900 1-48 (75)
303 KOG2817 Predicted E3 ubiquitin 42.6 12 0.00027 42.3 1.4 45 717-763 333-382 (394)
304 KOG3579 Predicted E3 ubiquitin 42.5 9.2 0.0002 41.2 0.4 33 719-751 269-305 (352)
305 PRK06526 transposase; Provisio 42.0 1E+02 0.0023 33.4 8.4 22 298-319 100-121 (254)
306 PRK12723 flagellar biosynthesi 41.8 1.4E+02 0.0029 34.7 9.7 57 511-567 254-315 (388)
307 TIGR00595 priA primosomal prot 41.6 1.1E+02 0.0024 36.6 9.4 69 803-900 5-74 (505)
308 COG0464 SpoVK ATPases of the A 41.4 40 0.00086 40.2 5.6 44 275-318 250-298 (494)
309 TIGR00362 DnaA chromosomal rep 41.2 96 0.0021 35.9 8.5 37 512-548 200-240 (405)
310 PRK14960 DNA polymerase III su 41.1 1.8E+02 0.0038 36.1 10.8 42 276-320 20-61 (702)
311 KOG0337 ATP-dependent RNA heli 40.9 37 0.00081 39.0 4.7 67 805-901 244-310 (529)
312 KOG0952 DNA/RNA helicase MER3/ 40.6 54 0.0012 41.9 6.4 57 382-444 971-1032(1230)
313 PRK07764 DNA polymerase III su 40.5 94 0.002 39.6 8.8 42 276-320 20-61 (824)
314 COG5175 MOT2 Transcriptional r 39.8 15 0.00032 40.6 1.3 50 718-769 14-67 (480)
315 KOG3002 Zn finger protein [Gen 39.7 18 0.00039 40.1 2.1 44 717-766 47-91 (299)
316 KOG3161 Predicted E3 ubiquitin 39.4 9 0.00019 45.6 -0.3 37 719-758 12-52 (861)
317 COG5219 Uncharacterized conser 39.3 15 0.00032 45.7 1.4 47 717-765 1468-1522(1525)
318 KOG0326 ATP-dependent RNA heli 39.2 1.2E+02 0.0025 34.0 7.9 55 387-445 156-216 (459)
319 PRK00149 dnaA chromosomal repl 39.1 1.1E+02 0.0023 36.2 8.6 21 299-319 151-171 (450)
320 PRK13889 conjugal transfer rel 38.8 1.9E+02 0.0042 37.6 11.2 49 512-562 434-483 (988)
321 PRK14952 DNA polymerase III su 37.2 1.4E+02 0.0031 36.4 9.3 21 300-320 39-59 (584)
322 KOG1941 Acetylcholine receptor 37.0 18 0.0004 40.7 1.6 48 716-765 363-415 (518)
323 cd01121 Sms Sms (bacterial rad 36.7 1.9E+02 0.0041 33.3 9.8 20 300-319 86-105 (372)
324 PRK05703 flhF flagellar biosyn 36.5 1.5E+02 0.0032 34.8 9.1 55 511-566 299-359 (424)
325 cd03028 GRX_PICOT_like Glutare 36.4 1E+02 0.0023 27.4 6.2 44 853-896 8-57 (90)
326 PF10367 Vps39_2: Vacuolar sor 36.0 20 0.00044 32.8 1.5 30 717-746 77-108 (109)
327 COG4646 DNA methylase [Transcr 35.9 19 0.00042 41.5 1.6 31 539-569 473-503 (637)
328 PRK08727 hypothetical protein; 35.6 2.4E+02 0.0052 29.9 9.9 37 512-548 94-134 (233)
329 TIGR00365 monothiol glutaredox 35.6 1.8E+02 0.0038 26.5 7.7 47 853-899 12-64 (97)
330 PF03354 Terminase_1: Phage Te 34.6 2.9E+02 0.0063 32.8 11.4 45 277-321 1-47 (477)
331 KOG0327 Translation initiation 33.0 74 0.0016 36.3 5.5 43 507-549 165-210 (397)
332 PRK14974 cell division protein 32.8 2.3E+02 0.0049 32.2 9.5 44 511-555 222-270 (336)
333 PHA00673 acetyltransferase dom 32.4 61 0.0013 32.5 4.3 45 511-555 87-134 (154)
334 PRK14086 dnaA chromosomal repl 32.3 1.8E+02 0.0039 35.7 9.0 37 512-548 378-418 (617)
335 cd05566 PTS_IIB_galactitol PTS 32.0 53 0.0012 29.1 3.5 56 386-443 2-59 (89)
336 KOG2034 Vacuolar sorting prote 32.0 46 0.00099 41.6 3.9 34 717-750 816-851 (911)
337 PF10272 Tmpp129: Putative tra 31.9 26 0.00056 39.8 1.8 30 736-765 311-350 (358)
338 PLN03025 replication factor C 31.8 52 0.0011 36.8 4.2 56 511-569 99-158 (319)
339 PRK05580 primosome assembly pr 30.6 1.9E+02 0.0042 36.1 9.2 69 804-901 171-240 (679)
340 PRK11889 flhF flagellar biosyn 29.5 2.5E+02 0.0054 32.8 9.0 56 511-566 320-379 (436)
341 PF11793 FANCL_C: FANCL C-term 29.4 16 0.00034 31.4 -0.4 47 719-767 3-67 (70)
342 cd05568 PTS_IIB_bgl_like PTS_I 29.3 76 0.0017 27.5 4.0 54 386-443 2-57 (85)
343 COG1702 PhoH Phosphate starvat 28.9 29 0.00062 39.1 1.4 40 513-554 245-284 (348)
344 COG4626 Phage terminase-like p 28.5 3.8E+02 0.0082 32.4 10.5 64 506-569 179-247 (546)
345 cd01524 RHOD_Pyr_redox Member 27.7 82 0.0018 27.7 4.0 35 853-887 52-86 (90)
346 cd00133 PTS_IIB PTS_IIB: subun 27.4 1.1E+02 0.0023 26.0 4.6 52 387-442 2-56 (84)
347 PRK14088 dnaA chromosomal repl 27.2 4E+02 0.0087 31.3 10.7 37 512-548 195-235 (440)
348 TIGR01547 phage_term_2 phage t 27.2 2.3E+02 0.0051 32.5 8.7 38 512-551 102-142 (396)
349 KOG0951 RNA helicase BRR2, DEA 26.9 2.8E+02 0.0062 36.6 9.5 56 384-444 1186-1246(1674)
350 COG5194 APC11 Component of SCF 26.2 42 0.00092 29.5 1.7 25 733-758 51-75 (88)
351 PRK12422 chromosomal replicati 25.6 2.7E+02 0.0059 32.8 8.9 37 512-548 203-243 (445)
352 PRK13826 Dtr system oriT relax 25.4 4E+02 0.0087 35.2 10.8 50 513-564 470-520 (1102)
353 COG1199 DinG Rad3-related DNA 25.2 1.6E+02 0.0035 36.3 7.3 47 854-903 481-528 (654)
354 KOG1493 Anaphase-promoting com 25.1 30 0.00065 30.1 0.6 31 732-764 47-79 (84)
355 cd05563 PTS_IIB_ascorbate PTS_ 25.0 1.4E+02 0.0031 26.1 5.0 51 387-441 2-54 (86)
356 PF00580 UvrD-helicase: UvrD/R 24.9 1.1E+02 0.0024 33.3 5.2 38 275-321 1-38 (315)
357 cd01523 RHOD_Lact_B Member of 24.6 96 0.0021 27.8 3.9 35 853-887 62-96 (100)
358 cd01520 RHOD_YbbB Member of th 24.0 1.4E+02 0.003 28.5 5.0 35 853-887 87-122 (128)
359 PF02302 PTS_IIB: PTS system, 22.8 1.2E+02 0.0025 26.8 4.0 51 387-443 2-58 (90)
360 COG0541 Ffh Signal recognition 22.5 1.3E+02 0.0028 35.2 5.1 22 300-321 104-125 (451)
361 KOG3970 Predicted E3 ubiquitin 22.2 1.4E+02 0.0031 31.3 4.8 46 718-765 50-104 (299)
362 CHL00095 clpC Clp protease ATP 21.7 2.1E+02 0.0047 36.5 7.5 22 298-319 202-223 (821)
363 PF05621 TniB: Bacterial TniB 21.4 59 0.0013 36.2 2.1 43 507-549 141-189 (302)
364 PRK11054 helD DNA helicase IV; 21.3 1.6E+02 0.0034 36.8 6.0 40 273-321 195-234 (684)
365 PTZ00062 glutaredoxin; Provisi 21.3 4.1E+02 0.0089 27.9 8.2 50 853-903 113-168 (204)
366 KOG0925 mRNA splicing factor A 21.1 75 0.0016 37.3 2.9 52 510-565 158-217 (699)
367 COG3813 Uncharacterized protei 20.2 59 0.0013 27.9 1.4 36 731-771 22-57 (84)
368 PRK10824 glutaredoxin-4; Provi 20.1 3.5E+02 0.0076 25.7 6.8 46 854-900 16-67 (115)
369 cd01521 RHOD_PspE2 Member of t 20.1 1.4E+02 0.0031 27.4 4.1 35 853-887 65-101 (110)
No 1
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=1.4e-82 Score=687.45 Aligned_cols=480 Identities=39% Similarity=0.627 Sum_probs=392.7
Q ss_pred ccCCCCCcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccC
Q 002565 263 EATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNL 342 (907)
Q Consensus 263 ~~~~P~~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~ 342 (907)
.+.+|.++ .++|+|||++||+|+..+|.+. ..|||||||||+|||||+|||++..
T Consensus 174 ~aeqP~dl-ii~LL~fQkE~l~Wl~~QE~Ss--~~GGiLADEMGMGKTIQtIaLllae---------------------- 228 (791)
T KOG1002|consen 174 RAEQPDDL-IIPLLPFQKEGLAWLTSQEESS--VAGGILADEMGMGKTIQTIALLLAE---------------------- 228 (791)
T ss_pred cccCcccc-eecchhhhHHHHHHHHHhhhhh--hccceehhhhccchHHHHHHHHHhc----------------------
Confidence 45667774 6899999999999999999865 4899999999999999999999742
Q ss_pred CCCCCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCC
Q 002565 343 DDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGS 422 (907)
Q Consensus 343 ~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~ 422 (907)
...++||||||...+.||.+||.+|..+ .++|++|||..
T Consensus 229 ---------------------------------------~~ra~tLVvaP~VAlmQW~nEI~~~T~g--slkv~~YhG~~ 267 (791)
T KOG1002|consen 229 ---------------------------------------VDRAPTLVVAPTVALMQWKNEIERHTSG--SLKVYIYHGAK 267 (791)
T ss_pred ---------------------------------------cccCCeeEEccHHHHHHHHHHHHHhccC--ceEEEEEeccc
Confidence 1124599999999999999999999874 89999999999
Q ss_pred CCCCccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCccc
Q 002565 423 RTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDY 502 (907)
Q Consensus 423 r~~~~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~ 502 (907)
|.++..++..||||+|||.++.+.++++. || | . || ...+.
T Consensus 268 R~~nikel~~YDvVLTty~vvEs~yRk~~--------------~G----f------------r------rK----ngv~k 307 (791)
T KOG1002|consen 268 RDKNIKELMNYDVVLTTYAVVESVYRKQD--------------YG----F------------R------RK----NGVDK 307 (791)
T ss_pred ccCCHHHhhcCcEEEEecHHHHHHHHhcc--------------cc----c------------c------cc----CCccc
Confidence 99999999999999999999998876521 11 0 0 00 12233
Q ss_pred CCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCch----------
Q 002565 503 GCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVY---------- 572 (907)
Q Consensus 503 ~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~---------- 572 (907)
..++|+.+.|.||||||||.||++.+.+++|+++|++.+||||||||+||++.|||+|++||+.+||..|
T Consensus 308 e~SlLHsi~~~RiIlDEAH~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRFL~i~Pfsyyfc~~cdc~~~ 387 (791)
T KOG1002|consen 308 EKSLLHSIKFYRIILDEAHNIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRFLNINPFSYYFCTKCDCASL 387 (791)
T ss_pred ccchhhhceeeeeehhhhcccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHHHccCcchhhhhhhcccccc
Confidence 4578999999999999999999999999999999999999999999999999999999999999988432
Q ss_pred ---------------------HHHHhHhccccccC-----chhhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEE
Q 002565 573 ---------------------KSFYSTIKIPISRN-----SLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISL 626 (907)
Q Consensus 573 ---------------------~~F~~~~~~pi~~~-----~~~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~ 626 (907)
-.|....-+||.+. +...+...+.+|..+|+||||-.-.+ -+.|||+++.+
T Consensus 388 ~~~ftdr~~c~~c~h~~m~h~~~~n~~mlk~IqkfG~eGpGk~af~~~h~llk~ImlrrTkl~RAd---DLgLPPRiv~v 464 (791)
T KOG1002|consen 388 DWKFTDRMHCDHCSHNIMQHTCFFNHFMLKPIQKFGVEGPGKEAFNNIHTLLKNIMLRRTKLERAD---DLGLPPRIVTV 464 (791)
T ss_pred ceeecccccCCcccchhhhhhhhhcccccccchhhcccCchHHHHHHHHHHHHHHHHHHhhccccc---ccCCCccceee
Confidence 12333344566553 23456678999999999999965433 26899999999
Q ss_pred EEeCCCHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhH
Q 002565 627 TKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDM 706 (907)
Q Consensus 627 v~v~lS~~Er~lY~~l~~~~~~~~~~~~~~g~~~~~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~ 706 (907)
..--|+.+|..+|+.+....+..|..|..+|.+..||++||.+|+||||++.||.|+..... ..++.+
T Consensus 465 RrD~fn~eE~D~YeSLY~dSkrkfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~~-----------~n~~~e- 532 (791)
T KOG1002|consen 465 RRDFFNEEEKDLYESLYKDSKRKFNTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSAN-----------ANLPDE- 532 (791)
T ss_pred ehhhhhhHHHHHHHHHHHhhHHhhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehhh-----------cCCCcc-
Confidence 99999999999999999999999999999999999999999999999999999999875211 111111
Q ss_pred HHHHHHhhhcccccccccCCCCCCccccccCcccchhhhhhhccC----CCCCCCCcccccccCccccccccccccccCC
Q 002565 707 LIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITG----DDNMCPAPRCKEQLGADVVFSKTTLKNCVSD 782 (907)
Q Consensus 707 ~~~ll~~le~~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~----~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d 782 (907)
..+..+|.+|.|+.++++++.|.|.||+.|+.+|+.+ ..-+|| .|...|..+...+... ...
T Consensus 533 --------nk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP--~C~i~LsiDlse~ale--k~~-- 598 (791)
T KOG1002|consen 533 --------NKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCP--VCHIGLSIDLSEPALE--KTD-- 598 (791)
T ss_pred --------ccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCc--cccccccccccchhhh--hcc--
Confidence 0245789999999999999999999999999998752 334788 5888887764322111 000
Q ss_pred CCCCCCCCCcccccCCCcCCCccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecch
Q 002565 783 DGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWT 862 (907)
Q Consensus 783 ~~~~~~~~~~~~~~~~~~~~~~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft 862 (907)
-..-..+ ..-..+.+..|..|+|+++|.+.|..+++.+. ..|.|||||||
T Consensus 599 --l~~Fk~s-SIlnRinm~~~qsSTKIEAL~EEl~~l~~rd~---------------------------t~KsIVFSQFT 648 (791)
T KOG1002|consen 599 --LKGFKAS-SILNRINMDDWQSSTKIEALVEELYFLRERDR---------------------------TAKSIVFSQFT 648 (791)
T ss_pred --hhhhhhH-HHhhhcchhhhcchhHHHHHHHHHHHHHHccc---------------------------chhhhhHHHHH
Confidence 0000000 01123445678899999999999998887665 56999999999
Q ss_pred hhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 863 RMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 863 ~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
+|||+|+..|.+.|+.++.|+|+|+.+.|++.|+.|.++++|+||
T Consensus 649 SmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~vf 693 (791)
T KOG1002|consen 649 SMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCRVF 693 (791)
T ss_pred HHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeEEE
Confidence 999999999999999999999999999999999999999999996
No 2
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=4.4e-69 Score=609.13 Aligned_cols=373 Identities=28% Similarity=0.469 Sum_probs=321.8
Q ss_pred CCCCcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCC
Q 002565 266 LPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDD 345 (907)
Q Consensus 266 ~P~~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (907)
.|..+....|++||.+||.||.++... +-+||||||||||||+|+|||+.+++..
T Consensus 159 sP~~v~~g~lr~YQveGlnWLi~l~en---gingILaDEMGLGKTlQtIs~l~yl~~~---------------------- 213 (971)
T KOG0385|consen 159 SPSYVKGGELRDYQLEGLNWLISLYEN---GINGILADEMGLGKTLQTISLLGYLKGR---------------------- 213 (971)
T ss_pred CchhhcCCccchhhhccHHHHHHHHhc---CcccEeehhcccchHHHHHHHHHHHHHh----------------------
Confidence 576665589999999999999998764 4569999999999999999999987653
Q ss_pred CCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCC
Q 002565 346 DDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTK 425 (907)
Q Consensus 346 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~ 425 (907)
++..+|.||+||.|++.||.+||.+|+| .+++++|+|....+
T Consensus 214 -----------------------------------~~~~GPfLVi~P~StL~NW~~Ef~rf~P---~l~~~~~~Gdk~eR 255 (971)
T KOG0385|consen 214 -----------------------------------KGIPGPFLVIAPKSTLDNWMNEFKRFTP---SLNVVVYHGDKEER 255 (971)
T ss_pred -----------------------------------cCCCCCeEEEeeHhhHHHHHHHHHHhCC---CcceEEEeCCHHHH
Confidence 1345789999999999999999999999 79999999998544
Q ss_pred C-----ccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCc
Q 002565 426 D-----PVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSI 500 (907)
Q Consensus 426 ~-----~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~ 500 (907)
. ...-..+||+||||+++-++-
T Consensus 256 ~~~~r~~~~~~~fdV~iTsYEi~i~dk----------------------------------------------------- 282 (971)
T KOG0385|consen 256 AALRRDIMLPGRFDVCITSYEIAIKDK----------------------------------------------------- 282 (971)
T ss_pred HHHHHHhhccCCCceEeehHHHHHhhH-----------------------------------------------------
Confidence 2 222358999999999997641
Q ss_pred ccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHhc
Q 002565 501 DYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIK 580 (907)
Q Consensus 501 d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~~ 580 (907)
+.|..+.|.++||||||+|||.++..++.++.+.+.+|++|||||+||++.|||+||+||.|+.|++...|...|.
T Consensus 283 ----~~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~ 358 (971)
T KOG0385|consen 283 ----SFLKKFNWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFD 358 (971)
T ss_pred ----HHHhcCCceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHc
Confidence 3478899999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cccccCchhhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHhcCCcc
Q 002565 581 IPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVN 660 (907)
Q Consensus 581 ~pi~~~~~~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~~~g~~~ 660 (907)
.....+....+.+|+.+|+||+|||.|.+|.. .||||.+..++|.||..|++.|..++..-...+. ..+.
T Consensus 359 ~~~~~~~~e~v~~Lh~vL~pFlLRR~K~dVe~-----sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~n---~~~~-- 428 (971)
T KOG0385|consen 359 FTNCEGDQELVSRLHKVLRPFLLRRIKSDVEK-----SLPPKKELIIYVGMSSMQKKWYKAILMKDLDALN---GEGK-- 428 (971)
T ss_pred ccccccCHHHHHHHHhhhhHHHHHHHHHhHhh-----cCCCcceeeEeccchHHHHHHHHHHHHhcchhhc---cccc--
Confidence 87777777788999999999999999999986 7999999999999999999999998765444332 2222
Q ss_pred ccHHHHHHHHHHHHHhcCCcccccccccc-ccccchHHHhhcCChhHHHHHHHhhhcccccccccCCCCCCccccccCcc
Q 002565 661 QNYANILLMLLRLRQACDHPLLVKEYDFD-SVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHV 739 (907)
Q Consensus 661 ~~~~~iL~~L~rLRqic~hP~L~~~~~~~-~~~~~~~e~~~~l~~e~~~~ll~~le~~~~~C~iC~d~~e~pvit~C~H~ 739 (907)
.....+++.++.||++|+||+|+...+.. ....
T Consensus 429 ~~k~kL~NI~mQLRKccnHPYLF~g~ePg~pytt---------------------------------------------- 462 (971)
T KOG0385|consen 429 GEKTKLQNIMMQLRKCCNHPYLFDGAEPGPPYTT---------------------------------------------- 462 (971)
T ss_pred chhhHHHHHHHHHHHhcCCccccCCCCCCCCCCc----------------------------------------------
Confidence 14577888999999999999999873221 0000
Q ss_pred cchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCcccccCCCcCCCccchhHHHHHHHHHHh
Q 002565 740 FCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQ 819 (907)
Q Consensus 740 fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~SsKi~aLlelL~~~ 819 (907)
...-...|+|+..|..+|..+
T Consensus 463 -----------------------------------------------------------dehLv~nSGKm~vLDkLL~~L 483 (971)
T KOG0385|consen 463 -----------------------------------------------------------DEHLVTNSGKMLVLDKLLPKL 483 (971)
T ss_pred -----------------------------------------------------------chHHHhcCcceehHHHHHHHH
Confidence 000123689999999999999
Q ss_pred hhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhc
Q 002565 820 CELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFN 899 (907)
Q Consensus 820 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~ 899 (907)
.+.|+ ||||||||+.|||+|+.++.-+|+.|+||||+|+.++|.++|+.|+
T Consensus 484 k~~Gh-----------------------------RVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn 534 (971)
T KOG0385|consen 484 KEQGH-----------------------------RVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFN 534 (971)
T ss_pred HhCCC-----------------------------eEEEeHHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhcC
Confidence 99887 9999999999999999999999999999999999999999999999
Q ss_pred CCC
Q 002565 900 TDR 902 (907)
Q Consensus 900 ~dp 902 (907)
.++
T Consensus 535 ~~~ 537 (971)
T KOG0385|consen 535 APP 537 (971)
T ss_pred CCC
Confidence 877
No 3
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=3.1e-68 Score=605.73 Aligned_cols=380 Identities=28% Similarity=0.464 Sum_probs=319.2
Q ss_pred ccCCCCCcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccC
Q 002565 263 EATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNL 342 (907)
Q Consensus 263 ~~~~P~~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~ 342 (907)
.+.+|..+ ...|++||++||.|||+.... ..|||||||||||||||+|+|+..+...
T Consensus 195 ~~~vPg~I-~~~Lf~yQreGV~WL~~L~~q---~~GGILgDeMGLGKTIQiisFLaaL~~S------------------- 251 (923)
T KOG0387|consen 195 GFKVPGFI-WSKLFPYQREGVQWLWELYCQ---RAGGILGDEMGLGKTIQIISFLAALHHS------------------- 251 (923)
T ss_pred cccccHHH-HHHhhHHHHHHHHHHHHHHhc---cCCCeecccccCccchhHHHHHHHHhhc-------------------
Confidence 35677664 567999999999999998874 4799999999999999999999865421
Q ss_pred CCCCCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCC
Q 002565 343 DDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGS 422 (907)
Q Consensus 343 ~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~ 422 (907)
....+|+|||||++++.||.+||.+|+| .++|.+|||..
T Consensus 252 --------------------------------------~k~~~paLIVCP~Tii~qW~~E~~~w~p---~~rv~ilh~t~ 290 (923)
T KOG0387|consen 252 --------------------------------------GKLTKPALIVCPATIIHQWMKEFQTWWP---PFRVFILHGTG 290 (923)
T ss_pred --------------------------------------ccccCceEEEccHHHHHHHHHHHHHhCc---ceEEEEEecCC
Confidence 0224779999999999999999999999 69999999987
Q ss_pred CCC---------------CccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhcccccccc
Q 002565 423 RTK---------------DPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKR 487 (907)
Q Consensus 423 r~~---------------~~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk 487 (907)
... .........|+||||+.++..-
T Consensus 291 s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~~---------------------------------------- 330 (923)
T KOG0387|consen 291 SGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQG---------------------------------------- 330 (923)
T ss_pred cccccccchhhhhhhhhheeeecccCcEEEEehhhhcccC----------------------------------------
Confidence 631 1122346679999999987531
Q ss_pred ccCCCCCCCCCCcccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccC
Q 002565 488 GKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYD 567 (907)
Q Consensus 488 ~~~~~k~~~~~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~ 567 (907)
.++..+.|++|||||+|+|||++|+++.+|+.|++.+|++||||||||++.|||+||+|+.|+
T Consensus 331 -----------------d~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG 393 (923)
T KOG0387|consen 331 -----------------DDLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPG 393 (923)
T ss_pred -----------------cccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCccccchHHHHHHHhhhccCC
Confidence 247789999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCchHHHHhHhccccccCch------------hhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHH
Q 002565 568 PYAVYKSFYSTIKIPISRNSL------------HGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEE 635 (907)
Q Consensus 568 ~~~~~~~F~~~~~~pi~~~~~------------~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~E 635 (907)
.+++...|.+.|..||..++. .....|+.++.|++|||+|.+|.. +.||.|.++++.|.||+.|
T Consensus 394 ~Lgt~~~F~~~f~~pI~~GgyaNAs~~qv~~aykca~~Lr~lI~PylLRR~K~dv~~----~~Lp~K~E~VlfC~LT~~Q 469 (923)
T KOG0387|consen 394 KLGTLPVFQQNFEHPINRGGYANASPRQVQTAYKCAVALRDLISPYLLRRMKSDVKG----LKLPKKEEIVLFCRLTKLQ 469 (923)
T ss_pred cccchHHHHhhhhhheeccccCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhh----ccCCCccceEEEEeccHHH
Confidence 999999999999999988743 223469999999999999999975 5899999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhHHHHHHHhhh
Q 002565 636 WAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLE 715 (907)
Q Consensus 636 r~lY~~l~~~~~~~~~~~~~~g~~~~~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~~~ll~~le 715 (907)
|.+|+++.+... +..... | ..++|..+.-||++||||.|+.........
T Consensus 470 R~~Y~~fl~s~~--v~~i~n-g-----~~~~l~Gi~iLrkICnHPdll~~~~~~~~~----------------------- 518 (923)
T KOG0387|consen 470 RRLYQRFLNSSE--VNKILN-G-----KRNCLSGIDILRKICNHPDLLDRRDEDEKQ----------------------- 518 (923)
T ss_pred HHHHHHHhhhHH--HHHHHc-C-----CccceechHHHHhhcCCcccccCccccccc-----------------------
Confidence 999999876432 222221 2 245678889999999999998762110000
Q ss_pred cccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCcccc
Q 002565 716 TSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFAD 795 (907)
Q Consensus 716 ~~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~ 795 (907)
+ | +
T Consensus 519 -----------------------------------~-----~-------------------------------------D 521 (923)
T KOG0387|consen 519 -----------------------------------G-----P-------------------------------------D 521 (923)
T ss_pred -----------------------------------C-----C-------------------------------------C
Confidence 0 0 0
Q ss_pred cCCCcCCCccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHH-h
Q 002565 796 KSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLN-Q 874 (907)
Q Consensus 796 ~~~~~~~~~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~-~ 874 (907)
....+..|+||+++..+|..|.+.++ |||+|||...|||+||..|. .
T Consensus 522 ---~~g~~k~sGKm~vl~~ll~~W~kqg~-----------------------------rvllFsqs~~mLdilE~fL~~~ 569 (923)
T KOG0387|consen 522 ---YEGDPKRSGKMKVLAKLLKDWKKQGD-----------------------------RVLLFSQSRQMLDILESFLRRA 569 (923)
T ss_pred ---cCCChhhcchHHHHHHHHHHHhhCCC-----------------------------EEEEehhHHHHHHHHHHHHHhc
Confidence 00233479999999999999999887 99999999999999999999 6
Q ss_pred CCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 875 HCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 875 ~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
.||.|+|+||+++.+.|+.+|++||+++.+.||
T Consensus 570 ~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VF 602 (923)
T KOG0387|consen 570 KGYSYLRMDGTTPAALRQKLVDRFNEDESIFVF 602 (923)
T ss_pred CCceEEEecCCCccchhhHHHHhhcCCCceEEE
Confidence 899999999999999999999999999999886
No 4
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=4.9e-67 Score=587.62 Aligned_cols=503 Identities=35% Similarity=0.587 Sum_probs=360.3
Q ss_pred ccccCCCCccCCCCccccc-c----CCCCcccccCCCchhhccCCchHHHHHHHHh-------hcCCCCcccCCCCCccc
Q 002565 205 GNRILPSSLMHGKSVSMTQ-F----GGPSDLAYRSGSADERAVGGDERLIYQAALE-------DLNQPKVEATLPDGLLS 272 (907)
Q Consensus 205 ~~~~~p~~~~~~~~~~~~~-~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~l~~~~~~~~~P~~~l~ 272 (907)
|.-+.|++++...+....+ | .+-.-..|+.....+.... -..++.+.++ .+..+..-.+-|.+ ++
T Consensus 247 ~~~~~p~~~pk~~~~~~~~d~~~~~~~~~kk~~tg~~t~e~~~~--v~~~~~r~~~ql~~~~e~~P~et~lte~P~g-~~ 323 (901)
T KOG4439|consen 247 STLIPPPPLPKNLSMPIPQDFAAMLRNEKKKVYTGKMTQEKFNN--VNKIFDRLTQQLADATETIPGETDLTETPDG-LK 323 (901)
T ss_pred ccccCCCCCCCCcCCCCCHHHHHHHhcCCcccccccccHHHHHh--HHHHHHHHHHHHHHHhhcCCCcccccCCCCc-ce
Confidence 3556666666655554433 1 1233345554333331111 1123333333 33333333445666 58
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
+.|+|||+.|++||..+|.. .+.|||||||||||||+++|++|+..+....... .
T Consensus 324 v~LmpHQkaal~Wl~wRE~q--~~~GGILaddmGLGKTlsmislil~qK~~~~~~~----------------~------- 378 (901)
T KOG4439|consen 324 VELMPHQKAALRWLLWRESQ--PPSGGILADDMGLGKTLSMISLILHQKAARKARE----------------K------- 378 (901)
T ss_pred eecchhhhhhhhhhcccccC--CCCCcccccccccccchHHHHHHHHHHHHHHhhc----------------c-------
Confidence 99999999999999999986 4689999999999999999999997654311000 0
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCC-CCCCccccC
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGS-RTKDPVELA 431 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~-r~~~~~~l~ 431 (907)
....+.+||||||+||+.||..|+.+.+... .|+|++|||.+ |.-....+.
T Consensus 379 ---------------------------~~~~a~~TLII~PaSli~qW~~Ev~~rl~~n-~LsV~~~HG~n~r~i~~~~L~ 430 (901)
T KOG4439|consen 379 ---------------------------KGESASKTLIICPASLIHQWEAEVARRLEQN-ALSVYLYHGPNKREISAKELR 430 (901)
T ss_pred ---------------------------cccccCCeEEeCcHHHHHHHHHHHHHHHhhc-ceEEEEecCCccccCCHHHHh
Confidence 0011224999999999999999999998755 89999999999 667788999
Q ss_pred CCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCccccc
Q 002565 432 KYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVG 511 (907)
Q Consensus 432 ~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~~ 511 (907)
+||||||||..+.+.. +++.+ .....+||..+.
T Consensus 431 ~YDvViTTY~lva~~~-------~~e~~----------------------------------------~~~~~spL~~I~ 463 (901)
T KOG4439|consen 431 KYDVVITTYNLVANKP-------DDELE----------------------------------------EGKNSSPLARIA 463 (901)
T ss_pred hcceEEEeeeccccCC-------chhhh----------------------------------------cccCccHHHHhh
Confidence 9999999999987621 01000 011457899999
Q ss_pred ccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHhccccccCchhhH
Q 002565 512 WFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLHGY 591 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~~~pi~~~~~~~~ 591 (907)
|.||||||||.|||++|+.+.|+|.|++..|||||||||||++.|+|+|++||+..+|++...|.+.+..+- ..+.
T Consensus 464 W~RVILDEAH~IrN~~tq~S~AVC~L~a~~RWclTGTPiqNn~~DvysLlrFLr~~pF~D~~~Wke~i~~~s----~~g~ 539 (901)
T KOG4439|consen 464 WSRVILDEAHNIRNSNTQCSKAVCKLSAKSRWCLTGTPIQNNLWDVYSLLRFLRCPPFGDLKQWKENIDNMS----KGGA 539 (901)
T ss_pred HHHhhhhhhhhhcccchhHHHHHHHHhhcceeecccCccccchhHHHHHHHHhcCCCcchHHHHHHhccCcc----ccch
Confidence 999999999999999999999999999999999999999999999999999999999999999999875432 2334
Q ss_pred HHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHhc---------------
Q 002565 592 KKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADA--------------- 656 (907)
Q Consensus 592 ~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~~~--------------- 656 (907)
.+|.-+.++.||||||.++-.++++..||.+...++.++|+..|...|+-+.+..+..++.+...
T Consensus 540 ~rlnll~K~LmLRRTKdQl~a~~klv~Lp~k~i~l~~leLs~~E~~vY~i~~~askk~~kq~L~~~e~~~~~~~~~s~~~ 619 (901)
T KOG4439|consen 540 NRLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEASKKLFKQFLLQREDRNNDGGYQSRNR 619 (901)
T ss_pred hhhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHHHHHHHHHHHhhhhhccccCccccch
Confidence 57777889999999999987788899999999999999999999999999998888777654321
Q ss_pred ---------------------CCccccHHHHHHHHHHHHHhcCCccccccccc-ccc--ccchHHHhhcCChhHHHHHHH
Q 002565 657 ---------------------GTVNQNYANILLMLLRLRQACDHPLLVKEYDF-DSV--GKISGEMAKRLPRDMLIDLLS 712 (907)
Q Consensus 657 ---------------------g~~~~~~~~iL~~L~rLRqic~hP~L~~~~~~-~~~--~~~~~e~~~~l~~e~~~~ll~ 712 (907)
|...+....||.+|+||||+||||.+++.... +.. ..+..+..+++..+. +.
T Consensus 620 ~~~~~~e~~~~~~~~pR~~aagsn~~~~s~IL~LLlrLRQ~ccH~~~~k~~ld~~~~~~~g~~~sde~~~e~~~----l~ 695 (901)
T KOG4439|consen 620 FIGGHDEFGNYYNIGPRFLAAGSNFEIMSHILVLLLRLRQACCHFGLLKAALDPEEFQMNGGDDSDEEQLEEDN----LA 695 (901)
T ss_pred hccccccccccccccchhhhcCCchhhHHHHHHHHHHHHHHhcCcchhccccCHHHhhhcCcchhhhhhhhhhH----HH
Confidence 11112345689999999999999977765321 110 001111111111111 11
Q ss_pred hhhcccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCc
Q 002565 713 RLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSP 792 (907)
Q Consensus 713 ~le~~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~ 792 (907)
.++... .|.|..- .|. ..+. .
T Consensus 696 el~k~~--------------~T~~~~D--------------------~~e-----------------------d~p~--~ 716 (901)
T KOG4439|consen 696 ELEKND--------------ETDCSDD--------------------NCE-----------------------DLPT--A 716 (901)
T ss_pred hhhhcc--------------ccccccc--------------------ccc-----------------------cccc--c
Confidence 111100 0111000 000 0000 0
Q ss_pred ccccCCCcCCCccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHH
Q 002565 793 FADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSL 872 (907)
Q Consensus 793 ~~~~~~~~~~~~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L 872 (907)
+. ...++..+.|.|+..++++|+.+.. .. .+|+||.|||+++|++++..|
T Consensus 717 ~~--~q~Fe~~r~S~Ki~~~l~~le~i~~-~s---------------------------keK~viVSQwtsvLniv~~hi 766 (901)
T KOG4439|consen 717 FP--DQAFEPDRPSCKIAMVLEILETILT-SS---------------------------KEKVVIVSQWTSVLNIVRKHI 766 (901)
T ss_pred ch--hhhcccccchhHHHHHHHHHHHHhh-cc---------------------------cceeeehhHHHHHHHHHHHHH
Confidence 00 0123445689999999999998832 22 359999999999999999999
Q ss_pred HhCCCeEEEEEccCCHHHHHHHHHHhcCCCC-cccC
Q 002565 873 NQHCIQYRRLDGTMSLPARDRAVKDFNTDRE-VCSL 907 (907)
Q Consensus 873 ~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~-v~VL 907 (907)
++.|+.|..++|.+..++|+.+|++||...+ .+||
T Consensus 767 ~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVm 802 (901)
T KOG4439|consen 767 QKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVM 802 (901)
T ss_pred hhCCeeeeeecCccchhHHHHHHHHHHhccCCceEE
Confidence 9999999999999999999999999997665 7764
No 5
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=5e-67 Score=594.88 Aligned_cols=411 Identities=28% Similarity=0.448 Sum_probs=317.4
Q ss_pred cccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCc
Q 002565 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNA 351 (907)
Q Consensus 272 ~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (907)
.++|++||+.||.||.-..... ..||||||||||||+|+|||+.+++..
T Consensus 397 ~i~LkdYQlvGvNWL~Llyk~~---l~gILADEMGLGKTiQvIaFlayLkq~---------------------------- 445 (941)
T KOG0389|consen 397 GIQLKDYQLVGVNWLLLLYKKK---LNGILADEMGLGKTIQVIAFLAYLKQI---------------------------- 445 (941)
T ss_pred CCcccchhhhhHHHHHHHHHcc---ccceehhhccCcchhHHHHHHHHHHHc----------------------------
Confidence 3679999999999999877754 357999999999999999999988654
Q ss_pred CcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCC-----
Q 002565 352 GLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKD----- 426 (907)
Q Consensus 352 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~----- 426 (907)
+..+|.|||||+|++.||.+||.+||| .|+|..|||+...+.
T Consensus 446 ------------------------------g~~gpHLVVvPsSTleNWlrEf~kwCP---sl~Ve~YyGSq~ER~~lR~~ 492 (941)
T KOG0389|consen 446 ------------------------------GNPGPHLVVVPSSTLENWLREFAKWCP---SLKVEPYYGSQDERRELRER 492 (941)
T ss_pred ------------------------------CCCCCcEEEecchhHHHHHHHHHHhCC---ceEEEeccCcHHHHHHHHHH
Confidence 335779999999999999999999999 799999999974331
Q ss_pred -ccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCC
Q 002565 427 -PVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCG 505 (907)
Q Consensus 427 -~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~ 505 (907)
...-..|||+||||..+...- .+.+
T Consensus 493 i~~~~~~ydVllTTY~la~~~k------------------------------------------------------dDRs 518 (941)
T KOG0389|consen 493 IKKNKDDYDVLLTTYNLAASSK------------------------------------------------------DDRS 518 (941)
T ss_pred HhccCCCccEEEEEeecccCCh------------------------------------------------------HHHH
Confidence 112248999999999887521 0223
Q ss_pred CcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCc-hHHHHhHhccccc
Q 002565 506 PLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAV-YKSFYSTIKIPIS 584 (907)
Q Consensus 506 ~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~-~~~F~~~~~~pi~ 584 (907)
.|....|++||.||||++||..|.+++.+..++|.+|++|||||+||++.||+|||.|+.|+.|.+ ...+...|..--.
T Consensus 519 flk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~~ 598 (941)
T KOG0389|consen 519 FLKNQKFNYVIYDEGHMLKNRTSERYKHLMSINANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKKT 598 (941)
T ss_pred HHHhccccEEEecchhhhhccchHHHHHhccccccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccCC
Confidence 477889999999999999999999999999999999999999999999999999999999999865 3445544432111
Q ss_pred -cC-------chhhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHhc
Q 002565 585 -RN-------SLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADA 656 (907)
Q Consensus 585 -~~-------~~~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~~~ 656 (907)
.+ ..+++.+...++.||+|||.|++|++ .||||+.++.+|+|++.|+.+|+.+.+........
T Consensus 599 ~d~d~e~~~l~qerIsrAK~im~PFILRR~K~qVL~-----~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~---- 669 (941)
T KOG0389|consen 599 SDGDIENALLSQERISRAKTIMKPFILRRLKSQVLK-----QLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNE---- 669 (941)
T ss_pred ccchhhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-----hcCCccceeEeeecchHHHHHHHHHHHHHhhhccc----
Confidence 11 13456788999999999999999997 89999999999999999999999998876332221
Q ss_pred CCcccc--HHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhHH------HHHHHhhhcccccccccCCCC
Q 002565 657 GTVNQN--YANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDML------IDLLSRLETSSAICCVCSDPP 728 (907)
Q Consensus 657 g~~~~~--~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~------~~ll~~le~~~~~C~iC~d~~ 728 (907)
+..+ ... -..+|+||++++||.|+...+.+.. ...+++.+.+|.. ..+.+.++.
T Consensus 670 --~~~ns~~~~-~~vlmqlRK~AnHPLL~R~~Y~de~---L~~mak~il~e~ay~~~n~qyIfEDm~~------------ 731 (941)
T KOG0389|consen 670 --VSKNSELKS-GNVLMQLRKAANHPLLFRSIYTDEK---LRKMAKRILNEPAYKKANEQYIFEDMEV------------ 731 (941)
T ss_pred --ccccccccc-chHHHHHHHHhcChhHHHHhccHHH---HHHHHHHHhCchhhhhcCHHHHHHHHHh------------
Confidence 1111 111 3468999999999999988765432 1223332221110 000111100
Q ss_pred CCccccccCcccchh--hhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCcccccCCCcCCCccc
Q 002565 729 EDSVVTMCGHVFCYQ--CASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYIS 806 (907)
Q Consensus 729 e~pvit~C~H~fC~~--Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~S 806 (907)
.-..-.|..|.. |+..+ ......|..|
T Consensus 732 ---msDfelHqLc~~f~~~~~f------------------------------------------------~L~d~~~mdS 760 (941)
T KOG0389|consen 732 ---MSDFELHQLCCQFRHLSKF------------------------------------------------QLKDDLWMDS 760 (941)
T ss_pred ---hhHHHHHHHHHhcCCCccc------------------------------------------------ccCCchhhhh
Confidence 000123444321 22211 1122356689
Q ss_pred hhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEccC
Q 002565 807 SKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTM 886 (907)
Q Consensus 807 sKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsm 886 (907)
+|++.|-.+|..+.+.|+ |||||||||.|||+||..|...|+.|+||||+|
T Consensus 761 gK~r~L~~LLp~~k~~G~-----------------------------RVLiFSQFTqmLDILE~~L~~l~~~ylRLDGsT 811 (941)
T KOG0389|consen 761 GKCRKLKELLPKIKKKGD-----------------------------RVLIFSQFTQMLDILEVVLDTLGYKYLRLDGST 811 (941)
T ss_pred hhHhHHHHHHHHHhhcCC-----------------------------EEEEeeHHHHHHHHHHHHHHhcCceEEeecCCc
Confidence 999999999999999887 999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHhcCCCCcccC
Q 002565 887 SLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 887 s~~~R~~~I~~F~~dp~v~VL 907 (907)
....|+.+|++|++|.+|.||
T Consensus 812 qV~~RQ~lId~Fn~d~difVF 832 (941)
T KOG0389|consen 812 QVNDRQDLIDEFNTDKDIFVF 832 (941)
T ss_pred cchHHHHHHHhhccCCceEEE
Confidence 999999999999999999886
No 6
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=8.6e-67 Score=611.30 Aligned_cols=428 Identities=30% Similarity=0.454 Sum_probs=335.9
Q ss_pred HHHHHhhcCCC-Cc-ccCCCCCcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccc
Q 002565 250 YQAALEDLNQP-KV-EATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKS 327 (907)
Q Consensus 250 ~~~~~~~l~~~-~~-~~~~P~~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~ 327 (907)
+...++.+..+ +. +..+|..+ +..||.||.+||.|+....+-.+| ||||||||||||+|+|+.++.....+
T Consensus 950 erkFLeqlldpski~~y~Ip~pI-~a~LRkYQqEGVnWLaFLnky~LH---GILcDDMGLGKTLQticilAsd~y~r--- 1022 (1549)
T KOG0392|consen 950 ERKFLEQLLDPSKIPEYKIPVPI-SAKLRKYQQEGVNWLAFLNKYKLH---GILCDDMGLGKTLQTICILASDHYKR--- 1022 (1549)
T ss_pred HHHHHHHhcCcccCCccccccch-hHHHHHHHHhccHHHHHHHHhccc---ceeeccccccHHHHHHHHHHHHHHhh---
Confidence 44555555443 33 46777774 789999999999999887765555 89999999999999999997643321
Q ss_pred hhhhccccccccccCCCCCCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhC
Q 002565 328 KTEVLGNQKTEALNLDDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKV 407 (907)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~ 407 (907)
.+.+.+ -...|.|||||.+|..+|+.|+.+++
T Consensus 1023 --------------------------------------------~s~~~e----~~~~PSLIVCPsTLtGHW~~E~~kf~ 1054 (1549)
T KOG0392|consen 1023 --------------------------------------------RSESSE----FNRLPSLIVCPSTLTGHWKSEVKKFF 1054 (1549)
T ss_pred --------------------------------------------cccchh----hccCCeEEECCchhhhHHHHHHHHhc
Confidence 000011 12346899999999999999999999
Q ss_pred CCCCCeEEEEEeCCCCC--CCccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhcccccc
Q 002565 408 PDKAALSVLIYHGGSRT--KDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVS 485 (907)
Q Consensus 408 ~~~~~l~V~v~~G~~r~--~~~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~ 485 (907)
| .|+|+.|-|+... +.+....+++|+||+|+++++++..
T Consensus 1055 p---fL~v~~yvg~p~~r~~lR~q~~~~~iiVtSYDv~RnD~d~------------------------------------ 1095 (1549)
T KOG0392|consen 1055 P---FLKVLQYVGPPAERRELRDQYKNANIIVTSYDVVRNDVDY------------------------------------ 1095 (1549)
T ss_pred c---hhhhhhhcCChHHHHHHHhhccccceEEeeHHHHHHHHHH------------------------------------
Confidence 8 6999999998744 4566788899999999999987532
Q ss_pred ccccCCCCCCCCCCcccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhc
Q 002565 486 KRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLK 565 (907)
Q Consensus 486 kk~~~~~k~~~~~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~ 565 (907)
|.++.|.++||||+|-|||.+++.++|++.|++.+|++||||||||++.||||||+||+
T Consensus 1096 ---------------------l~~~~wNYcVLDEGHVikN~ktkl~kavkqL~a~hRLILSGTPIQNnvleLWSLFdFLM 1154 (1549)
T KOG0392|consen 1096 ---------------------LIKIDWNYCVLDEGHVIKNSKTKLTKAVKQLRANHRLILSGTPIQNNVLELWSLFDFLM 1154 (1549)
T ss_pred ---------------------HHhcccceEEecCcceecchHHHHHHHHHHHhhcceEEeeCCCcccCHHHHHHHHHHhc
Confidence 77889999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCchHHHHhHhccccccC------------chhhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCH
Q 002565 566 YDPYAVYKSFYSTIKIPISRN------------SLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSK 633 (907)
Q Consensus 566 p~~~~~~~~F~~~~~~pi~~~------------~~~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~ 633 (907)
|+++|+.+.|.++|.+||-.. +.-+++.|++.+-|||+||+|+||+. +||||+++..+|+|++
T Consensus 1155 PGfLGtEKqFqsrf~kpI~asRd~K~Sske~EaG~lAleaLHKqVLPF~LRRlKedVL~-----DLPpKIIQDyyCeLs~ 1229 (1549)
T KOG0392|consen 1155 PGFLGTEKQFQSRFGKPILASRDPKSSSKEQEAGVLALEALHKQVLPFLLRRLKEDVLK-----DLPPKIIQDYYCELSP 1229 (1549)
T ss_pred ccccCcHHHHHHHhcchhhhhcCcccchhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHh-----hCChhhhhheeeccCH
Confidence 999999999999999998542 12346789999999999999999997 8999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCcccc--HHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhHHHHHH
Q 002565 634 EEWAFYKKLESDSLKKFKAFADAGTVNQN--YANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLL 711 (907)
Q Consensus 634 ~Er~lY~~l~~~~~~~~~~~~~~g~~~~~--~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~~~ll 711 (907)
.|+++|+.+....+.........+..... ..++|.+|..||+.|+||.|+....... +..
T Consensus 1230 lQ~kLY~df~~~~k~~~~~~~d~~~~S~gt~~~HvFqaLqYlrKLcnHpaLvlt~~hp~----------------la~-- 1291 (1549)
T KOG0392|consen 1230 LQKKLYRDFVKKAKQCVSSQIDGGEESLGTDKTHVFQALQYLRKLCNHPALVLTPVHPD----------------LAA-- 1291 (1549)
T ss_pred HHHHHHHHHHHHhccccccccccchhccCcchHHHHHHHHHHHHhcCCcceeeCCCcch----------------HHH--
Confidence 99999999988755444333333333333 7899999999999999999987621100 000
Q ss_pred HhhhcccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCC
Q 002565 712 SRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDS 791 (907)
Q Consensus 712 ~~le~~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~ 791 (907)
++..|+|.-
T Consensus 1292 --------------------i~~~l~~~~--------------------------------------------------- 1300 (1549)
T KOG0392|consen 1292 --------------------IVSHLAHFN--------------------------------------------------- 1300 (1549)
T ss_pred --------------------HHHHHHHhh---------------------------------------------------
Confidence 011111100
Q ss_pred cccccCCCcCCCccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHH
Q 002565 792 PFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENS 871 (907)
Q Consensus 792 ~~~~~~~~~~~~~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~ 871 (907)
........+.|+.||-++|.++.-... +..+ .-.......+|||||+||.+|||+++.-
T Consensus 1301 ------~~LHdi~hspKl~AL~qLL~eCGig~~--~~~~-------------~g~~s~vsqHRiLIFcQlK~mlDlVekD 1359 (1549)
T KOG0392|consen 1301 ------SSLHDIQHSPKLSALKQLLSECGIGNN--SDSE-------------VGTPSDVSQHRILIFCQLKSMLDLVEKD 1359 (1549)
T ss_pred ------hhHHHhhhchhHHHHHHHHHHhCCCCC--Cccc-------------ccCcchhccceeEEeeeHHHHHHHHHHH
Confidence 001122468999999999988643222 0000 0011114568999999999999999999
Q ss_pred HHhC---CCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 872 LNQH---CIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 872 L~~~---Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
|-+. .+.|.||||++++.+|++++++||+||.|.||
T Consensus 1360 L~k~~mpsVtymRLDGSVpp~~R~kiV~~FN~DptIDvL 1398 (1549)
T KOG0392|consen 1360 LFKKYMPSVTYMRLDGSVPPGDRQKIVERFNEDPTIDVL 1398 (1549)
T ss_pred HhhhhcCceeEEEecCCCCcHHHHHHHHHhcCCCceeEE
Confidence 8765 67799999999999999999999999999886
No 7
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=1.7e-64 Score=596.35 Aligned_cols=488 Identities=43% Similarity=0.668 Sum_probs=411.6
Q ss_pred hHHHHHHHHhhcCCCCcccCCCCCcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccc
Q 002565 246 ERLIYQAALEDLNQPKVEATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQS 325 (907)
Q Consensus 246 ~~~~~~~~~~~l~~~~~~~~~P~~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~ 325 (907)
.+.+|..+.+.+.+.+.....|.+.++++ |++...||+........++|||||||||||||+++|++++..+....
T Consensus 106 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~p----~~~~~~~~~~~~~~~~~~~ggIladd~glgkt~~ti~l~l~~~~~~~ 181 (674)
T KOG1001|consen 106 NLPIFKAAKWEIILYKANKISPKNTLRFP----LKQKYRWSLLKSREQQSLRGGILADDMGLGKTVKTIALILKQKLKSK 181 (674)
T ss_pred cchhhhhhhhhhhhhhhhccCCcccccCC----HHHHHHHHhhcccccCccccceEeeccccchHHHHHHHHHhcccCCc
Confidence 44566666666666666666677655555 66667777776666667899999999999999999999986543200
Q ss_pred cchhhhccccccccccCCCCCCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHH
Q 002565 326 KSKTEVLGNQKTEALNLDDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELED 405 (907)
Q Consensus 326 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k 405 (907)
+ ..+....+.+|||||.+++.||..|+ .
T Consensus 182 ------------~---------------------------------------~~~~~~~kttLivcp~s~~~qW~~el-e 209 (674)
T KOG1001|consen 182 ------------E---------------------------------------EDRQKEFKTTLIVCPTSLLTQWKTEL-E 209 (674)
T ss_pred ------------c---------------------------------------hhhccccCceeEecchHHHHHHHHHH-h
Confidence 0 00124567899999999999999999 5
Q ss_pred hCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhcccccc
Q 002565 406 KVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVS 485 (907)
Q Consensus 406 ~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~ 485 (907)
...+...+.|++||| |.++...+..||||||||.++++
T Consensus 210 k~~~~~~l~v~v~~g--r~kd~~el~~~dVVltTy~il~~---------------------------------------- 247 (674)
T KOG1001|consen 210 KVTEEDKLSIYVYHG--RTKDKSELNSYDVVLTTYDILKN---------------------------------------- 247 (674)
T ss_pred ccCCccceEEEEecc--cccccchhcCCceEEeeHHHhhc----------------------------------------
Confidence 566666999999999 88999999999999999999974
Q ss_pred ccccCCCCCCCCCCcccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhc
Q 002565 486 KRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLK 565 (907)
Q Consensus 486 kk~~~~~k~~~~~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~ 565 (907)
++|..+.|.|||+||||.|+|.+++.+++|+.|.+.+||||||||+||+++|||++++|+.
T Consensus 248 -------------------~~l~~i~w~Riildea~~ikn~~tq~~~a~~~L~a~~RWcLtgtPiqn~~~~lysl~~fl~ 308 (674)
T KOG1001|consen 248 -------------------SPLVKIKWLRIVLDEAHTIKNKDTQIFKAVCQLDAKYRWCLTGTPIQNNLDELYSLFKFLE 308 (674)
T ss_pred -------------------ccccceeEEEEEeccccccCCcchHhhhhheeeccceeeeecCChhhhhHHHHHHHHHHhh
Confidence 2477899999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCchHHHHhHhccccccCc-hhhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHH
Q 002565 566 YDPYAVYKSFYSTIKIPISRNS-LHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLES 644 (907)
Q Consensus 566 p~~~~~~~~F~~~~~~pi~~~~-~~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~ 644 (907)
.++|..+..|...+..|+..+. ...+..++.+|+.+|+||+|....+|.|++.|||++..++.++++..|+.+|..+..
T Consensus 309 ~~p~~~~~~~~~~i~~p~~~~~~~~~~k~l~~~L~~v~lrrtK~~~~~gk~i~~lppk~v~~~~~~~~~~e~~~y~~l~~ 388 (674)
T KOG1001|consen 309 IHPYCDQNYFKLLIQDPDERNKYKEGVKTLQGILKKVMLRRTKEMEVDGKPILELPPKTVFVTEVDLSKSERSAYKALKA 388 (674)
T ss_pred cCCchhhHHHHHHhcChhhhhhHHHHHHHHHHHHHHHHhcccccccccCccccccCcceeEeeeccccHhHHHHHHHHhh
Confidence 9999999999999999999988 889999999999999999999988899999999999999999999999999999999
Q ss_pred HHHHHHHHHHhcCCccccHHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhHHHHHHHhhhccccccccc
Q 002565 645 DSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVC 724 (907)
Q Consensus 645 ~~~~~~~~~~~~g~~~~~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~~~ll~~le~~~~~C~iC 724 (907)
..+.++..+...|.+..+|..++..++||||+|+||.++............. ......++..+..+ ..|.+|
T Consensus 389 ~~~~~~~~~~~~~~~~~~Y~~~l~~lLrlrq~c~h~~lv~~~~~~~~~~~~~-------~~~~~~~i~~l~~~-~~c~ic 460 (674)
T KOG1001|consen 389 NSRNQFSNYANEGTVSSTYAFFLKNLLRLRQACDHSLLVMYEMDSLGDSGSA-------AALIIRLIVDLSVS-HWCHIC 460 (674)
T ss_pred hhhhHHHHHhhhchhhhhHHHHHHHHHHHHHHccchHhhhhhhhcccccccc-------chHHHHHHHHHhhc-cccccc
Confidence 9999999999999999999999999999999999999987643322211111 11112255556555 899999
Q ss_pred CCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCcccccCCCcCCCc
Q 002565 725 SDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEY 804 (907)
Q Consensus 725 ~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~ 804 (907)
++ .+.++++.|+|.||.+|+..++...... |++.|+..+....++....+...+.... .
T Consensus 461 ~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~-~~~~cr~~l~~~~l~s~~~~~~~~~~~~-------------------~ 519 (674)
T KOG1001|consen 461 CD-LDSFFITRCGHDFCVECLKKSIQQSENA-PCPLCRNVLKEKKLLSANPLPSIINDLL-------------------P 519 (674)
T ss_pred cc-cccceeecccchHHHHHHHhccccccCC-CCcHHHHHHHHHHHhhcccccchhhhcc-------------------c
Confidence 99 9999999999999999999999877665 5558999999888887666655443310 0
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
.|+|+.+++.+|+.. + .. +. .|+||||||+.+|++++..|...|+.+.+++|
T Consensus 520 ~s~ki~~~~~~l~~~-~-~s-------------------------~~-~kiiifsq~~~~l~l~~~~l~~~~~~~~~~~g 571 (674)
T KOG1001|consen 520 ESSKIYAFLKILQAK-E-MS-------------------------EQ-PKIVIFSQLIWGLALVCLRLFFKGFVFLRYDG 571 (674)
T ss_pred hhhhhHHHHHHHhhc-c-CC-------------------------CC-CceeeehhHHHHHHHhhhhhhhcccccchhhh
Confidence 689999999999811 1 11 11 29999999999999999999999999999999
Q ss_pred cCCHHHHHHHHHHhcCCCCcccC
Q 002565 885 TMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 885 sms~~~R~~~I~~F~~dp~v~VL 907 (907)
.|+.+.|.+.+..|.+++.++||
T Consensus 572 ~~~~~~r~~s~~~~~~~~~~~vl 594 (674)
T KOG1001|consen 572 EMLMKIRTKSFTDFPCDPLVTAL 594 (674)
T ss_pred hhHHHHHHhhhcccccCccHHHH
Confidence 99999999999999999998875
No 8
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=3.9e-62 Score=596.96 Aligned_cols=372 Identities=28% Similarity=0.487 Sum_probs=310.7
Q ss_pred CCCCcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCC
Q 002565 266 LPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDD 345 (907)
Q Consensus 266 ~P~~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (907)
+|.. +...|+|||+.||.||+.... ++.|||||||||||||+|+|+++.++...
T Consensus 162 qP~~-i~~~Lr~YQleGlnWLi~l~~---~g~gGILADEMGLGKTlQaIalL~~L~~~---------------------- 215 (1033)
T PLN03142 162 QPSC-IKGKMRDYQLAGLNWLIRLYE---NGINGILADEMGLGKTLQTISLLGYLHEY---------------------- 215 (1033)
T ss_pred CChH-hccchHHHHHHHHHHHHHHHh---cCCCEEEEeCCCccHHHHHHHHHHHHHHh----------------------
Confidence 3544 567899999999999998754 35789999999999999999999765432
Q ss_pred CCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCC
Q 002565 346 DDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTK 425 (907)
Q Consensus 346 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~ 425 (907)
+...+++|||||++++.||.+||.+|+| .+++++|+|....+
T Consensus 216 -----------------------------------~~~~gp~LIVvP~SlL~nW~~Ei~kw~p---~l~v~~~~G~~~eR 257 (1033)
T PLN03142 216 -----------------------------------RGITGPHMVVAPKSTLGNWMNEIRRFCP---VLRAVKFHGNPEER 257 (1033)
T ss_pred -----------------------------------cCCCCCEEEEeChHHHHHHHHHHHHHCC---CCceEEEeCCHHHH
Confidence 1335679999999999999999999998 69999999987543
Q ss_pred Cc-----cccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCc
Q 002565 426 DP-----VELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSI 500 (907)
Q Consensus 426 ~~-----~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~ 500 (907)
.. .....+|||||||+++.++.
T Consensus 258 ~~~~~~~~~~~~~dVvITSYe~l~~e~----------------------------------------------------- 284 (1033)
T PLN03142 258 AHQREELLVAGKFDVCVTSFEMAIKEK----------------------------------------------------- 284 (1033)
T ss_pred HHHHHHHhcccCCCcceecHHHHHHHH-----------------------------------------------------
Confidence 21 12357999999999997531
Q ss_pred ccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHhc
Q 002565 501 DYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIK 580 (907)
Q Consensus 501 d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~~ 580 (907)
..|..+.|++|||||||+|||..|+++++++.|++.+||+|||||++|++.|||+||+||.|+.|++...|...|.
T Consensus 285 ----~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~ 360 (1033)
T PLN03142 285 ----TALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQ 360 (1033)
T ss_pred ----HHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHc
Confidence 1266789999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cccccCchhhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHhcCCcc
Q 002565 581 IPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVN 660 (907)
Q Consensus 581 ~pi~~~~~~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~~~g~~~ 660 (907)
.+..........+|+.+|++||+||+|.+|.. .||++.+.+++|.||+.|+++|..+.......+. .+
T Consensus 361 ~~~~~~~~e~i~~L~~~L~pf~LRR~KsdV~~-----~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l~----~g--- 428 (1033)
T PLN03142 361 ISGENDQQEVVQQLHKVLRPFLLRRLKSDVEK-----GLPPKKETILKVGMSQMQKQYYKALLQKDLDVVN----AG--- 428 (1033)
T ss_pred cccccchHHHHHHHHHHhhHHHhhhhHHHHhh-----hCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHHh----cc---
Confidence 76555566678899999999999999999975 7999999999999999999999999876554332 12
Q ss_pred ccHHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhHHHHHHHhhhcccccccccCCCCCCccccccCccc
Q 002565 661 QNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVF 740 (907)
Q Consensus 661 ~~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~~~ll~~le~~~~~C~iC~d~~e~pvit~C~H~f 740 (907)
.....++..+++||++|+||.|+....... +..
T Consensus 429 ~~~~~LlnilmqLRk~cnHP~L~~~~ep~~----------------------------------------~~~------- 461 (1033)
T PLN03142 429 GERKRLLNIAMQLRKCCNHPYLFQGAEPGP----------------------------------------PYT------- 461 (1033)
T ss_pred ccHHHHHHHHHHHHHHhCCHHhhhcccccC----------------------------------------ccc-------
Confidence 234567889999999999999875421000 000
Q ss_pred chhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCcccccCCCcCCCccchhHHHHHHHHHHhh
Q 002565 741 CYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQC 820 (907)
Q Consensus 741 C~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~SsKi~aLlelL~~~~ 820 (907)
+. ......|+|+..|..+|..+.
T Consensus 462 ---------~~------------------------------------------------e~lie~SgKl~lLdkLL~~Lk 484 (1033)
T PLN03142 462 ---------TG------------------------------------------------EHLVENSGKMVLLDKLLPKLK 484 (1033)
T ss_pred ---------ch------------------------------------------------hHHhhhhhHHHHHHHHHHHHH
Confidence 00 000125789999999999887
Q ss_pred hccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcC
Q 002565 821 ELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNT 900 (907)
Q Consensus 821 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~ 900 (907)
..++ ||||||||+.||++|+..|...|+.|++|||+|+..+|+++|++|++
T Consensus 485 ~~g~-----------------------------KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~ 535 (1033)
T PLN03142 485 ERDS-----------------------------RVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNK 535 (1033)
T ss_pred hcCC-----------------------------eEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhcc
Confidence 7665 99999999999999999999999999999999999999999999997
Q ss_pred CCC
Q 002565 901 DRE 903 (907)
Q Consensus 901 dp~ 903 (907)
++.
