Query 032027
Match_columns 148
No_of_seqs 169 out of 1301
Neff 9.0
Searched_HMMs 46136
Date Fri Mar 29 08:36:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032027.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032027hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0384 Chromodomain-helicase 100.0 8.8E-33 1.9E-37 232.0 15.7 144 1-144 711-858 (1373)
2 PLN03142 Probable chromatin-re 100.0 3.9E-32 8.5E-37 231.0 17.0 125 1-125 499-624 (1033)
3 KOG0390 DNA repair protein, SN 100.0 3.1E-32 6.7E-37 224.1 13.5 130 2-131 608-738 (776)
4 KOG0385 Chromatin remodeling c 100.0 4.9E-32 1.1E-36 219.9 14.3 124 1-124 499-623 (971)
5 KOG0387 Transcription-coupled 100.0 5.5E-32 1.2E-36 220.1 13.2 124 1-124 558-682 (923)
6 KOG0389 SNF2 family DNA-depend 100.0 8.4E-32 1.8E-36 218.9 14.2 145 1-148 789-933 (941)
7 KOG0391 SNF2 family DNA-depend 100.0 1E-30 2.2E-35 218.8 12.8 127 1-127 1288-1414(1958)
8 KOG0392 SNF2 family DNA-depend 100.0 2.5E-30 5.4E-35 217.2 14.0 125 1-125 1352-1479(1549)
9 KOG1002 Nucleotide excision re 100.0 7E-30 1.5E-34 200.1 12.1 139 1-141 650-788 (791)
10 KOG0388 SNF2 family DNA-depend 100.0 6.3E-28 1.4E-32 195.2 13.1 124 1-125 1056-1179(1185)
11 KOG4439 RNA polymerase II tran 99.9 2.2E-26 4.7E-31 185.8 14.0 124 1-124 758-882 (901)
12 COG0553 HepA Superfamily II DN 99.9 1.7E-25 3.7E-30 189.5 15.2 123 1-123 723-845 (866)
13 PRK04914 ATP-dependent helicas 99.9 8.9E-26 1.9E-30 191.6 9.6 122 2-124 506-629 (956)
14 KOG1015 Transcription regulato 99.9 2.5E-25 5.4E-30 184.2 9.7 112 12-123 1187-1300(1567)
15 KOG1000 Chromatin remodeling p 99.9 4.3E-25 9.3E-30 173.1 10.1 123 1-123 504-626 (689)
16 KOG0386 Chromatin remodeling c 99.9 1.8E-23 3.8E-28 174.0 12.4 124 1-124 738-862 (1157)
17 KOG1001 Helicase-like transcri 99.9 2.1E-23 4.7E-28 171.9 2.5 123 1-123 551-673 (674)
18 KOG1016 Predicted DNA helicase 99.8 4.8E-21 1E-25 156.7 8.7 125 2-126 732-875 (1387)
19 PF00271 Helicase_C: Helicase 99.8 2.1E-20 4.7E-25 115.4 6.4 78 7-86 1-78 (78)
20 smart00490 HELICc helicase sup 99.8 3.1E-18 6.8E-23 105.6 7.8 81 4-86 2-82 (82)
21 cd00079 HELICc Helicase superf 99.7 2.3E-17 4.9E-22 110.3 7.8 91 2-94 41-131 (131)
22 PRK13766 Hef nuclease; Provisi 99.7 1.5E-16 3.3E-21 134.6 13.6 111 2-117 378-496 (773)
23 KOG0328 Predicted ATP-dependen 99.6 9.4E-16 2E-20 114.0 7.8 96 2-101 279-374 (400)
24 TIGR00603 rad25 DNA repair hel 99.6 9.3E-15 2E-19 121.7 12.6 102 5-109 509-616 (732)
25 PTZ00110 helicase; Provisional 99.6 5.3E-15 1.2E-19 121.0 11.0 95 2-100 390-484 (545)
26 KOG0331 ATP-dependent RNA heli 99.6 5.2E-15 1.1E-19 118.5 9.6 106 2-111 354-461 (519)
27 PRK04837 ATP-dependent RNA hel 99.6 3.4E-15 7.4E-20 118.7 7.3 94 2-99 268-361 (423)
28 COG0513 SrmB Superfamily II DN 99.6 1.1E-14 2.3E-19 118.4 10.0 107 2-113 286-392 (513)
29 KOG0333 U5 snRNP-like RNA heli 99.6 1.5E-14 3.2E-19 114.9 10.0 95 2-100 530-624 (673)
30 TIGR00614 recQ_fam ATP-depende 99.6 1.2E-14 2.6E-19 117.0 9.7 91 2-94 239-329 (470)
31 KOG0330 ATP-dependent RNA heli 99.6 1.8E-14 4E-19 110.9 9.3 93 3-99 314-406 (476)
32 PRK10590 ATP-dependent RNA hel 99.6 1.1E-14 2.5E-19 116.8 8.6 103 3-111 259-361 (456)
33 PRK11776 ATP-dependent RNA hel 99.6 3.3E-14 7.1E-19 114.2 11.1 95 2-100 255-349 (460)
34 PRK11192 ATP-dependent RNA hel 99.6 2.3E-14 5E-19 114.2 9.5 90 2-93 258-347 (434)
35 PLN00206 DEAD-box ATP-dependen 99.5 3.2E-14 7E-19 115.8 9.8 94 3-100 381-475 (518)
36 PHA02558 uvsW UvsW helicase; P 99.5 6.4E-14 1.4E-18 113.6 10.7 99 2-101 357-456 (501)
37 PRK01297 ATP-dependent RNA hel 99.5 1.1E-13 2.3E-18 111.7 11.6 94 2-99 348-441 (475)
38 PRK04537 ATP-dependent RNA hel 99.5 5.1E-14 1.1E-18 115.8 9.5 93 2-98 270-362 (572)
39 PRK11057 ATP-dependent DNA hel 99.5 8.4E-14 1.8E-18 115.2 10.5 89 2-92 249-337 (607)
40 COG1111 MPH1 ERCC4-like helica 99.5 2.7E-13 5.9E-18 107.4 12.7 117 3-124 380-505 (542)
41 PLN03137 ATP-dependent DNA hel 99.5 7.7E-14 1.7E-18 119.9 9.9 92 2-95 693-784 (1195)
42 TIGR01389 recQ ATP-dependent D 99.5 1.6E-13 3.5E-18 113.2 9.8 89 3-93 238-326 (591)
43 PRK11634 ATP-dependent RNA hel 99.5 5.2E-13 1.1E-17 110.8 11.8 89 3-93 259-347 (629)
44 PTZ00424 helicase 45; Provisio 99.5 1.9E-13 4.2E-18 107.6 8.4 95 2-100 280-374 (401)
45 KOG0298 DEAD box-containing he 99.5 3.1E-14 6.7E-19 121.7 3.5 110 2-117 1234-1343(1394)
46 KOG0335 ATP-dependent RNA heli 99.4 6.7E-13 1.4E-17 105.2 8.9 111 2-114 350-460 (482)
47 KOG0332 ATP-dependent RNA heli 99.4 2.1E-12 4.5E-17 99.3 10.1 92 3-98 344-441 (477)
48 KOG0341 DEAD-box protein abstr 99.4 1.2E-12 2.6E-17 101.3 7.8 87 2-90 434-520 (610)
49 KOG0342 ATP-dependent RNA heli 99.3 7.9E-12 1.7E-16 98.7 9.8 103 3-111 344-446 (543)
50 COG0514 RecQ Superfamily II DN 99.3 1.3E-11 2.8E-16 100.7 10.1 95 2-100 243-337 (590)
51 KOG0348 ATP-dependent RNA heli 99.3 7.2E-12 1.6E-16 100.1 8.2 96 13-114 471-566 (708)
52 TIGR03817 DECH_helic helicase/ 99.3 9.8E-12 2.1E-16 105.0 9.2 92 13-108 303-394 (742)
53 KOG0336 ATP-dependent RNA heli 99.3 5.3E-12 1.1E-16 98.3 6.4 107 2-112 478-586 (629)
54 KOG0340 ATP-dependent RNA heli 99.3 2.2E-11 4.8E-16 93.1 8.2 89 3-93 268-357 (442)
55 KOG0345 ATP-dependent RNA heli 99.3 1.6E-11 3.4E-16 96.8 7.4 96 12-113 280-375 (567)
56 TIGR01587 cas3_core CRISPR-ass 99.2 9.5E-11 2.1E-15 91.2 10.9 103 3-110 236-351 (358)
57 KOG0327 Translation initiation 99.2 4.7E-11 1E-15 91.9 8.7 95 2-100 276-370 (397)
58 KOG0326 ATP-dependent RNA heli 99.2 7.3E-12 1.6E-16 94.9 2.5 86 2-89 335-420 (459)
59 TIGR00643 recG ATP-dependent D 99.2 2.7E-10 5.9E-15 94.9 11.9 86 6-93 473-561 (630)
60 KOG0344 ATP-dependent RNA heli 99.2 8.8E-11 1.9E-15 94.5 8.1 90 5-98 403-493 (593)
61 TIGR00580 mfd transcription-re 99.2 3.6E-10 7.8E-15 97.2 12.0 93 3-99 674-769 (926)
62 KOG0350 DEAD-box ATP-dependent 99.2 1.1E-10 2.5E-15 92.6 8.1 104 4-113 448-551 (620)
63 PRK10917 ATP-dependent DNA hel 99.2 4.1E-10 8.8E-15 94.6 11.8 85 5-91 495-582 (681)
64 KOG0338 ATP-dependent RNA heli 99.1 1.7E-10 3.6E-15 92.0 7.8 103 3-111 440-542 (691)
65 PRK12898 secA preprotein trans 99.1 2E-10 4.4E-15 95.1 8.3 101 2-111 486-594 (656)
66 PRK09200 preprotein translocas 99.1 2.5E-10 5.5E-15 96.3 8.6 100 2-110 441-548 (790)
67 PRK13767 ATP-dependent helicas 99.1 5.1E-10 1.1E-14 96.3 10.6 81 13-95 314-395 (876)
68 PRK10689 transcription-repair 99.1 4.4E-10 9.5E-15 98.5 9.8 92 3-98 823-917 (1147)
69 KOG0343 RNA Helicase [RNA proc 99.1 7.7E-10 1.7E-14 89.0 10.2 105 5-114 329-435 (758)
70 TIGR00631 uvrb excinuclease AB 99.1 7.6E-10 1.6E-14 92.4 10.5 103 2-109 455-564 (655)
71 KOG0347 RNA helicase [RNA proc 99.1 8.9E-11 1.9E-15 94.2 4.1 117 3-122 477-613 (731)
72 PF13871 Helicase_C_4: Helicas 99.1 6.9E-10 1.5E-14 83.4 7.8 96 30-127 52-155 (278)
73 KOG4284 DEAD box protein [Tran 99.1 6.6E-10 1.4E-14 90.9 8.1 85 3-89 286-370 (980)
74 TIGR00963 secA preprotein tran 99.0 1.1E-09 2.5E-14 91.5 9.3 88 2-93 418-512 (745)
75 PRK05298 excinuclease ABC subu 99.0 3.3E-09 7.1E-14 88.8 11.5 92 2-98 459-555 (652)
76 COG1061 SSL2 DNA or RNA helica 99.0 3E-09 6.5E-14 85.3 10.3 106 4-112 298-406 (442)
77 TIGR02621 cas3_GSU0051 CRISPR- 99.0 4E-09 8.6E-14 89.5 10.6 89 3-96 286-390 (844)
78 KOG0339 ATP-dependent RNA heli 99.0 1.5E-09 3.2E-14 86.7 7.1 96 3-102 482-577 (731)
79 TIGR03714 secA2 accessory Sec 99.0 2.8E-09 6E-14 89.6 8.3 85 2-91 437-530 (762)
80 TIGR01970 DEAH_box_HrpB ATP-de 98.9 2.7E-09 5.8E-14 91.0 8.0 93 3-100 223-336 (819)
81 KOG0349 Putative DEAD-box RNA 98.9 3.5E-09 7.5E-14 83.5 7.4 82 3-86 519-603 (725)
82 PRK12906 secA preprotein trans 98.9 5.7E-09 1.2E-13 88.0 8.6 87 2-92 453-547 (796)
83 PHA02653 RNA helicase NPH-II; 98.9 5.6E-09 1.2E-13 87.4 8.0 94 3-102 409-516 (675)
84 PRK11664 ATP-dependent RNA hel 98.8 7.2E-09 1.6E-13 88.4 6.9 94 3-101 226-340 (812)
85 PRK02362 ski2-like helicase; P 98.8 1.9E-08 4.1E-13 85.3 8.7 83 14-98 304-395 (737)
86 KOG0351 ATP-dependent DNA heli 98.8 8.1E-09 1.7E-13 88.7 6.2 95 2-98 498-592 (941)
87 KOG0334 RNA helicase [RNA proc 98.8 2.2E-08 4.8E-13 85.2 8.7 94 2-99 626-719 (997)
88 KOG0354 DEAD-box like helicase 98.8 7.5E-08 1.6E-12 80.3 11.5 104 11-121 438-549 (746)
89 PRK09751 putative ATP-dependen 98.8 3.8E-08 8.3E-13 87.9 8.7 68 16-85 304-371 (1490)
90 KOG0346 RNA helicase [RNA proc 98.7 2.5E-08 5.4E-13 78.6 5.7 89 4-94 283-406 (569)
91 KOG0953 Mitochondrial RNA heli 98.7 8.4E-08 1.8E-12 77.5 7.8 93 5-98 372-475 (700)
92 PRK12900 secA preprotein trans 98.7 8.7E-08 1.9E-12 82.2 8.3 101 2-111 611-719 (1025)
93 PRK01172 ski2-like helicase; P 98.7 1.4E-07 3E-12 79.4 9.2 73 15-90 287-368 (674)
94 KOG0352 ATP-dependent DNA heli 98.6 5.8E-08 1.3E-12 76.5 5.1 92 3-96 269-360 (641)
95 COG1202 Superfamily II helicas 98.6 1.4E-07 3.1E-12 76.7 7.2 137 2-144 453-595 (830)
96 PRK00254 ski2-like helicase; P 98.6 2.4E-07 5.2E-12 78.5 8.9 84 14-99 296-387 (720)
97 KOG0337 ATP-dependent RNA heli 98.6 3.7E-08 7.9E-13 77.3 3.5 94 3-100 275-368 (529)
98 TIGR01967 DEAH_box_HrpA ATP-de 98.6 1.3E-07 2.8E-12 83.5 6.7 93 3-102 293-406 (1283)
99 KOG1123 RNA polymerase II tran 98.5 1.5E-06 3.2E-11 70.0 11.4 98 5-105 556-658 (776)
100 PRK11448 hsdR type I restricti 98.5 6E-07 1.3E-11 79.1 9.0 80 15-97 733-815 (1123)
101 TIGR00595 priA primosomal prot 98.3 4E-06 8.7E-11 68.5 9.4 96 3-100 272-383 (505)
102 PRK09401 reverse gyrase; Revie 98.3 2E-06 4.4E-11 76.1 8.0 78 2-85 344-431 (1176)
103 PRK05580 primosome assembly pr 98.3 5.4E-06 1.2E-10 70.0 10.2 95 3-99 440-550 (679)
104 PRK13104 secA preprotein trans 98.3 3.2E-06 7E-11 72.3 8.5 100 2-110 457-594 (896)
105 PRK11131 ATP-dependent RNA hel 98.3 2.2E-06 4.7E-11 76.0 7.3 93 3-102 300-413 (1294)
106 PRK12904 preprotein translocas 98.3 5.2E-06 1.1E-10 70.8 8.9 100 2-110 443-580 (830)
107 COG0556 UvrB Helicase subunit 98.3 1.8E-05 3.9E-10 64.2 11.1 115 1-118 458-577 (663)
108 PRK09694 helicase Cas3; Provis 98.2 6.3E-06 1.4E-10 71.1 8.7 82 4-88 575-665 (878)
109 PRK13107 preprotein translocas 98.2 5.5E-06 1.2E-10 70.9 8.0 99 3-110 463-598 (908)
110 PRK14701 reverse gyrase; Provi 98.2 5.5E-06 1.2E-10 75.3 7.6 81 2-88 346-446 (1638)
111 TIGR03158 cas3_cyano CRISPR-as 98.2 4.1E-06 8.8E-11 65.6 6.1 70 3-83 286-357 (357)
112 COG1201 Lhr Lhr-like helicases 98.2 2.3E-05 4.9E-10 66.9 10.5 97 3-105 267-365 (814)
113 COG1200 RecG RecG-like helicas 98.1 2.3E-05 5E-10 65.1 9.4 74 13-88 507-581 (677)
114 TIGR01054 rgy reverse gyrase. 98.0 2E-05 4.3E-10 70.1 7.9 65 2-71 342-410 (1171)
115 COG1203 CRISPR-associated heli 98.0 4E-05 8.6E-10 65.3 9.0 112 5-119 456-571 (733)
116 KOG0353 ATP-dependent DNA heli 97.9 2.8E-05 6.1E-10 61.0 5.7 108 3-112 331-492 (695)
117 COG1197 Mfd Transcription-repa 97.9 0.0001 2.2E-09 64.5 9.4 92 4-99 818-912 (1139)
118 KOG0329 ATP-dependent RNA heli 97.5 0.00011 2.4E-09 54.9 3.4 45 45-89 302-346 (387)
119 PRK12903 secA preprotein trans 97.5 0.00047 1E-08 59.2 7.5 100 3-111 440-547 (925)
120 KOG0383 Predicted helicase [Ge 97.4 9.7E-05 2.1E-09 62.0 2.9 53 1-54 643-696 (696)
121 KOG1513 Nuclear helicase MOP-3 97.4 0.00026 5.6E-09 60.1 4.9 99 31-131 849-955 (1300)
122 TIGR00348 hsdR type I site-spe 97.3 0.0017 3.6E-08 55.0 9.0 68 29-98 580-649 (667)
123 PRK12326 preprotein translocas 97.3 0.0013 2.8E-08 55.7 8.0 100 3-111 441-555 (764)
124 COG4889 Predicted helicase [Ge 97.3 0.001 2.2E-08 57.4 6.9 84 14-97 500-585 (1518)
125 COG1205 Distinct helicase fami 97.2 0.00088 1.9E-08 58.1 6.0 93 14-110 339-432 (851)
126 PRK12899 secA preprotein trans 97.1 0.0021 4.6E-08 55.8 7.7 99 3-110 582-688 (970)
127 COG4098 comFA Superfamily II D 97.1 0.013 2.8E-07 45.8 10.6 96 3-102 319-418 (441)
128 smart00491 HELICc2 helicase su 97.0 0.0024 5.2E-08 43.7 5.9 68 2-71 4-81 (142)
129 PRK12901 secA preprotein trans 96.9 0.0026 5.6E-08 55.7 6.1 99 3-110 642-748 (1112)
130 KOG0922 DEAH-box RNA helicase 96.7 0.0056 1.2E-07 51.1 6.7 85 16-103 293-393 (674)
131 COG1643 HrpA HrpA-like helicas 96.7 0.0036 7.9E-08 54.1 5.5 96 5-103 275-390 (845)
132 KOG4150 Predicted ATP-dependen 96.6 0.0075 1.6E-07 50.0 6.7 87 16-106 560-646 (1034)
133 PRK13103 secA preprotein trans 96.5 0.0059 1.3E-07 52.9 5.8 99 3-110 463-598 (913)
134 TIGR01407 dinG_rel DnaQ family 96.3 0.014 3.1E-07 50.8 6.9 65 2-71 687-757 (850)
135 PF13307 Helicase_C_2: Helicas 96.2 0.0087 1.9E-07 41.9 4.3 45 25-71 45-93 (167)
136 smart00492 HELICc3 helicase su 96.1 0.041 8.9E-07 37.6 7.3 68 2-71 4-80 (141)
137 PRK08074 bifunctional ATP-depe 96.1 0.024 5.1E-07 49.9 7.4 44 26-71 791-836 (928)
138 COG1204 Superfamily II helicas 96.1 0.005 1.1E-07 52.9 2.9 69 18-88 319-396 (766)
139 PF06862 DUF1253: Protein of u 95.9 0.093 2E-06 42.4 9.4 94 4-98 315-413 (442)
140 COG1198 PriA Primosomal protei 95.8 0.072 1.6E-06 45.6 8.5 97 3-101 494-606 (730)
141 COG4096 HsdR Type I site-speci 95.7 0.021 4.6E-07 48.9 5.1 83 13-97 455-545 (875)
142 PF11496 HDA2-3: Class II hist 95.6 0.071 1.5E-06 40.9 7.3 109 2-112 130-257 (297)
143 COG1199 DinG Rad3-related DNA 95.6 0.055 1.2E-06 45.7 7.3 66 2-71 492-560 (654)
144 TIGR00596 rad1 DNA repair prot 95.5 0.047 1E-06 47.4 6.6 60 61-123 478-538 (814)
145 CHL00122 secA preprotein trans 95.4 0.096 2.1E-06 45.5 8.2 52 3-57 438-490 (870)
146 KOG0949 Predicted helicase, DE 95.4 0.033 7E-07 48.9 5.2 78 11-93 962-1041(1330)
147 KOG0924 mRNA splicing factor A 95.1 0.037 8.1E-07 46.9 4.7 93 13-108 597-705 (1042)
148 KOG0952 DNA/RNA helicase MER3/ 94.9 0.11 2.3E-06 46.0 7.0 71 18-90 401-481 (1230)
149 KOG0950 DNA polymerase theta/e 94.7 0.042 9.1E-07 47.8 4.0 70 15-87 524-598 (1008)
150 PRK07246 bifunctional ATP-depe 94.6 0.18 3.9E-06 44.0 7.8 65 2-71 660-726 (820)
151 TIGR00604 rad3 DNA repair heli 94.5 0.14 3.1E-06 43.8 6.8 44 26-70 565-615 (705)
152 PRK11747 dinG ATP-dependent DN 94.1 0.19 4.1E-06 43.0 6.8 65 2-71 547-617 (697)
153 KOG0926 DEAH-box RNA helicase 93.5 0.044 9.6E-07 47.2 1.9 80 15-99 606-703 (1172)
154 KOG0923 mRNA splicing factor A 92.0 0.51 1.1E-05 40.2 6.0 80 14-101 507-607 (902)
155 PF10593 Z1: Z1 domain; Inter 91.8 2.1 4.5E-05 31.9 8.6 108 3-119 101-211 (239)
156 KOG0947 Cytoplasmic exosomal R 91.8 0.58 1.3E-05 41.4 6.3 80 10-94 629-717 (1248)
157 TIGR03117 cas_csf4 CRISPR-asso 91.0 1.7 3.6E-05 37.0 8.2 70 3-75 484-566 (636)
158 KOG0951 RNA helicase BRR2, DEA 90.9 0.4 8.7E-06 43.5 4.6 71 13-86 607-688 (1674)
159 COG1110 Reverse gyrase [DNA re 90.9 0.69 1.5E-05 41.1 6.0 62 2-69 351-416 (1187)
160 COG4581 Superfamily II RNA hel 90.1 0.75 1.6E-05 41.0 5.6 81 11-96 444-533 (1041)
161 PRK10917 ATP-dependent DNA hel 88.3 1.9 4.2E-05 36.9 6.8 62 3-65 328-389 (681)
162 KOG0920 ATP-dependent RNA heli 86.4 1.2 2.6E-05 39.4 4.4 85 14-103 445-547 (924)
163 COG0653 SecA Preprotein transl 86.1 7.3 0.00016 34.2 8.9 101 3-112 443-554 (822)
164 TIGR00643 recG ATP-dependent D 85.3 3.3 7E-05 35.2 6.5 61 4-65 303-363 (630)
165 COG0610 Type I site-specific r 84.7 6.5 0.00014 35.2 8.2 68 28-97 580-650 (962)
166 PRK12902 secA preprotein trans 84.0 7.5 0.00016 34.5 8.1 52 3-57 453-505 (939)
167 PF02399 Herpes_ori_bp: Origin 82.3 7 0.00015 34.2 7.2 84 2-94 295-384 (824)
168 COG1200 RecG RecG-like helicas 79.0 8.8 0.00019 32.9 6.6 62 3-65 329-390 (677)
169 TIGR02562 cas3_yersinia CRISPR 77.3 8 0.00017 35.0 6.2 74 13-89 786-883 (1110)
170 KOG0925 mRNA splicing factor A 76.3 3.6 7.8E-05 34.1 3.5 61 42-104 314-391 (699)
171 PF08469 NPHI_C: Nucleoside tr 73.6 13 0.00028 25.5 5.2 34 89-122 9-47 (148)
172 KOG0948 Nuclear exosomal RNA h 72.7 3.1 6.7E-05 36.2 2.5 83 10-97 445-536 (1041)
173 KOG2340 Uncharacterized conser 70.6 16 0.00034 30.8 5.9 79 5-84 568-647 (698)
174 TIGR00580 mfd transcription-re 63.5 24 0.00052 31.6 6.1 60 5-65 520-579 (926)
175 PF12367 PFO_beta_C: Pyruvate 62.6 30 0.00065 20.5 5.0 48 61-109 15-62 (67)
176 PRK15483 type III restriction- 61.1 32 0.00068 31.1 6.4 71 41-112 501-579 (986)
177 KOG3432 Vacuolar H+-ATPase V1 59.7 24 0.00053 23.0 4.1 37 11-47 33-69 (121)
178 TIGR03249 KdgD 5-dehydro-4-deo 58.9 78 0.0017 24.1 9.3 107 3-110 29-151 (296)
179 PF13607 Succ_CoA_lig: Succiny 58.3 55 0.0012 22.1 6.5 71 5-96 17-89 (138)
180 cd03418 GRX_GRXb_1_3_like Glut 58.1 34 0.00074 19.7 6.2 47 3-49 14-60 (75)
181 PF01591 6PF2K: 6-phosphofruct 54.0 20 0.00044 26.4 3.6 45 2-47 84-129 (222)
182 PRK10689 transcription-repair 53.8 45 0.00097 30.8 6.2 58 7-65 671-728 (1147)
183 KOG1133 Helicase of the DEAD s 53.3 33 0.00072 29.8 5.0 42 28-71 672-721 (821)
184 cd00951 KDGDH 5-dehydro-4-deox 46.6 1.3E+02 0.0028 22.9 8.5 107 3-111 24-147 (289)
185 PF12622 NpwBP: mRNA biogenesi 45.6 12 0.00025 20.7 0.9 11 63-73 4-14 (48)
186 PF02310 B12-binding: B12 bind 45.2 78 0.0017 20.1 5.0 34 2-35 17-50 (121)
187 COG0514 RecQ Superfamily II DN 45.2 32 0.00069 29.2 3.8 44 7-51 75-118 (590)
188 COG1110 Reverse gyrase [DNA re 44.4 57 0.0012 29.8 5.2 49 3-52 143-193 (1187)
189 PRK09401 reverse gyrase; Revie 43.9 24 0.00052 32.5 3.1 42 71-117 518-562 (1176)
190 COG1920 Predicted nucleotidylt 42.6 1.3E+02 0.0029 21.9 6.2 83 4-89 75-159 (210)
191 COG0553 HepA Superfamily II DN 42.4 4.5 9.7E-05 35.0 -1.6 40 47-88 485-524 (866)
192 TIGR01101 V_ATP_synt_F vacuola 42.3 51 0.0011 21.7 3.7 36 16-51 36-71 (115)
193 COG2247 LytB Putative cell wal 41.8 68 0.0015 25.2 4.8 43 5-47 92-139 (337)
194 PRK14873 primosome assembly pr 40.9 73 0.0016 27.6 5.4 81 3-94 441-535 (665)
195 PRK03620 5-dehydro-4-deoxygluc 40.9 1.6E+02 0.0035 22.5 8.0 92 3-95 31-139 (303)
196 cd07025 Peptidase_S66 LD-Carbo 40.3 1E+02 0.0022 23.4 5.6 51 2-54 16-74 (282)
197 PRK13556 azoreductase; Provisi 39.1 25 0.00054 25.2 2.1 30 57-86 87-119 (208)
198 PRK05580 primosome assembly pr 38.6 1.9E+02 0.004 25.1 7.5 53 12-67 214-266 (679)
199 cd03030 GRX_SH3BGR Glutaredoxi 38.1 1E+02 0.0022 19.3 5.8 33 4-36 21-53 (92)
200 COG0521 MoaB Molybdopterin bio 38.0 1.4E+02 0.0031 21.0 5.9 52 3-58 30-82 (169)
201 PRK03170 dihydrodipicolinate s 37.9 1.8E+02 0.0038 22.0 7.4 93 3-97 25-136 (292)
202 cd02067 B12-binding B12 bindin 37.9 1E+02 0.0022 19.6 4.7 34 2-35 16-49 (119)
203 TIGR00614 recQ_fam ATP-depende 35.7 1.4E+02 0.0031 24.3 6.2 45 7-52 69-113 (470)
204 cd01542 PBP1_TreR_like Ligand- 35.1 1.5E+02 0.0033 21.1 5.8 37 2-38 18-54 (259)
205 PRK14010 potassium-transportin 34.9 1.2E+02 0.0026 26.4 5.7 62 21-84 485-562 (673)
206 PHA03371 circ protein; Provisi 34.3 36 0.00078 25.3 2.2 45 51-95 30-88 (240)
207 smart00485 XPGN Xeroderma pigm 34.3 82 0.0018 19.5 3.7 31 5-35 63-93 (99)
208 PF02739 5_3_exonuc_N: 5'-3' e 32.8 1.1E+02 0.0023 21.4 4.4 48 2-50 88-135 (169)
209 COG0513 SrmB Superfamily II DN 32.4 1.5E+02 0.0033 24.6 5.9 56 5-65 119-180 (513)
210 cd00408 DHDPS-like Dihydrodipi 31.9 2.2E+02 0.0047 21.2 8.4 93 4-97 22-132 (281)
211 PLN02417 dihydrodipicolinate s 31.7 2.3E+02 0.0049 21.4 8.1 91 3-97 25-134 (280)
212 PRK01122 potassium-transportin 31.6 1.4E+02 0.003 26.0 5.6 62 21-84 489-566 (679)
213 PF13167 GTP-bdg_N: GTP-bindin 31.4 1.4E+02 0.003 18.9 4.8 34 2-35 46-79 (95)
214 cd07062 Peptidase_S66_mccF_lik 31.2 2E+02 0.0044 22.0 6.1 52 3-56 21-80 (308)
215 PRK13555 azoreductase; Provisi 30.6 42 0.00091 24.3 2.1 30 57-86 87-119 (208)
216 PRK09570 rpoH DNA-directed RNA 30.4 1.3E+02 0.0029 18.4 4.3 43 20-63 15-58 (79)
217 cd00950 DHDPS Dihydrodipicolin 30.4 2.3E+02 0.0051 21.2 7.8 93 4-97 25-135 (284)
218 COG1205 Distinct helicase fami 29.8 92 0.002 27.8 4.4 45 3-52 133-179 (851)
219 COG1182 AcpD Acyl carrier prot 29.7 64 0.0014 23.5 2.9 32 57-88 85-119 (202)
220 TIGR00595 priA primosomal prot 29.6 2.9E+02 0.0062 23.0 7.0 58 7-67 43-101 (505)
221 TIGR00683 nanA N-acetylneurami 29.4 2.6E+02 0.0055 21.3 7.6 105 5-110 26-152 (290)
222 KOG0701 dsRNA-specific nucleas 29.0 18 0.00038 34.3 -0.1 58 28-87 343-400 (1606)
223 KOG0352 ATP-dependent DNA heli 28.6 51 0.0011 27.2 2.4 46 7-52 79-125 (641)
224 PRK10909 rsmD 16S rRNA m(2)G96 28.0 1.4E+02 0.0031 21.4 4.5 28 61-88 122-149 (199)
225 COG0149 TpiA Triosephosphate i 27.8 1.1E+02 0.0023 23.2 3.8 16 54-70 154-169 (251)
226 PF00456 Transketolase_N: Tran 27.4 1.2E+02 0.0026 23.8 4.2 79 5-85 198-277 (332)
227 KOG4238 Bifunctional ATP sulfu 27.1 67 0.0015 25.9 2.8 33 4-36 69-112 (627)
228 TIGR00674 dapA dihydrodipicoli 27.0 2.8E+02 0.006 20.9 7.2 93 4-97 23-133 (285)
229 cd07014 S49_SppA Signal peptid 26.2 1.4E+02 0.003 20.7 4.1 63 7-69 33-101 (177)
230 COG0329 DapA Dihydrodipicolina 26.0 3.1E+02 0.0066 21.1 9.1 92 3-96 28-138 (299)
231 PRK11192 ATP-dependent RNA hel 25.0 2.3E+02 0.005 22.6 5.6 56 5-65 93-153 (434)
232 PRK14873 primosome assembly pr 25.0 2.3E+02 0.0051 24.6 5.8 42 5-47 204-247 (665)
233 COG0529 CysC Adenylylsulfate k 24.7 2.1E+02 0.0046 20.7 4.6 33 3-35 41-84 (197)
234 KOG4175 Tryptophan synthase al 24.0 3E+02 0.0066 20.3 5.9 75 4-94 139-213 (268)
235 COG2961 ComJ Protein involved 23.9 3.3E+02 0.0073 20.8 7.8 31 47-80 226-256 (279)
236 KOG0979 Structural maintenance 23.6 1.2E+02 0.0027 27.6 3.9 45 30-75 1007-1052(1072)
237 cd00952 CHBPH_aldolase Trans-o 23.0 3.5E+02 0.0077 20.7 7.1 94 3-97 32-144 (309)
238 KOG0347 RNA helicase [RNA proc 22.8 1.3E+02 0.0028 25.8 3.7 42 3-49 281-322 (731)
239 PF00462 Glutaredoxin: Glutare 22.7 1.5E+02 0.0032 16.2 5.2 43 3-46 13-55 (60)
240 PF09445 Methyltransf_15: RNA 22.7 42 0.00091 23.5 0.8 16 61-76 70-85 (163)
241 PRK01222 N-(5'-phosphoribosyl) 22.6 2.1E+02 0.0046 20.7 4.6 33 2-34 66-98 (210)
242 PRK04537 ATP-dependent RNA hel 22.5 1.7E+02 0.0036 24.8 4.5 56 5-65 104-165 (572)
243 PRK03094 hypothetical protein; 22.4 98 0.0021 19.0 2.3 20 2-21 10-29 (80)
244 PRK10329 glutaredoxin-like pro 22.2 1.9E+02 0.0041 17.3 6.0 44 2-47 14-57 (81)
245 cd00268 DEADc DEAD-box helicas 22.1 2.2E+02 0.0048 19.7 4.6 40 5-49 89-128 (203)
246 KOG1447 GTP-specific succinyl- 22.0 2.3E+02 0.0051 21.9 4.7 91 7-99 29-125 (412)
247 PF08360 TetR_C_5: QacR-like p 22.0 1.9E+02 0.0042 19.2 4.0 47 101-147 54-100 (131)
248 KOG0339 ATP-dependent RNA heli 21.8 5.2E+02 0.011 22.2 7.9 53 10-67 321-378 (731)
249 PLN02790 transketolase 21.7 4.7E+02 0.01 22.6 7.1 78 4-83 191-270 (654)
250 PF03602 Cons_hypoth95: Conser 21.6 1.3E+02 0.0028 21.3 3.2 28 59-86 113-141 (183)
251 COG1201 Lhr Lhr-like helicases 21.1 1.4E+02 0.0029 26.7 3.7 45 2-51 90-134 (814)
252 PRK04837 ATP-dependent RNA hel 21.0 2.7E+02 0.0059 22.2 5.3 56 5-65 103-163 (423)
253 PF08497 Radical_SAM_N: Radica 20.9 1.6E+02 0.0034 22.9 3.6 76 60-144 47-122 (302)
254 PRK09482 flap endonuclease-lik 20.9 2.4E+02 0.0052 21.3 4.6 48 2-50 86-133 (256)
255 cd00032 CASc Caspase, interleu 20.4 3.6E+02 0.0077 19.8 7.6 34 3-37 35-68 (243)
256 TIGR01957 nuoB_fam NADH-quinon 20.2 3E+02 0.0065 18.9 4.7 34 13-46 57-90 (145)
257 PF00532 Peripla_BP_1: Peripla 20.1 3.8E+02 0.0082 20.0 8.9 87 2-90 20-121 (279)
No 1
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=8.8e-33 Score=232.04 Aligned_cols=144 Identities=48% Similarity=0.674 Sum_probs=129.4
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCC-CcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDT-SIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAE 79 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~-~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~ 79 (148)
|||+|+++|..++++|-+++|+++.+-|+++|++|+.++ .-+|+|+||+|||.||||..|++||+||.+|||-...||.
T Consensus 711 mLDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAq 790 (1373)
T KOG0384|consen 711 MLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQ 790 (1373)
T ss_pred HHHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCCCceEEEEecccCcccccccccceEEEeCCCCCcchHHHHH
Confidence 699999999999999999999999999999999999865 4689999999999999999999999999999999999999
Q ss_pred HhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcCcc---cCCCCCCchhHHHHHHHh
Q 032027 80 DRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESGVE---VDNEGDTSDKTMGEILSS 144 (148)
Q Consensus 80 gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~~~---~~~~~~~~~~~~~~~l~~ 144 (148)
+|||||||++.|.||||++++|+|+.|+++..+|+.+..++++.+.. .......+..++.+||+.
T Consensus 791 ARaHRIGQkk~VnVYRLVTk~TvEeEilERAk~KmvLD~aVIQ~m~t~~~~s~~~~f~K~ELsaILKf 858 (1373)
T KOG0384|consen 791 ARAHRIGQKKHVNVYRLVTKNTVEEEILERAKLKMVLDHAVIQRMDTKGKTSKSNPFSKEELSAILKF 858 (1373)
T ss_pred HHHHhhcccceEEEEEEecCCchHHHHHHHHHHHhhhHHHHHHhhccccccCCCCCCCHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999998874 111222233556666653
No 2
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=3.9e-32 Score=230.99 Aligned_cols=125 Identities=50% Similarity=0.742 Sum_probs=118.9
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCC-CcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDT-SIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAE 79 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~-~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~ 79 (148)
|+++|+++|..+|+++++++|+++.++|.+++++|++++ ...++|+|+++||.||||+.|++||+||++|||..+.||+
T Consensus 499 ~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAi 578 (1033)
T PLN03142 499 LLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQ 578 (1033)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHH
Confidence 489999999999999999999999999999999998754 4568999999999999999999999999999999999999
Q ss_pred HhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcCc
Q 032027 80 DRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESGV 125 (148)
Q Consensus 80 gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~~ 125 (148)
||+||+||+++|.||+|++++|+|++|++++..|..+...+++.+.
T Consensus 579 dRaHRIGQkk~V~VyRLIt~gTIEEkIlera~~Kl~Ld~~Vi~~g~ 624 (1033)
T PLN03142 579 DRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDALVIQQGR 624 (1033)
T ss_pred HHhhhcCCCceEEEEEEEeCCcHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 9999999999999999999999999999999999999999998764
No 3
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=99.98 E-value=3.1e-32 Score=224.14 Aligned_cols=130 Identities=42% Similarity=0.676 Sum_probs=122.7
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCc-ceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHH
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSI-FACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAED 80 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~-~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~g 80 (148)
+|+++..++-+|..+++++|+++..+|+.+++.|+++++. +|+|+|++|||+||||.+|+++|+||++|||+...||++
T Consensus 608 ldl~e~~~~~~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~dWNPa~d~QAma 687 (776)
T KOG0390|consen 608 LDLFEQLCRWRGYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDPDWNPAVDQQAMA 687 (776)
T ss_pred HHHHHHHHhhcCceEEEEcCCCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCCCCCchhHHHHHH
Confidence 7889999999999999999999999999999999987765 999999999999999999999999999999999999999
Q ss_pred hhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcCcccCCCC
Q 032027 81 RCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESGVEVDNEG 131 (148)
Q Consensus 81 R~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~~~~~~~~ 131 (148)
|+||.||+|+|+||+|++.||+||++|+++..|..+...+++.........
T Consensus 688 R~~RdGQKk~v~iYrLlatGtiEEk~~qrq~~K~~lS~~v~~~~~~~~~~~ 738 (776)
T KOG0390|consen 688 RAWRDGQKKPVYIYRLLATGTIEEKIYQRQTHKEGLSSMVFDEEEDVEKHF 738 (776)
T ss_pred HhccCCCcceEEEEEeecCCCchHHHHHHHHHhhhhhheEEeccccccccc
Confidence 999999999999999999999999999999999999999998765555443
No 4
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=99.98 E-value=4.9e-32 Score=219.89 Aligned_cols=124 Identities=55% Similarity=0.801 Sum_probs=121.0
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCC-CcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDT-SIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAE 79 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~-~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~ 79 (148)
|||+|++++..+++.|++++|+++-++|..+++.|+.++ ..+|+++||+|||.|+||..|++||+||.+|||-...||.
T Consensus 499 mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~aADtVIlyDSDWNPQ~DLQAm 578 (971)
T KOG0385|consen 499 MLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLTAADTVILYDSDWNPQVDLQAM 578 (971)
T ss_pred HHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEeccccccccccccccEEEEecCCCCchhhhHHH
Confidence 699999999999999999999999999999999999876 5899999999999999999999999999999999999999
Q ss_pred HhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcC
Q 032027 80 DRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESG 124 (148)
Q Consensus 80 gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~ 124 (148)
.|+||+||+++|.||||++++|+||+|+.+...|..+.+.+++.+
T Consensus 579 DRaHRIGQ~K~V~V~RLitentVEe~IveRA~~KL~Ld~~VIq~g 623 (971)
T KOG0385|consen 579 DRAHRIGQKKPVVVYRLITENTVEEKIVERAAAKLRLDKLVIQQG 623 (971)
T ss_pred HHHHhhCCcCceEEEEEeccchHHHHHHHHHHHHhchhhhhhccC
Confidence 999999999999999999999999999999999999999999988
No 5
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=99.98 E-value=5.5e-32 Score=220.09 Aligned_cols=124 Identities=50% Similarity=0.787 Sum_probs=120.3
Q ss_pred CHHHHHHHHH-hcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHH
Q 032027 1 MLDILEWTLD-VIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAE 79 (148)
Q Consensus 1 ~l~~l~~~L~-~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~ 79 (148)
|||+|+.+|. ..|++|++++|.++...|...+++|+++...+|+|++|++||.|+||+.||.||+|||.|||+...||-
T Consensus 558 mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNPStD~QAr 637 (923)
T KOG0387|consen 558 MLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTTRVGGLGLNLTGANRVIIFDPDWNPSTDNQAR 637 (923)
T ss_pred HHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhhcCCCceEEEEEEecccccccccccCceEEEECCCCCCccchHHH
Confidence 7999999999 689999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcC
Q 032027 80 DRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESG 124 (148)
Q Consensus 80 gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~ 124 (148)
.|+||+||++.|.||||++.||+||++|.++..|..+.+.++...
T Consensus 638 eRawRiGQkkdV~VYRL~t~gTIEEkiY~rQI~Kq~Ltn~il~~p 682 (923)
T KOG0387|consen 638 ERAWRIGQKKDVVVYRLMTAGTIEEKIYHRQIFKQFLTNRILKNP 682 (923)
T ss_pred HHHHhhcCccceEEEEEecCCcHHHHHHHHHHHHHHHHHHHhcCH
Confidence 999999999999999999999999999999999999998888653
No 6
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=99.98 E-value=8.4e-32 Score=218.90 Aligned_cols=145 Identities=59% Similarity=0.978 Sum_probs=133.8
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAED 80 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~g 80 (148)
|||+|+..|..+++.|.+++|++....|+.+|+.|+.+.+++|+|+||+|||.||||+.||+||++|..+||-...||..
T Consensus 789 mLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKAGG~GINLt~An~VIihD~dFNP~dD~QAED 868 (941)
T KOG0389|consen 789 MLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKAGGFGINLTCANTVIIHDIDFNPYDDKQAED 868 (941)
T ss_pred HHHHHHHHHHhcCceEEeecCCccchHHHHHHHhhccCCceEEEEEeeccCcceecccccceEEEeecCCCCcccchhHH
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcCcccCCCCCCchhHHHHHHHhhhcC
Q 032027 81 RCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESGVEVDNEGDTSDKTMGEILSSILMG 148 (148)
Q Consensus 81 R~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 148 (148)
||||+||+|+|+||+|++++|+||.|+++...|..+...+-+++.....+. +..+.+++...++|
T Consensus 869 RcHRvGQtkpVtV~rLItk~TIEE~I~~lA~~KL~Le~~lt~~~k~~~~e~---~~~v~~lL~~~~~~ 933 (941)
T KOG0389|consen 869 RCHRVGQTKPVTVYRLITKSTIEEGILRLAKTKLALEADLTEDGKGVEDEG---EKTVGKLLETELYG 933 (941)
T ss_pred HHHhhCCcceeEEEEEEecCcHHHHHHHHHHHhhhhhhhhccCccchhhhh---hhHHHHHHHHHhcc
Confidence 999999999999999999999999999999999999998887765544433 35677777776654
No 7
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=99.97 E-value=1e-30 Score=218.80 Aligned_cols=127 Identities=54% Similarity=0.862 Sum_probs=122.4
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAED 80 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~g 80 (148)
|||+|+.+|..+|+-|++++|.++.++|+..+++||.++.++|+++||.++|.|+||++|++|||||.+|||....||-.
T Consensus 1288 mLDVLeqFLnyHgylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSggvGiNLtgADTVvFYDsDwNPtMDaQAQD 1367 (1958)
T KOG0391|consen 1288 MLDVLEQFLNYHGYLYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQD 1367 (1958)
T ss_pred HHHHHHHHHhhcceEEEEecCCccHHHHHHHHHHhcCCCceEEEEEeccCCccccccccCceEEEecCCCCchhhhHHHH
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcCccc
Q 032027 81 RCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESGVEV 127 (148)
Q Consensus 81 R~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~~~~ 127 (148)
|||||||+++|+||||+.+.|+|+.|++....|+.+.+-.++++...
T Consensus 1368 rChRIGqtRDVHIYRLISe~TIEeniLkkanqKr~L~evaiqggdfT 1414 (1958)
T KOG0391|consen 1368 RCHRIGQTRDVHIYRLISERTIEENILKKANQKRMLDEVAIQGGDFT 1414 (1958)
T ss_pred HHHhhcCccceEEEEeeccchHHHHHHhhhhHHHHHHHHhhccCCcc
Confidence 99999999999999999999999999999999999988888776443
No 8
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=99.97 E-value=2.5e-30 Score=217.23 Aligned_cols=125 Identities=50% Similarity=0.724 Sum_probs=117.1
Q ss_pred CHHHHHHHHHhc---CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHH
Q 032027 1 MLDILEWTLDVI---GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQ 77 (148)
Q Consensus 1 ~l~~l~~~L~~~---~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q 77 (148)
|+|+++.-|.+. .+.|.+++|+.++.+|.+++++||+++++.|+|++|.+||.||||++|++|||++.+|||....|
T Consensus 1352 mlDlVekDL~k~~mpsVtymRLDGSVpp~~R~kiV~~FN~DptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMrDLQ 1431 (1549)
T KOG0392|consen 1352 MLDLVEKDLFKKYMPSVTYMRLDGSVPPGDRQKIVERFNEDPTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMRDLQ 1431 (1549)
T ss_pred HHHHHHHHHhhhhcCceeEEEecCCCCcHHHHHHHHHhcCCCceeEEEEeeeccccccccCCCceEEEEecCCCchhhHH
Confidence 578888877665 34466999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcCc
Q 032027 78 AEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESGV 125 (148)
Q Consensus 78 ~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~~ 125 (148)
|+.|+||+||+|.|.|||++++||+||+++..++.|+..++.++....