T Consensus 536 ~~s 538 (1033)
T PLN03142 536 PGS 538 (1033)
T ss_pred ccC
Confidence 553
No 9
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=8.4e-63 Score=570.12 Aligned_cols=286 Identities=33% Similarity=0.525 Sum_probs=248.0
Q ss_pred CcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCC
Q 002565 269 GLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDN 348 (907)
Q Consensus 269 ~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 348 (907)
.++...||.||+.||.||...++..+ .||||||||||||||+|+|++++-..
T Consensus 610 sLLrGqLReYQkiGLdWLatLYeknl---NGILADEmGLGKTIQtISllAhLACe------------------------- 661 (1958)
T KOG0391|consen 610 SLLRGQLREYQKIGLDWLATLYEKNL---NGILADEMGLGKTIQTISLLAHLACE------------------------- 661 (1958)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHhcc---cceehhhhcccchhHHHHHHHHHHhc-------------------------
Confidence 45678899999999999999988654 59999999999999999999876432
Q ss_pred CCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCc-
Q 002565 349 GNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDP- 427 (907)
Q Consensus 349 ~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~- 427 (907)
.+.++|.|||||.+++.||.-||++||| .|+++.|+|+.+.+..
T Consensus 662 --------------------------------egnWGPHLIVVpTsviLnWEMElKRwcP---glKILTYyGs~kErkeK 706 (1958)
T KOG0391|consen 662 --------------------------------EGNWGPHLIVVPTSVILNWEMELKRWCP---GLKILTYYGSHKERKEK 706 (1958)
T ss_pred --------------------------------ccCCCCceEEeechhhhhhhHHHhhhCC---cceEeeecCCHHHHHHH
Confidence 2568899999999999999999999999 7999999999876532
Q ss_pred -c---ccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccC
Q 002565 428 -V---ELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYG 503 (907)
Q Consensus 428 -~---~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~ 503 (907)
. .-..+.|.||||..+..+..
T Consensus 707 RqgW~kPnaFHVCItSYklv~qd~~------------------------------------------------------- 731 (1958)
T KOG0391|consen 707 RQGWAKPNAFHVCITSYKLVFQDLT------------------------------------------------------- 731 (1958)
T ss_pred hhcccCCCeeEEeehhhHHHHhHHH-------------------------------------------------------
Confidence 2 22468899999999987532
Q ss_pred CCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHhcccc
Q 002565 504 CGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPI 583 (907)
Q Consensus 504 ~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~~~pi 583 (907)
.|.+.+|.++||||||+|||.++++++|+..+++.+|++|||||+||++.|||+|++||+|..|.+...|..+|..|+
T Consensus 732 --AFkrkrWqyLvLDEaqnIKnfksqrWQAllnfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk~wfsnPl 809 (1958)
T KOG0391|consen 732 --AFKRKRWQYLVLDEAQNIKNFKSQRWQALLNFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFKPWFSNPL 809 (1958)
T ss_pred --HHHhhccceeehhhhhhhcchhHHHHHHHhccchhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHHHHhcCcc
Confidence 266778999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred ccC-------chhhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHhc
Q 002565 584 SRN-------SLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADA 656 (907)
Q Consensus 584 ~~~-------~~~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~~~ 656 (907)
... +..-+.+|+.+|++|+|||+|.||.+ .||.|.+++|+|.||..||.+|+.+..+... ++...
T Consensus 810 tgmiEgsqeyn~klV~RLHkVlrPfiLRRlK~dVEK-----QlpkKyEHvv~CrLSkRQR~LYDDfmsq~~T--KetLk- 881 (1958)
T KOG0391|consen 810 TGMIEGSQEYNHKLVIRLHKVLRPFILRRLKRDVEK-----QLPKKYEHVVKCRLSKRQRALYDDFMSQPGT--KETLK- 881 (1958)
T ss_pred hhhcccchhhchHHHHHHHHHhHHHHHHHHHHHHHH-----hcchhhhhheeeehhhhHHHHHHHHhhccch--hhHhh-
Confidence 542 23456799999999999999999987 8999999999999999999999998654322 12222
Q ss_pred CCccccHHHHHHHHHHHHHhcCCcccccc
Q 002565 657 GTVNQNYANILLMLLRLRQACDHPLLVKE 685 (907)
Q Consensus 657 g~~~~~~~~iL~~L~rLRqic~hP~L~~~ 685 (907)
..++.++++.||+||++||||.|+..
T Consensus 882 ---SGhfmsVlnilmqLrKvCNHPnLfEp 907 (1958)
T KOG0391|consen 882 ---SGHFMSVLNILMQLRKVCNHPNLFEP 907 (1958)
T ss_pred ---cCchhHHHHHHHHHHHHcCCCCcCCC
Confidence 34789999999999999999999753
No 10
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=4.2e-60 Score=558.53 Aligned_cols=377 Identities=27% Similarity=0.491 Sum_probs=314.6
Q ss_pred CCCCcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCC
Q 002565 266 LPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDD 345 (907)
Q Consensus 266 ~P~~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (907)
+|.-+-...||+||++||.||+...... ..||||||||||||||+|+++.++...
T Consensus 362 qp~~~~g~~LRdyQLeGlNWl~~~W~~~---~n~ILADEmgLgktvqti~fl~~l~~~---------------------- 416 (1373)
T KOG0384|consen 362 QPEYKGGNELRDYQLEGLNWLLYSWYKR---NNCILADEMGLGKTVQTITFLSYLFHS---------------------- 416 (1373)
T ss_pred CccccccchhhhhhcccchhHHHHHHhc---ccceehhhcCCCcchHHHHHHHHHHHh----------------------
Confidence 4554455689999999999999776543 458999999999999999999876432
Q ss_pred CCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCC
Q 002565 346 DDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTK 425 (907)
Q Consensus 346 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~ 425 (907)
....+|.|||||.|.+.+|++||..|. .+++++|+|....+
T Consensus 417 -----------------------------------~~~~gpflvvvplst~~~W~~ef~~w~----~mn~i~y~g~~~sr 457 (1373)
T KOG0384|consen 417 -----------------------------------LQIHGPFLVVVPLSTITAWEREFETWT----DMNVIVYHGNLESR 457 (1373)
T ss_pred -----------------------------------hhccCCeEEEeehhhhHHHHHHHHHHh----hhceeeeecchhHH
Confidence 134578999999999999999999997 49999999987544
Q ss_pred Cc-----------cccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCC
Q 002565 426 DP-----------VELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKG 494 (907)
Q Consensus 426 ~~-----------~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~ 494 (907)
.. ...-+++++||||+++-.+.
T Consensus 458 ~~i~~ye~~~~~~~~~lkf~~lltTye~~LkDk----------------------------------------------- 490 (1373)
T KOG0384|consen 458 QLIRQYEFYHSSNTKKLKFNALLTTYEIVLKDK----------------------------------------------- 490 (1373)
T ss_pred HHHHHHHheecCCccccccceeehhhHHHhccH-----------------------------------------------
Confidence 21 12236899999999997642
Q ss_pred CCCCCcccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHH
Q 002565 495 NVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKS 574 (907)
Q Consensus 495 ~~~~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~ 574 (907)
..|..+.|..+++||||++||..++.+.++..++..+|+++||||+||++.|||+|++||.|+.|.++..
T Consensus 491 ----------~~L~~i~w~~~~vDeahrLkN~~~~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~ 560 (1373)
T KOG0384|consen 491 ----------AELSKIPWRYLLVDEAHRLKNDESKLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDE 560 (1373)
T ss_pred ----------hhhccCCcceeeecHHhhcCchHHHHHHHHHHhcccceeeecCCCccccHHHHHHHhcccCCCCCCcHHH
Confidence 2378999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhHhccccccCchhhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHH
Q 002565 575 FYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFA 654 (907)
Q Consensus 575 F~~~~~~pi~~~~~~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~ 654 (907)
|...+ .......+..|+..|+|+||||.|+||.+ .||+|.++++.|+||..|+++|..|+.+....+.
T Consensus 561 f~~~~----~~~~e~~~~~L~~~L~P~~lRr~kkdvek-----slp~k~E~IlrVels~lQk~yYk~ILtkN~~~Lt--- 628 (1373)
T KOG0384|consen 561 FLEEF----DEETEEQVRKLQQILKPFLLRRLKKDVEK-----SLPPKEETILRVELSDLQKQYYKAILTKNFSALT--- 628 (1373)
T ss_pred HHHhh----cchhHHHHHHHHHHhhHHHHHHHHhhhcc-----CCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHh---
Confidence 99987 34556778999999999999999999987 8999999999999999999999999987765543
Q ss_pred hcCCccccHHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhHHHHHHHhhhcccccccccCCCCCCcccc
Q 002565 655 DAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVT 734 (907)
Q Consensus 655 ~~g~~~~~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~~~ll~~le~~~~~C~iC~d~~e~pvit 734 (907)
.|....+ .++|+.++.||++|+||+|+.+.+..-.+.... ....+.+..+
T Consensus 629 -KG~~g~~-~~lLNimmELkKccNHpyLi~gaee~~~~~~~~----~~~d~~L~~l------------------------ 678 (1373)
T KOG0384|consen 629 -KGAKGST-PSLLNIMMELKKCCNHPYLIKGAEEKILGDFRD----KMRDEALQAL------------------------ 678 (1373)
T ss_pred -ccCCCCC-chHHHHHHHHHHhcCCccccCcHHHHHHHhhhh----cchHHHHHHH------------------------
Confidence 3433333 788999999999999999999843221111100 0000011110
Q ss_pred ccCcccchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCcccccCCCcCCCccchhHHHHHH
Q 002565 735 MCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLD 814 (907)
Q Consensus 735 ~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~SsKi~aLle 814 (907)
...|+|+..|..
T Consensus 679 --------------------------------------------------------------------I~sSGKlVLLDK 690 (1373)
T KOG0384|consen 679 --------------------------------------------------------------------IQSSGKLVLLDK 690 (1373)
T ss_pred --------------------------------------------------------------------HHhcCcEEeHHH
Confidence 125889999999
Q ss_pred HHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHH
Q 002565 815 ILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRA 894 (907)
Q Consensus 815 lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~ 894 (907)
+|-.+.+.|+ |||||||.+.|||+|+.+|..+||+|-||||++..+-|+++
T Consensus 691 LL~rLk~~GH-----------------------------rVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~A 741 (1373)
T KOG0384|consen 691 LLPRLKEGGH-----------------------------RVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQA 741 (1373)
T ss_pred HHHHHhcCCc-----------------------------eEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHH
Confidence 9999988877 99999999999999999999999999999999999999999
Q ss_pred HHHhcCCC
Q 002565 895 VKDFNTDR 902 (907)
Q Consensus 895 I~~F~~dp 902 (907)
|+.|+...
T Consensus 742 IDhFnap~ 749 (1373)
T KOG0384|consen 742 IDHFNAPD 749 (1373)
T ss_pred HHhccCCC
Confidence 99999644
No 11
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=1.1e-57 Score=509.18 Aligned_cols=464 Identities=25% Similarity=0.373 Sum_probs=325.7
Q ss_pred CcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCC
Q 002565 269 GLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDN 348 (907)
Q Consensus 269 ~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 348 (907)
.+++++|+.||+.||.||......+ -.||||||||||||+|+|++++.+...
T Consensus 562 kil~ctLKEYQlkGLnWLvnlYdqG---iNGILADeMGLGKTVQsisvlAhLaE~------------------------- 613 (1185)
T KOG0388|consen 562 KILKCTLKEYQLKGLNWLVNLYDQG---INGILADEMGLGKTVQSISVLAHLAET------------------------- 613 (1185)
T ss_pred hhhhhhhHHHhhccHHHHHHHHHcc---ccceehhhhccchhHHHHHHHHHHHHh-------------------------
Confidence 4578999999999999999988755 459999999999999999999876321
Q ss_pred CCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCC--
Q 002565 349 GNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKD-- 426 (907)
Q Consensus 349 ~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~-- 426 (907)
..-++|.|||+|+|+|.||++||.+|+| .++++-|-|+...+.
T Consensus 614 --------------------------------~nIwGPFLVVtpaStL~NWaqEisrFlP---~~k~lpywGs~~eRkiL 658 (1185)
T KOG0388|consen 614 --------------------------------HNIWGPFLVVTPASTLHNWAQEISRFLP---SFKVLPYWGSPSERKIL 658 (1185)
T ss_pred --------------------------------ccCCCceEEeehHHHHhHHHHHHHHhCc---cceeecCcCChhhhHHH
Confidence 1447889999999999999999999999 799999999875442
Q ss_pred ---------ccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCC
Q 002565 427 ---------PVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVN 497 (907)
Q Consensus 427 ---------~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~ 497 (907)
....+.++||||||+++-.+.
T Consensus 659 rKfw~rKnmY~rna~fhVviTSYQlvVtDe-------------------------------------------------- 688 (1185)
T KOG0388|consen 659 RKFWNRKNMYRRNAPFHVVITSYQLVVTDE-------------------------------------------------- 688 (1185)
T ss_pred HHhcchhhhhccCCCceEEEEeeeeeechH--------------------------------------------------
Confidence 123467899999999887531
Q ss_pred CCcccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHh
Q 002565 498 SSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYS 577 (907)
Q Consensus 498 ~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~ 577 (907)
..|.++.|.++||||||.||...|.+++.+..++++.|++||||||||+..|||.||+|++|..|.+...|.+
T Consensus 689 -------ky~qkvKWQYMILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPIQNsMqELWALLHFIMPsLFDshneFse 761 (1185)
T KOG0388|consen 689 -------KYLQKVKWQYMILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPIQNSMQELWALLHFIMPSLFDSHNEFSE 761 (1185)
T ss_pred -------HHHHhhhhhheehhHHHHhhhhhhhHHHHHhhhhccceeeecCCccchHHHHHHHHHHHHhhHhhhchHHHHH
Confidence 1277899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhccccccC-------chhhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHH
Q 002565 578 TIKIPISRN-------SLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKF 650 (907)
Q Consensus 578 ~~~~pi~~~-------~~~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~ 650 (907)
+|.+-|+.. ..+.+.+|+.+|+||||||.|++|.. +|-.|++..|.|+||..|+.+|+.+....-
T Consensus 762 WFSKdIEshAe~~~tlneqqL~RLH~ILKPFMLRRvKkdV~s-----ELg~Kteidv~CdLs~RQ~~lYq~ik~~iS--- 833 (1185)
T KOG0388|consen 762 WFSKDIESHAEMNTTLNEQQLQRLHAILKPFMLRRVKKDVIS-----ELGQKTEIDVYCDLSYRQKVLYQEIKRSIS--- 833 (1185)
T ss_pred HHhhhhHhHHHhcCCcCHHHHHHHHHHHhHHHHHHHHHHHHH-----HhccceEEEEEechhHHHHHHHHHHHHHhh---
Confidence 998888654 45678999999999999999999976 899999999999999999999998855432
Q ss_pred HHHHhcCCccccHHHHHHHHHHHHHhcCCccccccccccccc-----cchHHH--------hhcCChhHHHHHHHh----
Q 002565 651 KAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVG-----KISGEM--------AKRLPRDMLIDLLSR---- 713 (907)
Q Consensus 651 ~~~~~~g~~~~~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~-----~~~~e~--------~~~l~~e~~~~ll~~---- 713 (907)
.+....+++.||++|+||.|+......+.- .....+ .-.++.-...++++.
T Consensus 834 ------------~~E~~~~vmQlrKVCNHPdLFer~e~~s~L~~~V~~nl~dv~S~Grnpi~ykiP~L~~~d~le~~~fn 901 (1185)
T KOG0388|consen 834 ------------SMEMENLVMQLRKVCNHPDLFERLEPRSGLSLEVSDNLGDVVSFGRNPIDYKIPSLVAKDALEMFRFN 901 (1185)
T ss_pred ------------HHHHHHHHHHHHHhcCChHHHhhcCCcceeEEEcccCHHHHHhCCCCceeecchHHHHHHHHHHHHHh
Confidence 123334889999999999998765432210 000000 001111100111100
Q ss_pred -hhccccccccc----CCCC---CCc-ccc-cc-Ccccc-h----hhhh---------------hhccCCCC--CCCCcc
Q 002565 714 -LETSSAICCVC----SDPP---EDS-VVT-MC-GHVFC-Y----QCAS---------------EYITGDDN--MCPAPR 760 (907)
Q Consensus 714 -le~~~~~C~iC----~d~~---e~p-vit-~C-~H~fC-~----~Ci~---------------~~i~~~~~--~CP~~~ 760 (907)
.+-....|..- .+++ ..+ ++. .- +-+|- . ..+. .+|..... .|.+ .
T Consensus 902 iye~i~~~~g~~~~v~Geg~~~w~~~l~~e~k~G~~~~~n~e~~~Kavtr~ll~p~~~~~e~~~rvi~~e~~~L~~~~-y 980 (1185)
T KOG0388|consen 902 IYEMIERINGLRRIVNGEGPNAWYLRLSLEFKYGGYVFRNVEEAGKAVTRNLLNPESSLLESMRRVIDEEAYRLQRHV-Y 980 (1185)
T ss_pred HHHHHHHHhhhHhhhcCCCcchhcccceeeeccCCcccccHHHHHHHHHHHhcCcccchhHHHHHHhhHHHHHhhhhe-e
Confidence 00000011100 0000 000 000 00 11110 0 0000 01100000 1111 1
Q ss_pred cccccCccccccccccccccCCCCCCCCCCCccccc-CCCc----CCCccchhHHHHHHHHHHhhhccCCcchhhhhccc
Q 002565 761 CKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADK-SGIL----DNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLA 835 (907)
Q Consensus 761 Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~-~~~~----~~~~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~ 835 (907)
|-.+. +-..+.|-+..++.++-+.++....-. .+.. .=...|+|+..|.++|..+...++
T Consensus 981 ~y~P~----v~apPvLI~~ead~PeId~E~~~~pLn~~i~~Ppm~~FitdSgKL~~LDeLL~kLkaegH----------- 1045 (1185)
T KOG0388|consen 981 CYSPV----VAAPPVLISNEADLPEIDLENRHIPLNTTIYVPPMNTFITDSGKLVVLDELLPKLKAEGH----------- 1045 (1185)
T ss_pred eeccc----cCCCCeeeecccCCCCCCccccCcccccceecCcHHhhhccccceeeHHHHHHHhhcCCc-----------
Confidence 11111 000111112222222222221111000 0000 002369999999999999988877
Q ss_pred CCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 836 GSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 836 ~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
+||+|-|.|.|+|+||..|.-+|+.|+||||+....+|..+|.+||. +++.||
T Consensus 1046 ------------------RvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~-sdiFvF 1098 (1185)
T KOG0388|consen 1046 ------------------RVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQA-SDIFVF 1098 (1185)
T ss_pred ------------------eEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccC-CceEEE
Confidence 99999999999999999999999999999999999999999999998 888775
No 12
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=6e-57 Score=523.18 Aligned_cols=382 Identities=28% Similarity=0.463 Sum_probs=317.6
Q ss_pred cCCCCCcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCC
Q 002565 264 ATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLD 343 (907)
Q Consensus 264 ~~~P~~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~ 343 (907)
..+|..+....|++||+.||.||....+.. ..||||||||||||||+|+||.++..+
T Consensus 384 ~~Qps~l~GG~Lk~YQl~GLqWmVSLyNNn---LNGILADEMGLGKTIQtIsLitYLmE~-------------------- 440 (1157)
T KOG0386|consen 384 AKQPSSLQGGELKEYQLHGLQWMVSLYNNN---LNGILADEMGLGKTIQTISLITYLMEH-------------------- 440 (1157)
T ss_pred ccCcchhcCCCCchhhhhhhHHHhhccCCC---cccccchhcccchHHHHHHHHHHHHHH--------------------
Confidence 356777778899999999999999998865 459999999999999999999988654
Q ss_pred CCCCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCC
Q 002565 344 DDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSR 423 (907)
Q Consensus 344 ~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r 423 (907)
+...+|.|||||.++|.||..||.+|.| .+..++|.|...
T Consensus 441 -------------------------------------K~~~GP~LvivPlstL~NW~~Ef~kWaP---Sv~~i~YkGtp~ 480 (1157)
T KOG0386|consen 441 -------------------------------------KQMQGPFLIIVPLSTLVNWSSEFPKWAP---SVQKIQYKGTPQ 480 (1157)
T ss_pred -------------------------------------cccCCCeEEeccccccCCchhhcccccc---ceeeeeeeCCHH
Confidence 1345679999999999999999999998 799999999986
Q ss_pred CCCc----cccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCC
Q 002565 424 TKDP----VELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSS 499 (907)
Q Consensus 424 ~~~~----~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~ 499 (907)
.+.. ....+++|++|||+.+..+-
T Consensus 481 ~R~~l~~qir~gKFnVLlTtyEyiikdk---------------------------------------------------- 508 (1157)
T KOG0386|consen 481 QRSGLTKQQRHGKFNVLLTTYEYIIKDK---------------------------------------------------- 508 (1157)
T ss_pred HHhhHHHHHhcccceeeeeeHHHhcCCH----------------------------------------------------
Confidence 5532 22379999999999887531
Q ss_pred cccCCCCcccccccEEEEccCcccCCcchHHHHHHH-hhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhH
Q 002565 500 IDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACC-SLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYST 578 (907)
Q Consensus 500 ~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~-~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~ 578 (907)
..|..+.|.++||||+|+|||..++.+..+. ...+.+|++|||||+||++.|||+||+||-|..|.+...|..+
T Consensus 509 -----~lLsKI~W~yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqW 583 (1157)
T KOG0386|consen 509 -----ALLSKISWKYMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQW 583 (1157)
T ss_pred -----HHHhccCCcceeecccccccchhhHHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHH
Confidence 2378899999999999999999999998887 6689999999999999999999999999999999999999999
Q ss_pred hccccccCch----------hhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHH
Q 002565 579 IKIPISRNSL----------HGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLK 648 (907)
Q Consensus 579 ~~~pi~~~~~----------~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~ 648 (907)
|..|+...+. -...+|+.+|+||+|||.|++|.. .||+|++.++.|.||.-|+.+|..+.....-
T Consensus 584 FN~PFantGek~eLteEEtlLIIrRLHkVLRPFlLRRlKkeVE~-----~LPdKve~viKC~mSalQq~lY~~m~~~g~l 658 (1157)
T KOG0386|consen 584 FNQPFANTGEKVELTEEETLLIIRRLHKVLRPFLLRRLKKEVEQ-----ELPDKVEDVIKCDMSALQQSLYKQMQNKGQL 658 (1157)
T ss_pred hhhhhhhcCCcccccchHHHHHHHHHHHhhhHHHHHhhhHHHhh-----hCchhhhHhhheehhhhhHhhhHHHHhCCCC
Confidence 9999876542 135789999999999999999987 8999999999999999999999987543211
Q ss_pred HHHHHHhcCCccccHHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhHHHHHHHhhhcccccccccCCCC
Q 002565 649 KFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPP 728 (907)
Q Consensus 649 ~~~~~~~~g~~~~~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~~~ll~~le~~~~~C~iC~d~~ 728 (907)
.. ........+..++..++.||++|+||+++...... |..|.++
T Consensus 659 ~~----d~~~g~~g~k~L~N~imqLRKiCNHP~lf~~ve~~-------------------------------~~~~~~~- 702 (1157)
T KOG0386|consen 659 LK----DTAKGKKGYKPLFNTIMQLRKLCNHPYLFANVENS-------------------------------YTLHYDI- 702 (1157)
T ss_pred Cc----CchhccccchhhhhHhHHHHHhcCCchhhhhhccc-------------------------------cccccCh-
Confidence 11 11112334567888999999999999998652110 0000000
Q ss_pred CCccccccCcccchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCcccccCCCcCCCccchh
Q 002565 729 EDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSK 808 (907)
Q Consensus 729 e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~SsK 808 (907)
..-+..++|
T Consensus 703 -----------------------------------------------------------------------~dL~R~sGK 711 (1157)
T KOG0386|consen 703 -----------------------------------------------------------------------KDLVRVSGK 711 (1157)
T ss_pred -----------------------------------------------------------------------hHHHHhccH
Confidence 011235789
Q ss_pred HHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCH
Q 002565 809 IRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSL 888 (907)
Q Consensus 809 i~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~ 888 (907)
+..|..+|-.+.+.++ +||.|+|.|.+++++|.+|.-.++.|+||||++..
T Consensus 712 fELLDRiLPKLkatgH-----------------------------RVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~ 762 (1157)
T KOG0386|consen 712 FELLDRILPKLKATGH-----------------------------RVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKV 762 (1157)
T ss_pred HHHHHhhhHHHHhcCc-----------------------------chhhHHHHHHHHHHHHHHHhhhhhheeeecCCcch
Confidence 9999999999999888 99999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCC-CCccc
Q 002565 889 PARDRAVKDFNTD-REVCS 906 (907)
Q Consensus 889 ~~R~~~I~~F~~d-p~v~V 906 (907)
++|...++.||.. .++.+
T Consensus 763 ~eRg~ll~~FN~Pds~yf~ 781 (1157)
T KOG0386|consen 763 EERGDLLEIFNAPDSPYFI 781 (1157)
T ss_pred hhHHHHHHHhcCCCCceee
Confidence 9999999999963 34443
No 13
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=2.5e-51 Score=481.11 Aligned_cols=397 Identities=24% Similarity=0.319 Sum_probs=306.5
Q ss_pred CCCcccccCchHHHHHHHHHHHhhhccc---cccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCC
Q 002565 267 PDGLLSVNLLKHQKIALAWMLQKETRSL---HCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLD 343 (907)
Q Consensus 267 P~~~l~~~L~phQ~~gv~wml~~e~~~~---~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~ 343 (907)
+...++..|+|||++|+.||+....... ...|||+||+||+|||+|+|+||..+..+-.
T Consensus 231 ~dP~l~~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P------------------ 292 (776)
T KOG0390|consen 231 IDPLLKKILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFP------------------ 292 (776)
T ss_pred ecccHhhhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCc------------------
Confidence 3444677899999999999998876542 4679999999999999999999988765410
Q ss_pred CCCCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCC
Q 002565 344 DDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSR 423 (907)
Q Consensus 344 ~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r 423 (907)
...+...+.|||||++||.+|.+||.+|.... .+.++.++|...
T Consensus 293 -----------------------------------~~~~~~~k~lVV~P~sLv~nWkkEF~KWl~~~-~i~~l~~~~~~~ 336 (776)
T KOG0390|consen 293 -----------------------------------QAKPLINKPLVVAPSSLVNNWKKEFGKWLGNH-RINPLDFYSTKK 336 (776)
T ss_pred -----------------------------------CccccccccEEEccHHHHHHHHHHHHHhcccc-ccceeeeecccc
Confidence 01123467899999999999999999998752 788999998877
Q ss_pred CCC-----c----cccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCC
Q 002565 424 TKD-----P----VELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKG 494 (907)
Q Consensus 424 ~~~-----~----~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~ 494 (907)
... . ...-.+-|.|.+|++++..+.+
T Consensus 337 ~~w~~~~sil~~~~~~~~~~vli~sye~~~~~~~~--------------------------------------------- 371 (776)
T KOG0390|consen 337 SSWIKLKSILFLGYKQFTTPVLIISYETASDYCRK--------------------------------------------- 371 (776)
T ss_pred hhhhhhHHHHHhhhhheeEEEEeccHHHHHHHHHH---------------------------------------------
Confidence 411 0 1112456899999999754321
Q ss_pred CCCCCcccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHH
Q 002565 495 NVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKS 574 (907)
Q Consensus 495 ~~~~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~ 574 (907)
+....+++||+||+|++||..+.+.+++..|++++|++|||||+||++.|+|++|+|++|+.+++...
T Consensus 372 ------------il~~~~glLVcDEGHrlkN~~s~~~kaL~~l~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs~~s 439 (776)
T KOG0390|consen 372 ------------ILLIRPGLLVCDEGHRLKNSDSLTLKALSSLKTPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGSISS 439 (776)
T ss_pred ------------HhcCCCCeEEECCCCCccchhhHHHHHHHhcCCCceEEeeCCcccccHHHHHHHHhhcChhhccchHH
Confidence 55677899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhHhccccccCch-----------hhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHH
Q 002565 575 FYSTIKIPISRNSL-----------HGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLE 643 (907)
Q Consensus 575 F~~~~~~pi~~~~~-----------~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~ 643 (907)
|...+..|+.++.. ..+++|+.+...|++||+-+...+ .||++.+++|.|.+|+.|+.+|..+.
T Consensus 440 f~k~~~~~i~~~~~~~~s~e~~~~~~rl~eL~~~t~~fi~rrt~~il~k-----~LP~k~e~vv~~n~t~~Q~~~~~~l~ 514 (776)
T KOG0390|consen 440 FKKKFEIPILRGRDADASEEDREREERLQELRELTNKFILRRTGDILLK-----YLPGKYEYVVFCNPTPIQKELYKKLL 514 (776)
T ss_pred HHHHhhcccccccCCCcchhhhhhHHHHHHHHHHHHhheeecccchhhh-----hCCCceeEEEEeCCcHHHHHHHHHHH
Confidence 99999999876432 336789999999999999966655 89999999999999999999999997
Q ss_pred HHHHHHHHHHHhcCCccccHHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhHHHHHHHhhhcccccccc
Q 002565 644 SDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCV 723 (907)
Q Consensus 644 ~~~~~~~~~~~~~g~~~~~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~~~ll~~le~~~~~C~i 723 (907)
... ... .+ . ...|..++.|+++|+||.|+..-......+
T Consensus 515 ~~~-~~~-~~--~-------~~~l~~~~~L~k~cnhP~L~~~~~~~~~e~------------------------------ 553 (776)
T KOG0390|consen 515 DSM-KMR-TL--K-------GYALELITKLKKLCNHPSLLLLCEKTEKEK------------------------------ 553 (776)
T ss_pred HHH-Hhh-hh--h-------cchhhHHHHHHHHhcCHHhhcccccccccc------------------------------
Confidence 754 111 00 0 126778899999999999986210000000
Q ss_pred cCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCcccccCCCcCCC
Q 002565 724 CSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNE 803 (907)
Q Consensus 724 C~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~ 803 (907)
..+..+.+.. ...........
T Consensus 554 ---------------------------------------------~~~~~~~~~~--------------~~~~~~~~~~~ 574 (776)
T KOG0390|consen 554 ---------------------------------------------AFKNPALLLD--------------PGKLKLDAGDG 574 (776)
T ss_pred ---------------------------------------------cccChHhhhc--------------ccccccccccc
Confidence 0000000000 00000011122
Q ss_pred ccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEE
Q 002565 804 YISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLD 883 (907)
Q Consensus 804 ~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLd 883 (907)
..|.|+..|+.+|..+.+.. .+|+++.|+|+.|||+++..++-+|+.++|||
T Consensus 575 ~ks~kl~~L~~ll~~~~ek~----------------------------~~~~v~Isny~~tldl~e~~~~~~g~~~~rLd 626 (776)
T KOG0390|consen 575 SKSGKLLVLVFLLEVIREKL----------------------------LVKSVLISNYTQTLDLFEQLCRWRGYEVLRLD 626 (776)
T ss_pred hhhhHHHHHHHHHHHHhhhc----------------------------ceEEEEeccHHHHHHHHHHHHhhcCceEEEEc
Confidence 25789999988886655433 35999999999999999999999999999999
Q ss_pred ccCCHHHHHHHHHHhcCCCCc-ccC
Q 002565 884 GTMSLPARDRAVKDFNTDREV-CSL 907 (907)
Q Consensus 884 Gsms~~~R~~~I~~F~~dp~v-~VL 907 (907)
|+|+..+|+.+|+.||+.++. +||
T Consensus 627 G~~~~~qRq~~vd~FN~p~~~~~vf 651 (776)
T KOG0390|consen 627 GKTSIKQRQKLVDTFNDPESPSFVF 651 (776)
T ss_pred CCCchHHHHHHHHhccCCCCCceEE
Confidence 999999999999999987765 554
No 14
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=7.1e-51 Score=465.06 Aligned_cols=477 Identities=23% Similarity=0.289 Sum_probs=315.9
Q ss_pred ccccCchHHHHHHHHHHHhhh------ccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCC
Q 002565 271 LSVNLLKHQKIALAWMLQKET------RSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDD 344 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~------~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~ 344 (907)
|...|+|||..||+|||..-. ....+.|||||+-||||||+|+|+|+......
T Consensus 665 lv~kLKpHQv~GvqFMwd~~~eSlkr~~~~~GsGcILAHcMGLGKTlQVvtflhTvL~c--------------------- 723 (1567)
T KOG1015|consen 665 LVIKLKPHQVDGVQFMWDCCCESLKRTKKSPGSGCILAHCMGLGKTLQVVTFLHTVLLC--------------------- 723 (1567)
T ss_pred HHhhcCcccccchhHHHHHHHHHHHhhcCCCCcchHHHHhhcccceehhhHHHHHHHHh---------------------
Confidence 356799999999999997532 22357899999999999999999999875432
Q ss_pred CCCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCC---CCeEEEEEeCC
Q 002565 345 DDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDK---AALSVLIYHGG 421 (907)
Q Consensus 345 ~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~---~~l~V~v~~G~ 421 (907)
.+...+++|||||.+++.||.+||++|.+.. ..+.|+.+..-
T Consensus 724 -----------------------------------~klg~ktaLvV~PlNt~~NW~~EFekWm~~~e~~~~leV~eL~~v 768 (1567)
T KOG1015|consen 724 -----------------------------------DKLGFKTALVVCPLNTALNWMNEFEKWMEGLEDDEKLEVSELATV 768 (1567)
T ss_pred -----------------------------------hccCCceEEEEcchHHHHHHHHHHHHhcccccccccceeehhhhc
Confidence 0133567999999999999999999998741 24566655555
Q ss_pred CCCCCc-----cccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCC
Q 002565 422 SRTKDP-----VELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNV 496 (907)
Q Consensus 422 ~r~~~~-----~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~ 496 (907)
.+.... ....+..|.|+.|+++++.... + +.+.++.+
T Consensus 769 kr~e~R~~~L~~W~~~ggVmIiGYdmyRnLa~g-----------r-------------~vk~rk~k-------------- 810 (1567)
T KOG1015|consen 769 KRPEERSYMLQRWQEDGGVMIIGYDMYRNLAQG-----------R-------------NVKSRKLK-------------- 810 (1567)
T ss_pred cChHHHHHHHHHHHhcCCEEEEehHHHHHHhcc-----------c-------------chhhhHHH--------------
Confidence 543222 2335679999999999874211 0 00000000
Q ss_pred CCCcccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHH
Q 002565 497 NSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFY 576 (907)
Q Consensus 497 ~~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~ 576 (907)
+.....|.+-+.|+||+||||.|||..|.+++|+..+++++|++|||||+||+|.|+|.|++|+.|++++++..|+
T Consensus 811 ----e~f~k~lvdpGPD~vVCDE~HiLKNeksa~Skam~~irtkRRI~LTGTPLQNNLmEY~CMVnFVKe~lLGs~~Efr 886 (1567)
T KOG1015|consen 811 ----EIFNKALVDPGPDFVVCDEGHILKNEKSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHCMVNFVKENLLGSIKEFR 886 (1567)
T ss_pred ----HHHHHhccCCCCCeEEecchhhhccchHHHHHHHHHHHhheeEEeecCchhhhhHHHHHHHHhcccccccCcHHHH
Confidence 0011236777899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHhccccccCch------------hhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHH
Q 002565 577 STIKIPISRNSL------------HGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLES 644 (907)
Q Consensus 577 ~~~~~pi~~~~~------------~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~ 644 (907)
++|..||.++.. ++..-|..+|..|+-|+--.-+.. .||||++++|.|.||+.|+.+|+.+++
T Consensus 887 NRFvNpI~nGq~~dST~~DVr~Mk~RsHILye~LkgcVqRkDy~Vltk-----~LPPK~eyVi~vrltelQ~~LYq~yL~ 961 (1567)
T KOG1015|consen 887 NRFVNPIQNGQCADSTMVDVRVMKKRSHILYEMLKGCVQRKDYTVLTK-----FLPPKHEYVIAVRLTELQCKLYQYYLD 961 (1567)
T ss_pred HhhcCccccCccCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcc-----cCCCceeEEEEEeccHHHHHHHHHHHh
Confidence 999999998752 234568899999999887776654 899999999999999999999998877
Q ss_pred HHHHHHHHHHhcCCccc---cHHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhHHHHHHHhhhcccccc
Q 002565 645 DSLKKFKAFADAGTVNQ---NYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAIC 721 (907)
Q Consensus 645 ~~~~~~~~~~~~g~~~~---~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~~~ll~~le~~~~~C 721 (907)
..... .+.... ...++|....-|++|..||..+.-..... +..+.+. .++..-
T Consensus 962 -h~~~~-----G~d~eg~~g~~arlf~dfqmlsrIwtHP~~lqL~s~~~------enkR~~s------------eddm~~ 1017 (1567)
T KOG1015|consen 962 -HLTGV-----GNDSEGGRGAGARLFQDFQMLSRIWTHPWCLQLDSISK------ENKRYFS------------EDDMDE 1017 (1567)
T ss_pred -hcccc-----CCccccccchhhhHHHHHHHHHHHhcCCCceeechhhh------hhccccc------------ccchhc
Confidence 22111 111111 44678888999999999998765321110 0001110 111223
Q ss_pred cccCCCCCCccccccCcccchhhhhhhccCCCC---------------CCCCcccccccCccccc----cccccccccCC
Q 002565 722 CVCSDPPEDSVVTMCGHVFCYQCASEYITGDDN---------------MCPAPRCKEQLGADVVF----SKTTLKNCVSD 782 (907)
Q Consensus 722 ~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~---------------~CP~~~Cr~~l~~~~~~----~~~~l~~~~~d 782 (907)
.||.+..+.......+ -.|..--.......+. .-+ ..-+.-...+..- ....+. ...+
T Consensus 1018 fi~D~sde~e~s~~s~-d~~~~~ks~~~s~~Desss~~~~~g~~ev~k~k~-rk~r~~~~~~~~~~g~~~D~~l~-ll~d 1094 (1567)
T KOG1015|consen 1018 FIADDSDETEMSLSSD-DYTKKKKSGKKSKKDESSSGSGSDGDVEVIKVKN-RKSRGGGEGNVDETGNNPDVSLK-LLED 1094 (1567)
T ss_pred cccCCCcccccccccc-chhhcccccccccccccccccccCCchhhhhhhh-hhccccccCcccccCCCcchHHH-Hhhc
Confidence 3443332221111100 0111000000000000 000 0000000000000 000000 0000
Q ss_pred CCCCC--CCCCccc---c--cCCCcCCCccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceE
Q 002565 783 DGGGS--PTDSPFA---D--KSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKS 855 (907)
Q Consensus 783 ~~~~~--~~~~~~~---~--~~~~~~~~~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KV 855 (907)
.++.. ++..+.. + ..........|+||-.|+++|+.+-..|+ |+
T Consensus 1095 lag~~s~~~d~ppew~kd~v~e~d~~v~~~SgKmiLLleIL~mceeIGD-----------------------------Kl 1145 (1567)
T KOG1015|consen 1095 LAGSSSNPSDPPPEWYKDFVTEADAEVLEHSGKMILLLEILRMCEEIGD-----------------------------KL 1145 (1567)
T ss_pred ccccccCCCCCchHhHHhhhhhhhhhhhhcCcceehHHHHHHHHHHhcc-----------------------------ee
Confidence 00000 0000000 0 01111223479999999999999888887 99
Q ss_pred EEEecchhhHHHHHHHHHhC----------------------CCeEEEEEccCCHHHHHHHHHHhcCCCCccc
Q 002565 856 IVFSQWTRMLDLVENSLNQH----------------------CIQYRRLDGTMSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 856 IVFSQft~~Ld~Le~~L~~~----------------------Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~V 906 (907)
|||||....||+|+.+|... |..|+||||++...+|++..++||+..+.|+
T Consensus 1146 LVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k~~~~FNdp~NlRa 1218 (1567)
T KOG1015|consen 1146 LVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKKWAEEFNDPTNLRA 1218 (1567)
T ss_pred EEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHHHHHHHHhcCccccee
Confidence 99999999999999999642 6789999999999999999999998777664
No 15
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=1e-46 Score=472.27 Aligned_cols=400 Identities=34% Similarity=0.491 Sum_probs=311.4
Q ss_pred CcccccCchHHHHHHHHHHH-hhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCC
Q 002565 269 GLLSVNLLKHQKIALAWMLQ-KETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDD 347 (907)
Q Consensus 269 ~~l~~~L~phQ~~gv~wml~-~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 347 (907)
..+...|++||..|+.||.. ... ...|||||||||||||+|+|+++......
T Consensus 333 ~~~~~~lr~yq~~g~~wl~~~l~~---~~~~~ilaD~mglGKTiq~i~~l~~~~~~------------------------ 385 (866)
T COG0553 333 VDLSAELRPYQLEGVNWLSELLRS---NLLGGILADDMGLGKTVQTIALLLSLLES------------------------ 385 (866)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHh---ccCCCcccccccchhHHHHHHHHHhhhhc------------------------
Confidence 34557799999999999994 433 34789999999999999999999752211
Q ss_pred CCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeE-EEEEeCCCCC--
Q 002565 348 NGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALS-VLIYHGGSRT-- 424 (907)
Q Consensus 348 ~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~-V~v~~G~~r~-- 424 (907)
.....++.|||||.+++.||.+|+.+|.+ .++ +.+++|....
T Consensus 386 --------------------------------~~~~~~~~liv~p~s~~~nw~~e~~k~~~---~~~~~~~~~g~~~~~~ 430 (866)
T COG0553 386 --------------------------------IKVYLGPALIVVPASLLSNWKREFEKFAP---DLRLVLVYHGEKSELD 430 (866)
T ss_pred --------------------------------ccCCCCCeEEEecHHHHHHHHHHHhhhCc---cccceeeeeCCccccc
Confidence 00114679999999999999999999987 577 9999998862
Q ss_pred ---CCccccCC------CcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCC
Q 002565 425 ---KDPVELAK------YDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGN 495 (907)
Q Consensus 425 ---~~~~~l~~------~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~ 495 (907)
.....+.+ ++++||||+.+.....
T Consensus 431 ~~~~~~~~~~~~~~~~~~~v~itty~~l~~~~~----------------------------------------------- 463 (866)
T COG0553 431 KKREALRDLLKLHLVIIFDVVITTYELLRRFLV----------------------------------------------- 463 (866)
T ss_pred HHHHHHHHHhhhcccceeeEEechHHHHHHhhh-----------------------------------------------
Confidence 22223333 8999999999986210
Q ss_pred CCCCcccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHH-hhccCCCC-chH
Q 002565 496 VNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFR-FLKYDPYA-VYK 573 (907)
Q Consensus 496 ~~~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~-fL~p~~~~-~~~ 573 (907)
+...+..+.|+++|+||||+|||..+..+++++.+++.+||+|||||++|++.|||++++ |+.|+.++ ...
T Consensus 464 -------~~~~l~~~~~~~~v~DEa~~ikn~~s~~~~~l~~~~~~~~~~LtgTPlen~l~eL~sl~~~f~~p~~~~~~~~ 536 (866)
T COG0553 464 -------DHGGLKKIEWDRVVLDEAHRIKNDQSSEGKALQFLKALNRLDLTGTPLENRLGELWSLLQEFLNPGLLGTSFA 536 (866)
T ss_pred -------hHHHHhhceeeeeehhhHHHHhhhhhHHHHHHHHHhhcceeeCCCChHhhhHHHHHHHHHHHhCCccccchHH
Confidence 112377889999999999999999999999999999999999999999999999999999 99999999 569
Q ss_pred HHHhHhccccccCch--------hhHHHHHHHHHHHHhhhcccc--ccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHH
Q 002565 574 SFYSTIKIPISRNSL--------HGYKKLQAVLRAIMLRRTKGT--FIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLE 643 (907)
Q Consensus 574 ~F~~~~~~pi~~~~~--------~~~~~L~~lL~~~mLRRtK~d--v~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~ 643 (907)
.|...|..|+..... .....|+.++.+|++||+|.+ +.. .||++.+.++.|+++.+|+.+|..+.
T Consensus 537 ~f~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~f~lrr~k~~~~v~~-----~Lp~k~e~~~~~~l~~~q~~~y~~~~ 611 (866)
T COG0553 537 IFTRLFEKPIQAEEDIGPLEARELGIELLRKLLSPFILRRTKEDVEVLK-----ELPPKIEKVLECELSEEQRELYEALL 611 (866)
T ss_pred HHHHHHhhhhhhcccccchhhHHHHHHHHHHHHHHHhhcccccchhHHH-----hCChhhhhhhhhcccHHHHHHHHHHH
Confidence 999999999876543 334558899999999999999 654 89999999999999999999999999
Q ss_pred H---HHHHHHHHHHhcCCc--cc--cHHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhHHHHHHHhhhc
Q 002565 644 S---DSLKKFKAFADAGTV--NQ--NYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLET 716 (907)
Q Consensus 644 ~---~~~~~~~~~~~~g~~--~~--~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~~~ll~~le~ 716 (907)
. .....+......+.. .. ...+++..+++||++|+||.++........
T Consensus 612 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~lr~~~~~p~l~~~~~~~~~------------------------- 666 (866)
T COG0553 612 EGAEKNQQLLEDLEKADSDENRIGDSELNILALLTRLRQICNHPALVDEGLEATF------------------------- 666 (866)
T ss_pred HHHHHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHhccCcccccccccccc-------------------------
Confidence 8 555555543332210 11 367899999999999999999886310000
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCccccc
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADK 796 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~ 796 (907)
+..|.....+.....|.
T Consensus 667 ----~~~~~~~~~~~~~~~~~----------------------------------------------------------- 683 (866)
T COG0553 667 ----DRIVLLLREDKDFDYLK----------------------------------------------------------- 683 (866)
T ss_pred ----chhhhhhhccccccccc-----------------------------------------------------------
Confidence 00000000000000000
Q ss_pred CCCcCCCccc-hhHHHHHHHH-HHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHh
Q 002565 797 SGILDNEYIS-SKIRTVLDIL-HTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQ 874 (907)
Q Consensus 797 ~~~~~~~~~S-sKi~aLlelL-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~ 874 (907)
...+..+ .|+..+.++| ..+...+. ..||||||||+.++++|+..|+.
T Consensus 684 ---~~~~~~s~~k~~~l~~ll~~~~~~~~~---------------------------~~kvlifsq~t~~l~il~~~l~~ 733 (866)
T COG0553 684 ---KPLIQLSKGKLQALDELLLDKLLEEGH---------------------------YHKVLIFSQFTPVLDLLEDYLKA 733 (866)
T ss_pred ---chhhhccchHHHHHHHHHHHHHHhhcc---------------------------cccEEEEeCcHHHHHHHHHHHHh
Confidence 0111245 7999999999 66665543 13999999999999999999999
Q ss_pred CCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 875 HCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 875 ~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
.++.|+++||+++.++|+.+|++|++++++.||
T Consensus 734 ~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~v~ 766 (866)
T COG0553 734 LGIKYVRLDGSTPAKRRQELIDRFNADEEEKVF 766 (866)
T ss_pred cCCcEEEEeCCCChhhHHHHHHHhhcCCCCceE
Confidence 999999999999999999999999998777664
No 16
>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=5.5e-47 Score=416.04 Aligned_cols=291 Identities=40% Similarity=0.643 Sum_probs=227.9
Q ss_pred HHHHHHHHHHHhh------hccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCc
Q 002565 278 HQKIALAWMLQKE------TRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNA 351 (907)
Q Consensus 278 hQ~~gv~wml~~e------~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (907)
||+.||.||+.++ ......+|||||||||||||+++|+++..+....
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~--------------------------- 53 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEF--------------------------- 53 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCC---------------------------
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhcc---------------------------
Confidence 8999999999998 1122458999999999999999999998554320
Q ss_pred CcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCC--CCCCccc
Q 002565 352 GLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGS--RTKDPVE 429 (907)
Q Consensus 352 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~--r~~~~~~ 429 (907)
.....+++|||||.+++.||..||.+|+.+. .+++++|+|.. +......
T Consensus 54 ----------------------------~~~~~~~~LIv~P~~l~~~W~~E~~~~~~~~-~~~v~~~~~~~~~~~~~~~~ 104 (299)
T PF00176_consen 54 ----------------------------PQRGEKKTLIVVPSSLLSQWKEEIEKWFDPD-SLRVIIYDGDSERRRLSKNQ 104 (299)
T ss_dssp ----------------------------TTSS-S-EEEEE-TTTHHHHHHHHHHHSGT--TS-EEEESSSCHHHHTTSSS
T ss_pred ----------------------------ccccccceeEeeccchhhhhhhhhccccccc-cccccccccccccccccccc
Confidence 0022245999999999999999999999543 67999999988 3334456
Q ss_pred cCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCccc
Q 002565 430 LAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAK 509 (907)
Q Consensus 430 l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~ 509 (907)
...++|||+||+.+...... .....|..
T Consensus 105 ~~~~~vvi~ty~~~~~~~~~----------------------------------------------------~~~~~l~~ 132 (299)
T PF00176_consen 105 LPKYDVVITTYETLRKARKK----------------------------------------------------KDKEDLKQ 132 (299)
T ss_dssp CCCSSEEEEEHHHHH--TST----------------------------------------------------HTTHHHHT
T ss_pred cccceeeecccccccccccc----------------------------------------------------cccccccc
Confidence 68899999999999821000 01122666
Q ss_pred ccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHhccccccCchh
Q 002565 510 VGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLH 589 (907)
Q Consensus 510 ~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~~~pi~~~~~~ 589 (907)
+.|++||+||||.+||..+..++++..|++.+||+|||||++|++.|||++++||.++.+.+...|.+.|..+.......
T Consensus 133 ~~~~~vIvDEaH~~k~~~s~~~~~l~~l~~~~~~lLSgTP~~n~~~dl~~~l~~L~~~~~~~~~~f~~~~~~~~~~~~~~ 212 (299)
T PF00176_consen 133 IKWDRVIVDEAHRLKNKDSKRYKALRKLRARYRWLLSGTPIQNSLEDLYSLLRFLNPDPFSDRRSFKKWFYRPDKENSYE 212 (299)
T ss_dssp SEEEEEEETTGGGGTTTTSHHHHHHHCCCECEEEEE-SS-SSSGSHHHHHHHHHHCTTTCSSHHHHHHHTHHHHHTHHHH
T ss_pred ccceeEEEecccccccccccccccccccccceEEeeccccccccccccccchheeeccccccchhhhhhhhhhccccccc
Confidence 78999999999999999999999999999999999999999999999999999999999999999999886664444556
Q ss_pred hHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHH
Q 002565 590 GYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLM 669 (907)
Q Consensus 590 ~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~~~g~~~~~~~~iL~~ 669 (907)
...+|+.++..+++||+++++.. .||++.+.++.|+||++|+++|+.+.......+.... .....+...++..
T Consensus 213 ~~~~L~~~l~~~~~r~~~~d~~~-----~lp~~~~~~~~~~ls~~q~~~Y~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ 285 (299)
T PF00176_consen 213 NIERLRELLSEFMIRRTKKDVEK-----ELPPKIEHVINVELSPEQRELYNELLKEARENLKQSS--RKKSKKLSSLLQI 285 (299)
T ss_dssp HHHHHHHHHCCCEECHCGGGGCT-----TSTCEEEEEEEEGG-HHHHHHHHHHHHHHGGCCTT-T----TCHHHHHHHHH
T ss_pred cccccccccchhhhhhhcccccc-----cCCceEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhhc--ccchhhHHHHHHH
Confidence 77899999999999999999843 7999999999999999999999988777665443222 2345677889999
Q ss_pred HHHHHHhcCCcccc
Q 002565 670 LLRLRQACDHPLLV 683 (907)
Q Consensus 670 L~rLRqic~hP~L~ 683 (907)
+.+|||+|+||.|+
T Consensus 286 ~~~lr~~c~hp~l~ 299 (299)
T PF00176_consen 286 LKRLRQVCNHPYLV 299 (299)
T ss_dssp HHHHHHHHH-THHC
T ss_pred HHHHHHHhCCcccC
Confidence 99999999999875
No 17
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=1.3e-45 Score=414.83 Aligned_cols=315 Identities=23% Similarity=0.303 Sum_probs=240.3
Q ss_pred cccCchHHHHHHHHHHHhhhc------cccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCC
Q 002565 272 SVNLLKHQKIALAWMLQKETR------SLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDD 345 (907)
Q Consensus 272 ~~~L~phQ~~gv~wml~~e~~------~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (907)
.--|+|||+-|++||+...-. ...++|||||+.||||||+|+|+|+-...++
T Consensus 252 a~v~kPHQiGGiRFlYDN~iESl~rykkSsGFGCILAHSMGLGKTlQVisF~diflRh---------------------- 309 (1387)
T KOG1016|consen 252 AHVLKPHQIGGIRFLYDNTIESLGRYKKSSGFGCILAHSMGLGKTLQVISFSDIFLRH---------------------- 309 (1387)
T ss_pred HhhcCccccCcEEEehhhHHHHHhhccccCCcceeeeeccccCceeEEeehhHHHhhc----------------------
Confidence 445999999999999865321 1247999999999999999999998765443
Q ss_pred CCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCC--------CCCeEEEE
Q 002565 346 DDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPD--------KAALSVLI 417 (907)
Q Consensus 346 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~--------~~~l~V~v 417 (907)
.+++++|+|+|-..+.||..||..|+|. ...+.|++
T Consensus 310 ------------------------------------T~AKtVL~ivPiNTlQNWlsEfnmWiP~y~sD~~vrpR~F~vf~ 353 (1387)
T KOG1016|consen 310 ------------------------------------TKAKTVLVIVPINTLQNWLSEFNMWIPKYFSDTGVRPRSFEVFL 353 (1387)
T ss_pred ------------------------------------CccceEEEEEehHHHHHHHHHhhhhcCCCcccCCCccceeEEEE
Confidence 5678899999999999999999999985 12356666
Q ss_pred EeCCCCCCCc------cccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCC
Q 002565 418 YHGGSRTKDP------VELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKG 491 (907)
Q Consensus 418 ~~G~~r~~~~------~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~ 491 (907)
+....++-+. .......|+++.|++++--..+ +.++ +.|.++.
T Consensus 354 LnD~~KT~~~Rakvi~~Wv~~GGVlLvGYemfRLL~lk-----------------------------~~~~--~grpkkt 402 (1387)
T KOG1016|consen 354 LNDGVKTFDQRAKVIEQWVQTGGVLLVGYEMFRLLILK-----------------------------TLPK--KGRPKKT 402 (1387)
T ss_pred ecCchhhHHHHHHHHHHHhccCCEEEehHHHHHHHHHh-----------------------------cccc--cCCcccc
Confidence 6666544322 1235778999999999753221 1111 1111111
Q ss_pred CCCCCCC------------CcccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhh
Q 002565 492 KKGNVNS------------SIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYS 559 (907)
Q Consensus 492 ~k~~~~~------------~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~s 559 (907)
+|...+. ........|..-+.|+||+||+|+|||..+.++.|++.|++++|+.|||-|+||++-|+|.
T Consensus 403 ~kr~~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrRRiVLTGYPLQNNLlEYwC 482 (1387)
T KOG1016|consen 403 LKRISSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRRRIVLTGYPLQNNLLEYWC 482 (1387)
T ss_pred ccccCCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhceeEEEeccccccchHHHhh
Confidence 1111110 0111234567778999999999999999999999999999999999999999999999999
Q ss_pred hHHhhccCCCCchHHHHhHhccccccCch------------hhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEE
Q 002565 560 YFRFLKYDPYAVYKSFYSTIKIPISRNSL------------HGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLT 627 (907)
Q Consensus 560 ll~fL~p~~~~~~~~F~~~~~~pi~~~~~------------~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v 627 (907)
|++|++|+++++.++|..+|++||..+.. .+...|+.+|..|+-||+..-+. +.||.|.++++
T Consensus 483 MVDFVRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryRtHVLhsLl~GFVQRR~HtvLk-----~~LP~k~EyVi 557 (1387)
T KOG1016|consen 483 MVDFVRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYRTHVLHSLLKGFVQRRTHTVLK-----KILPEKKEYVI 557 (1387)
T ss_pred hheeccccccchHHHHHHHhhccccCCccccCChhHHHHHHHHHHHHHHHHHHHHHhcchhhHh-----hhcccccceEE
Confidence 99999999999999999999999988741 23456899999999999987554 48999999999
Q ss_pred EeCCCHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHHHHHHhcCCccccccc
Q 002565 628 KVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEY 686 (907)
Q Consensus 628 ~v~lS~~Er~lY~~l~~~~~~~~~~~~~~g~~~~~~~~iL~~L~rLRqic~hP~L~~~~ 686 (907)
.|.+|..||++|..+.-.....+. ..+ -...+.|.+..-..+|.+||.++..+
T Consensus 558 Lvr~s~iQR~LY~~Fm~d~~r~~~---~~~---~~~~NPLkAF~vCcKIWNHPDVLY~~ 610 (1387)
T KOG1016|consen 558 LVRKSQIQRQLYRNFMLDAKREIA---ANN---DAVFNPLKAFSVCCKIWNHPDVLYRL 610 (1387)
T ss_pred EEeHHHHHHHHHHHHHHHHHHhhc---ccc---ccccChHHHHHHHHHhcCChHHHHHH
Confidence 999999999999988755544332 111 12235677777888999999988763
No 18
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=4e-40 Score=358.78 Aligned_cols=346 Identities=26% Similarity=0.337 Sum_probs=254.2
Q ss_pred CCCCcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCC
Q 002565 266 LPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDD 345 (907)
Q Consensus 266 ~P~~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (907)
+|+.+.. .|+|||++||.|.+++.. -+|||||||||||+||||...+.+.
T Consensus 191 ~d~kLvs-~LlPFQreGv~faL~RgG------R~llADeMGLGKTiQAlaIA~yyra----------------------- 240 (689)
T KOG1000|consen 191 MDPKLVS-RLLPFQREGVIFALERGG------RILLADEMGLGKTIQALAIARYYRA----------------------- 240 (689)
T ss_pred cCHHHHH-hhCchhhhhHHHHHhcCC------eEEEecccccchHHHHHHHHHHHhh-----------------------
Confidence 3555544 599999999999996532 2599999999999999999987653
Q ss_pred CCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCC-CC
Q 002565 346 DDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGS-RT 424 (907)
Q Consensus 346 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~-r~ 424 (907)
.++.|||||++|...|++++.+|+|.. ..+.+..+.. +.
T Consensus 241 --------------------------------------EwplliVcPAsvrftWa~al~r~lps~--~pi~vv~~~~D~~ 280 (689)
T KOG1000|consen 241 --------------------------------------EWPLLIVCPASVRFTWAKALNRFLPSI--HPIFVVDKSSDPL 280 (689)
T ss_pred --------------------------------------cCcEEEEecHHHhHHHHHHHHHhcccc--cceEEEecccCCc
Confidence 256999999999999999999999864 3344444443 22
Q ss_pred CCccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCC
Q 002565 425 KDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGC 504 (907)
Q Consensus 425 ~~~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~ 504 (907)
.+. -....|+|+||+++....
T Consensus 281 ~~~--~t~~~v~ivSye~ls~l~--------------------------------------------------------- 301 (689)
T KOG1000|consen 281 PDV--CTSNTVAIVSYEQLSLLH--------------------------------------------------------- 301 (689)
T ss_pred ccc--ccCCeEEEEEHHHHHHHH---------------------------------------------------------
Confidence 111 123469999999987521
Q ss_pred CCcccccccEEEEccCcccCCcchHHHHHHHhh--hcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHhccc
Q 002565 505 GPLAKVGWFRVVLDEAQTIKNHRTQVARACCSL--RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIP 582 (907)
Q Consensus 505 ~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L--~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~~~p 582 (907)
..|..-.|.+||+||+|++|+..+++.+++..+ .+.+.++|||||-..++.|||.+++.+++-.|.++.+|..+|+..
T Consensus 302 ~~l~~~~~~vvI~DEsH~Lk~sktkr~Ka~~dllk~akhvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~ 381 (689)
T KOG1000|consen 302 DILKKEKYRVVIFDESHMLKDSKTKRTKAATDLLKVAKHVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDG 381 (689)
T ss_pred HHHhcccceEEEEechhhhhccchhhhhhhhhHHHHhhheEEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCc
Confidence 014445699999999999999999999999888 789999999999999999999999999999999999999998754
Q ss_pred cc------cCchhhHHHHHHHHH-HHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHh
Q 002565 583 IS------RNSLHGYKKLQAVLR-AIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFAD 655 (907)
Q Consensus 583 i~------~~~~~~~~~L~~lL~-~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~~ 655 (907)
-. -.+..++.+|..+|. .+||||+|.+|+. .||||..+++.+ ....+-+.-+.+......
T Consensus 382 k~vr~~~Dykg~tnl~EL~~lL~k~lMIRRlK~dvL~-----qLPpKrr~Vv~~-~~gr~da~~~~lv~~a~~------- 448 (689)
T KOG1000|consen 382 KQVRFCFDYKGCTNLEELAALLFKRLMIRRLKADVLK-----QLPPKRREVVYV-SGGRIDARMDDLVKAAAD------- 448 (689)
T ss_pred cccceeeecCCCCCHHHHHHHHHHHHHHHHHHHHHHh-----hCCccceEEEEE-cCCccchHHHHHHHHhhh-------
Confidence 22 123456788998885 6899999999987 899996555544 444333333333322211
Q ss_pred cCCccccHHHHHHHHHHHHHhcCCccccccccccccccchHHHhhcCChhHHHHHHHhhhcccccccccCCCCCCccccc
Q 002565 656 AGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTM 735 (907)
Q Consensus 656 ~g~~~~~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~~~ll~~le~~~~~C~iC~d~~e~pvit~ 735 (907)
++. .+... - .|-.++..
T Consensus 449 -~t~----~~~~e----~----~~~~l~l~-------------------------------------------------- 465 (689)
T KOG1000|consen 449 -YTK----VNSME----R----KHESLLLF-------------------------------------------------- 465 (689)
T ss_pred -cch----hhhhh----h----hhHHHHHH--------------------------------------------------
Confidence 000 00000 0 00000000
Q ss_pred cCcccchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCcccccCCCcCCCccchhHHHHHHH
Q 002565 736 CGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDI 815 (907)
Q Consensus 736 C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~SsKi~aLlel 815 (907)
| +...-.|+.++.+.
T Consensus 466 ------------y-----------------------------------------------------~~tgiaK~~av~ey 480 (689)
T KOG1000|consen 466 ------------Y-----------------------------------------------------SLTGIAKAAAVCEY 480 (689)
T ss_pred ------------H-----------------------------------------------------HHhcccccHHHHHH
Confidence 0 00123577787777
Q ss_pred HHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHH
Q 002565 816 LHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAV 895 (907)
Q Consensus 816 L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I 895 (907)
|....-- +..++.|+|||++...+||-|+..+.++++.++||||+++..+|+.++
T Consensus 481 i~~~~~l-------------------------~d~~~~KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~ 535 (689)
T KOG1000|consen 481 ILENYFL-------------------------PDAPPRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLC 535 (689)
T ss_pred HHhCccc-------------------------ccCCCceEEEEehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHHH
Confidence 6541110 112356999999999999999999999999999999999999999999
Q ss_pred HHhcCCCCccc
Q 002565 896 KDFNTDREVCS 906 (907)
Q Consensus 896 ~~F~~dp~v~V 906 (907)
+.||.+.+++|
T Consensus 536 qsFQ~seev~V 546 (689)
T KOG1000|consen 536 QSFQTSEEVRV 546 (689)
T ss_pred HHhccccceEE
Confidence 99999999886
No 19
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=3.8e-39 Score=394.16 Aligned_cols=343 Identities=19% Similarity=0.247 Sum_probs=245.2
Q ss_pred ccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCC
Q 002565 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (907)
..+.|+|||+..+.+++.+.. ...||||||||||||+|++++..+...
T Consensus 149 ~~~~l~pHQl~~~~~vl~~~~-----~R~LLADEvGLGKTIeAglil~~l~~~--------------------------- 196 (956)
T PRK04914 149 ARASLIPHQLYIAHEVGRRHA-----PRVLLADEVGLGKTIEAGMIIHQQLLT--------------------------- 196 (956)
T ss_pred CCCCCCHHHHHHHHHHhhccC-----CCEEEEeCCcCcHHHHHHHHHHHHHHc---------------------------
Confidence 357799999999988776543 347999999999999998888654321
Q ss_pred cCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCC----CC
Q 002565 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRT----KD 426 (907)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~----~~ 426 (907)
+..+++|||||++|+.||..|+.+++. +.+.+|++..-. ..
T Consensus 197 -------------------------------g~~~rvLIVvP~sL~~QW~~El~~kF~----l~~~i~~~~~~~~~~~~~ 241 (956)
T PRK04914 197 -------------------------------GRAERVLILVPETLQHQWLVEMLRRFN----LRFSLFDEERYAEAQHDA 241 (956)
T ss_pred -------------------------------CCCCcEEEEcCHHHHHHHHHHHHHHhC----CCeEEEcCcchhhhcccc
Confidence 445789999999999999999998884 566666654311 11
Q ss_pred ccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCC
Q 002565 427 PVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGP 506 (907)
Q Consensus 427 ~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~ 506 (907)
...+..+++||+||+.+++.... ...
T Consensus 242 ~~pf~~~~~vI~S~~~l~~~~~~------------------------------------------------------~~~ 267 (956)
T PRK04914 242 DNPFETEQLVICSLDFLRRNKQR------------------------------------------------------LEQ 267 (956)
T ss_pred cCccccCcEEEEEHHHhhhCHHH------------------------------------------------------HHH
Confidence 13445789999999999853100 001
Q ss_pred cccccccEEEEccCcccCCc---chHHHHHHHhh--hcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHhcc
Q 002565 507 LAKVGWFRVVLDEAQTIKNH---RTQVARACCSL--RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKI 581 (907)
Q Consensus 507 L~~~~w~rVIlDEAH~IKN~---~S~~~ka~~~L--~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~~~ 581 (907)
+....|++||+||||++||. .|+.++++..| +++++++|||||++|++.|+|++|+||+|+.|+++..|....+.
T Consensus 268 l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~ 347 (956)
T PRK04914 268 ALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQ 347 (956)
T ss_pred HhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHh
Confidence 45668999999999999953 56778888888 67899999999999999999999999999999999999865432
Q ss_pred --cc--------ccC--chhhHHHH-------------------------------HHHH-----HHHHhhhccccccCC
Q 002565 582 --PI--------SRN--SLHGYKKL-------------------------------QAVL-----RAIMLRRTKGTFIDG 613 (907)
Q Consensus 582 --pi--------~~~--~~~~~~~L-------------------------------~~lL-----~~~mLRRtK~dv~~g 613 (907)
|+ ... .......| +.++ ..+|+|+++++|.
T Consensus 348 ~~~~a~~v~~l~~~~~~~~~~~~~l~~ll~~~~~~~l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~-- 425 (956)
T PRK04914 348 YRPVADAVQALLAGEKLSDDALNALGELLGEQDIEPLLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVK-- 425 (956)
T ss_pred hHHHHHHHHHHhcCCcCCHHHHHHHHHHhcccchhHHHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhc--
Confidence 11 000 00001111 1111 1578999999875
Q ss_pred CCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHHHHHHhcCCcccccccccccccc
Q 002565 614 QPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGK 693 (907)
Q Consensus 614 ~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~~~g~~~~~~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~ 693 (907)
.+|++..+.+.+++.++.+..+... . ...+++ +.+|..+..
T Consensus 426 ----~fp~R~~~~~~l~~~~~y~~~~~~~---~-----------------------~~~~~~-~l~pe~~~~-------- 466 (956)
T PRK04914 426 ----GFPKRELHPIPLPLPEQYQTAIKVS---L-----------------------EARARD-MLYPEQIYQ-------- 466 (956)
T ss_pred ----CCCcCceeEeecCCCHHHHHHHHHh---H-----------------------HHHHHh-hcCHHHHHH--------
Confidence 5999999999999977543333210 0 011122 222211100
Q ss_pred chHHHhhcCChhHHHHHHHhhhcccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCccccccc
Q 002565 694 ISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSK 773 (907)
Q Consensus 694 ~~~e~~~~l~~e~~~~ll~~le~~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~ 773 (907)
..+.
T Consensus 467 -------------------~~~~--------------------------------------------------------- 470 (956)
T PRK04914 467 -------------------EFED--------------------------------------------------------- 470 (956)
T ss_pred -------------------HHhh---------------------------------------------------------
Confidence 0000
Q ss_pred cccccccCCCCCCCCCCCcccccCCCcCCCccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCc
Q 002565 774 TTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPI 853 (907)
Q Consensus 774 ~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 853 (907)
....+..++|+..|+++|+... + .
T Consensus 471 -------------------------~~~~~~~d~Ki~~L~~~L~~~~--~-----------------------------~ 494 (956)
T PRK04914 471 -------------------------NATWWNFDPRVEWLIDFLKSHR--S-----------------------------E 494 (956)
T ss_pred -------------------------hhhccccCHHHHHHHHHHHhcC--C-----------------------------C
Confidence 0000124689999999987543 2 3
Q ss_pred eEEEEecchhhHHHHHHHH-HhCCCeEEEEEccCCHHHHHHHHHHhcCCC-CcccC
Q 002565 854 KSIVFSQWTRMLDLVENSL-NQHCIQYRRLDGTMSLPARDRAVKDFNTDR-EVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L-~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp-~v~VL 907 (907)
|||||+++..+++.|+..| ...||.++.|+|+|+..+|+++++.|++++ +++||
T Consensus 495 KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~VL 550 (956)
T PRK04914 495 KVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDGAQVL 550 (956)
T ss_pred eEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCCCCccEE
Confidence 9999999999999999999 567999999999999999999999999854 66664
No 20
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=4.4e-41 Score=392.01 Aligned_cols=383 Identities=26% Similarity=0.384 Sum_probs=291.4
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
..|.+||.+|++|+......+ .-+|||||||||||+|+|+++..+...
T Consensus 294 g~L~~~qleGln~L~~~ws~~---~~~ilADEmgLgktVqsi~fl~sl~~~----------------------------- 341 (696)
T KOG0383|consen 294 GTLHPYQLEGLNWLRISWSPG---VDAILADEMGLGKTVQSIVFLYSLPKE----------------------------- 341 (696)
T ss_pred ccccccchhhhhhhhcccccC---CCcccchhhcCCceeeEEEEEeecccc-----------------------------
Confidence 579999999999999776644 348999999999999999988654321
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCC
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAK 432 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~ 432 (907)
.....+.||++|.+.+-+|.+|+..|.+ .+.|..|+|....+.......
T Consensus 342 ----------------------------~~~~~P~Lv~ap~sT~~nwe~e~~~wap---~~~vv~~~G~~k~r~iirepe 390 (696)
T KOG0383|consen 342 ----------------------------IHSPGPPLVVAPLSTIVNWEREFELWAP---SFYVVPYPGTAKSRAIIREPE 390 (696)
T ss_pred ----------------------------cCCCCCceeeccCccccCCCCchhccCC---CcccccCCCCccchhhhhccc
Confidence 0223568999999999999999999988 688888999876442211100
Q ss_pred ---Cc-EEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcc
Q 002565 433 ---YD-VVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLA 508 (907)
Q Consensus 433 ---~d-VVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~ 508 (907)
-| -+.++-.+.+. ++. ...+....-...+..+.+...+.
T Consensus 391 ~s~ed~~~~~~~~i~~~---------------------------------~~~----s~~k~~vl~~s~~~~~~~~~il~ 433 (696)
T KOG0383|consen 391 FSFEDSSIKSSPKISEM---------------------------------KTE----SSAKFHVLLPSYETIEIDQSILF 433 (696)
T ss_pred ccccccccccCCccccc---------------------------------cch----hhcccccCCCchhhcccCHHHHh
Confidence 00 00000000000 000 00001111112223334455689
Q ss_pred cccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHhccccccCch
Q 002565 509 KVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSL 588 (907)
Q Consensus 509 ~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~~~pi~~~~~ 588 (907)
.+.|..||+||+|++||..+.+.+.+......++++|||||.||++.|||++|+||.++.|.+..+|.+.|..- ...
T Consensus 434 ~v~w~~livde~~rlkn~~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt~~~~~~~~~f~e~~~d~---~~~ 510 (696)
T KOG0383|consen 434 SVQWGLLIVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLTPGRFNSLEWFLEEFHDI---SCE 510 (696)
T ss_pred hhhcceeEeechhhcccchhhhhhhccccccchhhhccCCcchhhhHHhhhcccccCcccccchhhhhhhcchh---hHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999887532 234
Q ss_pred hhHHHHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHH
Q 002565 589 HGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILL 668 (907)
Q Consensus 589 ~~~~~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~~~g~~~~~~~~iL~ 668 (907)
...++|+.++.++|+||.|.||++ ..|.|++-.+.+.|++.|++.|..++..-...+.. ..+....+.
T Consensus 511 ~~~~~l~~l~~p~~lrr~k~d~l~-----~~P~Kte~i~~~~~~~~Q~~~yk~~~t~n~~~l~~-------~~~~~s~~n 578 (696)
T KOG0383|consen 511 EQIKKLHLLLCPHMLRRLKLDVLK-----PMPLKTELIGRVELSPCQKKYYKKILTRNWQGLLA-------GVHQYSLLN 578 (696)
T ss_pred HHHHhhccccCchhhhhhhhhhcc-----CCCccceeEEEEecCHHHHHHHHHHHcCChHHHhh-------cchhHHHHH
Confidence 567889999999999999999997 79999999999999999999999998765554433 224456678
Q ss_pred HHHHHHHhcCCccccccccccccccchHHHhhcCChhHHHHHHHhhhcccccccccCCCCCCccccccCcccchhhhhhh
Q 002565 669 MLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEY 748 (907)
Q Consensus 669 ~L~rLRqic~hP~L~~~~~~~~~~~~~~e~~~~l~~e~~~~ll~~le~~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~ 748 (907)
.++.||+.|+||+++.... ..... ...+-+.+
T Consensus 579 ~~mel~K~~~hpy~~~~~e--~~~~~------------~~~~~~~l---------------------------------- 610 (696)
T KOG0383|consen 579 IVMELRKQCNHPYLSPLEE--PLEEN------------GEYLGSAL---------------------------------- 610 (696)
T ss_pred HHHHHHHhhcCcccCcccc--ccccc------------hHHHHHHH----------------------------------
Confidence 8999999999999987611 10000 00000000
Q ss_pred ccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCcccccCCCcCCCccchhHHHHHHHHHHhhhccCCcch
Q 002565 749 ITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSI 828 (907)
Q Consensus 749 i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~SsKi~aLlelL~~~~~~~~~~~~ 828 (907)
...+.|+..|+..++.+...++
T Consensus 611 ------------------------------------------------------~k~~~k~~~l~~~~~~l~~~gh---- 632 (696)
T KOG0383|consen 611 ------------------------------------------------------IKASGKLTLLLKMLKKLKSSGH---- 632 (696)
T ss_pred ------------------------------------------------------HHHHHHHHHHHHHHHHHHhcch----
Confidence 0147799999999998888877
Q ss_pred hhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 829 VEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 829 ~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
||+||||++.+||+||..+.-.| .|.|+||.....+|+++|++||..+
T Consensus 633 -------------------------rvl~~~q~~~~ldlled~~~~~~-~~~r~dG~~~~~~rq~ai~~~n~~~ 680 (696)
T KOG0383|consen 633 -------------------------RVLIFSQMIHMLDLLEDYLTYEG-KYERIDGPITGPERQAAIDRFNAPG 680 (696)
T ss_pred -------------------------hhHHHHHHHHHHHHhHHHHhccC-cceeccCCccchhhhhhccccCCCC
Confidence 99999999999999999999999 9999999999999999999999543
No 21
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=100.00 E-value=4.1e-33 Score=331.93 Aligned_cols=377 Identities=30% Similarity=0.468 Sum_probs=254.8
Q ss_pred CCCCCcccccCchHHHHHHHHHHHhhhcc--------------------------------------ccccCceeecCCC
Q 002565 265 TLPDGLLSVNLLKHQKIALAWMLQKETRS--------------------------------------LHCLGGILADDQG 306 (907)
Q Consensus 265 ~~P~~~l~~~L~phQ~~gv~wml~~e~~~--------------------------------------~~~~GGILADeMG 306 (907)
+.+... .-.+++||...+.||.+++... ..+.||.+||+||
T Consensus 237 D~~~~~-~~~~r~~~~r~~~~~~~~~~e~~~~s~~~It~~~~~di~~~~~~~l~~~~~~~~~~l~~e~l~~~~t~~de~g 315 (1394)
T KOG0298|consen 237 DLIKRF-QSQLRKYQQRTVSWMPSREQEYTQVSANFITLHLIDDITRVFKLKLCFQFYSFEEELPKESLSPGGTLADEMG 315 (1394)
T ss_pred hHHHHh-hhhccHHHHHHHHhccccchhhhhccccccccccccchHHHhhhccceecccccccchhccCCCcchHHHHhh
Confidence 334443 3469999999999999887620 1357899999999
Q ss_pred CchHHHHHHHHHHhhhccccc--hhhhc---------------cccccccccCCCCCCCCCcCcccccccC--------C
Q 002565 307 LGKTISIIALIQMQRSLQSKS--KTEVL---------------GNQKTEALNLDDDDDNGNAGLDKVKETG--------E 361 (907)
Q Consensus 307 LGKTiqaIali~~~~~~~~~~--~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~k~~~--------~ 361 (907)
||||+.-+|++...+...... ..... .+++..-+...+..+............+ .
T Consensus 316 l~k~~E~~a~~~~n~~p~~~~~~s~~~~~~~~~~~~~e~~~~r~nq~~~~~~~~~~~~g~~~~~ade~~~qk~~~~l~~~ 395 (1394)
T KOG0298|consen 316 LGKTVEFLAMLTSNRRPPDSYRNSYLHQRLEEYSDEVELKRSRINQKDEVLCSGDKKHGKRVQCADEMGWQKTSEKLILE 395 (1394)
T ss_pred hHHHHHHHHHHhccCCCcccccchHHHHHHHHHhhhhHhHHhHhhhhhHHhhcCCccCCcceeehhhhhccchHHHHHHH
Confidence 999999999987765432100 00000 0111111111111000000000001000 0
Q ss_pred CCC-CC-CCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCC--CccccCCCcEEE
Q 002565 362 SDD-IK-PVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTK--DPVELAKYDVVL 437 (907)
Q Consensus 362 ~~~-~~-~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~--~~~~l~~~dVVI 437 (907)
-.+ .+ ....++.-..+.......++||||||.+++.||-.||.+|++. .++|+.|.|....- .+.++.+||||+
T Consensus 396 l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~aIl~QW~~EI~kH~~~--~lKv~~Y~Girk~~~~~~~el~~yDIVl 473 (1394)
T KOG0298|consen 396 LSDLPKLCPSCCSELVKEGENLVETGATLIICPNAILMQWFEEIHKHISS--LLKVLLYFGIRKTFWLSPFELLQYDIVL 473 (1394)
T ss_pred HhcccccchhhhhHHHhcccceeecCceEEECcHHHHHHHHHHHHHhccc--cceEEEEechhhhcccCchhhhccCEEE
Confidence 011 00 0111222233333445678999999999999999999999985 47999999987643 347788999999
Q ss_pred ecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccccccEEEE
Q 002565 438 TTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVL 517 (907)
Q Consensus 438 tTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~~w~rVIl 517 (907)
|||++++.++..-. ++.... ..+..+| .....+||..+.|+||+|
T Consensus 474 TtYdiLr~El~hte-------------------~~~~~R----~lR~qsr------------~~~~~SPL~~v~wWRIcl 518 (1394)
T KOG0298|consen 474 TTYDILRNELYHTE-------------------DFGSDR----QLRHQSR------------YMRPNSPLLMVNWWRICL 518 (1394)
T ss_pred eehHHHHhHhhccc-------------------ccCChh----hhhcccC------------CCCCCCchHHHHHHHHhh
Confidence 99999999875410 000000 0000000 112357899999999999
Q ss_pred ccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHhccccccCchhhHHHHHHH
Q 002565 518 DEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLHGYKKLQAV 597 (907)
Q Consensus 518 DEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~~~pi~~~~~~~~~~L~~l 597 (907)
||||.+....|+.++.+..|.+.+|||+||||||+ ++|||.||.||+..||+...+|.+.+..++... .....+.++
T Consensus 519 DEaQMvesssS~~a~M~~rL~~in~W~VTGTPiq~-Iddl~~Ll~fLk~~Pf~~~~~~iq~v~~~~~~r--a~~~~~~dl 595 (1394)
T KOG0298|consen 519 DEAQMVESSSSAAAEMVRRLHAINRWCVTGTPIQK-IDDLFPLLEFLKLPPFCRPQDFIQTVDKAYQLR--AKCEPLLDL 595 (1394)
T ss_pred hHHHhhcchHHHHHHHHHHhhhhceeeecCCchhh-hhhhHHHHHHhcCCCCCChHHHHHHHHHHHHHH--hhhhhHHHH
Confidence 99999999999999999999999999999999999 999999999999999999999999887766554 344578888
Q ss_pred HHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHH----HHHHHHHHHHHHHhc--CCc-------cccHH
Q 002565 598 LRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKK----LESDSLKKFKAFADA--GTV-------NQNYA 664 (907)
Q Consensus 598 L~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~----l~~~~~~~~~~~~~~--g~~-------~~~~~ 664 (907)
+...+-|+.|-.|.. .+.+||-.+.+.+..+++.|-.+|.. ...+++..+...... +.. ....+
T Consensus 596 ~~q~l~R~~k~~v~~---el~~ppq~e~~h~~~~sa~~s~v~r~~~~t~v~e~~~~~~~~k~~~l~~~sd~~~l~~~~~a 672 (1394)
T KOG0298|consen 596 FKQLLWRTFKSKVEH---ELGLPPQTEVVHRLELSAVESHVYREEHFTCVEEFAAAVEKLKRHNLDNSSDLASLSPQLLA 672 (1394)
T ss_pred HHhhhhhhhhHHHHH---HhCCCchHHHHHHHHhcchhhhhhHHHHhhHHHHHHHHHHHHHHhccccccccccCChhhHH
Confidence 999999999988864 36799998888888887776666554 444444443333211 111 12345
Q ss_pred HHHHHHHHHHHhcCCcccccc
Q 002565 665 NILLMLLRLRQACDHPLLVKE 685 (907)
Q Consensus 665 ~iL~~L~rLRqic~hP~L~~~ 685 (907)
.++..++||||+||||..-..
T Consensus 673 ~i~~~l~rLRq~Cchplv~~~ 693 (1394)
T KOG0298|consen 673 IILKWLLRLRQACCHPLVGNS 693 (1394)
T ss_pred HHHHHHHHHHHhhcccccccC
Confidence 688899999999999987554
No 22
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.95 E-value=1.3e-26 Score=275.81 Aligned_cols=171 Identities=18% Similarity=0.272 Sum_probs=122.7
Q ss_pred cccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCc
Q 002565 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNA 351 (907)
Q Consensus 272 ~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (907)
...|||||.+++.||+... ..++|||...||+|||+++|+++...
T Consensus 253 ~~~LRpYQ~eAl~~~~~~g----r~r~GIIvLPtGaGKTlvai~aa~~l------------------------------- 297 (732)
T TIGR00603 253 TTQIRPYQEKSLSKMFGNG----RARSGIIVLPCGAGKSLVGVTAACTV------------------------------- 297 (732)
T ss_pred CCCcCHHHHHHHHHHHhcC----CCCCcEEEeCCCCChHHHHHHHHHHh-------------------------------
Confidence 4679999999999997432 23579999999999999999887532
Q ss_pred CcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCcccc
Q 002565 352 GLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVEL 430 (907)
Q Consensus 352 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l 430 (907)
.+++|||||.+ ++.||.+||.+|+... ...+..|.|..+.+. .
T Consensus 298 --------------------------------~k~tLILvps~~Lv~QW~~ef~~~~~l~-~~~I~~~tg~~k~~~---~ 341 (732)
T TIGR00603 298 --------------------------------KKSCLVLCTSAVSVEQWKQQFKMWSTID-DSQICRFTSDAKERF---H 341 (732)
T ss_pred --------------------------------CCCEEEEeCcHHHHHHHHHHHHHhcCCC-CceEEEEecCccccc---c
Confidence 14599999977 5899999999996432 456778888654432 2
Q ss_pred CCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccc
Q 002565 431 AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKV 510 (907)
Q Consensus 431 ~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~ 510 (907)
...+|+|+||+++.+...+... + ......|...
T Consensus 342 ~~~~VvVtTYq~l~~~~~r~~~-------------------~----------------------------~~~l~~l~~~ 374 (732)
T TIGR00603 342 GEAGVVVSTYSMVAHTGKRSYE-------------------S----------------------------EKVMEWLTNR 374 (732)
T ss_pred cCCcEEEEEHHHhhcccccchh-------------------h----------------------------hHHHHHhccc
Confidence 4578999999999764221000 0 0000114456
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchhhhhhhHHhh
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFL 564 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~fL 564 (907)
.|++||+||+|++.+ ....+.+..+.+.+||+|||||+++. +.+..+.||
T Consensus 375 ~~gLII~DEvH~lpA--~~fr~il~~l~a~~RLGLTATP~ReD--~~~~~L~~L 424 (732)
T TIGR00603 375 EWGLILLDEVHVVPA--AMFRRVLTIVQAHCKLGLTATLVRED--DKITDLNFL 424 (732)
T ss_pred cCCEEEEEccccccH--HHHHHHHHhcCcCcEEEEeecCcccC--Cchhhhhhh
Confidence 899999999999954 34455677789999999999999875 344444443
No 23
>PRK13766 Hef nuclease; Provisional
Probab=99.88 E-value=3e-21 Score=239.56 Aligned_cols=213 Identities=15% Similarity=0.165 Sum_probs=140.9
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
.++++||+..+...+.. .+|++.++|+|||++++.++.....
T Consensus 14 ~~~r~yQ~~~~~~~l~~--------n~lv~~ptG~GKT~~a~~~i~~~l~------------------------------ 55 (773)
T PRK13766 14 IEARLYQQLLAATALKK--------NTLVVLPTGLGKTAIALLVIAERLH------------------------------ 55 (773)
T ss_pred CCccHHHHHHHHHHhcC--------CeEEEcCCCccHHHHHHHHHHHHHH------------------------------
Confidence 57899999988887742 4799999999999988877754321
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCc-ccc
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDP-VEL 430 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~-~~l 430 (907)
.+.+++|||||. .|+.||..++.+++... ..++.+++|....... ..+
T Consensus 56 -----------------------------~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~-~~~v~~~~g~~~~~~r~~~~ 105 (773)
T PRK13766 56 -----------------------------KKGGKVLILAPTKPLVEQHAEFFRKFLNIP-EEKIVVFTGEVSPEKRAELW 105 (773)
T ss_pred -----------------------------hCCCeEEEEeCcHHHHHHHHHHHHHHhCCC-CceEEEEeCCCCHHHHHHHH
Confidence 123569999997 68999999999987522 3578888887654322 235
Q ss_pred CCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccc
Q 002565 431 AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKV 510 (907)
Q Consensus 431 ~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~ 510 (907)
..++|+|+|++++.+++.. +.+..-
T Consensus 106 ~~~~iiv~T~~~l~~~l~~-------------------------------------------------------~~~~~~ 130 (773)
T PRK13766 106 EKAKVIVATPQVIENDLIA-------------------------------------------------------GRISLE 130 (773)
T ss_pred hCCCEEEECHHHHHHHHHc-------------------------------------------------------CCCChh
Confidence 6789999999999764311 012234
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhh---hcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHh----Hhccc-
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSL---RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYS----TIKIP- 582 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L---~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~----~~~~p- 582 (907)
.|++||+||||++.+..+....+-..+ +..++++|||||..+ ...+..++.-|.......+..|.. .+..+
T Consensus 131 ~~~liVvDEaH~~~~~~~~~~i~~~~~~~~~~~~il~lTaTP~~~-~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~ 209 (773)
T PRK13766 131 DVSLLIFDEAHRAVGNYAYVYIAERYHEDAKNPLVLGLTASPGSD-EEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVK 209 (773)
T ss_pred hCcEEEEECCccccccccHHHHHHHHHhcCCCCEEEEEEcCCCCC-HHHHHHHHHhCCceEEEEcCCCChhHHhhhccce
Confidence 688999999999987655444332222 345689999999876 566666666665433222221111 11111
Q ss_pred ---cccCchhhHHHHHHHHHHHHhhhcccc
Q 002565 583 ---ISRNSLHGYKKLQAVLRAIMLRRTKGT 609 (907)
Q Consensus 583 ---i~~~~~~~~~~L~~lL~~~mLRRtK~d 609 (907)
+...-...+..++..|..++.++.+.-
T Consensus 210 v~~~~v~l~~~~~~i~~~l~~~~~~~l~~l 239 (773)
T PRK13766 210 IEWVRVELPEELKEIRDLLNEALKDRLKKL 239 (773)
T ss_pred eEEEEeCCcHHHHHHHHHHHHHHHHHHHHH
Confidence 111223456677888888887776653
No 24
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.79 E-value=1.2e-17 Score=193.62 Aligned_cols=209 Identities=22% Similarity=0.261 Sum_probs=141.9
Q ss_pred ccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCC
Q 002565 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (907)
....|++||.+++.-+...... .+.||+.=..|-|||+.++.++....
T Consensus 33 ~~~~lr~yQ~~al~a~~~~~~~---~~~gvivlpTGaGKT~va~~~~~~~~----------------------------- 80 (442)
T COG1061 33 FEFELRPYQEEALDALVKNRRT---ERRGVIVLPTGAGKTVVAAEAIAELK----------------------------- 80 (442)
T ss_pred cCCCCcHHHHHHHHHHHhhccc---CCceEEEeCCCCCHHHHHHHHHHHhc-----------------------------
Confidence 3567999999999766643221 24588999999999999998886421
Q ss_pred cCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccc
Q 002565 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVE 429 (907)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~ 429 (907)
..+|||||.. |+.||.+.+.+++.. .-.+..|.|.......
T Consensus 81 ----------------------------------~~~Lvlv~~~~L~~Qw~~~~~~~~~~--~~~~g~~~~~~~~~~~-- 122 (442)
T COG1061 81 ----------------------------------RSTLVLVPTKELLDQWAEALKKFLLL--NDEIGIYGGGEKELEP-- 122 (442)
T ss_pred ----------------------------------CCEEEEECcHHHHHHHHHHHHHhcCC--ccccceecCceeccCC--
Confidence 1299999965 889999889888752 1245666666543222
Q ss_pred cCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCccc
Q 002565 430 LAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAK 509 (907)
Q Consensus 430 l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~ 509 (907)
.+|+|.||+++.+.... ..+..
T Consensus 123 ---~~i~vat~qtl~~~~~l-------------------------------------------------------~~~~~ 144 (442)
T COG1061 123 ---AKVTVATVQTLARRQLL-------------------------------------------------------DEFLG 144 (442)
T ss_pred ---CcEEEEEhHHHhhhhhh-------------------------------------------------------hhhcc
Confidence 67999999999864100 01233
Q ss_pred ccccEEEEccCcccCCcchHHHHHHHhhhcCc-eEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHhccccccCch
Q 002565 510 VGWFRVVLDEAQTIKNHRTQVARACCSLRAKR-RWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSL 588 (907)
Q Consensus 510 ~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~-R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~~~pi~~~~~ 588 (907)
-.|++||+||+|++-.+... +....+.+.+ +++|||||....-..+.-++.++.+-.|
T Consensus 145 ~~~~liI~DE~Hh~~a~~~~--~~~~~~~~~~~~LGLTATp~R~D~~~~~~l~~~~g~~vy------------------- 203 (442)
T COG1061 145 NEFGLIIFDEVHHLPAPSYR--RILELLSAAYPRLGLTATPEREDGGRIGDLFDLIGPIVY------------------- 203 (442)
T ss_pred cccCEEEEEccccCCcHHHH--HHHHhhhcccceeeeccCceeecCCchhHHHHhcCCeEe-------------------
Confidence 37999999999999654432 3344456666 9999999986654455555555543211
Q ss_pred hhHHHHHHHHHHHHhhhccccc-cCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHH
Q 002565 589 HGYKKLQAVLRAIMLRRTKGTF-IDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSL 647 (907)
Q Consensus 589 ~~~~~L~~lL~~~mLRRtK~dv-~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~ 647 (907)
.....+. ..| .|.|.....+.+.++..++..|........
T Consensus 204 ---------------~~~~~~li~~g----~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~ 244 (442)
T COG1061 204 ---------------EVSLKELIDEG----YLAPYKYVEIKVTLTEDEEREYAKESARFR 244 (442)
T ss_pred ---------------ecCHHHHHhCC----CccceEEEEEEeccchHHHHHhhhhhhhhh
Confidence 1111111 112 688999999999999999999987655443
No 25
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.73 E-value=4.9e-16 Score=173.36 Aligned_cols=390 Identities=18% Similarity=0.179 Sum_probs=228.4
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
+..|.||..-++-.+.+ ..+++-..|||||+.|+.++......
T Consensus 14 ie~R~YQ~~i~a~al~~--------NtLvvlPTGLGKT~IA~~V~~~~l~~----------------------------- 56 (542)
T COG1111 14 IEPRLYQLNIAAKALFK--------NTLVVLPTGLGKTFIAAMVIANRLRW----------------------------- 56 (542)
T ss_pred ccHHHHHHHHHHHHhhc--------CeEEEecCCccHHHHHHHHHHHHHHh-----------------------------
Confidence 46799999887777643 25899999999999998887643321
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCc-ccc
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDP-VEL 430 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~-~~l 430 (907)
. .+.+|+++|+ -|+.|-++-+.+.+.-. .-.+..+.|.-+.... ..+
T Consensus 57 -----------------------------~-~~kvlfLAPTKPLV~Qh~~~~~~v~~ip-~~~i~~ltGev~p~~R~~~w 105 (542)
T COG1111 57 -----------------------------F-GGKVLFLAPTKPLVLQHAEFCRKVTGIP-EDEIAALTGEVRPEEREELW 105 (542)
T ss_pred -----------------------------c-CCeEEEecCCchHHHHHHHHHHHHhCCC-hhheeeecCCCChHHHHHHH
Confidence 1 1259999995 59999999999887532 4677888888765533 457
Q ss_pred CCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccc
Q 002565 431 AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKV 510 (907)
Q Consensus 431 ~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~ 510 (907)
.+..|++.|.+++.+++.. +-+..-
T Consensus 106 ~~~kVfvaTPQvveNDl~~-------------------------------------------------------Grid~~ 130 (542)
T COG1111 106 AKKKVFVATPQVVENDLKA-------------------------------------------------------GRIDLD 130 (542)
T ss_pred hhCCEEEeccHHHHhHHhc-------------------------------------------------------CccChH
Confidence 8899999999999987632 123444
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhh---hcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHhccccccCc
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSL---RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNS 587 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L---~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~~~pi~~~~ 587 (907)
.+.+||+||||+.-+..+.++-|-.-+ +..+.++|||||-.. .+.+...++=|+..
T Consensus 131 dv~~lifDEAHRAvGnyAYv~Va~~y~~~~k~~~ilgLTASPGs~-~ekI~eV~~nLgIe-------------------- 189 (542)
T COG1111 131 DVSLLIFDEAHRAVGNYAYVFVAKEYLRSAKNPLILGLTASPGSD-LEKIQEVVENLGIE-------------------- 189 (542)
T ss_pred HceEEEechhhhccCcchHHHHHHHHHHhccCceEEEEecCCCCC-HHHHHHHHHhCCcc--------------------
Confidence 578999999999877666555544444 233679999999432 22222222222221
Q ss_pred hhhHHHHHHHHHHHHhhhccc-cccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHhcCCccc----c
Q 002565 588 LHGYKKLQAVLRAIMLRRTKG-TFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQ----N 662 (907)
Q Consensus 588 ~~~~~~L~~lL~~~mLRRtK~-dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~~~g~~~~----~ 662 (907)
.+.+|.-.+ ||.. -+-.+..+++.|+++++-.++-+.+..-....++.....|-... +
T Consensus 190 ------------~vevrTE~d~DV~~-----Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~L~~~g~~~~~~~~~ 252 (542)
T COG1111 190 ------------KVEVRTEEDPDVRP-----YVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKPLKELGVIESSSPVS 252 (542)
T ss_pred ------------eEEEecCCCccHHH-----hhccceeEEEeccCcHHHHHHHHHHHHHHHHHHHHHHHcCceeccCccc
Confidence 122222221 2332 56677888999999998777777766666666655555443221 1
Q ss_pred HHHHHHHHHHHHHhcCCccccccccccccccchHHH------hhcCChhHHHHHHHhhhcccccccccCCCCCCcccccc
Q 002565 663 YANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEM------AKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMC 736 (907)
Q Consensus 663 ~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~~~~e~------~~~l~~e~~~~ll~~le~~~~~C~iC~d~~e~pvit~C 736 (907)
...++.+. ..+....+.- ......... ...++ .+-+....+..+...++...+.|.-
T Consensus 253 ~kdl~~~~--~~~~~~a~~~-~~~~~~~l~-~~a~~~kl~~a~elletqGi~~~~~Yl~~l~e~~~~------------- 315 (542)
T COG1111 253 KKDLLELR--QIRLIMAKNE-DSDKFRLLS-VLAEAIKLAHALELLETQGIRPFYQYLEKLEEEATK------------- 315 (542)
T ss_pred HhHHHHHH--HHHHHhccCc-cHHHHHHHH-HHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHhcc-------------
Confidence 23333332 1121111110 000000000 00000 0000001111111111100000000
Q ss_pred CcccchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCcccccCCCcCCCccchhHHHHHHHH
Q 002565 737 GHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDIL 816 (907)
Q Consensus 737 ~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~SsKi~aLlelL 816 (907)
+ .......|..+..+..+. .... ........-+|+..++++|
T Consensus 316 --------------~------~sk~a~~l~~d~~~~~al-~~~~-----------------~~~~~~v~HPKl~~l~eil 357 (542)
T COG1111 316 --------------G------GSKAAKSLLADPYFKRAL-RLLI-----------------RADESGVEHPKLEKLREIL 357 (542)
T ss_pred --------------c------chHHHHHHhcChhhHHHH-HHHH-----------------HhccccCCCccHHHHHHHH
Confidence 0 000011111111111110 0000 0011223568999999999
Q ss_pred HHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEE-EEEc--------cCC
Q 002565 817 HTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYR-RLDG--------TMS 887 (907)
Q Consensus 817 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~-rLdG--------sms 887 (907)
.+..+..+ +.+||||+||++|.+.|-..|.+.|+... ++-| +|+
T Consensus 358 ke~~~k~~---------------------------~~RvIVFT~yRdTae~i~~~L~~~~~~~~~rFiGQa~r~~~~GMs 410 (542)
T COG1111 358 KEQLEKNG---------------------------DSRVIVFTEYRDTAEEIVNFLKKIGIKARVRFIGQASREGDKGMS 410 (542)
T ss_pred HHHHhcCC---------------------------CceEEEEehhHhHHHHHHHHHHhcCCcceeEEeeccccccccccC
Confidence 99886554 46999999999999999999999999886 8877 599
Q ss_pred HHHHHHHHHHhcCCCCccc
Q 002565 888 LPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 888 ~~~R~~~I~~F~~dp~v~V 906 (907)
+++...+|++|++. ++.|
T Consensus 411 QkeQ~eiI~~Fr~G-e~nV 428 (542)
T COG1111 411 QKEQKEIIDQFRKG-EYNV 428 (542)
T ss_pred HHHHHHHHHHHhcC-CceE
Confidence 99999999999964 3444
No 26
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.72 E-value=1.3e-15 Score=179.64 Aligned_cols=49 Identities=10% Similarity=0.089 Sum_probs=45.9
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
++|||+..+...+.|...|+..|+++..++|+|+.++|.++++.|++..
T Consensus 346 ~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~ 394 (501)
T PHA02558 346 NTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGK 394 (501)
T ss_pred CEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCC
Confidence 8899999999999999999999999999999999999999999998643
No 27
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.66 E-value=6.9e-16 Score=169.99 Aligned_cols=184 Identities=22% Similarity=0.309 Sum_probs=123.4
Q ss_pred CCcccCCCCCcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhcccccccc
Q 002565 260 PKVEATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEA 339 (907)
Q Consensus 260 ~~~~~~~P~~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~ 339 (907)
+....++-| .+.|+|||...|..|..+.+ .+.||+--.-|.|||+..|..+...
T Consensus 291 pdl~idLKP---st~iRpYQEksL~KMFGNgR----ARSGiIVLPCGAGKtLVGvTAa~ti------------------- 344 (776)
T KOG1123|consen 291 PDLDIDLKP---STQIRPYQEKSLSKMFGNGR----ARSGIIVLPCGAGKTLVGVTAACTI------------------- 344 (776)
T ss_pred CCCCcCcCc---ccccCchHHHHHHHHhCCCc----ccCceEEEecCCCCceeeeeeeeee-------------------
Confidence 334444444 35699999999999996544 3679999999999999887776432
Q ss_pred ccCCCCCCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhh-HHHHHHHHHHhCCCCCCeEEEEE
Q 002565 340 LNLDDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASV-LRQWARELEDKVPDKAALSVLIY 418 (907)
Q Consensus 340 ~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sl-l~qW~~Ei~k~~~~~~~l~V~v~ 418 (907)
.+..||+|-.+| +.||..+|..|..-. .-.+..|
T Consensus 345 --------------------------------------------kK~clvLcts~VSVeQWkqQfk~wsti~-d~~i~rF 379 (776)
T KOG1123|consen 345 --------------------------------------------KKSCLVLCTSAVSVEQWKQQFKQWSTIQ-DDQICRF 379 (776)
T ss_pred --------------------------------------------cccEEEEecCccCHHHHHHHHHhhcccC-ccceEEe
Confidence 234899999774 899999999997643 3345555
Q ss_pred eCCCCCCCccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCC
Q 002565 419 HGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNS 498 (907)
Q Consensus 419 ~G~~r~~~~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~ 498 (907)
....+.+- -..++||||||+++..--.+ ....++
T Consensus 380 Tsd~Ke~~---~~~~gvvvsTYsMva~t~kR------S~eaek------------------------------------- 413 (776)
T KOG1123|consen 380 TSDAKERF---PSGAGVVVTTYSMVAYTGKR------SHEAEK------------------------------------- 413 (776)
T ss_pred eccccccC---CCCCcEEEEeeehhhhcccc------cHHHHH-------------------------------------
Confidence 55444322 25678999999999753211 000000
Q ss_pred CcccCCCCcccccccEEEEccCcccCCcchHHHHHHH-hhhcCceEEEeccCcccchhhhhhhHHhh-ccCCC
Q 002565 499 SIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACC-SLRAKRRWCLSGTPIQNSIDDLYSYFRFL-KYDPY 569 (907)
Q Consensus 499 ~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~-~L~a~~R~~LTGTPiqN~l~EL~sll~fL-~p~~~ 569 (907)
.-..|....|.++||||.|.+ -++.++-+. -+++..+++||+|-+... |=..=|+|| .|..|
T Consensus 414 ----~m~~l~~~EWGllllDEVHvv---PA~MFRRVlsiv~aHcKLGLTATLvRED--dKI~DLNFLIGPKlY 477 (776)
T KOG1123|consen 414 ----IMDFLRGREWGLLLLDEVHVV---PAKMFRRVLSIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLY 477 (776)
T ss_pred ----HHHHHhcCeeeeEEeehhccc---hHHHHHHHHHHHHHHhhccceeEEeecc--ccccccceeecchhh
Confidence 001256778999999999998 444454444 448899999999998652 222224555 44433
No 28
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.44 E-value=3.5e-13 Score=137.14 Aligned_cols=161 Identities=25% Similarity=0.243 Sum_probs=109.3
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
.++++||..++..+.... ..+++...+|.|||..++.++......
T Consensus 7 ~~~~~~Q~~~~~~~~~~~------~~~~i~~~~GsGKT~~~~~~~~~~~~~----------------------------- 51 (201)
T smart00487 7 EPLRPYQKEAIEALLSGL------RDVILAAPTGSGKTLAALLPALEALKR----------------------------- 51 (201)
T ss_pred CCCCHHHHHHHHHHHcCC------CcEEEECCCCCchhHHHHHHHHHHhcc-----------------------------
Confidence 468999999999988431 457999999999999887777543211
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeC-hhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCcccc-
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCP-ASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVEL- 430 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P-~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l- 430 (907)
.+.+++|||+| ..+..||..++.+.+.........++++.........+
T Consensus 52 -----------------------------~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 (201)
T smart00487 52 -----------------------------GKGKRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLE 102 (201)
T ss_pred -----------------------------cCCCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCCcchHHHHHHHh
Confidence 11356999999 67889999999998763211455556665432222222
Q ss_pred -CCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCccc
Q 002565 431 -AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAK 509 (907)
Q Consensus 431 -~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~ 509 (907)
..++|+++||+.+...... ..+..
T Consensus 103 ~~~~~v~~~t~~~l~~~~~~-------------------------------------------------------~~~~~ 127 (201)
T smart00487 103 SGKTDILVTTPGRLLDLLEN-------------------------------------------------------DLLEL 127 (201)
T ss_pred cCCCCEEEeChHHHHHHHHc-------------------------------------------------------CCcCH
Confidence 2339999999988764321 00234
Q ss_pred ccccEEEEccCcccCC-cchHHHHHH-Hhh-hcCceEEEeccCccc
Q 002565 510 VGWFRVVLDEAQTIKN-HRTQVARAC-CSL-RAKRRWCLSGTPIQN 552 (907)
Q Consensus 510 ~~w~rVIlDEAH~IKN-~~S~~~ka~-~~L-~a~~R~~LTGTPiqN 552 (907)
..|+++|+||+|.+.+ ........+ ..+ ...+++++||||..+
T Consensus 128 ~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~~~~ 173 (201)
T smart00487 128 SNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEE 173 (201)
T ss_pred hHCCEEEEECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCCchh
Confidence 4678999999999986 333333333 334 478899999999644
No 29
>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=99.44 E-value=7.2e-13 Score=134.43 Aligned_cols=167 Identities=25% Similarity=0.288 Sum_probs=104.0
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
.+|++||.+++.-++...........++|...+|.|||+.+++++..+.
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~------------------------------- 50 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA------------------------------- 50 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH-------------------------------
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc-------------------------------
Confidence 4799999999988876533221124579999999999999998876432
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeC--CCC------
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHG--GSR------ 423 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G--~~r------ 423 (907)
. ++|||||. +|+.||.++|..+... ...+....- ...
T Consensus 51 -----------------------------~---~~l~~~p~~~l~~Q~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 96 (184)
T PF04851_consen 51 -----------------------------R---KVLIVAPNISLLEQWYDEFDDFGSE--KYNFFEKSIKPAYDSKEFIS 96 (184)
T ss_dssp -----------------------------C---EEEEEESSHHHHHHHHHHHHHHSTT--SEEEEE--GGGCCE-SEEET
T ss_pred -----------------------------c---ceeEecCHHHHHHHHHHHHHHhhhh--hhhhcccccccccccccccc
Confidence 1 58999996 7999999999887653 222221111 000
Q ss_pred -CC-----CccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCC
Q 002565 424 -TK-----DPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVN 497 (907)
Q Consensus 424 -~~-----~~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~ 497 (907)
.. ........++++++|+.+........ ...+...
T Consensus 97 ~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~---------~~~~~~~------------------------------ 137 (184)
T PF04851_consen 97 IQDDISDKSESDNNDKDIILTTYQSLQSDIKEEK---------KIDESAR------------------------------ 137 (184)
T ss_dssp TTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH------------------------------------------------
T ss_pred cccccccccccccccccchhhHHHHHHhhccccc---------ccccchh------------------------------
Confidence 00 01123578899999999876421100 0000000
Q ss_pred CCcccCCCCcccccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCc
Q 002565 498 SSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPI 550 (907)
Q Consensus 498 ~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPi 550 (907)
....+....+++||+||||++.+... ++.+....+.+++.|||||.
T Consensus 138 -----~~~~~~~~~~~~vI~DEaH~~~~~~~--~~~i~~~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 138 -----RSYKLLKNKFDLVIIDEAHHYPSDSS--YREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp -----GCHHGGGGSESEEEEETGGCTHHHHH--HHHHHHSSCCEEEEEESS-S
T ss_pred -----hhhhhccccCCEEEEehhhhcCCHHH--HHHHHcCCCCeEEEEEeCcc
Confidence 00013345678999999999964432 56666688899999999995
No 30
>PTZ00110 helicase; Provisional
Probab=99.40 E-value=3.5e-11 Score=143.50 Aligned_cols=71 Identities=14% Similarity=0.152 Sum_probs=60.2
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..|...|.++|..+...+. |+|||++.....+.|...|...|+....++|+
T Consensus 360 ~~k~~~L~~ll~~~~~~~~-----------------------------k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~ 410 (545)
T PTZ00110 360 HEKRGKLKMLLQRIMRDGD-----------------------------KILIFVETKKGADFLTKELRLDGWPALCIHGD 410 (545)
T ss_pred hhHHHHHHHHHHHhcccCC-----------------------------eEEEEecChHHHHHHHHHHHHcCCcEEEEECC
Confidence 3477777788876654333 99999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhcCCCCccc
Q 002565 886 MSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 886 ms~~~R~~~I~~F~~dp~v~V 906 (907)
|+.++|..++++|++.. ++|
T Consensus 411 ~~~~eR~~il~~F~~G~-~~I 430 (545)
T PTZ00110 411 KKQEERTWVLNEFKTGK-SPI 430 (545)
T ss_pred CcHHHHHHHHHHHhcCC-CcE
Confidence 99999999999999643 444
No 31
>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=99.39 E-value=2.1e-12 Score=123.58 Aligned_cols=137 Identities=23% Similarity=0.232 Sum_probs=96.7
Q ss_pred CceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcCcccccccCCCCCCCCCCCccccccc
Q 002565 298 GGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRS 377 (907)
Q Consensus 298 GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~ 377 (907)
+.++...+|.|||.++++++......
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~------------------------------------------------------ 27 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDS------------------------------------------------------ 27 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhc------------------------------------------------------
Confidence 57999999999999999998754321
Q ss_pred ccCCCCCCCeEEEeChhh-HHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCc--cccCCCcEEEecchhhcccCCCCCCCc
Q 002565 378 FSRRRPAAGTLVVCPASV-LRQWARELEDKVPDKAALSVLIYHGGSRTKDP--VELAKYDVVLTTYSIVTNEVPKQPSVD 454 (907)
Q Consensus 378 ~~~~~~~~~tLIV~P~sl-l~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~--~~l~~~dVVItTY~~l~~e~~~~~~~~ 454 (907)
...+++|||||... +.||..++..+... .+.+.++++....... ......+|+|+||+.+......
T Consensus 28 ----~~~~~~lv~~p~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~i~t~~~~~~~~~~----- 96 (144)
T cd00046 28 ----LKGGQVLVLAPTRELANQVAERLKELFGE--GIKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELER----- 96 (144)
T ss_pred ----ccCCCEEEEcCcHHHHHHHHHHHHHHhhC--CcEEEEEecCcchhHHHHHhcCCCCEEEECcHHHHHHHHc-----
Confidence 12356999999875 55567777777642 4667777776544322 2356889999999988653211
Q ss_pred hhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccccccEEEEccCcccCCcchHHH---
Q 002565 455 EEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVA--- 531 (907)
Q Consensus 455 ~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~--- 531 (907)
..+....|++||+||+|.+.+......
T Consensus 97 --------------------------------------------------~~~~~~~~~~iiiDE~h~~~~~~~~~~~~~ 126 (144)
T cd00046 97 --------------------------------------------------LKLSLKKLDLLILDEAHRLLNQGFGLLGLK 126 (144)
T ss_pred --------------------------------------------------CCcchhcCCEEEEeCHHHHhhcchHHHHHH
Confidence 002344688999999999998775553
Q ss_pred HHHHhhhcCceEEEeccC
Q 002565 532 RACCSLRAKRRWCLSGTP 549 (907)
Q Consensus 532 ka~~~L~a~~R~~LTGTP 549 (907)
..........++++||||
T Consensus 127 ~~~~~~~~~~~i~~saTp 144 (144)
T cd00046 127 ILLKLPKDRQVLLLSATP 144 (144)
T ss_pred HHhhCCccceEEEEeccC
Confidence 333445778899999998
No 32
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.39 E-value=1.9e-11 Score=154.61 Aligned_cols=113 Identities=16% Similarity=0.036 Sum_probs=74.4
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
..||+||..|+.-+...... ..+++||..-.|.|||+++++++..+...
T Consensus 412 ~~lR~YQ~~AI~ai~~a~~~--g~r~~Ll~maTGSGKT~tai~li~~L~~~----------------------------- 460 (1123)
T PRK11448 412 LGLRYYQEDAIQAVEKAIVE--GQREILLAMATGTGKTRTAIALMYRLLKA----------------------------- 460 (1123)
T ss_pred CCCCHHHHHHHHHHHHHHHh--ccCCeEEEeCCCCCHHHHHHHHHHHHHhc-----------------------------
Confidence 56999999999776654322 23678999999999999999988654321
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccC
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELA 431 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~ 431 (907)
...+++|||||. .|+.||.++|..+..+. ...+...++.....+...-.
T Consensus 461 -----------------------------~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~-~~~~~~i~~i~~L~~~~~~~ 510 (1123)
T PRK11448 461 -----------------------------KRFRRILFLVDRSALGEQAEDAFKDTKIEG-DQTFASIYDIKGLEDKFPED 510 (1123)
T ss_pred -----------------------------CccCeEEEEecHHHHHHHHHHHHHhccccc-ccchhhhhchhhhhhhcccC
Confidence 223579999995 59999999999863321 11111111111111111123
Q ss_pred CCcEEEecchhhccc
Q 002565 432 KYDVVLTTYSIVTNE 446 (907)
Q Consensus 432 ~~dVVItTY~~l~~e 446 (907)
...|+|+|+.++.+.
T Consensus 511 ~~~I~iaTiQtl~~~ 525 (1123)
T PRK11448 511 ETKVHVATVQGMVKR 525 (1123)
T ss_pred CCCEEEEEHHHHHHh
Confidence 578999999988654
No 33
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.35 E-value=1.7e-10 Score=136.44 Aligned_cols=168 Identities=17% Similarity=0.193 Sum_probs=113.7
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
..||+||.+-+.-.+. ...|+|-.+|+|||..|+-.+......
T Consensus 61 ~~lR~YQ~eivq~ALg--------kNtii~lPTG~GKTfIAa~Vm~nh~rw----------------------------- 103 (746)
T KOG0354|consen 61 LELRNYQEELVQPALG--------KNTIIALPTGSGKTFIAAVIMKNHFEW----------------------------- 103 (746)
T ss_pred ccccHHHHHHhHHhhc--------CCeEEEeecCCCccchHHHHHHHHHhc-----------------------------
Confidence 4799999998876662 236999999999999886665433211
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCC--Cccc
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTK--DPVE 429 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~--~~~~ 429 (907)
.+.+++++.+|.. |+.|=..++...+- .-.+.+..|+...+ -...
T Consensus 104 -----------------------------~p~~KiVF~aP~~pLv~QQ~a~~~~~~~---~~~~T~~l~~~~~~~~r~~i 151 (746)
T KOG0354|consen 104 -----------------------------RPKGKVVFLAPTRPLVNQQIACFSIYLI---PYSVTGQLGDTVPRSNRGEI 151 (746)
T ss_pred -----------------------------CCcceEEEeeCCchHHHHHHHHHhhccC---cccceeeccCccCCCchhhh
Confidence 3447799999976 77777788877654 35666666664333 2344
Q ss_pred cCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcc-
Q 002565 430 LAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLA- 508 (907)
Q Consensus 430 l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~- 508 (907)
+..-+|++.|-+++.+++.... ..
T Consensus 152 ~~s~~vff~TpQil~ndL~~~~-------------------------------------------------------~~~ 176 (746)
T KOG0354|consen 152 VASKRVFFRTPQILENDLKSGL-------------------------------------------------------HDE 176 (746)
T ss_pred hcccceEEeChHhhhhhccccc-------------------------------------------------------ccc
Confidence 5778999999999998764300 11
Q ss_pred cccccEEEEccCcccCCcc--hHHHHHHHhhhcC--ceEEEeccCcccchhhhhhhHHhhc
Q 002565 509 KVGWFRVVLDEAQTIKNHR--TQVARACCSLRAK--RRWCLSGTPIQNSIDDLYSYFRFLK 565 (907)
Q Consensus 509 ~~~w~rVIlDEAH~IKN~~--S~~~ka~~~L~a~--~R~~LTGTPiqN~l~EL~sll~fL~ 565 (907)
--.|.++|+||||+-.... +.+.+.+..++-. +.++|||||- ++.+..-+.+.=|.
T Consensus 177 ls~fs~iv~DE~Hra~kn~~Y~~Vmr~~l~~k~~~~qILgLTASpG-~~~~~v~~~I~~L~ 236 (746)
T KOG0354|consen 177 LSDFSLIVFDECHRTSKNHPYNNIMREYLDLKNQGNQILGLTASPG-SKLEQVQNVIDNLC 236 (746)
T ss_pred cceEEEEEEcccccccccccHHHHHHHHHHhhhccccEEEEecCCC-ccHHHHHHHHHhhh
Confidence 1247789999999875432 4444455555333 5789999998 66666555554443
No 34
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.30 E-value=2.4e-10 Score=134.12 Aligned_cols=54 Identities=20% Similarity=0.295 Sum_probs=49.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
.++|||+......+.|...|...|+....++|.|++.+|+.+++.|++. .++||
T Consensus 243 ~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g-~~~vL 296 (460)
T PRK11776 243 ESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANR-SCSVL 296 (460)
T ss_pred CceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcC-CCcEE
Confidence 3899999999999999999999999999999999999999999999954 45543
No 35
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.26 E-value=5.3e-10 Score=130.22 Aligned_cols=54 Identities=26% Similarity=0.327 Sum_probs=49.4
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
.++|||+......+.|...|...|+....++|.|+..+|..+++.|++ ..++||
T Consensus 246 ~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~-G~~~vL 299 (434)
T PRK11192 246 TRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTD-GRVNVL 299 (434)
T ss_pred CeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhC-CCCcEE
Confidence 399999999999999999999999999999999999999999999995 445554
No 36
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.24 E-value=9.6e-10 Score=133.52 Aligned_cols=112 Identities=18% Similarity=0.236 Sum_probs=79.5
Q ss_pred ccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCC
Q 002565 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (907)
+...|.++|+.++..++...... .....||.-++|.|||+.++..++....
T Consensus 232 lpf~lt~~Q~~ai~~I~~~~~~~-~~~~~Ll~g~TGSGKT~va~l~il~~~~---------------------------- 282 (630)
T TIGR00643 232 LPFKLTRAQKRVVKEILQDLKSD-VPMNRLLQGDVGSGKTLVAALAMLAAIE---------------------------- 282 (630)
T ss_pred CCCCCCHHHHHHHHHHHHHhccC-CCccEEEECCCCCcHHHHHHHHHHHHHH----------------------------
Confidence 34579999999999888653322 1234588889999999987654432110
Q ss_pred cCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCcc-
Q 002565 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKDPV- 428 (907)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~- 428 (907)
....+||++|.. |..||.+++.++++.- .+++.+++|+.......
T Consensus 283 --------------------------------~g~qvlilaPT~~LA~Q~~~~~~~l~~~~-gi~v~lltg~~~~~~r~~ 329 (630)
T TIGR00643 283 --------------------------------AGYQVALMAPTEILAEQHYNSLRNLLAPL-GIEVALLTGSLKGKRRKE 329 (630)
T ss_pred --------------------------------cCCcEEEECCHHHHHHHHHHHHHHHhccc-CcEEEEEecCCCHHHHHH
Confidence 012489999976 6799999999988642 58899999986543321
Q ss_pred ---c--cCCCcEEEecchhhc
Q 002565 429 ---E--LAKYDVVLTTYSIVT 444 (907)
Q Consensus 429 ---~--l~~~dVVItTY~~l~ 444 (907)
. .+..+|||.|+..+.
T Consensus 330 ~~~~i~~g~~~IiVgT~~ll~ 350 (630)
T TIGR00643 330 LLETIASGQIHLVVGTHALIQ 350 (630)
T ss_pred HHHHHhCCCCCEEEecHHHHh
Confidence 1 246799999998775
No 37
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.23 E-value=1.1e-09 Score=132.16 Aligned_cols=52 Identities=15% Similarity=0.252 Sum_probs=48.0
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCccc
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~V 906 (907)
++|||+.-....+.|...|...|+....|+|.|++.+|+.+++.|++. .++|
T Consensus 247 ~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G-~~~I 298 (629)
T PRK11634 247 AAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDG-RLDI 298 (629)
T ss_pred CEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCC-CCCE
Confidence 899999999999999999999999999999999999999999999963 3444
No 38
>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=99.21 E-value=8.7e-10 Score=129.64 Aligned_cols=53 Identities=21% Similarity=0.317 Sum_probs=48.4
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
++|||+......+.|...|+..|+.+..++|+|+.++|.++++.|.++ .++||
T Consensus 228 ~~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~g-~~~vL 280 (470)
T TIGR00614 228 SGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRD-EIQVV 280 (470)
T ss_pred ceEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHcC-CCcEE
Confidence 679999999999999999999999999999999999999999999954 45553
No 39
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.20 E-value=1.2e-09 Score=127.84 Aligned_cols=54 Identities=26% Similarity=0.401 Sum_probs=49.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
.++|||+......+.|...|...|+....|+|.|+.++|.++++.|++. .++||
T Consensus 246 ~~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g-~~~iL 299 (456)
T PRK10590 246 QQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSG-DIRVL 299 (456)
T ss_pred CcEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcC-CCcEE
Confidence 3899999999999999999999999999999999999999999999964 45554
No 40
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.20 E-value=1.8e-09 Score=128.28 Aligned_cols=53 Identities=23% Similarity=0.316 Sum_probs=47.3
Q ss_pred eEEEEecchhhHHHHHHHHHh-CCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQ-HCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~-~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
++|||.......+.|...|.. .|+.+..++|+|+.++|..+++.|++. +++||
T Consensus 369 ~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G-~~~IL 422 (518)
T PLN00206 369 PAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVG-EVPVI 422 (518)
T ss_pred CEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCC-CCCEE
Confidence 899999999999999999975 699999999999999999999999964 35543
No 41
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.19 E-value=2e-09 Score=124.95 Aligned_cols=54 Identities=17% Similarity=0.234 Sum_probs=49.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
.|+|||+......+.|...|...|+.+..++|.|+.++|.+++++|++. +++||
T Consensus 256 ~~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~g-~~~vL 309 (423)
T PRK04837 256 DRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRG-DLDIL 309 (423)
T ss_pred CeEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHcC-CCcEE
Confidence 3999999999999999999999999999999999999999999999864 45543
No 42
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.19 E-value=1.8e-09 Score=137.21 Aligned_cols=53 Identities=13% Similarity=0.117 Sum_probs=46.8
Q ss_pred eEEEEecchhhHHHHHHHHHhC--CCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQH--CIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~--Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
+++||+.-...++.+...|.+. ++.+..+||.|+.++|++++++|.+. +++||
T Consensus 811 qv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~G-k~~VL 865 (1147)
T PRK10689 811 QVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQ-RFNVL 865 (1147)
T ss_pred eEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhc-CCCEE
Confidence 8999999999999999999887 88999999999999999999999964 35553
No 43
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.18 E-value=2.2e-09 Score=128.67 Aligned_cols=54 Identities=19% Similarity=0.357 Sum_probs=49.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
.|+|||+......+.|...|...|+.+..|+|.|+..+|..+++.|++. +++||
T Consensus 258 ~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G-~~~VL 311 (572)
T PRK04537 258 ARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKG-QLEIL 311 (572)
T ss_pred CcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcC-CCeEE
Confidence 3999999999999999999999999999999999999999999999953 35543
No 44
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.17 E-value=2.1e-09 Score=131.46 Aligned_cols=113 Identities=19% Similarity=0.250 Sum_probs=79.2
Q ss_pred ccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCC
Q 002565 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (907)
+...|.++|+.++.-+..-.... ...--||.=++|.|||+.++..++....
T Consensus 258 l~f~lt~~Q~~ai~~I~~d~~~~-~~~~~Ll~~~TGSGKT~va~~~il~~~~---------------------------- 308 (681)
T PRK10917 258 LPFELTGAQKRVVAEILADLASP-KPMNRLLQGDVGSGKTVVAALAALAAIE---------------------------- 308 (681)
T ss_pred CCCCCCHHHHHHHHHHHHhhhcc-CCceEEEECCCCCcHHHHHHHHHHHHHH----------------------------
Confidence 35679999999999887643221 1223588889999999988765542110
Q ss_pred cCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCc--
Q 002565 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKDP-- 427 (907)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~-- 427 (907)
....+||++|.. |..|+.+.+.+++..- .+++.+++|.......
T Consensus 309 --------------------------------~g~q~lilaPT~~LA~Q~~~~l~~l~~~~-~i~v~ll~G~~~~~~r~~ 355 (681)
T PRK10917 309 --------------------------------AGYQAALMAPTEILAEQHYENLKKLLEPL-GIRVALLTGSLKGKERRE 355 (681)
T ss_pred --------------------------------cCCeEEEEeccHHHHHHHHHHHHHHHhhc-CcEEEEEcCCCCHHHHHH
Confidence 012489999976 7799999999987642 4889999998753321
Q ss_pred --cc--cCCCcEEEecchhhcc
Q 002565 428 --VE--LAKYDVVLTTYSIVTN 445 (907)
Q Consensus 428 --~~--l~~~dVVItTY~~l~~ 445 (907)
.. -+..+|||.|+..+..