T Consensus 1432 AMDRAHRIGQKrvVNVyRlItrGTLEEKVMgLQkFKmnvAntvInqqN 1479 (1549)
T KOG0392|consen 1432 AMDRAHRIGQKRVVNVYRLITRGTLEEKVMGLQKFKMNVANTVINQQN 1479 (1549)
T ss_pred HHHHHHhhcCceeeeeeeehhcccHHHHHhhHHHHhhHHHHHHHhccc
Confidence 999999999999999999999999999999999999999999997653
No 9
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=99.97 E-value=7e-30 Score=200.13 Aligned_cols=139 Identities=35% Similarity=0.547 Sum_probs=129.0
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAED 80 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~g 80 (148)
|||+++-.|.+.|+.++.+.|+|++..|...++.|.++++|.|+|+|.++||..|||+.|++|+.+||+|||..+.|+..
T Consensus 650 mLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~vfLvSLkAGGVALNLteASqVFmmDPWWNpaVe~Qa~D 729 (791)
T KOG1002|consen 650 MLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCRVFLVSLKAGGVALNLTEASQVFMMDPWWNPAVEWQAQD 729 (791)
T ss_pred HHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeEEEEEEeccCceEeeechhceeEeecccccHHHHhhhhh
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcCcccCCCCCCchhHHHHH
Q 032027 81 RCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESGVEVDNEGDTSDKTMGEI 141 (148)
Q Consensus 81 R~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 141 (148)
|+||+||.+||.|.+|+.++|+|++|.+++++|..++++.++.+.+....- ..+++.-+
T Consensus 730 RiHRIGQ~rPvkvvrf~iEnsiE~kIieLQeKKa~mihaTi~qde~Ai~kL--t~eDmqfL 788 (791)
T KOG1002|consen 730 RIHRIGQYRPVKVVRFCIENSIEEKIIELQEKKANMIHATIGQDEEAISKL--TEEDMQFL 788 (791)
T ss_pred hHHhhcCccceeEEEeehhccHHHHHHHHHHHHhhhhhhhcCCcHHHHHhc--CHHHHHHH
Confidence 999999999999999999999999999999999999999999876655522 33444433
No 10
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=99.95 E-value=6.3e-28 Score=195.18 Aligned_cols=124 Identities=50% Similarity=0.783 Sum_probs=119.4
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAED 80 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~g 80 (148)
|+|+++++|..+++++.+++|+.+...|...+.+|+. +..+|+|+||++||.|+||+.|++|||||.+|||....||+.
T Consensus 1056 M~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~-sdiFvFLLSTRAGGLGINLTAADTViFYdSDWNPT~D~QAMD 1134 (1185)
T KOG0388|consen 1056 MIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQA-SDIFVFLLSTRAGGLGINLTAADTVIFYDSDWNPTADQQAMD 1134 (1185)
T ss_pred HHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccC-CceEEEEEecccCcccccccccceEEEecCCCCcchhhHHHH
Confidence 6899999999999999999999999999999999998 668999999999999999999999999999999999999999
Q ss_pred hhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcCc
Q 032027 81 RCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESGV 125 (148)
Q Consensus 81 R~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~~ 125 (148)
|+||.||+++|+||+|++.+|+||+++....+|......++.++.
T Consensus 1135 RAHRLGQTrdvtvyrl~~rgTvEEk~l~rA~qK~~vQq~Vm~G~~ 1179 (1185)
T KOG0388|consen 1135 RAHRLGQTRDVTVYRLITRGTVEEKVLERANQKDEVQQMVMHGNI 1179 (1185)
T ss_pred HHHhccCccceeeeeecccccHHHHHHHHhhhHHHHHHHHHcCCc
Confidence 999999999999999999999999999999999999988887643
No 11
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=99.94 E-value=2.2e-26 Score=185.83 Aligned_cols=124 Identities=40% Similarity=0.625 Sum_probs=118.8
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCC-cceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTS-IFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAE 79 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~-~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~ 79 (148)
+|+++...|+..|+.|..++|....++|+.+++.|+...+ .+|+|++..++|.||||..|+|+|++|+.|||..+.||.
T Consensus 758 vLniv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlilvDlHWNPaLEqQAc 837 (901)
T KOG4439|consen 758 VLNIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLILVDLHWNPALEQQAC 837 (901)
T ss_pred HHHHHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEEEecccCHHHHHHHH
Confidence 5788999999999999999999999999999999997654 899999999999999999999999999999999999999
Q ss_pred HhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcC
Q 032027 80 DRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESG 124 (148)
Q Consensus 80 gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~ 124 (148)
.|++|+||+|+|+||+|++.||+|+++...+..|..++..++.+.
T Consensus 838 DRIYR~GQkK~V~IhR~~~~gTvEqrV~~LQdkKldlA~~VL~G~ 882 (901)
T KOG4439|consen 838 DRIYRMGQKKDVFIHRLMCKGTVEQRVKSLQDKKLDLAKGVLTGS 882 (901)
T ss_pred HHHHHhcccCceEEEEEEecCcHHHHHHHHHHHHHHHHhhhccCc
Confidence 999999999999999999999999999999999999999999844
No 12
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=99.93 E-value=1.7e-25 Score=189.54 Aligned_cols=123 Identities=49% Similarity=0.801 Sum_probs=119.7
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAED 80 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~g 80 (148)
|+++++..|+..+++++.++|+++..+|...+++|++++...|++++++++|.|+||+.|++||++|++|||..+.||+.
T Consensus 723 ~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~v~lls~kagg~glnLt~a~~vi~~d~~wnp~~~~Qa~d 802 (866)
T COG0553 723 VLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLKAGGLGLNLTGADTVILFDPWWNPAVELQAID 802 (866)
T ss_pred HHHHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHhhcCCCCceEEEEecccccceeecccceEEEeccccChHHHHHHHH
Confidence 58999999999999999999999999999999999998788999999999999999999999999999999999999999
Q ss_pred hhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhc
Q 032027 81 RCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLES 123 (148)
Q Consensus 81 R~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~ 123 (148)
|+||+||+++|.||++++++|+||++.+.+..|..+...+++.
T Consensus 803 Ra~RigQ~~~v~v~r~i~~~tiEe~i~~~~~~K~~l~~~~~~~ 845 (866)
T COG0553 803 RAHRIGQKRPVKVYRLITRGTIEEKILELQEKKQELLDSLIDA 845 (866)
T ss_pred HHHHhcCcceeEEEEeecCCcHHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999999999999999999999999986
No 13
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.93 E-value=8.9e-26 Score=191.64 Aligned_cols=122 Identities=25% Similarity=0.330 Sum_probs=109.6
Q ss_pred HHHHHHHH-HhcCCeEEEEeCCCCHHHHHHHHHHhcCCC-CcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHH
Q 032027 2 LDILEWTL-DVIGVTYRRLDGSTQVTERQAIVDAFNNDT-SIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAE 79 (148)
Q Consensus 2 l~~l~~~L-~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~-~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~ 79 (148)
.+.|.+.| ...|++++.+||+++..+|.++++.|++++ .+.| |++++++|+|+|++.|++||+||+||||..|+||+
T Consensus 506 ~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~V-LIsTdvgseGlNlq~a~~VInfDlP~nP~~~eQRI 584 (956)
T PRK04914 506 ALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDGAQV-LLCSEIGSEGRNFQFASHLVLFDLPFNPDLLEQRI 584 (956)
T ss_pred HHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCCCCccE-EEechhhccCCCcccccEEEEecCCCCHHHHHHHh
Confidence 46788899 567999999999999999999999999754 4554 55669999999999999999999999999999999
Q ss_pred HhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcC
Q 032027 80 DRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESG 124 (148)
Q Consensus 80 gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~ 124 (148)
||++|+||+++|.||+++.++|+++.+++....|..+++....++
T Consensus 585 GR~~RiGQ~~~V~i~~~~~~~t~~e~i~~~~~~~l~ife~~~~~~ 629 (956)
T PRK04914 585 GRLDRIGQKHDIQIHVPYLEGTAQERLFRWYHEGLNAFEHTCPTG 629 (956)
T ss_pred cccccCCCCceEEEEEccCCCCHHHHHHHHHhhhcCceeccCCCH
Confidence 999999999999999999999999999999999997776655543
No 14
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=99.92 E-value=2.5e-25 Score=184.21 Aligned_cols=112 Identities=41% Similarity=0.643 Sum_probs=106.4
Q ss_pred cCCeEEEEeCCCCHHHHHHHHHHhcCCCC--cceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCCCC
Q 032027 12 IGVTYRRLDGSTQVTERQAIVDAFNNDTS--IFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQTR 89 (148)
Q Consensus 12 ~~~~~~~~~G~~~~~~r~~~~~~F~~~~~--~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~ 89 (148)
+|..|.+++|+++..+|.+....|+++.+ .+++|+||+||+.|+||..||.||+||..|||+...|++-|+||+||+|
T Consensus 1187 ~GkDyyriDGst~s~~R~k~~~~FNdp~NlRaRl~LISTRAGsLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtK 1266 (1567)
T KOG1015|consen 1187 RGKDYYRLDGSTTSQSRKKWAEEFNDPTNLRARLFLISTRAGSLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTK 1266 (1567)
T ss_pred cCCceEEecCcccHHHHHHHHHHhcCcccceeEEEEEeeccCccccceeecceEEEEecccCCccchHHHHHHHhhcCcC
Confidence 46789999999999999999999998765 5779999999999999999999999999999999999999999999999
Q ss_pred cEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhc
Q 032027 90 PVTIYRLVTKGTVDENVYEIAKRKLILDAAVLES 123 (148)
Q Consensus 90 ~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~ 123 (148)
||+||||++.||+|++||+++.-|..+...+++.
T Consensus 1267 PvyiYRfiAqGTmEeKIYkRQVTKqsls~RVVDe 1300 (1567)
T KOG1015|consen 1267 PVYIYRFIAQGTMEEKIYKRQVTKQSLSFRVVDE 1300 (1567)
T ss_pred ceeehhhhhcccHHHHHHHHHHhHhhhhhhhhhH
Confidence 9999999999999999999999999999888865
No 15
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=99.92 E-value=4.3e-25 Score=173.12 Aligned_cols=123 Identities=36% Similarity=0.513 Sum_probs=117.4
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAED 80 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~g 80 (148)
|||.|+.++.++++.+++|+|++++.+|....+.|+....+.|.+++..++|.||+|+.|+.|+|.+++|||+...||..
T Consensus 504 vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAED 583 (689)
T KOG1000|consen 504 VLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAED 583 (689)
T ss_pred HHHHHHHHHHHcCCCeEEecCCCCchhHHHHHHHhccccceEEEEEEEeecccceeeeccceEEEEEecCCCceEEechh
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhc
Q 032027 81 RCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLES 123 (148)
Q Consensus 81 R~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~ 123 (148)
|+||+||+..|.||+|++++|+|+.+|.++.+|......+-.+
T Consensus 584 RaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l~~KL~vl~s~gl~ 626 (689)
T KOG1000|consen 584 RAHRIGQKSSVFVQYLVAKGTADDYMWPMLQQKLDVLGSVGLS 626 (689)
T ss_pred hhhhccccceeeEEEEEecCchHHHHHHHHHHHHHHHhhcccC
Confidence 9999999999999999999999999999999999877655433
No 16
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=99.90 E-value=1.8e-23 Score=173.96 Aligned_cols=124 Identities=48% Similarity=0.729 Sum_probs=118.1
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCC-CcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDT-SIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAE 79 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~-~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~ 79 (148)
++++++.+|.-++++|.+++|+++.++|...++.|+.++ .++++|+++.++|.|+|||.|++||+||..|||....||.
T Consensus 738 lmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadtviifdsdwnp~~d~qaq 817 (1157)
T KOG0386|consen 738 LMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQ 817 (1157)
T ss_pred HHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeeecccccccchhhcceEEEecCCCCchhHHHHH
Confidence 478999999999999999999999999999999999865 4889999999999999999999999999999999999999
Q ss_pred HhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcC
Q 032027 80 DRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESG 124 (148)
Q Consensus 80 gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~ 124 (148)
.|+||+||+++|.|+++++.+++||+|+.....|..+...++..+
T Consensus 818 drahrigq~~evRv~rl~tv~sveE~il~~a~~Kl~~d~kviqag 862 (1157)
T KOG0386|consen 818 DRAHRIGQKKEVRVLRLITVNSVEEKILAEAFYKLDVDGKVIQAG 862 (1157)
T ss_pred HHHHHhhchhheeeeeeehhhHHHHHHHHHHHHhcCchHhhhhcc
Confidence 999999999999999999999999999999999999888888765
No 17
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=99.87 E-value=2.1e-23 Score=171.88 Aligned_cols=123 Identities=36% Similarity=0.526 Sum_probs=117.3
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAED 80 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~g 80 (148)
++++++..|...++.+..++|.++...|.+.+..|..++...+++++.++++.|+||+.|+||+.+||+|||..++||+.
T Consensus 551 ~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s~~~~~~~~~~~vll~Slkag~~glnlt~a~~v~~~d~~wnp~~eeQaid 630 (674)
T KOG1001|consen 551 GLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDFPCDPLVTALLMSLKAGKVGLNLTAASHVLLMDPWWNPAVEEQAID 630 (674)
T ss_pred HHHHhhhhhhhcccccchhhhhhHHHHHHhhhcccccCccHHHHHHHHHHhhhhhchhhhhHHHhhchhcChHHHHHHHH
Confidence 47888889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhc
Q 032027 81 RCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLES 123 (148)
Q Consensus 81 R~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~ 123 (148)
|+||+||+++|.|+++...+|+|+++++++.+|..+....++.
T Consensus 631 R~hrigq~k~v~v~r~~i~dtveer~l~iq~~K~~~~~~a~~~ 673 (674)
T KOG1001|consen 631 RAHRIGQTKPVKVSRFIIKDTVEERILKIQEKKREYNASAFGE 673 (674)
T ss_pred HHHHhcccceeeeeeehhhhccHHHHHHHHHHHHHHHhhhccC
Confidence 9999999999999999999999999999999999988776653
No 18
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=99.84 E-value=4.8e-21 Score=156.74 Aligned_cols=125 Identities=34% Similarity=0.561 Sum_probs=114.9
Q ss_pred HHHHHHHHHhcC------------------CeEEEEeCCCCHHHHHHHHHHhcCCCCcc-eeeeeccccccCcCCCCCCe
Q 032027 2 LDILEWTLDVIG------------------VTYRRLDGSTQVTERQAIVDAFNNDTSIF-ACLLSTRAGGQGLNLTGADT 62 (148)
Q Consensus 2 l~~l~~~L~~~~------------------~~~~~~~G~~~~~~r~~~~~~F~~~~~~~-vll~s~~~~~~Glnl~~a~~ 62 (148)
||+|+++|..+. .++.+++|.++..+|++.+++|+..+++. .+++|++++..|+||..|+.
T Consensus 732 Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN~e~~lsWlfllstrag~lGinLIsanr 811 (1387)
T KOG1016|consen 732 LDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFNSEPGLSWLFLLSTRAGSLGINLISANR 811 (1387)
T ss_pred HHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhccCCCCceeeeeehhccccccceeeccce
Confidence 678888887653 35678999999999999999999988764 89999999999999999999
Q ss_pred EEEeCCCCCcchHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcCcc
Q 032027 63 VVIHDMDFNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESGVE 126 (148)
Q Consensus 63 vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~~~ 126 (148)
+++||..|||....||+.|++|+||+|+++|||+++.+++|.+||+++..|..+...++++...
T Consensus 812 ~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYRlVmD~~lEkkIydRQIsKqGmsdRvVDd~np 875 (1387)
T KOG1016|consen 812 CIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYRLVMDNSLEKKIYDRQISKQGMSDRVVDDANP 875 (1387)
T ss_pred EEEEEeecCccccchhhhhhhhhcCcCceeEEeehhhhhhHHHHHHHHHhhccchhhhhcccCc
Confidence 9999999999999999999999999999999999999999999999999999999999987533
No 19
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=99.82 E-value=2.1e-20 Score=115.42 Aligned_cols=78 Identities=29% Similarity=0.431 Sum_probs=72.6
Q ss_pred HHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcC
Q 032027 7 WTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIG 86 (148)
Q Consensus 7 ~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~G 86 (148)
.+|+..++++..+||+++..+|..+++.|+.+.. .+|+++.++++|+|++.+++||++++|||+..+.|++||++|.|
T Consensus 1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~--~vli~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~g 78 (78)
T PF00271_consen 1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGEI--RVLIATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRIG 78 (78)
T ss_dssp HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSS--SEEEESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTTT
T ss_pred CChHHCCCcEEEEECCCCHHHHHHHHHHhhccCc--eEEEeeccccccccccccccccccccCCCHHHHHHHhhcCCCCC
Confidence 3688999999999999999999999999998775 36777799999999999999999999999999999999999987
No 20
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.76 E-value=3.1e-18 Score=105.61 Aligned_cols=81 Identities=33% Similarity=0.513 Sum_probs=75.3
Q ss_pred HHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhh
Q 032027 4 ILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCH 83 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~ 83 (148)
.+.+.|+..++++..+||+++.++|...++.|+++.. .+|+++.++++|+|++.+++||+++++|++..+.|++||++
T Consensus 2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~--~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~~gR~~ 79 (82)
T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKI--KVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAG 79 (82)
T ss_pred HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCCC--eEEEECChhhCCcChhcCCEEEEeCCCCCHHHHHHhhcccc
Confidence 5778899999999999999999999999999988764 57778899999999999999999999999999999999999
Q ss_pred hcC
Q 032027 84 RIG 86 (148)
Q Consensus 84 R~G 86 (148)
|.|
T Consensus 80 R~g 82 (82)
T smart00490 80 RAG 82 (82)
T ss_pred cCC
Confidence 986
No 21
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=99.72 E-value=2.3e-17 Score=110.28 Aligned_cols=91 Identities=24% Similarity=0.367 Sum_probs=81.1
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.+.+.|+..+.++..++|+++..+|...++.|+++. ..+++++.++++|+|++.++++|+++++|++..+.|++||
T Consensus 41 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~--~~ili~t~~~~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR 118 (131)
T cd00079 41 LDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGE--IVVLVATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGR 118 (131)
T ss_pred HHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCC--CcEEEEcChhhcCcChhhCCEEEEeCCCCCHHHheecccc
Confidence 35677888888999999999999999999999998866 3466678999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEE
Q 032027 82 CHRIGQTRPVTIY 94 (148)
Q Consensus 82 ~~R~Gq~~~v~v~ 94 (148)
++|.||.+.+.+|
T Consensus 119 ~~R~~~~~~~~~~ 131 (131)
T cd00079 119 AGRAGQKGTAILL 131 (131)
T ss_pred cccCCCCceEEeC
Confidence 9999998777653
No 22
>PRK13766 Hef nuclease; Provisional
Probab=99.71 E-value=1.5e-16 Score=134.56 Aligned_cols=111 Identities=24% Similarity=0.266 Sum_probs=95.9
Q ss_pred HHHHHHHHHhcCCeEEEEeCC--------CCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcc
Q 032027 2 LDILEWTLDVIGVTYRRLDGS--------TQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQ 73 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~--------~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~ 73 (148)
.+.|.+.|...|+++..++|. ++..+|.+++++|+++. .. +|++|+++++|+|++.+++||+||++||+.
T Consensus 378 ~~~L~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~g~-~~-vLvaT~~~~eGldi~~~~~VI~yd~~~s~~ 455 (773)
T PRK13766 378 AEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQIEILDKFRAGE-FN-VLVSTSVAEEGLDIPSVDLVIFYEPVPSEI 455 (773)
T ss_pred HHHHHHHHHhCCCceEEEEccccccccCCCCHHHHHHHHHHHHcCC-CC-EEEECChhhcCCCcccCCEEEEeCCCCCHH
Confidence 467888999999999999997 88889999999998865 44 566778999999999999999999999999
Q ss_pred hHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHH
Q 032027 74 IDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILD 117 (148)
Q Consensus 74 ~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~ 117 (148)
.+.||.||++|.|+ ..+|.+++++|.||.++....+|...+
T Consensus 456 r~iQR~GR~gR~~~---~~v~~l~~~~t~ee~~y~~~~~ke~~~ 496 (773)
T PRK13766 456 RSIQRKGRTGRQEE---GRVVVLIAKGTRDEAYYWSSRRKEKKM 496 (773)
T ss_pred HHHHHhcccCcCCC---CEEEEEEeCCChHHHHHHHhhHHHHHH
Confidence 99998888888765 678999999999999887776666554
No 23
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.63 E-value=9.4e-16 Score=114.00 Aligned_cols=96 Identities=20% Similarity=0.295 Sum_probs=86.7
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.|+|.+.++..++.+...||.++.++|.+++++|+.+.+. +|+++++-++|++.|..+.||+||+|-|+..|++|+||
T Consensus 279 VdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~Sr--vLitTDVwaRGiDv~qVslviNYDLP~nre~YIHRIGR 356 (400)
T KOG0328|consen 279 VDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSR--VLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGR 356 (400)
T ss_pred hhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCce--EEEEechhhccCCcceeEEEEecCCCccHHHHhhhhcc
Confidence 4889999999999999999999999999999999987753 67788999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCCC
Q 032027 82 CHRIGQTRPVTIYRLVTKGT 101 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~t 101 (148)
.+|+|.+ -...+|+..+.
T Consensus 357 SGRFGRk--GvainFVk~~d 374 (400)
T KOG0328|consen 357 SGRFGRK--GVAINFVKSDD 374 (400)
T ss_pred ccccCCc--ceEEEEecHHH
Confidence 9999987 44567776553
No 24
>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=99.61 E-value=9.3e-15 Score=121.73 Aligned_cols=102 Identities=21% Similarity=0.275 Sum_probs=84.7
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCC-CcchHHHHHHhhh
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDF-NPQIDRQAEDRCH 83 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~-~~~~~~Q~~gR~~ 83 (148)
+....+..+. ..++|+++..+|.+++++|++++.+.++++| +++++|+|++.|+++|++++|+ ++..+.||.||+.
T Consensus 509 l~~~a~~L~~--~~I~G~ts~~ER~~il~~Fr~~~~i~vLv~S-kVgdeGIDlP~a~vvI~~s~~~gS~~q~iQRlGRil 585 (732)
T TIGR00603 509 LKEYAIKLGK--PFIYGPTSQQERMQILQNFQHNPKVNTIFLS-KVGDTSIDLPEANVLIQISSHYGSRRQEAQRLGRIL 585 (732)
T ss_pred HHHHHHHcCC--ceEECCCCHHHHHHHHHHHHhCCCccEEEEe-cccccccCCCCCCEEEEeCCCCCCHHHHHHHhcccc
Confidence 3444444454 4489999999999999999876656666665 9999999999999999999986 8999999999999
Q ss_pred hcCCCC-----cEEEEEEEeCCCHHHHHHHH
Q 032027 84 RIGQTR-----PVTIYRLVTKGTVDENVYEI 109 (148)
Q Consensus 84 R~Gq~~-----~v~v~~l~~~~t~ee~i~~~ 109 (148)
|.+..+ +..+|.|++++|.|+.....
T Consensus 586 R~~~~~~~~~~~A~fY~lVs~dT~E~~~s~~ 616 (732)
T TIGR00603 586 RAKKGSDAEEYNAFFYSLVSKDTQEMYYSTK 616 (732)
T ss_pred cCCCCCccccccceEEEEecCCchHHHHHHH
Confidence 998664 37899999999999876443
No 25
>PTZ00110 helicase; Provisional
Probab=99.61 E-value=5.3e-15 Score=120.97 Aligned_cols=95 Identities=20% Similarity=0.272 Sum_probs=83.3
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.|...|...|+++..+||+++.++|.+++++|+++.. . +|++|+++++|+|++.+++||+||+|+++..|.||+||
T Consensus 390 a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~G~~-~-ILVaTdv~~rGIDi~~v~~VI~~d~P~s~~~yvqRiGR 467 (545)
T PTZ00110 390 ADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKS-P-IMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGR 467 (545)
T ss_pred HHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhcCCC-c-EEEEcchhhcCCCcccCCEEEEeCCCCCHHHHHHHhcc
Confidence 367788899999999999999999999999999988663 3 57778999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCC
Q 032027 82 CHRIGQTRPVTIYRLVTKG 100 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~ 100 (148)
++|.|.+..+ +.|++++
T Consensus 468 tGR~G~~G~a--i~~~~~~ 484 (545)
T PTZ00110 468 TGRAGAKGAS--YTFLTPD 484 (545)
T ss_pred cccCCCCceE--EEEECcc
Confidence 9999987544 5556654
No 26
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.60 E-value=5.2e-15 Score=118.47 Aligned_cols=106 Identities=20% Similarity=0.276 Sum_probs=87.2
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+-|+..|...++++..|||..+..+|..+++.|.++... +|++|+++++|||++..++||+||+|-|...|.||+||
T Consensus 354 ~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~FreG~~~--vLVATdVAaRGLDi~dV~lVInydfP~~vEdYVHRiGR 431 (519)
T KOG0331|consen 354 CDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREGKSP--VLVATDVAARGLDVPDVDLVINYDFPNNVEDYVHRIGR 431 (519)
T ss_pred HHHHHHHHHhcCcceeeecccccHHHHHHHHHhcccCCcc--eEEEcccccccCCCccccEEEeCCCCCCHHHHHhhcCc
Confidence 4667888888899999999999999999999999887743 67788999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCC--CHHHHHHHHHH
Q 032027 82 CHRIGQTRPVTIYRLVTKG--TVDENVYEIAK 111 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~--t~ee~i~~~~~ 111 (148)
.+|.|++-.. |.|++.. .+...+.+.++
T Consensus 432 TGRa~~~G~A--~tfft~~~~~~a~~l~~~l~ 461 (519)
T KOG0331|consen 432 TGRAGKKGTA--ITFFTSDNAKLARELIKVLR 461 (519)
T ss_pred cccCCCCceE--EEEEeHHHHHHHHHHHHHHH
Confidence 9998888544 3344322 23344444443
No 27
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.58 E-value=3.4e-15 Score=118.68 Aligned_cols=94 Identities=18% Similarity=0.186 Sum_probs=82.2
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.|...|...|+++..+||.++.++|.+++++|+++. +. +|++|+++++|+|++.+++||+||+|+++..|.|++||
T Consensus 268 ~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~g~-~~-vLVaTdv~~rGiDip~v~~VI~~d~P~s~~~yiqR~GR 345 (423)
T PRK04837 268 CEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGD-LD-ILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGR 345 (423)
T ss_pred HHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHcCC-Cc-EEEEechhhcCCCccccCEEEEeCCCCchhheEecccc
Confidence 35678889999999999999999999999999998766 34 66677999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeC
Q 032027 82 CHRIGQTRPVTIYRLVTK 99 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~ 99 (148)
++|.|+... .+.|+.+
T Consensus 346 ~gR~G~~G~--ai~~~~~ 361 (423)
T PRK04837 346 TGRAGASGH--SISLACE 361 (423)
T ss_pred ccCCCCCee--EEEEeCH
Confidence 999997744 4555654
No 28
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.58 E-value=1.1e-14 Score=118.44 Aligned_cols=107 Identities=19% Similarity=0.312 Sum_probs=88.1
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.|...|..+|+++..+||++++++|.+.++.|+++. .. +|++|+++++|||++..++||+||+|.++..|.||+||
T Consensus 286 ~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~-~~-vLVaTDvaaRGiDi~~v~~VinyD~p~~~e~yvHRiGR 363 (513)
T COG0513 286 VEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGE-LR-VLVATDVAARGLDIPDVSHVINYDLPLDPEDYVHRIGR 363 (513)
T ss_pred HHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHcCC-CC-EEEEechhhccCCccccceeEEccCCCCHHHheeccCc
Confidence 35688899999999999999999999999999999665 44 56666999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 032027 82 CHRIGQTRPVTIYRLVTKGTVDENVYEIAKRK 113 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K 113 (148)
++|.|.+- ..+.|+++ .-|...+..+.+.
T Consensus 364 TgRaG~~G--~ai~fv~~-~~e~~~l~~ie~~ 392 (513)
T COG0513 364 TGRAGRKG--VAISFVTE-EEEVKKLKRIEKR 392 (513)
T ss_pred cccCCCCC--eEEEEeCc-HHHHHHHHHHHHH
Confidence 99999654 44556654 2244444444444
No 29
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.58 E-value=1.5e-14 Score=114.92 Aligned_cols=95 Identities=21% Similarity=0.305 Sum_probs=84.6
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.|.|...|.+.|++++.+||+.+.++|+.++..|+++..- +|++|+++|+|+++++.++||+||..-+...|.|||||
T Consensus 530 ~d~lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~fr~~t~d--IlVaTDvAgRGIDIpnVSlVinydmaksieDYtHRIGR 607 (673)
T KOG0333|consen 530 ADALAKILEKAGYKVTTLHGGKSQEQRENALADFREGTGD--ILVATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRIGR 607 (673)
T ss_pred HHHHHHHHhhccceEEEeeCCccHHHHHHHHHHHHhcCCC--EEEEecccccCCCCCccceeeecchhhhHHHHHHHhcc
Confidence 4789999999999999999999999999999999986632 67777999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCC
Q 032027 82 CHRIGQTRPVTIYRLVTKG 100 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~ 100 (148)
.+|.|+...+ ..|+++.
T Consensus 608 TgRAGk~Gta--iSflt~~ 624 (673)
T KOG0333|consen 608 TGRAGKSGTA--ISFLTPA 624 (673)
T ss_pred ccccccCcee--EEEeccc
Confidence 9999998654 3455544
No 30
>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=99.57 E-value=1.2e-14 Score=117.02 Aligned_cols=91 Identities=18% Similarity=0.254 Sum_probs=81.2
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.+...|...|+++..+||+++.++|.+++++|.++. ++ +|++|.+.++|+|++++++||++++|.++..|.|++||
T Consensus 239 ~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~g~-~~-vLVaT~~~~~GID~p~V~~VI~~~~P~s~~~y~Qr~GR 316 (470)
T TIGR00614 239 SEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDE-IQ-VVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGR 316 (470)
T ss_pred HHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHcCC-Cc-EEEEechhhccCCcccceEEEEeCCCCCHHHHHhhhcC
Confidence 35678889999999999999999999999999998665 44 56667999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEE
Q 032027 82 CHRIGQTRPVTIY 94 (148)
Q Consensus 82 ~~R~Gq~~~v~v~ 94 (148)
++|.|+...+.++
T Consensus 317 aGR~G~~~~~~~~ 329 (470)
T TIGR00614 317 AGRDGLPSECHLF 329 (470)
T ss_pred cCCCCCCceEEEE
Confidence 9999988765554
No 31
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.56 E-value=1.8e-14 Score=110.86 Aligned_cols=93 Identities=23% Similarity=0.298 Sum_probs=82.7
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+.+.-.|...|+.+..+||.++...|..+++.|+++. +-+|++|+++++|||.+.+++||+||.|-+...|++|+||+
T Consensus 314 ~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~--r~iLv~TDVaSRGLDip~Vd~VVNyDiP~~skDYIHRvGRt 391 (476)
T KOG0330|consen 314 RFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGA--RSILVCTDVASRGLDIPHVDVVVNYDIPTHSKDYIHRVGRT 391 (476)
T ss_pred HHHHHHHHhcCcceecccchhhHHHHHHHHHHHhccC--CcEEEecchhcccCCCCCceEEEecCCCCcHHHHHHHcccc
Confidence 4567788999999999999999999999999998866 33677889999999999999999999999999999999999
Q ss_pred hhcCCCCcEEEEEEEeC
Q 032027 83 HRIGQTRPVTIYRLVTK 99 (148)
Q Consensus 83 ~R~Gq~~~v~v~~l~~~ 99 (148)
.|.|. .-.+..|++.
T Consensus 392 aRaGr--sG~~ItlVtq 406 (476)
T KOG0330|consen 392 ARAGR--SGKAITLVTQ 406 (476)
T ss_pred cccCC--CcceEEEEeh
Confidence 99994 4556677776
No 32
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.56 E-value=1.1e-14 Score=116.77 Aligned_cols=103 Identities=18% Similarity=0.224 Sum_probs=85.4
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+.|.+.|...++++..+||.++.++|.+++++|+++. +. +|++|+++++|+|++.+++||+|++|.++..|.|++||+
T Consensus 259 ~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g~-~~-iLVaTdv~~rGiDip~v~~VI~~~~P~~~~~yvqR~GRa 336 (456)
T PRK10590 259 NHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGD-IR-VLVATDIAARGLDIEELPHVVNYELPNVPEDYVHRIGRT 336 (456)
T ss_pred HHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcCC-Cc-EEEEccHHhcCCCcccCCEEEEeCCCCCHHHhhhhcccc
Confidence 5678889999999999999999999999999998765 44 566779999999999999999999999999999999999
Q ss_pred hhcCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 032027 83 HRIGQTRPVTIYRLVTKGTVDENVYEIAK 111 (148)
Q Consensus 83 ~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~ 111 (148)
+|.|....+ +.++..+ |..++..+.
T Consensus 337 GR~g~~G~a--i~l~~~~--d~~~~~~ie 361 (456)
T PRK10590 337 GRAAATGEA--LSLVCVD--EHKLLRDIE 361 (456)
T ss_pred ccCCCCeeE--EEEecHH--HHHHHHHHH
Confidence 999987543 3344433 444444433
No 33
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.56 E-value=3.3e-14 Score=114.16 Aligned_cols=95 Identities=19% Similarity=0.319 Sum_probs=82.8
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.+...|...++++..+||+++..+|.++++.|+++. .. +|++|+++++|+|++.+++||++++|.++..|.||+||
T Consensus 255 ~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g~-~~-vLVaTdv~~rGiDi~~v~~VI~~d~p~~~~~yiqR~GR 332 (460)
T PRK11776 255 CQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRS-CS-VLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGR 332 (460)
T ss_pred HHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcCC-Cc-EEEEecccccccchhcCCeEEEecCCCCHhHhhhhccc
Confidence 35678889999999999999999999999999998765 44 56677999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCC
Q 032027 82 CHRIGQTRPVTIYRLVTKG 100 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~ 100 (148)
++|.|+.. ..|.++.++
T Consensus 333 tGR~g~~G--~ai~l~~~~ 349 (460)
T PRK11776 333 TGRAGSKG--LALSLVAPE 349 (460)
T ss_pred ccCCCCcc--eEEEEEchh
Confidence 99999774 445566554
No 34
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.55 E-value=2.3e-14 Score=114.21 Aligned_cols=90 Identities=17% Similarity=0.254 Sum_probs=79.8
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.|...|...++++..+||+++..+|..++++|+++. +. +|++|+++++|+|++.+++||+|++|+++..|.||+||
T Consensus 258 ~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G~-~~-vLVaTd~~~~GiDip~v~~VI~~d~p~s~~~yiqr~GR 335 (434)
T PRK11192 258 VHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGR-VN-VLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGR 335 (434)
T ss_pred HHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCCC-Cc-EEEEccccccCccCCCCCEEEEECCCCCHHHHhhcccc
Confidence 35678889999999999999999999999999998765 44 66667999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEE
Q 032027 82 CHRIGQTRPVTI 93 (148)
Q Consensus 82 ~~R~Gq~~~v~v 93 (148)
++|.|....+.+
T Consensus 336 ~gR~g~~g~ai~ 347 (434)
T PRK11192 336 TGRAGRKGTAIS 347 (434)
T ss_pred cccCCCCceEEE
Confidence 999998755433
No 35
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.54 E-value=3.2e-14 Score=115.80 Aligned_cols=94 Identities=22% Similarity=0.358 Sum_probs=80.2
Q ss_pred HHHHHHHHh-cCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 3 DILEWTLDV-IGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 3 ~~l~~~L~~-~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
+.|...|.. .++++..+||+++.++|..++++|.++. .. +|++|+++++|+|++.+++||+||+|.+...|.|++||
T Consensus 381 ~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G~-~~-ILVaTdvl~rGiDip~v~~VI~~d~P~s~~~yihRiGR 458 (518)
T PLN00206 381 DLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGE-VP-VIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGR 458 (518)
T ss_pred HHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCCC-CC-EEEEecHhhccCCcccCCEEEEeCCCCCHHHHHHhccc
Confidence 556777764 5899999999999999999999998766 34 56777999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCC
Q 032027 82 CHRIGQTRPVTIYRLVTKG 100 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~ 100 (148)
++|.|... ..+.|+..+
T Consensus 459 aGR~g~~G--~ai~f~~~~ 475 (518)
T PLN00206 459 ASRMGEKG--TAIVFVNEE 475 (518)
T ss_pred cccCCCCe--EEEEEEchh
Confidence 99999764 444556543
No 36
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.53 E-value=6.4e-14 Score=113.65 Aligned_cols=99 Identities=12% Similarity=0.087 Sum_probs=87.5
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.|.+.|...|+++..+||+++.++|.++++.|+++. ..++++|++..++|+|++..++||++.|+.+...+.|++||
T Consensus 357 ~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~-~~vLvaT~~~l~eG~Dip~ld~vIl~~p~~s~~~~~QriGR 435 (501)
T PHA02558 357 GKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGK-GIIIVASYGVFSTGISIKNLHHVIFAHPSKSKIIVLQSIGR 435 (501)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCC-CeEEEEEcceeccccccccccEEEEecCCcchhhhhhhhhc
Confidence 35788889999999999999999999999999997654 46677777999999999999999999999999999999999
Q ss_pred hhhcCCCCc-EEEEEEEeCCC
Q 032027 82 CHRIGQTRP-VTIYRLVTKGT 101 (148)
Q Consensus 82 ~~R~Gq~~~-v~v~~l~~~~t 101 (148)
++|.+..|+ +.||.++..-+
T Consensus 436 ~~R~~~~K~~~~i~D~vD~~~ 456 (501)
T PHA02558 436 VLRKHGSKSIATVWDIIDDLS 456 (501)
T ss_pred cccCCCCCceEEEEEeecccc
Confidence 999987764 99999986444
No 37
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.53 E-value=1.1e-13 Score=111.68 Aligned_cols=94 Identities=19% Similarity=0.295 Sum_probs=81.5
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.+...|...|+.+..++|.++.++|.+++++|+++. .. +|++|+++++|+|+..+++||++++|++...|.|+.||
T Consensus 348 ~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G~-~~-vLvaT~~l~~GIDi~~v~~VI~~~~P~s~~~y~Qr~GR 425 (475)
T PRK01297 348 VRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGK-IR-VLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGR 425 (475)
T ss_pred HHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCCC-Cc-EEEEccccccCCcccCCCEEEEeCCCCCHHHHHHhhCc
Confidence 35678888899999999999999999999999998766 34 56677999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeC
Q 032027 82 CHRIGQTRPVTIYRLVTK 99 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~ 99 (148)
++|.|+... ++.++.+
T Consensus 426 aGR~g~~g~--~i~~~~~ 441 (475)
T PRK01297 426 TGRAGASGV--SISFAGE 441 (475)
T ss_pred cCCCCCCce--EEEEecH
Confidence 999998754 3444543
No 38
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.52 E-value=5.1e-14 Score=115.76 Aligned_cols=93 Identities=19% Similarity=0.339 Sum_probs=81.4
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.|.+.|...++.+..+||+++..+|.++++.|+++. .. +|++|+++++|+|++.+++||+||+|+++..|.|++||
T Consensus 270 ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G~-~~-VLVaTdv~arGIDip~V~~VInyd~P~s~~~yvqRiGR 347 (572)
T PRK04537 270 VERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQ-LE-ILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGR 347 (572)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcCC-Ce-EEEEehhhhcCCCccCCCEEEEcCCCCCHHHHhhhhcc
Confidence 35678889999999999999999999999999998765 34 66677999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEe
Q 032027 82 CHRIGQTRPVTIYRLVT 98 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~ 98 (148)
++|.|....+ +.|+.
T Consensus 348 aGR~G~~G~a--i~~~~ 362 (572)
T PRK04537 348 TARLGEEGDA--ISFAC 362 (572)
T ss_pred cccCCCCceE--EEEec
Confidence 9999987544 33444
No 39
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.52 E-value=8.4e-14 Score=115.25 Aligned_cols=89 Identities=21% Similarity=0.215 Sum_probs=79.3
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.+...|...|+++..+||+++.++|.+++++|.++. .. +|++|.++++|+|+++.++||++++|.+...|.|++||
T Consensus 249 ~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g~-~~-VLVaT~a~~~GIDip~V~~VI~~d~P~s~~~y~Qr~GR 326 (607)
T PRK11057 249 VEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDD-LQ-IVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGR 326 (607)
T ss_pred HHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCCC-CC-EEEEechhhccCCCCCcCEEEEeCCCCCHHHHHHHhhh
Confidence 35678889999999999999999999999999998765 34 56677899999999999999999999999999999999
Q ss_pred hhhcCCCCcEE
Q 032027 82 CHRIGQTRPVT 92 (148)
Q Consensus 82 ~~R~Gq~~~v~ 92 (148)
++|.|....+.
T Consensus 327 aGR~G~~~~~i 337 (607)
T PRK11057 327 AGRDGLPAEAM 337 (607)
T ss_pred ccCCCCCceEE
Confidence 99999775533
No 40
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.52 E-value=2.7e-13 Score=107.38 Aligned_cols=117 Identities=26% Similarity=0.322 Sum_probs=100.1
Q ss_pred HHHHHHHHhcCCeEE-EEeC--------CCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcc
Q 032027 3 DILEWTLDVIGVTYR-RLDG--------STQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQ 73 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~-~~~G--------~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~ 73 (148)
+.|..+|...+++.. ++.| +++..+..+++++|+++. +. +|++|..|.+|||++.++.||||||.-++-
T Consensus 380 e~i~~~L~~~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~Ge-~n-VLVaTSVgEEGLDIp~vDlVifYEpvpSeI 457 (542)
T COG1111 380 EEIVNFLKKIGIKARVRFIGQASREGDKGMSQKEQKEIIDQFRKGE-YN-VLVATSVGEEGLDIPEVDLVIFYEPVPSEI 457 (542)
T ss_pred HHHHHHHHhcCCcceeEEeeccccccccccCHHHHHHHHHHHhcCC-ce-EEEEcccccccCCCCcccEEEEecCCcHHH
Confidence 577888999888875 7777 488899999999998866 33 677779999999999999999999999999
Q ss_pred hHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcC
Q 032027 74 IDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESG 124 (148)
Q Consensus 74 ~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~ 124 (148)
...||.||++| ++.-.||-|+++||-|+.-+....+|...+...+...
T Consensus 458 R~IQR~GRTGR---~r~Grv~vLvt~gtrdeayy~~s~rke~~m~e~i~~~ 505 (542)
T COG1111 458 RSIQRKGRTGR---KRKGRVVVLVTEGTRDEAYYYSSRRKEQKMIESIRGL 505 (542)
T ss_pred HHHHhhCcccc---CCCCeEEEEEecCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999988 4678889999999999999999999887666555443
No 41
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.51 E-value=7.7e-14 Score=119.88 Aligned_cols=92 Identities=22% Similarity=0.230 Sum_probs=82.1
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.+.+.|...|+++..|||+++.++|..+.++|..+. +. +|++|.+.|.|+|+++.++||+|++|-+...|.|++||
T Consensus 693 ~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F~~Ge-i~-VLVATdAFGMGIDkPDVR~VIHydlPkSiEsYyQriGR 770 (1195)
T PLN03137 693 CEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDE-IN-IICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGR 770 (1195)
T ss_pred HHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHHhcCC-Cc-EEEEechhhcCCCccCCcEEEEcCCCCCHHHHHhhhcc
Confidence 35678889999999999999999999999999998876 34 56677999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEE
Q 032027 82 CHRIGQTRPVTIYR 95 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~ 95 (148)
++|.|+...+..|+
T Consensus 771 AGRDG~~g~cILly 784 (1195)
T PLN03137 771 AGRDGQRSSCVLYY 784 (1195)
T ss_pred cCCCCCCceEEEEe
Confidence 99999887655543
No 42
>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=99.49 E-value=1.6e-13 Score=113.25 Aligned_cols=89 Identities=20% Similarity=0.190 Sum_probs=79.7
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+.+.+.|...|+++..+||+++.++|..+++.|..+. .. +|++|.+.+.|+|++++++||++++|.+...|.|++||+
T Consensus 238 e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g~-~~-vlVaT~a~~~GID~p~v~~VI~~~~p~s~~~y~Q~~GRa 315 (591)
T TIGR01389 238 EELAERLESQGISALAYHAGLSNKVRAENQEDFLYDD-VK-VMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRA 315 (591)
T ss_pred HHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcCC-Cc-EEEEechhhccCcCCCCCEEEEcCCCCCHHHHhhhhccc
Confidence 5677889999999999999999999999999998766 33 677779999999999999999999999999999999999
Q ss_pred hhcCCCCcEEE
Q 032027 83 HRIGQTRPVTI 93 (148)
Q Consensus 83 ~R~Gq~~~v~v 93 (148)
+|.|+...+.+
T Consensus 316 GR~G~~~~~il 326 (591)
T TIGR01389 316 GRDGLPAEAIL 326 (591)
T ss_pred cCCCCCceEEE
Confidence 99997765543
No 43
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.47 E-value=5.2e-13 Score=110.79 Aligned_cols=89 Identities=17% Similarity=0.237 Sum_probs=79.6
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+.|.+.|...|+.+..+||.++..+|.+++++|+++. .. +|++|+++++|+|++.+++||+||+|.++..|.|++||+
T Consensus 259 ~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G~-~~-ILVATdv~arGIDip~V~~VI~~d~P~~~e~yvqRiGRt 336 (629)
T PRK11634 259 LEVAEALERNGYNSAALNGDMNQALREQTLERLKDGR-LD-ILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRT 336 (629)
T ss_pred HHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCCC-CC-EEEEcchHhcCCCcccCCEEEEeCCCCCHHHHHHHhccc
Confidence 5677889999999999999999999999999998765 33 677889999999999999999999999999999999999
Q ss_pred hhcCCCCcEEE
Q 032027 83 HRIGQTRPVTI 93 (148)
Q Consensus 83 ~R~Gq~~~v~v 93 (148)
+|.|....+.+
T Consensus 337 GRaGr~G~ai~ 347 (629)
T PRK11634 337 GRAGRAGRALL 347 (629)
T ss_pred cCCCCcceEEE
Confidence 99998754333
No 44
>PTZ00424 helicase 45; Provisional
Probab=99.47 E-value=1.9e-13 Score=107.63 Aligned_cols=95 Identities=19% Similarity=0.272 Sum_probs=82.4
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.+.+.|...++.+..+||+++.++|..+++.|+++. .. +|++|+++++|+|++.+++||++++|.+...|.|++||
T Consensus 280 ~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g~-~~-vLvaT~~l~~GiDip~v~~VI~~~~p~s~~~y~qr~GR 357 (401)
T PTZ00424 280 VDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGS-TR-VLITTDLLARGIDVQQVSLVINYDLPASPENYIHRIGR 357 (401)
T ss_pred HHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcCC-CC-EEEEcccccCCcCcccCCEEEEECCCCCHHHEeecccc
Confidence 35678888899999999999999999999999998765 34 66777999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCC
Q 032027 82 CHRIGQTRPVTIYRLVTKG 100 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~ 100 (148)
++|.|.. ..++.++.+.