T Consensus 356 ~~~~l~~g~~~IvVgT~~ll~~ 377 (681)
T PRK10917 356 ILEAIASGEADIVIGTHALIQD 377 (681)
T ss_pred HHHHHhCCCCCEEEchHHHhcc
Confidence 12 2468999999987753
No 45
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.16 E-value=3.9e-09 Score=124.39 Aligned_cols=53 Identities=17% Similarity=0.300 Sum_probs=48.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCccc
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~V 906 (907)
.|+|||+......+.|...|...|+.+..++|.++.++|.++++.|++. +++|
T Consensus 336 ~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G-~~~v 388 (475)
T PRK01297 336 ERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREG-KIRV 388 (475)
T ss_pred CeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCC-CCcE
Confidence 3999999999999999999999999999999999999999999999854 3444
No 46
>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=99.16 E-value=3.1e-09 Score=132.44 Aligned_cols=52 Identities=10% Similarity=0.124 Sum_probs=46.5
Q ss_pred eEEEEecchhhHHHHHHHHHhC--CCeEEEEEccCCHHHHHHHHHHhcCCCCccc
Q 002565 854 KSIVFSQWTRMLDLVENSLNQH--CIQYRRLDGTMSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~--Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~V 906 (907)
+++||+......+.+...|++. ++++..+||.|+.++|.+++++|.+. +++|
T Consensus 662 qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~G-k~~I 715 (926)
T TIGR00580 662 QVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKG-EFQV 715 (926)
T ss_pred eEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcC-CCCE
Confidence 8999999999999999999985 89999999999999999999999964 3444
No 47
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.14 E-value=2.1e-09 Score=123.66 Aligned_cols=69 Identities=22% Similarity=0.329 Sum_probs=60.7
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
.+|.+.|..+|+.+.. +. .-|||||+....+.+-|++.|+..|++..-|||.
T Consensus 323 ~~K~~~l~~lL~~~~~-~~---------------------------~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd 374 (519)
T KOG0331|consen 323 TAKLRKLGKLLEDISS-DS---------------------------EGKVIIFCETKRTCDELARNLRRKGWPAVAIHGD 374 (519)
T ss_pred HHHHHHHHHHHHHHhc-cC---------------------------CCcEEEEecchhhHHHHHHHHHhcCcceeeeccc
Confidence 5688888888888762 11 2499999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhcCCC
Q 002565 886 MSLPARDRAVKDFNTDR 902 (907)
Q Consensus 886 ms~~~R~~~I~~F~~dp 902 (907)
.++.+|+.+++.|.+..
T Consensus 375 ~sQ~eR~~~L~~FreG~ 391 (519)
T KOG0331|consen 375 KSQSERDWVLKGFREGK 391 (519)
T ss_pred ccHHHHHHHHHhcccCC
Confidence 99999999999998654
No 48
>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=99.13 E-value=2.4e-09 Score=129.50 Aligned_cols=52 Identities=17% Similarity=0.231 Sum_probs=48.2
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCccc
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~V 906 (907)
+.|||+......+.|...|...|+.+..+||+|+.++|..+++.|.++. ++|
T Consensus 226 ~~IIf~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g~-~~v 277 (591)
T TIGR01389 226 SGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDD-VKV 277 (591)
T ss_pred CEEEEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcCC-CcE
Confidence 8999999999999999999999999999999999999999999998654 554
No 49
>PTZ00424 helicase 45; Provisional
Probab=99.13 E-value=3.9e-09 Score=121.52 Aligned_cols=53 Identities=17% Similarity=0.380 Sum_probs=48.5
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
|+|||+......+.+...|...|+.+..++|+|+.++|..+++.|++. .++||
T Consensus 269 ~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g-~~~vL 321 (401)
T PTZ00424 269 QAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSG-STRVL 321 (401)
T ss_pred eEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcC-CCCEE
Confidence 899999999999999999999999999999999999999999999964 45553
No 50
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.10 E-value=3.2e-09 Score=128.46 Aligned_cols=53 Identities=11% Similarity=0.164 Sum_probs=48.6
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCccc
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~V 906 (907)
.++|||+......+.+...|...|+.+..+||+|+.++|.++++.|.++ .++|
T Consensus 237 ~~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g-~~~V 289 (607)
T PRK11057 237 KSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRD-DLQI 289 (607)
T ss_pred CCEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCC-CCCE
Confidence 3899999999999999999999999999999999999999999999864 3544
No 51
>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=99.01 E-value=8.6e-10 Score=134.38 Aligned_cols=162 Identities=18% Similarity=0.177 Sum_probs=103.3
Q ss_pred ccccCchHHHHHHHHHHHhhhcc---ccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCC
Q 002565 271 LSVNLLKHQKIALAWMLQKETRS---LHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDD 347 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~~~---~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 347 (907)
++.-.++||..||.-+..+.... ...++||+.+..|.|||++++.++..+...
T Consensus 235 ~k~~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~------------------------ 290 (667)
T TIGR00348 235 TKPYQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALEL------------------------ 290 (667)
T ss_pred eeeehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhh------------------------
Confidence 45558999999999888765431 123689999999999999998887644311
Q ss_pred CCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCC
Q 002565 348 NGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKD 426 (907)
Q Consensus 348 ~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~ 426 (907)
....++|||||.. |..||.++|..+.... . .+......
T Consensus 291 ----------------------------------~~~~~vl~lvdR~~L~~Q~~~~f~~~~~~~--~-----~~~~s~~~ 329 (667)
T TIGR00348 291 ----------------------------------LKNPKVFFVVDRRELDYQLMKEFQSLQKDC--A-----ERIESIAE 329 (667)
T ss_pred ----------------------------------cCCCeEEEEECcHHHHHHHHHHHHhhCCCC--C-----cccCCHHH
Confidence 2234699999964 9999999999875321 1 01110000
Q ss_pred c-ccc--CCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccC
Q 002565 427 P-VEL--AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYG 503 (907)
Q Consensus 427 ~-~~l--~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~ 503 (907)
. ..+ .+..|||||++.+...+... .
T Consensus 330 L~~~l~~~~~~iivtTiQk~~~~~~~~------------~---------------------------------------- 357 (667)
T TIGR00348 330 LKRLLEKDDGGIIITTIQKFDKKLKEE------------E---------------------------------------- 357 (667)
T ss_pred HHHHHhCCCCCEEEEEhHHhhhhHhhh------------h----------------------------------------
Confidence 0 111 24689999999997522100 0
Q ss_pred CCCcc-cccccEEEEccCcccCCcchHHHHHH-HhhhcCceEEEeccCccc
Q 002565 504 CGPLA-KVGWFRVVLDEAQTIKNHRTQVARAC-CSLRAKRRWCLSGTPIQN 552 (907)
Q Consensus 504 ~~~L~-~~~w~rVIlDEAH~IKN~~S~~~ka~-~~L~a~~R~~LTGTPiqN 552 (907)
..+. .....+||+||||+.-.. ...+.+ ..+....+++|||||+..
T Consensus 358 -~~~~~~~~~~lvIvDEaHrs~~~--~~~~~l~~~~p~a~~lGfTaTP~~~ 405 (667)
T TIGR00348 358 -EKFPVDRKEVVVIFDEAHRSQYG--ELAKNLKKALKNASFFGFTGTPIFK 405 (667)
T ss_pred -hccCCCCCCEEEEEEcCccccch--HHHHHHHhhCCCCcEEEEeCCCccc
Confidence 0000 011237999999986422 233444 356677999999999864
No 52
>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=98.97 E-value=5.2e-09 Score=108.68 Aligned_cols=159 Identities=19% Similarity=0.151 Sum_probs=103.5
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcCc
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGL 353 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (907)
.|++||.+++.-+.+ ++..|++-..|.|||+..+..++......
T Consensus 21 ~~~~~Q~~~~~~~~~-------~~~~li~~~TG~GKT~~~~~~~l~~~~~~----------------------------- 64 (203)
T cd00268 21 KPTPIQARAIPPLLS-------GRDVIGQAQTGSGKTAAFLIPILEKLDPS----------------------------- 64 (203)
T ss_pred CCCHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHhh-----------------------------
Confidence 489999999988874 24579999999999988544443221110
Q ss_pred ccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCC-cccc-
Q 002565 354 DKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKD-PVEL- 430 (907)
Q Consensus 354 ~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~-~~~l- 430 (907)
.......+|||||.. ++.||...+.++... ..+++..++|...... ...+
T Consensus 65 --------------------------~~~~~~~viii~p~~~L~~q~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 117 (203)
T cd00268 65 --------------------------PKKDGPQALILAPTRELALQIAEVARKLGKH-TNLKVVVIYGGTSIDKQIRKLK 117 (203)
T ss_pred --------------------------cccCCceEEEEcCCHHHHHHHHHHHHHHhcc-CCceEEEEECCCCHHHHHHHhc
Confidence 001124589999965 889999999887643 2688888888764322 2223
Q ss_pred CCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccc
Q 002565 431 AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKV 510 (907)
Q Consensus 431 ~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~ 510 (907)
...+|+|+|.+.+...+... .+.--
T Consensus 118 ~~~~iiv~T~~~l~~~l~~~-------------------------------------------------------~~~~~ 142 (203)
T cd00268 118 RGPHIVVATPGRLLDLLERG-------------------------------------------------------KLDLS 142 (203)
T ss_pred CCCCEEEEChHHHHHHHHcC-------------------------------------------------------CCChh
Confidence 37899999988775432110 01112
Q ss_pred cccEEEEccCcccCCcc-hHHHH-HHHhhh-cCceEEEeccCc
Q 002565 511 GWFRVVLDEAQTIKNHR-TQVAR-ACCSLR-AKRRWCLSGTPI 550 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~-S~~~k-a~~~L~-a~~R~~LTGTPi 550 (907)
.+.++|+||+|.+-+.. ..... .+..+. ....+++||||-
T Consensus 143 ~l~~lIvDE~h~~~~~~~~~~~~~~~~~l~~~~~~~~~SAT~~ 185 (203)
T cd00268 143 KVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLLFSATMP 185 (203)
T ss_pred hCCEEEEeChHHhhccChHHHHHHHHHhCCcccEEEEEeccCC
Confidence 35789999999986543 22222 233333 456899999997
No 53
>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=98.94 E-value=2e-08 Score=121.21 Aligned_cols=68 Identities=10% Similarity=0.093 Sum_probs=59.3
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
...|+.++++.+......+. .||||+......+.|...|.+.||++..|+|
T Consensus 406 ~~~K~~ai~~~i~~~~~~~~-----------------------------pvLIft~s~~~se~ls~~L~~~gi~~~~L~a 456 (762)
T TIGR03714 406 LPEKLMATLEDVKEYHETGQ-----------------------------PVLLITGSVEMSEIYSELLLREGIPHNLLNA 456 (762)
T ss_pred HHHHHHHHHHHHHHHhhCCC-----------------------------CEEEEECcHHHHHHHHHHHHHCCCCEEEecC
Confidence 35799999999987766554 8999999999999999999999999999999
Q ss_pred cCCHHHHHHHHHHhcCC
Q 002565 885 TMSLPARDRAVKDFNTD 901 (907)
Q Consensus 885 sms~~~R~~~I~~F~~d 901 (907)
.+...+|..+..+|+..
T Consensus 457 ~~~~~E~~ii~~ag~~g 473 (762)
T TIGR03714 457 QNAAKEAQIIAEAGQKG 473 (762)
T ss_pred CChHHHHHHHHHcCCCC
Confidence 99998888777777643
No 54
>PRK02362 ski2-like helicase; Provisional
Probab=98.92 E-value=4.2e-08 Score=121.57 Aligned_cols=103 Identities=18% Similarity=0.099 Sum_probs=74.0
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcCc
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGL 353 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (907)
.|+|+|.+++.-++.. ....|++=..|-|||+.+...++...
T Consensus 23 ~l~p~Q~~ai~~~~~~------g~nvlv~APTGSGKTlia~lail~~l-------------------------------- 64 (737)
T PRK02362 23 ELYPPQAEAVEAGLLD------GKNLLAAIPTASGKTLIAELAMLKAI-------------------------------- 64 (737)
T ss_pred cCCHHHHHHHHHHHhC------CCcEEEECCCcchHHHHHHHHHHHHH--------------------------------
Confidence 5999999999754421 23469999999999998755543211
Q ss_pred ccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCC
Q 002565 354 DKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAK 432 (907)
Q Consensus 354 ~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~ 432 (907)
.+.+++|+|+|. .|+.|+.+++.++.+. .++|.++.|..... ...+..
T Consensus 65 ----------------------------~~~~kal~i~P~raLa~q~~~~~~~~~~~--g~~v~~~tGd~~~~-~~~l~~ 113 (737)
T PRK02362 65 ----------------------------ARGGKALYIVPLRALASEKFEEFERFEEL--GVRVGISTGDYDSR-DEWLGD 113 (737)
T ss_pred ----------------------------hcCCcEEEEeChHHHHHHHHHHHHHhhcC--CCEEEEEeCCcCcc-ccccCC
Confidence 012358999995 6899999999976432 47888888875432 344677
Q ss_pred CcEEEecchhhcc
Q 002565 433 YDVVLTTYSIVTN 445 (907)
Q Consensus 433 ~dVVItTY~~l~~ 445 (907)
+||+|+|++.+..
T Consensus 114 ~~IiV~Tpek~~~ 126 (737)
T PRK02362 114 NDIIVATSEKVDS 126 (737)
T ss_pred CCEEEECHHHHHH
Confidence 8999999987743
No 55
>PRK13767 ATP-dependent helicase; Provisional
Probab=98.83 E-value=2.7e-07 Score=116.06 Aligned_cols=52 Identities=10% Similarity=0.077 Sum_probs=45.0
Q ss_pred eEEEEecchhhHHHHHHHHHhC------CCeEEEEEccCCHHHHHHHHHHhcCCCCccc
Q 002565 854 KSIVFSQWTRMLDLVENSLNQH------CIQYRRLDGTMSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~------Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~V 906 (907)
++|||+.-+...+.+...|... +..+..+||+++.++|..+.+.|++.. ++|
T Consensus 286 ~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls~~~R~~ve~~fk~G~-i~v 343 (876)
T PRK13767 286 TTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLSREVRLEVEEKLKRGE-LKV 343 (876)
T ss_pred CEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCCHHHHHHHHHHHHcCC-CeE
Confidence 8999999999999999988763 467889999999999999999999653 454
No 56
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.81 E-value=1.9e-08 Score=119.22 Aligned_cols=160 Identities=18% Similarity=0.152 Sum_probs=114.9
Q ss_pred ccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCC
Q 002565 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (907)
....+|.||..|++...+.-.... .-++|.--.|.|||.+||++|..+...
T Consensus 162 s~i~~RyyQ~~AI~rv~Eaf~~g~--~raLlvMATGTGKTrTAiaii~rL~r~--------------------------- 212 (875)
T COG4096 162 SAIGPRYYQIIAIRRVIEAFSKGQ--NRALLVMATGTGKTRTAIAIIDRLIKS--------------------------- 212 (875)
T ss_pred ccccchHHHHHHHHHHHHHHhcCC--ceEEEEEecCCCcceeHHHHHHHHHhc---------------------------
Confidence 456799999999999987655432 238999999999999999999876543
Q ss_pred cCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeC-hhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccc
Q 002565 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCP-ASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVE 429 (907)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P-~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~ 429 (907)
+..+++|.++= .+|+.|=..++..|.|.+...+.+--....
T Consensus 213 -------------------------------~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~~~~n~i~~~~~~------- 254 (875)
T COG4096 213 -------------------------------GWVKRVLFLADRNALVDQAYGAFEDFLPFGTKMNKIEDKKGD------- 254 (875)
T ss_pred -------------------------------chhheeeEEechHHHHHHHHHHHHHhCCCccceeeeecccCC-------
Confidence 45678999998 679999999999999975444433222111
Q ss_pred cCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCccc
Q 002565 430 LAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAK 509 (907)
Q Consensus 430 l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~ 509 (907)
..+.|.|.||.++......+. . ...++..
T Consensus 255 -~s~~i~lsTyqt~~~~~~~~~-----------~---------------------------------------~~~~f~~ 283 (875)
T COG4096 255 -TSSEIYLSTYQTMTGRIEQKE-----------D---------------------------------------EYRRFGP 283 (875)
T ss_pred -cceeEEEeehHHHHhhhhccc-----------c---------------------------------------ccccCCC
Confidence 267899999999986543210 0 0112445
Q ss_pred ccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcc
Q 002565 510 VGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQ 551 (907)
Q Consensus 510 ~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiq 551 (907)
-.||+||+||||+- --+..+++...-.-.+.+||+||-.
T Consensus 284 g~FDlIvIDEaHRg---i~~~~~~I~dYFdA~~~gLTATP~~ 322 (875)
T COG4096 284 GFFDLIVIDEAHRG---IYSEWSSILDYFDAATQGLTATPKE 322 (875)
T ss_pred CceeEEEechhhhh---HHhhhHHHHHHHHHHHHhhccCccc
Confidence 56999999999973 2233345555556677888999987
No 57
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.80 E-value=7.1e-08 Score=104.24 Aligned_cols=247 Identities=18% Similarity=0.220 Sum_probs=147.3
Q ss_pred cCchHHHHHHHHHHHhhhccc---cccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCC
Q 002565 274 NLLKHQKIALAWMLQKETRSL---HCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~---~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (907)
.|-.-|+++|.+..++-...+ ...|-+|+|.+|.||-.|+-++|......
T Consensus 37 ~LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~--------------------------- 89 (303)
T PF13872_consen 37 LLSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLR--------------------------- 89 (303)
T ss_pred cccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHc---------------------------
Confidence 478889999998876644311 24688999999999999998888754321
Q ss_pred cCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCcccc
Q 002565 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVEL 430 (907)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l 430 (907)
+..+++-|-+...|..-=.+.+...-.. .+.+..+..-+.... . -
T Consensus 90 -------------------------------Gr~r~vwvS~s~dL~~Da~RDl~DIG~~--~i~v~~l~~~~~~~~-~-~ 134 (303)
T PF13872_consen 90 -------------------------------GRKRAVWVSVSNDLKYDAERDLRDIGAD--NIPVHPLNKFKYGDI-I-R 134 (303)
T ss_pred -------------------------------CCCceEEEECChhhhhHHHHHHHHhCCC--cccceechhhccCcC-C-C
Confidence 2223344444556776666666653221 344443333222211 1 1
Q ss_pred CCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccc
Q 002565 431 AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKV 510 (907)
Q Consensus 431 ~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~ 510 (907)
-+.+||.+||..+..+.... ..+. .+...... +..-
T Consensus 135 ~~~GvlF~TYs~L~~~~~~~-------------~~~~-----------sRl~ql~~--------------------W~g~ 170 (303)
T PF13872_consen 135 LKEGVLFSTYSTLISESQSG-------------GKYR-----------SRLDQLVD--------------------WCGE 170 (303)
T ss_pred CCCCccchhHHHHHhHHhcc-------------CCcc-----------chHHHHHH--------------------HHhc
Confidence 25679999999998753110 0000 00000000 0000
Q ss_pred cc-cEEEEccCcccCCcch------HHHHHHHhhhc----CceEEEeccCcccchhhhhhhHH--hhcc-CCCCchHHHH
Q 002565 511 GW-FRVVLDEAQTIKNHRT------QVARACCSLRA----KRRWCLSGTPIQNSIDDLYSYFR--FLKY-DPYAVYKSFY 576 (907)
Q Consensus 511 ~w-~rVIlDEAH~IKN~~S------~~~ka~~~L~a----~~R~~LTGTPiqN~l~EL~sll~--fL~p-~~~~~~~~F~ 576 (907)
.| .+||+||+|..||..+ ++..++..|+. -+.+-.|+|...+ +..|--+-+ +-.+ -+|.++..|.
T Consensus 171 dfdgvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~LP~ARvvY~SATgase-p~NmaYm~RLGLWG~gtpf~~~~~f~ 249 (303)
T PF13872_consen 171 DFDGVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRLPNARVVYASATGASE-PRNMAYMSRLGLWGPGTPFPDFDDFL 249 (303)
T ss_pred CCCceEEeccchhcCCCCccCccccHHHHHHHHHHHhCCCCcEEEecccccCC-CceeeeeeeccccCCCCCCCCHHHHH
Confidence 11 3699999999999754 67778877733 3578899999754 333321122 1111 2456677777
Q ss_pred hHhccccccCchhhHHHHHHHHH--HHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHH
Q 002565 577 STIKIPISRNSLHGYKKLQAVLR--AIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKK 641 (907)
Q Consensus 577 ~~~~~pi~~~~~~~~~~L~~lL~--~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~ 641 (907)
..+ ++++....+.+..-|+ ..+++|.. .+-.-...++.+++++++.++|+.
T Consensus 250 ~a~----~~gGv~amE~vA~dlKa~G~yiaR~L----------Sf~gvef~~~e~~l~~~~~~~Yd~ 302 (303)
T PF13872_consen 250 EAM----EKGGVGAMEMVAMDLKARGMYIARQL----------SFEGVEFEIEEVPLTPEQIKMYDA 302 (303)
T ss_pred HHH----HhcCchHHHHHHHHHHhcchheeeec----------ccCCceEEEEEecCCHHHHHHhcC
Confidence 665 3455555555554443 46777765 466677889999999999999985
No 58
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=98.79 E-value=9.6e-08 Score=118.42 Aligned_cols=53 Identities=15% Similarity=0.177 Sum_probs=48.4
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
+.|||+..+...+.|...|...|+....|||+|+.++|..++++|.++. ++||
T Consensus 682 sgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F~~Ge-i~VL 734 (1195)
T PLN03137 682 CGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDE-INII 734 (1195)
T ss_pred CceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHHhcCC-CcEE
Confidence 7799999999999999999999999999999999999999999999653 5553
No 59
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=98.77 E-value=2.1e-08 Score=100.58 Aligned_cols=158 Identities=20% Similarity=0.276 Sum_probs=104.6
Q ss_pred hHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcCcccc
Q 002565 277 KHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGLDKV 356 (907)
Q Consensus 277 phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 356 (907)
|+|.+++.-+.+.. -.|+.-..|.|||..++..++.....
T Consensus 2 ~~Q~~~~~~i~~~~-------~~li~aptGsGKT~~~~~~~l~~~~~--------------------------------- 41 (169)
T PF00270_consen 2 PLQQEAIEAIISGK-------NVLISAPTGSGKTLAYILPALNRLQE--------------------------------- 41 (169)
T ss_dssp HHHHHHHHHHHTTS-------EEEEECSTTSSHHHHHHHHHHHHHHT---------------------------------
T ss_pred HHHHHHHHHHHcCC-------CEEEECCCCCccHHHHHHHHHhhhcc---------------------------------
Confidence 79999998777321 25899999999999887665432211
Q ss_pred cccCCCCCCCCCCCcccccccccCCCCCCCeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCC-C-cccc-CC
Q 002565 357 KETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTK-D-PVEL-AK 432 (907)
Q Consensus 357 k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~-~-~~~l-~~ 432 (907)
.....+|||||. .++.|=.+++.+++.. ..+++..++|..... . ...+ ..
T Consensus 42 -------------------------~~~~~~lii~P~~~l~~q~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (169)
T PF00270_consen 42 -------------------------GKDARVLIIVPTRALAEQQFERLRKFFSN-TNVRVVLLHGGQSISEDQREVLSNQ 95 (169)
T ss_dssp -------------------------TSSSEEEEEESSHHHHHHHHHHHHHHTTT-TTSSEEEESTTSCHHHHHHHHHHTT
T ss_pred -------------------------CCCceEEEEeecccccccccccccccccc-ccccccccccccccccccccccccc
Confidence 112358999995 5889999999998764 257888888766522 1 1222 46
Q ss_pred CcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccccc
Q 002565 433 YDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVGW 512 (907)
Q Consensus 433 ~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~~w 512 (907)
.+|+|+|++.+...+.. ..+.-...
T Consensus 96 ~~ilv~T~~~l~~~~~~-------------------------------------------------------~~~~~~~~ 120 (169)
T PF00270_consen 96 ADILVTTPEQLLDLISN-------------------------------------------------------GKINISRL 120 (169)
T ss_dssp SSEEEEEHHHHHHHHHT-------------------------------------------------------TSSTGTTE
T ss_pred ccccccCcchhhccccc-------------------------------------------------------cccccccc
Confidence 99999999998753211 00011226
Q ss_pred cEEEEccCcccCCc--chHHHHHHHhh---hcCceEEEeccCcccchhh
Q 002565 513 FRVVLDEAQTIKNH--RTQVARACCSL---RAKRRWCLSGTPIQNSIDD 556 (907)
Q Consensus 513 ~rVIlDEAH~IKN~--~S~~~ka~~~L---~a~~R~~LTGTPiqN~l~E 556 (907)
++||+||+|.+-.. .......+..+ .....+++||||- .++++
T Consensus 121 ~~iViDE~h~l~~~~~~~~~~~i~~~~~~~~~~~~i~~SAT~~-~~~~~ 168 (169)
T PF00270_consen 121 SLIVIDEAHHLSDETFRAMLKSILRRLKRFKNIQIILLSATLP-SNVEK 168 (169)
T ss_dssp SEEEEETHHHHHHTTHHHHHHHHHHHSHTTTTSEEEEEESSST-HHHHH
T ss_pred eeeccCcccccccccHHHHHHHHHHHhcCCCCCcEEEEeeCCC-hhHhh
Confidence 78999999998653 22222333333 2356899999998 55554
No 60
>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=98.75 E-value=6.1e-07 Score=110.78 Aligned_cols=52 Identities=12% Similarity=0.125 Sum_probs=44.9
Q ss_pred eEEEEecchhhHHHHHHHHHhC--------CCeEEEEEccCCHHHHHHHHHHhcCCCCccc
Q 002565 854 KSIVFSQWTRMLDLVENSLNQH--------CIQYRRLDGTMSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~--------Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~V 906 (907)
|+|||+..+...+.|...|... +.....++|++++++|.++.++|++. .++|
T Consensus 273 ~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~G-~i~v 332 (742)
T TIGR03817 273 RTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRDG-ELLG 332 (742)
T ss_pred CEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHcC-CceE
Confidence 9999999999999999888763 66788999999999999999999964 3544
No 61
>PRK09401 reverse gyrase; Reviewed
Probab=98.74 E-value=5.3e-07 Score=115.37 Aligned_cols=48 Identities=15% Similarity=0.177 Sum_probs=40.1
Q ss_pred eEEEEecchhh---HHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWTRM---LDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~---Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
++|||++.... .+.|...|+..||++..++|+| .+.+++|.+.. ++||
T Consensus 330 ~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l-----~~~l~~F~~G~-~~VL 380 (1176)
T PRK09401 330 GGLIFVPSDKGKEYAEELAEYLEDLGINAELAISGF-----ERKFEKFEEGE-VDVL 380 (1176)
T ss_pred CEEEEEecccChHHHHHHHHHHHHCCCcEEEEeCcH-----HHHHHHHHCCC-CCEE
Confidence 78999998777 9999999999999999999999 23569999643 5553
No 62
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=98.70 E-value=1.5e-06 Score=102.15 Aligned_cols=160 Identities=18% Similarity=0.254 Sum_probs=111.5
Q ss_pred ccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCC
Q 002565 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (907)
+..+|-..|+..+.=+..-..+..+ .-=+|--|+|-|||+.|+..++..-..
T Consensus 259 LPF~LT~aQ~~vi~EI~~Dl~~~~~-M~RLlQGDVGSGKTvVA~laml~ai~~--------------------------- 310 (677)
T COG1200 259 LPFKLTNAQKRVIKEILADLASPVP-MNRLLQGDVGSGKTVVALLAMLAAIEA--------------------------- 310 (677)
T ss_pred CCCCccHHHHHHHHHHHhhhcCchh-hHHHhccCcCCCHHHHHHHHHHHHHHc---------------------------
Confidence 4567889999998877654433221 122666699999999886655432110
Q ss_pred cCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhh-HHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccc
Q 002565 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASV-LRQWARELEDKVPDKAALSVLIYHGGSRTKDPVE 429 (907)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sl-l~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~ 429 (907)
..-+...+|+.+ ..|-.+.+.+|+++- .++|....|.-+.+....
T Consensus 311 ---------------------------------G~Q~ALMAPTEILA~QH~~~~~~~l~~~-~i~V~lLtG~~kgk~r~~ 356 (677)
T COG1200 311 ---------------------------------GYQAALMAPTEILAEQHYESLRKWLEPL-GIRVALLTGSLKGKARKE 356 (677)
T ss_pred ---------------------------------CCeeEEeccHHHHHHHHHHHHHHHhhhc-CCeEEEeecccchhHHHH
Confidence 112678899885 499999999999864 589999999876654432
Q ss_pred ------cCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccC
Q 002565 430 ------LAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYG 503 (907)
Q Consensus 430 ------l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~ 503 (907)
-+..|+||=|+..+...+.
T Consensus 357 ~l~~l~~G~~~ivVGTHALiQd~V~------------------------------------------------------- 381 (677)
T COG1200 357 ILEQLASGEIDIVVGTHALIQDKVE------------------------------------------------------- 381 (677)
T ss_pred HHHHHhCCCCCEEEEcchhhhccee-------------------------------------------------------
Confidence 2568999999998875432
Q ss_pred CCCcccccccEEEEccCcccCCcchHHHHHHHhh-h-cCceEEEeccCcccchh
Q 002565 504 CGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSL-R-AKRRWCLSGTPIQNSID 555 (907)
Q Consensus 504 ~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L-~-a~~R~~LTGTPiqN~l~ 555 (907)
| .+..+||+||=|++. .....+++.- . ..+.+.||||||.-++.
T Consensus 382 ---F--~~LgLVIiDEQHRFG---V~QR~~L~~KG~~~Ph~LvMTATPIPRTLA 427 (677)
T COG1200 382 ---F--HNLGLVIIDEQHRFG---VHQRLALREKGEQNPHVLVMTATPIPRTLA 427 (677)
T ss_pred ---e--cceeEEEEecccccc---HHHHHHHHHhCCCCCcEEEEeCCCchHHHH
Confidence 1 124579999999984 3334444444 3 47999999999998753
No 63
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=98.63 E-value=1.5e-06 Score=106.02 Aligned_cols=66 Identities=9% Similarity=0.070 Sum_probs=57.9
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..|+.++++.+......+. +||||+......+.|...|.+.||++..|+|.
T Consensus 411 ~~K~~al~~~i~~~~~~~~-----------------------------pvLIf~~t~~~se~l~~~L~~~gi~~~~L~~~ 461 (790)
T PRK09200 411 DEKYKAVIEEVKERHETGR-----------------------------PVLIGTGSIEQSETFSKLLDEAGIPHNLLNAK 461 (790)
T ss_pred HHHHHHHHHHHHHHHhcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCCEEEecCC
Confidence 5699999999887655444 89999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhcC
Q 002565 886 MSLPARDRAVKDFNT 900 (907)
Q Consensus 886 ms~~~R~~~I~~F~~ 900 (907)
+...+|..+..+|+.
T Consensus 462 ~~~~e~~~i~~ag~~ 476 (790)
T PRK09200 462 NAAKEAQIIAEAGQK 476 (790)
T ss_pred ccHHHHHHHHHcCCC
Confidence 998888888877764
No 64
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=98.63 E-value=4e-06 Score=99.58 Aligned_cols=53 Identities=30% Similarity=0.515 Sum_probs=49.1
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
++|||+.-....+.|...|...|+....|||++++.+|.++++.|+ +..++||
T Consensus 275 ~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~-~g~~~vL 327 (513)
T COG0513 275 RVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFK-DGELRVL 327 (513)
T ss_pred eEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHH-cCCCCEE
Confidence 7999999999999999999999999999999999999999999999 4445554
No 65
>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=98.60 E-value=2.9e-06 Score=96.34 Aligned_cols=48 Identities=8% Similarity=0.127 Sum_probs=43.1
Q ss_pred eEEEEecchhhHHHHHHHHHhCCC--eEEEEEccCCHHHHHHH----HHHhcCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCI--QYRRLDGTMSLPARDRA----VKDFNTD 901 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi--~~~rLdGsms~~~R~~~----I~~F~~d 901 (907)
|+|||+......+.+...|++.+. .+..++|.++..+|.+. ++.|.+.
T Consensus 224 ~~lVf~~t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~ 277 (358)
T TIGR01587 224 KIAIIVNTVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKN 277 (358)
T ss_pred eEEEEECCHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCC
Confidence 999999999999999999998876 49999999999999774 8899863
No 66
>PRK01172 ski2-like helicase; Provisional
Probab=98.59 E-value=4.8e-07 Score=111.26 Aligned_cols=103 Identities=21% Similarity=0.227 Sum_probs=73.2
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
..|+++|.+++.-+... ...|++-..|.|||+.+...+.....
T Consensus 21 ~~l~~~Q~~ai~~l~~~-------~nvlv~apTGSGKTl~a~lail~~l~------------------------------ 63 (674)
T PRK01172 21 FELYDHQRMAIEQLRKG-------ENVIVSVPTAAGKTLIAYSAIYETFL------------------------------ 63 (674)
T ss_pred CCCCHHHHHHHHHHhcC-------CcEEEECCCCchHHHHHHHHHHHHHH------------------------------
Confidence 35899999999876422 33699999999999987655542210
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccC
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELA 431 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~ 431 (907)
..+.+|+|+|. +|+.|+.+++.++... ..+|.+..|.... ....+.
T Consensus 64 ------------------------------~~~k~v~i~P~raLa~q~~~~~~~l~~~--g~~v~~~~G~~~~-~~~~~~ 110 (674)
T PRK01172 64 ------------------------------AGLKSIYIVPLRSLAMEKYEELSRLRSL--GMRVKISIGDYDD-PPDFIK 110 (674)
T ss_pred ------------------------------hCCcEEEEechHHHHHHHHHHHHHHhhc--CCeEEEEeCCCCC-Chhhhc
Confidence 01348999995 5889999999876432 4677777776533 334456
Q ss_pred CCcEEEecchhhcc
Q 002565 432 KYDVVLTTYSIVTN 445 (907)
Q Consensus 432 ~~dVVItTY~~l~~ 445 (907)
.+||+|+|++.+..
T Consensus 111 ~~dIiv~Tpek~~~ 124 (674)
T PRK01172 111 RYDVVILTSEKADS 124 (674)
T ss_pred cCCEEEECHHHHHH
Confidence 78999999986643
No 67
>PRK00254 ski2-like helicase; Provisional
Probab=98.53 E-value=8.7e-07 Score=109.71 Aligned_cols=160 Identities=21% Similarity=0.168 Sum_probs=104.2
Q ss_pred cCchHHHHHHH-HHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 274 NLLKHQKIALA-WMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 274 ~L~phQ~~gv~-wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
.|+|+|.+++. ++... ...|++-..|-|||+.+...++....
T Consensus 23 ~l~~~Q~~ai~~~~~~g-------~nvlv~apTGsGKT~~~~l~il~~l~------------------------------ 65 (720)
T PRK00254 23 ELYPPQAEALKSGVLEG-------KNLVLAIPTASGKTLVAEIVMVNKLL------------------------------ 65 (720)
T ss_pred CCCHHHHHHHHHHHhCC-------CcEEEECCCCcHHHHHHHHHHHHHHH------------------------------
Confidence 58999999996 45422 33699999999999988544432110
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccC
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELA 431 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~ 431 (907)
...+++|+|+|. .|+.|+.+++.++.. ..++|..++|.... +...+.
T Consensus 66 -----------------------------~~~~~~l~l~P~~aLa~q~~~~~~~~~~--~g~~v~~~~Gd~~~-~~~~~~ 113 (720)
T PRK00254 66 -----------------------------REGGKAVYLVPLKALAEEKYREFKDWEK--LGLRVAMTTGDYDS-TDEWLG 113 (720)
T ss_pred -----------------------------hcCCeEEEEeChHHHHHHHHHHHHHHhh--cCCEEEEEeCCCCC-chhhhc
Confidence 012358999995 588999999987632 25788888887543 233457
Q ss_pred CCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCccccc
Q 002565 432 KYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVG 511 (907)
Q Consensus 432 ~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~~ 511 (907)
.+||+|+|++.+..-+... ...+ -.
T Consensus 114 ~~~IiV~Tpe~~~~ll~~~-----------------------------------------------------~~~l--~~ 138 (720)
T PRK00254 114 KYDIIIATAEKFDSLLRHG-----------------------------------------------------SSWI--KD 138 (720)
T ss_pred cCCEEEEcHHHHHHHHhCC-----------------------------------------------------chhh--hc
Confidence 7999999998775422110 0001 13
Q ss_pred ccEEEEccCcccCCc--chHHHHHHHhh-hcCceEEEeccCcccchhhhhh
Q 002565 512 WFRVVLDEAQTIKNH--RTQVARACCSL-RAKRRWCLSGTPIQNSIDDLYS 559 (907)
Q Consensus 512 w~rVIlDEAH~IKN~--~S~~~ka~~~L-~a~~R~~LTGTPiqN~l~EL~s 559 (907)
..+||+||+|.+... .......+..+ ...+.++||||.- | ..++..
T Consensus 139 l~lvViDE~H~l~~~~rg~~le~il~~l~~~~qiI~lSATl~-n-~~~la~ 187 (720)
T PRK00254 139 VKLVVADEIHLIGSYDRGATLEMILTHMLGRAQILGLSATVG-N-AEELAE 187 (720)
T ss_pred CCEEEEcCcCccCCccchHHHHHHHHhcCcCCcEEEEEccCC-C-HHHHHH
Confidence 568999999999643 33333344444 3456789999973 2 455544
No 68
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=98.52 E-value=1.5e-05 Score=95.69 Aligned_cols=64 Identities=11% Similarity=0.055 Sum_probs=53.0
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..|+.+|.+++......+. .||||+......+.|...|.+.||++..|+|.
T Consensus 456 ~~K~~aL~~~i~~~~~~~~-----------------------------pvLIft~t~~~se~L~~~L~~~gi~~~~Lhg~ 506 (656)
T PRK12898 456 AAKWAAVAARVRELHAQGR-----------------------------PVLVGTRSVAASERLSALLREAGLPHQVLNAK 506 (656)
T ss_pred HHHHHHHHHHHHHHHhcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCCEEEeeCC
Confidence 5699999999887654443 79999999999999999999999999999998
Q ss_pred CCHHHHHHHHHHhcC
Q 002565 886 MSLPARDRAVKDFNT 900 (907)
Q Consensus 886 ms~~~R~~~I~~F~~ 900 (907)
++ +|++.+..|..
T Consensus 507 ~~--~rE~~ii~~ag 519 (656)
T PRK12898 507 QD--AEEAAIVARAG 519 (656)
T ss_pred cH--HHHHHHHHHcC
Confidence 65 55566666654
No 69
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.51 E-value=9e-06 Score=99.49 Aligned_cols=71 Identities=8% Similarity=0.059 Sum_probs=64.1
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
...|++++++.+..+...+. -|||||.+...-++|...|.+.||++..|+|
T Consensus 426 ~~~k~~av~~~i~~~~~~g~-----------------------------PVLVgt~Sie~sE~ls~~L~~~gi~h~vLna 476 (896)
T PRK13104 426 QADKFQAIIEDVRECGVRKQ-----------------------------PVLVGTVSIEASEFLSQLLKKENIKHQVLNA 476 (896)
T ss_pred HHHHHHHHHHHHHHHHhCCC-----------------------------CEEEEeCcHHHHHHHHHHHHHcCCCeEeecC
Confidence 35799999999988877766 7999999999999999999999999999999
Q ss_pred cCCHHHHHHHHHHhcCCCCcc
Q 002565 885 TMSLPARDRAVKDFNTDREVC 905 (907)
Q Consensus 885 sms~~~R~~~I~~F~~dp~v~ 905 (907)
.+...+|+.+.++|+... |.
T Consensus 477 k~~q~Ea~iia~Ag~~G~-Vt 496 (896)
T PRK13104 477 KFHEKEAQIIAEAGRPGA-VT 496 (896)
T ss_pred CCChHHHHHHHhCCCCCc-EE
Confidence 999999999999999763 44
No 70
>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=98.50 E-value=3.8e-06 Score=107.82 Aligned_cols=49 Identities=16% Similarity=0.235 Sum_probs=42.4
Q ss_pred eEEEEecch---hhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWT---RMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft---~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
++|||++-. ...+.|...|+..|+++..++|.|+ ++++++|.+. +++||
T Consensus 328 ~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~----~~~l~~Fr~G-~~~vL 379 (1171)
T TIGR01054 328 GGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKP----KEDYEKFAEG-EIDVL 379 (1171)
T ss_pred CEEEEEeccccHHHHHHHHHHHHhCCceEEEEeCCCC----HHHHHHHHcC-CCCEE
Confidence 789999988 8999999999999999999999997 3699999854 35553
No 71
>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=98.45 E-value=2e-05 Score=96.62 Aligned_cols=45 Identities=22% Similarity=0.268 Sum_probs=42.7
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHH-----HHHHHhcC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARD-----RAVKDFNT 900 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~-----~~I~~F~~ 900 (907)
++|||+......+.|...|...|+ ..|+|.|++.+|. +++++|++
T Consensus 274 ~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~ 323 (844)
T TIGR02621 274 AILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLP 323 (844)
T ss_pred cEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhc
Confidence 899999999999999999999988 8999999999999 88999986
No 72
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.44 E-value=1.1e-06 Score=107.82 Aligned_cols=104 Identities=21% Similarity=0.219 Sum_probs=77.9
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcCc
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGL 353 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (907)
.|+++|..+|.-.+.. . ...|+|=..|-|||+.++..|+.....
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 7999999998644422 1 236999999999999887777643211
Q ss_pred ccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeC-hhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCC
Q 002565 354 DKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCP-ASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAK 432 (907)
Q Consensus 354 ~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P-~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~ 432 (907)
. ..+.+-||| .+|..+=.+||.+|-.- .++|.+++|...... ..+.+
T Consensus 75 ----------------------------~-~~k~vYivPlkALa~Ek~~~~~~~~~~--GirV~~~TgD~~~~~-~~l~~ 122 (766)
T COG1204 75 ----------------------------G-GGKVVYIVPLKALAEEKYEEFSRLEEL--GIRVGISTGDYDLDD-ERLAR 122 (766)
T ss_pred ----------------------------c-CCcEEEEeChHHHHHHHHHHhhhHHhc--CCEEEEecCCcccch-hhhcc
Confidence 0 245899999 56888888888844222 599999999877544 77899
Q ss_pred CcEEEecchhhcc
Q 002565 433 YDVVLTTYSIVTN 445 (907)
Q Consensus 433 ~dVVItTY~~l~~ 445 (907)
+|||||||+.+-+
T Consensus 123 ~~ViVtT~EK~Ds 135 (766)
T COG1204 123 YDVIVTTPEKLDS 135 (766)
T ss_pred CCEEEEchHHhhH
Confidence 9999999998754
No 73
>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=98.44 E-value=1.1e-05 Score=97.44 Aligned_cols=66 Identities=15% Similarity=0.167 Sum_probs=59.0
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..|++++++.+......+. .|||||......+.|...|.+.||++..|+|.
T Consensus 388 ~~k~~ai~~~i~~~~~~gr-----------------------------pvLV~t~si~~se~ls~~L~~~gi~~~~Lna~ 438 (745)
T TIGR00963 388 EEKWKAVVDEIKERHAKGQ-----------------------------PVLVGTTSVEKSELLSNLLKERGIPHNVLNAK 438 (745)
T ss_pred HHHHHHHHHHHHHHHhcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHcCCCeEEeeCC
Confidence 4699999888877766655 89999999999999999999999999999998
Q ss_pred CCHHHHHHHHHHhcCCC
Q 002565 886 MSLPARDRAVKDFNTDR 902 (907)
Q Consensus 886 ms~~~R~~~I~~F~~dp 902 (907)
..+|++.|..|...+
T Consensus 439 --q~~rEa~ii~~ag~~ 453 (745)
T TIGR00963 439 --NHEREAEIIAQAGRK 453 (745)
T ss_pred --hHHHHHHHHHhcCCC
Confidence 789999999998654
No 74
>PRK14701 reverse gyrase; Provisional
Probab=98.26 E-value=4.2e-05 Score=100.60 Aligned_cols=48 Identities=10% Similarity=0.178 Sum_probs=40.2
Q ss_pred eEEEEecchhh---HHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWTRM---LDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~---Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
.+|||++.... .+.|...|...|+++..++|. |.+++++|.+.. +.||
T Consensus 332 ~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~-----R~~~l~~F~~G~-~~VL 382 (1638)
T PRK14701 332 GGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK-----NKKGFDLFEEGE-IDYL 382 (1638)
T ss_pred CeEEEEeccccchHHHHHHHHHHHCCCeEEEecch-----HHHHHHHHHcCC-CCEE
Confidence 78999987664 589999999999999999994 999999999644 5543
No 75
>PHA02653 RNA helicase NPH-II; Provisional
Probab=98.25 E-value=7.4e-05 Score=90.83 Aligned_cols=52 Identities=12% Similarity=0.202 Sum_probs=43.2
Q ss_pred eEEEEecchhhHHHHHHHHHhC--CCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQH--CIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~--Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
++|||..-....+.+...|++. |+.+..|+|+|++. ++++++|..+...+||
T Consensus 397 ~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~Lsq~--eq~l~~ff~~gk~kIL 450 (675)
T PHA02653 397 SGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGKVPNI--DEILEKVYSSKNPSII 450 (675)
T ss_pred cEEEEECcHHHHHHHHHHHHhhcCCceEEeccCCcCHH--HHHHHHHhccCceeEE
Confidence 8999999999999999999987 79999999999864 6778888544455553
No 76
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.25 E-value=9.1e-06 Score=99.63 Aligned_cols=105 Identities=18% Similarity=0.161 Sum_probs=73.8
Q ss_pred cccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCc
Q 002565 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNA 351 (907)
Q Consensus 272 ~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (907)
...|.++|..++..+.... ...-.+|.-..|-|||...+.++.....
T Consensus 142 ~~~Lt~~Q~~ai~~i~~~~----~~~~~Ll~~~TGSGKT~v~l~~i~~~l~----------------------------- 188 (679)
T PRK05580 142 PPTLNPEQAAAVEAIRAAA----GFSPFLLDGVTGSGKTEVYLQAIAEVLA----------------------------- 188 (679)
T ss_pred CCCCCHHHHHHHHHHHhcc----CCCcEEEECCCCChHHHHHHHHHHHHHH-----------------------------
Confidence 3469999999999887532 1123578888999999888766542211
Q ss_pred CcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCcc--
Q 002565 352 GLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKDPV-- 428 (907)
Q Consensus 352 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~-- 428 (907)
..+.+||+||.. |..||.+.+.+.++ .++.++||.....+..
T Consensus 189 -------------------------------~g~~vLvLvPt~~L~~Q~~~~l~~~fg----~~v~~~~s~~s~~~r~~~ 233 (679)
T PRK05580 189 -------------------------------QGKQALVLVPEIALTPQMLARFRARFG----APVAVLHSGLSDGERLDE 233 (679)
T ss_pred -------------------------------cCCeEEEEeCcHHHHHHHHHHHHHHhC----CCEEEEECCCCHHHHHHH
Confidence 013489999965 88999999999874 5788899875432211
Q ss_pred ----ccCCCcEEEecchhhc
Q 002565 429 ----ELAKYDVVLTTYSIVT 444 (907)
Q Consensus 429 ----~l~~~dVVItTY~~l~ 444 (907)
..+..+|||.|.+.+.
T Consensus 234 ~~~~~~g~~~IVVgTrsal~ 253 (679)
T PRK05580 234 WRKAKRGEAKVVIGARSALF 253 (679)
T ss_pred HHHHHcCCCCEEEeccHHhc
Confidence 1246799999986553
No 77
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=98.25 E-value=7.1e-05 Score=91.50 Aligned_cols=52 Identities=10% Similarity=0.084 Sum_probs=47.4
Q ss_pred eEEEEecchhhHHHHHHHHHhCC-CeEEEEEccCCHHHHHHHHHHhcCCCCccc
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHC-IQYRRLDGTMSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~G-i~~~rLdGsms~~~R~~~I~~F~~dp~v~V 906 (907)
.+|||+.-+.+.+.|...|++.+ ..+..-|||++.++|..+-++|++.. .++
T Consensus 255 ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~-lra 307 (814)
T COG1201 255 TTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGE-LKA 307 (814)
T ss_pred cEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhcCC-ceE
Confidence 78999999999999999999987 88999999999999999999999765 543
No 78
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=98.23 E-value=5.3e-06 Score=103.26 Aligned_cols=159 Identities=21% Similarity=0.228 Sum_probs=106.2
Q ss_pred CchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcCcc
Q 002565 275 LLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGLD 354 (907)
Q Consensus 275 L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (907)
|+.||.+|+..+.+- +--|+.--+|-|||..-+.-|+.....
T Consensus 71 lY~HQ~~A~~~~~~G-------~~vvVtTgTgSGKTe~FllPIld~~l~------------------------------- 112 (851)
T COG1205 71 LYSHQVDALRLIREG-------RNVVVTTGTGSGKTESFLLPILDHLLR------------------------------- 112 (851)
T ss_pred ccHHHHHHHHHHHCC-------CCEEEECCCCCchhHHHHHHHHHHHhh-------------------------------
Confidence 999999999999843 335999999999998776666532211
Q ss_pred cccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhH-HHHHHHHHHhCCCCC-CeEEEEEeCCCCCCCcc--cc
Q 002565 355 KVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVL-RQWARELEDKVPDKA-ALSVLIYHGGSRTKDPV--EL 430 (907)
Q Consensus 355 ~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll-~qW~~Ei~k~~~~~~-~l~V~v~~G~~r~~~~~--~l 430 (907)
.+..+.|+|=|...| ..=.+.|.++..... .+++.+|+|........ .-
T Consensus 113 ---------------------------~~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~~ 165 (851)
T COG1205 113 ---------------------------DPSARALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEERRAIIR 165 (851)
T ss_pred ---------------------------CcCccEEEEechhhhHhhHHHHHHHHHHhCCCcceeeeecCCCChHHHHHHHh
Confidence 233468999997755 444455555543221 58899999987654442 34
Q ss_pred CCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccc
Q 002565 431 AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKV 510 (907)
Q Consensus 431 ~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~ 510 (907)
...+||||+|+++-..+.... + .+ -+..-
T Consensus 166 ~pp~IllTNpdMLh~~llr~~------------~------~~---------------------------------~~~~~ 194 (851)
T COG1205 166 NPPDILLTNPDMLHYLLLRNH------------D------AW---------------------------------LWLLR 194 (851)
T ss_pred CCCCEEEeCHHHHHHHhccCc------------c------hH---------------------------------HHHHh
Confidence 678999999999975322100 0 00 01222
Q ss_pred cccEEEEccCcccCCc-chHHHHHHHhhhc--------CceEEEeccC
Q 002565 511 GWFRVVLDEAQTIKNH-RTQVARACCSLRA--------KRRWCLSGTP 549 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~-~S~~~ka~~~L~a--------~~R~~LTGTP 549 (907)
.+.+||+||+|..+.- .|.++-.+++|.- ..-++.|||=
T Consensus 195 ~Lk~lVvDElHtYrGv~GS~vA~llRRL~~~~~~~~~~~q~i~~SAT~ 242 (851)
T COG1205 195 NLKYLVVDELHTYRGVQGSEVALLLRRLLRRLRRYGSPLQIICTSATL 242 (851)
T ss_pred cCcEEEEecceeccccchhHHHHHHHHHHHHHhccCCCceEEEEeccc
Confidence 3788999999999874 5777777777732 2347888883
No 79
>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=98.21 E-value=9.7e-06 Score=92.12 Aligned_cols=43 Identities=16% Similarity=0.205 Sum_probs=37.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhCC--CeEEEEEccCCHHHHHHHH
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHC--IQYRRLDGTMSLPARDRAV 895 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~G--i~~~rLdGsms~~~R~~~I 895 (907)
.|+|||+.-....+.+...|+..| +.+..++|.++..+|.++.
T Consensus 273 ~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~~ 317 (357)
T TIGR03158 273 ERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRERAM 317 (357)
T ss_pred CeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHHHhc
Confidence 489999999999999999998865 5788999999999987654
No 80
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=98.20 E-value=6.4e-05 Score=85.34 Aligned_cols=70 Identities=20% Similarity=0.345 Sum_probs=61.9
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
.++|.++|+++|... ..+ .+|||.......|.|...|++.||++++|||
T Consensus 501 ed~k~kkL~eil~~~--~~p-----------------------------piIIFvN~kk~~d~lAk~LeK~g~~~~tlHg 549 (673)
T KOG0333|consen 501 EDEKRKKLIEILESN--FDP-----------------------------PIIIFVNTKKGADALAKILEKAGYKVTTLHG 549 (673)
T ss_pred chHHHHHHHHHHHhC--CCC-----------------------------CEEEEEechhhHHHHHHHHhhccceEEEeeC
Confidence 478999999999865 222 8999999999999999999999999999999
Q ss_pred cCCHHHHHHHHHHhcC-CCCcc
Q 002565 885 TMSLPARDRAVKDFNT-DREVC 905 (907)
Q Consensus 885 sms~~~R~~~I~~F~~-dp~v~ 905 (907)
+-++++|+.++..|++ ..+|.
T Consensus 550 ~k~qeQRe~aL~~fr~~t~dIl 571 (673)
T KOG0333|consen 550 GKSQEQRENALADFREGTGDIL 571 (673)
T ss_pred CccHHHHHHHHHHHHhcCCCEE
Confidence 9999999999999997 33443
No 81
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.18 E-value=6.5e-05 Score=85.90 Aligned_cols=75 Identities=20% Similarity=0.219 Sum_probs=60.5
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
...|...|+++|........ ....-.+|++||..-..+.+.|+..|...|+++..|+|
T Consensus 312 ~~~kr~~Lldll~~~~~~~~----------------------~~~~~~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg 369 (482)
T KOG0335|consen 312 EMEKRSKLLDLLNKDDGPPS----------------------DGEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHG 369 (482)
T ss_pred chhhHHHHHHHhhcccCCcc----------------------cCCcccceEEEEeeccchhhHHHHHHhcCCCCceeecc
Confidence 35788899998875442100 00011349999999999999999999999999999999
Q ss_pred cCCHHHHHHHHHHhcCC
Q 002565 885 TMSLPARDRAVKDFNTD 901 (907)
Q Consensus 885 sms~~~R~~~I~~F~~d 901 (907)
.-++.+|.++++.|.+.
T Consensus 370 ~~tq~er~~al~~Fr~g 386 (482)
T KOG0335|consen 370 DRTQIEREQALNDFRNG 386 (482)
T ss_pred hhhhhHHHHHHHHhhcC
Confidence 99999999999999964
No 82
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.18 E-value=7.7e-05 Score=91.33 Aligned_cols=66 Identities=12% Similarity=0.104 Sum_probs=59.3
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..|+.++.+.+..+...+. .|||||......+.|...|.+.||++..|+|.
T Consensus 413 ~~K~~aI~~~I~~~~~~gr-----------------------------pVLIft~Si~~se~Ls~~L~~~gi~~~vLnak 463 (830)
T PRK12904 413 KEKFDAVVEDIKERHKKGQ-----------------------------PVLVGTVSIEKSELLSKLLKKAGIPHNVLNAK 463 (830)
T ss_pred HHHHHHHHHHHHHHHhcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCceEeccCc
Confidence 4699999999987766555 89999999999999999999999999999996
Q ss_pred CCHHHHHHHHHHhcCCC
Q 002565 886 MSLPARDRAVKDFNTDR 902 (907)
Q Consensus 886 ms~~~R~~~I~~F~~dp 902 (907)
..+|++.|.+|...+
T Consensus 464 --q~eREa~Iia~Ag~~ 478 (830)
T PRK12904 464 --NHEREAEIIAQAGRP 478 (830)
T ss_pred --hHHHHHHHHHhcCCC
Confidence 789999999999755
No 83
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.12 E-value=0.00019 Score=87.95 Aligned_cols=69 Identities=10% Similarity=0.049 Sum_probs=63.6
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
...|++++++.+..+.+.+. .||||+.....-++|...|...||++..|+|
T Consensus 431 ~~~K~~Aii~ei~~~~~~Gr-----------------------------pVLV~t~sv~~se~ls~~L~~~gi~~~vLna 481 (908)
T PRK13107 431 ADEKYQAIIKDIKDCRERGQ-----------------------------PVLVGTVSIEQSELLARLMVKEKIPHEVLNA 481 (908)
T ss_pred HHHHHHHHHHHHHHHHHcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCCeEeccC
Confidence 36799999999988888776 8999999999999999999999999999999
Q ss_pred cCCHHHHHHHHHHhcCCC
Q 002565 885 TMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 885 sms~~~R~~~I~~F~~dp 902 (907)
.++..+|+.+.++|+...
T Consensus 482 k~~~~Ea~ii~~Ag~~G~ 499 (908)
T PRK13107 482 KFHEREAEIVAQAGRTGA 499 (908)
T ss_pred cccHHHHHHHHhCCCCCc
Confidence 999999999999999654
No 84
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.08 E-value=0.00019 Score=81.22 Aligned_cols=66 Identities=15% Similarity=0.204 Sum_probs=59.3
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..|+..|+.-|-+....+ |||||..=....+-|+..|+..||.+..++|+
T Consensus 452 ~~Kl~wl~~~L~~f~S~g------------------------------kvlifVTKk~~~e~i~a~Lklk~~~v~llhgd 501 (731)
T KOG0339|consen 452 EKKLNWLLRHLVEFSSEG------------------------------KVLIFVTKKADAEEIAANLKLKGFNVSLLHGD 501 (731)
T ss_pred HHHHHHHHHHhhhhccCC------------------------------cEEEEEeccCCHHHHHHHhccccceeeeecCc
Confidence 469999988887665543 89999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhcCC
Q 002565 886 MSLPARDRAVKDFNTD 901 (907)
Q Consensus 886 ms~~~R~~~I~~F~~d 901 (907)
|.+.+|.+.|..|+..
T Consensus 502 kdqa~rn~~ls~fKkk 517 (731)
T KOG0339|consen 502 KDQAERNEVLSKFKKK 517 (731)
T ss_pred hhhHHHHHHHHHHhhc
Confidence 9999999999999965
No 85
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.06 E-value=6.1e-05 Score=82.81 Aligned_cols=49 Identities=24% Similarity=0.243 Sum_probs=46.9
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
-+||||.--.+-+.+.-.|+..|+....|+|.|++..|..+++.|++..
T Consensus 302 s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~ 350 (476)
T KOG0330|consen 302 SVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGA 350 (476)
T ss_pred cEEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhccC
Confidence 7899999999999999999999999999999999999999999999653
No 86
>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=98.02 E-value=3.4e-05 Score=84.89 Aligned_cols=143 Identities=17% Similarity=0.219 Sum_probs=90.5
Q ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccc---------HHHHHHHHHHHHHhcCCcccccccccccccc
Q 002565 623 TISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQN---------YANILLMLLRLRQACDHPLLVKEYDFDSVGK 693 (907)
Q Consensus 623 ~~~~v~v~lS~~Er~lY~~l~~~~~~~~~~~~~~g~~~~~---------~~~iL~~L~rLRqic~hP~L~~~~~~~~~~~ 693 (907)
.++.++++|+..|+++|+.+.......+.++......... ...+-.++.+|+.+|+||.|+........-.
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 3678999999999999999999888888877654443322 2445667889999999999976522110000
Q ss_pred chHHHhhcCChhHHHHHHHhhhcccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCccccccc
Q 002565 694 ISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSK 773 (907)
Q Consensus 694 ~~~e~~~~l~~e~~~~ll~~le~~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~ 773 (907)
..+.
T Consensus 84 ---------~~e~------------------------------------------------------------------- 87 (297)
T PF11496_consen 84 ---------LSEP------------------------------------------------------------------- 87 (297)
T ss_dssp ---------STTH-------------------------------------------------------------------
T ss_pred ---------cchH-------------------------------------------------------------------
Confidence 0000
Q ss_pred cccccccCCCCCCCCCCCcccccCCCcCCCccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCc
Q 002565 774 TTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPI 853 (907)
Q Consensus 774 ~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 853 (907)
..+..+.|+|+..|-++|..+..... ...+.
T Consensus 88 -------------------------~~~~~~tS~KF~~L~~Li~~li~~~~------------------------~~~~~ 118 (297)
T PF11496_consen 88 -------------------------AEWLAYTSGKFQFLNDLIDSLIDRDR------------------------REYPL 118 (297)
T ss_dssp -------------------------HHHHHHT-HHHHHHHHHHHHH-----------------------------TTSSE
T ss_pred -------------------------HHHHHHcCchHHHHHHHHHHHHhhhc------------------------ccCCc
Confidence 00112369999999999998854221 01135
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHH
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPA 890 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~ 890 (907)
++||.++-..++|+||..|...++.|.|++|.+-..+
T Consensus 119 ~ilIv~~~~k~ldllE~~llGk~~~~kr~sg~~l~~~ 155 (297)
T PF11496_consen 119 HILIVSRSGKELDLLEGLLLGKKLNYKRYSGESLYDE 155 (297)
T ss_dssp EEEEEE-STHHHHHHHHHHTTSSSEEEESSS--S--S
T ss_pred eEEEEecCccHHHHHHHHHccCCeeEEecCCCCCcCc
Confidence 9999999999999999999999999999999865544
No 87
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=97.99 E-value=0.00011 Score=77.70 Aligned_cols=49 Identities=18% Similarity=0.469 Sum_probs=46.9
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
.+|||+.-....|||...|+..++.+..+||.|++++|++++++|+...
T Consensus 268 QavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~ 316 (400)
T KOG0328|consen 268 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGK 316 (400)
T ss_pred eEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCC
Confidence 7899999999999999999999999999999999999999999999654
No 88
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.97 E-value=3.9e-05 Score=90.91 Aligned_cols=55 Identities=20% Similarity=0.256 Sum_probs=40.3
Q ss_pred CeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCc----c--ccCCCcEEEecchhhc
Q 002565 386 GTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDP----V--ELAKYDVVLTTYSIVT 444 (907)
Q Consensus 386 ~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~----~--~l~~~dVVItTY~~l~ 444 (907)
.+|||+|. +|..|+.+.|++.++ .++.++|+....... . ...+++|||+|+..+.
T Consensus 27 ~vLvlvP~i~L~~Q~~~~l~~~f~----~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVGTrsalf 88 (505)
T TIGR00595 27 SVLVLVPEIALTPQMIQRFKYRFG----SQVAVLHSGLSDSEKLQAWRKVKNGEILVVIGTRSALF 88 (505)
T ss_pred eEEEEeCcHHHHHHHHHHHHHHhC----CcEEEEECCCCHHHHHHHHHHHHcCCCCEEECChHHHc
Confidence 48999996 588999999998875 467788886543221 1 1246789999988664
No 89
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.94 E-value=4.9e-06 Score=84.26 Aligned_cols=54 Identities=31% Similarity=0.840 Sum_probs=43.9
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhccC---------------CCCCCCCcccccccCcccccc
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITG---------------DDNMCPAPRCKEQLGADVVFS 772 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~---------------~~~~CP~~~Cr~~l~~~~~~~ 772 (907)
+..+|+||.+...+|+++.|||+||..|+..++.. ....|| .|+..+....++.
T Consensus 17 ~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CP--vCR~~Is~~~LvP 85 (193)
T PLN03208 17 GDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCP--VCKSDVSEATLVP 85 (193)
T ss_pred CccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCC--CCCCcCChhcEEE
Confidence 46789999999999999999999999999987631 124688 6999987765543
No 90
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.93 E-value=0.00013 Score=82.45 Aligned_cols=118 Identities=17% Similarity=0.166 Sum_probs=79.9
Q ss_pred ccCchHHHHHHHHHHHhhhccccccC--ceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLG--GILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~G--GILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (907)
..++|-|..-+-|++.--+.....++ -.++-..|-|||+.-.-=|+.....