T Consensus 358 agR~g~~--G~~i~l~~~~ 374 (401)
T PTZ00424 358 SGRFGRK--GVAINFVTPD 374 (401)
T ss_pred cccCCCC--ceEEEEEcHH
Confidence 9999865 4455566544
No 45
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=99.46 E-value=3.1e-14 Score=121.72 Aligned_cols=110 Identities=30% Similarity=0.354 Sum_probs=95.6
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
+|.++..+..+++.+..-.+ + ++-...+..|.. +.|+++....++-|+||..|.||+..+|..||+.+.||+||
T Consensus 1234 ldV~e~~~~~N~I~~~~~~~-t--~d~~dc~~~fk~---I~clll~~~~~~~GLNL~eA~Hvfl~ePiLN~~~E~QAigR 1307 (1394)
T KOG0298|consen 1234 LDVKELRYLMNLIKKQLDGE-T--EDFDDCIICFKS---IDCLLLFVSKGSKGLNLIEATHVFLVEPILNPGDEAQAIGR 1307 (1394)
T ss_pred HHHHHHHHHhhhhHhhhccC-C--cchhhhhhhccc---ceEEEEEeccCcccccHHhhhhhheeccccCchHHHhhhhh
Confidence 67888888888988765443 2 245567777754 78899999999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHH
Q 032027 82 CHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILD 117 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~ 117 (148)
+||+||++++.||+++..+|+|+.|+.....|....
T Consensus 1308 vhRiGQ~~pT~V~~fiv~~TvEe~Il~l~~~~ee~l 1343 (1394)
T KOG0298|consen 1308 VHRIGQKRPTFVHRFIVNETVEENILSLITSKEETL 1343 (1394)
T ss_pred hhhcccccchhhhhhhhccchHHHHHHHhhhhHHHH
Confidence 999999999999999999999999999988877544
No 46
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.43 E-value=6.7e-13 Score=105.23 Aligned_cols=111 Identities=20% Similarity=0.248 Sum_probs=90.7
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.|..+|...++++..+||..+..+|.++++.|.++.. . ++++|..+++|||.+...|||+||.|-+-..|.+||||
T Consensus 350 ~d~l~~~l~~~~~~~~sIhg~~tq~er~~al~~Fr~g~~-p-vlVaT~VaaRGlDi~~V~hVInyDmP~d~d~YvHRIGR 427 (482)
T KOG0335|consen 350 ADELAAFLSSNGYPAKSIHGDRTQIEREQALNDFRNGKA-P-VLVATNVAARGLDIPNVKHVINYDMPADIDDYVHRIGR 427 (482)
T ss_pred hhHHHHHHhcCCCCceeecchhhhhHHHHHHHHhhcCCc-c-eEEEehhhhcCCCCCCCceeEEeecCcchhhHHHhccc
Confidence 567899999999999999999999999999999988774 4 56667999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHH
Q 032027 82 CHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKL 114 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~ 114 (148)
++|.|+.-..+.+.=-...++-+.+.+.+..-.
T Consensus 428 TGR~Gn~G~atsf~n~~~~~i~~~L~~~l~ea~ 460 (482)
T KOG0335|consen 428 TGRVGNGGRATSFFNEKNQNIAKALVEILTEAN 460 (482)
T ss_pred cccCCCCceeEEEeccccchhHHHHHHHHHHhc
Confidence 999999866444332112235555555555433
No 47
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.41 E-value=2.1e-12 Score=99.32 Aligned_cols=92 Identities=23% Similarity=0.292 Sum_probs=80.5
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCC------CcchHH
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDF------NPQIDR 76 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~------~~~~~~ 76 (148)
.+|...|...|..+..+||.+..++|..++++|+.+... +|++|.++++|++.+..+.||+||+|- ++..|.
T Consensus 344 ~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~k--VLitTnV~ARGiDv~qVs~VvNydlP~~~~~~pD~etYl 421 (477)
T KOG0332|consen 344 MWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKEK--VLITTNVCARGIDVAQVSVVVNYDLPVKYTGEPDYETYL 421 (477)
T ss_pred HHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCcce--EEEEechhhcccccceEEEEEecCCccccCCCCCHHHHH
Confidence 578889999999999999999999999999999988743 677889999999999999999999995 677899
Q ss_pred HHHHhhhhcCCCCcEEEEEEEe
Q 032027 77 QAEDRCHRIGQTRPVTIYRLVT 98 (148)
Q Consensus 77 Q~~gR~~R~Gq~~~v~v~~l~~ 98 (148)
+|+||.+|+|.+. ..++++-
T Consensus 422 HRiGRtGRFGkkG--~a~n~v~ 441 (477)
T KOG0332|consen 422 HRIGRTGRFGKKG--LAINLVD 441 (477)
T ss_pred HHhcccccccccc--eEEEeec
Confidence 9999999999874 3344553
No 48
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=99.39 E-value=1.2e-12 Score=101.30 Aligned_cols=87 Identities=22% Similarity=0.258 Sum_probs=80.1
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.|-|.++|...|+..+.|||+...++|..+++.|+.+. +-+|+.|++++-||++++..|||+||.|-.-.+|.+|+||
T Consensus 434 VD~IhEYLLlKGVEavaIHGGKDQedR~~ai~afr~gk--KDVLVATDVASKGLDFp~iqHVINyDMP~eIENYVHRIGR 511 (610)
T KOG0341|consen 434 VDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEAFRAGK--KDVLVATDVASKGLDFPDIQHVINYDMPEEIENYVHRIGR 511 (610)
T ss_pred hHHHHHHHHHccceeEEeecCcchhHHHHHHHHHhcCC--CceEEEecchhccCCCccchhhccCCChHHHHHHHHHhcc
Confidence 46788999999999999999999999999999999876 3367788999999999999999999999999999999999
Q ss_pred hhhcCCCCc
Q 032027 82 CHRIGQTRP 90 (148)
Q Consensus 82 ~~R~Gq~~~ 90 (148)
.+|.|.+.-
T Consensus 512 TGRsg~~Gi 520 (610)
T KOG0341|consen 512 TGRSGKTGI 520 (610)
T ss_pred cCCCCCcce
Confidence 999998753
No 49
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.34 E-value=7.9e-12 Score=98.74 Aligned_cols=103 Identities=19% Similarity=0.203 Sum_probs=85.5
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
....+.|....+++..|||+.+...|.....+|++..+. +|++|+++++|+|+++.+.|+-|++|.+|..|+||+||.
T Consensus 344 k~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kaesg--IL~cTDVaARGlD~P~V~~VvQ~~~P~d~~~YIHRvGRT 421 (543)
T KOG0342|consen 344 KFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAESG--ILVCTDVAARGLDIPDVDWVVQYDPPSDPEQYIHRVGRT 421 (543)
T ss_pred HHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhcccc--eEEecchhhccCCCCCceEEEEeCCCCCHHHHHHHhccc
Confidence 456788888999999999999999999999999987744 788889999999999999999999999999999999999
Q ss_pred hhcCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 032027 83 HRIGQTRPVTIYRLVTKGTVDENVYEIAK 111 (148)
Q Consensus 83 ~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~ 111 (148)
+|-|.+.. -+-++++. |...+..++
T Consensus 422 aR~gk~G~--alL~l~p~--El~Flr~LK 446 (543)
T KOG0342|consen 422 AREGKEGK--ALLLLAPW--ELGFLRYLK 446 (543)
T ss_pred cccCCCce--EEEEeChh--HHHHHHHHh
Confidence 99776543 34445432 554444444
No 50
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.32 E-value=1.3e-11 Score=100.65 Aligned_cols=95 Identities=21% Similarity=0.201 Sum_probs=83.9
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+-+.+.|...|++...|||+++.++|+.+-++|.+++. . ++++|.|.|.|+|-++...||||++|-+.+.|.|=+||
T Consensus 243 ~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~~~~-~-iiVAT~AFGMGIdKpdVRfViH~~lP~s~EsYyQE~GR 320 (590)
T COG0514 243 VEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEI-K-VMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQETGR 320 (590)
T ss_pred HHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhcCCC-c-EEEEeccccCccCCCCceEEEEecCCCCHHHHHHHHhh
Confidence 366889999999999999999999999999999998774 3 67777999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCC
Q 032027 82 CHRIGQTRPVTIYRLVTKG 100 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~ 100 (148)
++|.|....+.. |+.+.
T Consensus 321 AGRDG~~a~ail--l~~~~ 337 (590)
T COG0514 321 AGRDGLPAEAIL--LYSPE 337 (590)
T ss_pred ccCCCCcceEEE--eeccc
Confidence 999999866544 45444
No 51
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.31 E-value=7.2e-12 Score=100.10 Aligned_cols=96 Identities=22% Similarity=0.339 Sum_probs=78.8
Q ss_pred CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCCCCcEE
Q 032027 13 GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVT 92 (148)
Q Consensus 13 ~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~ 92 (148)
+.++.++||+++.++|...+..|.....+ +|++|+++++||||+....||-||+|.++..|.+|+||..|+|.+..-.
T Consensus 471 ~~k~~rLHGsm~QeeRts~f~~Fs~~~~~--VLLcTDVAaRGLDlP~V~~vVQYd~P~s~adylHRvGRTARaG~kG~al 548 (708)
T KOG0348|consen 471 DLKFYRLHGSMEQEERTSVFQEFSHSRRA--VLLCTDVAARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKGEAL 548 (708)
T ss_pred cceEEEecCchhHHHHHHHHHhhccccce--EEEehhhhhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCCceE
Confidence 45699999999999999999999887654 7778899999999999999999999999999999999999999987654
Q ss_pred EEEEEeCCCHHHHHHHHHHHHH
Q 032027 93 IYRLVTKGTVDENVYEIAKRKL 114 (148)
Q Consensus 93 v~~l~~~~t~ee~i~~~~~~K~ 114 (148)
. |+.+. |......++.+.
T Consensus 549 L--fL~P~--Eaey~~~l~~~~ 566 (708)
T KOG0348|consen 549 L--FLLPS--EAEYVNYLKKHH 566 (708)
T ss_pred E--Eeccc--HHHHHHHHHhhc
Confidence 4 34433 333444444443
No 52
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=99.31 E-value=9.8e-12 Score=105.00 Aligned_cols=92 Identities=17% Similarity=0.207 Sum_probs=77.4
Q ss_pred CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCCCCcEE
Q 032027 13 GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVT 92 (148)
Q Consensus 13 ~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~ 92 (148)
+.++..+||++++++|.++.++|+++. .+ +|++|+++++|+|+...++||+++.|-+...|.||+||++|.|+...
T Consensus 303 ~~~v~~~hgg~~~~eR~~ie~~f~~G~-i~-vLVaTd~lerGIDI~~vd~VI~~~~P~s~~~y~qRiGRaGR~G~~g~-- 378 (742)
T TIGR03817 303 AERVAAYRAGYLPEDRRELERALRDGE-LL-GVATTNALELGVDISGLDAVVIAGFPGTRASLWQQAGRAGRRGQGAL-- 378 (742)
T ss_pred ccchhheecCCCHHHHHHHHHHHHcCC-ce-EEEECchHhccCCcccccEEEEeCCCCCHHHHHHhccccCCCCCCcE--
Confidence 567789999999999999999998866 34 67788999999999999999999999999999999999999997643
Q ss_pred EEEEEeCCCHHHHHHH
Q 032027 93 IYRLVTKGTVDENVYE 108 (148)
Q Consensus 93 v~~l~~~~t~ee~i~~ 108 (148)
++.+...+..|.....
T Consensus 379 ai~v~~~~~~d~~~~~ 394 (742)
T TIGR03817 379 VVLVARDDPLDTYLVH 394 (742)
T ss_pred EEEEeCCChHHHHHHh
Confidence 4445555667765444
No 53
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.30 E-value=5.3e-12 Score=98.33 Aligned_cols=107 Identities=21% Similarity=0.327 Sum_probs=86.7
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.|.|..-|...|+..-.+||.-...+|+.++++|+.+. ++ +|+.|+.+++||+++...||++||.|-|-..|.+|+||
T Consensus 478 AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG~-vr-ILvaTDlaSRGlDv~DiTHV~NyDFP~nIeeYVHRvGr 555 (629)
T KOG0336|consen 478 ADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGE-VR-ILVATDLASRGLDVPDITHVYNYDFPRNIEEYVHRVGR 555 (629)
T ss_pred hhhccchhhhcccchhhccCChhhhhHHHHHHhhhcCc-eE-EEEEechhhcCCCchhcceeeccCCCccHHHHHHHhcc
Confidence 46677777888999999999999999999999998765 45 66677999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCC--CHHHHHHHHHHH
Q 032027 82 CHRIGQTRPVTIYRLVTKG--TVDENVYEIAKR 112 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~--t~ee~i~~~~~~ 112 (148)
++|.|.+..- ..+++.+ ++-+.+.+++.+
T Consensus 556 tGRaGr~G~s--is~lt~~D~~~a~eLI~ILe~ 586 (629)
T KOG0336|consen 556 TGRAGRTGTS--ISFLTRNDWSMAEELIQILER 586 (629)
T ss_pred cccCCCCcce--EEEEehhhHHHHHHHHHHHHH
Confidence 9999987542 2234433 344455555544
No 54
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.26 E-value=2.2e-11 Score=93.15 Aligned_cols=89 Identities=25% Similarity=0.361 Sum_probs=79.2
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
.+|.-.|+..++.++.+|+-++.++|-.++.+|+.+. .+ +|+.|+++++|||++...-|+++|.|-+|..|++|.||.
T Consensus 268 Q~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~-~~-iliaTDVAsRGLDIP~V~LVvN~diPr~P~~yiHRvGRt 345 (442)
T KOG0340|consen 268 QLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNA-AR-ILIATDVASRGLDIPTVELVVNHDIPRDPKDYIHRVGRT 345 (442)
T ss_pred HHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcC-cc-EEEEechhhcCCCCCceeEEEecCCCCCHHHHHHhhcch
Confidence 4677888899999999999999999999999998766 34 566779999999999999999999999999999999999
Q ss_pred hhcCCCCc-EEE
Q 032027 83 HRIGQTRP-VTI 93 (148)
Q Consensus 83 ~R~Gq~~~-v~v 93 (148)
.|.|.... +.+
T Consensus 346 ARAGR~G~aiSi 357 (442)
T KOG0340|consen 346 ARAGRKGMAISI 357 (442)
T ss_pred hcccCCcceEEE
Confidence 99998754 444
No 55
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.26 E-value=1.6e-11 Score=96.76 Aligned_cols=96 Identities=21% Similarity=0.295 Sum_probs=78.4
Q ss_pred cCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCCCCcE
Q 032027 12 IGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQTRPV 91 (148)
Q Consensus 12 ~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v 91 (148)
..++.+.+||.++.+.|.+++..|.+.++. +|.+|+++++|||+++.+.||.||||-+|+.+.||.||+.|.|....-
T Consensus 280 ~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~--vl~~TDVaARGlDip~iD~VvQ~DpP~~~~~FvHR~GRTaR~gr~G~A 357 (567)
T KOG0345|consen 280 KKREIFSIHGKMSQKARAKVLEAFRKLSNG--VLFCTDVAARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREGNA 357 (567)
T ss_pred CCCcEEEecchhcchhHHHHHHHHHhccCc--eEEeehhhhccCCCCCceEEEecCCCCChhHHHhhcchhhhccCccce
Confidence 467789999999999999999999885543 677779999999999999999999999999999999999999988765
Q ss_pred EEEEEEeCCCHHHHHHHHHHHH
Q 032027 92 TIYRLVTKGTVDENVYEIAKRK 113 (148)
Q Consensus 92 ~v~~l~~~~t~ee~i~~~~~~K 113 (148)
.|+ +.+ -|+...+.++-|
T Consensus 358 ivf--l~p--~E~aYveFl~i~ 375 (567)
T KOG0345|consen 358 IVF--LNP--REEAYVEFLRIK 375 (567)
T ss_pred EEE--ecc--cHHHHHHHHHhc
Confidence 443 332 344444444444
No 56
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=99.24 E-value=9.5e-11 Score=91.17 Aligned_cols=103 Identities=17% Similarity=0.180 Sum_probs=75.0
Q ss_pred HHHHHHHHhcCC--eEEEEeCCCCHHHHHHH----HHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHH
Q 032027 3 DILEWTLDVIGV--TYRRLDGSTQVTERQAI----VDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDR 76 (148)
Q Consensus 3 ~~l~~~L~~~~~--~~~~~~G~~~~~~r~~~----~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~ 76 (148)
+.+...|+..+. .+..+||.++..+|.+. ++.|.++. .+ +|++|+++++|+|+. ++.+|++..| +..+.
T Consensus 236 ~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~-~~-ilvaT~~~~~GiDi~-~~~vi~~~~~--~~~~i 310 (358)
T TIGR01587 236 QEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKNE-KF-VIVATQVIEASLDIS-ADVMITELAP--IDSLI 310 (358)
T ss_pred HHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCCC-Ce-EEEECcchhceeccC-CCEEEEcCCC--HHHHH
Confidence 456677877766 48999999999998764 88998755 33 677789999999995 7888887665 78899
Q ss_pred HHHHhhhhcCCCC----cEEEEEEEeCC---CHHHHHHHHH
Q 032027 77 QAEDRCHRIGQTR----PVTIYRLVTKG---TVDENVYEIA 110 (148)
Q Consensus 77 Q~~gR~~R~Gq~~----~v~v~~l~~~~---t~ee~i~~~~ 110 (148)
||+||++|.|.+. .+.++.....+ ..+..+++.-
T Consensus 311 qr~GR~gR~g~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~t 351 (358)
T TIGR01587 311 QRLGRLHRYGRKNGENFEVYIITIAPEGKLFPYPYELVERT 351 (358)
T ss_pred HHhccccCCCCCCCCCCeEEEEeecCCCCeecCCHHHHHHH
Confidence 9999999999764 35554444333 3344444433
No 57
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=99.24 E-value=4.7e-11 Score=91.89 Aligned_cols=95 Identities=22% Similarity=0.298 Sum_probs=83.7
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
++.|.+.|..+++.+..+||.+...+|...+..|+.+.+ + +|++++..++|++++.++-|++|++|-+..+|.+|+||
T Consensus 276 v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~gss-r-vlIttdl~argidv~~~slvinydlP~~~~~yihR~gr 353 (397)
T KOG0327|consen 276 VDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGSS-R-VLITTDLLARGIDVQQVSLVVNYDLPARKENYIHRIGR 353 (397)
T ss_pred HHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcCCc-e-EEeeccccccccchhhcceeeeeccccchhhhhhhccc
Confidence 467888999999999999999999999999999988775 3 67777999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeCC
Q 032027 82 CHRIGQTRPVTIYRLVTKG 100 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~~ 100 (148)
.+|+|.+. ...+++++.
T Consensus 354 ~gr~grkg--~~in~v~~~ 370 (397)
T KOG0327|consen 354 AGRFGRKG--VAINFVTEE 370 (397)
T ss_pred ccccCCCc--eeeeeehHh
Confidence 99999873 345556544
No 58
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.20 E-value=7.3e-12 Score=94.85 Aligned_cols=86 Identities=16% Similarity=0.269 Sum_probs=77.1
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.++|+....+.|+++..+|..|..+.|.++..+|.++. |+. |++++...+|++.|..|.||+||.|-++..|.+|+||
T Consensus 335 VELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G~-crn-LVctDL~TRGIDiqavNvVINFDfpk~aEtYLHRIGR 412 (459)
T KOG0326|consen 335 VELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGK-CRN-LVCTDLFTRGIDIQAVNVVINFDFPKNAETYLHRIGR 412 (459)
T ss_pred hHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhccc-cce-eeehhhhhcccccceeeEEEecCCCCCHHHHHHHccC
Confidence 36777788889999999999999999999999998876 554 4555999999999999999999999999999999999
Q ss_pred hhhcCCCC
Q 032027 82 CHRIGQTR 89 (148)
Q Consensus 82 ~~R~Gq~~ 89 (148)
.+|+|-..
T Consensus 413 sGRFGhlG 420 (459)
T KOG0326|consen 413 SGRFGHLG 420 (459)
T ss_pred CccCCCcc
Confidence 99999653
No 59
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.19 E-value=2.7e-10 Score=94.92 Aligned_cols=86 Identities=19% Similarity=0.195 Sum_probs=71.0
Q ss_pred HHHHHh--cCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCC-CcchHHHHHHhh
Q 032027 6 EWTLDV--IGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDF-NPQIDRQAEDRC 82 (148)
Q Consensus 6 ~~~L~~--~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~-~~~~~~Q~~gR~ 82 (148)
.+.|.. .++++..+||+++.++|.+++++|.++. .. +|++|.+.++|+|+++++.||+++++. +...+.|+.||+
T Consensus 473 ~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~-~~-ILVaT~vie~GvDiP~v~~VIi~~~~r~gls~lhQ~~GRv 550 (630)
T TIGR00643 473 YERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREGE-VD-ILVATTVIEVGVDVPNATVMVIEDAERFGLSQLHQLRGRV 550 (630)
T ss_pred HHHHHhhCCCCcEEEEeCCCCHHHHHHHHHHHHcCC-CC-EEEECceeecCcccCCCcEEEEeCCCcCCHHHHHHHhhhc
Confidence 344443 3778999999999999999999998766 33 667779999999999999999999885 567788999999
Q ss_pred hhcCCCCcEEE
Q 032027 83 HRIGQTRPVTI 93 (148)
Q Consensus 83 ~R~Gq~~~v~v 93 (148)
+|.|.+..+.+
T Consensus 551 GR~g~~g~~il 561 (630)
T TIGR00643 551 GRGDHQSYCLL 561 (630)
T ss_pred ccCCCCcEEEE
Confidence 99987655443
No 60
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.18 E-value=8.8e-11 Score=94.47 Aligned_cols=90 Identities=18% Similarity=0.228 Sum_probs=76.1
Q ss_pred HHHHH-HhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhh
Q 032027 5 LEWTL-DVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCH 83 (148)
Q Consensus 5 l~~~L-~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~ 83 (148)
|...| ...++++..+||..+..+|...+++|+.+. ++| |++|+..++|+++.+++.||+||.|-+...|.+|+||++
T Consensus 403 L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~g~-Iwv-LicTdll~RGiDf~gvn~VInyD~p~s~~syihrIGRtg 480 (593)
T KOG0344|consen 403 LFEELEIYDNINVDVIHGERSQKQRDETMERFRIGK-IWV-LICTDLLARGIDFKGVNLVINYDFPQSDLSYIHRIGRTG 480 (593)
T ss_pred HHHHhhhccCcceeeEecccchhHHHHHHHHHhccC-eeE-EEehhhhhccccccCcceEEecCCCchhHHHHHHhhccC
Confidence 33445 556889999999999999999999998876 564 555699999999999999999999999999999999999
Q ss_pred hcCCCCcEEEEEEEe
Q 032027 84 RIGQTRPVTIYRLVT 98 (148)
Q Consensus 84 R~Gq~~~v~v~~l~~ 98 (148)
|.|+.. +.|.|++
T Consensus 481 Rag~~g--~Aitfyt 493 (593)
T KOG0344|consen 481 RAGRSG--KAITFYT 493 (593)
T ss_pred CCCCCc--ceEEEec
Confidence 999884 3344454
No 61
>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=99.17 E-value=3.6e-10 Score=97.24 Aligned_cols=93 Identities=19% Similarity=0.233 Sum_probs=76.3
Q ss_pred HHHHHHHHhc--CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC-CCcchHHHHH
Q 032027 3 DILEWTLDVI--GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD-FNPQIDRQAE 79 (148)
Q Consensus 3 ~~l~~~L~~~--~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~-~~~~~~~Q~~ 79 (148)
+.+.+.|+.. ++++..+||.++.++|.+++.+|.++. .. +|++|.+.++|+|++++++||+++.+ +..+.+.|+.
T Consensus 674 e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~Gk-~~-ILVaT~iie~GIDIp~v~~VIi~~a~~~gls~l~Qr~ 751 (926)
T TIGR00580 674 EKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGE-FQ-VLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLR 751 (926)
T ss_pred HHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcCC-CC-EEEECChhhcccccccCCEEEEecCCCCCHHHHHHHh
Confidence 4566777764 788999999999999999999998876 33 67777999999999999999999886 4566888999
Q ss_pred HhhhhcCCCCcEEEEEEEeC
Q 032027 80 DRCHRIGQTRPVTIYRLVTK 99 (148)
Q Consensus 80 gR~~R~Gq~~~v~v~~l~~~ 99 (148)
||++|.|.+ -.+|.++..
T Consensus 752 GRvGR~g~~--g~aill~~~ 769 (926)
T TIGR00580 752 GRVGRSKKK--AYAYLLYPH 769 (926)
T ss_pred cCCCCCCCC--eEEEEEECC
Confidence 999998875 444555543
No 62
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.17 E-value=1.1e-10 Score=92.61 Aligned_cols=104 Identities=17% Similarity=0.248 Sum_probs=83.1
Q ss_pred HHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhh
Q 032027 4 ILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCH 83 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~ 83 (148)
.|.-.+..-++++..+.|..+.+.|.+.+.+|..++ .. +|++++++++|+|+-+.+.||+||+|-+...|.+|+||..
T Consensus 448 ~L~v~~~~~~~~~s~~t~~l~~k~r~k~l~~f~~g~-i~-vLIcSD~laRGiDv~~v~~VINYd~P~~~ktyVHR~GRTA 525 (620)
T KOG0350|consen 448 VLKVEFCSDNFKVSEFTGQLNGKRRYKMLEKFAKGD-IN-VLICSDALARGIDVNDVDNVINYDPPASDKTYVHRAGRTA 525 (620)
T ss_pred HHHHHhccccchhhhhhhhhhHHHHHHHHHHHhcCC-ce-EEEehhhhhcCCcccccceEeecCCCchhhHHHHhhcccc
Confidence 344445566778888999999999999999998877 45 4555599999999999999999999999999999999999
Q ss_pred hcCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 032027 84 RIGQTRPVTIYRLVTKGTVDENVYEIAKRK 113 (148)
Q Consensus 84 R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K 113 (148)
|.||. -+.|.++... |++.+..+.+|
T Consensus 526 RAgq~--G~a~tll~~~--~~r~F~klL~~ 551 (620)
T KOG0350|consen 526 RAGQD--GYAITLLDKH--EKRLFSKLLKK 551 (620)
T ss_pred cccCC--ceEEEeeccc--cchHHHHHHHH
Confidence 99998 4557777655 44444444333
No 63
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.16 E-value=4.1e-10 Score=94.58 Aligned_cols=85 Identities=20% Similarity=0.184 Sum_probs=70.6
Q ss_pred HHHHHHhc--CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCC-CcchHHHHHHh
Q 032027 5 LEWTLDVI--GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDF-NPQIDRQAEDR 81 (148)
Q Consensus 5 l~~~L~~~--~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~-~~~~~~Q~~gR 81 (148)
+.+.|... ++++..+||+++.++|.+++++|.++. .. +|++|.+.++|+|+++++.||+++++. ....+.|+.||
T Consensus 495 ~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~-~~-ILVaT~vie~GiDip~v~~VIi~~~~r~gls~lhQ~~GR 572 (681)
T PRK10917 495 TYEELQEAFPELRVGLLHGRMKPAEKDAVMAAFKAGE-ID-ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGR 572 (681)
T ss_pred HHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHHHHcCC-CC-EEEECcceeeCcccCCCcEEEEeCCCCCCHHHHHHHhhc
Confidence 34555544 478999999999999999999998766 33 677779999999999999999999885 46778899999
Q ss_pred hhhcCCCCcE
Q 032027 82 CHRIGQTRPV 91 (148)
Q Consensus 82 ~~R~Gq~~~v 91 (148)
++|.|.+..|
T Consensus 573 vGR~g~~g~~ 582 (681)
T PRK10917 573 VGRGAAQSYC 582 (681)
T ss_pred ccCCCCceEE
Confidence 9999876444
No 64
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.14 E-value=1.7e-10 Score=92.00 Aligned_cols=103 Identities=22% Similarity=0.311 Sum_probs=83.7
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+.+.-.|-..|+++..+||+.+..+|..+++.|++.. +. +|++|+.+++||++....+||+|+.|-+...|.||+||.
T Consensus 440 HRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~e-id-vLiaTDvAsRGLDI~gV~tVINy~mP~t~e~Y~HRVGRT 517 (691)
T KOG0338|consen 440 HRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEE-ID-VLIATDVASRGLDIEGVQTVINYAMPKTIEHYLHRVGRT 517 (691)
T ss_pred HHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhcc-CC-EEEEechhhccCCccceeEEEeccCchhHHHHHHHhhhh
Confidence 3455566777999999999999999999999998766 44 566779999999999999999999999999999999999
Q ss_pred hhcCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 032027 83 HRIGQTRPVTIYRLVTKGTVDENVYEIAK 111 (148)
Q Consensus 83 ~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~ 111 (148)
.|.|... .-..|+.++ |.+++.-..
T Consensus 518 ARAGRaG--rsVtlvgE~--dRkllK~ii 542 (691)
T KOG0338|consen 518 ARAGRAG--RSVTLVGES--DRKLLKEII 542 (691)
T ss_pred hhcccCc--ceEEEeccc--cHHHHHHHH
Confidence 9999763 223455544 555555443
No 65
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.13 E-value=2e-10 Score=95.11 Aligned_cols=101 Identities=19% Similarity=0.323 Sum_probs=77.7
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCC---CCC-----eEEEeCCCCCcc
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLT---GAD-----TVVIHDMDFNPQ 73 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~---~a~-----~vi~~d~~~~~~ 73 (148)
.+.|...|...|+++..+||..+ +|++.+..|...+. . ++++|+.+|+|+|+. ... |||+++.|-+..
T Consensus 486 se~L~~~L~~~gi~~~~Lhg~~~--~rE~~ii~~ag~~g-~-VlVATdmAgRGtDI~l~~~V~~~GGLhVI~~d~P~s~r 561 (656)
T PRK12898 486 SERLSALLREAGLPHQVLNAKQD--AEEAAIVARAGQRG-R-ITVATNMAGRGTDIKLEPGVAARGGLHVILTERHDSAR 561 (656)
T ss_pred HHHHHHHHHHCCCCEEEeeCCcH--HHHHHHHHHcCCCC-c-EEEEccchhcccCcCCccchhhcCCCEEEEcCCCCCHH
Confidence 46789999999999999999865 56666666654443 3 677889999999987 343 999999999999
Q ss_pred hHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 032027 74 IDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAK 111 (148)
Q Consensus 74 ~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~ 111 (148)
.|.|++||++|.|....+ ..++ |.|+.++....
T Consensus 562 ~y~hr~GRTGRqG~~G~s--~~~i---s~eD~l~~~~~ 594 (656)
T PRK12898 562 IDRQLAGRCGRQGDPGSY--EAIL---SLEDDLLQSFL 594 (656)
T ss_pred HHHHhcccccCCCCCeEE--EEEe---chhHHHHHhhh
Confidence 999999999999987543 3333 34555554443
No 66
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.12 E-value=2.5e-10 Score=96.31 Aligned_cols=100 Identities=18% Similarity=0.278 Sum_probs=79.8
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCC---CCCC-----eEEEeCCCCCcc
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNL---TGAD-----TVVIHDMDFNPQ 73 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl---~~a~-----~vi~~d~~~~~~ 73 (148)
.+.|...|...|+++..+||.+...++..+..+++.+ . ++++|+.+|+|+|+ +..+ |||++++|-++.
T Consensus 441 se~l~~~L~~~gi~~~~L~~~~~~~e~~~i~~ag~~g---~-VlIATdmAgRG~DI~l~~~V~~~GGL~VI~~d~p~s~r 516 (790)
T PRK09200 441 SETFSKLLDEAGIPHNLLNAKNAAKEAQIIAEAGQKG---A-VTVATNMAGRGTDIKLGEGVHELGGLAVIGTERMESRR 516 (790)
T ss_pred HHHHHHHHHHCCCCEEEecCCccHHHHHHHHHcCCCC---e-EEEEccchhcCcCCCcccccccccCcEEEeccCCCCHH
Confidence 4678899999999999999999887777666666543 2 67788999999999 4676 999999999999
Q ss_pred hHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHH
Q 032027 74 IDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIA 110 (148)
Q Consensus 74 ~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~ 110 (148)
.|.|+.||++|.|.+.... .++ |.|+.++...
T Consensus 517 ~y~qr~GRtGR~G~~G~s~--~~i---s~eD~l~~~~ 548 (790)
T PRK09200 517 VDLQLRGRSGRQGDPGSSQ--FFI---SLEDDLLKRF 548 (790)
T ss_pred HHHHhhccccCCCCCeeEE--EEE---cchHHHHHhh
Confidence 9999999999999886442 233 3456565543
No 67
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.12 E-value=5.1e-10 Score=96.26 Aligned_cols=81 Identities=12% Similarity=0.010 Sum_probs=69.1
Q ss_pred CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcC-CCCcE
Q 032027 13 GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIG-QTRPV 91 (148)
Q Consensus 13 ~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~G-q~~~v 91 (148)
+..+..+||+++.++|..+.++|+++. .+ +|++|.++++|+|++..++||++++|.+...+.||+||++|.+ .....
T Consensus 314 ~~~i~~hHg~ls~~~R~~ve~~fk~G~-i~-vLVaTs~Le~GIDip~Vd~VI~~~~P~sv~~ylQRiGRaGR~~g~~~~g 391 (876)
T PRK13767 314 EDNIGAHHSSLSREVRLEVEEKLKRGE-LK-VVVSSTSLELGIDIGYIDLVVLLGSPKSVSRLLQRIGRAGHRLGEVSKG 391 (876)
T ss_pred ccceeeeeCCCCHHHHHHHHHHHHcCC-Ce-EEEECChHHhcCCCCCCcEEEEeCCCCCHHHHHHhcccCCCCCCCCCcE
Confidence 467888999999999999999998876 34 5667799999999999999999999999999999999999864 44445
Q ss_pred EEEE
Q 032027 92 TIYR 95 (148)
Q Consensus 92 ~v~~ 95 (148)
.++-
T Consensus 392 ~ii~ 395 (876)
T PRK13767 392 RIIV 395 (876)
T ss_pred EEEE
Confidence 4443
No 68
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.11 E-value=4.4e-10 Score=98.53 Aligned_cols=92 Identities=17% Similarity=0.216 Sum_probs=75.1
Q ss_pred HHHHHHHHhc--CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC-CCcchHHHHH
Q 032027 3 DILEWTLDVI--GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD-FNPQIDRQAE 79 (148)
Q Consensus 3 ~~l~~~L~~~--~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~-~~~~~~~Q~~ 79 (148)
+.+.+.|+.. +.++..+||+++.++|.+++.+|.++. .. +|++|+.+++|+|++++++||+.+++ ++...+.|+.
T Consensus 823 e~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~Gk-~~-VLVaTdIierGIDIP~v~~VIi~~ad~fglaq~~Qr~ 900 (1147)
T PRK10689 823 QKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQR-FN-VLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLR 900 (1147)
T ss_pred HHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhcC-CC-EEEECchhhcccccccCCEEEEecCCCCCHHHHHHHh
Confidence 4566777776 778999999999999999999998876 34 56677999999999999999976654 6777899999
Q ss_pred HhhhhcCCCCcEEEEEEEe
Q 032027 80 DRCHRIGQTRPVTIYRLVT 98 (148)
Q Consensus 80 gR~~R~Gq~~~v~v~~l~~ 98 (148)
||++|.|.+. .+|.++.
T Consensus 901 GRvGR~g~~g--~a~ll~~ 917 (1147)
T PRK10689 901 GRVGRSHHQA--YAWLLTP 917 (1147)
T ss_pred hccCCCCCce--EEEEEeC
Confidence 9999998774 4444443
No 69
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.10 E-value=7.7e-10 Score=89.02 Aligned_cols=105 Identities=17% Similarity=0.216 Sum_probs=87.0
Q ss_pred HHHHHHhc--CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 5 LEWTLDVI--GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 5 l~~~L~~~--~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+.+.+... |++...+||.++...|..+..+|.... .++|.+|+.+++||+++..+.||-+|.|-+-..|++|.||+
T Consensus 329 ~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~~--~~vLF~TDv~aRGLDFpaVdwViQ~DCPedv~tYIHRvGRt 406 (758)
T KOG0343|consen 329 LYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRKR--AVVLFCTDVAARGLDFPAVDWVIQVDCPEDVDTYIHRVGRT 406 (758)
T ss_pred HHHHHHhcCCCCceeeeccchhHHHHHHHHHHHHHhc--ceEEEeehhhhccCCCcccceEEEecCchhHHHHHHHhhhh
Confidence 44445443 899999999999999999999998766 44778889999999999999999999999999999999999
Q ss_pred hhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHH
Q 032027 83 HRIGQTRPVTIYRLVTKGTVDENVYEIAKRKL 114 (148)
Q Consensus 83 ~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~ 114 (148)
.|++...+..++ ++ .+=+|.+...+..|.
T Consensus 407 AR~~~~G~sll~--L~-psEeE~~l~~Lq~k~ 435 (758)
T KOG0343|consen 407 ARYKERGESLLM--LT-PSEEEAMLKKLQKKK 435 (758)
T ss_pred hcccCCCceEEE--Ec-chhHHHHHHHHHHcC
Confidence 999988766554 33 234578888777764
No 70
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.10 E-value=7.6e-10 Score=92.38 Aligned_cols=103 Identities=20% Similarity=0.161 Sum_probs=82.8
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeC-----CCCCcchHH
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHD-----MDFNPQIDR 76 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d-----~~~~~~~~~ 76 (148)
.+.|.+.|...|+++..+||.++..+|.+++.+|..+. +. +++++..+++|++++.++.|+++| .|-+...+.
T Consensus 455 ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~G~-i~-VLV~t~~L~rGfDiP~v~lVvi~DadifG~p~~~~~~i 532 (655)
T TIGR00631 455 AEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGE-FD-VLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLI 532 (655)
T ss_pred HHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhcCC-ce-EEEEcChhcCCeeeCCCcEEEEeCcccccCCCCHHHHH
Confidence 35688899999999999999999999999999998765 34 566779999999999999999999 566888999
Q ss_pred HHHHhhhhcCCCCcEEEEEEEeCCC--HHHHHHHH
Q 032027 77 QAEDRCHRIGQTRPVTIYRLVTKGT--VDENVYEI 109 (148)
Q Consensus 77 Q~~gR~~R~Gq~~~v~v~~l~~~~t--~ee~i~~~ 109 (148)
|++||++|.. . -.++.++...| +...+.+.
T Consensus 533 qriGRagR~~-~--G~vi~~~~~~~~~~~~ai~~~ 564 (655)
T TIGR00631 533 QTIGRAARNV-N--GKVIMYADKITDSMQKAIEET 564 (655)
T ss_pred HHhcCCCCCC-C--CEEEEEEcCCCHHHHHHHHHH
Confidence 9999999973 2 33455554443 55555555
No 71
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.08 E-value=8.9e-11 Score=94.21 Aligned_cols=117 Identities=17% Similarity=0.225 Sum_probs=95.4
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
..|..+|...+++...+|..|..++|-+.+++|.+.+++ +|++|+++++||+++...|||+|..|-....|.+|.||.
T Consensus 477 KRLt~~L~~L~i~p~~LHA~M~QKqRLknLEkF~~~~~~--VLiaTDVAARGLDIp~V~HVIHYqVPrtseiYVHRSGRT 554 (731)
T KOG0347|consen 477 KRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFKQSPSG--VLIATDVAARGLDIPGVQHVIHYQVPRTSEIYVHRSGRT 554 (731)
T ss_pred HHHHHHHhhcCCCCchhhHHHHHHHHHHhHHHHhcCCCe--EEEeehhhhccCCCCCcceEEEeecCCccceeEeccccc
Confidence 357788999999999999999999999999999987754 788889999999999999999999999999999999999
Q ss_pred hhcCCCCcEEEEEEE--------------------eCCCHHHHHHHHHHHHHHHHHHHHh
Q 032027 83 HRIGQTRPVTIYRLV--------------------TKGTVDENVYEIAKRKLILDAAVLE 122 (148)
Q Consensus 83 ~R~Gq~~~v~v~~l~--------------------~~~t~ee~i~~~~~~K~~~~~~~~~ 122 (148)
.|.+... |.+-..- .--++++.++..++.+..++..+-.
T Consensus 555 ARA~~~G-vsvml~~P~e~~~~~KL~ktL~k~~dlpifPv~~~~m~~lkeRvrLA~ei~~ 613 (731)
T KOG0347|consen 555 ARANSEG-VSVMLCGPQEVGPLKKLCKTLKKKEDLPIFPVETDIMDALKERVRLAREIDK 613 (731)
T ss_pred ccccCCC-eEEEEeChHHhHHHHHHHHHHhhccCCCceeccHHHHHHHHHHHHHHHHHHH
Confidence 9987543 2221110 0124688888888888777766543
No 72
>PF13871 Helicase_C_4: Helicase_C-like
Probab=99.06 E-value=6.9e-10 Score=83.45 Aligned_cols=96 Identities=20% Similarity=0.188 Sum_probs=79.1
Q ss_pred HHHHHhcCCCCcceeeeeccccccCcCCCCC--------CeEEEeCCCCCcchHHHHHHhhhhcCCCCcEEEEEEEeCCC
Q 032027 30 AIVDAFNNDTSIFACLLSTRAGGQGLNLTGA--------DTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGT 101 (148)
Q Consensus 30 ~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a--------~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t 101 (148)
...+.|+++. ..|+++| ++++.|++|+.- ...|.+++||+.....|-.||+||.||..+..+..+++.-.
T Consensus 52 ~e~~~F~~g~-k~v~iis-~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~t~~~ 129 (278)
T PF13871_consen 52 AEKQAFMDGE-KDVAIIS-DAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLVTDLP 129 (278)
T ss_pred HHHHHHhCCC-ceEEEEe-cccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEeecCCH
Confidence 5778998876 5667776 999999999842 23588999999999999999999999998755555666667
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCccc
Q 032027 102 VDENVYEIAKRKLILDAAVLESGVEV 127 (148)
Q Consensus 102 ~ee~i~~~~~~K~~~~~~~~~~~~~~ 127 (148)
.|.+....+.+|.....++..+....
T Consensus 130 gE~Rfas~va~rL~sLgAlt~gdr~~ 155 (278)
T PF13871_consen 130 GERRFASTVARRLESLGALTRGDRRA 155 (278)
T ss_pred HHHHHHHHHHHHHhhccccccCcccc
Confidence 89999999999999888888766554
No 73
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.06 E-value=6.6e-10 Score=90.87 Aligned_cols=85 Identities=19% Similarity=0.220 Sum_probs=77.8
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+.+..+|+..|+++-.|.|.|+..+|.-+++.+++-. ++ +|++|+..++|++-..+|-||++|+|-+..+|.+||||+
T Consensus 286 ~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~-~r-ILVsTDLtaRGIDa~~vNLVVNiD~p~d~eTY~HRIGRA 363 (980)
T KOG4284|consen 286 EPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFR-VR-ILVSTDLTARGIDADNVNLVVNIDAPADEETYFHRIGRA 363 (980)
T ss_pred hHHHHHhhccCCCeEEeccccchhHHHHHHHHhhhce-EE-EEEecchhhccCCccccceEEecCCCcchHHHHHHhhhc
Confidence 5678899999999999999999999999999997655 44 777889999999999999999999999999999999999
Q ss_pred hhcCCCC
Q 032027 83 HRIGQTR 89 (148)
Q Consensus 83 ~R~Gq~~ 89 (148)
+|+|...
T Consensus 364 gRFG~~G 370 (980)
T KOG4284|consen 364 GRFGAHG 370 (980)
T ss_pred ccccccc
Confidence 9999775
No 74
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.05 E-value=1.1e-09 Score=91.50 Aligned_cols=88 Identities=20% Similarity=0.223 Sum_probs=76.2
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCC-------CCeEEEeCCCCCcch
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTG-------ADTVVIHDMDFNPQI 74 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~-------a~~vi~~d~~~~~~~ 74 (148)
.+.|...|...|+++..++|. ..+|+..+..|...+. . ++++|+.+|+|+|+.. .-|||++++|-++..
T Consensus 418 se~ls~~L~~~gi~~~~Lna~--q~~rEa~ii~~ag~~g-~-VtIATnmAgRGtDI~l~~V~~~GGl~VI~t~~p~s~ri 493 (745)
T TIGR00963 418 SELLSNLLKERGIPHNVLNAK--NHEREAEIIAQAGRKG-A-VTIATNMAGRGTDIKLEEVKELGGLYVIGTERHESRRI 493 (745)
T ss_pred HHHHHHHHHHcCCCeEEeeCC--hHHHHHHHHHhcCCCc-e-EEEEeccccCCcCCCccchhhcCCcEEEecCCCCcHHH
Confidence 367899999999999999998 6689999999976653 3 6777799999999876 669999999999999
Q ss_pred HHHHHHhhhhcCCCCcEEE
Q 032027 75 DRQAEDRCHRIGQTRPVTI 93 (148)
Q Consensus 75 ~~Q~~gR~~R~Gq~~~v~v 93 (148)
+.|+.||++|.|.......
T Consensus 494 ~~q~~GRtGRqG~~G~s~~ 512 (745)
T TIGR00963 494 DNQLRGRSGRQGDPGSSRF 512 (745)
T ss_pred HHHHhccccCCCCCcceEE
Confidence 9999999999999865433
No 75
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.03 E-value=3.3e-09 Score=88.75 Aligned_cols=92 Identities=18% Similarity=0.139 Sum_probs=76.8
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCC-----CCCcchHH
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDM-----DFNPQIDR 76 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~-----~~~~~~~~ 76 (148)
.+.|.+.|...|+++..+||.++..+|.+++..|..+. +. +++++..+++|++++.++.||++|. |-++..|.
T Consensus 459 ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~g~-i~-vlV~t~~L~rGfdlp~v~lVii~d~eifG~~~~~~~yi 536 (652)
T PRK05298 459 AEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGE-FD-VLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLI 536 (652)
T ss_pred HHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHcCC-ce-EEEEeCHHhCCccccCCcEEEEeCCcccccCCCHHHHH
Confidence 36788899999999999999999999999999998765 34 5667799999999999999999996 45888999
Q ss_pred HHHHhhhhcCCCCcEEEEEEEe
Q 032027 77 QAEDRCHRIGQTRPVTIYRLVT 98 (148)
Q Consensus 77 Q~~gR~~R~Gq~~~v~v~~l~~ 98 (148)
|++||++|. . .-.++.++.
T Consensus 537 qr~GR~gR~-~--~G~~i~~~~ 555 (652)
T PRK05298 537 QTIGRAARN-V--NGKVILYAD 555 (652)
T ss_pred HHhccccCC-C--CCEEEEEec
Confidence 999999994 3 334555555
No 76
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.02 E-value=3e-09 Score=85.35 Aligned_cols=106 Identities=19% Similarity=0.239 Sum_probs=86.2
Q ss_pred HHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhh
Q 032027 4 ILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCH 83 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~ 83 (148)
.+...+...++ +..++|.++..+|.++++.|+.++ ..+|++++++.+|+|++.++.+|...+.-++..+.|+.||+.
T Consensus 298 ~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr~g~--~~~lv~~~vl~EGvDiP~~~~~i~~~~t~S~~~~~Q~lGR~L 374 (442)
T COG1061 298 EIAKLFLAPGI-VEAITGETPKEEREAILERFRTGG--IKVLVTVKVLDEGVDIPDADVLIILRPTGSRRLFIQRLGRGL 374 (442)
T ss_pred HHHHHhcCCCc-eEEEECCCCHHHHHHHHHHHHcCC--CCEEEEeeeccceecCCCCcEEEEeCCCCcHHHHHHHhhhhc
Confidence 34555555666 789999999999999999999877 446777799999999999999999999999999999999999
Q ss_pred hc-CCCCc--EEEEEEEeCCCHHHHHHHHHHH
Q 032027 84 RI-GQTRP--VTIYRLVTKGTVDENVYEIAKR 112 (148)
Q Consensus 84 R~-Gq~~~--v~v~~l~~~~t~ee~i~~~~~~ 112 (148)
|. ..++. +..|.++...+.+..+......
T Consensus 375 R~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~ 406 (442)
T COG1061 375 RPAEGKEDTLALDYSLVPDDLGEEDIARRRRL 406 (442)
T ss_pred cCCCCCCceEEEEEEeecCcccccchhhhhhh
Confidence 94 44444 6777777777777666555543
No 77
>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=98.99 E-value=4e-09 Score=89.50 Aligned_cols=89 Identities=24% Similarity=0.302 Sum_probs=70.3
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHH-----HHHHHhcC----CC-----CcceeeeeccccccCcCCCCCCeEEEeCC
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQ-----AIVDAFNN----DT-----SIFACLLSTRAGGQGLNLTGADTVVIHDM 68 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~-----~~~~~F~~----~~-----~~~vll~s~~~~~~Glnl~~a~~vi~~d~ 68 (148)
+.|.+.|+..++ ..+||.++..+|. +++++|.+ +. ....+|++|+++++|+|+.. +++|+...
T Consensus 286 q~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~~ILVATdVaerGLDId~-d~VI~d~a 362 (844)
T TIGR02621 286 RKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGTVYLVCTSAGEVGVNISA-DHLVCDLA 362 (844)
T ss_pred HHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccceEEeccchhhhcccCCc-ceEEECCC
Confidence 456778888777 8999999999999 78999976 21 11347888899999999986 88888776
Q ss_pred CCCcchHHHHHHhhhhcCCCCc--EEEEEE
Q 032027 69 DFNPQIDRQAEDRCHRIGQTRP--VTIYRL 96 (148)
Q Consensus 69 ~~~~~~~~Q~~gR~~R~Gq~~~--v~v~~l 96 (148)
|+ ..|.||+||++|.|.... +.++.+
T Consensus 363 P~--esyIQRiGRtgR~G~~~~~~i~vv~~ 390 (844)
T TIGR02621 363 PF--ESMQQRFGRVNRFGELQACQIAVVHL 390 (844)
T ss_pred CH--HHHHHHhcccCCCCCCCCceEEEEee
Confidence 64 789999999999998644 444433
No 78
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.98 E-value=1.5e-09 Score=86.72 Aligned_cols=96 Identities=23% Similarity=0.348 Sum_probs=84.8
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+-|...|+..++++..+||++...+|.+.+.+|+.... . +|+.++.+++|+++....+||+||..-+-..+.||+||.
T Consensus 482 e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKkk~~-~-VlvatDvaargldI~~ikTVvnyD~ardIdththrigrt 559 (731)
T KOG0339|consen 482 EEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRK-P-VLVATDVAARGLDIPSIKTVVNYDFARDIDTHTHRIGRT 559 (731)
T ss_pred HHHHHHhccccceeeeecCchhhHHHHHHHHHHhhcCC-c-eEEEeeHhhcCCCccccceeecccccchhHHHHHHhhhc
Confidence 56788899999999999999999999999999987653 3 566679999999999999999999999999999999999
Q ss_pred hhcCCCCcEEEEEEEeCCCH
Q 032027 83 HRIGQTRPVTIYRLVTKGTV 102 (148)
Q Consensus 83 ~R~Gq~~~v~v~~l~~~~t~ 102 (148)
+|-|.+ -..|.|+++...
T Consensus 560 gRag~k--GvayTlvTeKDa 577 (731)
T KOG0339|consen 560 GRAGEK--GVAYTLVTEKDA 577 (731)
T ss_pred cccccc--ceeeEEechhhH
Confidence 999987 567888886543
No 79
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=98.96 E-value=2.8e-09 Score=89.61 Aligned_cols=85 Identities=20% Similarity=0.210 Sum_probs=70.9
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCC---------CCCeEEEeCCCCCc
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLT---------GADTVVIHDMDFNP 72 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~---------~a~~vi~~d~~~~~ 72 (148)
.+.|...|...|+++..++|.+...++..+..+|+.+ . ++++|+.+|+|+|+. +.++|+++++|-+.
T Consensus 437 se~ls~~L~~~gi~~~~L~a~~~~~E~~ii~~ag~~g---~-VlIATdmAgRGtDI~l~~~v~~~GGL~vIit~~~ps~r 512 (762)
T TIGR03714 437 SEIYSELLLREGIPHNLLNAQNAAKEAQIIAEAGQKG---A-VTVATSMAGRGTDIKLGKGVAELGGLAVIGTERMENSR 512 (762)
T ss_pred HHHHHHHHHHCCCCEEEecCCChHHHHHHHHHcCCCC---e-EEEEccccccccCCCCCccccccCCeEEEEecCCCCcH
Confidence 3678899999999999999999987776666655443 2 678889999999998 78999999999766
Q ss_pred chHHHHHHhhhhcCCCCcE
Q 032027 73 QIDRQAEDRCHRIGQTRPV 91 (148)
Q Consensus 73 ~~~~Q~~gR~~R~Gq~~~v 91 (148)
.. .|+.||++|.|.+...
T Consensus 513 id-~qr~GRtGRqG~~G~s 530 (762)
T TIGR03714 513 VD-LQLRGRSGRQGDPGSS 530 (762)
T ss_pred HH-HHhhhcccCCCCceeE
Confidence 55 9999999999988653
No 80
>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=98.95 E-value=2.7e-09 Score=90.98 Aligned_cols=93 Identities=19% Similarity=0.280 Sum_probs=75.0
Q ss_pred HHHHHHHHh---cCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC----CCcch-
Q 032027 3 DILEWTLDV---IGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD----FNPQI- 74 (148)
Q Consensus 3 ~~l~~~L~~---~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~----~~~~~- 74 (148)
+.+.+.|+. .++.+..+||+++.++|.++++.|.++. .-+|++|+.+..|+++++.++||.++.+ ++|..
T Consensus 223 ~~l~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G~--rkVlVATnIAErgItIp~V~~VID~Gl~r~~~yd~~~g 300 (819)
T TIGR01970 223 RRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGR--RKVVLATNIAETSLTIEGIRVVIDSGLARVARFDPKTG 300 (819)
T ss_pred HHHHHHHHhhcCCCcEEEEecCCCCHHHHHHHHhhcccCC--eEEEEecchHhhcccccCceEEEEcCcccccccccccC
Confidence 445666765 4788999999999999999999997654 3367788999999999999999999876 44443
Q ss_pred -------------HHHHHHhhhhcCCCCcEEEEEEEeCC
Q 032027 75 -------------DRQAEDRCHRIGQTRPVTIYRLVTKG 100 (148)
Q Consensus 75 -------------~~Q~~gR~~R~Gq~~~v~v~~l~~~~ 100 (148)
+.||.||++|. ++-.+|+|+++.
T Consensus 301 ~~~L~~~~iSkasa~QR~GRAGR~---~~G~cyrL~t~~ 336 (819)
T TIGR01970 301 ITRLETVRISQASATQRAGRAGRL---EPGVCYRLWSEE 336 (819)
T ss_pred CceeeEEEECHHHHHhhhhhcCCC---CCCEEEEeCCHH
Confidence 67888888886 567789998754
No 81
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=98.93 E-value=3.5e-09 Score=83.46 Aligned_cols=82 Identities=22% Similarity=0.279 Sum_probs=72.7
Q ss_pred HHHHHHHHhcC---CeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHH
Q 032027 3 DILEWTLDVIG---VTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAE 79 (148)
Q Consensus 3 ~~l~~~L~~~~---~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~ 79 (148)
|-|+.++..+| ++++.+||..++.+|.+.++.|.... ++ +|++++++++|++++....+|+..+|.+...|.+|+
T Consensus 519 DnLer~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk~d-vk-flictdvaargldi~g~p~~invtlpd~k~nyvhri 596 (725)
T KOG0349|consen 519 DNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKKFD-VK-FLICTDVAARGLDITGLPFMINVTLPDDKTNYVHRI 596 (725)
T ss_pred hHHHHHHHHcCCccceeEEEecCCChhHHHHHHHhhhhcC-eE-EEEEehhhhccccccCCceEEEEecCcccchhhhhh
Confidence 67888888774 67899999999999999999998766 33 777889999999999999999999999999999999
Q ss_pred HhhhhcC
Q 032027 80 DRCHRIG 86 (148)
Q Consensus 80 gR~~R~G 86 (148)
||++|.-
T Consensus 597 grvgrae 603 (725)
T KOG0349|consen 597 GRVGRAE 603 (725)
T ss_pred hccchhh
Confidence 9988743
No 82
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=98.91 E-value=5.7e-09 Score=88.04 Aligned_cols=87 Identities=22% Similarity=0.330 Sum_probs=71.9
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCC---CCC-----eEEEeCCCCCcc
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLT---GAD-----TVVIHDMDFNPQ 73 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~---~a~-----~vi~~d~~~~~~ 73 (148)
.+.|...|...|+++..++|.....++..+..+++.+. ++++|..+|+|+|+. ... |||+++.|-+..
T Consensus 453 se~ls~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~g~----VtIATnmAGRGtDI~l~~~V~~~GGLhVI~te~pes~r 528 (796)
T PRK12906 453 SERLSHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQRGA----VTIATNMAGRGTDIKLGPGVKELGGLAVIGTERHESRR 528 (796)
T ss_pred HHHHHHHHHHCCCCeeEecCCcHHHHHHHHHhcCCCce----EEEEeccccCCCCCCCCcchhhhCCcEEEeeecCCcHH
Confidence 36788999999999999999988555555555554333 677779999999984 567 999999999999
Q ss_pred hHHHHHHhhhhcCCCCcEE
Q 032027 74 IDRQAEDRCHRIGQTRPVT 92 (148)
Q Consensus 74 ~~~Q~~gR~~R~Gq~~~v~ 92 (148)
.+.|+.||++|.|......
T Consensus 529 i~~Ql~GRtGRqG~~G~s~ 547 (796)
T PRK12906 529 IDNQLRGRSGRQGDPGSSR 547 (796)
T ss_pred HHHHHhhhhccCCCCcceE
Confidence 9999999999999987653
No 83
>PHA02653 RNA helicase NPH-II; Provisional
Probab=98.90 E-value=5.6e-09 Score=87.36 Aligned_cols=94 Identities=13% Similarity=0.108 Sum_probs=72.5
Q ss_pred HHHHHHHHhc--CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeC---CCC-------
Q 032027 3 DILEWTLDVI--GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHD---MDF------- 70 (148)
Q Consensus 3 ~~l~~~L~~~--~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d---~~~------- 70 (148)
+.+.+.|+.. ++.+..+||+++. +++.+++|...+. .-+|++|+.+++|+++++.++||.++ .|-
T Consensus 409 ~~l~~~L~~~~~~~~v~~LHG~Lsq--~eq~l~~ff~~gk-~kILVATdIAERGIDIp~V~~VID~G~~k~p~~~~g~~~ 485 (675)
T PHA02653 409 EEYKKYLEKRLPIYDFYIIHGKVPN--IDEILEKVYSSKN-PSIIISTPYLESSVTIRNATHVYDTGRVYVPEPFGGKEM 485 (675)
T ss_pred HHHHHHHHhhcCCceEEeccCCcCH--HHHHHHHHhccCc-eeEEeccChhhccccccCeeEEEECCCccCCCcccCccc
Confidence 4566777766 7899999999995 4577788843333 34777889999999999999999997 332
Q ss_pred --CcchHHHHHHhhhhcCCCCcEEEEEEEeCCCH
Q 032027 71 --NPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTV 102 (148)
Q Consensus 71 --~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ 102 (148)
+.+.+.||.||++|. ++-.+|+|+++...
T Consensus 486 ~iSkasa~QRaGRAGR~---~~G~c~rLyt~~~~ 516 (675)
T PHA02653 486 FISKSMRTQRKGRVGRV---SPGTYVYFYDLDLL 516 (675)
T ss_pred ccCHHHHHHhccCcCCC---CCCeEEEEECHHHh
Confidence 666788888888886 45788899987754
No 84
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.84 E-value=7.2e-09 Score=88.43 Aligned_cols=94 Identities=21% Similarity=0.254 Sum_probs=74.5
Q ss_pred HHHHHHHHh---cCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC----CCc---
Q 032027 3 DILEWTLDV---IGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD----FNP--- 72 (148)
Q Consensus 3 ~~l~~~L~~---~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~----~~~--- 72 (148)
+.+.+.|+. .++.+..+||+++.++|.+++..|.++. .-+|++|+.+..|+++.++++||.++.+ |+|
T Consensus 226 ~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G~--rkVlvATnIAErsLtIp~V~~VID~Gl~r~~~yd~~~g 303 (812)
T PRK11664 226 QRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPAGR--RKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTG 303 (812)
T ss_pred HHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccCCC--eEEEEecchHHhcccccCceEEEECCCcccccccccCC
Confidence 456667765 5788999999999999999999997654 3477788999999999999999997765 322
Q ss_pred -----------chHHHHHHhhhhcCCCCcEEEEEEEeCCC
Q 032027 73 -----------QIDRQAEDRCHRIGQTRPVTIYRLVTKGT 101 (148)
Q Consensus 73 -----------~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t 101 (148)
..+.||.||++|. .+-.+|+|+++..
T Consensus 304 ~~~L~~~~iSkasa~QR~GRaGR~---~~G~cyrL~t~~~ 340 (812)
T PRK11664 304 LTRLVTQRISQASMTQRAGRAGRL---EPGICLHLYSKEQ 340 (812)
T ss_pred cceeEEEeechhhhhhhccccCCC---CCcEEEEecCHHH
Confidence 3577888888886 4688899987543
No 85
>PRK02362 ski2-like helicase; Provisional
Probab=98.82 E-value=1.9e-08 Score=85.31 Aligned_cols=83 Identities=20% Similarity=0.127 Sum_probs=67.4
Q ss_pred CeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEE----eC-----CCCCcchHHHHHHhhhh
Q 032027 14 VTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVI----HD-----MDFNPQIDRQAEDRCHR 84 (148)
Q Consensus 14 ~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~----~d-----~~~~~~~~~Q~~gR~~R 84 (148)
..+..+||+++.++|..+.+.|+++. .+ +|++|.+++.|+|++..+.||. || .|.+...|.|++||++|
T Consensus 304 ~gva~hHagl~~~eR~~ve~~Fr~G~-i~-VLvaT~tla~GvnlPa~~VVI~~~~~yd~~~g~~~~s~~~y~Qm~GRAGR 381 (737)
T PRK02362 304 KGAAFHHAGLSREHRELVEDAFRDRL-IK-VISSTPTLAAGLNLPARRVIIRDYRRYDGGAGMQPIPVLEYHQMAGRAGR 381 (737)
T ss_pred hCEEeecCCCCHHHHHHHHHHHHcCC-Ce-EEEechhhhhhcCCCceEEEEecceeecCCCCceeCCHHHHHHHhhcCCC
Confidence 35677899999999999999998765 44 6667799999999998888876 66 57788899999999999
Q ss_pred cCCCCcEEEEEEEe
Q 032027 85 IGQTRPVTIYRLVT 98 (148)
Q Consensus 85 ~Gq~~~v~v~~l~~ 98 (148)
.|....-.++.+..
T Consensus 382 ~g~d~~G~~ii~~~ 395 (737)
T PRK02362 382 PGLDPYGEAVLLAK 395 (737)
T ss_pred CCCCCCceEEEEec
Confidence 99876555554443
No 86
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.81 E-value=8.1e-09 Score=88.68 Aligned_cols=95 Identities=17% Similarity=0.146 Sum_probs=86.2
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.|.++..|...|++...||.++++.+|..+-.+|..+. ++ +++.|-|.|.|+|-.+...||+|..|-+-..|.|-+||
T Consensus 498 ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~~~-~~-VivATVAFGMGIdK~DVR~ViH~~lPks~E~YYQE~GR 575 (941)
T KOG0351|consen 498 CEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDK-IR-VIVATVAFGMGIDKPDVRFVIHYSLPKSFEGYYQEAGR 575 (941)
T ss_pred HHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHHHhcCC-Ce-EEEEEeeccCCCCCCceeEEEECCCchhHHHHHHhccc
Confidence 57889999999999999999999999999999999877 44 66667999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEe
Q 032027 82 CHRIGQTRPVTIYRLVT 98 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~ 98 (148)
++|.|+...++.|+=+.
T Consensus 576 AGRDG~~s~C~l~y~~~ 592 (941)
T KOG0351|consen 576 AGRDGLPSSCVLLYGYA 592 (941)
T ss_pred cCcCCCcceeEEecchh
Confidence 99999998887776554
No 87
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=98.81 E-value=2.2e-08 Score=85.24 Aligned_cols=94 Identities=21% Similarity=0.261 Sum_probs=82.8
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
+|.|...|.+.|+++..+||+.+...|...+++|+++. ..||+.|+.+++||+......||+||.|-....|.+|.||
T Consensus 626 ~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~~~--~~LLvaTsvvarGLdv~~l~Lvvnyd~pnh~edyvhR~gR 703 (997)
T KOG0334|consen 626 ADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNGV--VNLLVATSVVARGLDVKELILVVNYDFPNHYEDYVHRVGR 703 (997)
T ss_pred HHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHhccC--ceEEEehhhhhcccccccceEEEEcccchhHHHHHHHhcc
Confidence 46778888999999999999999999999999998876 3477788999999999999999999999999999999999
Q ss_pred hhhcCCCCcEEEEEEEeC
Q 032027 82 CHRIGQTRPVTIYRLVTK 99 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l~~~ 99 (148)
++|.|.+. .-|.|+.+
T Consensus 704 Tgragrkg--~AvtFi~p 719 (997)
T KOG0334|consen 704 TGRAGRKG--AAVTFITP 719 (997)
T ss_pred cccCCccc--eeEEEeCh
Confidence 99999887 44555554
No 88
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=98.80 E-value=7.5e-08 Score=80.33 Aligned_cols=104 Identities=22% Similarity=0.260 Sum_probs=74.1
Q ss_pred hcCCeEEEEeC--------CCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 11 VIGVTYRRLDG--------STQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 11 ~~~~~~~~~~G--------~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
..|++...+.| +++..+..+.+++|+++. .. +|++|..|-+|||...|+-||.||..-||-...||.||
T Consensus 438 ~~~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G~-~N-vLVATSV~EEGLDI~ec~lVIcYd~~snpIrmIQrrGR- 514 (746)
T KOG0354|consen 438 ELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRDGE-IN-VLVATSVAEEGLDIGECNLVICYDYSSNPIRMVQRRGR- 514 (746)
T ss_pred hcccccceeeeccccccccccCHHHHHHHHHHHhCCC-cc-EEEEecchhccCCcccccEEEEecCCccHHHHHHHhcc-
Confidence 34566666665 578888999999999866 34 66777999999999999999999999999999999999
Q ss_pred hhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHH
Q 032027 83 HRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVL 121 (148)
Q Consensus 83 ~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~ 121 (148)
+| +++-.++.+.+ ++-+-+.-.....|..+....+
T Consensus 515 gR---a~ns~~vll~t-~~~~~~~E~~~~~~e~lm~~~i 549 (746)
T KOG0354|consen 515 GR---ARNSKCVLLTT-GSEVIEFERNNLAKEKLMNQTI 549 (746)
T ss_pred cc---ccCCeEEEEEc-chhHHHHHHHHHhHHHHHHHHH
Confidence 66 55555555555 4433333333333444444333
No 89
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=98.75 E-value=3.8e-08 Score=87.86 Aligned_cols=68 Identities=18% Similarity=0.235 Sum_probs=61.9
Q ss_pred EEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhc
Q 032027 16 YRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRI 85 (148)
Q Consensus 16 ~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~ 85 (148)
+..+||+++.++|..+.+.|+++. .+ +|++|.+++.|+|+...++||+++.|.+...+.||+||++|.
T Consensus 304 a~~HHGsLSkeeR~~IE~~fK~G~-Lr-vLVATssLELGIDIg~VDlVIq~gsP~sVas~LQRiGRAGR~ 371 (1490)
T PRK09751 304 ARSHHGSVSKEQRAITEQALKSGE-LR-CVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQ 371 (1490)
T ss_pred eeeccccCCHHHHHHHHHHHHhCC-ce-EEEeCcHHHccCCcccCCEEEEeCCCCCHHHHHHHhCCCCCC
Confidence 457889999999999999998876 44 666779999999999999999999999999999999999995
No 90
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=98.71 E-value=2.5e-08 Score=78.58 Aligned_cols=89 Identities=15% Similarity=0.176 Sum_probs=74.2
Q ss_pred HHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeecc----------------------------------
Q 032027 4 ILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTR---------------------------------- 49 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~---------------------------------- 49 (148)
.|.-+|+.-|++.+.++|.+|...|--++++|+.+- +.+++.+ +
T Consensus 283 rLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~-YdivIAt-D~s~~~~~~eee~kgk~~e~~~kndkkskkK~D~E 360 (569)
T KOG0346|consen 283 RLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGL-YDIVIAT-DDSADGDKLEEEVKGKSDEKNPKNDKKSKKKLDKE 360 (569)
T ss_pred HHHHHHHHhCcHhhhhcccccccchhhHHHHhhCcc-eeEEEEc-cCccchhhhhccccccccccCCCCccccccccCch
Confidence 355678888999999999999999999999998754 4444444 4
Q ss_pred -ccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCCCCcEEEE
Q 032027 50 -AGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVTIY 94 (148)
Q Consensus 50 -~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~ 94 (148)
..++|+|++..+.|++||.|-+...|++|+||..|-|.+..+.-|
T Consensus 361 ~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRTaRg~n~GtalSf 406 (569)
T KOG0346|consen 361 SGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRTARGNNKGTALSF 406 (569)
T ss_pred hchhccccchheeeeeecCCCCchHHHHHhccccccCCCCCceEEE
Confidence 135799999999999999999999999999999998888665443
No 91
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=98.68 E-value=8.4e-08 Score=77.52 Aligned_cols=93 Identities=22% Similarity=0.297 Sum_probs=69.8
Q ss_pred HHHHHHhcCCe-EEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC-CC--------cch
Q 032027 5 LEWTLDVIGVT-YRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD-FN--------PQI 74 (148)
Q Consensus 5 l~~~L~~~~~~-~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~-~~--------~~~ 74 (148)
+...++++|.. +++|+|+.+++.|.+-...|++..+-.-+++.+++.|.||||. .+.|||+++. +| -+.
T Consensus 372 ~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~dvlVAsDAIGMGLNL~-IrRiiF~sl~Kysg~e~~~it~sq 450 (700)
T KOG0953|consen 372 VKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSNECDVLVASDAIGMGLNLN-IRRIIFYSLIKYSGRETEDITVSQ 450 (700)
T ss_pred HHHHHHHhcCcceEEEecCCCCchhHHHHHHhCCCCCccceEEeecccccccccc-eeEEEEeecccCCcccceeccHHH
Confidence 44566777766 9999999999999999999998665444566669999999985 6788888765 22 233
Q ss_pred HHHHHHhhhhcCCCCc-EEEEEEEe
Q 032027 75 DRQAEDRCHRIGQTRP-VTIYRLVT 98 (148)
Q Consensus 75 ~~Q~~gR~~R~Gq~~~-v~v~~l~~ 98 (148)
..|-.||++|.|.+-+ -.|..+..
T Consensus 451 ikQIAGRAGRf~s~~~~G~vTtl~~ 475 (700)
T KOG0953|consen 451 IKQIAGRAGRFGSKYPQGEVTTLHS 475 (700)
T ss_pred HHHHhhcccccccCCcCceEEEeeH
Confidence 4599999999987754 44444443
No 92
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=98.68 E-value=8.7e-08 Score=82.16 Aligned_cols=101 Identities=17% Similarity=0.263 Sum_probs=79.6
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCC--------eEEEeCCCCCcc
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGAD--------TVVIHDMDFNPQ 73 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~--------~vi~~d~~~~~~ 73 (148)
.+.|...|+..|+++..+|+ +..+|++.+..|...+.. ++++|..+|+|+|+.-.. +||.++.|-+..
T Consensus 611 sE~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG~~g~--VtIATNMAGRGtDIkl~~~V~~vGGL~VIgterhes~R 686 (1025)
T PRK12900 611 SETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAGQKGA--VTIATNMAGRGTDIKLGEGVRELGGLFILGSERHESRR 686 (1025)
T ss_pred HHHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCCCCe--EEEeccCcCCCCCcCCccchhhhCCceeeCCCCCchHH
Confidence 36788999999999999997 566999999999776643 677789999999987322 458889999999
Q ss_pred hHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 032027 74 IDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAK 111 (148)
Q Consensus 74 ~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~ 111 (148)
.+.|+.||++|.|....... ++ |.|+.++....
T Consensus 687 id~Ql~GRtGRqGdpGsS~f--fv---SleD~Lmr~f~ 719 (1025)
T PRK12900 687 IDRQLRGRAGRQGDPGESVF--YV---SLEDELMRLFG 719 (1025)
T ss_pred HHHHHhhhhhcCCCCcceEE--Ee---chhHHHHHhhC
Confidence 99999999999998865422 22 55666665443
No 93
>PRK01172 ski2-like helicase; Provisional
Probab=98.67 E-value=1.4e-07 Score=79.39 Aligned_cols=73 Identities=21% Similarity=0.224 Sum_probs=59.0
Q ss_pred eEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCC---------CCCcchHHHHHHhhhhc
Q 032027 15 TYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDM---------DFNPQIDRQAEDRCHRI 85 (148)
Q Consensus 15 ~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~---------~~~~~~~~Q~~gR~~R~ 85 (148)
.+..+||+++.++|..+.+.|+++. .+ +|++|.+++.|+|++. ..||+.+. ++++..+.|++||++|.
T Consensus 287 gv~~~hagl~~~eR~~ve~~f~~g~-i~-VLvaT~~la~Gvnipa-~~VII~~~~~~~~~~~~~~s~~~~~Qm~GRAGR~ 363 (674)
T PRK01172 287 GVAFHHAGLSNEQRRFIEEMFRNRY-IK-VIVATPTLAAGVNLPA-RLVIVRDITRYGNGGIRYLSNMEIKQMIGRAGRP 363 (674)
T ss_pred CEEEecCCCCHHHHHHHHHHHHcCC-Ce-EEEecchhhccCCCcc-eEEEEcCceEeCCCCceeCCHHHHHHHhhcCCCC
Confidence 3566899999999999999998765 44 5667799999999986 56777654 35667888999999999
Q ss_pred CCCCc
Q 032027 86 GQTRP 90 (148)
Q Consensus 86 Gq~~~ 90 (148)
|....
T Consensus 364 g~d~~ 368 (674)
T PRK01172 364 GYDQY 368 (674)
T ss_pred CCCCc
Confidence 97655
No 94
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.61 E-value=5.8e-08 Score=76.50 Aligned_cols=92 Identities=16% Similarity=0.187 Sum_probs=81.9
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+.+.-.|..+|++...||.+.+..+|..+-++|-++..+ +++.|-+.|.|++-+....||+.+++-|-.-|.|-.||+
T Consensus 269 Eq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~P--vI~AT~SFGMGVDKp~VRFViHW~~~qn~AgYYQESGRA 346 (641)
T KOG0352|consen 269 EQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNNEIP--VIAATVSFGMGVDKPDVRFVIHWSPSQNLAGYYQESGRA 346 (641)
T ss_pred HHHHHHhhhcCcchHHHhcccccchhHHHHHHHhcCCCC--EEEEEeccccccCCcceeEEEecCchhhhHHHHHhcccc
Confidence 445667888999999999999999999999999988754 677789999999999999999999999999999999999
Q ss_pred hhcCCCCcEEEEEE
Q 032027 83 HRIGQTRPVTIYRL 96 (148)
Q Consensus 83 ~R~Gq~~~v~v~~l 96 (148)
+|.|-..-+..|+-
T Consensus 347 GRDGk~SyCRLYYs 360 (641)
T KOG0352|consen 347 GRDGKRSYCRLYYS 360 (641)
T ss_pred ccCCCccceeeeec
Confidence 99998777777653
No 95
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.60 E-value=1.4e-07 Score=76.69 Aligned_cols=137 Identities=19% Similarity=0.183 Sum_probs=97.0
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEE----eCCCC-CcchHH
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVI----HDMDF-NPQIDR 76 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~----~d~~~-~~~~~~ 76 (148)
.+.|..+|..+|++...||++++-.+|..+=..|.+..- . .+++|.+.+.|+|++ |+.||| +...| +|..+.
T Consensus 453 ~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~q~l-~-~VVTTAAL~AGVDFP-ASQVIFEsLaMG~~WLs~~EF~ 529 (830)
T COG1202 453 CHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQEL-A-AVVTTAALAAGVDFP-ASQVIFESLAMGIEWLSVREFQ 529 (830)
T ss_pred HHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhcCCc-c-eEeehhhhhcCCCCc-hHHHHHHHHHcccccCCHHHHH
Confidence 367899999999999999999999999999999987662 2 677889999999998 455554 44445 788999
Q ss_pred HHHHhhhhcCCCCcEEEEEEEeCC-CHHHHHHHHHHHHHHHHHHHHhcCcccCCCCCCchhHHHHHHHh
Q 032027 77 QAEDRCHRIGQTRPVTIYRLVTKG-TVDENVYEIAKRKLILDAAVLESGVEVDNEGDTSDKTMGEILSS 144 (148)
Q Consensus 77 Q~~gR~~R~Gq~~~v~v~~l~~~~-t~ee~i~~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 144 (148)
|-.||++|.+-...-.||-++.+| +....+-. --..++-.++.+..+....+..++...+++|+.
T Consensus 530 QM~GRAGRp~yHdrGkVyllvepg~~Y~~~m~~---TEdevA~kLL~s~~e~V~vey~ee~e~e~vLA~ 595 (830)
T COG1202 530 QMLGRAGRPDYHDRGKVYLLVEPGKKYHASMEE---TEDEVAFKLLESEPEPVIVEYDEEDEEENVLAS 595 (830)
T ss_pred HHhcccCCCCcccCceEEEEecCChhhcccccc---cHHHHHHHHhcCCCCcceeccCcHHHHHHHHHH
Confidence 999999999988888888887655 12111111 111233344555555544444455556665553
No 96
>PRK00254 ski2-like helicase; Provisional
Probab=98.60 E-value=2.4e-07 Score=78.53 Aligned_cols=84 Identities=19% Similarity=0.071 Sum_probs=63.8
Q ss_pred CeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEE-------eCCCC-CcchHHHHHHhhhhc
Q 032027 14 VTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVI-------HDMDF-NPQIDRQAEDRCHRI 85 (148)
Q Consensus 14 ~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~-------~d~~~-~~~~~~Q~~gR~~R~ 85 (148)
..+..+||+++.++|..+.+.|+++. .+ +|++|.+++.|+|++..+.||. ++.+. ....+.|++||++|.
T Consensus 296 ~gv~~hHagl~~~eR~~ve~~F~~G~-i~-VLvaT~tLa~Gvnipa~~vVI~~~~~~~~~~~~~~~~~~~~Qm~GRAGR~ 373 (720)
T PRK00254 296 GGVAFHHAGLGRTERVLIEDAFREGL-IK-VITATPTLSAGINLPAFRVIIRDTKRYSNFGWEDIPVLEIQQMMGRAGRP 373 (720)
T ss_pred hCEEEeCCCCCHHHHHHHHHHHHCCC-Ce-EEEeCcHHhhhcCCCceEEEECCceEcCCCCceeCCHHHHHHhhhccCCC
Confidence 35778999999999999999998765 44 6667799999999998777774 22222 334779999999999
Q ss_pred CCCCcEEEEEEEeC
Q 032027 86 GQTRPVTIYRLVTK 99 (148)
Q Consensus 86 Gq~~~v~v~~l~~~ 99 (148)
|..+.-.++.+...
T Consensus 374 ~~d~~G~~ii~~~~ 387 (720)
T PRK00254 374 KYDEVGEAIIVATT 387 (720)
T ss_pred CcCCCceEEEEecC
Confidence 87665555555543
No 97
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.59 E-value=3.7e-08 Score=77.26 Aligned_cols=94 Identities=20% Similarity=0.214 Sum_probs=81.8
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+.+...|...|+.+.-++|++....|...+.+|+....- +++.|+.+++|++.+-.+.||+||.|-++..+.+|.||.
T Consensus 275 e~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~--~lvvTdvaaRG~diplldnvinyd~p~~~klFvhRVgr~ 352 (529)
T KOG0337|consen 275 EYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTS--ILVVTDVAARGLDIPLLDNVINYDFPPDDKLFVHRVGRV 352 (529)
T ss_pred HHHHHHHHhcCCCccccccccChHhhhhccccccCCccc--eEEEehhhhccCCCccccccccccCCCCCceEEEEecch
Confidence 567788899999999999999999999999999876633 677779999999999999999999999999999999999
Q ss_pred hhcCCCCcEEEEEEEeCC
Q 032027 83 HRIGQTRPVTIYRLVTKG 100 (148)
Q Consensus 83 ~R~Gq~~~v~v~~l~~~~ 100 (148)
.|-|.+ ..-|-+++..
T Consensus 353 aragrt--g~aYs~V~~~ 368 (529)
T KOG0337|consen 353 ARAGRT--GRAYSLVAST 368 (529)
T ss_pred hhcccc--ceEEEEEecc
Confidence 999977 4556666543
No 98
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=98.57 E-value=1.3e-07 Score=83.54 Aligned_cols=93 Identities=17% Similarity=0.190 Sum_probs=71.6
Q ss_pred HHHHHHHHhcC---CeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC----------
Q 032027 3 DILEWTLDVIG---VTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD---------- 69 (148)
Q Consensus 3 ~~l~~~L~~~~---~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~---------- 69 (148)
+.+.+.|...+ +.+..+||+++.++|.+++..+ +. +-+|++|+.+..|+++++..+||.++.+
T Consensus 293 ~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~---~~-rkIVLATNIAEtSLTIpgV~yVIDsGl~r~~~yd~~~~ 368 (1283)
T TIGR01967 293 RDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH---SG-RRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRTK 368 (1283)
T ss_pred HHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC---CC-ceEEEeccHHHhccccCCeeEEEeCCCccccccccccC
Confidence 45667777664 4578899999999999885443 32 3467788999999999999999998732
Q ss_pred --------CCcchHHHHHHhhhhcCCCCcEEEEEEEeCCCH
Q 032027 70 --------FNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTV 102 (148)
Q Consensus 70 --------~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ 102 (148)
-+.+.+.||.||++|.| +-.+|+|+++...
T Consensus 369 ~~~L~~~~ISkasa~QRaGRAGR~~---~G~cyRLyte~~~ 406 (1283)
T TIGR01967 369 VQRLPIEPISQASANQRKGRCGRVA---PGICIRLYSEEDF 406 (1283)
T ss_pred ccccCCccCCHHHHHHHhhhhCCCC---CceEEEecCHHHH
Confidence 14467889999999987 6778999986544
No 99
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=98.55 E-value=1.5e-06 Score=70.01 Aligned_cols=98 Identities=21% Similarity=0.303 Sum_probs=78.9
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCC-CcchHHHHHHhhh
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDF-NPQIDRQAEDRCH 83 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~-~~~~~~Q~~gR~~ 83 (148)
|.++--+.|-++ |+|.++..+|.++++.|+..+.+.-+++| ++|-..++|+.|+.+|-..... +...+.||.||+-
T Consensus 556 Lk~YAikl~Kpf--IYG~Tsq~ERm~ILqnFq~n~~vNTIFlS-KVgDtSiDLPEAnvLIQISSH~GSRRQEAQRLGRIL 632 (776)
T KOG1123|consen 556 LKEYAIKLGKPF--IYGPTSQNERMKILQNFQTNPKVNTIFLS-KVGDTSIDLPEANVLIQISSHGGSRRQEAQRLGRIL 632 (776)
T ss_pred HHHHHHHcCCce--EECCCchhHHHHHHHhcccCCccceEEEe-eccCccccCCcccEEEEEcccccchHHHHHHHHHHH
Confidence 334434445554 89999999999999999988877777877 9999999999999999988776 4556779999999
Q ss_pred hcCCCC----cEEEEEEEeCCCHHHH
Q 032027 84 RIGQTR----PVTIYRLVTKGTVDEN 105 (148)
Q Consensus 84 R~Gq~~----~v~v~~l~~~~t~ee~ 105 (148)
|.-... +...|.|+..+|.|..
T Consensus 633 RAKk~~de~fnafFYSLVS~DTqEM~ 658 (776)
T KOG1123|consen 633 RAKKRNDEEFNAFFYSLVSKDTQEMY 658 (776)
T ss_pred HHhhcCccccceeeeeeeecchHHHH
Confidence 965332 4899999999998753
No 100
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.50 E-value=6e-07 Score=79.05 Aligned_cols=80 Identities=14% Similarity=0.197 Sum_probs=67.1
Q ss_pred eEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCC---CCcE
Q 032027 15 TYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQ---TRPV 91 (148)
Q Consensus 15 ~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq---~~~v 91 (148)
.+..++|+.+ ++.+++++|.++.. ..++++++..++|+|.+.+++|+++.++-++..+.|++||+.|.-. +...
T Consensus 733 ~v~~itg~~~--~~~~li~~Fk~~~~-p~IlVsvdmL~TG~DvP~v~~vVf~rpvkS~~lf~QmIGRgtR~~~~~~K~~f 809 (1123)
T PRK11448 733 AVIKITGSID--KPDQLIRRFKNERL-PNIVVTVDLLTTGIDVPSICNLVFLRRVRSRILYEQMLGRATRLCPEIGKTHF 809 (1123)
T ss_pred ceEEEeCCcc--chHHHHHHHhCCCC-CeEEEEecccccCCCcccccEEEEecCCCCHHHHHHHHhhhccCCccCCCceE
Confidence 4567899886 57789999987553 4577788999999999999999999999999999999999999754 4557
Q ss_pred EEEEEE
Q 032027 92 TIYRLV 97 (148)
Q Consensus 92 ~v~~l~ 97 (148)
.|+.++
T Consensus 810 ~I~D~v 815 (1123)
T PRK11448 810 RIFDAV 815 (1123)
T ss_pred EEEehH
Confidence 777764
No 101
>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=98.34 E-value=4e-06 Score=68.48 Aligned_cols=96 Identities=23% Similarity=0.316 Sum_probs=72.7
Q ss_pred HHHHHHHHhc--CCeEEEEeCCCCHHHH--HHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC--CC-c---
Q 032027 3 DILEWTLDVI--GVTYRRLDGSTQVTER--QAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD--FN-P--- 72 (148)
Q Consensus 3 ~~l~~~L~~~--~~~~~~~~G~~~~~~r--~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~--~~-~--- 72 (148)
+.+++.|+.. +.++..+|+.++..++ ++++++|.++. .. +|+.|+..+.|+|+++.+.|++++.+ .+ |
T Consensus 272 e~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~l~~f~~g~-~~-ILVgT~~i~kG~d~~~v~lV~vl~aD~~l~~pd~r 349 (505)
T TIGR00595 272 EQVEEELAKLFPGARIARIDSDTTSRKGAHEALLNQFANGK-AD-ILIGTQMIAKGHHFPNVTLVGVLDADSGLHSPDFR 349 (505)
T ss_pred HHHHHHHHhhCCCCcEEEEecccccCccHHHHHHHHHhcCC-CC-EEEeCcccccCCCCCcccEEEEEcCcccccCcccc
Confidence 5677888877 7889999999876655 88999998765 33 56777999999999999998665544 23 2
Q ss_pred ------chHHHHHHhhhhcCCCCcEEEEEEEeCC
Q 032027 73 ------QIDRQAEDRCHRIGQTRPVTIYRLVTKG 100 (148)
Q Consensus 73 ------~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~ 100 (148)
..+.|+.||++|.+....|.+..+..++
T Consensus 350 a~E~~~~ll~q~~GRagR~~~~g~viiqt~~p~~ 383 (505)
T TIGR00595 350 AAERGFQLLTQVAGRAGRAEDPGQVIIQTYNPNH 383 (505)
T ss_pred hHHHHHHHHHHHHhccCCCCCCCEEEEEeCCCCC
Confidence 3467999999998877667665554443
No 102
>PRK09401 reverse gyrase; Reviewed
Probab=98.33 E-value=2e-06 Score=76.10 Aligned_cols=78 Identities=9% Similarity=-0.001 Sum_probs=65.6
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeee---ccccccCcCCCC-CCeEEEeCCCC------C
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLS---TRAGGQGLNLTG-ADTVVIHDMDF------N 71 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s---~~~~~~Glnl~~-a~~vi~~d~~~------~ 71 (148)
.+.|..+|+..|+++..+||++ .+.+++|.++. +.||+++ ++.+++|||++. .++||||+.|- .
T Consensus 344 ae~l~~~L~~~gi~v~~~hg~l-----~~~l~~F~~G~-~~VLVatas~tdv~aRGIDiP~~IryVI~y~vP~~~~~~~~ 417 (1176)
T PRK09401 344 AEELAEYLEDLGINAELAISGF-----ERKFEKFEEGE-VDVLVGVASYYGVLVRGIDLPERIRYAIFYGVPKFKFSLEE 417 (1176)
T ss_pred HHHHHHHHHHCCCcEEEEeCcH-----HHHHHHHHCCC-CCEEEEecCCCCceeecCCCCcceeEEEEeCCCCEEEeccc
Confidence 4678899999999999999999 23469998776 5777775 689999999998 89999999997 5
Q ss_pred cchHHHHHHhhhhc
Q 032027 72 PQIDRQAEDRCHRI 85 (148)
Q Consensus 72 ~~~~~Q~~gR~~R~ 85 (148)
...+.++++|+-.+
T Consensus 418 ~~~~~~~~~r~~~~ 431 (1176)
T PRK09401 418 ELAPPFLLLRLLSL 431 (1176)
T ss_pred cccCHHHHHHHHhh
Confidence 67778999998743
No 103
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.32 E-value=5.4e-06 Score=69.96 Aligned_cols=95 Identities=20% Similarity=0.212 Sum_probs=73.4
Q ss_pred HHHHHHHHhc--CCeEEEEeCCCC--HHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC--CCc----
Q 032027 3 DILEWTLDVI--GVTYRRLDGSTQ--VTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD--FNP---- 72 (148)
Q Consensus 3 ~~l~~~L~~~--~~~~~~~~G~~~--~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~--~~~---- 72 (148)
+.+++.|+.. +.++..+|+.++ ..++++++++|.++. .. +|+.|+..+.|+|+++.+.|++++.+ .+.
T Consensus 440 e~~~e~l~~~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g~-~~-ILVgT~~iakG~d~p~v~lV~il~aD~~l~~pdfr 517 (679)
T PRK05580 440 ERLEEELAELFPEARILRIDRDTTRRKGALEQLLAQFARGE-AD-ILIGTQMLAKGHDFPNVTLVGVLDADLGLFSPDFR 517 (679)
T ss_pred HHHHHHHHHhCCCCcEEEEeccccccchhHHHHHHHHhcCC-CC-EEEEChhhccCCCCCCcCEEEEEcCchhccCCccc
Confidence 5677888776 788999999875 467899999998765 34 56677999999999999999776654 232
Q ss_pred ------chHHHHHHhhhhcCCCCcEEEEEEEeC
Q 032027 73 ------QIDRQAEDRCHRIGQTRPVTIYRLVTK 99 (148)
Q Consensus 73 ------~~~~Q~~gR~~R~Gq~~~v~v~~l~~~ 99 (148)
..+.|+.||++|.+....|.+.....+
T Consensus 518 a~Er~~~~l~q~~GRagR~~~~g~viiqT~~p~ 550 (679)
T PRK05580 518 ASERTFQLLTQVAGRAGRAEKPGEVLIQTYHPE 550 (679)
T ss_pred hHHHHHHHHHHHHhhccCCCCCCEEEEEeCCCC
Confidence 357899999999887777776655443
No 104
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.31 E-value=3.2e-06 Score=72.34 Aligned_cols=100 Identities=20% Similarity=0.298 Sum_probs=82.5
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCC-----------------------
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLT----------------------- 58 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~----------------------- 58 (148)
.+.|...|+..|+++..+++.....++..+...|+.+. ++++|..+|+|+|+.
T Consensus 457 sE~ls~~L~~~gi~h~vLnak~~q~Ea~iia~Ag~~G~----VtIATNmAGRGtDI~Lggn~~~~~~~~~~~~~~~~~~~ 532 (896)
T PRK13104 457 SEFLSQLLKKENIKHQVLNAKFHEKEAQIIAEAGRPGA----VTIATNMAGRGTDIVLGGSLAADLANLPADASEQEKEA 532 (896)
T ss_pred HHHHHHHHHHcCCCeEeecCCCChHHHHHHHhCCCCCc----EEEeccCccCCcceecCCchhhhhhccccchhhHHHHH
Confidence 36789999999999999999999999999999998764 677889999999964
Q ss_pred ---------------CCCeEEEeCCCCCcchHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHH
Q 032027 59 ---------------GADTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIA 110 (148)
Q Consensus 59 ---------------~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~ 110 (148)
+.=|||-.+.+-|.....|.-||++|.|.......|- |+|+.++...