T Consensus 158 s~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~--------------------------- 210 (620)
T KOG0350|consen 158 SRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSS--------------------------- 210 (620)
T ss_pred ccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHcc---------------------------
Confidence 46999999999999876553222223 3566789999997532222211111
Q ss_pred cCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCc-c
Q 002565 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKDP-V 428 (907)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~-~ 428 (907)
+.-+.-+.|||+|.. |..|-.++|.+|.++ ..|.|....|.+..++- .
T Consensus 211 -----------------------------R~v~~LRavVivPtr~L~~QV~~~f~~~~~~-tgL~V~~~sgq~sl~~E~~ 260 (620)
T KOG0350|consen 211 -----------------------------RPVKRLRAVVIVPTRELALQVYDTFKRLNSG-TGLAVCSLSGQNSLEDEAR 260 (620)
T ss_pred -----------------------------CCccceEEEEEeeHHHHHHHHHHHHHHhccC-CceEEEecccccchHHHHH
Confidence 001224589999976 779999999999875 48899999998765431 1
Q ss_pred c------cCCCcEEEecchhhcccC
Q 002565 429 E------LAKYDVVLTTYSIVTNEV 447 (907)
Q Consensus 429 ~------l~~~dVVItTY~~l~~e~ 447 (907)
+ ....||+|+|.+.+-..+
T Consensus 261 qL~~~~~~~~~DIlVaTPGRLVDHl 285 (620)
T KOG0350|consen 261 QLASDPPECRIDILVATPGRLVDHL 285 (620)
T ss_pred HHhcCCCccccceEEcCchHHHHhc
Confidence 2 235799999999887654
No 91
>COG4889 Predicted helicase [General function prediction only]
Probab=97.91 E-value=1.4e-05 Score=94.70 Aligned_cols=44 Identities=18% Similarity=0.191 Sum_probs=31.4
Q ss_pred cccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHH
Q 002565 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQ 318 (907)
Q Consensus 272 ~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~ 318 (907)
..+|||||.+|+.-..+-... +-+|-++ -..|.|||.++|-+.-
T Consensus 159 ~kk~R~hQq~Aid~a~~~F~~--n~RGkLI-MAcGTGKTfTsLkisE 202 (1518)
T COG4889 159 PKKPRPHQQTAIDAAKEGFSD--NDRGKLI-MACGTGKTFTSLKISE 202 (1518)
T ss_pred CCCCChhHHHHHHHHHhhccc--ccCCcEE-EecCCCccchHHHHHH
Confidence 457999999999877754332 4455433 3579999999987663
No 92
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.91 E-value=3.5e-06 Score=82.99 Aligned_cols=44 Identities=39% Similarity=0.840 Sum_probs=35.6
Q ss_pred ccccccccCCCCCC--ccccccCcccchhhhhhhccCCCCCCCCccc
Q 002565 717 SSAICCVCSDPPED--SVVTMCGHVFCYQCASEYITGDDNMCPAPRC 761 (907)
Q Consensus 717 ~~~~C~iC~d~~e~--pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~C 761 (907)
+...|+||+++... |+-|.|||+||..||...+.. ..+||.++|
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~-~~~CP~C~k 175 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN-TNKCPTCRK 175 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHHHh-CCCCCCccc
Confidence 44679999998754 677999999999999998763 568996555
No 93
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=4.7e-06 Score=85.73 Aligned_cols=56 Identities=34% Similarity=0.835 Sum_probs=46.3
Q ss_pred cccccccccCCCCCCccccccCcccchhhhhhhccCC--CCCCCCcccccccCccccccc
Q 002565 716 TSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGD--DNMCPAPRCKEQLGADVVFSK 773 (907)
Q Consensus 716 ~~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~--~~~CP~~~Cr~~l~~~~~~~~ 773 (907)
.+..+|.||.|..++||+|.|||.||-.|+..|+... ...||+ |+..+..+.+++.
T Consensus 45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPV--CK~~Vs~~~vvPl 102 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPV--CKAEVSIDTVVPL 102 (230)
T ss_pred CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCc--cccccccceEEee
Confidence 4678899999999999999999999999999998654 346885 7777777766543
No 94
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=97.84 E-value=0.00048 Score=84.19 Aligned_cols=67 Identities=10% Similarity=0.049 Sum_probs=57.4
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..|+.++.+.+......+. .|||||.+....+.|...|.+.||++..|+|.
T Consensus 423 ~~K~~al~~~i~~~~~~g~-----------------------------pvLI~t~si~~se~ls~~L~~~gi~~~~Lna~ 473 (796)
T PRK12906 423 DSKFNAVVKEIKERHAKGQ-----------------------------PVLVGTVAIESSERLSHLLDEAGIPHAVLNAK 473 (796)
T ss_pred HHHHHHHHHHHHHHHhCCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCCeeEecCC
Confidence 4699999999987766554 89999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhcCC
Q 002565 886 MSLPARDRAVKDFNTD 901 (907)
Q Consensus 886 ms~~~R~~~I~~F~~d 901 (907)
+...+++.+..+|+..
T Consensus 474 ~~~~Ea~ii~~ag~~g 489 (796)
T PRK12906 474 NHAKEAEIIMNAGQRG 489 (796)
T ss_pred cHHHHHHHHHhcCCCc
Confidence 9877777777776643
No 95
>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=97.83 E-value=5.8e-06 Score=69.31 Aligned_cols=50 Identities=12% Similarity=0.293 Sum_probs=41.9
Q ss_pred ccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCccccc
Q 002565 719 AICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVF 771 (907)
Q Consensus 719 ~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~ 771 (907)
..|+||.+.+.+|++++|||+||+.|+..++.. ...||. |+..+..+.++
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~-~~~cP~--~~~~~~~~~l~ 51 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLS-HGTDPV--TGQPLTHEDLI 51 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH-CCCCCC--CcCCCChhhce
Confidence 369999999999999999999999999999976 678994 77776554433
No 96
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=97.82 E-value=0.00057 Score=88.89 Aligned_cols=52 Identities=17% Similarity=0.255 Sum_probs=40.5
Q ss_pred eEEEEecchhhHHHHHHHHHhCC---------------------------------CeEEEEEccCCHHHHHHHHHHhcC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHC---------------------------------IQYRRLDGTMSLPARDRAVKDFNT 900 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~G---------------------------------i~~~rLdGsms~~~R~~~I~~F~~ 900 (907)
++|||+..+...+.|...|++.. +....+||+|+.++|..+.+.|++
T Consensus 246 stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~fK~ 325 (1490)
T PRK09751 246 STIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQALKS 325 (1490)
T ss_pred CEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHHHHh
Confidence 78899998888888888776531 114567899999999999999996
Q ss_pred CCCccc
Q 002565 901 DREVCS 906 (907)
Q Consensus 901 dp~v~V 906 (907)
.. ++|
T Consensus 326 G~-Lrv 330 (1490)
T PRK09751 326 GE-LRC 330 (1490)
T ss_pred CC-ceE
Confidence 53 454
No 97
>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=97.78 E-value=0.0018 Score=80.77 Aligned_cols=48 Identities=27% Similarity=0.292 Sum_probs=43.8
Q ss_pred eEEEEecchhhHHHHHHHHHh---CCCeEEEEEccCCHHHHHHHHHHhcCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQ---HCIQYRRLDGTMSLPARDRAVKDFNTD 901 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~---~Gi~~~rLdGsms~~~R~~~I~~F~~d 901 (907)
++|||..-...++.+...|++ .++.++.|+|+|+.++|.++++.|.+.
T Consensus 211 ~iLVFlpg~~eI~~l~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G 261 (819)
T TIGR01970 211 SILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQG 261 (819)
T ss_pred cEEEEECCHHHHHHHHHHHHhhcCCCcEEEEecCCCCHHHHHHHHhhcccC
Confidence 899999999999999999987 489999999999999999999999854
No 98
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=97.77 E-value=0.00016 Score=70.49 Aligned_cols=100 Identities=16% Similarity=0.263 Sum_probs=54.1
Q ss_pred CCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecchhhcccCCCCCCCchhHhhhhccc
Q 002565 385 AGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGE 464 (907)
Q Consensus 385 ~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~ 464 (907)
.++||+.|.-++- +|+.+.+.. +. +-++-..+.. ......-|-+++|.++...+.
T Consensus 34 ~rvLvL~PTRvva---~em~~aL~~---~~-~~~~t~~~~~--~~~g~~~i~vMc~at~~~~~~---------------- 88 (148)
T PF07652_consen 34 LRVLVLAPTRVVA---EEMYEALKG---LP-VRFHTNARMR--THFGSSIIDVMCHATYGHFLL---------------- 88 (148)
T ss_dssp --EEEEESSHHHH---HHHHHHTTT---SS-EEEESTTSS------SSSSEEEEEHHHHHHHHH----------------
T ss_pred CeEEEecccHHHH---HHHHHHHhc---CC-cccCceeeec--cccCCCcccccccHHHHHHhc----------------
Confidence 4599999998774 566666542 33 2233333222 334566788899998875321
Q ss_pred ccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccccccEEEEccCcccCCcchHHHHHH-Hhh-hc--C
Q 002565 465 TYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARAC-CSL-RA--K 540 (907)
Q Consensus 465 ~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~-~~L-~a--~ 540 (907)
.+.....|+++|+||+|.. .+.|...+.. ..+ .. .
T Consensus 89 ----------------------------------------~p~~~~~yd~II~DEcH~~-Dp~sIA~rg~l~~~~~~g~~ 127 (148)
T PF07652_consen 89 ----------------------------------------NPCRLKNYDVIIMDECHFT-DPTSIAARGYLRELAESGEA 127 (148)
T ss_dssp ----------------------------------------TSSCTTS-SEEEECTTT---SHHHHHHHHHHHHHHHTTS-
T ss_pred ----------------------------------------CcccccCccEEEEeccccC-CHHHHhhheeHHHhhhccCe
Confidence 0123457999999999984 3333333222 112 22 2
Q ss_pred ceEEEeccCc
Q 002565 541 RRWCLSGTPI 550 (907)
Q Consensus 541 ~R~~LTGTPi 550 (907)
..+.+||||-
T Consensus 128 ~~i~mTATPP 137 (148)
T PF07652_consen 128 KVIFMTATPP 137 (148)
T ss_dssp EEEEEESS-T
T ss_pred eEEEEeCCCC
Confidence 5789999995
No 99
>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=97.73 E-value=1.1e-05 Score=60.95 Aligned_cols=37 Identities=43% Similarity=1.053 Sum_probs=31.9
Q ss_pred ccccCCCCCCc-cccccCcccchhhhhhhccCCCCCCCC
Q 002565 721 CCVCSDPPEDS-VVTMCGHVFCYQCASEYITGDDNMCPA 758 (907)
Q Consensus 721 C~iC~d~~e~p-vit~C~H~fC~~Ci~~~i~~~~~~CP~ 758 (907)
|+||.+...+| +++.|||+||.+|+..++.. ..+||.
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~-~~~CP~ 38 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK-NPKCPV 38 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC-TSB-TT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC-cCCCcC
Confidence 78999999999 68999999999999999987 678884
No 100
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.70 E-value=0.00033 Score=87.35 Aligned_cols=159 Identities=18% Similarity=0.229 Sum_probs=103.0
Q ss_pred cccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCc
Q 002565 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNA 351 (907)
Q Consensus 272 ~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (907)
...--|-|..++.-..+--.+. .+.-=+||=|+|.|||=.|+=.+-. .-
T Consensus 592 PyeET~DQl~AI~eVk~DM~~~-kpMDRLiCGDVGFGKTEVAmRAAFk--AV---------------------------- 640 (1139)
T COG1197 592 PYEETPDQLKAIEEVKRDMESG-KPMDRLICGDVGFGKTEVAMRAAFK--AV---------------------------- 640 (1139)
T ss_pred CCcCCHHHHHHHHHHHHHhccC-CcchheeecCcCCcHHHHHHHHHHH--Hh----------------------------
Confidence 3456678999998776433222 1233489999999999877643321 00
Q ss_pred CcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhH-HHHHHHHHHhCCCCCCeEEEEEeCCCCCCCcc--
Q 002565 352 GLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVL-RQWARELEDKVPDKAALSVLIYHGGSRTKDPV-- 428 (907)
Q Consensus 352 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll-~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~-- 428 (907)
...+-+-|+||+.|| .|--+-|.+-|.+- .++|-+...-...+...
T Consensus 641 ------------------------------~~GKQVAvLVPTTlLA~QHy~tFkeRF~~f-PV~I~~LSRF~s~kE~~~i 689 (1139)
T COG1197 641 ------------------------------MDGKQVAVLVPTTLLAQQHYETFKERFAGF-PVRIEVLSRFRSAKEQKEI 689 (1139)
T ss_pred ------------------------------cCCCeEEEEcccHHhHHHHHHHHHHHhcCC-CeeEEEecccCCHHHHHHH
Confidence 111348999999866 66666666555421 45555544333322211
Q ss_pred ----ccCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCC
Q 002565 429 ----ELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGC 504 (907)
Q Consensus 429 ----~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~ 504 (907)
.-++.||||=|+..+..++..
T Consensus 690 l~~la~G~vDIvIGTHrLL~kdv~F------------------------------------------------------- 714 (1139)
T COG1197 690 LKGLAEGKVDIVIGTHRLLSKDVKF------------------------------------------------------- 714 (1139)
T ss_pred HHHHhcCCccEEEechHhhCCCcEE-------------------------------------------------------
Confidence 236789999999999876532
Q ss_pred CCcccccccEEEEccCcccCCcchHHHHHHHhhhcC-ceEEEeccCcccchh
Q 002565 505 GPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAK-RRWCLSGTPIQNSID 555 (907)
Q Consensus 505 ~~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~-~R~~LTGTPiqN~l~ 555 (907)
. .-.+||+||=|++. =+.-..++.|++. ..+-||||||.-.+.
T Consensus 715 ---k--dLGLlIIDEEqRFG---Vk~KEkLK~Lr~~VDvLTLSATPIPRTL~ 758 (1139)
T COG1197 715 ---K--DLGLLIIDEEQRFG---VKHKEKLKELRANVDVLTLSATPIPRTLN 758 (1139)
T ss_pred ---e--cCCeEEEechhhcC---ccHHHHHHHHhccCcEEEeeCCCCcchHH
Confidence 1 13579999999984 3334567778654 789999999998764
No 101
>KOG4284 consensus DEAD box protein [Transcription]
Probab=97.70 E-value=0.00015 Score=84.04 Aligned_cols=47 Identities=19% Similarity=0.280 Sum_probs=44.3
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNT 900 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~ 900 (907)
.+||||....-.+-|...|...|+.+..|.|.|++++|.-+++..+.
T Consensus 274 QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~ 320 (980)
T KOG4284|consen 274 QALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRA 320 (980)
T ss_pred HHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhh
Confidence 78999999999999999999999999999999999999999988774
No 102
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.64 E-value=0.004 Score=77.83 Aligned_cols=48 Identities=17% Similarity=0.209 Sum_probs=44.1
Q ss_pred eEEEEecchhhHHHHHHHHHh---CCCeEEEEEccCCHHHHHHHHHHhcCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQ---HCIQYRRLDGTMSLPARDRAVKDFNTD 901 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~---~Gi~~~rLdGsms~~~R~~~I~~F~~d 901 (907)
++|||..-...++.+...|.. .++.+..|+|+|+.++|+++++.|.+.
T Consensus 214 ~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G 264 (812)
T PRK11664 214 SLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPAG 264 (812)
T ss_pred CEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccCC
Confidence 899999999999999999987 689999999999999999999999753
No 103
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=2.2e-05 Score=83.21 Aligned_cols=51 Identities=29% Similarity=0.864 Sum_probs=42.9
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCcccc
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVV 770 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~ 770 (907)
....|.+|++...+|.-|+|||+||-.||.++...... || .||.......+
T Consensus 238 a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~e-CP--lCR~~~~pskv 288 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAE-CP--LCREKFQPSKV 288 (293)
T ss_pred CCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccC-CC--cccccCCCcce
Confidence 45679999999999999999999999999999875443 88 69887766543
No 104
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.63 E-value=0.0051 Score=70.50 Aligned_cols=71 Identities=17% Similarity=0.347 Sum_probs=53.0
Q ss_pred hhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhC-----------
Q 002565 807 SKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH----------- 875 (907)
Q Consensus 807 sKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~----------- 875 (907)
-++.+|..+|...++..+ .+|+|||-.-.++.+.=...|...
T Consensus 407 LRLV~Laa~L~~~~k~~~---------------------------~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~ 459 (708)
T KOG0348|consen 407 LRLVALAALLLNKVKFEE---------------------------KQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGA 459 (708)
T ss_pred hhHHHHHHHHHHHhhhhh---------------------------hceeEEEEechhHHHHHHHHHHhhhhcccccccCC
Confidence 356678888888777554 459999977777666544443321
Q ss_pred -----------CCeEEEEEccCCHHHHHHHHHHhcCCCCc
Q 002565 876 -----------CIQYRRLDGTMSLPARDRAVKDFNTDREV 904 (907)
Q Consensus 876 -----------Gi~~~rLdGsms~~~R~~~I~~F~~dp~v 904 (907)
+.+|+||+|+|++++|..+...|..+.+.
T Consensus 460 ~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~~~~~ 499 (708)
T KOG0348|consen 460 PDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRRA 499 (708)
T ss_pred cccCCChhhhhcceEEEecCchhHHHHHHHHHhhccccce
Confidence 45799999999999999999999987654
No 105
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=97.60 E-value=3.1e-05 Score=59.56 Aligned_cols=37 Identities=35% Similarity=0.818 Sum_probs=29.3
Q ss_pred ccccCCCCCCccccccCcccchhhhhhhccCCCC---CCC
Q 002565 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDN---MCP 757 (907)
Q Consensus 721 C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~---~CP 757 (907)
|+||.+...+|+...|||.||..|+..+...... .||
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP 40 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCP 40 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---S
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCc
Confidence 8999999999999999999999999998765433 476
No 106
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=97.56 E-value=0.0014 Score=75.03 Aligned_cols=66 Identities=26% Similarity=0.327 Sum_probs=55.8
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhC--CCeEEEEE
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH--CIQYRRLD 883 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~--Gi~~~rLd 883 (907)
..|+..|...|....+ .|.|||-..-.-..++...+.+. |++..-|+
T Consensus 298 ~~Ki~~L~sFI~shlk-------------------------------~K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~ 346 (758)
T KOG0343|consen 298 EDKIDMLWSFIKSHLK-------------------------------KKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALH 346 (758)
T ss_pred hhHHHHHHHHHHhccc-------------------------------cceEEEEehhhHHHHHHHHHHhcCCCCceeeec
Confidence 4589988888876654 28899988888888888888765 99999999
Q ss_pred ccCCHHHHHHHHHHhcCCC
Q 002565 884 GTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 884 Gsms~~~R~~~I~~F~~dp 902 (907)
|.|++..|..+.+.|....
T Consensus 347 G~~~Q~~R~ev~~~F~~~~ 365 (758)
T KOG0343|consen 347 GTMSQKKRIEVYKKFVRKR 365 (758)
T ss_pred cchhHHHHHHHHHHHHHhc
Confidence 9999999999999998754
No 107
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.55 E-value=0.00084 Score=76.24 Aligned_cols=53 Identities=19% Similarity=0.298 Sum_probs=48.6
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
++|||.+-....+-+.-.|-..|+...-|||++++.+|-.+++.|++ .+|.||
T Consensus 428 ~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~-~eidvL 480 (691)
T KOG0338|consen 428 RTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKK-EEIDVL 480 (691)
T ss_pred ceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHh-ccCCEE
Confidence 89999999999999999999999999999999999999999999994 446554
No 108
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=97.53 E-value=0.01 Score=71.76 Aligned_cols=63 Identities=10% Similarity=0.086 Sum_probs=51.5
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
...|++++++.+..+.+.+. =|||.+.....-+.|...|.+.||++..|..
T Consensus 409 ~~~k~~Aii~ei~~~~~~Gr-----------------------------PVLVgt~sI~~SE~ls~~L~~~gI~h~vLNA 459 (764)
T PRK12326 409 AAEKNDAIVEHIAEVHETGQ-----------------------------PVLVGTHDVAESEELAERLRAAGVPAVVLNA 459 (764)
T ss_pred HHHHHHHHHHHHHHHHHcCC-----------------------------CEEEEeCCHHHHHHHHHHHHhCCCcceeecc
Confidence 35699999999888877766 7999999999999999999999999999998
Q ss_pred cCCHHHHHHHHHH
Q 002565 885 TMSLPARDRAVKD 897 (907)
Q Consensus 885 sms~~~R~~~I~~ 897 (907)
.-. ++-..+|.+
T Consensus 460 k~~-~~EA~IIa~ 471 (764)
T PRK12326 460 KND-AEEARIIAE 471 (764)
T ss_pred Cch-HhHHHHHHh
Confidence 743 333445544
No 109
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.49 E-value=0.00056 Score=83.43 Aligned_cols=136 Identities=21% Similarity=0.210 Sum_probs=80.2
Q ss_pred CCeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecchhhcccCCCCCCCchhHhhhhcc
Q 002565 385 AGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNG 463 (907)
Q Consensus 385 ~~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~ 463 (907)
-+++-|+|. +|..--.+-+.+.+.+- .++|.-+.|.......+ ..+.+|+|||.+..----+
T Consensus 165 fKiVYIaPmKALa~Em~~~~~kkl~~~-gi~v~ELTGD~ql~~te-i~~tqiiVTTPEKwDvvTR--------------- 227 (1230)
T KOG0952|consen 165 FKIVYIAPMKALAAEMVDKFSKKLAPL-GISVRELTGDTQLTKTE-IADTQIIVTTPEKWDVVTR--------------- 227 (1230)
T ss_pred ceEEEEechHHHHHHHHHHHhhhcccc-cceEEEecCcchhhHHH-HHhcCEEEecccceeeeee---------------
Confidence 458999994 45443333333333321 68999999987655444 8899999999764321000
Q ss_pred cccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccccccEEEEccCcccCCcch-----HHHHHHHhh-
Q 002565 464 ETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRT-----QVARACCSL- 537 (907)
Q Consensus 464 ~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~~w~rVIlDEAH~IKN~~S-----~~~ka~~~L- 537 (907)
|... +.. |. -...+|||||.|.+...+- .+++..+..
T Consensus 228 -----------------------------k~~~------d~~-l~-~~V~LviIDEVHlLhd~RGpvlEtiVaRtlr~ve 270 (1230)
T KOG0952|consen 228 -----------------------------KSVG------DSA-LF-SLVRLVIIDEVHLLHDDRGPVLETIVARTLRLVE 270 (1230)
T ss_pred -----------------------------eecc------chh-hh-hheeeEEeeeehhhcCcccchHHHHHHHHHHHHH
Confidence 0000 001 11 1235799999999988753 344444332
Q ss_pred ---hcCceEEEeccCcccchhhhhhhHHhhccCCCCchHHHHhHh
Q 002565 538 ---RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTI 579 (907)
Q Consensus 538 ---~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~~~~~~F~~~~ 579 (907)
..-+-++||||- . .+-.+-+||+..++....+|...|
T Consensus 271 ssqs~IRivgLSATl-P----N~eDvA~fL~vn~~~glfsFd~~y 310 (1230)
T KOG0952|consen 271 SSQSMIRIVGLSATL-P----NYEDVARFLRVNPYAGLFSFDQRY 310 (1230)
T ss_pred hhhhheEEEEeeccC-C----CHHHHHHHhcCCCccceeeecccc
Confidence 334668999992 2 344566788887665555555444
No 110
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=4.2e-05 Score=86.81 Aligned_cols=54 Identities=30% Similarity=0.761 Sum_probs=42.6
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhccCC--CCCCCCcccccccCccccc
Q 002565 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGD--DNMCPAPRCKEQLGADVVF 771 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~--~~~CP~~~Cr~~l~~~~~~ 771 (907)
+..|+||.+++.-|++|.|||+||..|+-.|+... ..-|-||.|+..+....+.
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL 241 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence 67899999999999999999999999999987644 2223344798888764443
No 111
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=3.3e-05 Score=91.73 Aligned_cols=51 Identities=37% Similarity=0.854 Sum_probs=45.5
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCcccc
Q 002565 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVV 770 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~ 770 (907)
...|+.|.+.+.+.+|+.|+|+||..|+...+.....+|| .|...++..++
T Consensus 643 ~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP--~Cn~aFganDv 693 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCP--KCNAAFGANDV 693 (698)
T ss_pred ceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCC--CCCCCCCcccc
Confidence 4569999999999999999999999999999988899999 68888877654
No 112
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.43 E-value=0.00052 Score=87.06 Aligned_cols=169 Identities=21% Similarity=0.120 Sum_probs=94.4
Q ss_pred ccccCchHHHHHHHHHHHh-hhcc--ccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCC
Q 002565 271 LSVNLLKHQKIALAWMLQK-ETRS--LHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDD 347 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~-e~~~--~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 347 (907)
++.--+-||..++.-.+.+ .... ....||++-|-.|-|||++++-+...+...
T Consensus 245 ~k~~~~~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~~l~~~------------------------ 300 (962)
T COG0610 245 KKKYQRYAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARLLLEL------------------------ 300 (962)
T ss_pred chhHHHHHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHHHHHhc------------------------
Confidence 3333455565555522222 1111 235789999999999999997766543321
Q ss_pred CCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCC
Q 002565 348 NGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKD 426 (907)
Q Consensus 348 ~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~ 426 (907)
.....++||+=-. |-.|=.++|..+-.. ..... .-.+...-
T Consensus 301 ----------------------------------~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~---~~~~~-~~~s~~~L 342 (962)
T COG0610 301 ----------------------------------PKNPKVLFVVDRKDLDDQTSDEFQSFGKV---AFNDP-KAESTSEL 342 (962)
T ss_pred ----------------------------------cCCCeEEEEechHHHHHHHHHHHHHHHHh---hhhcc-cccCHHHH
Confidence 1122367777654 779999999987431 11111 11111111
Q ss_pred ccccC--CCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCC
Q 002565 427 PVELA--KYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGC 504 (907)
Q Consensus 427 ~~~l~--~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~ 504 (907)
...+. ...|||||-+.+....... .
T Consensus 343 k~~l~~~~~~ii~TTIQKf~~~~~~~-----------------------------------------------------~ 369 (962)
T COG0610 343 KELLEDGKGKIIVTTIQKFNKAVKED-----------------------------------------------------E 369 (962)
T ss_pred HHHHhcCCCcEEEEEecccchhhhcc-----------------------------------------------------c
Confidence 11222 4579999999887643210 0
Q ss_pred CCcccccccEEEEccCcccCCcchHHHHH-HHhhhcCceEEEeccCcccchhh
Q 002565 505 GPLAKVGWFRVVLDEAQTIKNHRTQVARA-CCSLRAKRRWCLSGTPIQNSIDD 556 (907)
Q Consensus 505 ~~L~~~~w~rVIlDEAH~IKN~~S~~~ka-~~~L~a~~R~~LTGTPiqN~l~E 556 (907)
........-+||+||||+--.... ++. -..+..-.-++.||||+.-.-..
T Consensus 370 ~~~~~~~~ivvI~DEaHRSQ~G~~--~~~~~~~~~~a~~~gFTGTPi~~~d~~ 420 (962)
T COG0610 370 LELLKRKNVVVIIDEAHRSQYGEL--AKLLKKALKKAIFIGFTGTPIFKEDKD 420 (962)
T ss_pred ccccCCCcEEEEEechhhccccHH--HHHHHHHhccceEEEeeCCcccccccc
Confidence 001233456799999997543222 222 22334456789999999765444
No 113
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.40 E-value=0.0017 Score=71.82 Aligned_cols=54 Identities=28% Similarity=0.366 Sum_probs=49.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
.|||||..-.-+.|-|..-|.-.||..-.|||.-.+.+|+.+++.|++. +|+||
T Consensus 466 dKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG-~vrIL 519 (629)
T KOG0336|consen 466 DKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSG-EVRIL 519 (629)
T ss_pred ceEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHHhhhcC-ceEEE
Confidence 4999999999999999999999999999999999999999999999954 46654
No 114
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=97.39 E-value=0.0058 Score=69.58 Aligned_cols=49 Identities=18% Similarity=0.163 Sum_probs=46.9
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
|||||..--.+.+++...|+...+++.-|||.+++..|.....+|.+..
T Consensus 332 KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kae 380 (543)
T KOG0342|consen 332 KIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAE 380 (543)
T ss_pred eEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhcc
Confidence 9999999999999999999999999999999999999999999999754
No 115
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=97.39 E-value=0.025 Score=70.36 Aligned_cols=66 Identities=9% Similarity=0.062 Sum_probs=59.3
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..|+.++++.+......+. .||||+.+....+.|...|...||++..|++
T Consensus 581 ~eK~~Ali~~I~~~~~~gr-----------------------------pVLIft~Sve~sE~Ls~~L~~~gI~h~vLna- 630 (1025)
T PRK12900 581 REKYNAIVLKVEELQKKGQ-----------------------------PVLVGTASVEVSETLSRMLRAKRIAHNVLNA- 630 (1025)
T ss_pred HHHHHHHHHHHHHHhhCCC-----------------------------CEEEEeCcHHHHHHHHHHHHHcCCCceeecC-
Confidence 4699999999988766655 8999999999999999999999999999997
Q ss_pred CCHHHHHHHHHHhcCCC
Q 002565 886 MSLPARDRAVKDFNTDR 902 (907)
Q Consensus 886 ms~~~R~~~I~~F~~dp 902 (907)
.+.+|++.|.+|...+
T Consensus 631 -kq~~REa~Iia~AG~~ 646 (1025)
T PRK12900 631 -KQHDREAEIVAEAGQK 646 (1025)
T ss_pred -CHHHhHHHHHHhcCCC
Confidence 5789999999999765
No 116
>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=97.31 E-value=9.1e-05 Score=59.25 Aligned_cols=46 Identities=33% Similarity=0.925 Sum_probs=38.4
Q ss_pred cccccccCCCCCCccccccCcc-cchhhhhhhccCCCCCCCCcccccccC
Q 002565 718 SAICCVCSDPPEDSVVTMCGHV-FCYQCASEYITGDDNMCPAPRCKEQLG 766 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~-fC~~Ci~~~i~~~~~~CP~~~Cr~~l~ 766 (907)
+..|.+|.+.+.++++.+|||. ||..|+..++. ....|| .|+.++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP--~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLK-RKKKCP--ICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH-TTSBBT--TTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcc-cCCCCC--cCChhhc
Confidence 3579999999999999999999 99999999887 667899 5887764
No 117
>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=97.30 E-value=0.00011 Score=56.06 Aligned_cols=38 Identities=37% Similarity=0.979 Sum_probs=33.8
Q ss_pred ccccCCCCCCcc-ccccCcccchhhhhhhcc-CCCCCCCC
Q 002565 721 CCVCSDPPEDSV-VTMCGHVFCYQCASEYIT-GDDNMCPA 758 (907)
Q Consensus 721 C~iC~d~~e~pv-it~C~H~fC~~Ci~~~i~-~~~~~CP~ 758 (907)
|+||.+....++ ++.|+|.||..|+..++. .....||.
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~ 40 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPL 40 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCc
Confidence 789999999998 999999999999999987 55667883
No 118
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=97.29 E-value=0.0028 Score=75.15 Aligned_cols=49 Identities=16% Similarity=0.261 Sum_probs=46.6
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
-.|||+..+...+.|...|...|+....|||+|+.++|+..-++|.+++
T Consensus 232 ~GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~~~ 280 (590)
T COG0514 232 SGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDE 280 (590)
T ss_pred CeEEEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhcCC
Confidence 4699999999999999999999999999999999999999999999765
No 119
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.25 E-value=0.00016 Score=76.58 Aligned_cols=47 Identities=28% Similarity=0.822 Sum_probs=37.4
Q ss_pred ccccccccCCCCCC--------ccccccCcccchhhhhhhccCCCCCCCCcccccccC
Q 002565 717 SSAICCVCSDPPED--------SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLG 766 (907)
Q Consensus 717 ~~~~C~iC~d~~e~--------pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~ 766 (907)
.+.+|+||++...+ ++++.|+|.||..|+..++. ...+|| .||..+.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~-~~~tCP--lCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK-EKNTCP--VCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh-cCCCCC--CCCCEee
Confidence 45789999997543 36789999999999999976 456899 5887654
No 120
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.23 E-value=0.00012 Score=82.93 Aligned_cols=49 Identities=29% Similarity=0.704 Sum_probs=41.2
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCcc
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~ 768 (907)
....|+||.+....|++++|+|.||..|+..++.. ...|| .|+..+...
T Consensus 25 ~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~-~~~CP--~Cr~~~~~~ 73 (397)
T TIGR00599 25 TSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSN-QPKCP--LCRAEDQES 73 (397)
T ss_pred cccCCCcCchhhhCccCCCCCCchhHHHHHHHHhC-CCCCC--CCCCccccc
Confidence 45689999999999999999999999999998865 34798 577776544
No 121
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.20 E-value=0.0028 Score=78.93 Aligned_cols=37 Identities=16% Similarity=0.168 Sum_probs=30.1
Q ss_pred EEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcc
Q 002565 514 RVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQ 551 (907)
Q Consensus 514 rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiq 551 (907)
.||+||+|++.. ..+..+++..|+..+.+.-|||--.
T Consensus 204 ivIiDEPh~~~~-~~k~~~~i~~lnpl~~lrysAT~~~ 240 (986)
T PRK15483 204 VVIIDEPHRFPR-DNKFYQAIEALKPQMIIRFGATFPD 240 (986)
T ss_pred EEEEECCCCCCc-chHHHHHHHhcCcccEEEEeeecCC
Confidence 599999999965 2346688899999898889999644
No 122
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=97.14 E-value=0.012 Score=67.99 Aligned_cols=48 Identities=15% Similarity=0.257 Sum_probs=46.0
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTD 901 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~d 901 (907)
+.|||+..+.--+.|...|...|++..-+|++++..+|..+-.+|.+.
T Consensus 442 QtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~q 489 (830)
T COG1202 442 QTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQ 489 (830)
T ss_pred ceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhcC
Confidence 789999999999999999999999999999999999999999999854
No 123
>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=97.07 E-value=0.0002 Score=62.07 Aligned_cols=51 Identities=14% Similarity=0.324 Sum_probs=39.6
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCcccc
Q 002565 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVV 770 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~ 770 (907)
...|+||.+.+.+||+++|||+||+.|+..++......||. |+..+....+
T Consensus 4 ~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~--t~~~l~~~~l 54 (73)
T PF04564_consen 4 EFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPF--TRQPLSESDL 54 (73)
T ss_dssp GGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TT--T-SB-SGGGS
T ss_pred ccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCC--CCCcCCcccc
Confidence 45799999999999999999999999999999987889994 6766665543
No 124
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=97.02 E-value=0.0002 Score=88.71 Aligned_cols=113 Identities=27% Similarity=0.416 Sum_probs=79.5
Q ss_pred cccccccCCCCC-CccccccCcccchhhhhhhccCCCCCCCCcccccccCccccccccccccccCCCCCCCCCCCccccc
Q 002565 718 SAICCVCSDPPE-DSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADK 796 (907)
Q Consensus 718 ~~~C~iC~d~~e-~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~ 796 (907)
...|.+|.+... .-.+..|||.+|..|...++. ....||. |....
T Consensus 1153 ~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~-~~s~~~~--~ksi~------------------------------- 1198 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIAGCGHEPCCRCDELWLY-ASSRCPI--CKSIK------------------------------- 1198 (1394)
T ss_pred ccchHHHHHHHHhcCCeeeechhHhhhHHHHHHH-HhccCcc--hhhhh-------------------------------
Confidence 346888887776 667888888888888876653 2235553 22100
Q ss_pred CCCcCCCccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCC
Q 002565 797 SGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHC 876 (907)
Q Consensus 797 ~~~~~~~~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~G 876 (907)
.-.++|+..+...+..+.-.++ -.||||||||...||.++..+...+
T Consensus 1199 ------~dfg~kI~~v~~~il~iK~k~~---------------------------qekvIvfsqws~~ldV~e~~~~~N~ 1245 (1394)
T KOG0298|consen 1199 ------GDFGTKIDSVVIAILYIKFKNE---------------------------QEKVIVFSQWSVVLDVKELRYLMNL 1245 (1394)
T ss_pred ------hhhccCchhHHHHHHHHhccCc---------------------------CceEEEEEehHHHHHHHHHHHHhhh
Confidence 0136788888777766654443 3599999999999999999999999
Q ss_pred CeEEEEEccCCHHHHHHHHHHhcC
Q 002565 877 IQYRRLDGTMSLPARDRAVKDFNT 900 (907)
Q Consensus 877 i~~~rLdGsms~~~R~~~I~~F~~ 900 (907)
|.+.+..|+ ++-...+..|.+
T Consensus 1246 I~~~~~~~t---~d~~dc~~~fk~ 1266 (1394)
T KOG0298|consen 1246 IKKQLDGET---EDFDDCIICFKS 1266 (1394)
T ss_pred hHhhhccCC---cchhhhhhhccc
Confidence 998766653 444667777775
No 125
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=97.00 E-value=0.005 Score=76.12 Aligned_cols=52 Identities=10% Similarity=0.106 Sum_probs=46.3
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..|+.++++.+..+.+.+. =|||-|.+...-+.|...|.+.||++..|.-.
T Consensus 551 ~~k~~ai~~ei~~~~~~gr-----------------------------PvLigt~si~~se~ls~~L~~~gi~h~vLNak 601 (970)
T PRK12899 551 REKYHAIVAEIASIHRKGN-----------------------------PILIGTESVEVSEKLSRILRQNRIEHTVLNAK 601 (970)
T ss_pred HHHHHHHHHHHHHHHhCCC-----------------------------CEEEEeCcHHHHHHHHHHHHHcCCcceecccc
Confidence 5899999998888877665 69999999999999999999999999999887
Q ss_pred C
Q 002565 886 M 886 (907)
Q Consensus 886 m 886 (907)
-
T Consensus 602 ~ 602 (970)
T PRK12899 602 N 602 (970)
T ss_pred h
Confidence 4
No 126
>PRK09694 helicase Cas3; Provisional
Probab=96.97 E-value=0.0057 Score=76.61 Aligned_cols=40 Identities=23% Similarity=0.078 Sum_probs=27.3
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHH
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~ 319 (907)
...+|+|.....-.. .. .=.||-..||.|||-.++.++..
T Consensus 285 ~~p~p~Q~~~~~~~~---~p----gl~ileApTGsGKTEAAL~~A~~ 324 (878)
T PRK09694 285 YQPRQLQTLVDALPL---QP----GLTIIEAPTGSGKTEAALAYAWR 324 (878)
T ss_pred CCChHHHHHHHhhcc---CC----CeEEEEeCCCCCHHHHHHHHHHH
Confidence 368899986632211 11 11488899999999999887754
No 127
>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=96.89 E-value=0.00021 Score=55.44 Aligned_cols=38 Identities=37% Similarity=0.820 Sum_probs=31.1
Q ss_pred cccccCCCC---CCccccccCcccchhhhhhhccCCCCCCCC
Q 002565 720 ICCVCSDPP---EDSVVTMCGHVFCYQCASEYITGDDNMCPA 758 (907)
Q Consensus 720 ~C~iC~d~~---e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~ 758 (907)
+|+||.+.. +..+..+|+|+||..|+..++... ..||+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~-~~CP~ 42 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN-NSCPV 42 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS-SB-TT
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC-CcCCc
Confidence 699999876 456788899999999999999763 68994
No 128
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.00039 Score=73.03 Aligned_cols=48 Identities=29% Similarity=0.780 Sum_probs=38.9
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhh-hccCCCCCCCCcccccccC
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASE-YITGDDNMCPAPRCKEQLG 766 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~-~i~~~~~~CP~~~Cr~~l~ 766 (907)
.+-.|.+|++.++.|+-++|||+||..|+.. +-......|| .||....
T Consensus 214 ~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~Cp--lCRak~~ 262 (271)
T COG5574 214 ADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCP--LCRAKVY 262 (271)
T ss_pred cccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCc--hhhhhcc
Confidence 4667999999999999999999999999998 4444555699 5665543
No 129
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=96.87 E-value=0.00024 Score=54.84 Aligned_cols=30 Identities=33% Similarity=0.862 Sum_probs=20.2
Q ss_pred ccccCCCCCC----ccccccCcccchhhhhhhccC
Q 002565 721 CCVCSDPPED----SVVTMCGHVFCYQCASEYITG 751 (907)
Q Consensus 721 C~iC~d~~e~----pvit~C~H~fC~~Ci~~~i~~ 751 (907)
|+||.+ ..+ |++..|||+||++|+......
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence 788988 655 898999999999999998763
No 130
>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=96.85 E-value=0.00055 Score=50.49 Aligned_cols=38 Identities=37% Similarity=1.000 Sum_probs=33.0
Q ss_pred ccccCCCCCCccccccCcccchhhhhhhccCCCCCCCC
Q 002565 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPA 758 (907)
Q Consensus 721 C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~ 758 (907)
|.+|.+....+++.+|+|.||..|+..++......||.
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~ 38 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPI 38 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCC
Confidence 78999998899999999999999999988755567883
No 131
>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=96.85 E-value=0.0044 Score=58.78 Aligned_cols=67 Identities=25% Similarity=0.408 Sum_probs=59.9
Q ss_pred hhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEccC
Q 002565 807 SKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTM 886 (907)
Q Consensus 807 sKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsm 886 (907)
.|...+.+++......+ .|+|||+.....++.+...|.+.++.+..++|++
T Consensus 12 ~k~~~i~~~i~~~~~~~-----------------------------~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 62 (131)
T cd00079 12 EKLEALLELLKEHLKKG-----------------------------GKVLIFCPSKKMLDELAELLRKPGIKVAALHGDG 62 (131)
T ss_pred HHHHHHHHHHHhcccCC-----------------------------CcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCC
Confidence 69999988888765433 3999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHhcCCC
Q 002565 887 SLPARDRAVKDFNTDR 902 (907)
Q Consensus 887 s~~~R~~~I~~F~~dp 902 (907)
+..+|..+++.|++..
T Consensus 63 ~~~~~~~~~~~f~~~~ 78 (131)
T cd00079 63 SQEEREEVLKDFREGE 78 (131)
T ss_pred CHHHHHHHHHHHHcCC
Confidence 9999999999999765
No 132
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=96.81 E-value=0.003 Score=77.38 Aligned_cols=63 Identities=25% Similarity=0.482 Sum_probs=45.0
Q ss_pred CCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEE-EeCCCCCCCcc------ccCCCcEEEecchhhcccC
Q 002565 385 AGTLVVCPAS-VLRQWARELEDKVPDKAALSVLI-YHGGSRTKDPV------ELAKYDVVLTTYSIVTNEV 447 (907)
Q Consensus 385 ~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v-~~G~~r~~~~~------~l~~~dVVItTY~~l~~e~ 447 (907)
++++||+|+. |+.|=.+-|+++......+++.+ ||+.-..+... .-+++||+|||-..+...+
T Consensus 126 kr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~ 196 (1187)
T COG1110 126 KRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQFLSKRF 196 (1187)
T ss_pred CeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeeeeccccchHHHHHHHHHHhcCCccEEEEeHHHHHhhH
Confidence 5689999976 77999999988764433355544 89885544322 2368999999999887643
No 133
>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=96.80 E-value=0.00063 Score=52.08 Aligned_cols=42 Identities=36% Similarity=0.969 Sum_probs=33.4
Q ss_pred cccccCCCCCCccc-cccCcccchhhhhhhccCCCCCCCCccccc
Q 002565 720 ICCVCSDPPEDSVV-TMCGHVFCYQCASEYITGDDNMCPAPRCKE 763 (907)
Q Consensus 720 ~C~iC~d~~e~pvi-t~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~ 763 (907)
.|.+|.+....++. ..|+|.||..|+..++......|| .|+.
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp--~C~~ 43 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCP--LCRT 43 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCC--CCCC
Confidence 48999998855554 459999999999999877667898 4654
No 134
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=96.79 E-value=0.0073 Score=71.81 Aligned_cols=115 Identities=17% Similarity=0.280 Sum_probs=68.7
Q ss_pred cEEEEccCcccCC-------cchHHHHHHHhhh----cCceEEEeccCcccchhhhhhhHHhhccCCC------CchHHH
Q 002565 513 FRVVLDEAQTIKN-------HRTQVARACCSLR----AKRRWCLSGTPIQNSIDDLYSYFRFLKYDPY------AVYKSF 575 (907)
Q Consensus 513 ~rVIlDEAH~IKN-------~~S~~~ka~~~L~----a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~------~~~~~F 575 (907)
.++|+||+|..|| ..|++-+++..|+ ..+.+-.|+|=.. |--++.-..+.+.| ..+..|
T Consensus 407 GvIvfDECHkAKNL~p~~~~k~TKtG~tVLdLQk~LP~ARVVYASATGAs----EPrNMaYM~RLGlWGegtaf~eF~eF 482 (1300)
T KOG1513|consen 407 GVIVFDECHKAKNLVPTAGAKSTKTGKTVLDLQKKLPNARVVYASATGAS----EPRNMAYMVRLGLWGEGTAFPEFEEF 482 (1300)
T ss_pred eeEEehhhhhhcccccccCCCcCcccHhHHHHHHhCCCceEEEeeccCCC----CcchhhhhhhhccccCCCcCccHHHH
Confidence 3699999999999 4578888887773 3355667777432 33334444444444 444555
Q ss_pred HhHhccccccCchhhHH--HHHHHHHHHHhhhccccccCCCCccCCCCCeEEEEEeCCCHHHHHHHHHHHHH
Q 002565 576 YSTIKIPISRNSLHGYK--KLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESD 645 (907)
Q Consensus 576 ~~~~~~pi~~~~~~~~~--~L~~lL~~~mLRRtK~dv~~g~p~l~LP~k~~~~v~v~lS~~Er~lY~~l~~~ 645 (907)
..-+ ++.+..+++ .+-..++...|-|- +.+-.-...+-.|+|+++=+++|+.-.+-
T Consensus 483 i~Av----EkRGvGAMEIVAMDMK~rGmYiARQ----------LSFkgVsFrieEv~ls~eF~k~Yn~a~~L 540 (1300)
T KOG1513|consen 483 IHAV----EKRGVGAMEIVAMDMKLRGMYIARQ----------LSFKGVSFRIEEVPLSKEFRKVYNRAAEL 540 (1300)
T ss_pred HHHH----HhcCCceeeeeehhhhhhhhhhhhh----------ccccCceEEEEecccCHHHHHHHHHHHHH
Confidence 4443 222222211 12223444444443 24566667788899999999999865443
No 135
>PHA02926 zinc finger-like protein; Provisional
Probab=96.79 E-value=0.0006 Score=69.98 Aligned_cols=48 Identities=21% Similarity=0.665 Sum_probs=36.7
Q ss_pred ccccccccCCCCC---------CccccccCcccchhhhhhhccCC-----CCCCCCcccccccC
Q 002565 717 SSAICCVCSDPPE---------DSVVTMCGHVFCYQCASEYITGD-----DNMCPAPRCKEQLG 766 (907)
Q Consensus 717 ~~~~C~iC~d~~e---------~pvit~C~H~fC~~Ci~~~i~~~-----~~~CP~~~Cr~~l~ 766 (907)
.+.+|+||++..- -+++..|+|.||..|+..+.... ...|| .||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCP--iCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCP--ICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCC--CCcceee
Confidence 4688999998641 25788999999999999987643 34699 5777653
No 136
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=96.77 E-value=0.00083 Score=52.20 Aligned_cols=38 Identities=32% Similarity=0.842 Sum_probs=31.4
Q ss_pred cccccCCCC---CCccccccCcccchhhhhhhccCCCCCCCC
Q 002565 720 ICCVCSDPP---EDSVVTMCGHVFCYQCASEYITGDDNMCPA 758 (907)
Q Consensus 720 ~C~iC~d~~---e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~ 758 (907)
.|++|.+.. ..+.++.|||+||..|+.... .....||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~ 41 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPI 41 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcC
Confidence 488888776 458999999999999999877 55668985
No 137
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.76 E-value=0.021 Score=73.69 Aligned_cols=45 Identities=16% Similarity=0.234 Sum_probs=40.0
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCe---EEEEEccCCHHHHHHHHHHh
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQ---YRRLDGTMSLPARDRAVKDF 898 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~---~~rLdGsms~~~R~~~I~~F 898 (907)
+||||..-...++.+...|...|++ ++-|+|+++.++|.++++.+
T Consensus 288 dILVFLpg~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~~ 335 (1294)
T PRK11131 288 DILIFMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQSH 335 (1294)
T ss_pred CEEEEcCCHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhccc
Confidence 8999999999999999999998875 56789999999999987653
No 138
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=96.75 E-value=0.00053 Score=72.16 Aligned_cols=41 Identities=27% Similarity=0.624 Sum_probs=36.0
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCc
Q 002565 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAP 759 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~ 759 (907)
...|.||.+....|++|.|||.||.-||..++. ..+.||+|
T Consensus 25 ~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~-~qp~CP~C 65 (391)
T COG5432 25 MLRCRICDCRISIPCETTCGHTFCSLCIRRHLG-TQPFCPVC 65 (391)
T ss_pred HHHhhhhhheeecceecccccchhHHHHHHHhc-CCCCCccc
Confidence 456999999999999999999999999999985 45789863
No 139
>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=96.73 E-value=0.01 Score=75.12 Aligned_cols=46 Identities=26% Similarity=0.339 Sum_probs=34.7
Q ss_pred eEEEEecchhhHHHHHHHHHh----CCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQ----HCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~----~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
++|||.....+++.+...|.. .++.. +..... ..|.+++++|++..
T Consensus 676 ~~LVlftS~~~l~~v~~~L~~~~~~~~~~~--l~q~~~-~~r~~ll~~F~~~~ 725 (850)
T TIGR01407 676 KILVLFTSYEMLHMVYDMLNELPEFEGYEV--LAQGIN-GSRAKIKKRFNNGE 725 (850)
T ss_pred CEEEEeCCHHHHHHHHHHHhhhccccCceE--EecCCC-ccHHHHHHHHHhCC
Confidence 899999999999999999875 35443 333333 57999999998753
No 140
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.66 E-value=0.031 Score=58.52 Aligned_cols=40 Identities=23% Similarity=0.369 Sum_probs=26.0
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHH
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~ 319 (907)
+|-+.|+.++..++.... . .++.--.|.|||-...+++..
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~--~----~~i~GpPGTGKT~~l~~~i~~ 40 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNG--I----TLIQGPPGTGKTTTLASIIAQ 40 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-------EEEE-STTSSHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHcCCC--C----EEEECCCCCChHHHHHHHHHH
Confidence 478899999987774322 0 467778899999766666654
No 141
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.50 E-value=0.0018 Score=53.72 Aligned_cols=42 Identities=31% Similarity=0.832 Sum_probs=22.7
Q ss_pred ccccccCCCCCCcc-ccccCcccchhhhhhhccCCCCCCCCccccccc
Q 002565 719 AICCVCSDPPEDSV-VTMCGHVFCYQCASEYITGDDNMCPAPRCKEQL 765 (907)
Q Consensus 719 ~~C~iC~d~~e~pv-it~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l 765 (907)
..|++|.+....|| ++.|.|+||..|+...+.. .||+ |..+-
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~---~CPv--C~~Pa 50 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS---ECPV--CHTPA 50 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTTT---B-SS--S--B-
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC---CCCC--cCChH
Confidence 46999999999997 6899999999999887654 4885 55543
No 142
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=96.48 E-value=0.00065 Score=73.04 Aligned_cols=48 Identities=23% Similarity=0.628 Sum_probs=40.0
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCcc
Q 002565 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~ 768 (907)
...|.||.+-...|++++|+|.||.-||..++. ..++|| .|.......
T Consensus 23 lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~-~~p~CP--~C~~~~~Es 70 (442)
T KOG0287|consen 23 LLRCGICFEYFNIPMITPCSHTFCSLCIRKFLS-YKPQCP--TCCVTVTES 70 (442)
T ss_pred HHHHhHHHHHhcCceeccccchHHHHHHHHHhc-cCCCCC--ceecccchh
Confidence 346999999999999999999999999999886 457899 576665443
No 143
>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=96.37 E-value=0.062 Score=69.63 Aligned_cols=45 Identities=13% Similarity=0.138 Sum_probs=39.3
Q ss_pred eEEEEecchhhHHHHHHHHHhCC---CeEEEEEccCCHHHHHHHHHHh
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHC---IQYRRLDGTMSLPARDRAVKDF 898 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~G---i~~~rLdGsms~~~R~~~I~~F 898 (907)
+||||..-...++.+...|.+.+ +.+.-|+|.++.++|+++++.|
T Consensus 281 dILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~ 328 (1283)
T TIGR01967 281 DILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH 328 (1283)
T ss_pred CEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC
Confidence 89999999999999999998875 4588899999999999986554
No 144
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=96.35 E-value=0.044 Score=60.17 Aligned_cols=103 Identities=19% Similarity=0.102 Sum_probs=63.3
Q ss_pred cccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCc
Q 002565 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNA 351 (907)
Q Consensus 272 ~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (907)
..+|-++|+.+-.-+++.-.... --|+---.|.|||=++...|..-...
T Consensus 95 ~G~Ls~~Q~~as~~l~q~i~~k~---~~lv~AV~GaGKTEMif~~i~~al~~---------------------------- 143 (441)
T COG4098 95 KGTLSPGQKKASNQLVQYIKQKE---DTLVWAVTGAGKTEMIFQGIEQALNQ---------------------------- 143 (441)
T ss_pred ccccChhHHHHHHHHHHHHHhcC---cEEEEEecCCCchhhhHHHHHHHHhc----------------------------
Confidence 45799999988766665433221 13555667999998776666533221
Q ss_pred CcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCcccc
Q 002565 352 GLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVEL 430 (907)
Q Consensus 352 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l 430 (907)
...+.|..|-. |+.--..-+.+-|. ...+.+.||.....-
T Consensus 144 --------------------------------G~~vciASPRvDVclEl~~Rlk~aF~---~~~I~~Lyg~S~~~f---- 184 (441)
T COG4098 144 --------------------------------GGRVCIASPRVDVCLELYPRLKQAFS---NCDIDLLYGDSDSYF---- 184 (441)
T ss_pred --------------------------------CCeEEEecCcccchHHHHHHHHHhhc---cCCeeeEecCCchhc----
Confidence 23478888854 66555566666665 456677777664322
Q ss_pred CCCcEEEecchhhc
Q 002565 431 AKYDVVLTTYSIVT 444 (907)
Q Consensus 431 ~~~dVVItTY~~l~ 444 (907)
...=||-||++.++
T Consensus 185 r~plvVaTtHQLlr 198 (441)
T COG4098 185 RAPLVVATTHQLLR 198 (441)
T ss_pred cccEEEEehHHHHH
Confidence 12236666676664
No 145
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=96.29 E-value=0.019 Score=71.99 Aligned_cols=164 Identities=19% Similarity=0.140 Sum_probs=105.2
Q ss_pred ccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCC
Q 002565 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (907)
...+|-++|++++.-+.+- .+-+.|--.|-|||+.+-.+|..-...
T Consensus 116 ~~F~LD~fQ~~a~~~Ler~-------esVlV~ApTssGKTvVaeyAi~~al~~--------------------------- 161 (1041)
T COG4581 116 YPFELDPFQQEAIAILERG-------ESVLVCAPTSSGKTVVAEYAIALALRD--------------------------- 161 (1041)
T ss_pred CCCCcCHHHHHHHHHHhCC-------CcEEEEccCCCCcchHHHHHHHHHHHc---------------------------
Confidence 4568999999999887743 346999999999999997777532211
Q ss_pred cCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeC-hhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccc
Q 002565 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCP-ASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVE 429 (907)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P-~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~ 429 (907)
..++.-..| +.|..|=-++|...+.+- .--|-++.|....
T Consensus 162 ---------------------------------~qrviYTsPIKALsNQKyrdl~~~fgdv-~~~vGL~TGDv~I----- 202 (1041)
T COG4581 162 ---------------------------------GQRVIYTSPIKALSNQKYRDLLAKFGDV-ADMVGLMTGDVSI----- 202 (1041)
T ss_pred ---------------------------------CCceEeccchhhhhhhHHHHHHHHhhhh-hhhccceecceee-----
Confidence 123788888 678888888888776521 1123455555432
Q ss_pred cCCCcEEEecchhhcccCCCCCCCchhHhhhhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCccc
Q 002565 430 LAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAK 509 (907)
Q Consensus 430 l~~~dVVItTY~~l~~e~~~~~~~~~~~~~~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~ 509 (907)
-.++.|++.|-++|++-+... . ...
T Consensus 203 N~~A~clvMTTEILRnMlyrg-----------------------------------------------------~--~~~ 227 (1041)
T COG4581 203 NPDAPCLVMTTEILRNMLYRG-----------------------------------------------------S--ESL 227 (1041)
T ss_pred CCCCceEEeeHHHHHHHhccC-----------------------------------------------------c--ccc
Confidence 256778888889999865331 0 112
Q ss_pred ccccEEEEccCcccCCcchHHH-HHHHhh--hcCceEEEeccCcccchhhhhhhHHhh
Q 002565 510 VGWFRVVLDEAQTIKNHRTQVA-RACCSL--RAKRRWCLSGTPIQNSIDDLYSYFRFL 564 (907)
Q Consensus 510 ~~w~rVIlDEAH~IKN~~S~~~-ka~~~L--~a~~R~~LTGTPiqN~l~EL~sll~fL 564 (907)
.....||+||.|+|....-... .-+.-+ +.-.-++||+|= -+..||-..+.-+
T Consensus 228 ~~i~~ViFDEvHyi~D~eRG~VWEE~Ii~lP~~v~~v~LSATv--~N~~EF~~Wi~~~ 283 (1041)
T COG4581 228 RDIEWVVFDEVHYIGDRERGVVWEEVIILLPDHVRFVFLSATV--PNAEEFAEWIQRV 283 (1041)
T ss_pred cccceEEEEeeeeccccccchhHHHHHHhcCCCCcEEEEeCCC--CCHHHHHHHHHhc
Confidence 2334699999999987543333 333222 334678999993 2345555444433
No 146
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=96.29 E-value=0.024 Score=70.13 Aligned_cols=58 Identities=22% Similarity=0.192 Sum_probs=40.9
Q ss_pred CCeEEEeChhhH----HHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecchhhccc
Q 002565 385 AGTLVVCPASVL----RQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNE 446 (907)
Q Consensus 385 ~~tLIV~P~sll----~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l~~e 446 (907)
+.+-||+|.-.| .+|...+-+++ .++|-++.+..........-.+||++.|...+.=+
T Consensus 124 ~~VhvvT~ndyLA~RD~e~m~~l~~~l----Gl~v~~i~~~~~~~err~~Y~~dI~YGT~~e~gFD 185 (913)
T PRK13103 124 KGVHVVTVNDYLARRDANWMRPLYEFL----GLSVGIVTPFQPPEEKRAAYAADITYGTNNEFGFD 185 (913)
T ss_pred CCEEEEeCCHHHHHHHHHHHHHHhccc----CCEEEEECCCCCHHHHHHHhcCCEEEEcccccccc
Confidence 458999998766 44776666665 48888887765544444555689999998887433
No 147
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=96.25 E-value=0.029 Score=62.03 Aligned_cols=43 Identities=26% Similarity=0.237 Sum_probs=30.5
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHH
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~ 319 (907)
..+|.|++-..-+......+ .-+|+--..|.|||+..|..++.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~---~~~~~eapTGtGKTl~~L~~al~ 50 (289)
T smart00488 8 EPYPIQYEFMEELKRVLDRG---KIGILESPTGTGKTLSLLCLTLT 50 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcC---CcEEEECCCCcchhHHHHHHHHH
Confidence 45999999766666544322 23577778999999999877653
No 148
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=96.25 E-value=0.029 Score=62.03 Aligned_cols=43 Identities=26% Similarity=0.237 Sum_probs=30.5
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHH
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~ 319 (907)
..+|.|++-..-+......+ .-+|+--..|.|||+..|..++.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~---~~~~~eapTGtGKTl~~L~~al~ 50 (289)
T smart00489 8 EPYPIQYEFMEELKRVLDRG---KIGILESPTGTGKTLSLLCLTLT 50 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcC---CcEEEECCCCcchhHHHHHHHHH
Confidence 45999999766666544322 23577778999999999877653
No 149
>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=96.20 E-value=0.0032 Score=68.73 Aligned_cols=50 Identities=24% Similarity=0.646 Sum_probs=38.0
Q ss_pred cccccccCCCC----C-CccccccCcccchhhhhhhccCCCCCCCCcccccccCccc
Q 002565 718 SAICCVCSDPP----E-DSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADV 769 (907)
Q Consensus 718 ~~~C~iC~d~~----e-~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~ 769 (907)
+..|++|.... . ...+..|||.||..|+...+......|| .|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP--~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCP--ECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCC--CCCCccchhh
Confidence 35799998742 1 1245589999999999998877667888 7888887664
No 150
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=96.20 E-value=0.036 Score=67.18 Aligned_cols=39 Identities=15% Similarity=0.262 Sum_probs=26.6
Q ss_pred CCeEEEeChh-hHHHHHHHHHHhCCC--CCCeEEEEEeCCCC
Q 002565 385 AGTLVVCPAS-VLRQWARELEDKVPD--KAALSVLIYHGGSR 423 (907)
Q Consensus 385 ~~tLIV~P~s-ll~qW~~Ei~k~~~~--~~~l~V~v~~G~~r 423 (907)
.++||.+|+. |..|+.+++...... ...+++.+..|...
T Consensus 47 ~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~~~i~~~~lkGr~n 88 (636)
T TIGR03117 47 QKIAIAVPTLALMGQLWSELERLTAEGLAGPVQAGFFPGSQE 88 (636)
T ss_pred ceEEEECCcHHHHHHHHHHHHHHHHhhcCCCeeEEEEECCcc
Confidence 4589999965 889999888765311 12577777777653
No 151
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=96.20 E-value=0.085 Score=65.79 Aligned_cols=53 Identities=15% Similarity=0.157 Sum_probs=39.1
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCC
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCI 877 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi 877 (907)
..+||..|.++|+++.....+ .....++.+||||+++.+|...|...|...++
T Consensus 268 e~PKw~~L~eiL~eI~~~~~~--------------------~~~~~~~~~iLI~~~d~~T~~qL~~~L~~~~~ 320 (814)
T TIGR00596 268 ENPKWEVLTDVLKEISHEMRM--------------------TNRLQGPGKVLIMCSDNRTCLQLRDYLTTSNK 320 (814)
T ss_pred cCCCHHHHHHHHHHHHhHHhh--------------------hcccCCCCcEEEEEcchHHHHHHHHHHHhccc
Confidence 478999999999988764220 00112345999999999999999999966344
No 152
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.12 E-value=0.0022 Score=52.80 Aligned_cols=46 Identities=33% Similarity=0.649 Sum_probs=31.9
Q ss_pred ccccccccCCCCCCcccc-ccCcccchhhhhhhccC-CCCCCCCcccc
Q 002565 717 SSAICCVCSDPPEDSVVT-MCGHVFCYQCASEYITG-DDNMCPAPRCK 762 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit-~C~H~fC~~Ci~~~i~~-~~~~CP~~~Cr 762 (907)
....|+|...+.++||.. .|+|+|.++.|.+++.. ....||+..|.