T Consensus 533 ~~~~~~~~~~~V~~~GGL~VIgTerhesrRID~QLrGRaGRQGDPGss~f~l-----SleD~l~~~f 594 (896)
T PRK13104 533 VKKEWQKRHDEVIAAGGLRIIGSERHESRRIDNQLRGRAGRQGDPGSSRFYL-----SLEDNLMRIF 594 (896)
T ss_pred HHHHhhhhhhHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCceEEEE-----EcCcHHHHHh
Confidence 2347888889999999999999999999887654442 4566666543
No 105
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.29 E-value=2.2e-06 Score=75.96 Aligned_cols=93 Identities=15% Similarity=0.205 Sum_probs=71.2
Q ss_pred HHHHHHHHhcCCe---EEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeC------------
Q 032027 3 DILEWTLDVIGVT---YRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHD------------ 67 (148)
Q Consensus 3 ~~l~~~L~~~~~~---~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d------------ 67 (148)
+.+.+.|+..+++ +..+||+++.++|.++++.+ +. +-+|++|+.+..|+++++.++||.++
T Consensus 300 e~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~~---g~-rkIIVATNIAEtSITIpgI~yVID~Gl~k~~~Yd~~~~ 375 (1294)
T PRK11131 300 RDTADALNKLNLRHTEILPLYARLSNSEQNRVFQSH---SG-RRIVLATNVAETSLTVPGIKYVIDPGTARISRYSYRTK 375 (1294)
T ss_pred HHHHHHHHhcCCCcceEeecccCCCHHHHHHHhccc---CC-eeEEEeccHHhhccccCcceEEEECCCccccccccccC
Confidence 5567788877765 56789999999999887653 22 34777889999999999999999985
Q ss_pred ---CCCC---cchHHHHHHhhhhcCCCCcEEEEEEEeCCCH
Q 032027 68 ---MDFN---PQIDRQAEDRCHRIGQTRPVTIYRLVTKGTV 102 (148)
Q Consensus 68 ---~~~~---~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ 102 (148)
+|.. ...+.||.||++|. .+-.+|+|+++..+
T Consensus 376 ~~~Lp~~~iSkasa~QRaGRAGR~---~~G~c~rLyte~d~ 413 (1294)
T PRK11131 376 VQRLPIEPISQASANQRKGRCGRV---SEGICIRLYSEDDF 413 (1294)
T ss_pred cccCCeeecCHhhHhhhccccCCC---CCcEEEEeCCHHHH
Confidence 3333 35688888888887 35778899986543
No 106
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.27 E-value=5.2e-06 Score=70.81 Aligned_cols=100 Identities=20% Similarity=0.281 Sum_probs=80.1
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCC----------------------
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTG---------------------- 59 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~---------------------- 59 (148)
.+.|...|...|+++..++|. ..+|+..+.+|..++.. ++++|+.+|+|+|+.=
T Consensus 443 se~Ls~~L~~~gi~~~vLnak--q~eREa~Iia~Ag~~g~--VtIATNmAGRGtDI~LgGn~~~~~~~~~~~~~~~~~~~ 518 (830)
T PRK12904 443 SELLSKLLKKAGIPHNVLNAK--NHEREAEIIAQAGRPGA--VTIATNMAGRGTDIKLGGNPEMLAAALLEEETEEQIAK 518 (830)
T ss_pred HHHHHHHHHHCCCceEeccCc--hHHHHHHHHHhcCCCce--EEEecccccCCcCccCCCchhhhhhhhhhhhhhHHHHH
Confidence 367899999999999999996 66899999999876643 6777799999999632
Q ss_pred ----------------CCeEEEeCCCCCcchHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHH
Q 032027 60 ----------------ADTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIA 110 (148)
Q Consensus 60 ----------------a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~ 110 (148)
.=|||-.+.+-|.....|..||++|.|.......|- |+|+.++...
T Consensus 519 ~~~~~~~~~~~v~~~GGLhVigTerhesrRid~QlrGRagRQGdpGss~f~l-----SleD~l~~~f 580 (830)
T PRK12904 519 IKAEWQEEHEEVLEAGGLHVIGTERHESRRIDNQLRGRSGRQGDPGSSRFYL-----SLEDDLMRIF 580 (830)
T ss_pred HHHHHhhhhhhHHHcCCCEEEecccCchHHHHHHhhcccccCCCCCceeEEE-----EcCcHHHHhh
Confidence 457888899999999999999999999987655542 4455555443
No 107
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.25 E-value=1.8e-05 Score=64.22 Aligned_cols=115 Identities=23% Similarity=0.250 Sum_probs=92.2
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC-----CCcchH
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD-----FNPQID 75 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~-----~~~~~~ 75 (148)
|-+-|.++|...|+++..+|+....-+|.+++.+.+.+. + -+|+-....-+|||++.++-|.++|.+ -+....
T Consensus 458 mAEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G~-~-DvLVGINLLREGLDiPEVsLVAIlDADKeGFLRse~SL 535 (663)
T COG0556 458 MAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGE-F-DVLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSL 535 (663)
T ss_pred HHHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhcCC-c-cEEEeehhhhccCCCcceeEEEEeecCccccccccchH
Confidence 456788999999999999999999999999999998765 3 356667889999999999999999965 367788
Q ss_pred HHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHH
Q 032027 76 RQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDA 118 (148)
Q Consensus 76 ~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~ 118 (148)
+|-+||+.|--.-+ |..|-=...+|+++.|-+..+++....+
T Consensus 536 IQtIGRAARN~~Gk-vIlYAD~iT~sM~~Ai~ET~RRR~iQ~~ 577 (663)
T COG0556 536 IQTIGRAARNVNGK-VILYADKITDSMQKAIDETERRREIQMA 577 (663)
T ss_pred HHHHHHHhhccCCe-EEEEchhhhHHHHHHHHHHHHHHHHHHH
Confidence 99999999955443 4444444556788888888777665543
No 108
>PRK09694 helicase Cas3; Provisional
Probab=98.23 E-value=6.3e-06 Score=71.06 Aligned_cols=82 Identities=20% Similarity=0.198 Sum_probs=62.5
Q ss_pred HHHHHHHhcC---CeEEEEeCCCCHHHH----HHHHHHhcCCCCc--ceeeeeccccccCcCCCCCCeEEEeCCCCCcch
Q 032027 4 ILEWTLDVIG---VTYRRLDGSTQVTER----QAIVDAFNNDTSI--FACLLSTRAGGQGLNLTGADTVVIHDMDFNPQI 74 (148)
Q Consensus 4 ~l~~~L~~~~---~~~~~~~G~~~~~~r----~~~~~~F~~~~~~--~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~ 74 (148)
.+.+.|+..+ .++..+||..+..+| +++++.|...+.. ..+|++|.+...|+|+. .+.+|....| ...
T Consensus 575 ~ly~~L~~~~~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDId-~DvlItdlaP--ids 651 (878)
T PRK09694 575 KLYQRLKELNNTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVATQVVEQSLDLD-FDWLITQLCP--VDL 651 (878)
T ss_pred HHHHHHHhhCCCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECcchhheeecC-CCeEEECCCC--HHH
Confidence 3456666654 679999999999888 4678889433221 34788889999999994 6877776555 568
Q ss_pred HHHHHHhhhhcCCC
Q 032027 75 DRQAEDRCHRIGQT 88 (148)
Q Consensus 75 ~~Q~~gR~~R~Gq~ 88 (148)
+.||.||++|.+.+
T Consensus 652 LiQRaGR~~R~~~~ 665 (878)
T PRK09694 652 LFQRLGRLHRHHRK 665 (878)
T ss_pred HHHHHhccCCCCCC
Confidence 89999999999874
No 109
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.22 E-value=5.5e-06 Score=70.90 Aligned_cols=99 Identities=16% Similarity=0.271 Sum_probs=81.4
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCC------------------------
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLT------------------------ 58 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~------------------------ 58 (148)
+.|...|...|+++..+++..+..++..+...|+.+. ++++|..+|+|+|+.
T Consensus 463 e~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~G~----VtIATnmAGRGTDIkLggn~~~~~~~~~~~~~~~~~~~~ 538 (908)
T PRK13107 463 ELLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRTGA----VTIATNMAGRGTDIVLGGNWNMEIEALENPTAEQKAKIK 538 (908)
T ss_pred HHHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCCCc----EEEecCCcCCCcceecCCchHHhhhhhcchhhHHHHHHH
Confidence 6788999999999999999999999999999998755 677889999999964
Q ss_pred -------------CCCeEEEeCCCCCcchHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHH
Q 032027 59 -------------GADTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIA 110 (148)
Q Consensus 59 -------------~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~ 110 (148)
+.=|||-.+.+-|.....|.-||++|.|.......|. |+|+.++...
T Consensus 539 ~~~~~~~~~V~~~GGL~VIgTerheSrRID~QLrGRaGRQGDPGss~f~l-----SlED~L~r~f 598 (908)
T PRK13107 539 ADWQIRHDEVVAAGGLHILGTERHESRRIDNQLRGRAGRQGDAGSSRFYL-----SMEDSLMRIF 598 (908)
T ss_pred HHHHhhHHHHHHcCCCEEEecccCchHHHHhhhhcccccCCCCCceeEEE-----EeCcHHHHHh
Confidence 3347898999999999999999999999886644432 4555555443
No 110
>PRK14701 reverse gyrase; Provisional
Probab=98.18 E-value=5.5e-06 Score=75.33 Aligned_cols=81 Identities=14% Similarity=0.068 Sum_probs=66.5
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeec---cccccCcCCCC-CCeEEEeCCCC---Ccch
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLST---RAGGQGLNLTG-ADTVVIHDMDF---NPQI 74 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~---~~~~~Glnl~~-a~~vi~~d~~~---~~~~ 74 (148)
.+.|.+.|...|+++..+||+ |.+++++|.++. +.||+++. +.+++|||+++ ..+|||++.|- +...
T Consensus 346 ae~la~~L~~~Gi~a~~~h~~-----R~~~l~~F~~G~-~~VLVaT~s~~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~ 419 (1638)
T PRK14701 346 AEEIEKYLLEDGFKIELVSAK-----NKKGFDLFEEGE-IDYLIGVATYYGTLVRGLDLPERIRFAVFYGVPKFRFRVDL 419 (1638)
T ss_pred HHHHHHHHHHCCCeEEEecch-----HHHHHHHHHcCC-CCEEEEecCCCCeeEecCccCCccCEEEEeCCCCCCcchhh
Confidence 367899999999999999994 889999998877 46566553 57899999998 99999999997 6665
Q ss_pred HHHHH-------------HhhhhcCCC
Q 032027 75 DRQAE-------------DRCHRIGQT 88 (148)
Q Consensus 75 ~~Q~~-------------gR~~R~Gq~ 88 (148)
+.|.. +|++|.|..
T Consensus 420 ~~~~~~~~~~~~~~~~~~~~a~~~g~~ 446 (1638)
T PRK14701 420 EDPTIYRILGLLSEILKIEEELKEGIP 446 (1638)
T ss_pred cccchhhhhcchHHHHHhhhhcccCCc
Confidence 55655 888888854
No 111
>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=98.18 E-value=4.1e-06 Score=65.62 Aligned_cols=70 Identities=19% Similarity=0.188 Sum_probs=54.0
Q ss_pred HHHHHHHHhcC--CeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHH
Q 032027 3 DILEWTLDVIG--VTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAED 80 (148)
Q Consensus 3 ~~l~~~L~~~~--~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~g 80 (148)
+.+...|+..+ +++..++|.++..+|.+.. . ..+|++|+++++|+|+... ++| ++ |-++..|.||+|
T Consensus 286 ~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~~-------~-~~iLVaTdv~~rGiDi~~~-~vi-~~-p~~~~~yiqR~G 354 (357)
T TIGR03158 286 NRLSDLLQQQGLGDDIGRITGFAPKKDRERAM-------Q-FDILLGTSTVDVGVDFKRD-WLI-FS-ARDAAAFWQRLG 354 (357)
T ss_pred HHHHHHHhhhCCCceEEeeecCCCHHHHHHhc-------c-CCEEEEecHHhcccCCCCc-eEE-EC-CCCHHHHhhhcc
Confidence 56777887764 5788899999998887643 1 2367788999999999764 666 56 668889999999
Q ss_pred hhh
Q 032027 81 RCH 83 (148)
Q Consensus 81 R~~ 83 (148)
|++
T Consensus 355 R~g 357 (357)
T TIGR03158 355 RLG 357 (357)
T ss_pred cCC
Confidence 974
No 112
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=98.17 E-value=2.3e-05 Score=66.88 Aligned_cols=97 Identities=16% Similarity=0.189 Sum_probs=77.1
Q ss_pred HHHHHHHHhcC-CeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 3 DILEWTLDVIG-VTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 3 ~~l~~~L~~~~-~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
+.+...|+..+ .++..-|||.+.++|..+-++|+++. .++ +++|.+...|+|.-..+.||.+..|-+-+...||+||
T Consensus 267 E~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~-lra-vV~TSSLELGIDiG~vdlVIq~~SP~sV~r~lQRiGR 344 (814)
T COG1201 267 ERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGE-LKA-VVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGR 344 (814)
T ss_pred HHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhcCC-ceE-EEEccchhhccccCCceEEEEeCCcHHHHHHhHhccc
Confidence 45667777776 78888999999999999999998877 664 5555899999999999999999999999999999999
Q ss_pred hhh-cCCCCcEEEEEEEeCCCHHHH
Q 032027 82 CHR-IGQTRPVTIYRLVTKGTVDEN 105 (148)
Q Consensus 82 ~~R-~Gq~~~v~v~~l~~~~t~ee~ 105 (148)
+++ .|. +.-..+++.+ .++.
T Consensus 345 sgHr~~~---~Skg~ii~~~-r~dl 365 (814)
T COG1201 345 AGHRLGE---VSKGIIIAED-RDDL 365 (814)
T ss_pred cccccCC---cccEEEEecC-HHHH
Confidence 876 443 3334445545 4443
No 113
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=98.12 E-value=2.3e-05 Score=65.05 Aligned_cols=74 Identities=20% Similarity=0.276 Sum_probs=62.0
Q ss_pred CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC-CCcchHHHHHHhhhhcCCC
Q 032027 13 GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD-FNPQIDRQAEDRCHRIGQT 88 (148)
Q Consensus 13 ~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~-~~~~~~~Q~~gR~~R~Gq~ 88 (148)
++++..+||+++++++++++.+|+++.. . +|++|.+...|+|+++|+.||+.+.. +--+..=|--||++|-+..
T Consensus 507 ~~~vgL~HGrm~~~eKd~vM~~Fk~~e~-~-ILVaTTVIEVGVdVPnATvMVIe~AERFGLaQLHQLRGRVGRG~~q 581 (677)
T COG1200 507 ELKVGLVHGRMKPAEKDAVMEAFKEGEI-D-ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGDLQ 581 (677)
T ss_pred cceeEEEecCCChHHHHHHHHHHHcCCC-c-EEEEeeEEEecccCCCCeEEEEechhhhhHHHHHHhccccCCCCcc
Confidence 5668899999999999999999988663 3 67788999999999999999998765 4556666999999995544
No 114
>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=98.03 E-value=2e-05 Score=70.06 Aligned_cols=65 Identities=14% Similarity=0.052 Sum_probs=55.5
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeee---ccccccCcCCCC-CCeEEEeCCCCC
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLS---TRAGGQGLNLTG-ADTVVIHDMDFN 71 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s---~~~~~~Glnl~~-a~~vi~~d~~~~ 71 (148)
.+.|...|+..|+++..+||+++ ++.+++|.++. +.+|+++ ++.+++|||+++ .++|||+++|-.
T Consensus 342 a~~l~~~L~~~g~~a~~lhg~~~----~~~l~~Fr~G~-~~vLVata~~tdv~aRGIDip~~V~~vI~~~~P~~ 410 (1171)
T TIGR01054 342 AEEIAEFLENHGVKAVAYHATKP----KEDYEKFAEGE-IDVLIGVASYYGTLVRGLDLPERVRYAVFLGVPKF 410 (1171)
T ss_pred HHHHHHHHHhCCceEEEEeCCCC----HHHHHHHHcCC-CCEEEEeccccCcccccCCCCccccEEEEECCCCE
Confidence 46688999999999999999987 36899998766 5777776 689999999998 899999999953
No 115
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.00 E-value=4e-05 Score=65.33 Aligned_cols=112 Identities=16% Similarity=0.169 Sum_probs=79.3
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcC--CCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNN--DTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~--~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+...|+..+.+++.+|+..+...|.+..+...+ ..+-..++++|++.-.|+|+. .+.+| -|+. ......||.||+
T Consensus 456 ~Y~~Lk~~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQVIEagvDid-fd~mI-Te~a-PidSLIQR~GRv 532 (733)
T COG1203 456 LYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQVIEAGVDID-FDVLI-TELA-PIDSLIQRAGRV 532 (733)
T ss_pred HHHHHHhcCCCEEEEecccchhhHHHHHHHHHHHHhccCCeEEEEeeEEEEEeccc-cCeee-ecCC-CHHHHHHHHHHH
Confidence 456777777789999999999999888775442 111233778889999999987 44443 3332 456678999999
Q ss_pred hhcC--CCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHH
Q 032027 83 HRIG--QTRPVTIYRLVTKGTVDENVYEIAKRKLILDAA 119 (148)
Q Consensus 83 ~R~G--q~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~ 119 (148)
+|.| ....+.++........+.+.++....+......
T Consensus 533 ~R~g~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~ 571 (733)
T COG1203 533 NRHGKKENGKIYVYNDEERGPYLKYSYEKLEKKLKSLEE 571 (733)
T ss_pred hhcccccCCceeEeecccCCCchhhhhhcchhhhccccc
Confidence 9999 445577777777777777777666665544333
No 116
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=97.89 E-value=2.8e-05 Score=60.97 Aligned_cols=108 Identities=15% Similarity=0.178 Sum_probs=86.6
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHH-----
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQ----- 77 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q----- 77 (148)
+.+...|+.+|+....||..+.+++|..+-..|-.+. ++| ++.|-+.|.|++-++...||+..+|-+-..|.|
T Consensus 331 ekva~alkn~gi~a~~yha~lep~dks~~hq~w~a~e-iqv-ivatvafgmgidkpdvrfvihhsl~ksienyyqasari 408 (695)
T KOG0353|consen 331 EKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIAGE-IQV-IVATVAFGMGIDKPDVRFVIHHSLPKSIENYYQASARI 408 (695)
T ss_pred HHHHHHHHhcCccccccccccCccccccccccccccc-eEE-EEEEeeecccCCCCCeeEEEecccchhHHHHHHHHHHH
Confidence 5677889999999999999999999998888886655 554 445588999999999999999999999999999
Q ss_pred --------------------------------------HHHhhhhcCCCCcEEEEEEEe-----------CCCHHHHHHH
Q 032027 78 --------------------------------------AEDRCHRIGQTRPVTIYRLVT-----------KGTVDENVYE 108 (148)
Q Consensus 78 --------------------------------------~~gR~~R~Gq~~~v~v~~l~~-----------~~t~ee~i~~ 108 (148)
-.||++|.|++.++..|+-.+ +++--.++|+
T Consensus 409 llrmtkqknksdtggstqinilevctnfkiffavfsekesgragrd~~~a~cilyy~~~difk~ssmv~~e~~g~q~ly~ 488 (695)
T KOG0353|consen 409 LLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEKESGRAGRDDMKADCILYYGFADIFKISSMVQMENTGIQKLYE 488 (695)
T ss_pred HHHHhhhcccccCCCcceeehhhhhccceeeeeeecchhccccccCCCcccEEEEechHHHHhHHHHHHHHhhhHHHHHH
Confidence 457888999998877776543 3444455666
Q ss_pred HHHH
Q 032027 109 IAKR 112 (148)
Q Consensus 109 ~~~~ 112 (148)
+.+.
T Consensus 489 mv~y 492 (695)
T KOG0353|consen 489 MVRY 492 (695)
T ss_pred HHHH
Confidence 5544
No 117
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.88 E-value=0.0001 Score=64.51 Aligned_cols=92 Identities=20% Similarity=0.199 Sum_probs=71.1
Q ss_pred HHHHHHHhc--CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC-CCcchHHHHHH
Q 032027 4 ILEWTLDVI--GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD-FNPQIDRQAED 80 (148)
Q Consensus 4 ~l~~~L~~~--~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~-~~~~~~~Q~~g 80 (148)
-+.+.|+.. ...++..||.|+..+-++++.+|.++. .. +|+||...-.|+|+++||++|+-.-+ +--+..-|--|
T Consensus 818 ~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~-~d-VLv~TTIIEtGIDIPnANTiIIe~AD~fGLsQLyQLRG 895 (1139)
T COG1197 818 KKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGE-YD-VLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRG 895 (1139)
T ss_pred HHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcCC-CC-EEEEeeeeecCcCCCCCceEEEeccccccHHHHHHhcc
Confidence 345556555 345888999999999999999998866 44 45555777899999999999987655 56777789999
Q ss_pred hhhhcCCCCcEEEEEEEeC
Q 032027 81 RCHRIGQTRPVTIYRLVTK 99 (148)
Q Consensus 81 R~~R~Gq~~~v~v~~l~~~ 99 (148)
|++|-.+. -+-|.++..
T Consensus 896 RVGRS~~~--AYAYfl~p~ 912 (1139)
T COG1197 896 RVGRSNKQ--AYAYFLYPP 912 (1139)
T ss_pred ccCCccce--EEEEEeecC
Confidence 99985543 777777764
No 118
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.48 E-value=0.00011 Score=54.89 Aligned_cols=45 Identities=22% Similarity=0.299 Sum_probs=42.3
Q ss_pred eeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCCCC
Q 032027 45 LLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQTR 89 (148)
Q Consensus 45 l~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~ 89 (148)
+++++..|+|+++.+.|.+++||.|-++..|.++.+|++|.|.+.
T Consensus 302 ~vat~lfgrgmdiervNi~~NYdmp~~~DtYlHrv~rAgrfGtkg 346 (387)
T KOG0329|consen 302 LVATDLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKG 346 (387)
T ss_pred hHHhhhhccccCcccceeeeccCCCCCchHHHHHhhhhhcccccc
Confidence 567799999999999999999999999999999999999999774
No 119
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=97.48 E-value=0.00047 Score=59.19 Aligned_cols=100 Identities=19% Similarity=0.225 Sum_probs=71.7
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCC--------eEEEeCCCCCcch
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGAD--------TVVIHDMDFNPQI 74 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~--------~vi~~d~~~~~~~ 74 (148)
+.|...|...|+++.+++.... +++..+-. +.+. .-.+.++|..+|+|.|+.-.. |||..+.+-|...
T Consensus 440 E~ls~~L~~~gi~h~vLNAk~~--e~EA~IIa-~AG~-~GaVTIATNMAGRGTDI~Lg~~V~~~GGLhVIgTerheSrRI 515 (925)
T PRK12903 440 ETLHELLLEANIPHTVLNAKQN--AREAEIIA-KAGQ-KGAITIATNMAGRGTDIKLSKEVLELGGLYVLGTDKAESRRI 515 (925)
T ss_pred HHHHHHHHHCCCCceeecccch--hhHHHHHH-hCCC-CCeEEEecccccCCcCccCchhHHHcCCcEEEecccCchHHH
Confidence 6788999999999999888644 33333332 2222 222667779999999975333 8999999999999
Q ss_pred HHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 032027 75 DRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAK 111 (148)
Q Consensus 75 ~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~ 111 (148)
..|..||++|.|.......|- |+|..++....
T Consensus 516 DnQLrGRaGRQGDpGss~f~l-----SLeD~L~r~f~ 547 (925)
T PRK12903 516 DNQLRGRSGRQGDVGESRFFI-----SLDDQLFRRFS 547 (925)
T ss_pred HHHHhcccccCCCCCcceEEE-----ecchHHHHHhC
Confidence 999999999999887654442 45555554433
No 120
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.44 E-value=9.7e-05 Score=62.02 Aligned_cols=53 Identities=53% Similarity=0.765 Sum_probs=48.6
Q ss_pred CHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCC-CCcceeeeeccccccC
Q 032027 1 MLDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNND-TSIFACLLSTRAGGQG 54 (148)
Q Consensus 1 ~l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~-~~~~vll~s~~~~~~G 54 (148)
|||+|++++...+ .|.+++|+.+...|+.++++|+.. .+-+|+|+||+++|.|
T Consensus 643 ~ldlled~~~~~~-~~~r~dG~~~~~~rq~ai~~~n~~~~~~~cfllstra~g~g 696 (696)
T KOG0383|consen 643 MLDLLEDYLTYEG-KYERIDGPITGPERQAAIDRFNAPGSNQFCFLLSTRAGGLG 696 (696)
T ss_pred HHHHhHHHHhccC-cceeccCCccchhhhhhccccCCCCccceEEEeecccccCC
Confidence 5899999999999 999999999999999999999954 4678899999999877
No 121
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=97.39 E-value=0.00026 Score=60.15 Aligned_cols=99 Identities=15% Similarity=0.196 Sum_probs=73.2
Q ss_pred HHHHhcCCCCcceeeeeccccccCcCCCCCCeE--------EEeCCCCCcchHHHHHHhhhhcCCCCcEEEEEEEeCCCH
Q 032027 31 IVDAFNNDTSIFACLLSTRAGGQGLNLTGADTV--------VIHDMDFNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTV 102 (148)
Q Consensus 31 ~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~v--------i~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ 102 (148)
...+|-++. ..|.++| .+++.|+.||.-..| |.+++||+...-+|-.||.||-.|...-.+..++.+=.=
T Consensus 849 EKqrFM~Ge-K~vAIIS-EAaSSGiSLQsDrRv~NqRRRvHiTLELPWSADrAIQQFGRTHRSNQVsaPEYvFlIseLAG 926 (1300)
T KOG1513|consen 849 EKQRFMDGE-KLVAIIS-EAASSGISLQSDRRVQNQRRRVHITLELPWSADRAIQQFGRTHRSNQVSAPEYVFLISELAG 926 (1300)
T ss_pred HHhhhcccc-ceeeeee-hhhccCceeecchhhhhhhheEEEEEECCcchhHHHHHhcccccccccCCCeEEEEehhhcc
Confidence 456777665 3456666 888999999864443 679999999999999999999999877666667766566
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCcccCCCC
Q 032027 103 DENVYEIAKRKLILDAAVLESGVEVDNEG 131 (148)
Q Consensus 103 ee~i~~~~~~K~~~~~~~~~~~~~~~~~~ 131 (148)
|.+......++....-++-.++.-..+.-
T Consensus 927 ErRFAS~VAKRLESLGALThGDRRATetR 955 (1300)
T KOG1513|consen 927 ERRFASIVAKRLESLGALTHGDRRATETR 955 (1300)
T ss_pred chHHHHHHHHHHHhhcccccccccccccc
Confidence 78888888877777666665554443333
No 122
>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=97.32 E-value=0.0017 Score=55.02 Aligned_cols=68 Identities=15% Similarity=0.023 Sum_probs=52.0
Q ss_pred HHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhc-CCCC-cEEEEEEEe
Q 032027 29 QAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRI-GQTR-PVTIYRLVT 98 (148)
Q Consensus 29 ~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~-Gq~~-~v~v~~l~~ 98 (148)
.+.+++|.+++.+.+++ ..+...+|.|.+.++++++.-|--+ ..+.|++||+.|+ ...| ...|+.++-
T Consensus 580 ~~~~~~Fk~~~~~~ilI-VvdmllTGFDaP~l~tLyldKplk~-h~LlQai~R~nR~~~~~K~~g~IvDy~g 649 (667)
T TIGR00348 580 YKDLERFKKEENPKLLI-VVDMLLTGFDAPILNTLYLDKPLKY-HGLLQAIARTNRIDGKDKTFGLIVDYRG 649 (667)
T ss_pred HHHHHHhcCCCCceEEE-EEcccccccCCCccceEEEeccccc-cHHHHHHHHhccccCCCCCCEEEEECcC
Confidence 47899998766566554 4499999999999999988776654 4578999999994 5434 477777764
No 123
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=97.30 E-value=0.0013 Score=55.68 Aligned_cols=100 Identities=18% Similarity=0.269 Sum_probs=73.5
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCC---------------CCCeEEEeC
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLT---------------GADTVVIHD 67 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~---------------~a~~vi~~d 67 (148)
+.|+..|+..|+++..++...... -..++.+-...+. +.++|..+|+|.|+. +.=|||-.+
T Consensus 441 E~ls~~L~~~gI~h~vLNAk~~~~-EA~IIa~AG~~ga---VTIATNMAGRGTDIkLg~~~~~~~~~V~~~GGLhVIgTe 516 (764)
T PRK12326 441 EELAERLRAAGVPAVVLNAKNDAE-EARIIAEAGKYGA---VTVSTQMAGRGTDIRLGGSDEADRDRVAELGGLHVIGTG 516 (764)
T ss_pred HHHHHHHHhCCCcceeeccCchHh-HHHHHHhcCCCCc---EEEEecCCCCccCeecCCCcccchHHHHHcCCcEEEecc
Confidence 678999999999999998875533 2344544433332 577789999998864 345788889
Q ss_pred CCCCcchHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 032027 68 MDFNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAK 111 (148)
Q Consensus 68 ~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~ 111 (148)
.+-|.....|..||++|.|.......|- |+|+.++....
T Consensus 517 rheSrRID~QLrGRaGRQGDpGss~f~l-----SleDdl~~~f~ 555 (764)
T PRK12326 517 RHRSERLDNQLRGRAGRQGDPGSSVFFV-----SLEDDVVAANL 555 (764)
T ss_pred CCchHHHHHHHhcccccCCCCCceeEEE-----EcchhHHHhcC
Confidence 9999999999999999999987654442 55666665544
No 124
>COG4889 Predicted helicase [General function prediction only]
Probab=97.25 E-value=0.001 Score=57.36 Aligned_cols=84 Identities=19% Similarity=0.229 Sum_probs=63.7
Q ss_pred CeEEEEeCCCCHHHHHHHHHHhcC-CCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCCCCc-E
Q 032027 14 VTYRRLDGSTQVTERQAIVDAFNN-DTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQTRP-V 91 (148)
Q Consensus 14 ~~~~~~~G~~~~~~r~~~~~~F~~-~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~-v 91 (148)
+.+--++|.+...+|......-+. .++.+-+|.+.++.++|++.+..+.|||++|--+.....|++||+-|-...|. -
T Consensus 500 iSi~HvDGtmNal~R~~l~~l~~~~~~neckIlSNaRcLSEGVDVPaLDsViFf~pr~smVDIVQaVGRVMRKa~gK~yG 579 (1518)
T COG4889 500 ISIDHVDGTMNALERLDLLELKNTFEPNECKILSNARCLSEGVDVPALDSVIFFDPRSSMVDIVQAVGRVMRKAKGKKYG 579 (1518)
T ss_pred EEeecccccccHHHHHHHHhccCCCCcchheeeccchhhhcCCCccccceEEEecCchhHHHHHHHHHHHHHhCcCCccc
Confidence 445668899999999555443322 33334478888999999999999999999999999999999999999654443 4
Q ss_pred EEEEEE
Q 032027 92 TIYRLV 97 (148)
Q Consensus 92 ~v~~l~ 97 (148)
+|.-.+
T Consensus 580 YIILPI 585 (1518)
T COG4889 580 YIILPI 585 (1518)
T ss_pred eEEEEe
Confidence 554444
No 125
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=97.18 E-value=0.00088 Score=58.07 Aligned_cols=93 Identities=17% Similarity=0.185 Sum_probs=75.9
Q ss_pred CeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCC-CcchHHHHHHhhhhcCCCCcEE
Q 032027 14 VTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDF-NPQIDRQAEDRCHRIGQTRPVT 92 (148)
Q Consensus 14 ~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~-~~~~~~Q~~gR~~R~Gq~~~v~ 92 (148)
..+..++|++..++|.++...|+.+.-. .++++.+.-.|+++...+.+|....|- +-..+.|+.||++|.+|. ..
T Consensus 339 ~~v~~~~~~~~~~er~~ie~~~~~g~~~--~~~st~AlelgidiG~ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~--~l 414 (851)
T COG1205 339 DAVSTYRAGLHREERRRIEAEFKEGELL--GVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQE--SL 414 (851)
T ss_pred hheeeccccCCHHHHHHHHHHHhcCCcc--EEecchhhhhceeehhhhhHhhcCCCCchHHHHHHhhhhccCCCCC--ce
Confidence 5688899999999999999999987733 677889999999999999999999998 778999999999999954 33
Q ss_pred EEEEEeCCCHHHHHHHHH
Q 032027 93 IYRLVTKGTVDENVYEIA 110 (148)
Q Consensus 93 v~~l~~~~t~ee~i~~~~ 110 (148)
++...-.+.++.++...-
T Consensus 415 ~~~v~~~~~~d~yy~~~p 432 (851)
T COG1205 415 VLVVLRSDPLDSYYLRHP 432 (851)
T ss_pred EEEEeCCCccchhhhhCc
Confidence 333444667777665443
No 126
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=97.13 E-value=0.0021 Score=55.77 Aligned_cols=99 Identities=19% Similarity=0.330 Sum_probs=71.1
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCC--------CCCeEEEeCCCCCcch
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLT--------GADTVVIHDMDFNPQI 74 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~--------~a~~vi~~d~~~~~~~ 74 (148)
+.|+..|...|+++..++......+. .++..-...+ .+.++|..+|+|.|+. +.=|||..+.+-|...
T Consensus 582 e~ls~~L~~~gi~h~vLNak~~~~Ea-~iia~AG~~g---~VTIATNmAGRGTDIkl~~~v~~~GGLhVIgTer~es~Ri 657 (970)
T PRK12899 582 EKLSRILRQNRIEHTVLNAKNHAQEA-EIIAGAGKLG---AVTVATNMAGRGTDIKLDEEAVAVGGLYVIGTSRHQSRRI 657 (970)
T ss_pred HHHHHHHHHcCCcceecccchhhhHH-HHHHhcCCCC---cEEEeeccccCCcccccCchHHhcCCcEEEeeccCchHHH
Confidence 67889999999999888887442222 3444332222 2677789999998863 3457899999999999
Q ss_pred HHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHH
Q 032027 75 DRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIA 110 (148)
Q Consensus 75 ~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~ 110 (148)
..|..||++|.|.......|. |+|..++...
T Consensus 658 d~Ql~GRagRQGdpGss~f~l-----SlEDdL~~~f 688 (970)
T PRK12899 658 DRQLRGRCARLGDPGAAKFFL-----SFEDRLMRLF 688 (970)
T ss_pred HHHHhcccccCCCCCceeEEE-----EcchHHHHHh
Confidence 999999999999987654432 4566666543
No 127
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.05 E-value=0.013 Score=45.76 Aligned_cols=96 Identities=17% Similarity=0.171 Sum_probs=67.2
Q ss_pred HHHHHHHHhc-C-CeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC--CCcchHHHH
Q 032027 3 DILEWTLDVI-G-VTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD--FNPQIDRQA 78 (148)
Q Consensus 3 ~~l~~~L~~~-~-~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~--~~~~~~~Q~ 78 (148)
+-+.+.|+.. + ...+.+|+... .|.+-+.+|+++. .-+|++|....+|+++++.+..++-... ++.+...|-
T Consensus 319 eq~a~~lk~~~~~~~i~~Vhs~d~--~R~EkV~~fR~G~--~~lLiTTTILERGVTfp~vdV~Vlgaeh~vfTesaLVQI 394 (441)
T COG4098 319 EQVAAALKKKLPKETIASVHSEDQ--HRKEKVEAFRDGK--ITLLITTTILERGVTFPNVDVFVLGAEHRVFTESALVQI 394 (441)
T ss_pred HHHHHHHHhhCCccceeeeeccCc--cHHHHHHHHHcCc--eEEEEEeehhhcccccccceEEEecCCcccccHHHHHHH
Confidence 3444555332 2 22345555443 7888999998876 3378888999999999999988875544 788899999
Q ss_pred HHhhhhcCCCCcEEEEEEEeCCCH
Q 032027 79 EDRCHRIGQTRPVTIYRLVTKGTV 102 (148)
Q Consensus 79 ~gR~~R~Gq~~~v~v~~l~~~~t~ 102 (148)
.||++|--..-+-.|+.|...-|-
T Consensus 395 aGRvGRs~~~PtGdv~FFH~G~sk 418 (441)
T COG4098 395 AGRVGRSLERPTGDVLFFHYGKSK 418 (441)
T ss_pred hhhccCCCcCCCCcEEEEeccchH
Confidence 999999655544566666654443
No 128
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=97.03 E-value=0.0024 Score=43.69 Aligned_cols=68 Identities=15% Similarity=0.261 Sum_probs=43.7
Q ss_pred HHHHHHHHHhcCC----eEEEEeCCCCHHHHHHHHHHhcCCCC--cceeeeeccc--cccCcCCCC--CCeEEEeCCCCC
Q 032027 2 LDILEWTLDVIGV----TYRRLDGSTQVTERQAIVDAFNNDTS--IFACLLSTRA--GGQGLNLTG--ADTVVIHDMDFN 71 (148)
Q Consensus 2 l~~l~~~L~~~~~----~~~~~~G~~~~~~r~~~~~~F~~~~~--~~vll~s~~~--~~~Glnl~~--a~~vi~~d~~~~ 71 (148)
++.+.+.++..++ ..+.+.+..+ .+..+.++.|..... .. +|+++.. .++|+|++. +..||+..+|+-
T Consensus 4 m~~v~~~~~~~~~~~~~~~i~~e~~~~-~~~~~~l~~f~~~~~~~g~-iL~~v~~G~~~EGiD~~g~~~r~vii~glPfp 81 (142)
T smart00491 4 LEQVVEYWKENGILEINKPVFIEGKDS-GETEELLEKYSAACEARGA-LLLAVARGKVSEGIDFPDDLGRAVIIVGIPFP 81 (142)
T ss_pred HHHHHHHHHhcCccccCceEEEECCCC-chHHHHHHHHHHhcCCCCE-EEEEEeCCeeecceecCCCccEEEEEEecCCC
Confidence 4556666666553 2344445443 355789999986432 12 4444444 789999975 788999998874
No 129
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=96.88 E-value=0.0026 Score=55.73 Aligned_cols=99 Identities=18% Similarity=0.338 Sum_probs=70.6
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCC--------CCCeEEEeCCCCCcch
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLT--------GADTVVIHDMDFNPQI 74 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~--------~a~~vi~~d~~~~~~~ 74 (148)
+.|+..|+.+|+++-+++...-..+. .++..-...+. +.++|..+|+|.|+. +.=|||-.+.+-|...
T Consensus 642 E~lS~~L~~~gI~H~VLNAK~h~~EA-eIVA~AG~~Ga---VTIATNMAGRGTDIkLg~~V~e~GGL~VIgTerheSrRI 717 (1112)
T PRK12901 642 ELLSRMLKMRKIPHNVLNAKLHQKEA-EIVAEAGQPGT---VTIATNMAGRGTDIKLSPEVKAAGGLAIIGTERHESRRV 717 (1112)
T ss_pred HHHHHHHHHcCCcHHHhhccchhhHH-HHHHhcCCCCc---EEEeccCcCCCcCcccchhhHHcCCCEEEEccCCCcHHH
Confidence 67888999999998888776443222 33433323332 567779999999875 4568899999999999
Q ss_pred HHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHH
Q 032027 75 DRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIA 110 (148)
Q Consensus 75 ~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~ 110 (148)
..|..||++|.|.......|. |+|..++.+.
T Consensus 718 D~QLrGRaGRQGDPGsS~f~l-----SLEDdLmr~F 748 (1112)
T PRK12901 718 DRQLRGRAGRQGDPGSSQFYV-----SLEDNLMRLF 748 (1112)
T ss_pred HHHHhcccccCCCCCcceEEE-----EcccHHHHhh
Confidence 999999999999886644432 4455555443
No 130
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=96.73 E-value=0.0056 Score=51.07 Aligned_cols=85 Identities=27% Similarity=0.335 Sum_probs=62.7
Q ss_pred EEEEeCCCCHHHHHHHHHHhcCCC-CcceeeeeccccccCcCCCCCCeEE--------EeCCCC-------CcchHHHHH
Q 032027 16 YRRLDGSTQVTERQAIVDAFNNDT-SIFACLLSTRAGGQGLNLTGADTVV--------IHDMDF-------NPQIDRQAE 79 (148)
Q Consensus 16 ~~~~~G~~~~~~r~~~~~~F~~~~-~~~vll~s~~~~~~Glnl~~a~~vi--------~~d~~~-------~~~~~~Q~~ 79 (148)
+..+||+++.++..++ |...+ +.+-++++|..+...+++.+..+|| .|+|.- -|..-.||.
T Consensus 293 ~lply~aL~~e~Q~rv---F~p~p~g~RKvIlsTNIAETSlTI~GI~YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~ 369 (674)
T KOG0922|consen 293 ILPLYGALPSEEQSRV---FDPAPPGKRKVILSTNIAETSLTIDGIRYVVDSGFVKQKKYNPRTGLDSLIVVPISKASAN 369 (674)
T ss_pred eeeecccCCHHHhhcc---ccCCCCCcceEEEEcceeeeeEEecceEEEEcCCceEEEeeccccCccceeEEechHHHHh
Confidence 4678999999887665 44333 5666888889999999999888874 233211 123455888
Q ss_pred HhhhhcCCCCcEEEEEEEeCCCHH
Q 032027 80 DRCHRIGQTRPVTIYRLVTKGTVD 103 (148)
Q Consensus 80 gR~~R~Gq~~~v~v~~l~~~~t~e 103 (148)
-|.+|.|.+.+..+||||++..++
T Consensus 370 QRaGRAGRt~pGkcyRLYte~~~~ 393 (674)
T KOG0922|consen 370 QRAGRAGRTGPGKCYRLYTESAYD 393 (674)
T ss_pred hhcccCCCCCCceEEEeeeHHHHh
Confidence 888888889999999999987663
No 131
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=96.68 E-value=0.0036 Score=54.08 Aligned_cols=96 Identities=21% Similarity=0.291 Sum_probs=62.5
Q ss_pred HHHHHHh----cCCeEEEEeCCCCHHHHHHHHHHhcCCCCc-ceeeeeccccccCcCCCCCCeEEEeCC----CCCcch-
Q 032027 5 LEWTLDV----IGVTYRRLDGSTQVTERQAIVDAFNNDTSI-FACLLSTRAGGQGLNLTGADTVVIHDM----DFNPQI- 74 (148)
Q Consensus 5 l~~~L~~----~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~-~vll~s~~~~~~Glnl~~a~~vi~~d~----~~~~~~- 74 (148)
..+.|.+ ..+.++.+||.++.++..++ |+..+.. +-++++|..+-.+|++.+..+||=-.. -||+..
T Consensus 275 ~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~rv---F~p~~~~~RKVVlATNIAETSLTI~gIr~VIDsG~ak~~~y~~~~g 351 (845)
T COG1643 275 TAEWLEKAELGDDLEILPLYGALSAEEQVRV---FEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLAKEKRYDPRTG 351 (845)
T ss_pred HHHHHHhccccCCcEEeeccccCCHHHHHhh---cCCCCCCcceEEEEccccccceeeCCeEEEecCCcccccccccccC
Confidence 3445554 35778999999999888874 5443322 437888899999999999988863221 122221
Q ss_pred ----------HHHHHHhhhhcCCCCcEEEEEEEeCCCHH
Q 032027 75 ----------DRQAEDRCHRIGQTRPVTIYRLVTKGTVD 103 (148)
Q Consensus 75 ----------~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~e 103 (148)
-..+.-|.+|.|.+.+-..|++++++..+
T Consensus 352 ~~~L~~~~ISqAsA~QRaGRAGR~~pGicyRLyse~~~~ 390 (845)
T COG1643 352 LTRLETEPISKASADQRAGRAGRTGPGICYRLYSEEDFL 390 (845)
T ss_pred ceeeeEEEechhhhhhhccccccCCCceEEEecCHHHHH
Confidence 12334444444557778899999976544
No 132
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.62 E-value=0.0075 Score=50.02 Aligned_cols=87 Identities=17% Similarity=0.213 Sum_probs=65.3
Q ss_pred EEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCCCCcEEEEE
Q 032027 16 YRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVTIYR 95 (148)
Q Consensus 16 ~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~ 95 (148)
+..|.|+.+.++|.++-.+.-.+. .+ -+++|.+...|+++-..+.|+.+..|.+-+.+.|..||++|-.... ..+|
T Consensus 560 i~SYRGGY~A~DRRKIE~~~F~G~-L~-giIaTNALELGIDIG~LDAVl~~GFP~S~aNl~QQ~GRAGRRNk~S-Lavy- 635 (1034)
T KOG4150|consen 560 ITSYRGGYIAEDRRKIESDLFGGK-LC-GIIATNALELGIDIGHLDAVLHLGFPGSIANLWQQAGRAGRRNKPS-LAVY- 635 (1034)
T ss_pred HHhhcCccchhhHHHHHHHhhCCe-ee-EEEecchhhhccccccceeEEEccCchhHHHHHHHhccccccCCCc-eEEE-
Confidence 456789999888888766654444 33 5677899999999999999999999999999999999999965432 3332
Q ss_pred EEeCCCHHHHH
Q 032027 96 LVTKGTVDENV 106 (148)
Q Consensus 96 l~~~~t~ee~i 106 (148)
....+++|...
T Consensus 636 va~~~PVDQ~Y 646 (1034)
T KOG4150|consen 636 VAFLGPVDQYY 646 (1034)
T ss_pred EEeccchhhHh
Confidence 33445566543
No 133
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=96.52 E-value=0.0059 Score=52.92 Aligned_cols=99 Identities=18% Similarity=0.299 Sum_probs=69.4
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCC------------------------
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLT------------------------ 58 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~------------------------ 58 (148)
+.|+..|+..|+++-+++...... =..++..-...+ .+.++|..+|+|.|+.
T Consensus 463 E~ls~~L~~~gi~h~VLNAk~~~~-EA~IIa~AG~~G---aVTIATNMAGRGTDIkLg~n~~~~~~~~~~~~~~~~~~~~ 538 (913)
T PRK13103 463 EHMSNLLKKEGIEHKVLNAKYHEK-EAEIIAQAGRPG---ALTIATNMAGRGTDILLGGNWEVEVAALENPTPEQIAQIK 538 (913)
T ss_pred HHHHHHHHHcCCcHHHhccccchh-HHHHHHcCCCCC---cEEEeccCCCCCCCEecCCchHHHHHhhhhhhHHHHHHHH
Confidence 678889999999988777765422 223333322222 2577779999999873
Q ss_pred -------------CCCeEEEeCCCCCcchHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHH
Q 032027 59 -------------GADTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIA 110 (148)
Q Consensus 59 -------------~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~ 110 (148)
+.=|||-.+.+-|.....|.-||++|.|.......|. |+|..++...