T Consensus 10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv~GC~ 57 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPVAGCN 57 (57)
T ss_dssp --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SCCC-S
T ss_pred eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCCCCCC
Confidence 456799999999999986 89999999999999943 34589998873
No 153
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.07 E-value=0.0038 Score=66.78 Aligned_cols=56 Identities=23% Similarity=0.580 Sum_probs=49.6
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCccccccccc
Q 002565 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTT 775 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~~~~ 775 (907)
..+|.||...+..|+...|.|.||+-||...+..+-..|+ .||.++..+..+....
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~Ca--vCR~pids~i~~~psl 62 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCA--VCRFPIDSTIDFEPSL 62 (324)
T ss_pred CCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCc--eecCCCCcchhcchhh
Confidence 4689999999999999999999999999999988888899 5999999887765544
No 154
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=95.74 E-value=0.0051 Score=67.56 Aligned_cols=50 Identities=26% Similarity=0.795 Sum_probs=42.1
Q ss_pred hhcccccccccCCCCCCccccccCcccchhhhhhhccCC-CCCCCCccccc
Q 002565 714 LETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGD-DNMCPAPRCKE 763 (907)
Q Consensus 714 le~~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~-~~~CP~~~Cr~ 763 (907)
.....+.|-||.+...+--|.+|||..|..|+..+-..+ ...||.|+|..
T Consensus 365 MgsTFeLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 365 MGSTFELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred ccchHHHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 345567899999999999999999999999999998666 56899766643
No 155
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=95.73 E-value=0.025 Score=69.02 Aligned_cols=101 Identities=17% Similarity=0.198 Sum_probs=67.6
Q ss_pred ccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCC
Q 002565 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (907)
....|-.+|++|+.-|.+- -.-+.|--.-.|||+.|=..|+.-..+
T Consensus 294 ~pFelD~FQk~Ai~~lerg-------~SVFVAAHTSAGKTvVAEYAialaq~h--------------------------- 339 (1248)
T KOG0947|consen 294 YPFELDTFQKEAIYHLERG-------DSVFVAAHTSAGKTVVAEYAIALAQKH--------------------------- 339 (1248)
T ss_pred CCCCccHHHHHHHHHHHcC-------CeEEEEecCCCCcchHHHHHHHHHHhh---------------------------
Confidence 3456889999999777632 235788889999999985554321111
Q ss_pred cCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeC-hhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccc
Q 002565 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCP-ASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVE 429 (907)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P-~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~ 429 (907)
..+++--.| +.|=.|=-++|+..|.+ .. ++.|....
T Consensus 340 ---------------------------------~TR~iYTSPIKALSNQKfRDFk~tF~D---vg--LlTGDvqi----- 376 (1248)
T KOG0947|consen 340 ---------------------------------MTRTIYTSPIKALSNQKFRDFKETFGD---VG--LLTGDVQI----- 376 (1248)
T ss_pred ---------------------------------ccceEecchhhhhccchHHHHHHhccc---cc--eeecceee-----
Confidence 123566667 44556677889888864 22 55565432
Q ss_pred cCCCcEEEecchhhcccCC
Q 002565 430 LAKYDVVLTTYSIVTNEVP 448 (907)
Q Consensus 430 l~~~dVVItTY~~l~~e~~ 448 (907)
-.++.++|+|.++|++.+.
T Consensus 377 nPeAsCLIMTTEILRsMLY 395 (1248)
T KOG0947|consen 377 NPEASCLIMTTEILRSMLY 395 (1248)
T ss_pred CCCcceEeehHHHHHHHHh
Confidence 2567899999999998654
No 156
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.69 E-value=0.0025 Score=50.58 Aligned_cols=47 Identities=34% Similarity=0.874 Sum_probs=41.3
Q ss_pred cccccccCCCCCCccccccCcc-cchhhhhhhccCCCCCCCCcccccccC
Q 002565 718 SAICCVCSDPPEDSVVTMCGHV-FCYQCASEYITGDDNMCPAPRCKEQLG 766 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~-fC~~Ci~~~i~~~~~~CP~~~Cr~~l~ 766 (907)
+.+|-||.|.+.+.|+-.|||+ .|++|-....++-...|| .||.++.
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CP--iCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCP--ICRAPIK 54 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCc--chhhHHH
Confidence 4789999999999999999998 599999888887788999 5887764
No 157
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=95.59 E-value=0.25 Score=61.26 Aligned_cols=63 Identities=14% Similarity=0.103 Sum_probs=51.5
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..|+.++++.+..+.+.+. =|||-+.....=+.|...|.+.||++..|...
T Consensus 422 ~~K~~Ai~~ei~~~~~~Gr-----------------------------PVLIgT~SVe~SE~ls~~L~~~gi~h~vLNAk 472 (939)
T PRK12902 422 IAKWRAVANETAEMHKQGR-----------------------------PVLVGTTSVEKSELLSALLQEQGIPHNLLNAK 472 (939)
T ss_pred HHHHHHHHHHHHHHHhCCC-----------------------------CEEEeeCCHHHHHHHHHHHHHcCCchheeeCC
Confidence 5799999998888877665 79999999999999999999999999999997
Q ss_pred -CCHHHHHHHHHH
Q 002565 886 -MSLPARDRAVKD 897 (907)
Q Consensus 886 -ms~~~R~~~I~~ 897 (907)
...++=..+|.+
T Consensus 473 ~~~~~~EA~IIa~ 485 (939)
T PRK12902 473 PENVEREAEIVAQ 485 (939)
T ss_pred CcchHhHHHHHHh
Confidence 333333445544
No 158
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.58 E-value=0.0068 Score=64.07 Aligned_cols=49 Identities=37% Similarity=0.824 Sum_probs=38.2
Q ss_pred hcccccccccCCCCCCccc-cccCcccchhhhhhhccC-CCCCCCCccccccc
Q 002565 715 ETSSAICCVCSDPPEDSVV-TMCGHVFCYQCASEYITG-DDNMCPAPRCKEQL 765 (907)
Q Consensus 715 e~~~~~C~iC~d~~e~pvi-t~C~H~fC~~Ci~~~i~~-~~~~CP~~~Cr~~l 765 (907)
..++.+|++|.++|..|.+ .+|+|++|+-|+...... ...+|| .|+...
T Consensus 236 ~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp--~Cg~~~ 286 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCP--LCGENV 286 (298)
T ss_pred ccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccC--ccCCCC
Confidence 3567899999999999855 569999999999876543 345899 676554
No 159
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=95.31 E-value=0.026 Score=58.91 Aligned_cols=44 Identities=16% Similarity=0.250 Sum_probs=21.8
Q ss_pred ccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccchh
Q 002565 510 VGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSID 555 (907)
Q Consensus 510 ~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l~ 555 (907)
+....||+||||++.. .+.-..+.++....+++++|=|.|....
T Consensus 118 ~~~~~iIvDEaQN~t~--~~~k~ilTR~g~~skii~~GD~~Q~D~~ 161 (205)
T PF02562_consen 118 FDNAFIIVDEAQNLTP--EELKMILTRIGEGSKIIITGDPSQIDLP 161 (205)
T ss_dssp B-SEEEEE-SGGG--H--HHHHHHHTTB-TT-EEEEEE--------
T ss_pred ccceEEEEecccCCCH--HHHHHHHcccCCCcEEEEecCceeecCC
Confidence 3457899999999853 3333445566777999999999887543
No 160
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.30 E-value=0.0028 Score=69.15 Aligned_cols=49 Identities=29% Similarity=0.757 Sum_probs=39.9
Q ss_pred ccccccccCCCCCCcccc-ccCcccchhhhhhhccCCCCCCCCcccccccCc
Q 002565 717 SSAICCVCSDPPEDSVVT-MCGHVFCYQCASEYITGDDNMCPAPRCKEQLGA 767 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit-~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~ 767 (907)
....|+||++.......+ .|+|-||.+||...+....+.|| .||+.+..
T Consensus 42 ~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecp--tcRk~l~S 91 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECP--TCRKKLVS 91 (381)
T ss_pred hhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCc--hHHhhccc
Confidence 356799999887665544 59999999999999988889999 68876644
No 161
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=95.22 E-value=2.4 Score=52.94 Aligned_cols=63 Identities=13% Similarity=0.094 Sum_probs=50.6
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..|++++++.+....+.+. =|||-|.....-+.|...|.+.||++..|...
T Consensus 407 ~~K~~AI~~ei~~~~~~gr-----------------------------PVLIgT~SIe~SE~ls~~L~~~gi~h~vLNAk 457 (870)
T CHL00122 407 LSKWRAIADECLQMHQTGR-----------------------------PILIGTTTIEKSELLSQLLKEYRLPHQLLNAK 457 (870)
T ss_pred HHHHHHHHHHHHHHHhcCC-----------------------------CEEEeeCCHHHHHHHHHHHHHcCCccceeeCC
Confidence 4699999988887777665 79999999999999999999999999999997
Q ss_pred C-CHHHHHHHHHH
Q 002565 886 M-SLPARDRAVKD 897 (907)
Q Consensus 886 m-s~~~R~~~I~~ 897 (907)
- ..++=..+|.+
T Consensus 458 ~~~~~~EA~IIA~ 470 (870)
T CHL00122 458 PENVRRESEIVAQ 470 (870)
T ss_pred CccchhHHHHHHh
Confidence 3 22333445544
No 162
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=95.19 E-value=0.13 Score=60.72 Aligned_cols=80 Identities=24% Similarity=0.342 Sum_probs=59.9
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcCc
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGL 353 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (907)
+|-.-|..||.-.+.+.- .||--..|.|||++.-+.+..+ ..
T Consensus 410 kLN~SQ~~AV~~VL~rpl-------sLIQGPPGTGKTvtsa~IVyhl-~~------------------------------ 451 (935)
T KOG1802|consen 410 KLNASQSNAVKHVLQRPL-------SLIQGPPGTGKTVTSATIVYHL-AR------------------------------ 451 (935)
T ss_pred hhchHHHHHHHHHHcCCc-------eeeecCCCCCceehhHHHHHHH-HH------------------------------
Confidence 488899999999997654 3788899999999875555432 11
Q ss_pred ccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCC
Q 002565 354 DKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRT 424 (907)
Q Consensus 354 ~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~ 424 (907)
.-.+++||++|.+ .+.|-+.-|.+- .|+|+-+....|.
T Consensus 452 ----------------------------~~~~~VLvcApSNiAVDqLaeKIh~t-----gLKVvRl~aksRE 490 (935)
T KOG1802|consen 452 ----------------------------QHAGPVLVCAPSNIAVDQLAEKIHKT-----GLKVVRLCAKSRE 490 (935)
T ss_pred ----------------------------hcCCceEEEcccchhHHHHHHHHHhc-----CceEeeeehhhhh
Confidence 2246799999987 578888888764 5888877766553
No 163
>PRK10536 hypothetical protein; Provisional
Probab=95.04 E-value=0.074 Score=57.27 Aligned_cols=41 Identities=24% Similarity=0.212 Sum_probs=32.4
Q ss_pred ccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccch
Q 002565 512 WFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSI 554 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l 554 (907)
-..|||||||++.- .+....+.++....+++++|-|-|..+
T Consensus 177 ~~~vIvDEaqn~~~--~~~k~~ltR~g~~sk~v~~GD~~QiD~ 217 (262)
T PRK10536 177 NAVVILDEAQNVTA--AQMKMFLTRLGENVTVIVNGDITQCDL 217 (262)
T ss_pred CCEEEEechhcCCH--HHHHHHHhhcCCCCEEEEeCChhhccC
Confidence 36799999999854 445556677888899999999987754
No 164
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.04 E-value=0.055 Score=59.96 Aligned_cols=49 Identities=16% Similarity=0.279 Sum_probs=46.7
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
..|||++-..+..+|...|...|..+..|+|.|...+|.++|++|+...
T Consensus 332 qsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~ 380 (477)
T KOG0332|consen 332 QSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGK 380 (477)
T ss_pred heEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCc
Confidence 6799999999999999999999999999999999999999999999653
No 165
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=94.89 E-value=0.13 Score=64.15 Aligned_cols=44 Identities=32% Similarity=0.297 Sum_probs=34.8
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHh
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~ 320 (907)
..+++|..++.+.......+. =.+|-...|-|||..++++....
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~---~~vl~aPTG~GKT~asl~~a~~~ 238 (733)
T COG1203 195 EGYELQEKALELILRLEKRSL---LVVLEAPTGYGKTEASLILALAL 238 (733)
T ss_pred hhhHHHHHHHHHHHhcccccc---cEEEEeCCCCChHHHHHHHHHHH
Confidence 468999999998887765441 26899999999999888777653
No 166
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.62 E-value=0.013 Score=62.64 Aligned_cols=47 Identities=26% Similarity=0.680 Sum_probs=39.8
Q ss_pred cccccccCCCC---CCccccccCcccchhhhhhhccCCCCCCCCcccccccC
Q 002565 718 SAICCVCSDPP---EDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLG 766 (907)
Q Consensus 718 ~~~C~iC~d~~---e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~ 766 (907)
..+|.||++.. +.-++++|.|.|-..|++.++.+=..+||+ |+.++.
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPv--Crt~iP 372 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPV--CRTAIP 372 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCc--cCCCCC
Confidence 47899999875 346789999999999999999988889994 877654
No 167
>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=94.56 E-value=0.084 Score=57.37 Aligned_cols=57 Identities=25% Similarity=0.161 Sum_probs=36.4
Q ss_pred CCeEEEeChhhH----HHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecchhhcc
Q 002565 385 AGTLVVCPASVL----RQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTN 445 (907)
Q Consensus 385 ~~tLIV~P~sll----~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l~~ 445 (907)
+++=||+....| .+|...|-++++ ++|-+.............=..||+-+|-..+.-
T Consensus 119 ~~V~vvT~NdyLA~RD~~~~~~~y~~LG----lsv~~~~~~~~~~~r~~~Y~~dI~Y~t~~~~~f 179 (266)
T PF07517_consen 119 KGVHVVTSNDYLAKRDAEEMRPFYEFLG----LSVGIITSDMSSEERREAYAADIVYGTNSEFGF 179 (266)
T ss_dssp S-EEEEESSHHHHHHHHHHHHHHHHHTT------EEEEETTTEHHHHHHHHHSSEEEEEHHHHHH
T ss_pred CCcEEEeccHHHhhccHHHHHHHHHHhh----hccccCccccCHHHHHHHHhCcccccccchhhH
Confidence 357888887766 569999999884 888877776543222333356888777666654
No 168
>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=94.23 E-value=0.025 Score=49.03 Aligned_cols=41 Identities=34% Similarity=0.978 Sum_probs=30.5
Q ss_pred ccccccccCCCCCCc-------------cccccCcccchhhhhhhccCCCCCCCC
Q 002565 717 SSAICCVCSDPPEDS-------------VVTMCGHVFCYQCASEYITGDDNMCPA 758 (907)
Q Consensus 717 ~~~~C~iC~d~~e~p-------------vit~C~H~fC~~Ci~~~i~~~~~~CP~ 758 (907)
....|.||.++..++ +...|+|.|...|+..++.... +||+
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-~CP~ 71 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-TCPL 71 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-B-TT
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-cCCC
Confidence 345699999887322 3457999999999999997554 8995
No 169
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.21 E-value=0.017 Score=63.09 Aligned_cols=43 Identities=28% Similarity=0.724 Sum_probs=37.1
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccc
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr 762 (907)
....|+||.+....|.+.+|+|.||..|+..... ..-.|| .|+
T Consensus 12 ~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp--~cr 54 (386)
T KOG2177|consen 12 EELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GPLSCP--VCR 54 (386)
T ss_pred ccccChhhHHHhhcCccccccchHhHHHHHHhcC-CCcCCc--ccC
Confidence 4678999999999999999999999999999887 445788 566
No 170
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=93.88 E-value=0.15 Score=62.62 Aligned_cols=71 Identities=15% Similarity=0.238 Sum_probs=62.3
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..++..|++.|..+.+.+. ++|||+......+.|...|...|+++..++|.
T Consensus 425 ~~qi~~Ll~eI~~~~~~g~-----------------------------~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~ 475 (655)
T TIGR00631 425 DGQVDDLLSEIRQRVARNE-----------------------------RVLVTTLTKKMAEDLTDYLKELGIKVRYLHSE 475 (655)
T ss_pred cchHHHHHHHHHHHHcCCC-----------------------------EEEEEECCHHHHHHHHHHHhhhccceeeeeCC
Confidence 4678888888888776665 99999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhcCCCCccc
Q 002565 886 MSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 886 ms~~~R~~~I~~F~~dp~v~V 906 (907)
++..+|.++++.|... .+.|
T Consensus 476 ~~~~eR~~~l~~fr~G-~i~V 495 (655)
T TIGR00631 476 IDTLERVEIIRDLRLG-EFDV 495 (655)
T ss_pred CCHHHHHHHHHHHhcC-CceE
Confidence 9999999999999853 3444
No 171
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=93.86 E-value=1.4 Score=54.73 Aligned_cols=53 Identities=9% Similarity=0.036 Sum_probs=47.2
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
...|+.++++.+..+.+.+. -|||.|.....-+.|...|.+.||++..|..
T Consensus 408 ~~~K~~Aii~ei~~~~~~gq-----------------------------PVLVgT~SIe~SE~ls~~L~~~gi~h~vLNA 458 (925)
T PRK12903 408 KHAKWKAVVKEVKRVHKKGQ-----------------------------PILIGTAQVEDSETLHELLLEANIPHTVLNA 458 (925)
T ss_pred HHHHHHHHHHHHHHHHhcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCCceeecc
Confidence 35799999998888877665 7999999999999999999999999999998
Q ss_pred cC
Q 002565 885 TM 886 (907)
Q Consensus 885 sm 886 (907)
.-
T Consensus 459 k~ 460 (925)
T PRK12903 459 KQ 460 (925)
T ss_pred cc
Confidence 74
No 172
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=93.83 E-value=0.16 Score=62.49 Aligned_cols=67 Identities=15% Similarity=0.248 Sum_probs=60.7
Q ss_pred chhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEcc
Q 002565 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (907)
Q Consensus 806 SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGs 885 (907)
..++..|++.|..+.+.+. +||||+......+.|...|...|+++..++|.
T Consensus 429 ~~q~~~L~~~L~~~~~~g~-----------------------------~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~ 479 (652)
T PRK05298 429 KGQVDDLLSEIRKRVAKGE-----------------------------RVLVTTLTKRMAEDLTDYLKELGIKVRYLHSD 479 (652)
T ss_pred cccHHHHHHHHHHHHhCCC-----------------------------EEEEEeCCHHHHHHHHHHHhhcceeEEEEECC
Confidence 4568889988888777665 99999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhcCC
Q 002565 886 MSLPARDRAVKDFNTD 901 (907)
Q Consensus 886 ms~~~R~~~I~~F~~d 901 (907)
++..+|..+++.|+..
T Consensus 480 ~~~~~R~~~l~~f~~g 495 (652)
T PRK05298 480 IDTLERVEIIRDLRLG 495 (652)
T ss_pred CCHHHHHHHHHHHHcC
Confidence 9999999999999853
No 173
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.57 E-value=0.028 Score=59.71 Aligned_cols=41 Identities=32% Similarity=0.719 Sum_probs=37.1
Q ss_pred cccccccCCCCCCcccc-ccCcccchhhhhhhccCCCCCCCC
Q 002565 718 SAICCVCSDPPEDSVVT-MCGHVFCYQCASEYITGDDNMCPA 758 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit-~C~H~fC~~Ci~~~i~~~~~~CP~ 758 (907)
...|+.|.-....|+.| .|+|.||.+||...+...+..||.
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~Cpn 315 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPN 315 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCC
Confidence 35699999999999998 789999999999999888999994
No 174
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=93.56 E-value=0.12 Score=61.89 Aligned_cols=106 Identities=19% Similarity=0.193 Sum_probs=67.7
Q ss_pred CCCCcccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHH-HhhhccccchhhhccccccccccCCC
Q 002565 266 LPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQ-MQRSLQSKSKTEVLGNQKTEALNLDD 344 (907)
Q Consensus 266 ~P~~~l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 344 (907)
.|+......|-|+|.+++.-+-+.+. -+..--.-.|||+.|=-.|+ .++.
T Consensus 121 ~pAk~YPF~LDpFQ~~aI~Cidr~eS-------VLVSAHTSAGKTVVAeYAIA~sLr~---------------------- 171 (1041)
T KOG0948|consen 121 PPAKTYPFTLDPFQSTAIKCIDRGES-------VLVSAHTSAGKTVVAEYAIAMSLRE---------------------- 171 (1041)
T ss_pred CcccCCCcccCchHhhhhhhhcCCce-------EEEEeecCCCcchHHHHHHHHHHHh----------------------
Confidence 34444456799999999977764432 35566678999998843333 2221
Q ss_pred CCCCCCcCcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeC-hhhHHHHHHHHHHhCCCCCCeEEEEEeCCCC
Q 002565 345 DDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCP-ASVLRQWARELEDKVPDKAALSVLIYHGGSR 423 (907)
Q Consensus 345 ~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P-~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r 423 (907)
..+++--.| +.|=.|=.+|+..-|.+ |-...|.-.
T Consensus 172 ---------------------------------------kQRVIYTSPIKALSNQKYREl~~EF~D-----VGLMTGDVT 207 (1041)
T KOG0948|consen 172 ---------------------------------------KQRVIYTSPIKALSNQKYRELLEEFKD-----VGLMTGDVT 207 (1041)
T ss_pred ---------------------------------------cCeEEeeChhhhhcchhHHHHHHHhcc-----cceeeccee
Confidence 123566667 45667777888776642 444555432
Q ss_pred CCCccccCCCcEEEecchhhcccCCC
Q 002565 424 TKDPVELAKYDVVLTTYSIVTNEVPK 449 (907)
Q Consensus 424 ~~~~~~l~~~dVVItTY~~l~~e~~~ 449 (907)
--.++..+|+|.++|++-+.+
T Consensus 208 -----InP~ASCLVMTTEILRsMLYR 228 (1041)
T KOG0948|consen 208 -----INPDASCLVMTTEILRSMLYR 228 (1041)
T ss_pred -----eCCCCceeeeHHHHHHHHHhc
Confidence 235677999999999986543
No 175
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=93.44 E-value=0.017 Score=62.90 Aligned_cols=47 Identities=28% Similarity=0.734 Sum_probs=38.5
Q ss_pred ccccccccCCCCCCc-cccccCcccchhhhhhhccCCCCCCCCcccccccC
Q 002565 717 SSAICCVCSDPPEDS-VVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLG 766 (907)
Q Consensus 717 ~~~~C~iC~d~~e~p-vit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~ 766 (907)
....|.+|..-..++ .|+-|.|.||+.||-.++.. ...||+ |...+.
T Consensus 14 ~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~-~~~CP~--C~i~ih 61 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE-SKYCPT--CDIVIH 61 (331)
T ss_pred cceehhhccceeecchhHHHHHHHHHHHHHHHHHHH-hccCCc--cceecc
Confidence 457899999988776 68899999999999999987 778995 554443
No 176
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=93.32 E-value=0.29 Score=59.71 Aligned_cols=35 Identities=17% Similarity=0.086 Sum_probs=28.9
Q ss_pred EEEEccCcccCCcchHHHHHHHhhhcCceEEEeccC
Q 002565 514 RVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTP 549 (907)
Q Consensus 514 rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTP 549 (907)
.||+||-|++... .+.+.++..|+...-+=..||-
T Consensus 208 IvIvDEPh~f~~~-~k~~~~i~~l~pl~ilRfgATf 242 (985)
T COG3587 208 IVIVDEPHRFLGD-DKTYGAIKQLNPLLILRFGATF 242 (985)
T ss_pred EEEecChhhcccc-hHHHHHHHhhCceEEEEecccc
Confidence 4999999999876 7889999999887766666773
No 177
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=93.25 E-value=0.5 Score=59.66 Aligned_cols=46 Identities=15% Similarity=0.101 Sum_probs=31.8
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
+++|+-....+|..+...|....+.. ...|... .|.+++++|++.+
T Consensus 649 ~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~ 694 (820)
T PRK07246 649 PILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGE 694 (820)
T ss_pred CEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCC
Confidence 67777666678888888887665544 5556432 3577999998753
No 178
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=93.16 E-value=0.15 Score=63.44 Aligned_cols=68 Identities=21% Similarity=0.291 Sum_probs=62.4
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
...|+..|+++|...... .|+|||++--.-+|.|-+.|.+.|+.+..|||
T Consensus 596 e~eKf~kL~eLl~e~~e~------------------------------~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHG 645 (997)
T KOG0334|consen 596 ENEKFLKLLELLGERYED------------------------------GKTIIFVDKQEKADALLRDLQKAGYNCDSLHG 645 (997)
T ss_pred chHHHHHHHHHHHHHhhc------------------------------CCEEEEEcCchHHHHHHHHHHhcCcchhhhcC
Confidence 367999999999887663 28999999999999999999999999999999
Q ss_pred cCCHHHHHHHHHHhcCCC
Q 002565 885 TMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 885 sms~~~R~~~I~~F~~dp 902 (907)
..++.+|...|+.|++++
T Consensus 646 gv~q~dR~sti~dfK~~~ 663 (997)
T KOG0334|consen 646 GVDQHDRSSTIEDFKNGV 663 (997)
T ss_pred CCchHHHHhHHHHHhccC
Confidence 999999999999999876
No 179
>PRK14873 primosome assembly protein PriA; Provisional
Probab=92.85 E-value=0.57 Score=57.55 Aligned_cols=58 Identities=28% Similarity=0.260 Sum_probs=42.2
Q ss_pred CCeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCc------cccCCCcEEEecchhhcc
Q 002565 385 AGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDP------VELAKYDVVLTTYSIVTN 445 (907)
Q Consensus 385 ~~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~------~~l~~~dVVItTY~~l~~ 445 (907)
+.+||++|. ++..|+.+-|...|+ .-.|.+||..-..... ...+...|||=|++.+-.
T Consensus 189 k~vLvLvPEi~lt~q~~~rl~~~f~---~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRSAvFa 253 (665)
T PRK14873 189 RGALVVVPDQRDVDRLEAALRALLG---AGDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRSAVFA 253 (665)
T ss_pred CeEEEEecchhhHHHHHHHHHHHcC---CCcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcceeEEe
Confidence 348999995 588999999999986 2458888887543321 122567899999877653
No 180
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=92.83 E-value=1.4 Score=54.04 Aligned_cols=41 Identities=29% Similarity=0.378 Sum_probs=30.6
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHH
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~ 319 (907)
..|-+.|+.+|.+.+.... -.|+--..|.|||-++++++..
T Consensus 156 ~~ln~~Q~~Av~~~l~~~~------~~lI~GpPGTGKT~t~~~ii~~ 196 (637)
T TIGR00376 156 PNLNESQKEAVSFALSSKD------LFLIHGPPGTGKTRTLVELIRQ 196 (637)
T ss_pred CCCCHHHHHHHHHHhcCCC------eEEEEcCCCCCHHHHHHHHHHH
Confidence 4689999999998774321 1356667999999888887754
No 181
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.80 E-value=0.052 Score=58.23 Aligned_cols=47 Identities=32% Similarity=0.586 Sum_probs=36.8
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccC
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLG 766 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~ 766 (907)
-...|.||..+...||+|.|+|.||..|....+.. ...|. .|..++.
T Consensus 240 ~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk-~~~c~--vC~~~t~ 286 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQK-GEKCY--VCSQQTH 286 (313)
T ss_pred CCccccccccccccchhhcCCceeehhhhcccccc-CCcce--ecccccc
Confidence 35569999999999999999999999998765542 24566 5766543
No 182
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.42 E-value=0.041 Score=66.14 Aligned_cols=45 Identities=24% Similarity=0.647 Sum_probs=39.0
Q ss_pred cccccccccCCCCCC-----ccccccCcccchhhhhhhccCCCCCCCCccc
Q 002565 716 TSSAICCVCSDPPED-----SVVTMCGHVFCYQCASEYITGDDNMCPAPRC 761 (907)
Q Consensus 716 ~~~~~C~iC~d~~e~-----pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~C 761 (907)
..+..|.||.|.... +...+|+|+||..|+..++.. ...||.|+|
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~ 338 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRT 338 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchh
Confidence 467889999999877 788999999999999999876 779996555
No 183
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=92.41 E-value=0.27 Score=54.70 Aligned_cols=48 Identities=15% Similarity=0.232 Sum_probs=46.4
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTD 901 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~d 901 (907)
+||||+.-..-.|-|..+|--.|+..+-|+|+-.+++|..+|+.|+..
T Consensus 423 pVLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~ai~afr~g 470 (610)
T KOG0341|consen 423 PVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEAFRAG 470 (610)
T ss_pred ceEEEeccccChHHHHHHHHHccceeEEeecCcchhHHHHHHHHHhcC
Confidence 999999999999999999999999999999999999999999999964
No 184
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=92.31 E-value=0.04 Score=55.42 Aligned_cols=31 Identities=42% Similarity=0.886 Sum_probs=27.9
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhh
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASE 747 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~ 747 (907)
....|.||-..-+.||+|.|||.||..|+-.
T Consensus 195 IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~ 225 (259)
T COG5152 195 IPFLCGICKKDYESPVVTECGHSFCSLCAIR 225 (259)
T ss_pred CceeehhchhhccchhhhhcchhHHHHHHHH
Confidence 4567999999999999999999999999754
No 185
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=92.28 E-value=0.95 Score=58.14 Aligned_cols=49 Identities=22% Similarity=0.178 Sum_probs=31.0
Q ss_pred eEEEEecchhhHHHHHHHHHhCCC--eEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCI--QYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi--~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
++|||-....+|..+...|..... .+..+.=+++...|.+++++|++.+
T Consensus 754 ~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~ 804 (928)
T PRK08074 754 RMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFD 804 (928)
T ss_pred CEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcC
Confidence 667766666788888888875422 1222322333356899999998643
No 186
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=91.70 E-value=0.068 Score=58.06 Aligned_cols=49 Identities=29% Similarity=0.727 Sum_probs=40.1
Q ss_pred hhcccccccccCCCCCCc-cccccCcccchhhhhhhccCCCCCCCCccccc
Q 002565 714 LETSSAICCVCSDPPEDS-VVTMCGHVFCYQCASEYITGDDNMCPAPRCKE 763 (907)
Q Consensus 714 le~~~~~C~iC~d~~e~p-vit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~ 763 (907)
+..+...|++|.....+| +++..|-+||+.|+-.|.. ..+.||+.+|..
T Consensus 296 l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~-~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 296 LPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVV-NYGHCPVTGYPA 345 (357)
T ss_pred CCCccccChhHHhccCCCceEEecceEEeHHHHHHHHH-hcCCCCccCCcc
Confidence 345678899999877666 5667799999999999987 678999988754
No 187
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=91.65 E-value=1.9 Score=53.22 Aligned_cols=46 Identities=20% Similarity=0.258 Sum_probs=32.6
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhh
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQR 321 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~ 321 (907)
.++++-|+.-...++....... .|+|-+..|.|||+..|+-.+...
T Consensus 20 ~qpY~~Q~a~M~rvl~~L~~~q---~~llESPTGTGKSLsLLCS~LAW~ 65 (945)
T KOG1132|consen 20 FQPYPTQLAFMTRVLSCLDRKQ---NGLLESPTGTGKSLSLLCSTLAWQ 65 (945)
T ss_pred CCcchHHHHHHHHHHHHHHHhh---hhhccCCCCCCccHHHHHHHHHHH
Confidence 4567778776666665555443 389999999999998877655443
No 188
>PHA02533 17 large terminase protein; Provisional
Probab=91.44 E-value=2.3 Score=51.16 Aligned_cols=42 Identities=21% Similarity=0.199 Sum_probs=28.5
Q ss_pred ccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHH
Q 002565 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~ 319 (907)
....|.|+|+.-+..|..... .++.=-=..|||..+.+++++
T Consensus 56 ~Pf~L~p~Q~~i~~~~~~~R~-------~ii~~aRq~GKStl~a~~al~ 97 (534)
T PHA02533 56 IKVQMRDYQKDMLKIMHKNRF-------NACNLSRQLGKTTVVAIFLLH 97 (534)
T ss_pred eecCCcHHHHHHHHHHhcCeE-------EEEEEcCcCChHHHHHHHHHH
Confidence 346799999998888752211 144445589999888766654
No 189
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=90.90 E-value=0.13 Score=56.48 Aligned_cols=52 Identities=23% Similarity=0.630 Sum_probs=39.9
Q ss_pred HhhhcccccccccCCCCC-------------CccccccCcccchhhhhhhccCCCCCCCCcccccccC
Q 002565 712 SRLETSSAICCVCSDPPE-------------DSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLG 766 (907)
Q Consensus 712 ~~le~~~~~C~iC~d~~e-------------~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~ 766 (907)
+++..++..|-||+|.+- .|-..+|||++-..|+..|+.+ ..+|| -||.++-
T Consensus 281 eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCP--ICr~p~i 345 (491)
T COG5243 281 EQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCP--ICRRPVI 345 (491)
T ss_pred hhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCC--cccCccc
Confidence 344678999999998732 2356789999999999999864 46899 5888753
No 190
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.75 E-value=1.4 Score=50.69 Aligned_cols=57 Identities=21% Similarity=0.408 Sum_probs=37.0
Q ss_pred CeEEEeChh-hHHHH---HHHHHHhCCCCCCeEEEEEeCCCCCC-Ccccc--CCCcEEEecchhhcc
Q 002565 386 GTLVVCPAS-VLRQW---ARELEDKVPDKAALSVLIYHGGSRTK-DPVEL--AKYDVVLTTYSIVTN 445 (907)
Q Consensus 386 ~tLIV~P~s-ll~qW---~~Ei~k~~~~~~~l~V~v~~G~~r~~-~~~~l--~~~dVVItTY~~l~~ 445 (907)
..|||.|.. |..|- ...|..+++ +++...+-|+.... +...+ ....|+|.|.+.+..
T Consensus 81 galIIsPTRELa~QI~~V~~~F~~~l~---~l~~~l~vGG~~v~~Di~~fkee~~nIlVgTPGRL~d 144 (567)
T KOG0345|consen 81 GALIISPTRELARQIREVAQPFLEHLP---NLNCELLVGGRSVEEDIKTFKEEGPNILVGTPGRLLD 144 (567)
T ss_pred eEEEecCcHHHHHHHHHHHHHHHHhhh---ccceEEEecCccHHHHHHHHHHhCCcEEEeCchhHHH
Confidence 479999986 44443 445556655 68888888885433 22222 356799999887754
No 191
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=90.73 E-value=0.89 Score=50.44 Aligned_cols=56 Identities=16% Similarity=0.108 Sum_probs=37.5
Q ss_pred cccccccEEEEccCcccCCcc---hHHHHHHHhh----hcCceEEEeccCcccchhhhhhhHH
Q 002565 507 LAKVGWFRVVLDEAQTIKNHR---TQVARACCSL----RAKRRWCLSGTPIQNSIDDLYSYFR 562 (907)
Q Consensus 507 L~~~~w~rVIlDEAH~IKN~~---S~~~ka~~~L----~a~~R~~LTGTPiqN~l~EL~sll~ 562 (907)
+..-.|.++-+||.|-..... -.-++++.-| +....+.||+|-..|-++|.-.+|.
T Consensus 211 ~~~~~~~~iaidevhccsqwghdfr~dy~~l~ilkrqf~~~~iigltatatn~vl~d~k~il~ 273 (695)
T KOG0353|consen 211 LEAGFFKLIAIDEVHCCSQWGHDFRPDYKALGILKRQFKGAPIIGLTATATNHVLDDAKDILC 273 (695)
T ss_pred hhcceeEEEeecceeehhhhCcccCcchHHHHHHHHhCCCCceeeeehhhhcchhhHHHHHHh
Confidence 344457789999998763211 1123444333 5556799999999999998877764
No 192
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.67 E-value=0.11 Score=59.22 Aligned_cols=48 Identities=40% Similarity=0.922 Sum_probs=40.0
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCc
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGA 767 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~ 767 (907)
...+|.+|......|+.++|||.||..|+...++ ....|| .|+..+..
T Consensus 83 sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld-~~~~cp--~Cr~~l~e 130 (398)
T KOG4159|consen 83 SEFECCVCSRALYPPVVTPCGHSFCLECLDRSLD-QETECP--LCRDELVE 130 (398)
T ss_pred chhhhhhhHhhcCCCccccccccccHHHHHHHhc-cCCCCc--cccccccc
Confidence 5677999999999999999999999999888554 556788 58877754
No 193
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=90.63 E-value=2.3 Score=44.11 Aligned_cols=39 Identities=31% Similarity=0.349 Sum_probs=26.2
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHH
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALI 317 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali 317 (907)
+|-+-|+.++..++..... -.+|-=..|.|||...-.+.
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~-----~~~l~G~aGtGKT~~l~~~~ 39 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDR-----VSVLQGPAGTGKTTLLKALA 39 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCS-----EEEEEESTTSTHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhcCCe-----EEEEEECCCCCHHHHHHHHH
Confidence 3778999999999854321 14565568999997654444
No 194
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=90.54 E-value=5.2 Score=51.26 Aligned_cols=54 Identities=15% Similarity=0.316 Sum_probs=37.7
Q ss_pred CeEEEeC-hhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecch
Q 002565 386 GTLVVCP-ASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYS 441 (907)
Q Consensus 386 ~tLIV~P-~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~ 441 (907)
...-|+| .+|+.-|...|.+++.+- .++|.-..|... ....++....|+++|-+
T Consensus 366 KIVYIAPmKaLvqE~VgsfSkRla~~-GI~V~ElTgD~~-l~~~qieeTqVIV~TPE 420 (1674)
T KOG0951|consen 366 KIVYIAPMKALVQEMVGSFSKRLAPL-GITVLELTGDSQ-LGKEQIEETQVIVTTPE 420 (1674)
T ss_pred eEEEEeeHHHHHHHHHHHHHhhcccc-CcEEEEeccccc-chhhhhhcceeEEeccc
Confidence 4677888 679999999999998742 456665666543 23445666778888854
No 195
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.34 E-value=0.096 Score=59.48 Aligned_cols=45 Identities=29% Similarity=0.771 Sum_probs=35.2
Q ss_pred ccccccccCCCCC-----------------CccccccCcccchhhhhhhccCCCCCCCCccc
Q 002565 717 SSAICCVCSDPPE-----------------DSVVTMCGHVFCYQCASEYITGDDNMCPAPRC 761 (907)
Q Consensus 717 ~~~~C~iC~d~~e-----------------~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~C 761 (907)
....|.||+.+.+ .-.+|+|.|+|-+.|+..+..+-.-.||+|+|
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~ 631 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRC 631 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCC
Confidence 4567999997753 12467999999999999998766678996554
No 196
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.09 E-value=0.66 Score=51.48 Aligned_cols=50 Identities=20% Similarity=0.243 Sum_probs=47.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
.-++||.|-+.+-.+|...|+..+++.+.||+-|++++|.+++.+|+.+.
T Consensus 255 ~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~ 304 (442)
T KOG0340|consen 255 GSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNA 304 (442)
T ss_pred ceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcC
Confidence 48999999999999999999999999999999999999999999999654
No 197
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.86 E-value=0.17 Score=56.47 Aligned_cols=47 Identities=26% Similarity=0.723 Sum_probs=37.9
Q ss_pred ccccccCCCCC---CccccccCcccchhhhhhhccCCCCCCCCcccccccCc
Q 002565 719 AICCVCSDPPE---DSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGA 767 (907)
Q Consensus 719 ~~C~iC~d~~e---~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~ 767 (907)
..|.||.|.-+ ...+.+|.|.|-..||..|++.-...||+ |+..+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPv--CK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPV--CKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCC--CCCcCCC
Confidence 48999998764 45789999999999999999988778996 5544433
No 198
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.63 E-value=0.19 Score=54.92 Aligned_cols=47 Identities=26% Similarity=0.641 Sum_probs=37.3
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccC
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLG 766 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~ 766 (907)
.+..|+||..-+..++.++|+|.-|++||..++.+. ..|= .|+..+.
T Consensus 421 Ed~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~-k~CF--fCktTv~ 467 (489)
T KOG4692|consen 421 EDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNC-KRCF--FCKTTVI 467 (489)
T ss_pred ccccCcceecccchhhccCCCCchHHHHHHHHHhcC-Ceee--Eecceee
Confidence 467799999999999999999999999999987642 2333 4665543
No 199
>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=89.62 E-value=0.08 Score=54.82 Aligned_cols=51 Identities=22% Similarity=0.499 Sum_probs=40.6
Q ss_pred cccccccCCC-----CCCccccc-cCcccchhhhhhhccCCCCCCCCcccccccCcc
Q 002565 718 SAICCVCSDP-----PEDSVVTM-CGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (907)
Q Consensus 718 ~~~C~iC~d~-----~e~pvit~-C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~ 768 (907)
+.-|++|... .....+.+ |-|-+|.+|+...++.....||.+.|...|...
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~ 66 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKI 66 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHh
Confidence 4579999632 22334555 999999999999999999999999998877654
No 200
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=89.37 E-value=0.53 Score=40.23 Aligned_cols=36 Identities=25% Similarity=0.430 Sum_probs=32.7
Q ss_pred HHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 867 LVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 867 ~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
.|...|+..++.+..++|+|+.++|.++++.|++..
T Consensus 2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~ 37 (82)
T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGK 37 (82)
T ss_pred HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCC
Confidence 567888888999999999999999999999999754
No 201
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=89.28 E-value=0.33 Score=57.30 Aligned_cols=44 Identities=27% Similarity=0.429 Sum_probs=32.3
Q ss_pred ccccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHh
Q 002565 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (907)
Q Consensus 271 l~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~ 320 (907)
+...|-+-|+.++.+...... . -++--..|.|||.+..-+|..+
T Consensus 182 ~~~~ln~SQk~Av~~~~~~k~--l----~~I~GPPGTGKT~TlvEiI~ql 225 (649)
T KOG1803|consen 182 FNKNLNSSQKAAVSFAINNKD--L----LIIHGPPGTGKTRTLVEIISQL 225 (649)
T ss_pred CCccccHHHHHHHHHHhccCC--c----eEeeCCCCCCceeeHHHHHHHH
Confidence 445689999999999886532 1 2444478999999887777644
No 202
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.21 E-value=0.16 Score=56.24 Aligned_cols=49 Identities=31% Similarity=0.683 Sum_probs=40.9
Q ss_pred ccccccccCCCCCCccccccCccc-chhhhhhhccCCCCCCCCcccccccCcc
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVF-CYQCASEYITGDDNMCPAPRCKEQLGAD 768 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~f-C~~Ci~~~i~~~~~~CP~~~Cr~~l~~~ 768 (907)
...+|.||+....+-++.+|-|.. |.+|..... -..+.|| -||.++...
T Consensus 289 ~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr-~q~n~CP--ICRqpi~~l 338 (349)
T KOG4265|consen 289 SGKECVICLSESRDTVVLPCRHLCLCSGCAKSLR-YQTNNCP--ICRQPIEEL 338 (349)
T ss_pred CCCeeEEEecCCcceEEecchhhehhHhHHHHHH-HhhcCCC--ccccchHhh
Confidence 467899999999999999999985 999998764 4567899 599887654
No 203
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=88.96 E-value=1.2 Score=52.04 Aligned_cols=48 Identities=17% Similarity=0.222 Sum_probs=45.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcC
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNT 900 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~ 900 (907)
++|||-+--..|.+-|-..|...||++..||.....-+|..+|..-+.
T Consensus 447 eRvLVTtLTKkmAEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~ 494 (663)
T COG0556 447 ERVLVTTLTKKMAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRL 494 (663)
T ss_pred CeEEEEeehHHHHHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhc
Confidence 399999999999999999999999999999999999999999998874
No 204
>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=88.91 E-value=1.4 Score=50.18 Aligned_cols=16 Identities=25% Similarity=0.449 Sum_probs=14.0
Q ss_pred ccccEEEEccCcccCC
Q 002565 510 VGWFRVVLDEAQTIKN 525 (907)
Q Consensus 510 ~~w~rVIlDEAH~IKN 525 (907)
-.+++||+||||++..
T Consensus 82 ~~~DviivDEAqrl~~ 97 (352)
T PF09848_consen 82 NKYDVIIVDEAQRLRT 97 (352)
T ss_pred CcCCEEEEehhHhhhh
Confidence 4578999999999977
No 205
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=88.82 E-value=3.7 Score=47.90 Aligned_cols=46 Identities=22% Similarity=0.174 Sum_probs=32.4
Q ss_pred CchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhc
Q 002565 275 LLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSL 323 (907)
Q Consensus 275 L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~ 323 (907)
.+|-|.. +|.+..+.--...-|+|--.-|.|||+..++++...+.+
T Consensus 17 iYPEQ~~---YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~ 62 (755)
T KOG1131|consen 17 IYPEQYE---YMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLH 62 (755)
T ss_pred cCHHHHH---HHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHh
Confidence 5777754 777654432112227998899999999999999876544
No 206
>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=88.72 E-value=2.8 Score=51.01 Aligned_cols=41 Identities=22% Similarity=0.165 Sum_probs=32.2
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccc
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNS 553 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~ 553 (907)
.+++||||||-.+-. ....+.+..+....|++|.|=|-|=.
T Consensus 259 ~~dvlIiDEaSMvd~--~l~~~ll~al~~~~rlIlvGD~~QLp 299 (586)
T TIGR01447 259 PLDVLVVDEASMVDL--PLMAKLLKALPPNTKLILLGDKNQLP 299 (586)
T ss_pred cccEEEEcccccCCH--HHHHHHHHhcCCCCEEEEECChhhCC
Confidence 578999999999853 34555667778888999999987653
No 207
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=88.54 E-value=0.58 Score=54.52 Aligned_cols=59 Identities=22% Similarity=0.248 Sum_probs=41.8
Q ss_pred CeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCc-ccc-CCCcEEEecchhhcc
Q 002565 386 GTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKDP-VEL-AKYDVVLTTYSIVTN 445 (907)
Q Consensus 386 ~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~-~~l-~~~dVVItTY~~l~~ 445 (907)
-.|||+|.. |..|-.+-|...++. ..++|..+.|+-..... +.+ ...||||.|.+.|-.
T Consensus 265 ~~LV~tPTRELa~QV~~Hl~ai~~~-t~i~v~si~GGLavqKQqRlL~~~p~IVVATPGRlwe 326 (731)
T KOG0347|consen 265 IALVVTPTRELAHQVKQHLKAIAEK-TQIRVASITGGLAVQKQQRLLNQRPDIVVATPGRLWE 326 (731)
T ss_pred eeEEecChHHHHHHHHHHHHHhccc-cCeEEEEeechhHHHHHHHHHhcCCCEEEecchHHHH
Confidence 379999986 778887777766543 37999999888543221 111 367999999988764
No 208
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=88.01 E-value=0.3 Score=56.27 Aligned_cols=45 Identities=36% Similarity=0.905 Sum_probs=38.1
Q ss_pred cccccccCCCCCCcccc-ccCcccchhhhhhhccCCCCCCCCccccccc
Q 002565 718 SAICCVCSDPPEDSVVT-MCGHVFCYQCASEYITGDDNMCPAPRCKEQL 765 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit-~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l 765 (907)
...|++|+....+|+.+ .|||.||..|+...+.. ...||+ |+..+
T Consensus 21 ~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~--~~~~~ 66 (391)
T KOG0297|consen 21 NLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN-HQKCPV--CRQEL 66 (391)
T ss_pred cccCccccccccCCCCCCCCCCcccccccchhhcc-CcCCcc--ccccc
Confidence 46799999999999995 99999999999998877 778984 54444
No 209
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=87.22 E-value=0.42 Score=38.69 Aligned_cols=46 Identities=28% Similarity=0.600 Sum_probs=35.1
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCcc
Q 002565 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~ 768 (907)
...|..|.......++.+|||+.|..|.... +-+.|| .|..++..+
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~---rYngCP--fC~~~~~~~ 52 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPGE---RYNGCP--FCGTPFEFD 52 (55)
T ss_pred ceeEEEccccccccccccccceeeccccChh---hccCCC--CCCCcccCC
Confidence 3467778777778899999999999998642 345799 587776544
No 210
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=87.15 E-value=3.5 Score=51.04 Aligned_cols=106 Identities=20% Similarity=0.206 Sum_probs=72.9
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
..|-+-|..++.-+.... ... .-.+|.--.|-|||=.=+-+|.....
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~-~~~--~~~Ll~GvTGSGKTEvYl~~i~~~L~------------------------------ 243 (730)
T COG1198 197 LALNQEQQAAVEAILSSL-GGF--APFLLDGVTGSGKTEVYLEAIAKVLA------------------------------ 243 (730)
T ss_pred cccCHHHHHHHHHHHHhc-ccc--cceeEeCCCCCcHHHHHHHHHHHHHH------------------------------
Confidence 468899999999888763 111 22588889999999655555543211
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeCh-hhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCc----
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDP---- 427 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~---- 427 (907)
..+.+||++|- ++..|-.+.|+..|+ .+|.++|..-.....
T Consensus 244 ------------------------------~GkqvLvLVPEI~Ltpq~~~rf~~rFg----~~v~vlHS~Ls~~er~~~W 289 (730)
T COG1198 244 ------------------------------QGKQVLVLVPEIALTPQLLARFKARFG----AKVAVLHSGLSPGERYRVW 289 (730)
T ss_pred ------------------------------cCCEEEEEeccccchHHHHHHHHHHhC----CChhhhcccCChHHHHHHH
Confidence 12458999995 689998888888885 677888876543321
Q ss_pred --cccCCCcEEEecchhhcc
Q 002565 428 --VELAKYDVVLTTYSIVTN 445 (907)
Q Consensus 428 --~~l~~~dVVItTY~~l~~ 445 (907)
...+...|||=|.+.+..
T Consensus 290 ~~~~~G~~~vVIGtRSAlF~ 309 (730)
T COG1198 290 RRARRGEARVVIGTRSALFL 309 (730)
T ss_pred HHHhcCCceEEEEechhhcC
Confidence 123678899988876653
No 211
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=87.13 E-value=4.9 Score=44.89 Aligned_cols=59 Identities=20% Similarity=0.251 Sum_probs=40.7
Q ss_pred eEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCC--CccccCCCcEEEecchhhccc
Q 002565 387 TLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTK--DPVELAKYDVVLTTYSIVTNE 446 (907)
Q Consensus 387 tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~--~~~~l~~~dVVItTY~~l~~e 446 (907)
.||+.|.. +..|-.+.|.- .+..-.+++.++.|+-..- +.....+-+|||+|-+.+...
T Consensus 78 alvlTPTrELA~QiaEQF~a-lGk~l~lK~~vivGG~d~i~qa~~L~~rPHvVvatPGRlad~ 139 (442)
T KOG0340|consen 78 ALVLTPTRELALQIAEQFIA-LGKLLNLKVSVIVGGTDMIMQAAILSDRPHVVVATPGRLADH 139 (442)
T ss_pred EEEecchHHHHHHHHHHHHH-hcccccceEEEEEccHHHhhhhhhcccCCCeEecCccccccc
Confidence 69999987 77888777763 4444468888888875322 222335678999999887654
No 212
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=86.92 E-value=0.3 Score=51.41 Aligned_cols=45 Identities=31% Similarity=0.705 Sum_probs=32.6
Q ss_pred ccccccCCCC--CCccccccCcccchhhhhhhccCCCCCCCCcccccccCcc
Q 002565 719 AICCVCSDPP--EDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (907)
Q Consensus 719 ~~C~iC~d~~--e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~ 768 (907)
..|..|.--+ ....+|.|+|+||..|....... .|| .|+..+...
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~---~C~--lCkk~ir~i 50 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPD---VCP--LCKKSIRII 50 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCCcc---ccc--cccceeeee
Confidence 3577776543 44579999999999999764322 888 698886543
No 213
>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=86.74 E-value=0.62 Score=40.20 Aligned_cols=33 Identities=27% Similarity=0.425 Sum_probs=30.3
Q ss_pred HHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 870 NSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 870 ~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
..|+..|+.+..++|+|+.++|+.+++.|++..
T Consensus 1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~ 33 (78)
T PF00271_consen 1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGE 33 (78)
T ss_dssp HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTS
T ss_pred CChHHCCCcEEEEECCCCHHHHHHHHHHhhccC
Confidence 368899999999999999999999999999755
No 214
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.27 E-value=0.34 Score=54.34 Aligned_cols=48 Identities=23% Similarity=0.711 Sum_probs=36.2
Q ss_pred ccccccccCCCCCCcc--------ccccCcccchhhhhhhccCCC------CCCCCcccccccC
Q 002565 717 SSAICCVCSDPPEDSV--------VTMCGHVFCYQCASEYITGDD------NMCPAPRCKEQLG 766 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pv--------it~C~H~fC~~Ci~~~i~~~~------~~CP~~~Cr~~l~ 766 (907)
.+..|.||++..-+.. +..|.|.||..|+..+..... ..|| -||....
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP--~CRv~s~ 221 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCP--FCRVPSS 221 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCC--cccCccc
Confidence 4678999998765443 467999999999999874333 5798 5776654
No 215
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=86.22 E-value=4.2 Score=51.60 Aligned_cols=54 Identities=15% Similarity=0.174 Sum_probs=47.7
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
...|+.++++.+..+.+.+. =|||-|.+...=++|.+.|...||++-.|.-
T Consensus 610 ~~eK~~Aii~ei~~~~~~Gr-----------------------------PVLVGT~SVe~SE~lS~~L~~~gI~H~VLNA 660 (1112)
T PRK12901 610 KREKYNAVIEEITELSEAGR-----------------------------PVLVGTTSVEISELLSRMLKMRKIPHNVLNA 660 (1112)
T ss_pred HHHHHHHHHHHHHHHHHCCC-----------------------------CEEEEeCcHHHHHHHHHHHHHcCCcHHHhhc
Confidence 35799999999998888776 7999999999999999999999999988887
Q ss_pred cCC
Q 002565 885 TMS 887 (907)
Q Consensus 885 sms 887 (907)
...
T Consensus 661 K~h 663 (1112)
T PRK12901 661 KLH 663 (1112)
T ss_pred cch
Confidence 644
No 216
>PRK04296 thymidine kinase; Provisional
Probab=86.19 E-value=2.1 Score=44.15 Aligned_cols=20 Identities=10% Similarity=0.137 Sum_probs=16.1
Q ss_pred eeecCCCCchHHHHHHHHHH
Q 002565 300 ILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 300 ILADeMGLGKTiqaIali~~ 319 (907)
++.=+||-|||..++.++..
T Consensus 6 litG~~GsGKTT~~l~~~~~ 25 (190)
T PRK04296 6 FIYGAMNSGKSTELLQRAYN 25 (190)
T ss_pred EEECCCCCHHHHHHHHHHHH
Confidence 55668999999988888754
No 217
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.02 E-value=0.46 Score=49.71 Aligned_cols=53 Identities=25% Similarity=0.367 Sum_probs=41.5
Q ss_pred ccccccccCCCCC----CccccccCcccchhhhhhhccCCCCCCCCcccccccCcccccc
Q 002565 717 SSAICCVCSDPPE----DSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFS 772 (907)
Q Consensus 717 ~~~~C~iC~d~~e----~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~ 772 (907)
..-.|++|.+... ..++.+|||++|.+|++.+|.. +..|| .|..++....++.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~-D~v~p--v~d~plkdrdiI~ 276 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK-DMVDP--VTDKPLKDRDIIG 276 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc-ccccc--CCCCcCcccceEe
Confidence 3567999998764 4578999999999999998864 56788 4888887766553
No 218
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=85.86 E-value=4.8 Score=49.21 Aligned_cols=42 Identities=24% Similarity=0.179 Sum_probs=33.5
Q ss_pred ccccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccc
Q 002565 510 VGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNS 553 (907)
Q Consensus 510 ~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~ 553 (907)
..+++||+|||-.+- ....++.+..+....|++|-|=|-|-.
T Consensus 264 l~~dvlIvDEaSMvd--~~lm~~ll~al~~~~rlIlvGD~~QL~ 305 (615)
T PRK10875 264 LHLDVLVVDEASMVD--LPMMARLIDALPPHARVIFLGDRDQLA 305 (615)
T ss_pred CCCCeEEEChHhccc--HHHHHHHHHhcccCCEEEEecchhhcC
Confidence 457899999999994 345566777888889999999987754
No 219
>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=85.60 E-value=6.2 Score=49.33 Aligned_cols=41 Identities=17% Similarity=0.149 Sum_probs=30.8
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccc
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNS 553 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~ 553 (907)
..++||+|||+.+-.. ...+.+..+....|++|-|=|-|-.
T Consensus 416 ~~~llIvDEaSMvd~~--~~~~Ll~~~~~~~rlilvGD~~QLp 456 (720)
T TIGR01448 416 DCDLLIVDESSMMDTW--LALSLLAALPDHARLLLVGDTDQLP 456 (720)
T ss_pred cCCEEEEeccccCCHH--HHHHHHHhCCCCCEEEEECcccccc
Confidence 4578999999999532 3445556677788999999887754
No 220
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.44 E-value=0.42 Score=53.66 Aligned_cols=53 Identities=30% Similarity=0.672 Sum_probs=40.4
Q ss_pred cccccccccCCCC---CCccccccCcccchhhhhhhccC-------CCCCCCCcccccccCcc
Q 002565 716 TSSAICCVCSDPP---EDSVVTMCGHVFCYQCASEYITG-------DDNMCPAPRCKEQLGAD 768 (907)
Q Consensus 716 ~~~~~C~iC~d~~---e~pvit~C~H~fC~~Ci~~~i~~-------~~~~CP~~~Cr~~l~~~ 768 (907)
...-.|.||.+.- ..-+.++|.|+||+.|...|.+. ..-+||.+.|+......
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g 244 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPG 244 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCch
Confidence 3557899999765 45678999999999999998652 12379999998765444
No 221
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.76 E-value=0.48 Score=49.61 Aligned_cols=33 Identities=30% Similarity=0.430 Sum_probs=30.1
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhcc
Q 002565 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYIT 750 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~ 750 (907)
..-|..|..|..+||+++-||+||++||.++|.
T Consensus 43 FdcCsLtLqPc~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 43 FDCCSLTLQPCRDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred cceeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence 345999999999999999999999999999875
No 222
>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=83.20 E-value=5.6 Score=49.28 Aligned_cols=38 Identities=24% Similarity=0.296 Sum_probs=23.1
Q ss_pred ccEEEEccCcccCCc--------chHHHHHHHhh--hcCceEEEeccC
Q 002565 512 WFRVVLDEAQTIKNH--------RTQVARACCSL--RAKRRWCLSGTP 549 (907)
Q Consensus 512 w~rVIlDEAH~IKN~--------~S~~~ka~~~L--~a~~R~~LTGTP 549 (907)
||+|||||+-.+-+. .......+..+ ++++.+++-||-
T Consensus 143 yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~lI~~ak~VI~~DA~l 190 (824)
T PF02399_consen 143 YDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKELIRNAKTVIVMDADL 190 (824)
T ss_pred cCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHHHHHhCCeEEEecCCC
Confidence 899999997554321 11112222222 688889998884
No 223
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=83.11 E-value=1.1 Score=49.16 Aligned_cols=48 Identities=21% Similarity=0.386 Sum_probs=46.1
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTD 901 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~d 901 (907)
..|||+..+...++|...+.+.|+.++.++..|.++.|.++..+|.+.
T Consensus 324 QsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G 371 (459)
T KOG0326|consen 324 QSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNG 371 (459)
T ss_pred ceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhcc
Confidence 679999999999999999999999999999999999999999999964
No 224
>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=83.05 E-value=0.58 Score=50.38 Aligned_cols=48 Identities=25% Similarity=0.644 Sum_probs=37.8
Q ss_pred cccccCC-----CCCCccccccCcccchhhhhhhccCCCCCCCCcccccccCccc
Q 002565 720 ICCVCSD-----PPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADV 769 (907)
Q Consensus 720 ~C~iC~d-----~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~ 769 (907)
.|+.|-. |.--..+.+|+|-.|..|+...+......|| .|...+..+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~Cp--eC~~iLRk~n 54 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCP--ECMVILRKNN 54 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCC--cccchhhhcc
Confidence 4777753 2233456699999999999999999999999 8988887664
No 225
>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=82.29 E-value=0.65 Score=47.14 Aligned_cols=17 Identities=18% Similarity=0.354 Sum_probs=13.0
Q ss_pred ccCCCcEEEecchhhcc
Q 002565 429 ELAKYDVVLTTYSIVTN 445 (907)
Q Consensus 429 ~l~~~dVVItTY~~l~~ 445 (907)
....+||||++|..+-.
T Consensus 116 ~~~~adivi~~y~yl~~ 132 (174)
T PF06733_consen 116 LAKNADIVICNYNYLFD 132 (174)
T ss_dssp CGGG-SEEEEETHHHHS
T ss_pred hcccCCEEEeCHHHHhh
Confidence 34678999999998875
No 226
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=81.55 E-value=1 Score=35.63 Aligned_cols=43 Identities=23% Similarity=0.739 Sum_probs=21.3
Q ss_pred ccccCCCCCC----ccccccCcccchhhhhhhccCCCCCCCCccccccc
Q 002565 721 CCVCSDPPED----SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQL 765 (907)
Q Consensus 721 C~iC~d~~e~----pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l 765 (907)
|++|.+..+. ..-=.|+..+|+.|........++.|| .||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CP--gCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCP--GCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-T--TT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCC--CCCCCC
Confidence 5677766522 122358999999999988877788999 688653
No 227
>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=80.68 E-value=5.3 Score=48.38 Aligned_cols=56 Identities=16% Similarity=0.106 Sum_probs=38.8
Q ss_pred cccccccEEEEccCccc----CCcchHHHHHHHhh---hcCceEEEeccCcccchhhhhhhHH
Q 002565 507 LAKVGWFRVVLDEAQTI----KNHRTQVARACCSL---RAKRRWCLSGTPIQNSIDDLYSYFR 562 (907)
Q Consensus 507 L~~~~w~rVIlDEAH~I----KN~~S~~~ka~~~L---~a~~R~~LTGTPiqN~l~EL~sll~ 562 (907)
|......+|++||...+ ++.......+-.+. ....++++..||.......++.++.
T Consensus 130 l~s~~~r~~~~DEvD~~p~~~~~eGdp~~la~~R~~tf~~~~K~~~~STPt~~~~~~I~~~~~ 192 (557)
T PF05876_consen 130 LRSRPARYLLLDEVDRYPDDVGGEGDPVELAEKRTKTFGSNRKILRISTPTIEGTSRIERLYE 192 (557)
T ss_pred cccCCcCEEEEechhhccccCccCCCHHHHHHHHHhhhccCcEEEEeCCCCCCCCCHHHHHHH
Confidence 66777889999999987 33444555554444 4568999999998775555555443
No 228
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=80.11 E-value=4.2 Score=46.35 Aligned_cols=105 Identities=19% Similarity=0.191 Sum_probs=66.2
Q ss_pred CeEEEeChh-hHHHH---HHHHHHhCCCCCCeEEE-EEeCCCCCCCcccc-CCCcEEEecchhhcccCCCCCCCchhHhh
Q 002565 386 GTLVVCPAS-VLRQW---ARELEDKVPDKAALSVL-IYHGGSRTKDPVEL-AKYDVVLTTYSIVTNEVPKQPSVDEEEAD 459 (907)
Q Consensus 386 ~tLIV~P~s-ll~qW---~~Ei~k~~~~~~~l~V~-v~~G~~r~~~~~~l-~~~dVVItTY~~l~~e~~~~~~~~~~~~~ 459 (907)
+.||+.|.. |..|= ..++.++. .++.. +|+|..-......+ ...||||.|-..+..-..+
T Consensus 92 RalilsptreLa~qtlkvvkdlgrgt----~lr~s~~~ggD~~eeqf~~l~~npDii~ATpgr~~h~~ve---------- 157 (529)
T KOG0337|consen 92 RALILSPTRELALQTLKVVKDLGRGT----KLRQSLLVGGDSIEEQFILLNENPDIIIATPGRLLHLGVE---------- 157 (529)
T ss_pred ceeeccCcHHHHHHHHHHHHHhcccc----chhhhhhcccchHHHHHHHhccCCCEEEecCceeeeeehh----------
Confidence 479999976 55554 44555543 46665 55555444444444 3789999998777542111
Q ss_pred hhcccccCCcchhhhhhhhhccccccccccCCCCCCCCCCcccCCCCcccccccEEEEccCcccCC--cchHHHHHHHhh
Q 002565 460 EKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKN--HRTQVARACCSL 537 (907)
Q Consensus 460 ~k~~~~~~~~~~f~~~~~~k~~~~~~kk~~~~~k~~~~~~~d~~~~~L~~~~w~rVIlDEAH~IKN--~~S~~~ka~~~L 537 (907)
-.|.--...+||+|||.+|-. ..-+..+.+.+|
T Consensus 158 ---------------------------------------------m~l~l~sveyVVfdEadrlfemgfqeql~e~l~rl 192 (529)
T KOG0337|consen 158 ---------------------------------------------MTLTLSSVEYVVFDEADRLFEMGFQEQLHEILSRL 192 (529)
T ss_pred ---------------------------------------------eeccccceeeeeehhhhHHHhhhhHHHHHHHHHhC
Confidence 002222345799999999843 456777778888
Q ss_pred h-cCceEEEeccC
Q 002565 538 R-AKRRWCLSGTP 549 (907)
Q Consensus 538 ~-a~~R~~LTGTP 549 (907)
. ..-.+++|||-
T Consensus 193 ~~~~QTllfSatl 205 (529)
T KOG0337|consen 193 PESRQTLLFSATL 205 (529)
T ss_pred CCcceEEEEeccC
Confidence 4 34689999994
No 229
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=79.96 E-value=3.4 Score=46.57 Aligned_cols=49 Identities=20% Similarity=0.453 Sum_probs=46.7
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp 902 (907)
.++||+.-..-++.|...|..+|+....++|.|.+.+|+.++++|++..
T Consensus 265 q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~gs 313 (397)
T KOG0327|consen 265 QAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGS 313 (397)
T ss_pred cceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcCC
Confidence 7899999999999999999999999999999999999999999999754
No 230
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=79.93 E-value=13 Score=46.76 Aligned_cols=41 Identities=39% Similarity=0.428 Sum_probs=30.1
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHh
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~ 320 (907)
.|-.-|++|+...+..+.-.+ |++- .|.|||-+...+|..+
T Consensus 669 ~LN~dQr~A~~k~L~aedy~L-----I~GM-PGTGKTTtI~~LIkiL 709 (1100)
T KOG1805|consen 669 RLNNDQRQALLKALAAEDYAL-----ILGM-PGTGKTTTISLLIKIL 709 (1100)
T ss_pred hcCHHHHHHHHHHHhccchhe-----eecC-CCCCchhhHHHHHHHH
Confidence 588999999988886655322 4543 6999998777777554
No 231
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.41 E-value=0.84 Score=52.44 Aligned_cols=52 Identities=31% Similarity=0.724 Sum_probs=39.3
Q ss_pred cccccccC-CCC---CCccccccCcccchhhhhhhcc-----CCCCCCCCcccccccCccc
Q 002565 718 SAICCVCS-DPP---EDSVVTMCGHVFCYQCASEYIT-----GDDNMCPAPRCKEQLGADV 769 (907)
Q Consensus 718 ~~~C~iC~-d~~---e~pvit~C~H~fC~~Ci~~~i~-----~~~~~CP~~~Cr~~l~~~~ 769 (907)
..+|.+|. +.+ ....+..|+|.||.+|+..++. +....||...|...+..+.
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~ 206 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLES 206 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHH
Confidence 56899999 333 2345788999999999999987 3356899888887776543
No 232
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.11 E-value=0.7 Score=49.06 Aligned_cols=52 Identities=31% Similarity=0.751 Sum_probs=38.1
Q ss_pred ccccccccCCCCC-----Ccc-----ccccCcccchhhhhhhc-cCCCCCCCCcccccccCcccc
Q 002565 717 SSAICCVCSDPPE-----DSV-----VTMCGHVFCYQCASEYI-TGDDNMCPAPRCKEQLGADVV 770 (907)
Q Consensus 717 ~~~~C~iC~d~~e-----~pv-----it~C~H~fC~~Ci~~~i-~~~~~~CP~~~Cr~~l~~~~~ 770 (907)
++..|.+|..... +.+ ...|.|+|-..||..+. .+...+|| .|++.+.....
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCP--YCKekVdl~rm 285 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCP--YCKEKVDLKRM 285 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCc--hHHHHhhHhhh
Confidence 4667999976542 233 35799999999999974 57778999 78877655443
No 233
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=78.34 E-value=0.98 Score=48.83 Aligned_cols=35 Identities=37% Similarity=0.873 Sum_probs=23.9
Q ss_pred cccccCCCCCC-ccccccCcccchhhhhhhccCCCCCCC
Q 002565 720 ICCVCSDPPED-SVVTMCGHVFCYQCASEYITGDDNMCP 757 (907)
Q Consensus 720 ~C~iC~d~~e~-pvit~C~H~fC~~Ci~~~i~~~~~~CP 757 (907)
-|..|.-+... .-+-+|.|+||++|.... .+..||
T Consensus 92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~---~dK~Cp 127 (389)
T KOG2932|consen 92 FCDRCDFPIAIYGRMIPCKHVFCLECARSD---SDKICP 127 (389)
T ss_pred eecccCCcceeeecccccchhhhhhhhhcC---ccccCc
Confidence 47777655432 345689999999998643 255677
No 234
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=78.01 E-value=10 Score=45.69 Aligned_cols=50 Identities=20% Similarity=0.269 Sum_probs=32.9
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhh-------hcC-ceEEEeccCcccchhhhhhhHHhh
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSL-------RAK-RRWCLSGTPIQNSIDDLYSYFRFL 564 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L-------~a~-~R~~LTGTPiqN~l~EL~sll~fL 564 (907)
.+++|||||||. +|-.+-.+..| +.. +.+++|||-=-..+.++|+-...+
T Consensus 163 kYsvIIlDEAHE----Rsl~TDiLlGlLKki~~~R~~LklIimSATlda~kfS~yF~~a~i~ 220 (674)
T KOG0922|consen 163 KYSVIILDEAHE----RSLHTDILLGLLKKILKKRPDLKLIIMSATLDAEKFSEYFNNAPIL 220 (674)
T ss_pred cccEEEEechhh----hhhHHHHHHHHHHHHHhcCCCceEEEEeeeecHHHHHHHhcCCceE
Confidence 478999999996 44444444333 333 557889998777777777664433
No 235
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=77.97 E-value=1.7 Score=38.71 Aligned_cols=32 Identities=25% Similarity=0.740 Sum_probs=25.8
Q ss_pred cccccCcccchhhhhhhccCC--CCCCCCccccccc
Q 002565 732 VVTMCGHVFCYQCASEYITGD--DNMCPAPRCKEQL 765 (907)
Q Consensus 732 vit~C~H~fC~~Ci~~~i~~~--~~~CP~~~Cr~~l 765 (907)
+...|+|.|-..||..++..+ ...|| -||+..
T Consensus 48 v~g~C~H~FH~hCI~kWl~~~~~~~~CP--mCR~~w 81 (85)
T PF12861_consen 48 VWGKCSHNFHMHCILKWLSTQSSKGQCP--MCRQPW 81 (85)
T ss_pred eeccCccHHHHHHHHHHHccccCCCCCC--CcCCee
Confidence 556799999999999999854 56899 477654
No 236
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=77.93 E-value=4.5 Score=45.58 Aligned_cols=41 Identities=24% Similarity=0.237 Sum_probs=29.3
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHH
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~ 319 (907)
+.--+|..|+.-++.-.-.- -.|.---|.|||+-|+|..+.
T Consensus 228 prn~eQ~~ALdlLld~dI~l-----V~L~G~AGtGKTlLALaAgle 268 (436)
T COG1875 228 PRNAEQRVALDLLLDDDIDL-----VSLGGKAGTGKTLLALAAGLE 268 (436)
T ss_pred cccHHHHHHHHHhcCCCCCe-----EEeeccCCccHhHHHHHHHHH
Confidence 35668999998887543321 245557899999999888764
No 237
>PF04641 Rtf2: Rtf2 RING-finger
Probab=76.95 E-value=1.8 Score=47.15 Aligned_cols=52 Identities=21% Similarity=0.443 Sum_probs=40.2
Q ss_pred ccccccccCCCCCC----ccccccCcccchhhhhhhccCCCCCCCCcccccccCcccccc
Q 002565 717 SSAICCVCSDPPED----SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFS 772 (907)
Q Consensus 717 ~~~~C~iC~d~~e~----pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~~ 772 (907)
....|+++...+.. -.+.+|||+||..|+.+.- ....|| .|..++...+++.
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp--~c~~~f~~~DiI~ 167 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCP--VCGKPFTEEDIIP 167 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--cccccc--ccCCccccCCEEE
Confidence 45679999877743 3578999999999999983 456799 6999888766553
No 238
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=76.59 E-value=6 Score=45.74 Aligned_cols=67 Identities=18% Similarity=0.246 Sum_probs=54.6
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhC--CCeEEEE
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH--CIQYRRL 882 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~--Gi~~~rL 882 (907)
..-|...|+++|.... ..|+|||=.--...+|-...|... .+..+-+
T Consensus 239 a~eK~~~lv~~L~~~~-------------------------------~kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~i 287 (567)
T KOG0345|consen 239 ADEKLSQLVHLLNNNK-------------------------------DKKCIVFFPTCASVEYFGKLFSRLLKKREIFSI 287 (567)
T ss_pred HHHHHHHHHHHHhccc-------------------------------cccEEEEecCcchHHHHHHHHHHHhCCCcEEEe
Confidence 3569999999997632 239999977777778877777654 7889999
Q ss_pred EccCCHHHHHHHHHHhcCCC
Q 002565 883 DGTMSLPARDRAVKDFNTDR 902 (907)
Q Consensus 883 dGsms~~~R~~~I~~F~~dp 902 (907)
||.|+.++|.++++.|.+.+
T Consensus 288 HGK~~q~~R~k~~~~F~~~~ 307 (567)
T KOG0345|consen 288 HGKMSQKARAKVLEAFRKLS 307 (567)
T ss_pred cchhcchhHHHHHHHHHhcc
Confidence 99999999999999999743
No 239
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=75.96 E-value=5.1 Score=49.01 Aligned_cols=20 Identities=25% Similarity=0.444 Sum_probs=17.8
Q ss_pred ceeecCCCCchHHHHHHHHH
Q 002565 299 GILADDQGLGKTISIIALIQ 318 (907)
Q Consensus 299 GILADeMGLGKTiqaIali~ 318 (907)
.|+|-+.|-|||-|.=-|+.
T Consensus 274 vIIcGeTGsGKTTQvPQFLY 293 (1172)
T KOG0926|consen 274 VIICGETGSGKTTQVPQFLY 293 (1172)
T ss_pred EEEecCCCCCccccchHHHH
Confidence 69999999999999977774
No 240
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=74.98 E-value=17 Score=45.37 Aligned_cols=64 Identities=14% Similarity=0.151 Sum_probs=46.1
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
.-.|+.++++.+......+. .|||-+-+...-++|...|.+.||+...|.-
T Consensus 411 ~~~K~~Aiv~~I~~~~~~gq-----------------------------PvLvgT~sie~SE~ls~~L~~~~i~h~VLNA 461 (822)
T COG0653 411 EEEKFKAIVEDIKERHEKGQ-----------------------------PVLVGTVSIEKSELLSKLLRKAGIPHNVLNA 461 (822)
T ss_pred hHHHHHHHHHHHHHHHhcCC-----------------------------CEEEcCcceecchhHHHHHHhcCCCceeecc
Confidence 35677787777777766655 7888888888888888888888888877777
Q ss_pred cCCHHHHHHHHHHhc
Q 002565 885 TMSLPARDRAVKDFN 899 (907)
Q Consensus 885 sms~~~R~~~I~~F~ 899 (907)
.-. .|++-|-++.
T Consensus 462 k~h--~~EA~Iia~A 474 (822)
T COG0653 462 KNH--AREAEIIAQA 474 (822)
T ss_pred ccH--HHHHHHHhhc
Confidence 654 4444444443
No 241
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.62 E-value=1.2 Score=49.50 Aligned_cols=44 Identities=34% Similarity=0.882 Sum_probs=32.5
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhccCCCCCCCCcccccccC
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLG 766 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~ 766 (907)
....|.+|.+.+.+.+.-+|||+.| |...... -.+||+ ||..|.
T Consensus 304 ~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~--l~~CPv--CR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH--LPQCPV--CRQRIR 347 (355)
T ss_pred CCCceEEecCCccceeeecCCcEEE--chHHHhh--CCCCch--hHHHHH
Confidence 4567999999999999999999988 5543322 235994 776653
No 242
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=74.55 E-value=6.3 Score=49.65 Aligned_cols=57 Identities=23% Similarity=0.304 Sum_probs=34.8
Q ss_pred eEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCC-CCCCccccC-CCcEEEecchhhc
Q 002565 387 TLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGS-RTKDPVELA-KYDVVLTTYSIVT 444 (907)
Q Consensus 387 tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~-r~~~~~~l~-~~dVVItTY~~l~ 444 (907)
.|||||.- +..|-.+++.++... ..++++..+|.. .......+. ..+|||+|.+..-
T Consensus 441 ~li~aPtrela~QI~r~~~kf~k~-l~ir~v~vygg~~~~~qiaelkRg~eIvV~tpGRmi 500 (997)
T KOG0334|consen 441 ALILAPTRELAMQIHREVRKFLKL-LGIRVVCVYGGSGISQQIAELKRGAEIVVCTPGRMI 500 (997)
T ss_pred EEEEcCCHHHHHHHHHHHHHHHhh-cCceEEEecCCccHHHHHHHHhcCCceEEeccchhh
Confidence 69999975 777766666665443 356666555554 333333332 3778888876553
No 243
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=74.54 E-value=5.4 Score=45.41 Aligned_cols=48 Identities=23% Similarity=0.284 Sum_probs=44.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhCC---CeEEEEEccCCHHHHHHHHHHhcC
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHC---IQYRRLDGTMSLPARDRAVKDFNT 900 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~G---i~~~rLdGsms~~~R~~~I~~F~~ 900 (907)
.|+|||+.-..--|-|++++.+.| +.++.++|...+.+|.+-++.|..
T Consensus 506 dkaiifcrtk~dcDnLer~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk 556 (725)
T KOG0349|consen 506 DKAIIFCRTKQDCDNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKK 556 (725)
T ss_pred CceEEEEeccccchHHHHHHHHcCCccceeEEEecCCChhHHHHHHHhhhh
Confidence 499999999999999999998874 678999999999999999999985
No 244
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.81 E-value=2.2 Score=50.21 Aligned_cols=54 Identities=30% Similarity=0.722 Sum_probs=43.5
Q ss_pred ccccccccCCCCCC-ccccccCcccchhhhhhhccCC-----C--CCCCCcccccccCcccc
Q 002565 717 SSAICCVCSDPPED-SVVTMCGHVFCYQCASEYITGD-----D--NMCPAPRCKEQLGADVV 770 (907)
Q Consensus 717 ~~~~C~iC~d~~e~-pvit~C~H~fC~~Ci~~~i~~~-----~--~~CP~~~Cr~~l~~~~~ 770 (907)
....|.||.+.... .+...|+|.||..|...|++.. . -+||...|...+..+.+
T Consensus 69 ~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i 130 (444)
T KOG1815|consen 69 GDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTV 130 (444)
T ss_pred ccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCcee
Confidence 45789999998875 7777999999999999998732 1 26899999988876644
No 245
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=72.52 E-value=2.6 Score=39.96 Aligned_cols=35 Identities=29% Similarity=0.357 Sum_probs=27.0
Q ss_pred cEEEEccCcccCCcchHHHHHHHhh--hcCceEEEeccC
Q 002565 513 FRVVLDEAQTIKNHRTQVARACCSL--RAKRRWCLSGTP 549 (907)
Q Consensus 513 ~rVIlDEAH~IKN~~S~~~ka~~~L--~a~~R~~LTGTP 549 (907)
.+|||||+|.+. +......++.+ .....++|.|||
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 579999999984 25555566666 666789999999
No 246
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=72.51 E-value=2.3 Score=52.89 Aligned_cols=43 Identities=19% Similarity=0.252 Sum_probs=28.0
Q ss_pred eEEEEecchhhHHHHHHHHHh-CCCeEEEEEccCCHHHHHHHHHHhcC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQ-HCIQYRRLDGTMSLPARDRAVKDFNT 900 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~-~Gi~~~rLdGsms~~~R~~~I~~F~~ 900 (907)
.+|||-..-.+|+.+...|.. .++. +...|. ..|.+++++|.+
T Consensus 536 g~LVlFtSy~~l~~v~~~l~~~~~~~-ll~Q~~---~~~~~ll~~f~~ 579 (697)
T PRK11747 536 GSLVLFASRRQMQKVADLLPRDLRLM-LLVQGD---QPRQRLLEKHKK 579 (697)
T ss_pred CEEEEeCcHHHHHHHHHHHHHhcCCc-EEEeCC---chHHHHHHHHHH
Confidence 556665555677788888764 3443 444664 357889988874
No 247
>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=72.03 E-value=17 Score=38.79 Aligned_cols=111 Identities=14% Similarity=0.130 Sum_probs=69.9
Q ss_pred cccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCc
Q 002565 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNA 351 (907)
Q Consensus 272 ~~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (907)
.+-+|+-|.+-+..|.+.. .+.+.++=--||-|||-..+=++......
T Consensus 21 ~iliR~~Q~~ia~~mi~~~----~~~n~v~QlnMGeGKTsVI~Pmla~~LAd---------------------------- 68 (229)
T PF12340_consen 21 NILIRPVQVEIAREMISPP----SGKNSVMQLNMGEGKTSVIVPMLALALAD---------------------------- 68 (229)
T ss_pred CceeeHHHHHHHHHHhCCC----CCCCeEeeecccCCccchHHHHHHHHHcC----------------------------
Confidence 3468999999998898532 23557888999999997665554432211
Q ss_pred CcccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChhhHHHHHHHHHHhCCCCCCeEEEEEeCCCCCC-Ccc--
Q 002565 352 GLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTK-DPV-- 428 (907)
Q Consensus 352 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~-~~~-- 428 (907)
..+=+-||||..++.|=.+-+...+..-..-+|+.+.=+.... +..
T Consensus 69 -------------------------------g~~LvrviVpk~Ll~q~~~~L~~~lg~l~~r~i~~lpFsR~~~~~~~~~ 117 (229)
T PF12340_consen 69 -------------------------------GSRLVRVIVPKALLEQMRQMLRSRLGGLLNRRIYHLPFSRSTPLTPETL 117 (229)
T ss_pred -------------------------------CCcEEEEEcCHHHHHHHHHHHHHHHHHHhCCeeEEecccCCCCCCHHHH
Confidence 0112679999999999988888776532222333332222221 111
Q ss_pred ---------ccCCCcEEEecchhhcc
Q 002565 429 ---------ELAKYDVVLTTYSIVTN 445 (907)
Q Consensus 429 ---------~l~~~dVVItTY~~l~~ 445 (907)
......|||++.+-+.+
T Consensus 118 ~~~~~l~~~~~~~~gill~~PEhilS 143 (229)
T PF12340_consen 118 EKIRQLLEECMRSGGILLATPEHILS 143 (229)
T ss_pred HHHHHHHHHHHHcCCEEEeChHHHHH
Confidence 11466799998876654
No 248
>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=71.79 E-value=11 Score=43.02 Aligned_cols=100 Identities=15% Similarity=0.224 Sum_probs=66.5
Q ss_pred HHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcCccccc
Q 002565 278 HQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGLDKVK 357 (907)
Q Consensus 278 hQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k 357 (907)
||.+++.-|.+.... -.+++=..|-|||..++..++..
T Consensus 1 hQ~~~~~~~~~~~~~-----~~~i~apTGsGKT~~~~~~~l~~------------------------------------- 38 (357)
T TIGR03158 1 HQVATFEALQSKDAD-----IIFNTAPTGAGKTLAWLTPLLHG------------------------------------- 38 (357)
T ss_pred CHHHHHHHHHcCCCC-----EEEEECCCCCCHHHHHHHHHHHc-------------------------------------
Confidence 899999888854321 13678899999999776555410
Q ss_pred ccCCCCCCCCCCCcccccccccCCCCCCCeEEEeCh-hhHHHHHHHHHHhCC---CCCCeEEEEEeCCCCCC--------
Q 002565 358 ETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVP---DKAALSVLIYHGGSRTK-------- 425 (907)
Q Consensus 358 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sll~qW~~Ei~k~~~---~~~~l~V~v~~G~~r~~-------- 425 (907)
..++++|+|. +|+.+|.+.+.+++. ......+..+.|.....
T Consensus 39 --------------------------~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v~~~~g~~~~d~~~~~~~~ 92 (357)
T TIGR03158 39 --------------------------ENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNLLHVSKATLKDIKEYANDK 92 (357)
T ss_pred --------------------------CCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceEEEecCCchHHHHHhhhhh
Confidence 1237999995 588999888888762 11257788888862110
Q ss_pred ----C----------ccccCCCcEEEecchhhcc
Q 002565 426 ----D----------PVELAKYDVVLTTYSIVTN 445 (907)
Q Consensus 426 ----~----------~~~l~~~dVVItTY~~l~~ 445 (907)
. .......++++|+++++..
T Consensus 93 ~~~~~g~~~~~~~r~~~~~~~p~illT~p~~l~~ 126 (357)
T TIGR03158 93 VGSSKGEKLYNLLRNPIGTSTPIILLTNPDIFVY 126 (357)
T ss_pred cccCccchhhhhHHHHHhcCCCCEEEecHHHHHH
Confidence 0 0012357889999988863
No 249
>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=70.93 E-value=8.4 Score=41.76 Aligned_cols=20 Identities=30% Similarity=0.288 Sum_probs=16.0
Q ss_pred ceeecCCCCchHHHHHHHHH
Q 002565 299 GILADDQGLGKTISIIALIQ 318 (907)
Q Consensus 299 GILADeMGLGKTiqaIali~ 318 (907)
-||.=..|.|||..|-++..
T Consensus 45 vll~GppGtGKTtlA~~ia~ 64 (261)
T TIGR02881 45 MIFKGNPGTGKTTVARILGK 64 (261)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 37888999999988866654
No 250
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=67.85 E-value=6.7 Score=44.97 Aligned_cols=48 Identities=21% Similarity=0.233 Sum_probs=44.9
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTD 901 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~d 901 (907)
|+|||-.-.+.---|.-+|++-||+.+.|.|.+|...|.-+|++||..
T Consensus 270 KsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG 317 (569)
T KOG0346|consen 270 KSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKG 317 (569)
T ss_pred ceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCc
Confidence 999998888888888899999999999999999999999999999964
No 251
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=67.65 E-value=4.9 Score=47.27 Aligned_cols=52 Identities=17% Similarity=0.159 Sum_probs=49.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCc
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREV 904 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v 904 (907)
-+.|||+...+-+.-|.-.|+..+|+.+-||..|.+++|-+.+++|.+.++.
T Consensus 464 GrTlVF~NsId~vKRLt~~L~~L~i~p~~LHA~M~QKqRLknLEkF~~~~~~ 515 (731)
T KOG0347|consen 464 GRTLVFCNSIDCVKRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFKQSPSG 515 (731)
T ss_pred CceEEEechHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHhHHHHhcCCCe
Confidence 3899999999999999999999999999999999999999999999988754
No 252
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=67.44 E-value=7 Score=41.69 Aligned_cols=60 Identities=23% Similarity=0.283 Sum_probs=41.6
Q ss_pred CeEEEeChh-hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCC-CccccCC-CcEEEecchhhcc
Q 002565 386 GTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTK-DPVELAK-YDVVLTTYSIVTN 445 (907)
Q Consensus 386 ~tLIV~P~s-ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~-~~~~l~~-~dVVItTY~~l~~ 445 (907)
.+||+|-+. |..|-.+|..+|..--...+|-+|.|+-..+ +...+.+ ..||+-|.+.+..
T Consensus 112 svlvmchtrelafqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~~PhivVgTPGrilA 174 (387)
T KOG0329|consen 112 SVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKNCPHIVVGTPGRILA 174 (387)
T ss_pred EEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEEcceeccccHHHHhCCCeEEEcCcHHHHH
Confidence 389999876 8899999988764322378999999886554 3334443 4577777776654
No 253
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=67.20 E-value=21 Score=44.10 Aligned_cols=25 Identities=24% Similarity=0.357 Sum_probs=21.5
Q ss_pred CCeEEEeChh-hHHHHHHHHHHhCCC
Q 002565 385 AGTLVVCPAS-VLRQWARELEDKVPD 409 (907)
Q Consensus 385 ~~tLIV~P~s-ll~qW~~Ei~k~~~~ 409 (907)
+++|||+|.- +..||.+|++.|+++
T Consensus 55 ~p~Lvi~~n~~~A~ql~~el~~f~p~ 80 (655)
T TIGR00631 55 RPTLVIAHNKTLAAQLYNEFKEFFPE 80 (655)
T ss_pred CCEEEEECCHHHHHHHHHHHHHhCCC
Confidence 4599999964 778999999999985
No 254
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.57 E-value=3.2 Score=46.41 Aligned_cols=46 Identities=35% Similarity=0.831 Sum_probs=33.6
Q ss_pred cccccccCCCC----CCccccccCcccchhhhhhhccCCCC--CCCCccccccc
Q 002565 718 SAICCVCSDPP----EDSVVTMCGHVFCYQCASEYITGDDN--MCPAPRCKEQL 765 (907)
Q Consensus 718 ~~~C~iC~d~~----e~pvit~C~H~fC~~Ci~~~i~~~~~--~CP~~~Cr~~l 765 (907)
.++|.||.|-- +-..+..|||+|-..|+..++.++.. .||. |+-.+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpi--c~ik~ 55 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPI--CQIKL 55 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCc--eeecc
Confidence 46899997642 22456669999999999999987754 7885 55333
No 255
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=64.70 E-value=5 Score=48.39 Aligned_cols=32 Identities=19% Similarity=0.289 Sum_probs=24.2
Q ss_pred CCCeEEEEEeCCCCCCCccccCCCcEEEecchhhccc
Q 002565 410 KAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNE 446 (907)
Q Consensus 410 ~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l~~e 446 (907)
+..+++.-|+|+.+. ...+++|+..|..|-.+
T Consensus 306 Gk~~~~CPYY~SR~a-----vp~aqlV~LPYQ~LL~~ 337 (821)
T KOG1133|consen 306 GKELRGCPYYASRRA-----VPQAQLVTLPYQLLLHE 337 (821)
T ss_pred hhhcCCCCchhhhhc-----cccccEEeccHHHHHhH
Confidence 345777788887654 45789999999999754
No 256
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.23 E-value=1.9 Score=46.48 Aligned_cols=41 Identities=37% Similarity=1.068 Sum_probs=32.4
Q ss_pred cccccccCCCCCCccccccCccc-chhhhhhhccCCCCCCCCccccccc
Q 002565 718 SAICCVCSDPPEDSVVTMCGHVF-CYQCASEYITGDDNMCPAPRCKEQL 765 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~f-C~~Ci~~~i~~~~~~CP~~~Cr~~l 765 (907)
...|.||+|.|.+=+...|||.. |..|-... +.||+ ||+-+
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm-----~eCPI--CRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM-----NECPI--CRQYI 341 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhcccc-----ccCch--HHHHH
Confidence 45699999999999999999975 88886542 37884 77654
No 257
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=63.44 E-value=16 Score=39.17 Aligned_cols=48 Identities=21% Similarity=0.434 Sum_probs=38.9
Q ss_pred ccccccccCCCCCCccc-cccCcccchhhhhhhccCC-CCCCCCcccccc
Q 002565 717 SSAICCVCSDPPEDSVV-TMCGHVFCYQCASEYITGD-DNMCPAPRCKEQ 764 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvi-t~C~H~fC~~Ci~~~i~~~-~~~CP~~~Cr~~ 764 (907)
-+..|++-..+...|++ +.|+|+|-++-+..++... .-.||+..|..+
T Consensus 175 fs~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~~~ 224 (262)
T KOG2979|consen 175 FSNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCENP 224 (262)
T ss_pred hcccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCCcc
Confidence 35678888888888876 5799999999999998764 348999999844
No 258
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=62.93 E-value=7.6 Score=46.05 Aligned_cols=61 Identities=16% Similarity=0.236 Sum_probs=36.7
Q ss_pred CeEEEeCh-hhHHHHHHHHHHhCC-CCCCeEEEEEeCCCCCC---CccccCCCcEEEecchhhccc
Q 002565 386 GTLVVCPA-SVLRQWARELEDKVP-DKAALSVLIYHGGSRTK---DPVELAKYDVVLTTYSIVTNE 446 (907)
Q Consensus 386 ~tLIV~P~-sll~qW~~Ei~k~~~-~~~~l~V~v~~G~~r~~---~~~~l~~~dVVItTY~~l~~e 446 (907)
..+||.|. .|+.|-.+|+.+..- ++..+++..+....... ....-..||+.|.|...+...
T Consensus 211 ~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~qk~a~~~~~k~dili~TP~ri~~~ 276 (593)
T KOG0344|consen 211 RALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPAYPSQKPAFLSDEKYDILISTPMRIVGL 276 (593)
T ss_pred EEEEecchHHHHHHHHHHHHhcCCCCCCchhhhhcccccchhhccchhHHHHHHHHhcCHHHHHHH
Confidence 47999996 588999999988651 22244444444332111 112234688888887666543
No 259
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=62.77 E-value=22 Score=44.34 Aligned_cols=57 Identities=16% Similarity=0.139 Sum_probs=34.2
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhh---hcCceEEEeccCcccchhhhhhhHHhhccCCC
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSL---RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPY 569 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L---~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~ 569 (907)
+|.++||||+|++.+.. ....++.| ....+++|+.|=.+.=+.-|-|-+..++...+
T Consensus 119 r~KVIIIDEah~LT~~A--~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~L 178 (830)
T PRK07003 119 RFKVYMIDEVHMLTNHA--FNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQM 178 (830)
T ss_pred CceEEEEeChhhCCHHH--HHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCc
Confidence 47789999999995422 22233444 34568888888655544455555444444443
No 260
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=61.88 E-value=4.1 Score=51.69 Aligned_cols=65 Identities=29% Similarity=0.323 Sum_probs=42.8
Q ss_pred cccccc---cEEEEccCcccCCcc---------hHHHHHHHhhhcC--------ceEEEeccCcccchhhhhhhHHhhcc
Q 002565 507 LAKVGW---FRVVLDEAQTIKNHR---------TQVARACCSLRAK--------RRWCLSGTPIQNSIDDLYSYFRFLKY 566 (907)
Q Consensus 507 L~~~~w---~rVIlDEAH~IKN~~---------S~~~ka~~~L~a~--------~R~~LTGTPiqN~l~EL~sll~fL~p 566 (907)
+....| +.+++||+|.+.+.. ...+.....+... ....+++||......+++...+++.+
T Consensus 205 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 284 (866)
T COG0553 205 LLEAEWGERDLLVIDEAHNLGSSEGTRKLAPLETLEYELLKQLAEKIPSKLLDLKVLLLSATPEQLKEEDLFARLRLLDP 284 (866)
T ss_pred hhcccccchhhhhcchHhhcccccccccccchhhhHHHHHHHHhhcccccccccchhhhccchhhccccccchhhhhccc
Confidence 344456 789999999997742 3333444333211 23478999999998888887777776
Q ss_pred CCCCc
Q 002565 567 DPYAV 571 (907)
Q Consensus 567 ~~~~~ 571 (907)
..+..
T Consensus 285 ~~~~~ 289 (866)
T COG0553 285 LRLAD 289 (866)
T ss_pred cchhh
Confidence 55544
No 261
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=61.73 E-value=14 Score=47.29 Aligned_cols=58 Identities=14% Similarity=0.123 Sum_probs=39.3
Q ss_pred ccEEEEccCcccCCcch---HHHHHHHhh----hcCceEEEeccCcccchhhhhhhHHhhccCCC
Q 002565 512 WFRVVLDEAQTIKNHRT---QVARACCSL----RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPY 569 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S---~~~ka~~~L----~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~ 569 (907)
..++|+||||-+....- .-++-+..| ...--++||+|=-..--.|+...|++-++..+
T Consensus 386 lal~vIDEAHCVSqWgHdFRp~Yk~l~~l~~~~~~vP~iALTATAT~~v~~DIi~~L~l~~~~~~ 450 (941)
T KOG0351|consen 386 LALFVIDEAHCVSQWGHDFRPSYKRLGLLRIRFPGVPFIALTATATERVREDVIRSLGLRNPELF 450 (941)
T ss_pred eEEEEecHHHHhhhhcccccHHHHHHHHHHhhCCCCCeEEeehhccHHHHHHHHHHhCCCCccee
Confidence 46799999998855321 123333333 22346899999888888888888887776654
No 262
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=60.73 E-value=1.5 Score=52.73 Aligned_cols=49 Identities=22% Similarity=0.478 Sum_probs=32.2
Q ss_pred ccccccCCCCCCc-c--ccccCcccchhhhhhhccCCCCCCCCcccccccCcccc
Q 002565 719 AICCVCSDPPEDS-V--VTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVV 770 (907)
Q Consensus 719 ~~C~iC~d~~e~p-v--it~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~ 770 (907)
..|++|.....+- + ...|+|+||..|+..+.. ...+|| .|+..+..-.+
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR-~aqTCP--iDR~EF~~v~V 175 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSR-CAQTCP--VDRGEFGEVKV 175 (1134)
T ss_pred hhhhHHHHHHHHHhhccccccccccHHHHhhhhhh-hcccCc--hhhhhhheeee
Confidence 4577776544332 2 246999999999987743 456898 57776655443
No 263
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=60.69 E-value=34 Score=43.27 Aligned_cols=20 Identities=25% Similarity=0.434 Sum_probs=17.1
Q ss_pred ceeecCCCCchHHHHHHHHH
Q 002565 299 GILADDQGLGKTISIIALIQ 318 (907)
Q Consensus 299 GILADeMGLGKTiqaIali~ 318 (907)
.||.=+.|-|||-|.=-+++
T Consensus 68 vii~getGsGKTTqlP~~ll 87 (845)
T COG1643 68 VIIVGETGSGKTTQLPQFLL 87 (845)
T ss_pred EEEeCCCCCChHHHHHHHHH
Confidence 59999999999998866665
No 264
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=59.59 E-value=39 Score=41.46 Aligned_cols=19 Identities=21% Similarity=0.295 Sum_probs=16.4
Q ss_pred cccccccEEEEccCcccCC
Q 002565 507 LAKVGWFRVVLDEAQTIKN 525 (907)
Q Consensus 507 L~~~~w~rVIlDEAH~IKN 525 (907)
+....+++||+||||.|+.
T Consensus 348 iRGqtfDLLIVDEAqFIk~ 366 (738)
T PHA03368 348 IRGQDFNLLFVDEANFIRP 366 (738)
T ss_pred ccCCcccEEEEechhhCCH
Confidence 5566899999999999975
No 265
>PRK09694 helicase Cas3; Provisional
Probab=58.66 E-value=29 Score=44.27 Aligned_cols=46 Identities=11% Similarity=0.239 Sum_probs=41.2
Q ss_pred eEEEEecchhhHHHHHHHHHhCC---CeEEEEEccCCHHHH----HHHHHHhc
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHC---IQYRRLDGTMSLPAR----DRAVKDFN 899 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~G---i~~~rLdGsms~~~R----~~~I~~F~ 899 (907)
+||||+.-......+...|++.+ +.+..++|.++..+| .++++.|.
T Consensus 562 ~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llHsrf~~~dR~~~E~~vl~~fg 614 (878)
T PRK09694 562 QVCLICNLVDDAQKLYQRLKELNNTQVDIDLFHARFTLNDRREKEQRVIENFG 614 (878)
T ss_pred EEEEEECCHHHHHHHHHHHHhhCCCCceEEEEeCCCCHHHHHHHHHHHHHHHH
Confidence 89999999999999999998765 689999999999999 56889994
No 266
>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=57.82 E-value=58 Score=33.97 Aligned_cols=38 Identities=18% Similarity=0.265 Sum_probs=23.6
Q ss_pred EEEEccCcccCCcc---hHHHHHHHhh-hcCceEEEeccCcc
Q 002565 514 RVVLDEAQTIKNHR---TQVARACCSL-RAKRRWCLSGTPIQ 551 (907)
Q Consensus 514 rVIlDEAH~IKN~~---S~~~ka~~~L-~a~~R~~LTGTPiq 551 (907)
+|||||+|.+.... ......+..+ ....++++|+|...
T Consensus 93 lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~ 134 (226)
T TIGR03420 93 LVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAP 134 (226)
T ss_pred EEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCCh
Confidence 69999999986532 2233333333 23467888888543
No 267
>PHA03096 p28-like protein; Provisional
Probab=57.21 E-value=4.3 Score=44.63 Aligned_cols=34 Identities=21% Similarity=0.478 Sum_probs=27.3
Q ss_pred ccccccCCCCC--------CccccccCcccchhhhhhhccCC
Q 002565 719 AICCVCSDPPE--------DSVVTMCGHVFCYQCASEYITGD 752 (907)
Q Consensus 719 ~~C~iC~d~~e--------~pvit~C~H~fC~~Ci~~~i~~~ 752 (907)
.+|+||++... -.++..|-|.||..|+..+.+..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~ 220 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTES 220 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhh
Confidence 68999998753 23677899999999999887644
No 268
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=57.03 E-value=4.5 Score=46.21 Aligned_cols=38 Identities=29% Similarity=0.752 Sum_probs=29.9
Q ss_pred cccccccCCCCCCcc---c-cccCcccchhhhhhhccCCCCCCCC
Q 002565 718 SAICCVCSDPPEDSV---V-TMCGHVFCYQCASEYITGDDNMCPA 758 (907)
Q Consensus 718 ~~~C~iC~d~~e~pv---i-t~C~H~fC~~Ci~~~i~~~~~~CP~ 758 (907)
...|++|.+.++..+ + +.|.|.|-..|+..+- +..||+
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~---~~scpv 216 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW---DSSCPV 216 (493)
T ss_pred CCCcchhHhhcCccccceeeeecccccchHHHhhcc---cCcChh
Confidence 567999999887654 3 5799999999998763 457874
No 269
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.09 E-value=8.8 Score=47.24 Aligned_cols=39 Identities=26% Similarity=0.813 Sum_probs=32.4
Q ss_pred ccccccCCCCCCccc-cccCcccchhhhhhhccCCCCCCCCccccc
Q 002565 719 AICCVCSDPPEDSVV-TMCGHVFCYQCASEYITGDDNMCPAPRCKE 763 (907)
Q Consensus 719 ~~C~iC~d~~e~pvi-t~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~ 763 (907)
..|..|.-+.+-|++ ..|||.|-..|++ ..+.+|| .|..
T Consensus 841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e----~~~~~CP--~C~~ 880 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE----DKEDKCP--KCLP 880 (933)
T ss_pred eeecccCCccccceeeeecccHHHHHhhc----cCcccCC--ccch
Confidence 379999999999876 5799999999998 3456899 6765
No 270
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=55.88 E-value=17 Score=41.90 Aligned_cols=58 Identities=12% Similarity=0.186 Sum_probs=35.5
Q ss_pred eEEEeChh-hHHHHHHHHHHh---CCCCCCeEEEEEeCCC-CCCC-ccccCCCcEEEecchhhccc
Q 002565 387 TLVVCPAS-VLRQWARELEDK---VPDKAALSVLIYHGGS-RTKD-PVELAKYDVVLTTYSIVTNE 446 (907)
Q Consensus 387 tLIV~P~s-ll~qW~~Ei~k~---~~~~~~l~V~v~~G~~-r~~~-~~~l~~~dVVItTY~~l~~e 446 (907)
.+|+||.- |..|-...|++. |+. .++++-+.... .... .......||||+|...+-..
T Consensus 96 a~iLvPTkEL~qQvy~viekL~~~c~k--~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~ 159 (569)
T KOG0346|consen 96 AVILVPTKELAQQVYKVIEKLVEYCSK--DLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRH 159 (569)
T ss_pred eEEEechHHHHHHHHHHHHHHHHHHHH--hhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHH
Confidence 69999975 788888877764 332 34554444221 1111 22335689999999877654
No 271
>PRK04195 replication factor C large subunit; Provisional
Probab=55.66 E-value=96 Score=36.92 Aligned_cols=22 Identities=32% Similarity=0.273 Sum_probs=17.7
Q ss_pred cCceeecCCCCchHHHHHHHHH
Q 002565 297 LGGILADDQGLGKTISIIALIQ 318 (907)
Q Consensus 297 ~GGILADeMGLGKTiqaIali~ 318 (907)
+..||.=..|.|||..+-+++.
T Consensus 40 ~~lLL~GppG~GKTtla~ala~ 61 (482)
T PRK04195 40 KALLLYGPPGVGKTSLAHALAN 61 (482)
T ss_pred CeEEEECCCCCCHHHHHHHHHH
Confidence 4578888999999988776653
No 272
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=55.29 E-value=30 Score=41.24 Aligned_cols=66 Identities=15% Similarity=0.202 Sum_probs=55.8
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHH-HhCCCeEEEEE
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSL-NQHCIQYRRLD 883 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L-~~~Gi~~~rLd 883 (907)
...|+-++++++..-.+ + -+|||-|...-..-|-..| .-.+|..-.++
T Consensus 371 e~~K~lA~rq~v~~g~~--P-----------------------------P~lIfVQs~eRak~L~~~L~~~~~i~v~vIh 419 (593)
T KOG0344|consen 371 EKGKLLALRQLVASGFK--P-----------------------------PVLIFVQSKERAKQLFEELEIYDNINVDVIH 419 (593)
T ss_pred chhHHHHHHHHHhccCC--C-----------------------------CeEEEEecHHHHHHHHHHhhhccCcceeeEe
Confidence 35789999988876422 2 6899999988888888888 66799999999
Q ss_pred ccCCHHHHHHHHHHhcCC
Q 002565 884 GTMSLPARDRAVKDFNTD 901 (907)
Q Consensus 884 Gsms~~~R~~~I~~F~~d 901 (907)
|.-++.+|+..+++|+..
T Consensus 420 ~e~~~~qrde~~~~FR~g 437 (593)
T KOG0344|consen 420 GERSQKQRDETMERFRIG 437 (593)
T ss_pred cccchhHHHHHHHHHhcc
Confidence 999999999999999954
No 273
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.02 E-value=6.9 Score=43.26 Aligned_cols=45 Identities=31% Similarity=0.769 Sum_probs=36.7
Q ss_pred ccccccCCCC------CCccccccCcccchhhhhhhccCCCCCCCCccccccc
Q 002565 719 AICCVCSDPP------EDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQL 765 (907)
Q Consensus 719 ~~C~iC~d~~------e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l 765 (907)
..|.||.+.. ..|-+..|||.+|..|+...+......|| .||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cp--fcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCP--FCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeecc--CCCCcc
Confidence 4689998654 34667779999999999999988888896 788774
No 274
>PF13245 AAA_19: Part of AAA domain
Probab=53.60 E-value=27 Score=30.41 Aligned_cols=22 Identities=27% Similarity=0.344 Sum_probs=16.6
Q ss_pred eeecCCCCchHHHHHHHHHHhh
Q 002565 300 ILADDQGLGKTISIIALIQMQR 321 (907)
Q Consensus 300 ILADeMGLGKTiqaIali~~~~ 321 (907)
++-=-.|-|||-+++.++....
T Consensus 14 vv~g~pGtGKT~~~~~~i~~l~ 35 (76)
T PF13245_consen 14 VVQGPPGTGKTTTLAARIAELL 35 (76)
T ss_pred EEECCCCCCHHHHHHHHHHHHH
Confidence 4455789999988888887553
No 275
>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=53.24 E-value=8.1 Score=30.78 Aligned_cols=39 Identities=26% Similarity=0.687 Sum_probs=30.5
Q ss_pred cccccCC--CCCCccccccC-----cccchhhhhhhccCC-CCCCCC
Q 002565 720 ICCVCSD--PPEDSVVTMCG-----HVFCYQCASEYITGD-DNMCPA 758 (907)
Q Consensus 720 ~C~iC~d--~~e~pvit~C~-----H~fC~~Ci~~~i~~~-~~~CP~ 758 (907)
.|.||.+ ..+++.+.+|. |.+-..|+..++... ...||.
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~i 47 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEI 47 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCC
Confidence 4889986 55678899984 889999999998654 457884
No 276
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=52.43 E-value=40 Score=42.56 Aligned_cols=57 Identities=16% Similarity=0.113 Sum_probs=32.7
Q ss_pred CeEEEeChhhHHHH-HHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecchhhcc
Q 002565 386 GTLVVCPASVLRQW-ARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTN 445 (907)
Q Consensus 386 ~tLIV~P~sll~qW-~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l~~ 445 (907)
..|.|.|--.+.|= ..++..+ ..+..+.|--|.|.-. ......+-+|.|.|.+.--.
T Consensus 271 ~~llilp~vsiv~Ek~~~l~~~-~~~~G~~ve~y~g~~~--p~~~~k~~sv~i~tiEkans 328 (1008)
T KOG0950|consen 271 NVLLILPYVSIVQEKISALSPF-SIDLGFPVEEYAGRFP--PEKRRKRESVAIATIEKANS 328 (1008)
T ss_pred ceeEecceeehhHHHHhhhhhh-ccccCCcchhhcccCC--CCCcccceeeeeeehHhhHh
Confidence 47888885544443 3444443 3344677777885432 22334556788888765544
No 277
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=52.24 E-value=61 Score=39.55 Aligned_cols=20 Identities=20% Similarity=0.414 Sum_probs=16.4
Q ss_pred ceeecCCCCchHHHHHHHHH
Q 002565 299 GILADDQGLGKTISIIALIQ 318 (907)
Q Consensus 299 GILADeMGLGKTiqaIali~ 318 (907)
-|+--|.|-|||-|.--+++
T Consensus 374 vvivgETGSGKTTQl~QyL~ 393 (1042)
T KOG0924|consen 374 VVIVGETGSGKTTQLAQYLY 393 (1042)
T ss_pred EEEEecCCCCchhhhHHHHH
Confidence 47888999999999866664
No 278
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=52.08 E-value=45 Score=40.39 Aligned_cols=19 Identities=26% Similarity=0.429 Sum_probs=16.4
Q ss_pred cccccccEEEEccCcccCC
Q 002565 507 LAKVGWFRVVLDEAQTIKN 525 (907)
Q Consensus 507 L~~~~w~rVIlDEAH~IKN 525 (907)
+....|++|++||||.||.
T Consensus 295 iRGQ~fnll~VDEA~FI~~ 313 (668)
T PHA03372 295 IRGQNFHLLLVDEAHFIKK 313 (668)
T ss_pred ccCCCCCEEEEehhhccCH
Confidence 5567899999999999974
No 279
>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=51.94 E-value=31 Score=38.05 Aligned_cols=22 Identities=23% Similarity=0.344 Sum_probs=17.1
Q ss_pred CceeecCCCCchHHHHHHHHHH
Q 002565 298 GGILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 298 GGILADeMGLGKTiqaIali~~ 319 (907)
+-+|--+.|.|||..|-++...
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~ 81 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQI 81 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHH
Confidence 4577789999999988766544
No 280
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=51.30 E-value=64 Score=40.02 Aligned_cols=72 Identities=19% Similarity=0.177 Sum_probs=50.4
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhhhccccchhhhccccccccccCCCCCCCCCcC
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (907)
..|.++|..++.-+......+. ...+|---.|-|||+.+.+++..
T Consensus 11 ~~~~~~Q~~ai~~l~~~~~~~~--~~~ll~Gl~gs~ka~lia~l~~~--------------------------------- 55 (652)
T PRK05298 11 YKPAGDQPQAIEELVEGIEAGE--KHQTLLGVTGSGKTFTMANVIAR--------------------------------- 55 (652)
T ss_pred CCCChHHHHHHHHHHHhhhcCC--CcEEEEcCCCcHHHHHHHHHHHH---------------------------------
Confidence 4689999999987765543211 12345556788999887655431
Q ss_pred cccccccCCCCCCCCCCCcccccccccCCCCCCCeEEEeChh-hHHHHHHHHHHhCCC
Q 002565 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPD 409 (907)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-ll~qW~~Ei~k~~~~ 409 (907)
..+++|||+|.. ...+|.+++..++++
T Consensus 56 ------------------------------~~r~vLIVt~~~~~A~~l~~dL~~~~~~ 83 (652)
T PRK05298 56 ------------------------------LQRPTLVLAHNKTLAAQLYSEFKEFFPE 83 (652)
T ss_pred ------------------------------hCCCEEEEECCHHHHHHHHHHHHHhcCC
Confidence 124599999974 778999999999874
No 281
>CHL00181 cbbX CbbX; Provisional
Probab=50.55 E-value=38 Score=37.43 Aligned_cols=20 Identities=20% Similarity=0.405 Sum_probs=16.6
Q ss_pred eeecCCCCchHHHHHHHHHH
Q 002565 300 ILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 300 ILADeMGLGKTiqaIali~~ 319 (907)
+|-=..|.|||..|-++...
T Consensus 63 ll~G~pGtGKT~lAr~la~~ 82 (287)
T CHL00181 63 SFTGSPGTGKTTVALKMADI 82 (287)
T ss_pred EEECCCCCCHHHHHHHHHHH
Confidence 77789999999988887654
No 282
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=50.07 E-value=20 Score=45.93 Aligned_cols=54 Identities=11% Similarity=0.122 Sum_probs=49.6
Q ss_pred CceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCCccc
Q 002565 852 PIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREVCS 906 (907)
Q Consensus 852 ~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~v~V 906 (907)
.+-.||+|..+.+.+.+...|...|+...-||.+|+..+|+.+-++|..+. ++|
T Consensus 485 ~~s~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~~~-~~V 538 (941)
T KOG0351|consen 485 DQSGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDK-IRV 538 (941)
T ss_pred CCCeEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHHHhcCC-CeE
Confidence 457899999999999999999999999999999999999999999999765 444
No 283
>PRK01172 ski2-like helicase; Provisional
Probab=49.96 E-value=36 Score=42.26 Aligned_cols=53 Identities=15% Similarity=0.048 Sum_probs=40.3
Q ss_pred eEEEEecchhhHHHHHHHHHhC-----C--------------------CeEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQH-----C--------------------IQYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~-----G--------------------i~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
++|||+.-+.....+...|... . ..+..++|+|+.++|..+.+.|++. .++||
T Consensus 238 ~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f~~g-~i~VL 315 (674)
T PRK01172 238 QVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRNR-YIKVI 315 (674)
T ss_pred cEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHHHcC-CCeEE
Confidence 8999999988777776666442 0 1255679999999999999999954 45554
No 284
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=49.90 E-value=6.7 Score=43.20 Aligned_cols=46 Identities=26% Similarity=0.611 Sum_probs=35.3
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhcc-CCCCCCCCcccccc
Q 002565 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYIT-GDDNMCPAPRCKEQ 764 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~-~~~~~CP~~~Cr~~ 764 (907)
....|.||.+...-..+++|+|..|..|.-.... .....|| .|+..
T Consensus 60 en~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~--~CrTE 106 (493)
T COG5236 60 ENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCP--LCRTE 106 (493)
T ss_pred ccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCC--ccccc
Confidence 4567999999999999999999999999854321 2345788 46654
No 285
>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=49.87 E-value=2.2e+02 Score=28.46 Aligned_cols=22 Identities=18% Similarity=0.273 Sum_probs=18.3
Q ss_pred eeecCCCCchHHHHHHHHHHhh
Q 002565 300 ILADDQGLGKTISIIALIQMQR 321 (907)
Q Consensus 300 ILADeMGLGKTiqaIali~~~~ 321 (907)
|+.-.-|.||+-.+.+++....
T Consensus 23 L~~G~~g~gk~~~a~~~a~~ll 44 (162)
T PF13177_consen 23 LFHGPSGSGKKTLALAFARALL 44 (162)
T ss_dssp EEECSTTSSHHHHHHHHHHHHC
T ss_pred EEECCCCCCHHHHHHHHHHHHc
Confidence 7777889999999999987553
No 286
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=49.75 E-value=6.7 Score=44.33 Aligned_cols=33 Identities=24% Similarity=0.649 Sum_probs=29.4
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhcc
Q 002565 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYIT 750 (907)
Q Consensus 718 ~~~C~iC~d~~e~pvit~C~H~fC~~Ci~~~i~ 750 (907)
...|++|..-.++|+|.+|+|..|..|....+.
T Consensus 4 elkc~vc~~f~~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 4 ELKCPVCGSFYREPIILPCSHNLCQACARNILV 36 (699)
T ss_pred cccCceehhhccCceEeecccHHHHHHHHhhcc
Confidence 346999999999999999999999999987654
No 287
>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=49.70 E-value=1.3e+02 Score=27.90 Aligned_cols=41 Identities=12% Similarity=-0.010 Sum_probs=24.8
Q ss_pred ccEEEEccCcccCCcc-hHHHHHHHhhh------cCceEEEeccCccc
Q 002565 512 WFRVVLDEAQTIKNHR-TQVARACCSLR------AKRRWCLSGTPIQN 552 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~-S~~~ka~~~L~------a~~R~~LTGTPiqN 552 (907)
...||+||++.+.... ......+..+. ...++++++++...
T Consensus 85 ~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~ 132 (151)
T cd00009 85 PGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLL 132 (151)
T ss_pred CeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCcccc
Confidence 4579999999882222 22333333332 45678888887654
No 288
>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=49.63 E-value=6.4 Score=49.19 Aligned_cols=44 Identities=27% Similarity=0.313 Sum_probs=33.7
Q ss_pred cCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHh
Q 002565 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (907)
Q Consensus 274 ~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~ 320 (907)
++||.|++-..-+...-..+ ..+||--..|.|||+.+|+..+..
T Consensus 10 ~~y~~Q~~~m~~v~~~l~~~---~~~llEsPTGtGKTlslL~~aL~~ 53 (705)
T TIGR00604 10 KIYPEQRSYMRDLKRSLDRG---DEAILEMPSGTGKTISLLSLILAY 53 (705)
T ss_pred CCCHHHHHHHHHHHHHhccC---CceEEeCCCCCCccHHHHHHHHHH
Confidence 36999999887777654432 346888889999999999887754
No 289
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=49.30 E-value=58 Score=38.72 Aligned_cols=26 Identities=23% Similarity=0.348 Sum_probs=22.9
Q ss_pred CCeEEEeC-hhhHHHHHHHHHHhCCCC
Q 002565 385 AGTLVVCP-ASVLRQWARELEDKVPDK 410 (907)
Q Consensus 385 ~~tLIV~P-~sll~qW~~Ei~k~~~~~ 410 (907)
+||||++| +.|..|-..||+.|||..
T Consensus 58 rPtLV~AhNKTLAaQLy~Efk~fFP~N 84 (663)
T COG0556 58 RPTLVLAHNKTLAAQLYSEFKEFFPEN 84 (663)
T ss_pred CCeEEEecchhHHHHHHHHHHHhCcCc
Confidence 56999999 568899999999999975
No 290
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.96 E-value=4.5 Score=45.66 Aligned_cols=58 Identities=24% Similarity=0.588 Sum_probs=40.7
Q ss_pred cccccccCCCCCCc-----cccccCcccchhhhhhhccCC-CCCCCCcccccccCccccccccccc
Q 002565 718 SAICCVCSDPPEDS-----VVTMCGHVFCYQCASEYITGD-DNMCPAPRCKEQLGADVVFSKTTLK 777 (907)
Q Consensus 718 ~~~C~iC~d~~e~p-----vit~C~H~fC~~Ci~~~i~~~-~~~CP~~~Cr~~l~~~~~~~~~~l~ 777 (907)
...|+||.|.-+.+ ++..|+|.|-.+||+.++... ...|| .|...-....++....++
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp--~c~~katkr~i~~e~alR 67 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCP--LCSGKATKRQIRPEYALR 67 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCc--ccCChhHHHHHHHHHHHH
Confidence 45799999987655 566799999999999999522 24688 576555555555444444
No 291
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=48.46 E-value=79 Score=37.32 Aligned_cols=37 Identities=8% Similarity=0.104 Sum_probs=22.5
Q ss_pred ccEEEEccCcccCCcch---HHHHHHHhh-hcCceEEEecc
Q 002565 512 WFRVVLDEAQTIKNHRT---QVARACCSL-RAKRRWCLSGT 548 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S---~~~ka~~~L-~a~~R~~LTGT 548 (907)
.++|||||+|.+.+... ..+..+..+ .....+++|+.
T Consensus 207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd 247 (450)
T PRK14087 207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSD 247 (450)
T ss_pred CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECC
Confidence 46899999999976432 222333333 33446888843
No 292
>PF13173 AAA_14: AAA domain
Probab=47.77 E-value=17 Score=34.66 Aligned_cols=36 Identities=19% Similarity=0.179 Sum_probs=24.7
Q ss_pred cEEEEccCcccCCcchHHHHHHHhh---hcCceEEEeccCccc
Q 002565 513 FRVVLDEAQTIKNHRTQVARACCSL---RAKRRWCLSGTPIQN 552 (907)
Q Consensus 513 ~rVIlDEAH~IKN~~S~~~ka~~~L---~a~~R~~LTGTPiqN 552 (907)
.+|||||+|++.+.. .+++.+ ....++++||.-...
T Consensus 63 ~~i~iDEiq~~~~~~----~~lk~l~d~~~~~~ii~tgS~~~~ 101 (128)
T PF13173_consen 63 KYIFIDEIQYLPDWE----DALKFLVDNGPNIKIILTGSSSSL 101 (128)
T ss_pred cEEEEehhhhhccHH----HHHHHHHHhccCceEEEEccchHH
Confidence 469999999997533 333433 235699999986443
No 293
>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=47.71 E-value=1.3e+02 Score=38.02 Aligned_cols=40 Identities=18% Similarity=0.216 Sum_probs=29.7
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHH
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQ 318 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~ 318 (907)
..|-+-|+.++.-++.... . .+|---.|.|||-.+-+++.
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~~--~----~il~G~aGTGKTtll~~i~~ 390 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSGD--I----AVVVGRAGTGKSTMLKAARE 390 (744)
T ss_pred CCCCHHHHHHHHHHhcCCC--E----EEEEecCCCCHHHHHHHHHH
Confidence 5689999999988874211 1 47777899999987766654
No 294
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=46.48 E-value=50 Score=37.13 Aligned_cols=59 Identities=12% Similarity=-0.012 Sum_probs=46.3
Q ss_pred ccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhC--CCeEEE
Q 002565 804 YISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH--CIQYRR 881 (907)
Q Consensus 804 ~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~--Gi~~~r 881 (907)
..++|.+.+.+.++...+.|. .|.|-|.-+++.--|...|++. ++....
T Consensus 125 ~GaGKTEMif~~i~~al~~G~-----------------------------~vciASPRvDVclEl~~Rlk~aF~~~~I~~ 175 (441)
T COG4098 125 TGAGKTEMIFQGIEQALNQGG-----------------------------RVCIASPRVDVCLELYPRLKQAFSNCDIDL 175 (441)
T ss_pred cCCCchhhhHHHHHHHHhcCC-----------------------------eEEEecCcccchHHHHHHHHHhhccCCeee
Confidence 356677777777776666665 9999999999999999999876 688888
Q ss_pred EEccCCHHHH
Q 002565 882 LDGTMSLPAR 891 (907)
Q Consensus 882 LdGsms~~~R 891 (907)
|+|.-+..-|
T Consensus 176 Lyg~S~~~fr 185 (441)
T COG4098 176 LYGDSDSYFR 185 (441)
T ss_pred EecCCchhcc
Confidence 9998766555
No 295
>PRK00254 ski2-like helicase; Provisional
Probab=45.99 E-value=43 Score=41.97 Aligned_cols=29 Identities=7% Similarity=-0.034 Sum_probs=24.4
Q ss_pred eEEEEEccCCHHHHHHHHHHhcCCCCcccC
Q 002565 878 QYRRLDGTMSLPARDRAVKDFNTDREVCSL 907 (907)
Q Consensus 878 ~~~rLdGsms~~~R~~~I~~F~~dp~v~VL 907 (907)
.+..+||+|+.++|..+.+.|++. .++||
T Consensus 297 gv~~hHagl~~~eR~~ve~~F~~G-~i~VL 325 (720)
T PRK00254 297 GVAFHHAGLGRTERVLIEDAFREG-LIKVI 325 (720)
T ss_pred CEEEeCCCCCHHHHHHHHHHHHCC-CCeEE
Confidence 467889999999999999999964 56664
No 296
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=45.26 E-value=29 Score=38.66 Aligned_cols=22 Identities=27% Similarity=0.315 Sum_probs=17.8
Q ss_pred CceeecCCCCchHHHHHHHHHH
Q 002565 298 GGILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 298 GGILADeMGLGKTiqaIali~~ 319 (907)
.-+|.=+.|.|||..+.++...
T Consensus 38 ~lll~Gp~GtGKT~la~~~~~~ 59 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRALARE 59 (337)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 3577789999999999888753
No 297
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=45.16 E-value=1.5e+02 Score=32.83 Aligned_cols=37 Identities=11% Similarity=0.082 Sum_probs=22.6
Q ss_pred ccEEEEccCcccCCcchHHHHHHHh----hhcCceEEEeccCc
Q 002565 512 WFRVVLDEAQTIKNHRTQVARACCS----LRAKRRWCLSGTPI 550 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S~~~ka~~~----L~a~~R~~LTGTPi 550 (907)
..+|||||+|.+.... ...+++. .....++++|.+..
T Consensus 101 ~~vliiDe~d~l~~~~--~~~~L~~~le~~~~~~~~Ilt~n~~ 141 (316)
T PHA02544 101 GKVIIIDEFDRLGLAD--AQRHLRSFMEAYSKNCSFIITANNK 141 (316)
T ss_pred CeEEEEECcccccCHH--HHHHHHHHHHhcCCCceEEEEcCCh
Confidence 3479999999983322 1223333 24556788888654
No 298
>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=43.79 E-value=63 Score=40.45 Aligned_cols=46 Identities=11% Similarity=0.131 Sum_probs=31.1
Q ss_pred eEEEEecchhhHHHHHHHHHhCCC-------eEEEEEccCCHHHHHHHHHHhcC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCI-------QYRRLDGTMSLPARDRAVKDFNT 900 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi-------~~~rLdGsms~~~R~~~I~~F~~ 900 (907)
.+|||-..-.+|+.+...+...|+ ..+.+.+.- ..++++++++|..