T Consensus 539 ~~~~~~~e~V~e~GGLhVIgTerheSrRID~QLrGRaGRQGDPGsS~f~l-----SlED~Lmr~f 598 (913)
T PRK13103 539 ADWQKRHQQVIEAGGLHVIASERHESRRIDNQLRGRAGRQGDPGSSRFYL-----SLEDSLMRIF 598 (913)
T ss_pred HHHHhHHHHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCceEEEE-----EcCcHHHHhh
Confidence 3447899999999999999999999999987655442 3455555443
No 134
>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=96.28 E-value=0.014 Score=50.78 Aligned_cols=65 Identities=26% Similarity=0.317 Sum_probs=42.4
Q ss_pred HHHHHHHHHh----cCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCC--CCeEEEeCCCCC
Q 032027 2 LDILEWTLDV----IGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTG--ADTVVIHDMDFN 71 (148)
Q Consensus 2 l~~l~~~L~~----~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~--a~~vi~~d~~~~ 71 (148)
++.+.+.|.. .++++ +..+.. .+|.+++++|++++. . +|+.+.+.++|+|+++ ...||+.-+|+-
T Consensus 687 l~~v~~~L~~~~~~~~~~~--l~q~~~-~~r~~ll~~F~~~~~-~-iLlgt~sf~EGVD~~g~~l~~viI~~LPf~ 757 (850)
T TIGR01407 687 LHMVYDMLNELPEFEGYEV--LAQGIN-GSRAKIKKRFNNGEK-A-ILLGTSSFWEGVDFPGNGLVCLVIPRLPFA 757 (850)
T ss_pred HHHHHHHHhhhccccCceE--EecCCC-ccHHHHHHHHHhCCC-e-EEEEcceeecccccCCCceEEEEEeCCCCC
Confidence 4455566654 34442 223322 478899999987653 3 4556699999999976 456777777764
No 135
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=96.21 E-value=0.0087 Score=41.90 Aligned_cols=45 Identities=20% Similarity=0.457 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhcCCCCcceeeeecc--ccccCcCCCC--CCeEEEeCCCCC
Q 032027 25 VTERQAIVDAFNNDTSIFACLLSTR--AGGQGLNLTG--ADTVVIHDMDFN 71 (148)
Q Consensus 25 ~~~r~~~~~~F~~~~~~~vll~s~~--~~~~Glnl~~--a~~vi~~d~~~~ 71 (148)
..++...++.|..+++. +|+++. +.++|+|+.. +..+|+..+|+-
T Consensus 45 ~~~~~~~l~~~~~~~~~--il~~v~~g~~~EGiD~~~~~~r~vii~glPfp 93 (167)
T PF13307_consen 45 SKSRDELLEEFKRGEGA--ILLAVAGGSFSEGIDFPGDLLRAVIIVGLPFP 93 (167)
T ss_dssp CCHHHHHHHHHCCSSSE--EEEEETTSCCGSSS--ECESEEEEEEES----
T ss_pred cchHHHHHHHHHhccCe--EEEEEecccEEEeecCCCchhheeeecCCCCC
Confidence 34788899999987644 555556 8899999974 888999999974
No 136
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=96.15 E-value=0.041 Score=37.56 Aligned_cols=68 Identities=16% Similarity=0.276 Sum_probs=45.7
Q ss_pred HHHHHHHHHhcCC-------eEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCC--CCeEEEeCCCCC
Q 032027 2 LDILEWTLDVIGV-------TYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTG--ADTVVIHDMDFN 71 (148)
Q Consensus 2 l~~l~~~L~~~~~-------~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~--a~~vi~~d~~~~ 71 (148)
++.+...++..+. ....+.| ....+..++++.|.+..... +|+++...++|+|++. +..+|+...|+-
T Consensus 4 m~~v~~~~~~~~~~~~l~~~~~i~~e~-~~~~~~~~~l~~f~~~~~~~-iL~~~~~~~EGiD~~g~~~r~vii~glPfp 80 (141)
T smart00492 4 MESFVQYWKENGILENINKNLLLLVQG-EDGKETGKLLEKYVEACENA-ILLATARFSEGVDFPGDYLRAVIIDGLPFP 80 (141)
T ss_pred HHHHHHHHHHcCchhhHhcCCeEEEeC-CChhHHHHHHHHHHHcCCCE-EEEEccceecceecCCCCeeEEEEEecCCC
Confidence 4455566666654 3333444 44446788999998754323 5566666999999975 788899998874
No 137
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.12 E-value=0.024 Score=49.93 Aligned_cols=44 Identities=20% Similarity=0.315 Sum_probs=33.9
Q ss_pred HHHHHHHHHhcCCCCcceeeeeccccccCcCCCC--CCeEEEeCCCCC
Q 032027 26 TERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTG--ADTVVIHDMDFN 71 (148)
Q Consensus 26 ~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~--a~~vi~~d~~~~ 71 (148)
..|.+.+++|+..++ .|+ +.+.+..+|+|+++ +..||+.-+|+.
T Consensus 791 ~~r~~l~~~F~~~~~-~iL-lG~~sFwEGVD~pg~~l~~viI~kLPF~ 836 (928)
T PRK08074 791 GSRARLTKQFQQFDK-AIL-LGTSSFWEGIDIPGDELSCLVIVRLPFA 836 (928)
T ss_pred CCHHHHHHHHHhcCC-eEE-EecCcccCccccCCCceEEEEEecCCCC
Confidence 357889999987553 344 45689999999976 588899888873
No 138
>COG1204 Superfamily II helicase [General function prediction only]
Probab=96.05 E-value=0.005 Score=52.93 Aligned_cols=69 Identities=26% Similarity=0.264 Sum_probs=51.7
Q ss_pred EEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEE----EeC-----CCCCcchHHHHHHhhhhcCCC
Q 032027 18 RLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVV----IHD-----MDFNPQIDRQAEDRCHRIGQT 88 (148)
Q Consensus 18 ~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi----~~d-----~~~~~~~~~Q~~gR~~R~Gq~ 88 (148)
.-|.+++.+.|.-+=+.|+.+. ++ +|++|.+.+.|+||+.=..+| .++ -+-++..+.|-.||++|+|=.
T Consensus 319 fHhAGL~~~~R~~vE~~Fr~g~-ik-Vlv~TpTLA~GVNLPA~~VIIk~~~~y~~~~g~~~i~~~dv~QM~GRAGRPg~d 396 (766)
T COG1204 319 FHHAGLPREDRQLVEDAFRKGK-IK-VLVSTPTLAAGVNLPARTVIIKDTRRYDPKGGIVDIPVLDVLQMAGRAGRPGYD 396 (766)
T ss_pred ccccCCCHHHHHHHHHHHhcCC-ce-EEEechHHhhhcCCcceEEEEeeeEEEcCCCCeEECchhhHhhccCcCCCCCcC
Confidence 4688999999999999998766 44 667778999999999544433 233 222455678999999999844
No 139
>PF06862 DUF1253: Protein of unknown function (DUF1253); InterPro: IPR010678 This family is defined by a C-terminal region of approximately 500 residues, Digestive organ expansion factor (DEF) is thought to Regulate the p53 pathway to control the expansion growth of digestive organs and is required for the expansion growth of intestine, liver and exocrine pancreas, but not endocrine pancreas [, ].; GO: 0005634 nucleus
Probab=95.92 E-value=0.093 Score=42.43 Aligned_cols=94 Identities=14% Similarity=0.074 Sum_probs=71.5
Q ss_pred HHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccc-cccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 4 ILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRA-GGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~-~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
.|..+|+..++.++.++--++.++-.++...|.++. ..+||.|-+. -=+=..+.++.+||||.||-+|.-|..-+.-+
T Consensus 315 RlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G~-~~iLL~TER~HFfrRy~irGi~~viFY~~P~~p~fY~El~n~~ 393 (442)
T PF06862_consen 315 RLRNYLKKENISFVQISEYTSNSDISRARSQFFHGR-KPILLYTERFHFFRRYRIRGIRHVIFYGPPENPQFYSELLNML 393 (442)
T ss_pred HHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcCC-ceEEEEEhHHhhhhhceecCCcEEEEECCCCChhHHHHHHhhh
Confidence 367889999999999999999999999999998876 5677777333 11234567799999999999999998887666
Q ss_pred hhcCC----CCcEEEEEEEe
Q 032027 83 HRIGQ----TRPVTIYRLVT 98 (148)
Q Consensus 83 ~R~Gq----~~~v~v~~l~~ 98 (148)
....+ ..+..+.-+++
T Consensus 394 ~~~~~~~~~~~~~~~~~lys 413 (442)
T PF06862_consen 394 DESSGGEVDAADATVTVLYS 413 (442)
T ss_pred cccccccccccCceEEEEec
Confidence 55443 23355555665
No 140
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=95.76 E-value=0.072 Score=45.63 Aligned_cols=97 Identities=22% Similarity=0.299 Sum_probs=70.2
Q ss_pred HHHHHHHHhc--CCeEEEEeCCCCHHH--HHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC--CCcc---
Q 032027 3 DILEWTLDVI--GVTYRRLDGSTQVTE--RQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD--FNPQ--- 73 (148)
Q Consensus 3 ~~l~~~L~~~--~~~~~~~~G~~~~~~--r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~--~~~~--- 73 (148)
+.+++-|+.. +.++.++++.++..+ -+..+..|.++... +|+-|...+.|+|+++..-|..++.+ .+..
T Consensus 494 erieeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~d--ILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfR 571 (730)
T COG1198 494 ERIEEELKRLFPGARIIRIDSDTTRRKGALEDLLDQFANGEAD--ILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFR 571 (730)
T ss_pred HHHHHHHHHHCCCCcEEEEccccccchhhHHHHHHHHhCCCCC--eeecchhhhcCCCcccceEEEEEechhhhcCCCcc
Confidence 4566777665 678899999876533 46789999887743 67777999999999998887655533 2222
Q ss_pred -------hHHHHHHhhhhcCCCCcEEEEEEEeCCC
Q 032027 74 -------IDRQAEDRCHRIGQTRPVTIYRLVTKGT 101 (148)
Q Consensus 74 -------~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t 101 (148)
.+.|..||++|-+-...|.|-.+....+
T Consensus 572 A~Er~fqll~QvaGRAgR~~~~G~VvIQT~~P~hp 606 (730)
T COG1198 572 ASERTFQLLMQVAGRAGRAGKPGEVVIQTYNPDHP 606 (730)
T ss_pred hHHHHHHHHHHHHhhhccCCCCCeEEEEeCCCCcH
Confidence 2249999999987777777776666543
No 141
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=95.70 E-value=0.021 Score=48.95 Aligned_cols=83 Identities=18% Similarity=0.253 Sum_probs=66.4
Q ss_pred CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhc-------
Q 032027 13 GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRI------- 85 (148)
Q Consensus 13 ~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~------- 85 (148)
|--+..|+|... +-++.++.|......+.+.+|.+.+..|+|.+.+..++|+-+--+...+.|-+||.-|.
T Consensus 455 ~~~a~~IT~d~~--~~q~~Id~f~~ke~~P~IaitvdlL~TGiDvpev~nlVF~r~VrSktkF~QMvGRGTRl~~~~~~~ 532 (875)
T COG4096 455 GRYAMKITGDAE--QAQALIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVRSKTKFKQMVGRGTRLCPDLGGP 532 (875)
T ss_pred CceEEEEeccch--hhHHHHHHHHhcCCCCceEEehhhhhcCCCchheeeeeehhhhhhHHHHHHHhcCccccCccccCc
Confidence 344678888776 44557889987555667888999999999999999999999999999999999999994
Q ss_pred CCCCc-EEEEEEE
Q 032027 86 GQTRP-VTIYRLV 97 (148)
Q Consensus 86 Gq~~~-v~v~~l~ 97 (148)
||.|. ..|+.+.
T Consensus 533 ~~dK~~F~ifDf~ 545 (875)
T COG4096 533 EQDKEFFTIFDFV 545 (875)
T ss_pred cccceeEEEEEhh
Confidence 23343 6666664
No 142
>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=95.60 E-value=0.071 Score=40.94 Aligned_cols=109 Identities=20% Similarity=0.270 Sum_probs=58.6
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHH------------HHhc--CCCCcceeeeeccccccC----cCCCCCCeE
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIV------------DAFN--NDTSIFACLLSTRAGGQG----LNLTGADTV 63 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~------------~~F~--~~~~~~vll~s~~~~~~G----lnl~~a~~v 63 (148)
+|+|+.+|...++.+.++.|.....+....- .... ....+.+.|++++-.... ++-...+.|
T Consensus 130 ldllE~~llGk~~~~kr~sg~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~ts~~l~~~~~~~~~~~~~d~I 209 (297)
T PF11496_consen 130 LDLLEGLLLGKKLNYKRYSGESLYDEKHKVPKNGNTESNSSNNSKKKDKGSLSVWIHLITSDQLYNNKPPLLSNYNFDLI 209 (297)
T ss_dssp HHHHHHHHTTSSSEEEESSS--S--S---S----------------------SEEEEEEESS---TTTS--TT-S-EEEE
T ss_pred HHHHHHHHccCCeeEEecCCCCCcCccccCCcccccccccccccccccccccceEEEEecCccccccCCCccccCCcCEE
Confidence 6899999999999999999975443333221 0111 123466677776544331 222356889
Q ss_pred EEeCCCCCcchHH-HHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHH
Q 032027 64 VIHDMDFNPQIDR-QAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKR 112 (148)
Q Consensus 64 i~~d~~~~~~~~~-Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~ 112 (148)
|-||+.+++.... |.+...+|-+ +.+.|++++..+|+|-.++..-..
T Consensus 210 IsfD~~~d~~~p~i~~lR~~~~~~--~~~PiirLv~~nSiEHi~L~~~~~ 257 (297)
T PF11496_consen 210 ISFDPSFDTSLPSIEQLRTQNRRN--RLCPIIRLVPSNSIEHIELCFPKS 257 (297)
T ss_dssp EE-SST--TTSHHHHHHH---------S--EEEEEETTSHHHHHHHHTTT
T ss_pred EEecCCCCCCChHHHHHHhhcCCC--CCCcEEEEeeCCCHHHHHHHccCc
Confidence 9999999987654 4444444443 789999999999999987776653
No 143
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=95.60 E-value=0.055 Score=45.71 Aligned_cols=66 Identities=18% Similarity=0.207 Sum_probs=45.9
Q ss_pred HHHHHHHHHhcCC-eEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCC--CCeEEEeCCCCC
Q 032027 2 LDILEWTLDVIGV-TYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTG--ADTVVIHDMDFN 71 (148)
Q Consensus 2 l~~l~~~L~~~~~-~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~--a~~vi~~d~~~~ 71 (148)
++.+.+.|..... ..+...|..+ +...+++|.+.... .+++.+.+.++|+|+++ +..||+...|+-
T Consensus 492 l~~~~~~~~~~~~~~~v~~q~~~~---~~~~l~~f~~~~~~-~~lv~~gsf~EGVD~~g~~l~~vvI~~lPfp 560 (654)
T COG1199 492 LKRVAERLKDERSTLPVLTQGEDE---REELLEKFKASGEG-LILVGGGSFWEGVDFPGDALRLVVIVGLPFP 560 (654)
T ss_pred HHHHHHHHhhcCccceeeecCCCc---HHHHHHHHHHhcCC-eEEEeeccccCcccCCCCCeeEEEEEecCCC
Confidence 3445555555554 2455566655 44789999876653 46777799999999975 688999888874
No 144
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=95.50 E-value=0.047 Score=47.39 Aligned_cols=60 Identities=17% Similarity=0.226 Sum_probs=41.7
Q ss_pred CeEEEeCCCCCcchHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHH-HHHHHHHhc
Q 032027 61 DTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKL-ILDAAVLES 123 (148)
Q Consensus 61 ~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~-~~~~~~~~~ 123 (148)
++||+|+|.-+.....|.- |++|.|. ++.||.++..+|+||.-|-...+|. .+++.++..
T Consensus 478 ~~VImYEP~~sfIR~IEvy-ra~r~~r--~~rVyfL~y~~S~EEq~yl~sirrEK~AFe~LIre 538 (814)
T TIGR00596 478 RYVIMYEPDISFIRQLEVY-KASRPLR--PLRVYFLYYGGSIEEQRYLTSLRREKDAFTKLIRE 538 (814)
T ss_pred CEEEEECCChHHHHHHHHH-HccCCCC--CcEEEEEEECCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8999999887766666621 2233333 3889999999999998777766665 444555544
No 145
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=95.44 E-value=0.096 Score=45.52 Aligned_cols=52 Identities=15% Similarity=0.265 Sum_probs=35.8
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCH-HHHHHHHHHhcCCCCcceeeeeccccccCcCC
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQV-TERQAIVDAFNNDTSIFACLLSTRAGGQGLNL 57 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~-~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl 57 (148)
+.|+..|...|+++-+++..... ++=..++..-...+ .+.++|..+|+|.|+
T Consensus 438 E~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIA~AG~~G---~VTIATNMAGRGTDI 490 (870)
T CHL00122 438 ELLSQLLKEYRLPHQLLNAKPENVRRESEIVAQAGRKG---SITIATNMAGRGTDI 490 (870)
T ss_pred HHHHHHHHHcCCccceeeCCCccchhHHHHHHhcCCCC---cEEEeccccCCCcCe
Confidence 67899999999999999987422 23333454433323 257777999999774
No 146
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=95.38 E-value=0.033 Score=48.86 Aligned_cols=78 Identities=21% Similarity=0.273 Sum_probs=56.9
Q ss_pred hcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEe-C-CCCCcchHHHHHHhhhhcCCC
Q 032027 11 VIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIH-D-MDFNPQIDRQAEDRCHRIGQT 88 (148)
Q Consensus 11 ~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~-d-~~~~~~~~~Q~~gR~~R~Gq~ 88 (148)
.+|+.+ -|.+++...|..+=--|+.+. .. +|.+|...+.|+|++ |.+|+|. | +..+|-.|-|..||++|-|=.
T Consensus 962 yRGiG~--HHaglNr~yR~~VEvLFR~g~-L~-VlfaT~TLsLGiNMP-CrTVvF~gDsLQL~plny~QmaGRAGRRGFD 1036 (1330)
T KOG0949|consen 962 YRGIGV--HHAGLNRKYRSLVEVLFRQGH-LQ-VLFATETLSLGINMP-CRTVVFAGDSLQLDPLNYKQMAGRAGRRGFD 1036 (1330)
T ss_pred Hhcccc--cccccchHHHHHHHHHhhcCc-eE-EEEEeeehhcccCCC-ceeEEEeccccccCchhHHhhhccccccccc
Confidence 456653 578888888887777776544 55 555669999999998 5555554 3 447999999999999998855
Q ss_pred CcEEE
Q 032027 89 RPVTI 93 (148)
Q Consensus 89 ~~v~v 93 (148)
.--+|
T Consensus 1037 ~lGnV 1041 (1330)
T KOG0949|consen 1037 TLGNV 1041 (1330)
T ss_pred cccce
Confidence 43333
No 147
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.14 E-value=0.037 Score=46.90 Aligned_cols=93 Identities=22% Similarity=0.370 Sum_probs=65.5
Q ss_pred CCeEEEEeCCCCHHHHHHHHHHhc-CCCCcceeeeeccccccCcCCCCCCeEEEeCCC----CCc-----------chHH
Q 032027 13 GVTYRRLDGSTQVTERQAIVDAFN-NDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD----FNP-----------QIDR 76 (148)
Q Consensus 13 ~~~~~~~~G~~~~~~r~~~~~~F~-~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~----~~~-----------~~~~ 76 (148)
++.+..|++.++..-..++ |+ ..++++-++++|..+...|++++..+||=.... +|| ..-.
T Consensus 597 ~L~vlpiYSQLp~dlQ~ki---Fq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~~~G~D~L~~~pIS~A 673 (1042)
T KOG0924|consen 597 DLAVLPIYSQLPADLQAKI---FQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVPISQA 673 (1042)
T ss_pred ceEEEeehhhCchhhhhhh---cccCCCCceeEEEeccchhhceeecceEEEEecCceeeeecccccccceeEEEechhc
Confidence 6778899999997666554 55 244566678888999999999988887643321 222 2334
Q ss_pred HHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHH
Q 032027 77 QAEDRCHRIGQTRPVTIYRLVTKGTVDENVYE 108 (148)
Q Consensus 77 Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~ 108 (148)
+|.-|++|.|.+.+-..|++|++++....++.
T Consensus 674 nA~QRaGRAGRt~pG~cYRlYTe~ay~~eml~ 705 (1042)
T KOG0924|consen 674 NADQRAGRAGRTGPGTCYRLYTEDAYKNEMLP 705 (1042)
T ss_pred cchhhccccCCCCCcceeeehhhhHHHhhccc
Confidence 56666666677788899999999887766653
No 148
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=94.92 E-value=0.11 Score=45.96 Aligned_cols=71 Identities=17% Similarity=0.129 Sum_probs=55.8
Q ss_pred EEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcch----------HHHHHHhhhhcCC
Q 032027 18 RLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQI----------DRQAEDRCHRIGQ 87 (148)
Q Consensus 18 ~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~----------~~Q~~gR~~R~Gq 87 (148)
.-|.++..+.|.-.=+.|..++ ++ +|++|...+-|+||+.-..+|.-...|+++. ..|-.||++|.+=
T Consensus 401 iHhAGm~r~DR~l~E~~F~~G~-i~-vL~cTaTLAwGVNLPA~aViIKGT~~ydsskg~f~dlgilDVlQifGRAGRPqF 478 (1230)
T KOG0952|consen 401 IHHAGMLRSDRQLVEKEFKEGH-IK-VLCCTATLAWGVNLPAYAVIIKGTQVYDSSKGSFVDLGILDVLQIFGRAGRPQF 478 (1230)
T ss_pred hcccccchhhHHHHHHHHhcCC-ce-EEEecceeeeccCCcceEEEecCCcccccccCceeeehHHHHHHHHhccCCCCC
Confidence 3577888888988888887766 34 6777799999999998777777777787765 4599999999774
Q ss_pred CCc
Q 032027 88 TRP 90 (148)
Q Consensus 88 ~~~ 90 (148)
...
T Consensus 479 d~~ 481 (1230)
T KOG0952|consen 479 DSS 481 (1230)
T ss_pred CCC
Confidence 443
No 149
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=94.71 E-value=0.042 Score=47.82 Aligned_cols=70 Identities=26% Similarity=0.301 Sum_probs=48.8
Q ss_pred eEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC-----CCcchHHHHHHhhhhcCC
Q 032027 15 TYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD-----FNPQIDRQAEDRCHRIGQ 87 (148)
Q Consensus 15 ~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~-----~~~~~~~Q~~gR~~R~Gq 87 (148)
.+...|.+.+.++|+-+=..|+++- .+ +++.|...+.|+||+.-. ||+=.|. -....|.|.+||++|.|=
T Consensus 524 GvAyHhaGLT~eER~~iE~afr~g~-i~-vl~aTSTlaaGVNLPArR-VIiraP~~g~~~l~~~~YkQM~GRAGR~gi 598 (1008)
T KOG0950|consen 524 GVAYHHAGLTSEEREIIEAAFREGN-IF-VLVATSTLAAGVNLPARR-VIIRAPYVGREFLTRLEYKQMVGRAGRTGI 598 (1008)
T ss_pred cceecccccccchHHHHHHHHHhcC-eE-EEEecchhhccCcCCcce-eEEeCCccccchhhhhhHHhhhhhhhhccc
Confidence 3445667788888987666887655 44 455556688999999544 4443333 345678899999999983
No 150
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=94.62 E-value=0.18 Score=43.96 Aligned_cols=65 Identities=18% Similarity=0.140 Sum_probs=41.2
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCC--CCeEEEeCCCCC
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTG--ADTVVIHDMDFN 71 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~--a~~vi~~d~~~~ 71 (148)
++.+.+.|....++. ...|... .+.+++++|+++++ . +|+.+.+..+|+|++. +..+|+.-+|+.
T Consensus 660 l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~~-~-vLlG~~sFwEGVD~p~~~~~~viI~kLPF~ 726 (820)
T PRK07246 660 LLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGEQ-Q-ILLGLGSFWEGVDFVQADRMIEVITRLPFD 726 (820)
T ss_pred HHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCCC-e-EEEecchhhCCCCCCCCCeEEEEEecCCCC
Confidence 344556665554443 5566443 35668999987553 3 4455599999999963 455667776653
No 151
>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=94.47 E-value=0.14 Score=43.78 Aligned_cols=44 Identities=14% Similarity=0.306 Sum_probs=32.3
Q ss_pred HHHHHHHHHhcCC---CCcceeeeec--cccccCcCCCC--CCeEEEeCCCC
Q 032027 26 TERQAIVDAFNND---TSIFACLLST--RAGGQGLNLTG--ADTVVIHDMDF 70 (148)
Q Consensus 26 ~~r~~~~~~F~~~---~~~~vll~s~--~~~~~Glnl~~--a~~vi~~d~~~ 70 (148)
.++.+++++|... +... +|.++ ...++|+|+.+ +..||++.+|+
T Consensus 565 ~~~~~~l~~f~~~~~~~~ga-vL~av~gGk~sEGIDf~~~~~r~ViivGlPf 615 (705)
T TIGR00604 565 QETSDALERYKQAVSEGRGA-VLLSVAGGKVSEGIDFCDDLGRAVIMVGIPY 615 (705)
T ss_pred chHHHHHHHHHHHHhcCCce-EEEEecCCcccCccccCCCCCcEEEEEccCC
Confidence 5788999999642 1123 34444 56889999965 89999999887
No 152
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=94.13 E-value=0.19 Score=43.03 Aligned_cols=65 Identities=17% Similarity=0.243 Sum_probs=41.5
Q ss_pred HHHHHHHHHhc-CCeEEEEeCCCCHHHHHHHHHHhcCC---CCcceeeeeccccccCcCCCC--CCeEEEeCCCCC
Q 032027 2 LDILEWTLDVI-GVTYRRLDGSTQVTERQAIVDAFNND---TSIFACLLSTRAGGQGLNLTG--ADTVVIHDMDFN 71 (148)
Q Consensus 2 l~~l~~~L~~~-~~~~~~~~G~~~~~~r~~~~~~F~~~---~~~~vll~s~~~~~~Glnl~~--a~~vi~~d~~~~ 71 (148)
++.+...|... +.+ +...|.. .|.+.++.|.+. +...|++ .+.+..+|+|+++ +..||+.-+|+-
T Consensus 547 l~~v~~~l~~~~~~~-ll~Q~~~---~~~~ll~~f~~~~~~~~~~VL~-g~~sf~EGVD~pGd~l~~vII~kLPF~ 617 (697)
T PRK11747 547 MQKVADLLPRDLRLM-LLVQGDQ---PRQRLLEKHKKRVDEGEGSVLF-GLQSFAEGLDLPGDYLTQVIITKIPFA 617 (697)
T ss_pred HHHHHHHHHHhcCCc-EEEeCCc---hHHHHHHHHHHHhccCCCeEEE-EeccccccccCCCCceEEEEEEcCCCC
Confidence 34455566533 333 4556642 467788777642 2223455 4588999999975 788999998874
No 153
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=93.49 E-value=0.044 Score=47.21 Aligned_cols=80 Identities=20% Similarity=0.265 Sum_probs=55.8
Q ss_pred eEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeC-----------------CCC-CcchHH
Q 032027 15 TYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHD-----------------MDF-NPQIDR 76 (148)
Q Consensus 15 ~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d-----------------~~~-~~~~~~ 76 (148)
-+..+|+=.+.++..++.+.- +.+.+.++++|.++...|++++..+||=.. -.| +...-.
T Consensus 606 yvLPLYSLLs~~~Q~RVF~~~--p~g~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASad 683 (1172)
T KOG0926|consen 606 YVLPLYSLLSTEKQMRVFDEV--PKGERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASAD 683 (1172)
T ss_pred EEeehhhhcCHHHhhhhccCC--CCCceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccc
Confidence 355667777776665554332 335688899999999999999999987432 223 344456
Q ss_pred HHHHhhhhcCCCCcEEEEEEEeC
Q 032027 77 QAEDRCHRIGQTRPVTIYRLVTK 99 (148)
Q Consensus 77 Q~~gR~~R~Gq~~~v~v~~l~~~ 99 (148)
||.||++|+|- -|.||||..
T Consensus 684 QRAGRAGRtgp---GHcYRLYSS 703 (1172)
T KOG0926|consen 684 QRAGRAGRTGP---GHCYRLYSS 703 (1172)
T ss_pred hhccccCCCCC---Cceeehhhh
Confidence 88888888774 688999863
No 154
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.99 E-value=0.51 Score=40.19 Aligned_cols=80 Identities=23% Similarity=0.291 Sum_probs=52.8
Q ss_pred CeEEEEeCCCCHHHHHHHHHHhcC-CCCcceeeeeccccccCcCCCCCCeEEEeCCCC------C--------------c
Q 032027 14 VTYRRLDGSTQVTERQAIVDAFNN-DTSIFACLLSTRAGGQGLNLTGADTVVIHDMDF------N--------------P 72 (148)
Q Consensus 14 ~~~~~~~G~~~~~~r~~~~~~F~~-~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~------~--------------~ 72 (148)
+-++.+|...|.+...++ |.. +++++-+++.|..+...|++.+..+|| ||.+ | .
T Consensus 507 liv~PiYaNLPselQakI---FePtP~gaRKVVLATNIAETSlTIdgI~yVi--DpGf~K~nsynprtGmesL~v~piSK 581 (902)
T KOG0923|consen 507 LIVLPIYANLPSELQAKI---FEPTPPGARKVVLATNIAETSLTIDGIKYVI--DPGFVKQNSYNPRTGMESLLVTPISK 581 (902)
T ss_pred EEEeeccccCChHHHHhh---cCCCCCCceeEEEeecchhhceeecCeEEEe--cCccccccCcCCCcCceeEEEeeech
Confidence 457889999998777665 433 334555666678888888888877774 4433 2 2
Q ss_pred chHHHHHHhhhhcCCCCcEEEEEEEeCCC
Q 032027 73 QIDRQAEDRCHRIGQTRPVTIYRLVTKGT 101 (148)
Q Consensus 73 ~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t 101 (148)
+.-.||.||++|.| +-..|+|++.-+
T Consensus 582 AsA~QRaGRAGRtg---PGKCfRLYt~~a 607 (902)
T KOG0923|consen 582 ASANQRAGRAGRTG---PGKCFRLYTAWA 607 (902)
T ss_pred hhhhhhccccCCCC---CCceEEeechhh
Confidence 23346666666644 567899998443
No 155
>PF10593 Z1: Z1 domain; InterPro: IPR018310 This entry represents the Z1 domain of unknown function that is found in a group of putative endonucleases. This domain is found associated with a helicase domain of superfamily type II [].
Probab=91.79 E-value=2.1 Score=31.88 Aligned_cols=108 Identities=12% Similarity=0.091 Sum_probs=67.0
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCC--cceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHH
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTS--IFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAED 80 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~--~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~g 80 (148)
+.|...+.. ++.++.++++.+... -+|.+.+. ..++++-....++|++|.+-...++.-.+-+..++.|. |
T Consensus 101 ~~l~~~~~~-~~~v~~vNS~~~~~~-----ldy~~~~~~~~~~I~VGGn~LsRGlTleGL~vsYf~R~s~~~DTL~Qm-g 173 (239)
T PF10593_consen 101 PELPKAISD-GIEVVVVNSGSSDDS-----LDYDDGENLGLNVIAVGGNKLSRGLTLEGLTVSYFLRNSKQYDTLMQM-G 173 (239)
T ss_pred HHHHHHHhc-CceEEEEeCCCcccc-----ccccccccCCceEEEECCccccCceeECCcEEEEecCCCchHHHHHHH-h
Confidence 445555555 799999998766533 45554432 46788888999999999998887777666555566564 2
Q ss_pred hhhhcCCCCc-EEEEEEEeCCCHHHHHHHHHHHHHHHHHH
Q 032027 81 RCHRIGQTRP-VTIYRLVTKGTVDENVYEIAKRKLILDAA 119 (148)
Q Consensus 81 R~~R~Gq~~~-v~v~~l~~~~t~ee~i~~~~~~K~~~~~~ 119 (148)
| -+|=.+. ..+-+++++..+.+....+..--..+-++
T Consensus 174 R--wFGYR~gY~dl~Ri~~~~~l~~~f~~i~~~~e~lr~~ 211 (239)
T PF10593_consen 174 R--WFGYRPGYEDLCRIYMPEELYDWFRHIAEAEEELREE 211 (239)
T ss_pred h--cccCCcccccceEEecCHHHHHHHHHHHHHHHHHHHH
Confidence 2 2454433 44556666665555444444433333333
No 156
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=91.75 E-value=0.58 Score=41.36 Aligned_cols=80 Identities=20% Similarity=0.254 Sum_probs=55.2
Q ss_pred HhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCC---------CCCcchHHHHHH
Q 032027 10 DVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDM---------DFNPQIDRQAED 80 (148)
Q Consensus 10 ~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~---------~~~~~~~~Q~~g 80 (148)
..+|+. +-||+.=+--++-+=--|+.+- ++ +|.+|...+.|+|++. .+|+|-.+ ..+|..|.|-.|
T Consensus 629 l~RGia--VHH~GlLPivKE~VE~LFqrGl-VK-VLFATETFAMGVNMPA-RtvVF~Sl~KhDG~efR~L~PGEytQMAG 703 (1248)
T KOG0947|consen 629 LLRGIA--VHHGGLLPIVKEVVELLFQRGL-VK-VLFATETFAMGVNMPA-RTVVFSSLRKHDGNEFRELLPGEYTQMAG 703 (1248)
T ss_pred Hhhcch--hhcccchHHHHHHHHHHHhcCc-eE-EEeehhhhhhhcCCCc-eeEEeeehhhccCcceeecCChhHHhhhc
Confidence 445654 4688877766665555676544 55 4556699999999984 55555433 248999999999
Q ss_pred hhhhcCCCCcEEEE
Q 032027 81 RCHRIGQTRPVTIY 94 (148)
Q Consensus 81 R~~R~Gq~~~v~v~ 94 (148)
|++|-|=..+-+|.
T Consensus 704 RAGRRGlD~tGTVi 717 (1248)
T KOG0947|consen 704 RAGRRGLDETGTVI 717 (1248)
T ss_pred cccccccCcCceEE
Confidence 99999966554443
No 157
>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=90.96 E-value=1.7 Score=37.02 Aligned_cols=70 Identities=9% Similarity=0.014 Sum_probs=46.5
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCC---CCcceeeeeccccccCcCC--------C--CCCeEEEeCCC
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNND---TSIFACLLSTRAGGQGLNL--------T--GADTVVIHDMD 69 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~---~~~~vll~s~~~~~~Glnl--------~--~a~~vi~~d~~ 69 (148)
+.+.+.|...---.+.+.|..+ .+...+++|+.. +... +|+.+.+..+|+|+ + .++.||+.-+|
T Consensus 484 ~~~~~~l~~~l~~~~l~qg~~~--~~~~l~~~f~~~~~~~~~~-vL~gt~sfweGvDv~~~~~~p~~G~~Ls~ViI~kLP 560 (636)
T TIGR03117 484 SAIGQLVELGIPAEIVIQSEKN--RLASAEQQFLALYANGIQP-VLIAAGGAWTGIDLTHKPVSPDKDNLLTDLIITCAP 560 (636)
T ss_pred HHHHHHHHhhcCCCEEEeCCCc--cHHHHHHHHHHhhcCCCCc-EEEeCCccccccccCCccCCCCCCCcccEEEEEeCC
Confidence 3445555443223456677654 567789999874 2123 56666999999999 2 38889999999
Q ss_pred CCcchH
Q 032027 70 FNPQID 75 (148)
Q Consensus 70 ~~~~~~ 75 (148)
+-+..-
T Consensus 561 F~~~dp 566 (636)
T TIGR03117 561 FGLNRS 566 (636)
T ss_pred CCcCCh
Confidence 877544
No 158
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=90.91 E-value=0.4 Score=43.48 Aligned_cols=71 Identities=25% Similarity=0.288 Sum_probs=53.2
Q ss_pred CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEE-----eCCC---C---CcchHHHHHHh
Q 032027 13 GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVI-----HDMD---F---NPQIDRQAEDR 81 (148)
Q Consensus 13 ~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~-----~d~~---~---~~~~~~Q~~gR 81 (148)
...++.-|.+++..+|...=+-|.++. .+ ++++|...+-|+||+. ++||+ |+|. | +|-...|..||
T Consensus 607 pygfaIHhAGl~R~dR~~~EdLf~~g~-iq-vlvstatlawgvnlpa-htViikgtqvy~pekg~w~elsp~dv~qmlgr 683 (1674)
T KOG0951|consen 607 PYGFAIHHAGLNRKDRELVEDLFADGH-IQ-VLVSTATLAWGVNLPA-HTVIIKGTQVYDPEKGRWTELSPLDVMQMLGR 683 (1674)
T ss_pred hccceeeccCCCcchHHHHHHHHhcCc-ee-EEEeehhhhhhcCCCc-ceEEecCccccCcccCccccCCHHHHHHHHhh
Confidence 455778889999999998888886655 44 6678899999999995 45544 3332 3 45566799999
Q ss_pred hhhcC
Q 032027 82 CHRIG 86 (148)
Q Consensus 82 ~~R~G 86 (148)
++|.+
T Consensus 684 agrp~ 688 (1674)
T KOG0951|consen 684 AGRPQ 688 (1674)
T ss_pred cCCCc
Confidence 99976
No 159
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=90.90 E-value=0.69 Score=41.11 Aligned_cols=62 Identities=13% Similarity=0.146 Sum_probs=48.7
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeec---cccccCcCCCC-CCeEEEeCCC
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLST---RAGGQGLNLTG-ADTVVIHDMD 69 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~---~~~~~Glnl~~-a~~vi~~d~~ 69 (148)
.+-|.++|+.+|+++..++.. +.+.++.|..+. +.+++... .+.-+|+||+. ..++||+..|
T Consensus 351 aeel~e~Lr~~Gi~a~~~~a~-----~~~~le~F~~Ge-idvLVGvAsyYG~lVRGlDLP~rirYaIF~GvP 416 (1187)
T COG1110 351 AEELAEYLRSHGINAELIHAE-----KEEALEDFEEGE-VDVLVGVASYYGVLVRGLDLPHRIRYAVFYGVP 416 (1187)
T ss_pred HHHHHHHHHhcCceEEEeecc-----chhhhhhhccCc-eeEEEEecccccceeecCCchhheeEEEEecCC
Confidence 367889999999999998873 366899998766 55555432 24669999976 9999999998
No 160
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=90.13 E-value=0.75 Score=41.02 Aligned_cols=81 Identities=17% Similarity=0.228 Sum_probs=59.9
Q ss_pred hcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCC---------CCCcchHHHHHHh
Q 032027 11 VIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDM---------DFNPQIDRQAEDR 81 (148)
Q Consensus 11 ~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~---------~~~~~~~~Q~~gR 81 (148)
.+|+. .-|+++=+.-|...=.-|+.+- ++ ++..|.+.+.|+|++. .++++... +-+|..|.|-.||
T Consensus 444 ~RGia--vHH~GlLP~~K~~vE~Lfq~GL-vk-vvFaTeT~s~GiNmPa-rtvv~~~l~K~dG~~~r~L~~gEy~QmsGR 518 (1041)
T COG4581 444 LRGIA--VHHAGLLPAIKELVEELFQEGL-VK-VVFATETFAIGINMPA-RTVVFTSLSKFDGNGHRWLSPGEYTQMSGR 518 (1041)
T ss_pred hhhhh--hhccccchHHHHHHHHHHhccc-ee-EEeehhhhhhhcCCcc-cceeeeeeEEecCCceeecChhHHHHhhhh
Confidence 45665 5688888888888888887765 45 4556699999999984 55554432 3478899999999
Q ss_pred hhhcCCCCcEEEEEE
Q 032027 82 CHRIGQTRPVTIYRL 96 (148)
Q Consensus 82 ~~R~Gq~~~v~v~~l 96 (148)
++|-|+....+|...
T Consensus 519 AGRRGlD~~G~vI~~ 533 (1041)
T COG4581 519 AGRRGLDVLGTVIVI 533 (1041)
T ss_pred hccccccccceEEEe
Confidence 999999877555444
No 161
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=88.33 E-value=1.9 Score=36.89 Aligned_cols=62 Identities=19% Similarity=0.248 Sum_probs=45.1
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEE
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVI 65 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~ 65 (148)
+.+...+...|+++..++|+++..+|.+.+....++. +.++++++......+.+.....+|+
T Consensus 328 ~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~-~~IvVgT~~ll~~~v~~~~l~lvVI 389 (681)
T PRK10917 328 ENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGE-ADIVIGTHALIQDDVEFHNLGLVII 389 (681)
T ss_pred HHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCC-CCEEEchHHHhcccchhcccceEEE
Confidence 3455666777899999999999999999999887654 5667776655655555655555544
No 162
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=86.42 E-value=1.2 Score=39.36 Aligned_cols=85 Identities=20% Similarity=0.257 Sum_probs=56.6
Q ss_pred CeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEE--------EeCCC---------C-CcchH
Q 032027 14 VTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVV--------IHDMD---------F-NPQID 75 (148)
Q Consensus 14 ~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi--------~~d~~---------~-~~~~~ 75 (148)
+-...+|++++..+.+.+.... +++++-++++|..+..++++.++-+|| .||+. | +...-
T Consensus 445 ~~ilplHs~~~s~eQ~~VF~~p--p~g~RKIIlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna 522 (924)
T KOG0920|consen 445 FAILPLHSSIPSEEQQAVFKRP--PKGTRKIILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANA 522 (924)
T ss_pred eEEEeccccCChHHHHHhcCCC--CCCcchhhhhhhhHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccch
Confidence 4567889999987777665444 223455788889999999998876665 33433 2 23344
Q ss_pred HHHHHhhhhcCCCCcEEEEEEEeCCCHH
Q 032027 76 RQAEDRCHRIGQTRPVTIYRLVTKGTVD 103 (148)
Q Consensus 76 ~Q~~gR~~R~Gq~~~v~v~~l~~~~t~e 103 (148)
.||.||++| ..+-..|++++..-.+
T Consensus 523 ~QR~GRAGR---v~~G~cy~L~~~~~~~ 547 (924)
T KOG0920|consen 523 KQRRGRAGR---VRPGICYHLYTRSRYE 547 (924)
T ss_pred HHhcccccC---ccCCeeEEeechhhhh
Confidence 477666666 5667789998765433
No 163
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=86.13 E-value=7.3 Score=34.19 Aligned_cols=101 Identities=19% Similarity=0.274 Sum_probs=62.7
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCC-CC----------eEEEeCCCCC
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTG-AD----------TVVIHDMDFN 71 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~-a~----------~vi~~d~~~~ 71 (148)
+.++..|.+.|++..+++.... .++..+-.+.-.+ -.+-++|..+|+|-++.- .+ +||=.+..-+
T Consensus 443 E~ls~~L~~~~i~h~VLNAk~h--~~EA~Iia~AG~~--gaVTiATNMAGRGTDIkLg~~~~~V~~lGGL~VIgTERhES 518 (822)
T COG0653 443 ELLSKLLRKAGIPHNVLNAKNH--AREAEIIAQAGQP--GAVTIATNMAGRGTDIKLGGNPEFVMELGGLHVIGTERHES 518 (822)
T ss_pred hhHHHHHHhcCCCceeeccccH--HHHHHHHhhcCCC--CccccccccccCCcccccCCCHHHHHHhCCcEEEecccchh
Confidence 5678889999999988888766 4444444442222 225677899999999853 33 3444444434
Q ss_pred cchHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHH
Q 032027 72 PQIDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKR 112 (148)
Q Consensus 72 ~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~ 112 (148)
....-|--||++|.|-.-.. -+++ |+|..++.+...
T Consensus 519 RRIDnQLRGRsGRQGDpG~S-~F~l----SleD~L~r~F~~ 554 (822)
T COG0653 519 RRIDNQLRGRAGRQGDPGSS-RFYL----SLEDDLMRRFAS 554 (822)
T ss_pred hHHHHHhhcccccCCCcchh-hhhh----hhHHHHHHHhcc
Confidence 44444999999999844322 2222 566666655544
No 164
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=85.34 E-value=3.3 Score=35.18 Aligned_cols=61 Identities=16% Similarity=0.221 Sum_probs=42.4
Q ss_pred HHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEE
Q 032027 4 ILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVI 65 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~ 65 (148)
.+...+...|+++..++|+++..+|...++...++. +.+++.++......+.+.....+|+
T Consensus 303 ~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~-~~IiVgT~~ll~~~~~~~~l~lvVI 363 (630)
T TIGR00643 303 SLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQ-IHLVVGTHALIQEKVEFKRLALVII 363 (630)
T ss_pred HHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCC-CCEEEecHHHHhccccccccceEEE
Confidence 345556666899999999999999988888886554 4666666655555555555554443
No 165
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=84.66 E-value=6.5 Score=35.25 Aligned_cols=68 Identities=15% Similarity=0.099 Sum_probs=48.4
Q ss_pred HHHHHHHh-cCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCCC--CcEEEEEEE
Q 032027 28 RQAIVDAF-NNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQT--RPVTIYRLV 97 (148)
Q Consensus 28 r~~~~~~F-~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~--~~v~v~~l~ 97 (148)
+.....+| .......+|+++ +..-.|.|-+..++++ +|-|.-.-...||+.|+.|+--. ....|..+.
T Consensus 580 ~~~~~~r~~~~~d~~kilIV~-dmlLTGFDaP~L~TmY-vDK~Lk~H~L~QAisRtNR~~~~~K~~G~IVDf~ 650 (962)
T COG0610 580 KKDLIKRFKLKDDPLDLLIVV-DMLLTGFDAPCLNTLY-VDKPLKYHNLIQAISRTNRVFPGKKKFGLIVDFR 650 (962)
T ss_pred HhhhhhhhcCcCCCCCEEEEE-ccccccCCccccceEE-eccccccchHHHHHHHhccCCCCCCCCcEEEECc
Confidence 34445554 445556767776 7777999988777765 57778888999999999996543 446666665
No 166
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=83.99 E-value=7.5 Score=34.52 Aligned_cols=52 Identities=19% Similarity=0.338 Sum_probs=35.7
Q ss_pred HHHHHHHHhcCCeEEEEeCCC-CHHHHHHHHHHhcCCCCcceeeeeccccccCcCC
Q 032027 3 DILEWTLDVIGVTYRRLDGST-QVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNL 57 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~-~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl 57 (148)
+.|+..|...|+++-+++... ..++=..++..-...+. +.++|..+|+|-|+
T Consensus 453 E~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIa~AG~~Ga---VTIATNMAGRGTDI 505 (939)
T PRK12902 453 ELLSALLQEQGIPHNLLNAKPENVEREAEIVAQAGRKGA---VTIATNMAGRGTDI 505 (939)
T ss_pred HHHHHHHHHcCCchheeeCCCcchHhHHHHHHhcCCCCc---EEEeccCCCCCcCE
Confidence 678899999999999999873 32333335544333332 56677999999775
No 167
>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=82.34 E-value=7 Score=34.25 Aligned_cols=84 Identities=13% Similarity=0.154 Sum_probs=50.2
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCC--CCeEEEeCCC--CCcc--hH
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTG--ADTVVIHDMD--FNPQ--ID 75 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~--a~~vi~~d~~--~~~~--~~ 75 (148)
.++++++....+.++..++|..+.. -++.|. .++ +++-|.+...|+++.. -+.|+.|=.| ..|. ..
T Consensus 295 ~~~v~~~~~~~~~~Vl~l~s~~~~~----dv~~W~---~~~-VviYT~~itvG~Sf~~~HF~~~f~yvk~~~~gpd~~s~ 366 (824)
T PF02399_consen 295 AEIVARFCARFTKKVLVLNSTDKLE----DVESWK---KYD-VVIYTPVITVGLSFEEKHFDSMFAYVKPMSYGPDMVSV 366 (824)
T ss_pred HHHHHHHHHhcCCeEEEEcCCCCcc----cccccc---cee-EEEEeceEEEEeccchhhceEEEEEecCCCCCCcHHHH
Confidence 4566666666666676666655544 223342 234 4555577788888843 4555555223 2233 35
Q ss_pred HHHHHhhhhcCCCCcEEEE
Q 032027 76 RQAEDRCHRIGQTRPVTIY 94 (148)
Q Consensus 76 ~Q~~gR~~R~Gq~~~v~v~ 94 (148)
.|.+||+..+...+ +.||
T Consensus 367 ~Q~lgRvR~l~~~e-i~v~ 384 (824)
T PF02399_consen 367 YQMLGRVRSLLDNE-IYVY 384 (824)
T ss_pred HHHHHHHHhhccCe-EEEE
Confidence 79999999988654 4444
No 168
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=79.00 E-value=8.8 Score=32.87 Aligned_cols=62 Identities=18% Similarity=0.223 Sum_probs=46.7
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEE
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVI 65 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~ 65 (148)
+-+...|...|+.+..++|+++.++|.+++++-.++. ..+++.+-.-....+++++.-.||.
T Consensus 329 ~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~-~~ivVGTHALiQd~V~F~~LgLVIi 390 (677)
T COG1200 329 ESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGE-IDIVVGTHALIQDKVEFHNLGLVII 390 (677)
T ss_pred HHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCC-CCEEEEcchhhhcceeecceeEEEE
Confidence 4466788888999999999999999999999997765 5656666555666666665554444
No 169
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=77.31 E-value=8 Score=34.96 Aligned_cols=74 Identities=14% Similarity=0.082 Sum_probs=47.6
Q ss_pred CCeEEEEeCCCCHHHHHH---HHH------------------HhcCC---CCcceeeeeccccccCcCCCCCCeEEEeCC
Q 032027 13 GVTYRRLDGSTQVTERQA---IVD------------------AFNND---TSIFACLLSTRAGGQGLNLTGADTVVIHDM 68 (148)
Q Consensus 13 ~~~~~~~~G~~~~~~r~~---~~~------------------~F~~~---~~~~vll~s~~~~~~Glnl~~a~~vi~~d~ 68 (148)
.+.++.||+..+...|.. -++ ++-.. .+..+++++|.+...|+|+. .+.+| .++
T Consensus 786 ~i~~~~yHSr~~l~~Rs~~E~~Ld~~L~R~~~~~~~~~~~i~~~l~~~~~~~~~~i~v~Tqv~E~g~D~d-fd~~~-~~~ 863 (1110)
T TIGR02562 786 QIHLCCYHAQDPLLLRSYIERRLDQLLTRHKPEQLFQDDEIIDLMQNSPALNHLFIVLATPVEEVGRDHD-YDWAI-ADP 863 (1110)
T ss_pred ceeEEEecccChHHHHHHHHHHHHHHhcccChhhhhchHHHHHHHhcccccCCCeEEEEeeeEEEEeccc-CCeee-ecc
Confidence 356888999886555433 111 11111 13456888999999999975 33333 233
Q ss_pred CCCcchHHHHHHhhhhcCCCC
Q 032027 69 DFNPQIDRQAEDRCHRIGQTR 89 (148)
Q Consensus 69 ~~~~~~~~Q~~gR~~R~Gq~~ 89 (148)
. ......|+.||+.|-|+..
T Consensus 864 ~-~~~sliQ~aGR~~R~~~~~ 883 (1110)
T TIGR02562 864 S-SMRSIIQLAGRVNRHRLEK 883 (1110)
T ss_pred C-cHHHHHHHhhcccccccCC
Confidence 2 4556789999999999764
No 170
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=76.31 E-value=3.6 Score=34.13 Aligned_cols=61 Identities=30% Similarity=0.463 Sum_probs=44.6
Q ss_pred ceeeeeccccccCcCCCCCCeEEEeCCCC-----------------CcchHHHHHHhhhhcCCCCcEEEEEEEeCCCHHH
Q 032027 42 FACLLSTRAGGQGLNLTGADTVVIHDMDF-----------------NPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTVDE 104 (148)
Q Consensus 42 ~vll~s~~~~~~Glnl~~a~~vi~~d~~~-----------------~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee 104 (148)
+-+++|+..+...+.+...-+|| |+.+ +|..-.||..|.+|.|.+++-..++||++..++.
T Consensus 314 RkvVvstniaetsltidgiv~VI--DpGf~kqkVYNPRIRvesllv~PISkasA~qR~gragrt~pGkcfrLYte~~~~~ 391 (699)
T KOG0925|consen 314 RKVVVSTNIAETSLTIDGIVFVI--DPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFEK 391 (699)
T ss_pred ceEEEEecchheeeeeccEEEEe--cCchhhhcccCcceeeeeeeeccchHhHHHHHhhhccCCCCCceEEeecHHhhhh
Confidence 44777888888887777655554 4432 3344568999999999999999999998765543
No 171
>PF08469 NPHI_C: Nucleoside triphosphatase I C-terminal; InterPro: IPR013676 This viral domain is found to the C terminus of Poxvirus nucleoside triphosphatase phosphohydrolase I (NPH I) [] together with the helicase conserved C-terminal domain (IPR001650 from INTERPRO). ; GO: 0005524 ATP binding, 0017111 nucleoside-triphosphatase activity, 0006351 transcription, DNA-dependent
Probab=73.61 E-value=13 Score=25.50 Aligned_cols=34 Identities=24% Similarity=0.325 Sum_probs=27.3
Q ss_pred CcEEEEEEEe-----CCCHHHHHHHHHHHHHHHHHHHHh
Q 032027 89 RPVTIYRLVT-----KGTVDENVYEIAKRKLILDAAVLE 122 (148)
Q Consensus 89 ~~v~v~~l~~-----~~t~ee~i~~~~~~K~~~~~~~~~ 122 (148)
+-|.||.+++ ..|+|+.++++.+.|..-+..+..
T Consensus 9 RYVNVhFIiAr~~ng~~sVDedlldiIk~Kskef~qLf~ 47 (148)
T PF08469_consen 9 RYVNVHFIIARLSNGRPSVDEDLLDIIKDKSKEFNQLFK 47 (148)
T ss_pred eEEEEEEEEEEcCCCCcchHHHHHHHHHHHHHHHHHHHH
Confidence 3489998887 347999999999999987766654
No 172
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=72.71 E-value=3.1 Score=36.20 Aligned_cols=83 Identities=18% Similarity=0.156 Sum_probs=54.6
Q ss_pred HhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeC-CCC--------CcchHHHHHH
Q 032027 10 DVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHD-MDF--------NPQIDRQAED 80 (148)
Q Consensus 10 ~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d-~~~--------~~~~~~Q~~g 80 (148)
..+||.+ -|++.-+--++-+=--|+.+- +++|+ .|...+-|||++. .+|+|.. --| +...|+|-.|
T Consensus 445 L~RGIGI--HHsGLLPIlKE~IEILFqEGL-vKvLF-ATETFsiGLNMPA-kTVvFT~~rKfDG~~fRwissGEYIQMSG 519 (1041)
T KOG0948|consen 445 LRRGIGI--HHSGLLPILKEVIEILFQEGL-VKVLF-ATETFSIGLNMPA-KTVVFTAVRKFDGKKFRWISSGEYIQMSG 519 (1041)
T ss_pred HHhcccc--ccccchHHHHHHHHHHHhccH-HHHHH-hhhhhhhccCCcc-eeEEEeeccccCCcceeeecccceEEecc
Confidence 4566653 577776655665555676654 55555 4599999999985 5555533 222 5678899999
Q ss_pred hhhhcCCCCcEEEEEEE
Q 032027 81 RCHRIGQTRPVTIYRLV 97 (148)
Q Consensus 81 R~~R~Gq~~~v~v~~l~ 97 (148)
|++|-|-...-.+.-.+
T Consensus 520 RAGRRG~DdrGivIlmi 536 (1041)
T KOG0948|consen 520 RAGRRGIDDRGIVILMI 536 (1041)
T ss_pred cccccCCCCCceEEEEe
Confidence 99999976554444333
No 173
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.57 E-value=16 Score=30.77 Aligned_cols=79 Identities=11% Similarity=0.118 Sum_probs=58.4
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccc-cccCcCCCCCCeEEEeCCCCCcchHHHHHHhhh
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRA-GGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCH 83 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~-~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~ 83 (148)
+..++++..+.|+.++--.+.++-.++.+-|..+. ..++|.+-++ .=.-..+.+...||+|.||-+|.-|.--+.=..
T Consensus 568 vRNy~K~e~i~F~~i~EYssk~~vsRAR~lF~qgr-~~vlLyTER~hffrR~~ikGVk~vVfYqpP~~P~FYsEiinm~~ 646 (698)
T KOG2340|consen 568 VRNYMKKEEISFVMINEYSSKSKVSRARELFFQGR-KSVLLYTERAHFFRRYHIKGVKNVVFYQPPNNPHFYSEIINMSD 646 (698)
T ss_pred HHHHhhhhhcchHHHhhhhhHhhhhHHHHHHHhcC-ceEEEEehhhhhhhhheecceeeEEEecCCCCcHHHHHHHhhhh
Confidence 56778888899998888888888888888898776 4667766443 223456778999999999999987765444333
Q ss_pred h
Q 032027 84 R 84 (148)
Q Consensus 84 R 84 (148)
|
T Consensus 647 k 647 (698)
T KOG2340|consen 647 K 647 (698)
T ss_pred h
Confidence 3
No 174
>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=63.52 E-value=24 Score=31.65 Aligned_cols=60 Identities=12% Similarity=0.128 Sum_probs=43.3
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEE
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVI 65 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~ 65 (148)
+...+...++++..++|..+..++.+.++...++. +.+++.++......+.+.....+|+
T Consensus 520 f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~-~dIVIGTp~ll~~~v~f~~L~llVI 579 (926)
T TIGR00580 520 FKERFANFPVTIELLSRFRSAKEQNEILKELASGK-IDILIGTHKLLQKDVKFKDLGLLII 579 (926)
T ss_pred HHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCC-ceEEEchHHHhhCCCCcccCCEEEe
Confidence 34445555788889999999989988888887653 5667777766666666666666555
No 175
>PF12367 PFO_beta_C: Pyruvate ferredoxin oxidoreductase beta subunit C terminal
Probab=62.59 E-value=30 Score=20.46 Aligned_cols=48 Identities=23% Similarity=0.371 Sum_probs=36.1
Q ss_pred CeEEEeCCCCCcchHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHH
Q 032027 61 DTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEI 109 (148)
Q Consensus 61 ~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~ 109 (148)
.++..++-.++|....||+..+.. |.+=++=|++-....|+|+++-..
T Consensus 15 ~rvy~l~e~~Dp~d~~~A~~~a~e-~d~iplGIfY~~~~ptfee~~~~~ 62 (67)
T PF12367_consen 15 ERVYKLDEDHDPSDREAAMEKARE-GDKIPLGIFYRNERPTFEERLPEL 62 (67)
T ss_pred HheEECCCCCCchhHHHHHHHHHh-cCCceEEEEEeCCCCCHHHHhhhh
Confidence 345666778999999999988887 655566666666678999887654
No 176
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=61.11 E-value=32 Score=31.10 Aligned_cols=71 Identities=8% Similarity=-0.029 Sum_probs=54.0
Q ss_pred cceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcC-----CC---CcEEEEEEEeCCCHHHHHHHHHHH
Q 032027 41 IFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIG-----QT---RPVTIYRLVTKGTVDENVYEIAKR 112 (148)
Q Consensus 41 ~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~G-----q~---~~v~v~~l~~~~t~ee~i~~~~~~ 112 (148)
+.-++.|-.+..+|.+-+++-.+.-+...-+.....|-+||.-|+- .. +++ .-.+++..|.+...-.++..
T Consensus 501 ~~~fifs~~al~egwd~~~~~~~~~l~~~~s~~~~~q~~gr~lr~~vnq~G~R~~~~~~-~LTvianesy~dFa~~LQ~E 579 (986)
T PRK15483 501 TRRFLFSKWTLREGWDNPNVFQIAKLRSSGSETSKLQEVGRGLRLPVDENGHRVSQEEF-RLNYLIDYDEKDFASKLVGE 579 (986)
T ss_pred CeEEEEEhHHhhhcCCCCCeEEEEEeccCCchHHHHHHhccceeccccccCccccCccE-EEEEEeCccHHHHHHHHHHH
Confidence 3447888899999999999988888888888888899999999953 22 236 56667777777666555544
No 177
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=59.70 E-value=24 Score=23.05 Aligned_cols=37 Identities=19% Similarity=0.231 Sum_probs=31.6
Q ss_pred hcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeee
Q 032027 11 VIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLS 47 (148)
Q Consensus 11 ~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s 47 (148)
.+..++..+...++.++-+.+.+.|...+..-++|++
T Consensus 33 ~r~~Nf~vv~~~Tt~~eiedaF~~f~~RdDIaIiLIn 69 (121)
T KOG3432|consen 33 NREPNFLVVDSKTTVEEIEDAFKSFTARDDIAIILIN 69 (121)
T ss_pred CCCCCEEEEeccCCHHHHHHHHHhhccccCeEEEEEh
Confidence 3567799999999999999999999987777777776
No 178
>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-dehydro-4-deoxyglucarate dehydratase not only catalyzes the dehydration of the substrate (diol to ketone + water), but causes the decarboxylation of the intermediate product to yield 2-oxoglutarate semialdehyde (2,5-dioxopentanoate). The gene for the enzyme is usually observed in the vicinity of transporters and dehydratases handling D-galactarate and D-gluconate as well as aldehyde dehydrogenases which convert the product to alpha-ketoglutarate.
Probab=58.92 E-value=78 Score=24.09 Aligned_cols=107 Identities=10% Similarity=0.021 Sum_probs=58.3
Q ss_pred HHHHHHHHhcCCeEEEEeCC------CCHHHHHHHHHHhcC--CCCcceeeeeccccccCcCC------CCCCeEEEeCC
Q 032027 3 DILEWTLDVIGVTYRRLDGS------TQVTERQAIVDAFNN--DTSIFACLLSTRAGGQGLNL------TGADTVVIHDM 68 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~------~~~~~r~~~~~~F~~--~~~~~vll~s~~~~~~Glnl------~~a~~vi~~d~ 68 (148)
..+-++|...|++.+.+.|+ ++.++|.++++...+ .+...|+.....+..+-+.+ ..++.+..+.|
T Consensus 29 ~~li~~l~~~Gv~gi~v~GstGE~~~Lt~eEr~~v~~~~~~~~~g~~pvi~gv~~~t~~ai~~a~~a~~~Gadav~~~pP 108 (296)
T TIGR03249 29 RENIEWLLGYGLEALFAAGGTGEFFSLTPAEYEQVVEIAVSTAKGKVPVYTGVGGNTSDAIEIARLAEKAGADGYLLLPP 108 (296)
T ss_pred HHHHHHHHhcCCCEEEECCCCcCcccCCHHHHHHHHHHHHHHhCCCCcEEEecCccHHHHHHHHHHHHHhCCCEEEECCC
Confidence 44566777789998888887 588999999887754 23344333221100011111 24677777777
Q ss_pred CCCcchHHHHHHhhhhcC--CCCcEEEEEEEeCCCHHHHHHHHH
Q 032027 69 DFNPQIDRQAEDRCHRIG--QTRPVTIYRLVTKGTVDENVYEIA 110 (148)
Q Consensus 69 ~~~~~~~~Q~~gR~~R~G--q~~~v~v~~l~~~~t~ee~i~~~~ 110 (148)
.|.+...+....-...+- ..-+|.+|+ .+..++....+..+
T Consensus 109 ~y~~~s~~~i~~~f~~v~~a~~~pvilYn-~~g~~l~~~~~~~L 151 (296)
T TIGR03249 109 YLINGEQEGLYAHVEAVCESTDLGVIVYQ-RDNAVLNADTLERL 151 (296)
T ss_pred CCCCCCHHHHHHHHHHHHhccCCCEEEEe-CCCCCCCHHHHHHH
Confidence 776554433322222222 235788888 22224444444433
No 179
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=58.33 E-value=55 Score=22.13 Aligned_cols=71 Identities=14% Similarity=0.103 Sum_probs=41.2
Q ss_pred HHHHHHhcCCe--EEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhh
Q 032027 5 LEWTLDVIGVT--YRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRC 82 (148)
Q Consensus 5 l~~~L~~~~~~--~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~ 82 (148)
+-..+..+|+. ++.-.|....-.-...++.|.+++..+++++.. +..-+|..+..+..|+
T Consensus 17 ~~~~~~~~g~g~s~~vs~Gn~~dv~~~d~l~~~~~D~~t~~I~ly~------------------E~~~d~~~f~~~~~~a 78 (138)
T PF13607_consen 17 ILDWAQDRGIGFSYVVSVGNEADVDFADLLEYLAEDPDTRVIVLYL------------------EGIGDGRRFLEAARRA 78 (138)
T ss_dssp HHHHHHHTT-EESEEEE-TT-SSS-HHHHHHHHCT-SS--EEEEEE------------------S--S-HHHHHHHHHHH
T ss_pred HHHHHHHcCCCeeEEEEeCccccCCHHHHHHHHhcCCCCCEEEEEc------------------cCCCCHHHHHHHHHHH
Confidence 44555666554 566667766666778999999999888777663 3334677777777777
Q ss_pred hhcCCCCcEEEEEE
Q 032027 83 HRIGQTRPVTIYRL 96 (148)
Q Consensus 83 ~R~Gq~~~v~v~~l 96 (148)
.| +|||.++.-
T Consensus 79 ~~---~KPVv~lk~ 89 (138)
T PF13607_consen 79 AR---RKPVVVLKA 89 (138)
T ss_dssp CC---CS-EEEEE-
T ss_pred hc---CCCEEEEeC
Confidence 66 388877654
No 180
>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=58.08 E-value=34 Score=19.66 Aligned_cols=47 Identities=15% Similarity=0.198 Sum_probs=32.8
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeecc
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTR 49 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~ 49 (148)
..+...|+..++++..++=...++.+++..+.......++++++...
T Consensus 14 ~~ak~~L~~~~i~~~~i~i~~~~~~~~~~~~~~~~~~~vP~v~i~g~ 60 (75)
T cd03418 14 VRAKALLDKKGVDYEEIDVDGDPALREEMINRSGGRRTVPQIFIGDV 60 (75)
T ss_pred HHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCCCCccCEEEECCE
Confidence 45678899999999998888776667666665544325566666533
No 181
>PF01591 6PF2K: 6-phosphofructo-2-kinase; InterPro: IPR013079 6-Phosphofructo-2-kinase (2.7.1.105 from EC, 3.1.3.46 from EC) is a bifunctional enzyme that catalyses both the synthesis and the degradation of fructose-2, 6-bisphosphate. The fructose-2,6-bisphosphatase reaction involves a phosphohistidine intermediate. The catalytic pathway is: ATP + D-fructose 6-phosphate = ADP + D-fructose 2,6-bisphosphate D-fructose 2,6-bisphosphate + H2O = 6-fructose 6-phosphate + Pi The enzyme is important in the regulation of hepatic carbohydrate metabolism and is found in greatest quantities in the liver, kidney and heart. In mammals, several genes often encode different isoforms, each of which differs in its tissue distribution and enzymatic activity []. The family described here bears a resemblance to the ATP-driven phospho-fructokinases, however, they share little sequence similarity, although a few residues seem key to their interaction with fructose 6-phosphate []. This domain forms the N-terminal region of this enzyme, while IPR013078 from INTERPRO forms the C-terminal domain.; GO: 0003873 6-phosphofructo-2-kinase activity, 0005524 ATP binding, 0006000 fructose metabolic process; PDB: 2DWO_A 3QPW_A 3QPV_A 3QPU_A 2I1V_B 2DWP_A 2AXN_A 1K6M_B 3BIF_A 2BIF_A ....
Probab=54.05 E-value=20 Score=26.39 Aligned_cols=45 Identities=20% Similarity=0.248 Sum_probs=25.7
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCH-HHHHHHHHHhcCCCCcceeeee
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQV-TERQAIVDAFNNDTSIFACLLS 47 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~-~~r~~~~~~F~~~~~~~vll~s 47 (148)
|+-+.++|...+-.++.+++.-+. +.|..+++.|... +++++++-
T Consensus 84 l~dl~~~l~~~~G~VAI~DATN~T~~RR~~l~~~~~~~-~~~vlFIE 129 (222)
T PF01591_consen 84 LEDLIEWLQEEGGQVAIFDATNSTRERRKMLVERFKEH-GIKVLFIE 129 (222)
T ss_dssp HHHHHHHHHTS--SEEEEES---SHHHHHHHHHHHHHT-T-EEEEEE
T ss_pred HHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHc-CCcEEEEE
Confidence 344566777778899999998655 5555566666543 36667665
No 182
>PRK10689 transcription-repair coupling factor; Provisional
Probab=53.75 E-value=45 Score=30.77 Aligned_cols=58 Identities=9% Similarity=0.017 Sum_probs=39.1
Q ss_pred HHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEE
Q 032027 7 WTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVI 65 (148)
Q Consensus 7 ~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~ 65 (148)
..+...++++..++|..+.+++.+.+....++. +.+++.++......+.+.....+|+
T Consensus 671 ~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~-~dIVVgTp~lL~~~v~~~~L~lLVI 728 (1147)
T PRK10689 671 DRFANWPVRIEMLSRFRSAKEQTQILAEAAEGK-IDILIGTHKLLQSDVKWKDLGLLIV 728 (1147)
T ss_pred HhhccCCceEEEEECCCCHHHHHHHHHHHHhCC-CCEEEECHHHHhCCCCHhhCCEEEE
Confidence 334444677888999999999988888876543 5677777765554555555555443
No 183
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=53.30 E-value=33 Score=29.82 Aligned_cols=42 Identities=14% Similarity=0.381 Sum_probs=27.0
Q ss_pred HHHHHHHhcC----CCCcceeeee--ccccccCcCCCC--CCeEEEeCCCCC
Q 032027 28 RQAIVDAFNN----DTSIFACLLS--TRAGGQGLNLTG--ADTVVIHDMDFN 71 (148)
Q Consensus 28 r~~~~~~F~~----~~~~~vll~s--~~~~~~Glnl~~--a~~vi~~d~~~~ 71 (148)
-+.+++.|.. +.+. +|.+ ..-.++|+|+.+ |..|+....|+-
T Consensus 672 ~~dvl~~Ya~a~~~g~Ga--iLlaVVGGKlSEGINF~D~LgRaVvvVGlPyP 721 (821)
T KOG1133|consen 672 VEDVLEGYAEAAERGRGA--ILLAVVGGKLSEGINFSDDLGRAVVVVGLPYP 721 (821)
T ss_pred HHHHHHHHHHHhhcCCCe--EEEEEeccccccccccccccccEEEEeecCCC
Confidence 3456666653 2222 3333 233669999976 999999999984
No 184
>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases. The enzyme is involved in glucarate metabolism, and its mechanism presumbly involves a Schiff-base intermediate similar to members of DHDPS family. While in the case of Pseudomonas sp. 5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to 2,5-dioxopentanoate, in certain species of Enterobacteriaceae it is degraded instead to pyruvate and glycerate.
Probab=46.57 E-value=1.3e+02 Score=22.86 Aligned_cols=107 Identities=10% Similarity=0.025 Sum_probs=58.4
Q ss_pred HHHHHHHHhcCCeEEEEeCC------CCHHHHHHHHHHhcC--CCCcceeeeeccccccCcCC------CCCCeEEEeCC
Q 032027 3 DILEWTLDVIGVTYRRLDGS------TQVTERQAIVDAFNN--DTSIFACLLSTRAGGQGLNL------TGADTVVIHDM 68 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~------~~~~~r~~~~~~F~~--~~~~~vll~s~~~~~~Glnl------~~a~~vi~~d~ 68 (148)
..+-++|...|+.-+.+.|+ ++.++|.+.++...+ .+...|+......-..-+.+ ..++.+...-|
T Consensus 24 ~~l~~~l~~~Gv~gi~v~GstGE~~~Ls~eEr~~l~~~~~~~~~~~~pvi~gv~~~t~~~i~~a~~a~~~Gad~v~~~pP 103 (289)
T cd00951 24 RAHVEWLLSYGAAALFAAGGTGEFFSLTPDEYAQVVRAAVEETAGRVPVLAGAGYGTATAIAYAQAAEKAGADGILLLPP 103 (289)
T ss_pred HHHHHHHHHcCCCEEEECcCCcCcccCCHHHHHHHHHHHHHHhCCCCCEEEecCCCHHHHHHHHHHHHHhCCCEEEECCC
Confidence 34556677789998888887 588999998876543 23344443221111111111 14677777777
Q ss_pred CCCcchHH---HHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 032027 69 DFNPQIDR---QAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAK 111 (148)
Q Consensus 69 ~~~~~~~~---Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~ 111 (148)
.|.+.... +....+... -.-++.+|+. +..++.-..+..+.
T Consensus 104 ~y~~~~~~~i~~~f~~v~~~-~~~pi~lYn~-~g~~l~~~~l~~L~ 147 (289)
T cd00951 104 YLTEAPQEGLYAHVEAVCKS-TDLGVIVYNR-ANAVLTADSLARLA 147 (289)
T ss_pred CCCCCCHHHHHHHHHHHHhc-CCCCEEEEeC-CCCCCCHHHHHHHH
Confidence 77554333 222233221 2357888883 33344444444443
No 185
>PF12622 NpwBP: mRNA biogenesis factor
Probab=45.60 E-value=12 Score=20.70 Aligned_cols=11 Identities=27% Similarity=0.486 Sum_probs=9.2
Q ss_pred EEEeCCCCCcc
Q 032027 63 VVIHDMDFNPQ 73 (148)
Q Consensus 63 vi~~d~~~~~~ 73 (148)
=|+|++.|||.
T Consensus 4 SiyydP~~NP~ 14 (48)
T PF12622_consen 4 SIYYDPELNPL 14 (48)
T ss_pred ceecCCccCCC
Confidence 48899999985
No 186
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=45.22 E-value=78 Score=20.05 Aligned_cols=34 Identities=24% Similarity=0.069 Sum_probs=26.6
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAF 35 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F 35 (148)
+..|..+|+..|+.+..++...+.++-.+.+.++
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~~~~l~~~~~~~ 50 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVPPEELVEALRAE 50 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB-HHHHHHHHHHT
T ss_pred HHHHHHHHHHCCCeEEEECCCCCHHHHHHHHhcC
Confidence 4578899999999999888888876666666666
No 187
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=45.19 E-value=32 Score=29.25 Aligned_cols=44 Identities=16% Similarity=0.225 Sum_probs=36.7
Q ss_pred HHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeecccc
Q 032027 7 WTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAG 51 (148)
Q Consensus 7 ~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~ 51 (148)
+.|+.+|+....++++.+.++|..++.....+. .++|.++|.-.
T Consensus 75 ~~l~~~Gi~A~~lnS~l~~~e~~~v~~~l~~g~-~klLyisPErl 118 (590)
T COG0514 75 DQLEAAGIRAAYLNSTLSREERQQVLNQLKSGQ-LKLLYISPERL 118 (590)
T ss_pred HHHHHcCceeehhhcccCHHHHHHHHHHHhcCc-eeEEEECchhh
Confidence 457888999999999999999999999997654 67777777653
No 188
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=44.42 E-value=57 Score=29.81 Aligned_cols=49 Identities=6% Similarity=0.064 Sum_probs=32.8
Q ss_pred HHHHHHHHhcC-CeEEE-EeCCCCHHHHHHHHHHhcCCCCcceeeeeccccc
Q 032027 3 DILEWTLDVIG-VTYRR-LDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGG 52 (148)
Q Consensus 3 ~~l~~~L~~~~-~~~~~-~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~ 52 (148)
+.|+.+-...+ ..... |||.++.++++.++++|.+++ ..+++.++.-..
T Consensus 143 ~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gd-fdIlitTs~FL~ 193 (1187)
T COG1110 143 ERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGD-FDILITTSQFLS 193 (1187)
T ss_pred HHHHHHHhhcCCcceeeeeccccchHHHHHHHHHHhcCC-ccEEEEeHHHHH
Confidence 34455555554 33222 899999999999999998766 566666554443
No 189
>PRK09401 reverse gyrase; Reviewed
Probab=43.90 E-value=24 Score=32.52 Aligned_cols=42 Identities=31% Similarity=0.359 Sum_probs=29.0
Q ss_pred CcchHHHHHHhhhhcCC---CCcEEEEEEEeCCCHHHHHHHHHHHHHHHH
Q 032027 71 NPQIDRQAEDRCHRIGQ---TRPVTIYRLVTKGTVDENVYEIAKRKLILD 117 (148)
Q Consensus 71 ~~~~~~Q~~gR~~R~Gq---~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~ 117 (148)
+...|.||.||+-|+-. ++-..| -++. |+++++.+.+|..+.
T Consensus 518 d~~tYiqasGRtSrl~~gg~t~glsv-~l~d----d~~~~~~l~~~~~~~ 562 (1176)
T PRK09401 518 DVTTYIQASGRTSRLYAGGLTKGLSV-LLVD----DEKLFESLKKKLRWL 562 (1176)
T ss_pred CcchheecccchhcccCCCccceeEE-EEec----CHHHHHHHHHHHHHh
Confidence 57789999999999533 344333 1222 678888888888754
No 190
>COG1920 Predicted nucleotidyltransferase, CobY/MobA/RfbA family [General function prediction only]
Probab=42.63 E-value=1.3e+02 Score=21.91 Aligned_cols=83 Identities=12% Similarity=0.053 Sum_probs=53.5
Q ss_pred HHHHHHHhcCCe--EEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 4 ILEWTLDVIGVT--YRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 4 ~l~~~L~~~~~~--~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
.+.+++..--.+ +..+-+..+.-+.+.+-+-|...+...++++...- -|-|.-.+.. --+.+.+-+..+.+.+.+
T Consensus 75 Ai~aa~~~~~~p~~v~vvmaDLPLl~~~~i~~~~~~~~d~dvviaP~~g--GGTn~L~~r~-~~~~~~y~g~SF~~Hl~~ 151 (210)
T COG1920 75 AINAALDEIPLPSEVIVVMADLPLLSPEHIERALSAAKDADVVIAPGRG--GGTNVLFARK-SAFRPRYGGVSFLRHLEE 151 (210)
T ss_pred HHHHHHhhCCCCcceEEEecccccCCHHHHHHHHHhcCCCcEEEecCCC--CceEEEEEec-ccccccccCccHHHHHHH
Confidence 345555555444 78888888766666555555555544555554332 3555443333 446677888899999999
Q ss_pred hhhcCCCC
Q 032027 82 CHRIGQTR 89 (148)
Q Consensus 82 ~~R~Gq~~ 89 (148)
+-|.|+.-
T Consensus 152 Ark~G~~~ 159 (210)
T COG1920 152 ARKRGLVV 159 (210)
T ss_pred HHHcCCEE
Confidence 99999873
No 191
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=42.43 E-value=4.5 Score=35.02 Aligned_cols=40 Identities=13% Similarity=0.035 Sum_probs=34.3
Q ss_pred eccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCCC
Q 032027 47 STRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQT 88 (148)
Q Consensus 47 s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~ 88 (148)
....+.++.++..++..+.++++|+| .+|++++.+++++.
T Consensus 485 kn~~s~~~~~l~~~~~~~~~~LtgTP--len~l~eL~sl~~~ 524 (866)
T COG0553 485 KNDQSSEGKALQFLKALNRLDLTGTP--LENRLGELWSLLQE 524 (866)
T ss_pred hhhhhHHHHHHHHHhhcceeeCCCCh--HhhhHHHHHHHHHH
Confidence 34556778888888888999999999 69999999999995
No 192
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=42.31 E-value=51 Score=21.72 Aligned_cols=36 Identities=19% Similarity=0.285 Sum_probs=28.0
Q ss_pred EEEEeCCCCHHHHHHHHHHhcCCCCcceeeeecccc
Q 032027 16 YRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAG 51 (148)
Q Consensus 16 ~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~ 51 (148)
|...++.++.++-.+.+++|-..+++-+++++-..+
T Consensus 36 f~~v~~~t~~eei~~~~~~~l~~~digIIlIte~~a 71 (115)
T TIGR01101 36 FLVVDKNTTVSEIEDCFNRFLKRDDIAIILINQHIA 71 (115)
T ss_pred eeeecCCCCHHHHHHHHHHHhhcCCeEEEEEcHHHH
Confidence 455788888888899999988777788888875443
No 193
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=41.80 E-value=68 Score=25.17 Aligned_cols=43 Identities=16% Similarity=0.351 Sum_probs=34.0
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcC-----CCCcceeeee
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNN-----DTSIFACLLS 47 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~-----~~~~~vll~s 47 (148)
.+..|+..|+++.++-|+..-+.-+++...|++ -+++.+++++
T Consensus 92 yE~~Lks~GitV~RigG~nR~ETa~~v~~~~~~~yp~af~n~kvvvv~ 139 (337)
T COG2247 92 YENALKSLGITVKRIGGANRYETAEKVAKFFREDYPNAFKNVKVVVVY 139 (337)
T ss_pred HHHHHHhCCcEEEEecCcchHHHHHHHHHHHHhhchhhhcCeEEEEEe
Confidence 467889999999999999988888888888863 2345666665
No 194
>PRK14873 primosome assembly protein PriA; Provisional
Probab=40.93 E-value=73 Score=27.55 Aligned_cols=81 Identities=14% Similarity=0.046 Sum_probs=42.5
Q ss_pred HHHHHHHHhc--CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeecc----ccccCcCCC---CCCeEEEeCCCCCcc
Q 032027 3 DILEWTLDVI--GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTR----AGGQGLNLT---GADTVVIHDMDFNPQ 73 (148)
Q Consensus 3 ~~l~~~L~~~--~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~----~~~~Glnl~---~a~~vi~~d~~~~~~ 73 (148)
+.+++.|+.. +.++.++++. .+++.|.. ...+++.| . ...-|++|- +++...+. +++...
T Consensus 441 er~eeeL~~~FP~~~V~r~d~d-------~~l~~~~~--~~~IlVGT-qgaepm~~g~~~lV~ildaD~~L~~-pDfRA~ 509 (665)
T PRK14873 441 RRTAEELGRAFPGVPVVTSGGD-------QVVDTVDA--GPALVVAT-PGAEPRVEGGYGAALLLDAWALLGR-QDLRAA 509 (665)
T ss_pred HHHHHHHHHHCCCCCEEEEChH-------HHHHhhcc--CCCEEEEC-CCCcccccCCceEEEEEcchhhhcC-CCcChH
Confidence 4566777665 4566665543 37888864 34545554 4 333233321 22222222 333322
Q ss_pred -----hHHHHHHhhhhcCCCCcEEEE
Q 032027 74 -----IDRQAEDRCHRIGQTRPVTIY 94 (148)
Q Consensus 74 -----~~~Q~~gR~~R~Gq~~~v~v~ 94 (148)
...|+.||++|-.....|.|-
T Consensus 510 Er~~qll~qvagragr~~~~G~V~iq 535 (665)
T PRK14873 510 EDTLRRWMAAAALVRPRADGGQVVVV 535 (665)
T ss_pred HHHHHHHHHHHHhhcCCCCCCEEEEE
Confidence 224899999986655556654
No 195
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=40.92 E-value=1.6e+02 Score=22.48 Aligned_cols=92 Identities=13% Similarity=0.034 Sum_probs=52.1
Q ss_pred HHHHHHHHhcCCeEEEEeCC------CCHHHHHHHHHHhcC--CCCcceeeeeccccccCcCC------CCCCeEEEeCC
Q 032027 3 DILEWTLDVIGVTYRRLDGS------TQVTERQAIVDAFNN--DTSIFACLLSTRAGGQGLNL------TGADTVVIHDM 68 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~------~~~~~r~~~~~~F~~--~~~~~vll~s~~~~~~Glnl------~~a~~vi~~d~ 68 (148)
..+-++|...|++.+.+.|+ ++.++|.+.++.... ++.+.|+........+-+.+ -.++.+....|
T Consensus 31 ~~li~~l~~~Gv~Gi~~~GstGE~~~Lt~eEr~~~~~~~~~~~~~~~pvi~gv~~~t~~~i~~~~~a~~~Gadav~~~pP 110 (303)
T PRK03620 31 REHLEWLAPYGAAALFAAGGTGEFFSLTPDEYSQVVRAAVETTAGRVPVIAGAGGGTAQAIEYAQAAERAGADGILLLPP 110 (303)
T ss_pred HHHHHHHHHcCCCEEEECcCCcCcccCCHHHHHHHHHHHHHHhCCCCcEEEecCCCHHHHHHHHHHHHHhCCCEEEECCC
Confidence 44556777789998888886 588999999887743 33344333221111111111 14677777777
Q ss_pred CCCcchHHHHHHhhhh-cC--CCCcEEEEE
Q 032027 69 DFNPQIDRQAEDRCHR-IG--QTRPVTIYR 95 (148)
Q Consensus 69 ~~~~~~~~Q~~gR~~R-~G--q~~~v~v~~ 95 (148)
.|.+..... +-+-++ +- -.-+|.+|+
T Consensus 111 ~y~~~~~~~-i~~~f~~va~~~~lpi~lYn 139 (303)
T PRK03620 111 YLTEAPQEG-LAAHVEAVCKSTDLGVIVYN 139 (303)
T ss_pred CCCCCCHHH-HHHHHHHHHHhCCCCEEEEc
Confidence 766544332 222222 11 235788888
No 196
>cd07025 Peptidase_S66 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein. LD-carboxypeptidase (Muramoyltetrapeptide carboxypeptidase; EC 3.4.17.13; Merops family S66; initially described as Carboxypeptidase II) family also includes the microcin c7 self-immunity protein (MccF) as well as uncharacterized proteins including hypothetical proteins. LD-carboxypeptidase hydrolyzes the amide bond that links the dibasic amino acids to C-terminal D-amino acids. The physiological substrates of LD-carboxypeptidase are tetrapeptide fragments (such as UDP-MurNAc-tetrapeptides) that are produced when bacterial cell walls are degraded; they contain an L-configured residue (L-lysine or meso-diaminopimelic acid residue) as the penultimate residue and D-alanine as the ultimate residue. A possible role of LD-carboxypeptidase is in peptidoglycan recycling whereby the resulting tripeptide (precursor for murein synthesis) can be reconverted into peptidoglycan by attachment o
Probab=40.28 E-value=1e+02 Score=23.38 Aligned_cols=51 Identities=25% Similarity=0.195 Sum_probs=33.9
Q ss_pred HHHHHHHHHhcCCeEEEEeC--------CCCHHHHHHHHHHhcCCCCcceeeeeccccccC
Q 032027 2 LDILEWTLDVIGVTYRRLDG--------STQVTERQAIVDAFNNDTSIFACLLSTRAGGQG 54 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G--------~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~G 54 (148)
++...+.|+..|+.+..-.. +.++++|.+-+.++-.+++++.+++. .||.|
T Consensus 16 ~~~~~~~L~~~G~~v~~~~~~~~~~~~~a~s~~~Ra~dL~~a~~d~~i~aI~~~--rGG~g 74 (282)
T cd07025 16 LERAIARLESLGLEVVVGPHVLARDGYLAGTDEERAADLNAAFADPEIKAIWCA--RGGYG 74 (282)
T ss_pred HHHHHHHHHhCCCEEEeccchhhhcCccCCCHHHHHHHHHHHhhCCCCCEEEEc--CCcCC
Confidence 35566778888888654432 46778888888777777777755543 34444
No 197
>PRK13556 azoreductase; Provisional
Probab=39.10 E-value=25 Score=25.25 Aligned_cols=30 Identities=27% Similarity=0.163 Sum_probs=23.6
Q ss_pred CCCCCeEEEeCCCCCc---chHHHHHHhhhhcC
Q 032027 57 LTGADTVVIHDMDFNP---QIDRQAEDRCHRIG 86 (148)
Q Consensus 57 l~~a~~vi~~d~~~~~---~~~~Q~~gR~~R~G 86 (148)
+..|+.+|+..|-||. ...-+.+.|+.|.|
T Consensus 87 l~~AD~iVi~~P~yn~~~Pa~LK~~iD~v~~~g 119 (208)
T PRK13556 87 FLEADKVVFAFPLWNFTIPAVLHTYIDYLNRAG 119 (208)
T ss_pred HHHCCEEEEeccccccCCcHHHHHHHHHHhcCC
Confidence 4578999999999984 45557788888875
No 198
>PRK05580 primosome assembly protein PriA; Validated
Probab=38.64 E-value=1.9e+02 Score=25.10 Aligned_cols=53 Identities=11% Similarity=0.046 Sum_probs=35.6
Q ss_pred cCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeC
Q 032027 12 IGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHD 67 (148)
Q Consensus 12 ~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d 67 (148)
.|..+..+||+++..+|.+...+...+. ..+++.+..+. =+.+.+...+|+=|
T Consensus 214 fg~~v~~~~s~~s~~~r~~~~~~~~~g~-~~IVVgTrsal--~~p~~~l~liVvDE 266 (679)
T PRK05580 214 FGAPVAVLHSGLSDGERLDEWRKAKRGE-AKVVIGARSAL--FLPFKNLGLIIVDE 266 (679)
T ss_pred hCCCEEEEECCCCHHHHHHHHHHHHcCC-CCEEEeccHHh--cccccCCCEEEEEC
Confidence 3788999999999999988887776554 45566554332 13345566666544
No 199
>cd03030 GRX_SH3BGR Glutaredoxin (GRX) family, SH3BGR (SH3 domain binding glutamic acid-rich protein) subfamily; a recently-identified subfamily composed of SH3BGR and similar proteins possessing significant sequence similarity to GRX, but without a redox active CXXC motif. The SH3BGR gene was cloned in an effort to identify genes mapping to chromosome 21, which could be involved in the pathogenesis of congenital heart disease affecting Down syndrome newborns. Several human SH3BGR-like (SH3BGRL) genes have been identified since, mapping to different locations in the chromosome. Of these, SH3BGRL3 was identified as a tumor necrosis factor (TNF) alpha inhibitory protein and was also named TIP-B1. Upregulation of expression of SH3BGRL3 is associated with differentiation. It has been suggested that it functions as a regulator of differentiation-related signal transduction pathways.
Probab=38.12 E-value=1e+02 Score=19.26 Aligned_cols=33 Identities=15% Similarity=0.120 Sum_probs=27.9
Q ss_pred HHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhc
Q 032027 4 ILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFN 36 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~ 36 (148)
.+...|...+++|..++=+.+++.|+...+.-.
T Consensus 21 ~v~~lL~~k~I~f~eiDI~~d~~~r~em~~~~~ 53 (92)
T cd03030 21 EVLGFLEAKKIEFEEVDISMNEENRQWMRENVP 53 (92)
T ss_pred HHHHHHHHCCCceEEEecCCCHHHHHHHHHhcC
Confidence 466789999999999999999999988777664
No 200
>COG0521 MoaB Molybdopterin biosynthesis enzymes [Coenzyme metabolism]
Probab=38.03 E-value=1.4e+02 Score=21.04 Aligned_cols=52 Identities=17% Similarity=0.201 Sum_probs=31.4
Q ss_pred HHHHHHHHhcCCeEEEEeC-CCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCC
Q 032027 3 DILEWTLDVIGVTYRRLDG-STQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLT 58 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G-~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~ 58 (148)
.+|.+.|+..|.....+.= .-...+..+.+..+.... +.++|.+ ||.|+.-.
T Consensus 30 ~~l~~~L~~ag~~~~~~~iV~D~~~~I~~~l~~~~~~~-~Dvvltt---GGTG~t~R 82 (169)
T COG0521 30 PLLVELLEEAGHNVAAYTIVPDDKEQIRATLIALIDED-VDVVLTT---GGTGITPR 82 (169)
T ss_pred hHHHHHHHHcCCccceEEEeCCCHHHHHHHHHHHhcCC-CCEEEEc---CCccCCCC
Confidence 4678888888877522211 123345566666666666 6767755 56776643
No 201
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=37.94 E-value=1.8e+02 Score=22.01 Aligned_cols=93 Identities=15% Similarity=0.167 Sum_probs=52.3
Q ss_pred HHHHHHHHhcCCeEEEEeCC------CCHHHHHHHHHHhcC--CCCcceeeeeccccc--cCcCC------CCCCeEEEe
Q 032027 3 DILEWTLDVIGVTYRRLDGS------TQVTERQAIVDAFNN--DTSIFACLLSTRAGG--QGLNL------TGADTVVIH 66 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~------~~~~~r~~~~~~F~~--~~~~~vll~s~~~~~--~Glnl------~~a~~vi~~ 66 (148)
..+-++|...|++.+.+.|+ ++.++|.++++...+ .+...++ +...+.+ .-+.+ ..++.+...
T Consensus 25 ~~~i~~l~~~Gv~gi~~~Gs~GE~~~ls~~Er~~~~~~~~~~~~~~~~vi-~gv~~~~~~~~i~~a~~a~~~G~d~v~~~ 103 (292)
T PRK03170 25 RKLVDYLIANGTDGLVVVGTTGESPTLTHEEHEELIRAVVEAVNGRVPVI-AGTGSNSTAEAIELTKFAEKAGADGALVV 103 (292)
T ss_pred HHHHHHHHHcCCCEEEECCcCCccccCCHHHHHHHHHHHHHHhCCCCcEE-eecCCchHHHHHHHHHHHHHcCCCEEEEC
Confidence 34556677789998888887 588999998887764 2323333 2222211 11111 246777777
Q ss_pred CCCCCcchHHH---HHHhhhhcCCCCcEEEEEEE
Q 032027 67 DMDFNPQIDRQ---AEDRCHRIGQTRPVTIYRLV 97 (148)
Q Consensus 67 d~~~~~~~~~Q---~~gR~~R~Gq~~~v~v~~l~ 97 (148)
-|.|.+..... ...++...- ..++.+|+.-
T Consensus 104 pP~~~~~~~~~i~~~~~~ia~~~-~~pv~lYn~P 136 (292)
T PRK03170 104 TPYYNKPTQEGLYQHFKAIAEAT-DLPIILYNVP 136 (292)
T ss_pred CCcCCCCCHHHHHHHHHHHHhcC-CCCEEEEECc
Confidence 77665443332 333332221 3578888763
No 202
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=37.88 E-value=1e+02 Score=19.63 Aligned_cols=34 Identities=15% Similarity=0.027 Sum_probs=25.4
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAF 35 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F 35 (148)
+.++..+|+..|+.+..+....+.++-.+.+.+.
T Consensus 16 ~~~~~~~l~~~G~~V~~lg~~~~~~~l~~~~~~~ 49 (119)
T cd02067 16 KNIVARALRDAGFEVIDLGVDVPPEEIVEAAKEE 49 (119)
T ss_pred HHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHc
Confidence 4578899999999986666777777666666554
No 203
>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=35.73 E-value=1.4e+02 Score=24.30 Aligned_cols=45 Identities=11% Similarity=0.206 Sum_probs=34.4
Q ss_pred HHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccc
Q 032027 7 WTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGG 52 (148)
Q Consensus 7 ~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~ 52 (148)
..|...|+++..++|..+..++..+......+ ...++++++....
T Consensus 69 ~~l~~~gi~~~~l~~~~~~~~~~~i~~~~~~~-~~~il~~TPe~l~ 113 (470)
T TIGR00614 69 LQLKASGIPATFLNSSQSKEQQKNVLTDLKDG-KIKLLYVTPEKCS 113 (470)
T ss_pred HHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcC-CCCEEEECHHHHc
Confidence 45667899999999999988888888777543 3677888876643
No 204
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=35.13 E-value=1.5e+02 Score=21.11 Aligned_cols=37 Identities=5% Similarity=0.030 Sum_probs=27.9
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCC
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNND 38 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~ 38 (148)
++-+++.++..|+.+..+.....+++-...++.+...