T Consensus 524 g~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~~-~~~~~~~l~~f~~ 576 (705)
T TIGR00604 524 GIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKD-AQETSDALERYKQ 576 (705)
T ss_pred cEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCCC-cchHHHHHHHHHH
Confidence 778877777778877777766543 233444432 2678999999974
No 299
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=43.77 E-value=60 Score=37.00 Aligned_cols=45 Identities=20% Similarity=0.215 Sum_probs=27.3
Q ss_pred CchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHh
Q 002565 275 LLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (907)
Q Consensus 275 L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~ 320 (907)
|.-| ..++..+......+.-+..-|+.-..|+|||..+..++..+
T Consensus 25 l~Gh-~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~L 69 (351)
T PRK09112 25 LFGH-EEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHI 69 (351)
T ss_pred ccCc-HHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHH
Confidence 4433 33444444433332223346778899999999988887654
No 300
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=43.63 E-value=93 Score=39.66 Aligned_cols=49 Identities=16% Similarity=0.091 Sum_probs=34.6
Q ss_pred ccEEEEccCcccCCcc-hHHHHHHHhhhcCceEEEeccCcccchhhhhhhHH
Q 002565 512 WFRVVLDEAQTIKNHR-TQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFR 562 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~-S~~~ka~~~L~a~~R~~LTGTPiqN~l~EL~sll~ 562 (907)
..+||+||.|.|.|.. ......+..|-.---++||+| ++++..++-.++
T Consensus 633 IRyiIfDEVH~iG~~ed~l~~Eqll~li~CP~L~LSAT--igN~~l~qkWln 682 (1330)
T KOG0949|consen 633 IRYIIFDEVHLIGNEEDGLLWEQLLLLIPCPFLVLSAT--IGNPNLFQKWLN 682 (1330)
T ss_pred ceEEEechhhhccccccchHHHHHHHhcCCCeeEEecc--cCCHHHHHHHHH
Confidence 4579999999999865 444444444444456899999 466777766555
No 301
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=43.50 E-value=2.3e+02 Score=36.32 Aligned_cols=41 Identities=17% Similarity=0.271 Sum_probs=30.2
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHh
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~ 320 (907)
.+-+.++..-+..+.+... -|+.=|.|.|||.|+--+|+-.
T Consensus 172 LPa~~~r~~Il~~i~~~qV-------vvIsGeTGcGKTTQvpQfiLd~ 212 (924)
T KOG0920|consen 172 LPAYKMRDTILDAIEENQV-------VVISGETGCGKTTQVPQFILDE 212 (924)
T ss_pred CccHHHHHHHHHHHHhCce-------EEEeCCCCCCchhhhhHHHHHH
Confidence 3456677776666664433 4788899999999999999854
No 302
>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=42.74 E-value=91 Score=26.18 Aligned_cols=47 Identities=11% Similarity=0.157 Sum_probs=34.8
Q ss_pred eEEEEec-chhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcC
Q 002565 854 KSIVFSQ-WTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNT 900 (907)
Q Consensus 854 KVIVFSQ-ft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~ 900 (907)
||+||+. +=..-..+...|++.|+.|..++-....+.++++++....
T Consensus 1 ~i~ly~~~~Cp~C~~ak~~L~~~~i~~~~i~i~~~~~~~~~~~~~~~~ 48 (75)
T cd03418 1 KVEIYTKPNCPYCVRAKALLDKKGVDYEEIDVDGDPALREEMINRSGG 48 (75)
T ss_pred CEEEEeCCCChHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCC
Confidence 4666663 3455667788889999999999998887777777766653
No 303
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.62 E-value=12 Score=42.31 Aligned_cols=45 Identities=24% Similarity=0.519 Sum_probs=33.7
Q ss_pred ccccccccCCCC---CCccccccCcccchhhhhhhccCCC--CCCCCccccc
Q 002565 717 SSAICCVCSDPP---EDSVVTMCGHVFCYQCASEYITGDD--NMCPAPRCKE 763 (907)
Q Consensus 717 ~~~~C~iC~d~~---e~pvit~C~H~fC~~Ci~~~i~~~~--~~CP~~~Cr~ 763 (907)
+...|++-.+.. ..|+...|||++|++-+.....+.. -+|| .|-.
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCP--YCP~ 382 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCP--YCPV 382 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCC--CCCc
Confidence 346688865432 3478889999999999999888766 6888 5654
No 304
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.51 E-value=9.2 Score=41.16 Aligned_cols=33 Identities=33% Similarity=0.858 Sum_probs=27.3
Q ss_pred ccccccCCCCCCcccccc----CcccchhhhhhhccC
Q 002565 719 AICCVCSDPPEDSVVTMC----GHVFCYQCASEYITG 751 (907)
Q Consensus 719 ~~C~iC~d~~e~pvit~C----~H~fC~~Ci~~~i~~ 751 (907)
.-|-+|.+..|+-..-.| .|-||..|..+.|+.
T Consensus 269 LcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred eeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence 469999999988655555 899999999999874
No 305
>PRK06526 transposase; Provisional
Probab=41.95 E-value=1e+02 Score=33.37 Aligned_cols=22 Identities=27% Similarity=0.200 Sum_probs=18.0
Q ss_pred CceeecCCCCchHHHHHHHHHH
Q 002565 298 GGILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 298 GGILADeMGLGKTiqaIali~~ 319 (907)
+-+|.-..|.|||-.+.++...
T Consensus 100 nlll~Gp~GtGKThLa~al~~~ 121 (254)
T PRK06526 100 NVVFLGPPGTGKTHLAIGLGIR 121 (254)
T ss_pred eEEEEeCCCCchHHHHHHHHHH
Confidence 4577779999999999888753
No 306
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=41.76 E-value=1.4e+02 Score=34.67 Aligned_cols=57 Identities=14% Similarity=0.201 Sum_probs=37.5
Q ss_pred cccEEEEccCcccCCcchHHHHHH---Hhhh--cCceEEEeccCcccchhhhhhhHHhhccC
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARAC---CSLR--AKRRWCLSGTPIQNSIDDLYSYFRFLKYD 567 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~---~~L~--a~~R~~LTGTPiqN~l~EL~sll~fL~p~ 567 (907)
..++||+|++.+.........+.. ..+. ...-++|++|=-++.+.+++.-+..+.+.
T Consensus 254 ~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~~~~~ 315 (388)
T PRK12723 254 DFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSPFSYK 315 (388)
T ss_pred CCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcCCCCC
Confidence 367899999998754332222222 2222 24568899999888888888877666543
No 307
>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=41.64 E-value=1.1e+02 Score=36.63 Aligned_cols=69 Identities=13% Similarity=0.055 Sum_probs=56.6
Q ss_pred CccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhC-CCeEEE
Q 002565 803 EYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH-CIQYRR 881 (907)
Q Consensus 803 ~~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~-Gi~~~r 881 (907)
...|+|....+.++......+. ++||.+........+...|++. |.....
T Consensus 5 ~TGsGKT~v~l~~i~~~l~~g~-----------------------------~vLvlvP~i~L~~Q~~~~l~~~f~~~v~v 55 (505)
T TIGR00595 5 VTGSGKTEVYLQAIEKVLALGK-----------------------------SVLVLVPEIALTPQMIQRFKYRFGSQVAV 55 (505)
T ss_pred CCCCCHHHHHHHHHHHHHHcCC-----------------------------eEEEEeCcHHHHHHHHHHHHHHhCCcEEE
Confidence 3468999999988887776655 8999999999888888888754 888999
Q ss_pred EEccCCHHHHHHHHHHhcC
Q 002565 882 LDGTMSLPARDRAVKDFNT 900 (907)
Q Consensus 882 LdGsms~~~R~~~I~~F~~ 900 (907)
++|.++.++|.++..+-.+
T Consensus 56 lhs~~~~~er~~~~~~~~~ 74 (505)
T TIGR00595 56 LHSGLSDSEKLQAWRKVKN 74 (505)
T ss_pred EECCCCHHHHHHHHHHHHc
Confidence 9999999999887766543
No 308
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=41.44 E-value=40 Score=40.18 Aligned_cols=44 Identities=23% Similarity=0.129 Sum_probs=34.2
Q ss_pred CchHHHHHHHHHHHhhh-----ccccccCceeecCCCCchHHHHHHHHH
Q 002565 275 LLKHQKIALAWMLQKET-----RSLHCLGGILADDQGLGKTISIIALIQ 318 (907)
Q Consensus 275 L~phQ~~gv~wml~~e~-----~~~~~~GGILADeMGLGKTiqaIali~ 318 (907)
.+...++++.|.+.+.. ....++|.||.--.|.|||+.+-|+..
T Consensus 250 ~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~ 298 (494)
T COG0464 250 AKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVAL 298 (494)
T ss_pred HHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHh
Confidence 57778888888877654 223467889999999999998877764
No 309
>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=41.17 E-value=96 Score=35.90 Aligned_cols=37 Identities=11% Similarity=0.152 Sum_probs=23.0
Q ss_pred ccEEEEccCcccCCcchH---HHHHHHhh-hcCceEEEecc
Q 002565 512 WFRVVLDEAQTIKNHRTQ---VARACCSL-RAKRRWCLSGT 548 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S~---~~ka~~~L-~a~~R~~LTGT 548 (907)
.++|||||.|.+.+.... ....+..+ .....+++|++
T Consensus 200 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~ 240 (405)
T TIGR00362 200 VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSD 240 (405)
T ss_pred CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecC
Confidence 468999999999765321 22333333 34456888876
No 310
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=41.12 E-value=1.8e+02 Score=36.14 Aligned_cols=42 Identities=21% Similarity=0.218 Sum_probs=25.7
Q ss_pred chHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHh
Q 002565 276 LKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (907)
Q Consensus 276 ~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~ 320 (907)
.+|=...+..++...+ -...-||.-..|.|||..|.+++..+
T Consensus 20 Qe~vv~~L~~aI~~gr---l~HAyLF~GPpGvGKTTlAriLAK~L 61 (702)
T PRK14960 20 QNHVSRALSSALERGR---LHHAYLFTGTRGVGKTTIARILAKCL 61 (702)
T ss_pred cHHHHHHHHHHHHcCC---CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 3444445554443322 12334899999999998887776543
No 311
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=40.88 E-value=37 Score=39.03 Aligned_cols=67 Identities=19% Similarity=0.198 Sum_probs=60.0
Q ss_pred cchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHhCCCeEEEEEc
Q 002565 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (907)
Q Consensus 805 ~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdG 884 (907)
...|..+|+.++...+.. ...|||.--..-.+++...|...|+....++|
T Consensus 244 ~a~K~aaLl~il~~~~~~------------------------------~~t~vf~~tk~hve~~~~ll~~~g~~~s~iys 293 (529)
T KOG0337|consen 244 KAEKEAALLSILGGRIKD------------------------------KQTIVFVATKHHVEYVRGLLRDFGGEGSDIYS 293 (529)
T ss_pred cHHHHHHHHHHHhccccc------------------------------cceeEEecccchHHHHHHHHHhcCCCcccccc
Confidence 467999999999887662 26899999999999999999999999999999
Q ss_pred cCCHHHHHHHHHHhcCC
Q 002565 885 TMSLPARDRAVKDFNTD 901 (907)
Q Consensus 885 sms~~~R~~~I~~F~~d 901 (907)
+|.+..|..-+..|+..
T Consensus 294 slD~~aRk~~~~~F~~~ 310 (529)
T KOG0337|consen 294 SLDQEARKINGRDFRGR 310 (529)
T ss_pred ccChHhhhhccccccCC
Confidence 99999999999999854
No 312
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=40.59 E-value=54 Score=41.91 Aligned_cols=57 Identities=19% Similarity=0.357 Sum_probs=38.1
Q ss_pred CCCCCeEEEeCh-hhH----HHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecchhhc
Q 002565 382 RPAAGTLVVCPA-SVL----RQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVT 444 (907)
Q Consensus 382 ~~~~~tLIV~P~-sll----~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l~ 444 (907)
.|.+++.+|+|. .|+ .-|..-+... .+++.-..|... .+.....+.++||||.+..-
T Consensus 971 ~p~~kvvyIap~kalvker~~Dw~~r~~~~-----g~k~ie~tgd~~-pd~~~v~~~~~~ittpek~d 1032 (1230)
T KOG0952|consen 971 YPGSKVVYIAPDKALVKERSDDWSKRDELP-----GIKVIELTGDVT-PDVKAVREADIVITTPEKWD 1032 (1230)
T ss_pred CCCccEEEEcCCchhhcccccchhhhcccC-----CceeEeccCccC-CChhheecCceEEccccccc
Confidence 345679999995 455 4465444321 477776666554 34677889999999987654
No 313
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=40.48 E-value=94 Score=39.61 Aligned_cols=42 Identities=21% Similarity=0.156 Sum_probs=27.1
Q ss_pred chHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHh
Q 002565 276 LKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (907)
Q Consensus 276 ~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~ 320 (907)
.+|-+..|..++...+. .+.=||.-..|+|||..+..|...+
T Consensus 20 qe~v~~~L~~~i~~~ri---~Ha~Lf~Gp~G~GKTt~A~~lAr~L 61 (824)
T PRK07764 20 QEHVTEPLSTALDSGRI---NHAYLFSGPRGCGKTSSARILARSL 61 (824)
T ss_pred cHHHHHHHHHHHHhCCC---CceEEEECCCCCCHHHHHHHHHHHh
Confidence 44445556666654332 1223788899999999888887554
No 314
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=39.84 E-value=15 Score=40.55 Aligned_cols=50 Identities=20% Similarity=0.543 Sum_probs=36.5
Q ss_pred cccccccCCCCCC----ccccccCcccchhhhhhhccCCCCCCCCcccccccCccc
Q 002565 718 SAICCVCSDPPED----SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADV 769 (907)
Q Consensus 718 ~~~C~iC~d~~e~----pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~ 769 (907)
+.-|+.|+++++. ..--+||-..|+-|-......-.+.|| -||.....+.
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcp--acrr~y~den 67 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCP--ACRRKYDDEN 67 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCCh--Hhhhhccccc
Confidence 3449999999853 334479999999998766555567899 5887765554
No 315
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=39.72 E-value=18 Score=40.14 Aligned_cols=44 Identities=30% Similarity=0.753 Sum_probs=34.8
Q ss_pred ccccccccCCCCCCccccc-cCcccchhhhhhhccCCCCCCCCcccccccC
Q 002565 717 SSAICCVCSDPPEDSVVTM-CGHVFCYQCASEYITGDDNMCPAPRCKEQLG 766 (907)
Q Consensus 717 ~~~~C~iC~d~~e~pvit~-C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~ 766 (907)
+..+|++|.+....|+... -||+.|..|-... .+.||. |+.++.
T Consensus 47 ~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~----~~~CP~--Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKV----SNKCPT--CRLPIG 91 (299)
T ss_pred hhccCchhhccCcccceecCCCcEehhhhhhhh----cccCCc--cccccc
Confidence 4567999999998887653 5999999998654 358995 888886
No 316
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.42 E-value=9 Score=45.58 Aligned_cols=37 Identities=27% Similarity=0.716 Sum_probs=27.4
Q ss_pred ccccccCCCC----CCccccccCcccchhhhhhhccCCCCCCCC
Q 002565 719 AICCVCSDPP----EDSVVTMCGHVFCYQCASEYITGDDNMCPA 758 (907)
Q Consensus 719 ~~C~iC~d~~----e~pvit~C~H~fC~~Ci~~~i~~~~~~CP~ 758 (907)
.-|+||+... -.|+...|||+.|..|+..... ..||+
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn---~scp~ 52 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN---ASCPT 52 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh---ccCCC
Confidence 3588995432 4688899999999999986532 36774
No 317
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=39.26 E-value=15 Score=45.73 Aligned_cols=47 Identities=17% Similarity=0.579 Sum_probs=34.5
Q ss_pred ccccccccCCCC-------CCccccccCcccchhhhhhhcc-CCCCCCCCccccccc
Q 002565 717 SSAICCVCSDPP-------EDSVVTMCGHVFCYQCASEYIT-GDDNMCPAPRCKEQL 765 (907)
Q Consensus 717 ~~~~C~iC~d~~-------e~pvit~C~H~fC~~Ci~~~i~-~~~~~CP~~~Cr~~l 765 (907)
+-++|.||.... ..-.-..|.|-|...|+-.|+. ++...|| .||..+
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CP--lCRsei 1522 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCP--LCRSEI 1522 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCC--cccccc
Confidence 678999996432 2223456999999999999986 4567999 577544
No 318
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=39.17 E-value=1.2e+02 Score=33.97 Aligned_cols=55 Identities=18% Similarity=0.393 Sum_probs=39.7
Q ss_pred eEEEeChh----hHHHHHHHHHHhCCCCCCeEEEEEeCCCCCCCcc-c-cCCCcEEEecchhhcc
Q 002565 387 TLVVCPAS----VLRQWARELEDKVPDKAALSVLIYHGGSRTKDPV-E-LAKYDVVLTTYSIVTN 445 (907)
Q Consensus 387 tLIV~P~s----ll~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~-~-l~~~dVVItTY~~l~~ 445 (907)
.+|++|.. -.+|-..|+.+|+ .++|.+-.|+...++.. . -....+||-|.+.+-.
T Consensus 156 ~~ilVPtrelALQtSqvc~~lskh~----~i~vmvttGGT~lrDDI~Rl~~~VH~~vgTPGRIlD 216 (459)
T KOG0326|consen 156 AIILVPTRELALQTSQVCKELSKHL----GIKVMVTTGGTSLRDDIMRLNQTVHLVVGTPGRILD 216 (459)
T ss_pred EEEEeecchhhHHHHHHHHHHhccc----CeEEEEecCCcccccceeeecCceEEEEcCChhHHH
Confidence 79999964 2477888999987 48999999887766532 2 2345678888776643
No 319
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=39.13 E-value=1.1e+02 Score=36.17 Aligned_cols=21 Identities=29% Similarity=0.260 Sum_probs=16.2
Q ss_pred ceeecCCCCchHHHHHHHHHH
Q 002565 299 GILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 299 GILADeMGLGKTiqaIali~~ 319 (907)
-+|--..|+|||-.+-|+...
T Consensus 151 l~l~G~~G~GKThL~~ai~~~ 171 (450)
T PRK00149 151 LFIYGGVGLGKTHLLHAIGNY 171 (450)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 467778999999888776643
No 320
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=38.84 E-value=1.9e+02 Score=37.59 Aligned_cols=49 Identities=27% Similarity=0.259 Sum_probs=31.9
Q ss_pred ccEEEEccCcccCCcchHHHHHHHhh-hcCceEEEeccCcccchhhhhhhHH
Q 002565 512 WFRVVLDEAQTIKNHRTQVARACCSL-RAKRRWCLSGTPIQNSIDDLYSYFR 562 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S~~~ka~~~L-~a~~R~~LTGTPiqN~l~EL~sll~ 562 (907)
-++||||||-.+... ...+.+... .+..+++|.|=|-|-..-+-=+.|+
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 468999999999543 233333323 5678999999998775544333333
No 321
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=37.17 E-value=1.4e+02 Score=36.41 Aligned_cols=21 Identities=29% Similarity=0.355 Sum_probs=17.4
Q ss_pred eeecCCCCchHHHHHHHHHHh
Q 002565 300 ILADDQGLGKTISIIALIQMQ 320 (907)
Q Consensus 300 ILADeMGLGKTiqaIali~~~ 320 (907)
|+.-.-|.|||..+.+|+..+
T Consensus 39 Lf~Gp~G~GKTt~A~~lAk~l 59 (584)
T PRK14952 39 LFSGPRGCGKTSSARILARSL 59 (584)
T ss_pred EEECCCCCCHHHHHHHHHHHh
Confidence 788899999999888887543
No 322
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=36.99 E-value=18 Score=40.66 Aligned_cols=48 Identities=23% Similarity=0.654 Sum_probs=36.2
Q ss_pred cccccccccCCCC----CCccccccCcccchhhhhhhcc-CCCCCCCCccccccc
Q 002565 716 TSSAICCVCSDPP----EDSVVTMCGHVFCYQCASEYIT-GDDNMCPAPRCKEQL 765 (907)
Q Consensus 716 ~~~~~C~iC~d~~----e~pvit~C~H~fC~~Ci~~~i~-~~~~~CP~~~Cr~~l 765 (907)
+...-|..|.+.. +...-.+|.|+|-..|+.+++. +.+..|| .|+...
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP--~Crklr 415 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCP--NCRKLR 415 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCc--cHHHHH
Confidence 3456799998753 5556679999999999999885 4466899 687443
No 323
>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=36.73 E-value=1.9e+02 Score=33.30 Aligned_cols=20 Identities=20% Similarity=0.554 Sum_probs=16.1
Q ss_pred eeecCCCCchHHHHHHHHHH
Q 002565 300 ILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 300 ILADeMGLGKTiqaIali~~ 319 (907)
+|+=++|.|||.-++.++..
T Consensus 86 LI~G~pG~GKStLllq~a~~ 105 (372)
T cd01121 86 LIGGDPGIGKSTLLLQVAAR 105 (372)
T ss_pred EEEeCCCCCHHHHHHHHHHH
Confidence 67779999999988777653
No 324
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=36.51 E-value=1.5e+02 Score=34.76 Aligned_cols=55 Identities=18% Similarity=0.207 Sum_probs=36.4
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhh-h-----cCceEEEeccCcccchhhhhhhHHhhcc
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSL-R-----AKRRWCLSGTPIQNSIDDLYSYFRFLKY 566 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L-~-----a~~R~~LTGTPiqN~l~EL~sll~fL~p 566 (907)
.+++||||.+-+....... ...+..+ . ....++|++|+-.+.+.+++..++.+.+
T Consensus 299 ~~DlVlIDt~G~~~~d~~~-~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~~~~~ 359 (424)
T PRK05703 299 DCDVILIDTAGRSQRDKRL-IEELKALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFSRLPL 359 (424)
T ss_pred CCCEEEEeCCCCCCCCHHH-HHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhCCCCC
Confidence 3688999998765432222 2222222 2 2447889999988888888888877665
No 325
>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=36.43 E-value=1e+02 Score=27.44 Aligned_cols=44 Identities=16% Similarity=0.120 Sum_probs=33.1
Q ss_pred ceEEEEec------chhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHH
Q 002565 853 IKSIVFSQ------WTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVK 896 (907)
Q Consensus 853 ~KVIVFSQ------ft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~ 896 (907)
.+|+||+. |=..=..+...|+..|+.|..++=....+.|+.+.+
T Consensus 8 ~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~idv~~~~~~~~~l~~ 57 (90)
T cd03028 8 NPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGTFDILEDEEVRQGLKE 57 (90)
T ss_pred CCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHHHH
Confidence 49999987 555677888899999999999986555555554444
No 326
>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=36.03 E-value=20 Score=32.82 Aligned_cols=30 Identities=43% Similarity=0.883 Sum_probs=24.3
Q ss_pred ccccccccCCCCCC--ccccccCcccchhhhh
Q 002565 717 SSAICCVCSDPPED--SVVTMCGHVFCYQCAS 746 (907)
Q Consensus 717 ~~~~C~iC~d~~e~--pvit~C~H~fC~~Ci~ 746 (907)
....|.+|..+... .++.+|+|++...|+.
T Consensus 77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 35679999998765 3577999999999974
No 327
>COG4646 DNA methylase [Transcription / DNA replication, recombination, and repair]
Probab=35.86 E-value=19 Score=41.51 Aligned_cols=31 Identities=29% Similarity=0.498 Sum_probs=27.2
Q ss_pred cCceEEEeccCcccchhhhhhhHHhhccCCC
Q 002565 539 AKRRWCLSGTPIQNSIDDLYSYFRFLKYDPY 569 (907)
Q Consensus 539 a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~ 569 (907)
.++-.++||||+.|.+.|+|++.++|.++-+
T Consensus 473 G~~L~l~sgTpi~ntlgem~~vqRyl~~~al 503 (637)
T COG4646 473 GRALVLASGTPITNTLGEMFSVQRYLGAGAL 503 (637)
T ss_pred CCeEEecCCCchhhhHHhhhhhhhhcCccHH
Confidence 3566899999999999999999999998754
No 328
>PRK08727 hypothetical protein; Validated
Probab=35.59 E-value=2.4e+02 Score=29.94 Aligned_cols=37 Identities=19% Similarity=0.118 Sum_probs=21.7
Q ss_pred ccEEEEccCcccCCcchH---HHHHHHhhh-cCceEEEecc
Q 002565 512 WFRVVLDEAQTIKNHRTQ---VARACCSLR-AKRRWCLSGT 548 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S~---~~ka~~~L~-a~~R~~LTGT 548 (907)
.++|||||+|.+...... .+..+..+. ....+++|+.
T Consensus 94 ~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~ 134 (233)
T PRK08727 94 RSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTAR 134 (233)
T ss_pred CCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECC
Confidence 357999999998653322 222222222 2345888877
No 329
>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=35.56 E-value=1.8e+02 Score=26.47 Aligned_cols=47 Identities=6% Similarity=-0.009 Sum_probs=35.3
Q ss_pred ceEEEEec------chhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhc
Q 002565 853 IKSIVFSQ------WTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFN 899 (907)
Q Consensus 853 ~KVIVFSQ------ft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~ 899 (907)
.||+||+. +=.+=..+...|+..|++|..+|=....+.|+.+.+...
T Consensus 12 ~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~~~di~~~~~~~~~l~~~tg 64 (97)
T TIGR00365 12 NPVVLYMKGTPQFPQCGFSARAVQILKACGVPFAYVNVLEDPEIRQGIKEYSN 64 (97)
T ss_pred CCEEEEEccCCCCCCCchHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHhC
Confidence 39999975 345566788899999999999987666666777665543
No 330
>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=34.60 E-value=2.9e+02 Score=32.77 Aligned_cols=45 Identities=16% Similarity=-0.006 Sum_probs=26.3
Q ss_pred hHHHHHHHHHHHhh--hccccccCceeecCCCCchHHHHHHHHHHhh
Q 002565 277 KHQKIALAWMLQKE--TRSLHCLGGILADDQGLGKTISIIALIQMQR 321 (907)
Q Consensus 277 phQ~~gv~wml~~e--~~~~~~~GGILADeMGLGKTiqaIali~~~~ 321 (907)
|+|+.-+..++.-. ......+-++|-=-=|=|||.-+.+++++..
T Consensus 1 PwQ~fi~~~i~G~~~~~g~rrf~~~~l~v~RkNGKS~l~a~i~ly~l 47 (477)
T PF03354_consen 1 PWQKFILRSIFGWRKDDGRRRFREVYLEVPRKNGKSTLAAAIALYML 47 (477)
T ss_pred CcHHHHHHHHhceEcCCCCEEEEEEEEEEcCccCccHHHHHHHHHHH
Confidence 68887777665321 1111122345555668899988877766543
No 331
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=33.01 E-value=74 Score=36.26 Aligned_cols=43 Identities=28% Similarity=0.241 Sum_probs=28.7
Q ss_pred cccccccEEEEccCcccC--CcchHHHHHHHhhhcC-ceEEEeccC
Q 002565 507 LAKVGWFRVVLDEAQTIK--NHRTQVARACCSLRAK-RRWCLSGTP 549 (907)
Q Consensus 507 L~~~~w~rVIlDEAH~IK--N~~S~~~ka~~~L~a~-~R~~LTGTP 549 (907)
|..-.....|+|||...+ +...+.......+... ..+++|+|-
T Consensus 165 l~~~~iKmfvlDEaDEmLs~gfkdqI~~if~~lp~~vQv~l~SAT~ 210 (397)
T KOG0327|consen 165 LSTDGIKMFVLDEADEMLSRGFKDQIYDIFQELPSDVQVVLLSATM 210 (397)
T ss_pred ccccceeEEeecchHhhhccchHHHHHHHHHHcCcchhheeecccC
Confidence 444456689999998874 4456666666666433 567778873
No 332
>PRK14974 cell division protein FtsY; Provisional
Probab=32.84 E-value=2.3e+02 Score=32.17 Aligned_cols=44 Identities=9% Similarity=0.138 Sum_probs=25.1
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhh----hcC-ceEEEeccCcccchh
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSL----RAK-RRWCLSGTPIQNSID 555 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L----~a~-~R~~LTGTPiqN~l~ 555 (907)
..++||+|.|++..+...... .+..+ ... ..+++++|--++.+.
T Consensus 222 ~~DvVLIDTaGr~~~~~~lm~-eL~~i~~~~~pd~~iLVl~a~~g~d~~~ 270 (336)
T PRK14974 222 GIDVVLIDTAGRMHTDANLMD-ELKKIVRVTKPDLVIFVGDALAGNDAVE 270 (336)
T ss_pred CCCEEEEECCCccCCcHHHHH-HHHHHHHhhCCceEEEeeccccchhHHH
Confidence 357899999999875443322 22222 232 346667766444443
No 333
>PHA00673 acetyltransferase domain containing protein
Probab=32.39 E-value=61 Score=32.46 Aligned_cols=45 Identities=13% Similarity=0.059 Sum_probs=36.6
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhh---hcCceEEEeccCcccchh
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSL---RAKRRWCLSGTPIQNSID 555 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L---~a~~R~~LTGTPiqN~l~ 555 (907)
..+-|.+|+.|+=+.-.++..+.+... ..-++|-+||||-.|.++
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 356799999999999888888777665 445799999999999754
No 334
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=32.30 E-value=1.8e+02 Score=35.68 Aligned_cols=37 Identities=16% Similarity=0.251 Sum_probs=23.3
Q ss_pred ccEEEEccCcccCCcchH---HHHHHHhh-hcCceEEEecc
Q 002565 512 WFRVVLDEAQTIKNHRTQ---VARACCSL-RAKRRWCLSGT 548 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S~---~~ka~~~L-~a~~R~~LTGT 548 (907)
.++||||+.|.+.+.... .+..+..+ .....+++|+.
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 478999999999875432 23333333 33456777775
No 335
>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=31.96 E-value=53 Score=29.05 Aligned_cols=56 Identities=16% Similarity=0.236 Sum_probs=30.2
Q ss_pred CeEEEeChhh-HH-HHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecchhh
Q 002565 386 GTLVVCPASV-LR-QWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIV 443 (907)
Q Consensus 386 ~tLIV~P~sl-l~-qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l 443 (907)
++|||||... .. .-...++++++.. .+.+.+-+.....-.. ...++|+||||-..-
T Consensus 2 ~ilivC~~G~~tS~~l~~~i~~~~~~~-~i~~~v~~~~~~~~~~-~~~~~Dliist~~~~ 59 (89)
T cd05566 2 KILVACGTGVATSTVVASKVKELLKEN-GIDVKVEQCKIAEVPS-LLDDADLIVSTTKVP 59 (89)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHHHC-CCceEEEEecHHHhhc-ccCCCcEEEEcCCcC
Confidence 4899999754 22 2455666666421 3322222222111111 346899999998653
No 336
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.95 E-value=46 Score=41.63 Aligned_cols=34 Identities=26% Similarity=0.535 Sum_probs=27.6
Q ss_pred ccccccccCCCC--CCccccccCcccchhhhhhhcc
Q 002565 717 SSAICCVCSDPP--EDSVVTMCGHVFCYQCASEYIT 750 (907)
Q Consensus 717 ~~~~C~iC~d~~--e~pvit~C~H~fC~~Ci~~~i~ 750 (907)
..+.|.+|..+. ...++.+|||.|-.+|+.....
T Consensus 816 p~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred CccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence 356799999886 4568899999999999987643
No 337
>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=31.86 E-value=26 Score=39.80 Aligned_cols=30 Identities=23% Similarity=1.006 Sum_probs=23.3
Q ss_pred cCcccchhhhhhhccCCC----------CCCCCccccccc
Q 002565 736 CGHVFCYQCASEYITGDD----------NMCPAPRCKEQL 765 (907)
Q Consensus 736 C~H~fC~~Ci~~~i~~~~----------~~CP~~~Cr~~l 765 (907)
|--+.|.+|+..++.+.+ ++||||.||..+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 677788999999876432 479999999874
No 338
>PLN03025 replication factor C subunit; Provisional
Probab=31.82 E-value=52 Score=36.76 Aligned_cols=56 Identities=18% Similarity=0.250 Sum_probs=33.4
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhh----hcCceEEEeccCcccchhhhhhhHHhhccCCC
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSL----RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPY 569 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L----~a~~R~~LTGTPiqN~l~EL~sll~fL~p~~~ 569 (907)
.|.+|||||+|.+-... ..++..+ ....+++|+.++...-+..|-+-+..+...++
T Consensus 99 ~~kviiiDE~d~lt~~a---q~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l 158 (319)
T PLN03025 99 RHKIVILDEADSMTSGA---QQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRL 158 (319)
T ss_pred CeEEEEEechhhcCHHH---HHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCC
Confidence 47899999999984322 2333222 34467888887765544555555544444333
No 339
>PRK05580 primosome assembly protein PriA; Validated
Probab=30.56 E-value=1.9e+02 Score=36.06 Aligned_cols=69 Identities=10% Similarity=-0.000 Sum_probs=56.5
Q ss_pred ccchhHHHHHHHHHHhhhccCCcchhhhhcccCCCCCCcccCCCCCCCCceEEEEecchhhHHHHHHHHHh-CCCeEEEE
Q 002565 804 YISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQ-HCIQYRRL 882 (907)
Q Consensus 804 ~~SsKi~aLlelL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KVIVFSQft~~Ld~Le~~L~~-~Gi~~~rL 882 (907)
..|+|....+..+......+. ++||...-......+...|++ .|+....+
T Consensus 171 TGSGKT~v~l~~i~~~l~~g~-----------------------------~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~ 221 (679)
T PRK05580 171 TGSGKTEVYLQAIAEVLAQGK-----------------------------QALVLVPEIALTPQMLARFRARFGAPVAVL 221 (679)
T ss_pred CCChHHHHHHHHHHHHHHcCC-----------------------------eEEEEeCcHHHHHHHHHHHHHHhCCCEEEE
Confidence 368899998888877666554 899999999988888888876 48899999
Q ss_pred EccCCHHHHHHHHHHhcCC
Q 002565 883 DGTMSLPARDRAVKDFNTD 901 (907)
Q Consensus 883 dGsms~~~R~~~I~~F~~d 901 (907)
+|+++..+|.+...+..+.
T Consensus 222 ~s~~s~~~r~~~~~~~~~g 240 (679)
T PRK05580 222 HSGLSDGERLDEWRKAKRG 240 (679)
T ss_pred ECCCCHHHHHHHHHHHHcC
Confidence 9999999998887776543
No 340
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=29.46 E-value=2.5e+02 Score=32.83 Aligned_cols=56 Identities=11% Similarity=0.067 Sum_probs=30.9
Q ss_pred cccEEEEccCcccCCcchHHHHHHHhhh--cC--ceEEEeccCcccchhhhhhhHHhhcc
Q 002565 511 GWFRVVLDEAQTIKNHRTQVARACCSLR--AK--RRWCLSGTPIQNSIDDLYSYFRFLKY 566 (907)
Q Consensus 511 ~w~rVIlDEAH~IKN~~S~~~ka~~~L~--a~--~R~~LTGTPiqN~l~EL~sll~fL~p 566 (907)
++++||+|-+=+.-+...........+. .. .-++|++|=-.+.+.++...|+.+.+
T Consensus 320 ~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~~F~~~~i 379 (436)
T PRK11889 320 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKDIHI 379 (436)
T ss_pred CCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHHHhcCCCC
Confidence 4688999988665433332333222221 12 23557777666666666666665443
No 341
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=29.39 E-value=16 Score=31.43 Aligned_cols=47 Identities=26% Similarity=0.480 Sum_probs=21.6
Q ss_pred ccccccCCCCC----Cccc----cccCcccchhhhhhhccCC----------CCCCCCcccccccCc
Q 002565 719 AICCVCSDPPE----DSVV----TMCGHVFCYQCASEYITGD----------DNMCPAPRCKEQLGA 767 (907)
Q Consensus 719 ~~C~iC~d~~e----~pvi----t~C~H~fC~~Ci~~~i~~~----------~~~CP~~~Cr~~l~~ 767 (907)
.+|.||..... .|.+ ..|+..|-..|+.+++... .++|| .|+.+|..
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP--~C~~~i~~ 67 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECP--YCSSPISW 67 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-T--TT-SEEEG
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCc--CCCCeeeE
Confidence 57999986532 2322 2688889899999987521 13588 78887754
No 342
>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=29.32 E-value=76 Score=27.46 Aligned_cols=54 Identities=24% Similarity=0.487 Sum_probs=32.1
Q ss_pred CeEEEeChhhH--HHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecchhh
Q 002565 386 GTLVVCPASVL--RQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIV 443 (907)
Q Consensus 386 ~tLIV~P~sll--~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l 443 (907)
.+||||+...- .-=+..+++.++. +.+.......... .....++|+||||...-
T Consensus 2 kilivC~~G~~~s~~l~~~l~~~~~~---~~~v~~~~~~~~~-~~~~~~~DlIitT~~l~ 57 (85)
T cd05568 2 KALVVCPSGIGTSRLLKSKLKKLFPE---IEIIDVISLRELE-EVDLDDYDLIISTVPLE 57 (85)
T ss_pred eEEEECCCCHHHHHHHHHHHHHHCCC---ceEEEEEeHHHHh-hCcccCCCEEEEccccC
Confidence 37999997643 3357788888873 3332222111111 11356899999998643
No 343
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=28.88 E-value=29 Score=39.05 Aligned_cols=40 Identities=23% Similarity=0.225 Sum_probs=28.8
Q ss_pred cEEEEccCcccCCcchHHHHHHHhhhcCceEEEeccCcccch
Q 002565 513 FRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSI 554 (907)
Q Consensus 513 ~rVIlDEAH~IKN~~S~~~ka~~~L~a~~R~~LTGTPiqN~l 554 (907)
-.|||||||+ ..-.+.-..+.+|....+..+||.+.|-.+
T Consensus 245 AfVIlDEaQN--tT~~QmKMfLTRiGf~skmvItGD~tQiDL 284 (348)
T COG1702 245 AFVILDEAQN--TTVGQMKMFLTRIGFESKMVITGDITQIDL 284 (348)
T ss_pred eEEEEecccc--cchhhhceeeeeecCCceEEEEcCcccccC
Confidence 3699999997 222333344566788899999999987653
No 344
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=28.51 E-value=3.8e+02 Score=32.38 Aligned_cols=64 Identities=14% Similarity=0.153 Sum_probs=37.6
Q ss_pred CcccccccEEEEccCcccCCcchHHHHHHHhhhcC--c-eEEE--eccCcccchhhhhhhHHhhccCCC
Q 002565 506 PLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAK--R-RWCL--SGTPIQNSIDDLYSYFRFLKYDPY 569 (907)
Q Consensus 506 ~L~~~~w~rVIlDEAH~IKN~~S~~~ka~~~L~a~--~-R~~L--TGTPiqN~l~EL~sll~fL~p~~~ 569 (907)
.+...+...+|+||-|..+++.-....+...+.++ . .|.. +|-|...-+.+.+.++.=+.-+..
T Consensus 179 ~~Dg~~~~~~I~DEih~f~~~~~~~~~~~~g~~ar~~~l~~~ITT~g~~~~g~~~q~~~y~k~vl~g~~ 247 (546)
T COG4626 179 TVDGLNSVGAIIDELHLFGKQEDMYSEAKGGLGARPEGLVVYITTSGDPPAGVFKQKLQYAKDVLDGKI 247 (546)
T ss_pred cccCCCcceEEEehhhhhcCHHHHHHHHHhhhccCcCceEEEEecCCCCCccHHHHHHHHHHHHhcCCc
Confidence 35567788999999999998764455555555332 2 2333 244555545555555544443333
No 345
>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=27.74 E-value=82 Score=27.74 Aligned_cols=35 Identities=20% Similarity=0.204 Sum_probs=28.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCC
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMS 887 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms 887 (907)
.++|+|+.--.-.......|+..|+++..|+|++.
T Consensus 52 ~~vvl~c~~g~~a~~~a~~L~~~G~~v~~l~GG~~ 86 (90)
T cd01524 52 KEIIVYCAVGLRGYIAARILTQNGFKVKNLDGGYK 86 (90)
T ss_pred CcEEEEcCCChhHHHHHHHHHHCCCCEEEecCCHH
Confidence 38899988654566677788999999999999974
No 346
>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=27.43 E-value=1.1e+02 Score=25.96 Aligned_cols=52 Identities=27% Similarity=0.463 Sum_probs=29.4
Q ss_pred eEEEeChhhHHH--HHHHHHHhCCCCCCeEEEE-EeCCCCCCCccccCCCcEEEecchh
Q 002565 387 TLVVCPASVLRQ--WARELEDKVPDKAALSVLI-YHGGSRTKDPVELAKYDVVLTTYSI 442 (907)
Q Consensus 387 tLIV~P~sll~q--W~~Ei~k~~~~~~~l~V~v-~~G~~r~~~~~~l~~~dVVItTY~~ 442 (907)
+|+||+...-.. =...+++.++.. .+...+ +.+-... ....++|+||||...
T Consensus 2 il~vc~~G~~~s~~l~~~l~~~~~~~-~~~~~~~~~~~~~~---~~~~~~dliitt~~~ 56 (84)
T cd00133 2 ILVVCGSGIGSSSMLAEKLEKAAKEL-GIEVKVEAQGLSEV---IDLADADLIISTVPL 56 (84)
T ss_pred EEEECCCcHhHHHHHHHHHHHHHHHC-CCeEEEEEcccchh---hhcCCccEEEECCcc
Confidence 799999874433 245666666432 232222 2211111 456789999999863
No 347
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=27.20 E-value=4e+02 Score=31.33 Aligned_cols=37 Identities=8% Similarity=0.138 Sum_probs=22.3
Q ss_pred ccEEEEccCcccCCcch---HHHHHHHhh-hcCceEEEecc
Q 002565 512 WFRVVLDEAQTIKNHRT---QVARACCSL-RAKRRWCLSGT 548 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S---~~~ka~~~L-~a~~R~~LTGT 548 (907)
.+++||||.|.+.+... .....+..+ .....+++|++
T Consensus 195 ~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd 235 (440)
T PRK14088 195 VDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSD 235 (440)
T ss_pred CCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECC
Confidence 56899999999865432 233333333 33446777764
No 348
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=27.19 E-value=2.3e+02 Score=32.50 Aligned_cols=38 Identities=18% Similarity=0.192 Sum_probs=25.6
Q ss_pred ccEEEEccCcccCCcchHHHHHHHhhhc---CceEEEeccCcc
Q 002565 512 WFRVVLDEAQTIKNHRTQVARACCSLRA---KRRWCLSGTPIQ 551 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S~~~ka~~~L~a---~~R~~LTGTPiq 551 (907)
.+.+++|||..+.. ....+....|+. ..++.+|.||-.
T Consensus 102 ~~~~~idEa~~~~~--~~~~~l~~rlr~~~~~~~i~~t~NP~~ 142 (396)
T TIGR01547 102 IAIIWFEEASQLTF--EDIKELIPRLRETGGKKFIIFSSNPES 142 (396)
T ss_pred eeeehhhhhhhcCH--HHHHHHHHHhhccCCccEEEEEcCcCC
Confidence 47899999999943 344444445542 235999999954
No 349
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=26.89 E-value=2.8e+02 Score=36.64 Aligned_cols=56 Identities=18% Similarity=0.337 Sum_probs=38.2
Q ss_pred CCCeEEEeChhhH-----HHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecchhhc
Q 002565 384 AAGTLVVCPASVL-----RQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVT 444 (907)
Q Consensus 384 ~~~tLIV~P~sll-----~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l~ 444 (907)
..+..-|+|...+ .-|.+-|..-. .+.+ +--|+.+.-+...++..+|+|.|.+...
T Consensus 1186 ~~~~vyi~p~~~i~~~~~~~w~~~f~~~~----G~~~-~~l~ge~s~~lkl~~~~~vii~tpe~~d 1246 (1674)
T KOG0951|consen 1186 IGRAVYIAPLEEIADEQYRDWEKKFSKLL----GLRI-VKLTGETSLDLKLLQKGQVIISTPEQWD 1246 (1674)
T ss_pred ceEEEEecchHHHHHHHHHHHHHhhcccc----CceE-EecCCccccchHHhhhcceEEechhHHH
Confidence 3457888897644 55777776542 3444 4455566677788899999999987654
No 350
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=26.23 E-value=42 Score=29.48 Aligned_cols=25 Identities=24% Similarity=0.739 Sum_probs=21.6
Q ss_pred ccccCcccchhhhhhhccCCCCCCCC
Q 002565 733 VTMCGHVFCYQCASEYITGDDNMCPA 758 (907)
Q Consensus 733 it~C~H~fC~~Ci~~~i~~~~~~CP~ 758 (907)
...|.|.|-.-||..++.. .+.||.
T Consensus 51 wG~CnHaFH~HCI~rWL~T-k~~CPl 75 (88)
T COG5194 51 WGVCNHAFHDHCIYRWLDT-KGVCPL 75 (88)
T ss_pred EEecchHHHHHHHHHHHhh-CCCCCC
Confidence 4579999999999999987 678994
No 351
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=25.61 E-value=2.7e+02 Score=32.82 Aligned_cols=37 Identities=11% Similarity=0.134 Sum_probs=22.8
Q ss_pred ccEEEEccCcccCCcch---HHHHHHHhh-hcCceEEEecc
Q 002565 512 WFRVVLDEAQTIKNHRT---QVARACCSL-RAKRRWCLSGT 548 (907)
Q Consensus 512 w~rVIlDEAH~IKN~~S---~~~ka~~~L-~a~~R~~LTGT 548 (907)
.++|||||.|.+.+... ..+..+..+ .....+++|++
T Consensus 203 ~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~ 243 (445)
T PRK12422 203 VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISST 243 (445)
T ss_pred CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecC
Confidence 46899999999976432 122222223 23467888885
No 352
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=25.36 E-value=4e+02 Score=35.19 Aligned_cols=50 Identities=30% Similarity=0.286 Sum_probs=33.1
Q ss_pred cEEEEccCcccCCcchHHHHHHHhh-hcCceEEEeccCcccchhhhhhhHHhh
Q 002565 513 FRVVLDEAQTIKNHRTQVARACCSL-RAKRRWCLSGTPIQNSIDDLYSYFRFL 564 (907)
Q Consensus 513 ~rVIlDEAH~IKN~~S~~~ka~~~L-~a~~R~~LTGTPiqN~l~EL~sll~fL 564 (907)
++||||||..+-.. ...+.+..+ .+..+++|-|=|-|-..-+-=..|+.|
T Consensus 470 ~vlVIDEAsMv~~~--~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG~~f~~l 520 (1102)
T PRK13826 470 TVFVLDEAGMVASR--QMALFVEAVTRAGAKLVLVGDPEQLQPIEAGAAFRAI 520 (1102)
T ss_pred cEEEEECcccCCHH--HHHHHHHHHHhcCCEEEEECCHHHcCCCCCCcHHHHH
Confidence 47999999999432 233444444 467899999999887654444444443
No 353
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=25.19 E-value=1.6e+02 Score=36.33 Aligned_cols=47 Identities=17% Similarity=0.172 Sum_probs=35.4
Q ss_pred eEEEEecchhhHHHHHHHHHhCCCe-EEEEEccCCHHHHHHHHHHhcCCCC
Q 002565 854 KSIVFSQWTRMLDLVENSLNQHCIQ-YRRLDGTMSLPARDRAVKDFNTDRE 903 (907)
Q Consensus 854 KVIVFSQft~~Ld~Le~~L~~~Gi~-~~rLdGsms~~~R~~~I~~F~~dp~ 903 (907)
++|||...-.+|..+...|...... .+...|.. .+.+.++.|....+
T Consensus 481 ~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~---~~~~~l~~f~~~~~ 528 (654)
T COG1199 481 GVLVLFPSYEYLKRVAERLKDERSTLPVLTQGED---EREELLEKFKASGE 528 (654)
T ss_pred CEEEEeccHHHHHHHHHHHhhcCccceeeecCCC---cHHHHHHHHHHhcC
Confidence 7888888778889999999877663 45555554 45589999997765
No 354
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=25.13 E-value=30 Score=30.11 Aligned_cols=31 Identities=26% Similarity=0.714 Sum_probs=24.1
Q ss_pred cccccCcccchhhhhhhccCC--CCCCCCcccccc
Q 002565 732 VVTMCGHVFCYQCASEYITGD--DNMCPAPRCKEQ 764 (907)
Q Consensus 732 vit~C~H~fC~~Ci~~~i~~~--~~~CP~~~Cr~~ 764 (907)
|...|.|.|-.-||.+++... ...|| -||+.
T Consensus 47 v~G~C~h~fh~hCI~~wl~~~tsq~~CP--mcRq~ 79 (84)
T KOG1493|consen 47 VWGYCLHAFHAHCILKWLNTPTSQGQCP--MCRQT 79 (84)
T ss_pred HHHHHHHHHHHHHHHHHhcCccccccCC--cchhe
Confidence 456799999999999988644 56788 47654
No 355
>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=25.02 E-value=1.4e+02 Score=26.06 Aligned_cols=51 Identities=14% Similarity=0.255 Sum_probs=26.5
Q ss_pred eEEEeChhh-HHHH-HHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecch
Q 002565 387 TLVVCPASV-LRQW-ARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYS 441 (907)
Q Consensus 387 tLIV~P~sl-l~qW-~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~ 441 (907)
+|||||... ..+- ...++++++.. .....+-...-.. ....++|+||||-.
T Consensus 2 ilvvC~~G~~tS~ll~~kl~~~f~~~-~i~~~~~~~~~~~---~~~~~~DlIisT~~ 54 (86)
T cd05563 2 ILAVCGSGLGSSLMLKMNVEKVLKEL-GIEAEVEHTDLGS---AKASSADIIVTSKD 54 (86)
T ss_pred EEEECCCCccHHHHHHHHHHHHHHHC-CCcEEEEEecccc---cCCCCCCEEEEchh
Confidence 799999754 2232 33565655421 2222221111111 12468999999985
No 356
>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=24.87 E-value=1.1e+02 Score=33.26 Aligned_cols=38 Identities=24% Similarity=0.242 Sum_probs=23.6
Q ss_pred CchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhh
Q 002565 275 LLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQR 321 (907)
Q Consensus 275 L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~ 321 (907)
|-+-|...+.+ .. +.. -|.|= .|.|||.+++.-+..+.
T Consensus 1 l~~eQ~~~i~~-~~---~~~----lV~a~-AGSGKT~~l~~ri~~ll 38 (315)
T PF00580_consen 1 LTDEQRRIIRS-TE---GPL----LVNAG-AGSGKTTTLLERIAYLL 38 (315)
T ss_dssp S-HHHHHHHHS--S---SEE----EEEE--TTSSHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC-CC---CCE----EEEeC-CCCCchHHHHHHHHHhh
Confidence 45678888877 31 111 14443 79999999888776543
No 357
>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=24.55 E-value=96 Score=27.81 Aligned_cols=35 Identities=17% Similarity=0.132 Sum_probs=29.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhCCCeEEEEEccCC
Q 002565 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMS 887 (907)
Q Consensus 853 ~KVIVFSQft~~Ld~Le~~L~~~Gi~~~rLdGsms 887 (907)
.+|||+|..-..-......|++.|+....|.|++.
T Consensus 62 ~~ivv~C~~G~rs~~aa~~L~~~G~~~~~l~GG~~ 96 (100)
T cd01523 62 QEVTVICAKEGSSQFVAELLAERGYDVDYLAGGMK 96 (100)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHcCceeEEeCCcHH
Confidence 48899988766667788899999999888999874
No 358
>cd01520 RHOD_YbbB Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB.
Probab=24.04 E-value=1.4e+02 Score=28.46 Aligned_cols=35 Identities=14% Similarity=0.099 Sum_probs=26.4
Q ss_pred ceEEEEecch-hhHHHHHHHHHhCCCeEEEEEccCC
Q 002565 853 IKSIVFSQWT-RMLDLVENSLNQHCIQYRRLDGTMS 887 (907)
Q Consensus 853 ~KVIVFSQft-~~Ld~Le~~L~~~Gi~~~rLdGsms 887 (907)
.+|||+|+.. ..-......|+..|+++..|+|++.
T Consensus 87 ~~vvvyC~~~G~rs~~a~~~L~~~G~~v~~L~GG~~ 122 (128)
T cd01520 87 PKLLIYCARGGMRSQSLAWLLESLGIDVPLLEGGYK 122 (128)
T ss_pred CeEEEEeCCCCccHHHHHHHHHHcCCceeEeCCcHH
Confidence 4899999742 2334555788888999999999974
No 359
>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=22.81 E-value=1.2e+02 Score=26.75 Aligned_cols=51 Identities=22% Similarity=0.308 Sum_probs=30.5
Q ss_pred eEEEeChh-----hH-HHHHHHHHHhCCCCCCeEEEEEeCCCCCCCccccCCCcEEEecchhh
Q 002565 387 TLVVCPAS-----VL-RQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIV 443 (907)
Q Consensus 387 tLIV~P~s-----ll-~qW~~Ei~k~~~~~~~l~V~v~~G~~r~~~~~~l~~~dVVItTY~~l 443 (907)
+||||+.. ++ ..-++.+++. .+.+.+.++. .........++|+||++.+.-
T Consensus 2 IlvvC~~Gi~TS~~~~~~i~~~~~~~-----gi~~~~~~~~-~~~~~~~~~~~D~il~~~~i~ 58 (90)
T PF02302_consen 2 ILVVCGSGIGTSLMVANKIKKALKEL-----GIEVEVSAGS-ILEVEEIADDADLILLTPQIA 58 (90)
T ss_dssp EEEEESSSSHHHHHHHHHHHHHHHHT-----TECEEEEEEE-TTTHHHHHTT-SEEEEEESSG
T ss_pred EEEECCChHHHHHHHHHHHHHHHHhc-----cCceEEEEec-ccccccccCCCcEEEEcCccc
Confidence 79999964 23 3344444443 3666666666 222333456799999998654
No 360
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=22.46 E-value=1.3e+02 Score=35.15 Aligned_cols=22 Identities=27% Similarity=0.336 Sum_probs=17.0
Q ss_pred eeecCCCCchHHHHHHHHHHhh
Q 002565 300 ILADDQGLGKTISIIALIQMQR 321 (907)
Q Consensus 300 ILADeMGLGKTiqaIali~~~~ 321 (907)
+++==+|-|||-++-=|..+++
T Consensus 104 mmvGLQGsGKTTt~~KLA~~lk 125 (451)
T COG0541 104 LMVGLQGSGKTTTAGKLAKYLK 125 (451)
T ss_pred EEEeccCCChHhHHHHHHHHHH
Confidence 5666789999999977776654
No 361
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.22 E-value=1.4e+02 Score=31.35 Aligned_cols=46 Identities=24% Similarity=0.725 Sum_probs=33.3
Q ss_pred cccccccCCCCCC--ccccccCcccchhhhhhhcc-------CCCCCCCCccccccc
Q 002565 718 SAICCVCSDPPED--SVVTMCGHVFCYQCASEYIT-------GDDNMCPAPRCKEQL 765 (907)
Q Consensus 718 ~~~C~iC~d~~e~--pvit~C~H~fC~~Ci~~~i~-------~~~~~CP~~~Cr~~l 765 (907)
...|..|.-+.+. -+...|.|+|--.|+.+.-. -...+||+ |...|
T Consensus 50 ~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~--Cs~ei 104 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPC--CSQEI 104 (299)
T ss_pred CCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCC--CCCcc
Confidence 4569999988754 46678999999999987532 12458995 66554
No 362
>CHL00095 clpC Clp protease ATP binding subunit
Probab=21.68 E-value=2.1e+02 Score=36.51 Aligned_cols=22 Identities=36% Similarity=0.424 Sum_probs=18.0
Q ss_pred CceeecCCCCchHHHHHHHHHH
Q 002565 298 GGILADDQGLGKTISIIALIQM 319 (907)
Q Consensus 298 GGILADeMGLGKTiqaIali~~ 319 (907)
+-||-=+.|.|||..+-++...
T Consensus 202 n~lL~G~pGvGKTal~~~la~~ 223 (821)
T CHL00095 202 NPILIGEPGVGKTAIAEGLAQR 223 (821)
T ss_pred CeEEECCCCCCHHHHHHHHHHH
Confidence 4588889999999988777653
No 363
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=21.39 E-value=59 Score=36.16 Aligned_cols=43 Identities=19% Similarity=0.155 Sum_probs=26.9
Q ss_pred cccccccEEEEccCccc-CCcchHHHH---HHHhhhcC--ceEEEeccC
Q 002565 507 LAKVGWFRVVLDEAQTI-KNHRTQVAR---ACCSLRAK--RRWCLSGTP 549 (907)
Q Consensus 507 L~~~~w~rVIlDEAH~I-KN~~S~~~k---a~~~L~a~--~R~~LTGTP 549 (907)
|..++-.++||||.|++ .....+... +++.|... --+++.||+
T Consensus 141 lr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~ 189 (302)
T PF05621_consen 141 LRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR 189 (302)
T ss_pred HHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence 66778889999999996 443333333 33334332 346677876
No 364
>PRK11054 helD DNA helicase IV; Provisional
Probab=21.33 E-value=1.6e+02 Score=36.83 Aligned_cols=40 Identities=25% Similarity=0.041 Sum_probs=28.5
Q ss_pred ccCchHHHHHHHHHHHhhhccccccCceeecCCCCchHHHHHHHHHHhh
Q 002565 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQR 321 (907)
Q Consensus 273 ~~L~phQ~~gv~wml~~e~~~~~~~GGILADeMGLGKTiqaIali~~~~ 321 (907)
.+|-+-|+.+|..-. . .-.|+| -.|.|||.++++-+.++.
T Consensus 195 ~~L~~~Q~~av~~~~---~-----~~lV~a-gaGSGKT~vl~~r~ayLl 234 (684)
T PRK11054 195 SPLNPSQARAVVNGE---D-----SLLVLA-GAGSGKTSVLVARAGWLL 234 (684)
T ss_pred CCCCHHHHHHHhCCC---C-----CeEEEE-eCCCCHHHHHHHHHHHHH
Confidence 469999999996332 1 113555 489999999988886653
No 365
>PTZ00062 glutaredoxin; Provisional
Probab=21.27 E-value=4.1e+02 Score=27.88 Aligned_cols=50 Identities=18% Similarity=0.226 Sum_probs=37.1
Q ss_pred ceEEEEec------chhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcCCCC
Q 002565 853 IKSIVFSQ------WTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDRE 903 (907)
Q Consensus 853 ~KVIVFSQ------ft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~dp~ 903 (907)
.+|+||+. +=.+-..+...|+..|+.|..+|=....+.|+.+. ++..-+.
T Consensus 113 ~~Vvvf~Kg~~~~p~C~~C~~~k~~L~~~~i~y~~~DI~~d~~~~~~l~-~~sg~~T 168 (204)
T PTZ00062 113 HKILLFMKGSKTFPFCRFSNAVVNMLNSSGVKYETYNIFEDPDLREELK-VYSNWPT 168 (204)
T ss_pred CCEEEEEccCCCCCCChhHHHHHHHHHHcCCCEEEEEcCCCHHHHHHHH-HHhCCCC
Confidence 39999988 44566678889999999999998877766666544 5554443
No 366
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=21.11 E-value=75 Score=37.33 Aligned_cols=52 Identities=21% Similarity=0.233 Sum_probs=36.4
Q ss_pred ccccEEEEccCcccCCcchHHHHHHHhh-------hcC-ceEEEeccCcccchhhhhhhHHhhc
Q 002565 510 VGWFRVVLDEAQTIKNHRTQVARACCSL-------RAK-RRWCLSGTPIQNSIDDLYSYFRFLK 565 (907)
Q Consensus 510 ~~w~rVIlDEAH~IKN~~S~~~ka~~~L-------~a~-~R~~LTGTPiqN~l~EL~sll~fL~ 565 (907)
-.|.++||||||. +|..+..+..| +.+ ..+++|+|-....+..+|+-.-++.
T Consensus 158 ~~y~viiLDeahE----RtlATDiLmGllk~v~~~rpdLk~vvmSatl~a~Kfq~yf~n~Pll~ 217 (699)
T KOG0925|consen 158 GRYGVIILDEAHE----RTLATDILMGLLKEVVRNRPDLKLVVMSATLDAEKFQRYFGNAPLLA 217 (699)
T ss_pred ccccEEEechhhh----hhHHHHHHHHHHHHHHhhCCCceEEEeecccchHHHHHHhCCCCeee
Confidence 3589999999995 45555555444 223 3578899988888888877655554
No 367
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.17 E-value=59 Score=27.93 Aligned_cols=36 Identities=28% Similarity=0.668 Sum_probs=24.6
Q ss_pred ccccccCcccchhhhhhhccCCCCCCCCcccccccCccccc
Q 002565 731 SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVF 771 (907)
Q Consensus 731 pvit~C~H~fC~~Ci~~~i~~~~~~CP~~~Cr~~l~~~~~~ 771 (907)
+.|-.=.+.||.+|.+..+.+ .|| +|+..+....+-
T Consensus 22 A~ICtfEcTFCadCae~~l~g---~CP--nCGGelv~RP~R 57 (84)
T COG3813 22 ARICTFECTFCADCAENRLHG---LCP--NCGGELVARPIR 57 (84)
T ss_pred eeEEEEeeehhHhHHHHhhcC---cCC--CCCchhhcCcCC
Confidence 344344789999999987754 687 788776554433
No 368
>PRK10824 glutaredoxin-4; Provisional
Probab=20.08 E-value=3.5e+02 Score=25.66 Aligned_cols=46 Identities=7% Similarity=0.084 Sum_probs=31.8
Q ss_pred eEEEEec------chhhHHHHHHHHHhCCCeEEEEEccCCHHHHHHHHHHhcC
Q 002565 854 KSIVFSQ------WTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNT 900 (907)
Q Consensus 854 KVIVFSQ------ft~~Ld~Le~~L~~~Gi~~~rLdGsms~~~R~~~I~~F~~ 900 (907)
+|+||+- |=.+=..+...|+..|+.|..++=.-..+.|. .+.++..
T Consensus 16 ~Vvvf~Kg~~~~p~Cpyc~~ak~lL~~~~i~~~~idi~~d~~~~~-~l~~~sg 67 (115)
T PRK10824 16 PILLYMKGSPKLPSCGFSAQAVQALSACGERFAYVDILQNPDIRA-ELPKYAN 67 (115)
T ss_pred CEEEEECCCCCCCCCchHHHHHHHHHHcCCCceEEEecCCHHHHH-HHHHHhC
Confidence 8999998 44577788888999998877666544444444 4555543
No 369
>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=20.07 E-value=1.4e+02 Score=27.39 Aligned_cols=35 Identities=9% Similarity=0.033 Sum_probs=28.1
Q ss_pred ceEEEEecchh--hHHHHHHHHHhCCCeEEEEEccCC
Q 002565 853 IKSIVFSQWTR--MLDLVENSLNQHCIQYRRLDGTMS 887 (907)
Q Consensus 853 ~KVIVFSQft~--~Ld~Le~~L~~~Gi~~~rLdGsms 887 (907)
.+|||+|.-.. ....+...|...|+++..|+|++.
T Consensus 65 ~~vvvyc~~g~~~~s~~~a~~l~~~G~~v~~l~GG~~ 101 (110)
T cd01521 65 KLFVVYCDGPGCNGATKAALKLAELGFPVKEMIGGLD 101 (110)
T ss_pred CeEEEEECCCCCchHHHHHHHHHHcCCeEEEecCCHH
Confidence 48999988543 566777889999999889999874
Done!