T Consensus 18 ~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~ 54 (259)
T cd01542 18 VKGILAALYENGYQMLLMNTNFSIEKEIEALELLARQ 54 (259)
T ss_pred HHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHhc
Confidence 5567788889999988887776666666777777653
No 205
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=34.92 E-value=1.2e+02 Score=26.37 Aligned_cols=62 Identities=8% Similarity=0.035 Sum_probs=37.6
Q ss_pred CCCCHHHHHHHHHHhcCCCCcceeeeecc---------------ccccCcCC-CCCCeEEEeCCCCCcchHHHHHHhhhh
Q 032027 21 GSTQVTERQAIVDAFNNDTSIFACLLSTR---------------AGGQGLNL-TGADTVVIHDMDFNPQIDRQAEDRCHR 84 (148)
Q Consensus 21 G~~~~~~r~~~~~~F~~~~~~~vll~s~~---------------~~~~Glnl-~~a~~vi~~d~~~~~~~~~Q~~gR~~R 84 (148)
...+|+++.+.++.+++.+.. +.+..+ ++|.|-+. ..+..+|.+|...+.-...-.+||---
T Consensus 485 A~~~PedK~~iV~~lQ~~G~~--VaMtGDGvNDAPALa~ADVGIAMgsGTdvAkeAADiVLldd~ls~Iv~av~~gR~i~ 562 (673)
T PRK14010 485 AECKPEDKINVIREEQAKGHI--VAMTGDGTNDAPALAEANVGLAMNSGTMSAKEAANLIDLDSNPTKLMEVVLIGKQLL 562 (673)
T ss_pred cCCCHHHHHHHHHHHHhCCCE--EEEECCChhhHHHHHhCCEEEEeCCCCHHHHHhCCEEEcCCCHHHHHHHHHHHHHHH
Confidence 357889999999999876532 222211 23345555 346778888766555555555666443
No 206
>PHA03371 circ protein; Provisional
Probab=34.31 E-value=36 Score=25.26 Aligned_cols=45 Identities=24% Similarity=0.367 Sum_probs=32.3
Q ss_pred cccCcCCCCCCeE-EEeCCCC-------------CcchHHHHHHhhhhcCCCCcEEEEE
Q 032027 51 GGQGLNLTGADTV-VIHDMDF-------------NPQIDRQAEDRCHRIGQTRPVTIYR 95 (148)
Q Consensus 51 ~~~Glnl~~a~~v-i~~d~~~-------------~~~~~~Q~~gR~~R~Gq~~~v~v~~ 95 (148)
+|+=+||+..+.+ |+.+.+- +...+.|.|||++=+|..+.-.||-
T Consensus 30 aGR~vDLPgGde~~If~~~g~T~~~~g~f~~~g~~r~~~v~fIGRAya~g~~RkF~iyl 88 (240)
T PHA03371 30 AGRTVDLPGGDELRIFADCGTTTVNFGKFVRPGSSRLAYVKFIGRAYAIGSGRKFVIYL 88 (240)
T ss_pred cCcceecCCCCeEEEeccCCCCccceeeEecCCCCcceeeeeeehhhccCCCceEEEEE
Confidence 5677788887777 6555433 4445679999999999888766653
No 207
>smart00485 XPGN Xeroderma pigmentosum G N-region. domain in nucleases
Probab=34.30 E-value=82 Score=19.55 Aligned_cols=31 Identities=10% Similarity=-0.038 Sum_probs=18.4
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHh
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAF 35 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F 35 (148)
+...+...-.++++++|..++.++....++-
T Consensus 63 l~~L~~~~I~PifVFDG~~~~~K~~t~~~R~ 93 (99)
T smart00485 63 TCRLLEFGIKPIFVFDGKPPPLKSETLAKRR 93 (99)
T ss_pred HHHHHHCCCeEEEEECCCCchhhHHHHHHHH
Confidence 3344433344577889988766665555443
No 208
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures (PDOC00658 from PROSITEDOC) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [, , ]. The number of amino acids that separate the two 53EXO domains, and the presence of accompanying motifs allow the diagnosis of several protein families. In the eubacterial type A DNA-polymerases, the N-terminal and internal domains are separated by a few amino acids, usually four. The pattern DNA_POLYMERASE_A (IPR001098 from INTERPRO) is always present towards the C terminus. Several eukaryotic structure-dependent endonucleases and exonucleases have the 53EXO domains separated by 24 to 27 amino acids, and the XPG protein signatures are always present. In several proteins from herpesviridae, the two 53EXO domains are separated by 50 to 120 amino acids. These proteins are implicated in the inhibition of the expression of the host genes. Eukaryotic DNA repair proteins with 600 to 700 amino acids between the 53_EXO domains all carry the XPG protein signatures. This entry represents the N-terminal resolvase-like domain, which has a 3-layer alpha/beta/alpha core structure and contains an alpha-helical arch [, ].; GO: 0003677 DNA binding, 0008409 5'-3' exonuclease activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B 3H7I_A 3H8J_A 3H8S_A ....
Probab=32.85 E-value=1.1e+02 Score=21.41 Aligned_cols=48 Identities=10% Similarity=0.161 Sum_probs=32.4
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccc
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRA 50 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~ 50 (148)
++.+.+.|...|+++....|--...--......+... ...|+++|++-
T Consensus 88 ~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~-~~~v~IvS~Dk 135 (169)
T PF02739_consen 88 LPYIKELLEALGIPVLEVPGYEADDVIATLAKKASEE-GFEVIIVSGDK 135 (169)
T ss_dssp HHHHHHHHHHTTSEEEEETTB-HHHHHHHHHHHHHHT-TCEEEEE-SSG
T ss_pred HHHHHHHHHHCCCCEecCCCCcHHHHHHHHHhhhccC-CCEEEEEcCCC
Confidence 4678888999999998887765555555555566544 35678888764
No 209
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=32.42 E-value=1.5e+02 Score=24.62 Aligned_cols=56 Identities=16% Similarity=0.265 Sum_probs=35.3
Q ss_pred HHHHHHhc-CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccc----cccC-cCCCCCCeEEE
Q 032027 5 LEWTLDVI-GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRA----GGQG-LNLTGADTVVI 65 (148)
Q Consensus 5 l~~~L~~~-~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~----~~~G-lnl~~a~~vi~ 65 (148)
+..+-+.. ++.++.++|+.+...+.+.++. + +.+++.+|.- ...+ +++....++|+
T Consensus 119 ~~~~~~~~~~~~~~~i~GG~~~~~q~~~l~~---~--~~ivVaTPGRllD~i~~~~l~l~~v~~lVl 180 (513)
T COG0513 119 LRKLGKNLGGLRVAVVYGGVSIRKQIEALKR---G--VDIVVATPGRLLDLIKRGKLDLSGVETLVL 180 (513)
T ss_pred HHHHHhhcCCccEEEEECCCCHHHHHHHHhc---C--CCEEEECccHHHHHHHcCCcchhhcCEEEe
Confidence 34444445 6889999999997766655554 2 4667776641 2233 66666777665
No 210
>cd00408 DHDPS-like Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
Probab=31.86 E-value=2.2e+02 Score=21.25 Aligned_cols=93 Identities=19% Similarity=0.230 Sum_probs=55.3
Q ss_pred HHHHHHHhcCCeEEEEeCC------CCHHHHHHHHHHhcC--CCCcceeeeeccccc--cCcCC------CCCCeEEEeC
Q 032027 4 ILEWTLDVIGVTYRRLDGS------TQVTERQAIVDAFNN--DTSIFACLLSTRAGG--QGLNL------TGADTVVIHD 67 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~------~~~~~r~~~~~~F~~--~~~~~vll~s~~~~~--~Glnl------~~a~~vi~~d 67 (148)
.+-++|...|++.+.+.|+ ++.++|.++++...+ ++...++. ...+.+ +-+.+ ..++.+...-
T Consensus 22 ~~i~~l~~~Gv~gi~~~GstGE~~~ls~~Er~~l~~~~~~~~~~~~~vi~-gv~~~~~~~~i~~a~~a~~~Gad~v~v~p 100 (281)
T cd00408 22 RLVEFLIEAGVDGLVVLGTTGEAPTLTDEERKEVIEAVVEAVAGRVPVIA-GVGANSTREAIELARHAEEAGADGVLVVP 100 (281)
T ss_pred HHHHHHHHcCCCEEEECCCCcccccCCHHHHHHHHHHHHHHhCCCCeEEE-ecCCccHHHHHHHHHHHHHcCCCEEEECC
Confidence 3456666779998888887 468999999887764 22344333 222211 11111 2577788888
Q ss_pred CCCCcchHHHHHHhhhhcCC--CCcEEEEEEE
Q 032027 68 MDFNPQIDRQAEDRCHRIGQ--TRPVTIYRLV 97 (148)
Q Consensus 68 ~~~~~~~~~Q~~gR~~R~Gq--~~~v~v~~l~ 97 (148)
|.|.+....+...-...+-+ ..++.+|+.-
T Consensus 101 P~y~~~~~~~~~~~~~~ia~~~~~pi~iYn~P 132 (281)
T cd00408 101 PYYNKPSQEGIVAHFKAVADASDLPVILYNIP 132 (281)
T ss_pred CcCCCCCHHHHHHHHHHHHhcCCCCEEEEECc
Confidence 87777555444443333322 3568888774
No 211
>PLN02417 dihydrodipicolinate synthase
Probab=31.73 E-value=2.3e+02 Score=21.41 Aligned_cols=91 Identities=13% Similarity=0.119 Sum_probs=52.2
Q ss_pred HHHHHHHHhcCCeEEEEeCC------CCHHHHHHHHHHhcC--CCCcceeeeeccccc--cCcCC------CCCCeEEEe
Q 032027 3 DILEWTLDVIGVTYRRLDGS------TQVTERQAIVDAFNN--DTSIFACLLSTRAGG--QGLNL------TGADTVVIH 66 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~------~~~~~r~~~~~~F~~--~~~~~vll~s~~~~~--~Glnl------~~a~~vi~~ 66 (148)
..+-+++...|++-+.+.|+ ++.++|.+.++...+ .+.+.|+... .+.+ +-+.+ ..++.+...
T Consensus 25 ~~~i~~l~~~Gv~Gi~~~GstGE~~~ls~~Er~~~~~~~~~~~~~~~pvi~gv-~~~~t~~~i~~a~~a~~~Gadav~~~ 103 (280)
T PLN02417 25 DSLVNMQIENGAEGLIVGGTTGEGQLMSWDEHIMLIGHTVNCFGGKIKVIGNT-GSNSTREAIHATEQGFAVGMHAALHI 103 (280)
T ss_pred HHHHHHHHHcCCCEEEECccCcchhhCCHHHHHHHHHHHHHHhCCCCcEEEEC-CCccHHHHHHHHHHHHHcCCCEEEEc
Confidence 34456666789998888887 588899998876653 2334433322 2111 11111 246777777
Q ss_pred CCCCCcchHH---HHHHhhhhcCCCCcEEEEEEE
Q 032027 67 DMDFNPQIDR---QAEDRCHRIGQTRPVTIYRLV 97 (148)
Q Consensus 67 d~~~~~~~~~---Q~~gR~~R~Gq~~~v~v~~l~ 97 (148)
.|.|.+.... +....+.... ++.+|+.-
T Consensus 104 ~P~y~~~~~~~i~~~f~~va~~~---pi~lYn~P 134 (280)
T PLN02417 104 NPYYGKTSQEGLIKHFETVLDMG---PTIIYNVP 134 (280)
T ss_pred CCccCCCCHHHHHHHHHHHHhhC---CEEEEECh
Confidence 7766554333 3444444433 88888774
No 212
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=31.56 E-value=1.4e+02 Score=26.02 Aligned_cols=62 Identities=11% Similarity=0.089 Sum_probs=37.8
Q ss_pred CCCCHHHHHHHHHHhcCCCCcceeeeecc---------------ccccCcCC-CCCCeEEEeCCCCCcchHHHHHHhhhh
Q 032027 21 GSTQVTERQAIVDAFNNDTSIFACLLSTR---------------AGGQGLNL-TGADTVVIHDMDFNPQIDRQAEDRCHR 84 (148)
Q Consensus 21 G~~~~~~r~~~~~~F~~~~~~~vll~s~~---------------~~~~Glnl-~~a~~vi~~d~~~~~~~~~Q~~gR~~R 84 (148)
...+|+++.+.++.+++.+.. +.+..+ +++.|-+. ..+..+|.+|...+.-...-.+||--.
T Consensus 489 A~~~PedK~~iV~~lQ~~G~~--VaMtGDGvNDAPALa~ADVGIAMgsGTdvAkeAADiVLldd~~s~Iv~av~~GR~~~ 566 (679)
T PRK01122 489 AEATPEDKLALIRQEQAEGRL--VAMTGDGTNDAPALAQADVGVAMNSGTQAAKEAGNMVDLDSNPTKLIEVVEIGKQLL 566 (679)
T ss_pred ccCCHHHHHHHHHHHHHcCCe--EEEECCCcchHHHHHhCCEeEEeCCCCHHHHHhCCEEEeCCCHHHHHHHHHHHHHHH
Confidence 357888999999999876532 222211 12345454 347777888776665555566666544
No 213
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=31.39 E-value=1.4e+02 Score=18.89 Aligned_cols=34 Identities=6% Similarity=0.187 Sum_probs=25.4
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHh
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAF 35 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F 35 (148)
++-|.+..+..++..+.+++..|+.+....-+.+
T Consensus 46 ~eei~~~~~~~~~d~vvfd~~Lsp~Q~rNLe~~~ 79 (95)
T PF13167_consen 46 VEEIKELIEELDADLVVFDNELSPSQQRNLEKAL 79 (95)
T ss_pred HHHHHHHHhhcCCCEEEECCCCCHHHHHHHHHHH
Confidence 3456677777888999999999887776655555
No 214
>cd07062 Peptidase_S66_mccF_like Microcin C7 self-immunity protein determines resistance to exogenous microcin C7. Microcin C7 self-immunity protein (mccF): MccF, a homolog of the LD-carboxypeptidase family, mediates resistance against exogenously added microcin C7 (MccC7), a ribosomally-encoded peptide antibiotic that contains a phosphoramidate linkage to adenosine monophosphate at its C-terminus. The plasmid-encoded mccF gene is transcribed in the opposite direction to the other five genes (mccA-E) and is required for the full expression of immunity but not for production. The catalytic triad residues (Ser, His, Glu) of LD-carboxypeptidase are also conserved in MccF, strongly suggesting that MccF shares the hydrolytic activity with LD-carboxypeptidases. Substrates of MccF have not been deduced, but could likely be microcin C7 precursors. The possible role of MccF is to defend producer cells against exogenous microcin from re-entering after having been exported. It is suggested that M
Probab=31.19 E-value=2e+02 Score=22.05 Aligned_cols=52 Identities=25% Similarity=0.202 Sum_probs=34.4
Q ss_pred HHHHHHHHhcCCeEEEEeC--------CCCHHHHHHHHHHhcCCCCcceeeeeccccccCcC
Q 032027 3 DILEWTLDVIGVTYRRLDG--------STQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLN 56 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G--------~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Gln 56 (148)
+.-.+.|+..|+.++.-.. +-+.++|.+-+.++-.++++..+++. .||.|-+
T Consensus 21 ~~~~~~L~~~G~~v~~~~~~~~~~~~~ag~~~~Ra~dL~~a~~Dp~i~aI~~~--rGG~g~~ 80 (308)
T cd07062 21 ERAKKRLENLGFEVVEGPNALKGDKYLSASPEERAEELMAAFADPSIKAIIPT--IGGDDSN 80 (308)
T ss_pred HHHHHHHHhCCCEEEEecccccccccccCCHHHHHHHHHHHhcCCCCCEEEEC--CcccCHh
Confidence 3445778888988665443 35678888888887788877766654 3444433
No 215
>PRK13555 azoreductase; Provisional
Probab=30.58 E-value=42 Score=24.33 Aligned_cols=30 Identities=23% Similarity=0.095 Sum_probs=23.1
Q ss_pred CCCCCeEEEeCCCCC---cchHHHHHHhhhhcC
Q 032027 57 LTGADTVVIHDMDFN---PQIDRQAEDRCHRIG 86 (148)
Q Consensus 57 l~~a~~vi~~d~~~~---~~~~~Q~~gR~~R~G 86 (148)
+..|+++++.-|-|| |...-..+.|+.|.|
T Consensus 87 ~~~AD~lvi~~P~~n~~~Pa~LK~~iD~v~~~G 119 (208)
T PRK13555 87 FLEADKVVFAFPLWNFTVPAPLITYISYLSQAG 119 (208)
T ss_pred HHHcCEEEEEcCcccccchHHHHHHHHHHhcCC
Confidence 356899999999998 455557788888864
No 216
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=30.43 E-value=1.3e+02 Score=18.37 Aligned_cols=43 Identities=5% Similarity=0.088 Sum_probs=29.8
Q ss_pred eCCCCHHHHHHHHHHhcCCCC-cceeeeeccccccCcCCCCCCeE
Q 032027 20 DGSTQVTERQAIVDAFNNDTS-IFACLLSTRAGGQGLNLTGADTV 63 (148)
Q Consensus 20 ~G~~~~~~r~~~~~~F~~~~~-~~vll~s~~~~~~Glnl~~a~~v 63 (148)
|--++.++.++.+++|+-... .. -+..++.....+.+...+.|
T Consensus 15 H~iLs~eE~~~lL~~y~i~~~qLP-~I~~~DPv~r~~g~k~GdVv 58 (79)
T PRK09570 15 HEILSEEEAKKLLKEYGIKPEQLP-KIKASDPVVKAIGAKPGDVI 58 (79)
T ss_pred eEECCHHHHHHHHHHcCCCHHHCC-ceeccChhhhhcCCCCCCEE
Confidence 334688999999999985443 33 34445777777777776666
No 217
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=30.41 E-value=2.3e+02 Score=21.17 Aligned_cols=93 Identities=17% Similarity=0.185 Sum_probs=53.0
Q ss_pred HHHHHHHhcCCeEEEEeCC------CCHHHHHHHHHHhcCC--CCcceeeeeccccc--cCcCC------CCCCeEEEeC
Q 032027 4 ILEWTLDVIGVTYRRLDGS------TQVTERQAIVDAFNND--TSIFACLLSTRAGG--QGLNL------TGADTVVIHD 67 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~------~~~~~r~~~~~~F~~~--~~~~vll~s~~~~~--~Glnl------~~a~~vi~~d 67 (148)
.+-++|...|++.+.+.|+ ++.++|.++++...+. +...++ +.....+ +-+.+ ..++.+...-
T Consensus 25 ~~i~~l~~~Gv~gl~v~GstGE~~~lt~~Er~~l~~~~~~~~~~~~~vi-~gv~~~~~~~~~~~a~~a~~~G~d~v~~~~ 103 (284)
T cd00950 25 RLIEFQIENGTDGLVVCGTTGESPTLSDEEHEAVIEAVVEAVNGRVPVI-AGTGSNNTAEAIELTKRAEKAGADAALVVT 103 (284)
T ss_pred HHHHHHHHcCCCEEEECCCCcchhhCCHHHHHHHHHHHHHHhCCCCcEE-eccCCccHHHHHHHHHHHHHcCCCEEEEcc
Confidence 3456667789998888887 4888999988777542 223322 2211111 11111 2467777777
Q ss_pred CCCCcchHHHHHHhhhhcCC--CCcEEEEEEE
Q 032027 68 MDFNPQIDRQAEDRCHRIGQ--TRPVTIYRLV 97 (148)
Q Consensus 68 ~~~~~~~~~Q~~gR~~R~Gq--~~~v~v~~l~ 97 (148)
|.|-+....+.......+-. ..++.+|+.-
T Consensus 104 P~~~~~~~~~l~~~~~~ia~~~~~pi~lYn~P 135 (284)
T cd00950 104 PYYNKPSQEGLYAHFKAIAEATDLPVILYNVP 135 (284)
T ss_pred cccCCCCHHHHHHHHHHHHhcCCCCEEEEECh
Confidence 77755544444444444333 3568888763
No 218
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=29.85 E-value=92 Score=27.81 Aligned_cols=45 Identities=27% Similarity=0.247 Sum_probs=31.3
Q ss_pred HHHHHHHHhcC--CeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccc
Q 032027 3 DILEWTLDVIG--VTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGG 52 (148)
Q Consensus 3 ~~l~~~L~~~~--~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~ 52 (148)
+.+.+++...+ +.+..|+|.+++++|.+++ .++ +.|++.++++.-
T Consensus 133 ~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~---~~p--p~IllTNpdMLh 179 (851)
T COG1205 133 ERLRELISDLPGKVTFGRYTGDTPPEERRAII---RNP--PDILLTNPDMLH 179 (851)
T ss_pred HHHHHHHHhCCCcceeeeecCCCChHHHHHHH---hCC--CCEEEeCHHHHH
Confidence 34556666666 8999999999999887433 233 366787777653
No 219
>COG1182 AcpD Acyl carrier protein phosphodiesterase [Lipid metabolism]
Probab=29.70 E-value=64 Score=23.49 Aligned_cols=32 Identities=28% Similarity=0.225 Sum_probs=23.6
Q ss_pred CCCCCeEEEeCCCCCcc---hHHHHHHhhhhcCCC
Q 032027 57 LTGADTVVIHDMDFNPQ---IDRQAEDRCHRIGQT 88 (148)
Q Consensus 57 l~~a~~vi~~d~~~~~~---~~~Q~~gR~~R~Gq~ 88 (148)
|..|+.+|+.-|-||.. ..-.-+.++.|.|.+
T Consensus 85 f~aAD~vVi~~PM~Nf~iPa~LK~yiD~i~~aGkT 119 (202)
T COG1182 85 FLAADKVVIAAPMYNFNIPAQLKAYIDHIAVAGKT 119 (202)
T ss_pred HHhcCeEEEEecccccCCCHHHHHHHHHHhcCCce
Confidence 34688999999999955 444577777777754
No 220
>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=29.59 E-value=2.9e+02 Score=23.01 Aligned_cols=58 Identities=12% Similarity=0.135 Sum_probs=36.5
Q ss_pred HHHHh-cCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeC
Q 032027 7 WTLDV-IGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHD 67 (148)
Q Consensus 7 ~~L~~-~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d 67 (148)
+.|+. .+.++..+||+++..+|.+...+-.++. ..+++.+..+.- +-+.+...||+=+
T Consensus 43 ~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~-~~IVVGTrsalf--~p~~~l~lIIVDE 101 (505)
T TIGR00595 43 QRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGE-ILVVIGTRSALF--LPFKNLGLIIVDE 101 (505)
T ss_pred HHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCC-CCEEECChHHHc--CcccCCCEEEEEC
Confidence 34443 3778899999999999988877766554 455555543321 2345566666544
No 221
>TIGR00683 nanA N-acetylneuraminate lyase. N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.
Probab=29.39 E-value=2.6e+02 Score=21.28 Aligned_cols=105 Identities=11% Similarity=0.005 Sum_probs=60.5
Q ss_pred HHHHHHhcC-CeEEEEeCC------CCHHHHHHHHHHhcC--CCCcceeeeeccccc--cCcCC------CCCCeEEEeC
Q 032027 5 LEWTLDVIG-VTYRRLDGS------TQVTERQAIVDAFNN--DTSIFACLLSTRAGG--QGLNL------TGADTVVIHD 67 (148)
Q Consensus 5 l~~~L~~~~-~~~~~~~G~------~~~~~r~~~~~~F~~--~~~~~vll~s~~~~~--~Glnl------~~a~~vi~~d 67 (148)
+-+++...| ++.+.+.|+ ++.++|.+.++...+ .+.+.|+... ...+ .-+.+ ..++.+...-
T Consensus 26 ~i~~~i~~G~v~gi~~~GstGE~~~Lt~eEr~~~~~~~~~~~~~~~pvi~gv-~~~~t~~~i~la~~a~~~Gad~v~v~~ 104 (290)
T TIGR00683 26 IIRHNIDKMKVDGLYVGGSTGENFMLSTEEKKEIFRIAKDEAKDQIALIAQV-GSVNLKEAVELGKYATELGYDCLSAVT 104 (290)
T ss_pred HHHHHHhCCCcCEEEECCcccccccCCHHHHHHHHHHHHHHhCCCCcEEEec-CCCCHHHHHHHHHHHHHhCCCEEEEeC
Confidence 445566678 888888876 578899998876654 2334433322 2111 11111 2477788888
Q ss_pred CCCCcchHHHHHHhhhhcC-C--CCcEEEEEEE--eCCCHHHHHHHHH
Q 032027 68 MDFNPQIDRQAEDRCHRIG-Q--TRPVTIYRLV--TKGTVDENVYEIA 110 (148)
Q Consensus 68 ~~~~~~~~~Q~~gR~~R~G-q--~~~v~v~~l~--~~~t~ee~i~~~~ 110 (148)
|.|.+....+...-..++- . .-++.+|+.- +...+....+..+
T Consensus 105 P~y~~~~~~~i~~yf~~v~~~~~~lpv~lYn~P~~tg~~l~~~~i~~L 152 (290)
T TIGR00683 105 PFYYKFSFPEIKHYYDTIIAETGGLNMIVYSIPFLTGVNMGIEQFGEL 152 (290)
T ss_pred CcCCCCCHHHHHHHHHHHHhhCCCCCEEEEeCccccccCcCHHHHHHH
Confidence 8887766665555555543 2 3578888764 2334444444433
No 222
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=28.98 E-value=18 Score=34.31 Aligned_cols=58 Identities=16% Similarity=0.219 Sum_probs=45.8
Q ss_pred HHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhhhcCC
Q 032027 28 RQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCHRIGQ 87 (148)
Q Consensus 28 r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq 87 (148)
+.+.+..|.... +. +|..+.+.-+|++...|+-++.++.+-....+.|+.||..+.+.
T Consensus 343 ~~~vl~~~~~~~-ln-~L~~~~~~~e~~d~~~~~~~~~~~~~~~~~~~vq~~~r~~~~~~ 400 (1606)
T KOG0701|consen 343 QAEVLRRFHFHE-LN-LLIATSVLEEGVDVPKCNLVVLFDAPTYYRSYVQKKGRARAADS 400 (1606)
T ss_pred hHHHHHHHhhhh-hh-HHHHHHHHHhhcchhhhhhheeccCcchHHHHHHhhcccccchh
Confidence 455677776544 33 45566778899999999999999999999999999999776553
No 223
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=28.59 E-value=51 Score=27.24 Aligned_cols=46 Identities=15% Similarity=0.221 Sum_probs=37.8
Q ss_pred HHHHhcCCeEEEEeCCCCHHHHHHHHHHhcC-CCCcceeeeeccccc
Q 032027 7 WTLDVIGVTYRRLDGSTQVTERQAIVDAFNN-DTSIFACLLSTRAGG 52 (148)
Q Consensus 7 ~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~-~~~~~vll~s~~~~~ 52 (148)
+.|....+++-.+++.+|..+|.+++.+... .++.++|-+++..++
T Consensus 79 DHL~~LKVp~~SLNSKlSt~ER~ri~~DL~~ekp~~K~LYITPE~AA 125 (641)
T KOG0352|consen 79 DHLKRLKVPCESLNSKLSTVERSRIMGDLAKEKPTIKMLYITPEGAA 125 (641)
T ss_pred HHHHhcCCchhHhcchhhHHHHHHHHHHHHhcCCceeEEEEchhhhh
Confidence 3456678899999999999999999999975 456788888887654
No 224
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=27.95 E-value=1.4e+02 Score=21.38 Aligned_cols=28 Identities=18% Similarity=0.135 Sum_probs=22.4
Q ss_pred CeEEEeCCCCCcchHHHHHHhhhhcCCC
Q 032027 61 DTVVIHDMDFNPQIDRQAEDRCHRIGQT 88 (148)
Q Consensus 61 ~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~ 88 (148)
-.+|++|||+......+....+...|.-
T Consensus 122 fDlV~~DPPy~~g~~~~~l~~l~~~~~l 149 (199)
T PRK10909 122 HNVVFVDPPFRKGLLEETINLLEDNGWL 149 (199)
T ss_pred ceEEEECCCCCCChHHHHHHHHHHCCCc
Confidence 4788999999888888888888775543
No 225
>COG0149 TpiA Triosephosphate isomerase [Carbohydrate transport and metabolism]
Probab=27.76 E-value=1.1e+02 Score=23.16 Aligned_cols=16 Identities=19% Similarity=0.241 Sum_probs=12.3
Q ss_pred CcCCCCCCeEEEeCCCC
Q 032027 54 GLNLTGADTVVIHDMDF 70 (148)
Q Consensus 54 Glnl~~a~~vi~~d~~~ 70 (148)
+++.. .+.+|=|+|+|
T Consensus 154 ~l~~~-~~~vIAYEPvW 169 (251)
T COG0149 154 ALSPE-ANIVIAYEPVW 169 (251)
T ss_pred hcCcc-cCeEEEECCHH
Confidence 44433 78999999999
No 226
>PF00456 Transketolase_N: Transketolase, thiamine diphosphate binding domain; InterPro: IPR005474 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; PDB: 3M49_B 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 3HYL_A 3RIM_A ....
Probab=27.39 E-value=1.2e+02 Score=23.78 Aligned_cols=79 Identities=10% Similarity=0.088 Sum_probs=46.3
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCC-CCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhh
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNND-TSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCH 83 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~-~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~ 83 (148)
+.+.++..|+.+..+..+...++-.+++...+.. +.+.++++. ...|.|+.....+.- ....|.+...+.|+....+
T Consensus 198 ~~~k~~a~Gw~v~~v~dGhd~~~i~~A~~~a~~~~~kP~~Ii~~-TvkG~G~~~~e~~~~-~Hg~~l~~ee~~~~k~~lg 275 (332)
T PF00456_consen 198 IAKKFEAFGWNVIEVCDGHDVEAIYAAIEEAKASKGKPTVIIAR-TVKGKGVPFMEGTAK-WHGSPLTEEEVEQAKKELG 275 (332)
T ss_dssp HHHHHHHTT-EEEEEEETTBHHHHHHHHHHHHHSTSS-EEEEEE-E-TTTTSTTTTTSGG-GTSS--HHHHHHHHHHHTT
T ss_pred HHHHHHHhhhhhcccccCcHHHHHHHHHHHHHhcCCCCceeecc-eEEecCchhhcccch-hhccCCcHHHHHHHHHHcC
Confidence 4677889999999984445667777777777654 334445544 566688854322222 2334667777777776665
Q ss_pred hc
Q 032027 84 RI 85 (148)
Q Consensus 84 R~ 85 (148)
-.
T Consensus 276 ~~ 277 (332)
T PF00456_consen 276 WD 277 (332)
T ss_dssp SS
T ss_pred CC
Confidence 55
No 227
>KOG4238 consensus Bifunctional ATP sulfurylase/adenosine 5'-phosphosulfate kinase [Nucleotide transport and metabolism]
Probab=27.12 E-value=67 Score=25.95 Aligned_cols=33 Identities=24% Similarity=0.273 Sum_probs=27.0
Q ss_pred HHHHHHHhcCCeEEEEeCC-----------CCHHHHHHHHHHhc
Q 032027 4 ILEWTLDVIGVTYRRLDGS-----------TQVTERQAIVDAFN 36 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~-----------~~~~~r~~~~~~F~ 36 (148)
.|+++|...||++..++|. .|+++|++.+.+-.
T Consensus 69 ale~~l~~~gipcy~ldgdnirhgl~knlgfs~edreenirria 112 (627)
T KOG4238|consen 69 ALEEYLVSHGIPCYSLDGDNIRHGLNKNLGFSPEDREENIRRIA 112 (627)
T ss_pred HHHHHHHhcCCcccccCcchhhhhhhhccCCCchhHHHHHHHHH
Confidence 5789999999999999985 57788888776643
No 228
>TIGR00674 dapA dihydrodipicolinate synthase. Dihydrodipicolinate synthase is a homotetrameric enzyme of lysine biosynthesis. E. coli has several paralogs closely related to dihydrodipicoline synthase (DapA), as well as the more distant N-acetylneuraminate lyase. In Pyrococcus horikoshii, the bidirectional best hit with E. coli is to an uncharacterized paralog of DapA, not DapA itself, and it is omitted from the seed. The putative members from the Chlamydias (pathogens with a parasitic metabolism) are easily the most divergent members of the multiple alignment.
Probab=27.03 E-value=2.8e+02 Score=20.90 Aligned_cols=93 Identities=13% Similarity=0.097 Sum_probs=52.9
Q ss_pred HHHHHHHhcCCeEEEEeCC------CCHHHHHHHHHHhcC--CCCcceeeeecc-ccccCcCC------CCCCeEEEeCC
Q 032027 4 ILEWTLDVIGVTYRRLDGS------TQVTERQAIVDAFNN--DTSIFACLLSTR-AGGQGLNL------TGADTVVIHDM 68 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~------~~~~~r~~~~~~F~~--~~~~~vll~s~~-~~~~Glnl------~~a~~vi~~d~ 68 (148)
.+-++|...|++-+.+.|+ ++.++|.++++...+ .+...|+..... +..+-+.+ ..++.+...-|
T Consensus 23 ~~i~~l~~~Gv~Gi~~~GstGE~~~Ls~~Er~~~~~~~~~~~~~~~~vi~gv~~~s~~~~i~~a~~a~~~Gad~v~v~pP 102 (285)
T TIGR00674 23 KLIDFQIENGTDAIVVVGTTGESPTLSHEEHKKVIEFVVDLVNGRVPVIAGTGSNATEEAISLTKFAEDVGADGFLVVTP 102 (285)
T ss_pred HHHHHHHHcCCCEEEECccCcccccCCHHHHHHHHHHHHHHhCCCCeEEEeCCCccHHHHHHHHHHHHHcCCCEEEEcCC
Confidence 3445666789998888876 688999999887764 233443433211 11122222 14677777777
Q ss_pred CCCcchHHH---HHHhhhhcCCCCcEEEEEEE
Q 032027 69 DFNPQIDRQ---AEDRCHRIGQTRPVTIYRLV 97 (148)
Q Consensus 69 ~~~~~~~~Q---~~gR~~R~Gq~~~v~v~~l~ 97 (148)
.|-+....+ ...++...- .-++.+|+.-
T Consensus 103 ~y~~~~~~~i~~~~~~i~~~~-~~pi~lYn~P 133 (285)
T TIGR00674 103 YYNKPTQEGLYQHFKAIAEEV-DLPIILYNVP 133 (285)
T ss_pred cCCCCCHHHHHHHHHHHHhcC-CCCEEEEECc
Confidence 766543332 233332221 3578888774
No 229
>cd07014 S49_SppA Signal peptide peptidase A. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is an intramembrane enzyme found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be ClpP-like serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain, cleaving peptide bonds in the plane of the lipid bilayer. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal p
Probab=26.18 E-value=1.4e+02 Score=20.70 Aligned_cols=63 Identities=13% Similarity=-0.048 Sum_probs=34.4
Q ss_pred HHHHhcCCeEEEEeCCC---CHH---HHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCC
Q 032027 7 WTLDVIGVTYRRLDGST---QVT---ERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMD 69 (148)
Q Consensus 7 ~~L~~~~~~~~~~~G~~---~~~---~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~ 69 (148)
+......++.+.+++.. ... +-.+.+..|.+.+.+-+..++..+.|-|.-|-.+...++..+.
T Consensus 33 ~a~~d~~v~~vvl~~~~~gg~~~~~~~~~~~i~~~~~~~kpVia~v~G~a~g~g~~la~a~D~i~a~~~ 101 (177)
T cd07014 33 DARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVASGGGNAASGGYWISTPANYIVANPS 101 (177)
T ss_pred HHhcCCCceEEEEEeeCCCcCHHHHHHHHHHHHHHHhCCCCEEEEECCchhHHHHHHHHhCCEEEECCC
Confidence 33334467777777643 222 2234566776544444445555677788888554444455443
No 230
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=25.96 E-value=3.1e+02 Score=21.06 Aligned_cols=92 Identities=17% Similarity=0.206 Sum_probs=58.8
Q ss_pred HHHHHHHHhcCCeEEEEeCC------CCHHHHHHHHHHhcCC--CCcceeeeecccc--ccCcCC------CCCCeEEEe
Q 032027 3 DILEWTLDVIGVTYRRLDGS------TQVTERQAIVDAFNND--TSIFACLLSTRAG--GQGLNL------TGADTVVIH 66 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~------~~~~~r~~~~~~F~~~--~~~~vll~s~~~~--~~Glnl------~~a~~vi~~ 66 (148)
..+-++|...|++-+.+.|+ ++.+||.++++...+- +.+.++. .+.+. .+-+.+ ..++.+...
T Consensus 28 ~~lv~~li~~Gv~gi~~~GttGE~~~Ls~eEr~~v~~~~v~~~~grvpvia-G~g~~~t~eai~lak~a~~~Gad~il~v 106 (299)
T COG0329 28 RRLVEFLIAAGVDGLVVLGTTGESPTLTLEERKEVLEAVVEAVGGRVPVIA-GVGSNSTAEAIELAKHAEKLGADGILVV 106 (299)
T ss_pred HHHHHHHHHcCCCEEEECCCCccchhcCHHHHHHHHHHHHHHHCCCCcEEE-ecCCCcHHHHHHHHHHHHhcCCCEEEEe
Confidence 45667788889998888887 4888999998888653 3233333 22221 111111 247788888
Q ss_pred CCCCCcchHH---HHHHhhhhcCCCCcEEEEEE
Q 032027 67 DMDFNPQIDR---QAEDRCHRIGQTRPVTIYRL 96 (148)
Q Consensus 67 d~~~~~~~~~---Q~~gR~~R~Gq~~~v~v~~l 96 (148)
.|.|++.... |...++..-- .-++.+|+.
T Consensus 107 ~PyY~k~~~~gl~~hf~~ia~a~-~lPvilYN~ 138 (299)
T COG0329 107 PPYYNKPSQEGLYAHFKAIAEAV-DLPVILYNI 138 (299)
T ss_pred CCCCcCCChHHHHHHHHHHHHhc-CCCEEEEeC
Confidence 8888766533 5555665544 556888886
No 231
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=24.99 E-value=2.3e+02 Score=22.62 Aligned_cols=56 Identities=4% Similarity=0.042 Sum_probs=32.4
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccc-----cCcCCCCCCeEEE
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGG-----QGLNLTGADTVVI 65 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~-----~Glnl~~a~~vi~ 65 (148)
+..+....++++..++|+.+.......+. . +..|+++++.... ..+++.....+|+
T Consensus 93 ~~~l~~~~~~~v~~~~gg~~~~~~~~~l~---~--~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lVi 153 (434)
T PRK11192 93 ARELAKHTHLDIATITGGVAYMNHAEVFS---E--NQDIVVATPGRLLQYIKEENFDCRAVETLIL 153 (434)
T ss_pred HHHHHccCCcEEEEEECCCCHHHHHHHhc---C--CCCEEEEChHHHHHHHHcCCcCcccCCEEEE
Confidence 33444556889999999988766544332 2 3456777664321 2344555555554
No 232
>PRK14873 primosome assembly protein PriA; Provisional
Probab=24.96 E-value=2.3e+02 Score=24.56 Aligned_cols=42 Identities=17% Similarity=0.032 Sum_probs=30.8
Q ss_pred HHHHHHhc-C-CeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeee
Q 032027 5 LEWTLDVI-G-VTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLS 47 (148)
Q Consensus 5 l~~~L~~~-~-~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s 47 (148)
+.+.|+.+ | -.++.+|++.++.+|.+...+..++. ..|++.+
T Consensus 204 ~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G~-~~IViGt 247 (665)
T PRK14873 204 LEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRGQ-ARVVVGT 247 (665)
T ss_pred HHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCCC-CcEEEEc
Confidence 44455544 4 57899999999999999998887655 4555555
No 233
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=24.72 E-value=2.1e+02 Score=20.73 Aligned_cols=33 Identities=24% Similarity=0.195 Sum_probs=25.2
Q ss_pred HHHHHHHHhcCCeEEEEeCC-----------CCHHHHHHHHHHh
Q 032027 3 DILEWTLDVIGVTYRRLDGS-----------TQVTERQAIVDAF 35 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~-----------~~~~~r~~~~~~F 35 (148)
..|++.|..+|+.+..++|. -+.++|.+.+.+-
T Consensus 41 ~ale~~L~~~G~~~y~LDGDnvR~gL~~dLgFs~edR~eniRRv 84 (197)
T COG0529 41 NALEEKLFAKGYHVYLLDGDNVRHGLNRDLGFSREDRIENIRRV 84 (197)
T ss_pred HHHHHHHHHcCCeEEEecChhHhhcccCCCCCChHHHHHHHHHH
Confidence 56888999999999999995 4666776665543
No 234
>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=23.95 E-value=3e+02 Score=20.34 Aligned_cols=75 Identities=17% Similarity=0.234 Sum_probs=47.0
Q ss_pred HHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHhhh
Q 032027 4 ILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDRCH 83 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR~~ 83 (148)
.+....+++|+..+.+....+.++|.+.+..-.+ + ++.++| +.+..|.. ++ + .....|-+.|+.
T Consensus 139 ~~Rne~~k~gislvpLvaPsTtdeRmell~~~ad-s--FiYvVS-rmG~TG~~---~s--v-------n~~l~~L~qrvr 202 (268)
T KOG4175|consen 139 TLRNEARKHGISLVPLVAPSTTDERMELLVEAAD-S--FIYVVS-RMGVTGTR---ES--V-------NEKLQSLLQRVR 202 (268)
T ss_pred HHHHHHHhcCceEEEeeCCCChHHHHHHHHHhhc-c--eEEEEE-eccccccH---HH--H-------HHHHHHHHHHHH
Confidence 3556678889999999888888899888877643 2 555666 55555533 11 1 223445666666
Q ss_pred hcCCCCcEEEE
Q 032027 84 RIGQTRPVTIY 94 (148)
Q Consensus 84 R~Gq~~~v~v~ 94 (148)
..-..+++-|=
T Consensus 203 k~t~dtPlAVG 213 (268)
T KOG4175|consen 203 KATGDTPLAVG 213 (268)
T ss_pred HhcCCCceeEe
Confidence 65555555543
No 235
>COG2961 ComJ Protein involved in catabolism of external DNA [General function prediction only]
Probab=23.94 E-value=3.3e+02 Score=20.80 Aligned_cols=31 Identities=10% Similarity=0.203 Sum_probs=22.7
Q ss_pred eccccccCcCCCCCCeEEEeCCCCCcchHHHHHH
Q 032027 47 STRAGGQGLNLTGADTVVIHDMDFNPQIDRQAED 80 (148)
Q Consensus 47 s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~g 80 (148)
-+++...|+| ++-+|...|||.-....|...
T Consensus 226 rP~~d~~gm~---gSGMivINPPwtle~ql~~~L 256 (279)
T COG2961 226 RPDSDPRGMN---GSGMIVINPPWTLEQQLRAAL 256 (279)
T ss_pred cCCCCCCCcc---ceeEEEECCCccHHHHHHHHH
Confidence 3455666665 778999999999887777543
No 236
>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=23.60 E-value=1.2e+02 Score=27.56 Aligned_cols=45 Identities=9% Similarity=0.157 Sum_probs=33.4
Q ss_pred HHHHHhcCCCCcceeeeeccccccCcCCCC-CCeEEEeCCCCCcchH
Q 032027 30 AIVDAFNNDTSIFACLLSTRAGGQGLNLTG-ADTVVIHDMDFNPQID 75 (148)
Q Consensus 30 ~~~~~F~~~~~~~vll~s~~~~~~Glnl~~-a~~vi~~d~~~~~~~~ 75 (148)
..++..+.....+.+|++|+.+ .||+.+. ++.+..+..||.|...
T Consensus 1007 ~mV~~ac~entsQyFliTPKLL-pgL~Ysenm~Il~v~ng~~~~~p~ 1052 (1072)
T KOG0979|consen 1007 IMVNMACKENTSQYFLITPKLL-PGLDYSENMKILCVMNGPWIAEPS 1052 (1072)
T ss_pred HHHHHhhcCCCcceEEecchhc-CCCChhhcceEEEEecCCcCCCCc
Confidence 4566666666567789997766 8999865 7777889999987643
No 237
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=23.03 E-value=3.5e+02 Score=20.75 Aligned_cols=94 Identities=17% Similarity=0.044 Sum_probs=52.8
Q ss_pred HHHHHHHHhcCCeEEEEeCC------CCHHHHHHHHHHhcC--CCCcceeeeeccccc--cCcCC------CCCCeEEEe
Q 032027 3 DILEWTLDVIGVTYRRLDGS------TQVTERQAIVDAFNN--DTSIFACLLSTRAGG--QGLNL------TGADTVVIH 66 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~------~~~~~r~~~~~~F~~--~~~~~vll~s~~~~~--~Glnl------~~a~~vi~~ 66 (148)
..+-+.|...|++-+.+.|+ ++.++|.++++...+ ++.+.|++.. .+.+ .-+.+ ..++.+..+
T Consensus 32 ~~lv~~li~~Gv~Gi~v~GstGE~~~Lt~eEr~~v~~~~~~~~~grvpvi~Gv-~~~~t~~ai~~a~~A~~~Gad~vlv~ 110 (309)
T cd00952 32 ARLVERLIAAGVDGILTMGTFGECATLTWEEKQAFVATVVETVAGRVPVFVGA-TTLNTRDTIARTRALLDLGADGTMLG 110 (309)
T ss_pred HHHHHHHHHcCCCEEEECcccccchhCCHHHHHHHHHHHHHHhCCCCCEEEEe-ccCCHHHHHHHHHHHHHhCCCEEEEC
Confidence 44556667789998888887 588999998887753 3334444332 2211 11111 146777777
Q ss_pred CCCCCcchHH---HHHHhhhhcCCCCcEEEEEEE
Q 032027 67 DMDFNPQIDR---QAEDRCHRIGQTRPVTIYRLV 97 (148)
Q Consensus 67 d~~~~~~~~~---Q~~gR~~R~Gq~~~v~v~~l~ 97 (148)
-|.|.+.... +....+..-...-++.+|+.-
T Consensus 111 ~P~y~~~~~~~l~~yf~~va~a~~~lPv~iYn~P 144 (309)
T cd00952 111 RPMWLPLDVDTAVQFYRDVAEAVPEMAIAIYANP 144 (309)
T ss_pred CCcCCCCCHHHHHHHHHHHHHhCCCCcEEEEcCc
Confidence 7766554332 222222221112478888764
No 238
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=22.79 E-value=1.3e+02 Score=25.81 Aligned_cols=42 Identities=10% Similarity=0.143 Sum_probs=30.3
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeecc
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTR 49 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~ 49 (148)
+.|......-++.+..+.|+++....+++++. .+ .+++.++.
T Consensus 281 ~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~---~p--~IVVATPG 322 (731)
T KOG0347|consen 281 QHLKAIAEKTQIRVASITGGLAVQKQQRLLNQ---RP--DIVVATPG 322 (731)
T ss_pred HHHHHhccccCeEEEEeechhHHHHHHHHHhc---CC--CEEEecch
Confidence 34455555679999999999999888888877 23 44666653
No 239
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=22.68 E-value=1.5e+02 Score=16.18 Aligned_cols=43 Identities=14% Similarity=0.212 Sum_probs=29.3
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeee
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLL 46 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~ 46 (148)
....++|+..|+++..++=+...+.++...+.... ...+.+++
T Consensus 13 ~~~~~~L~~~~i~y~~~dv~~~~~~~~~l~~~~g~-~~~P~v~i 55 (60)
T PF00462_consen 13 KKAKEFLDEKGIPYEEVDVDEDEEAREELKELSGV-RTVPQVFI 55 (60)
T ss_dssp HHHHHHHHHTTBEEEEEEGGGSHHHHHHHHHHHSS-SSSSEEEE
T ss_pred HHHHHHHHHcCCeeeEcccccchhHHHHHHHHcCC-CccCEEEE
Confidence 45678899999999888888777666666555532 33444443
No 240
>PF09445 Methyltransf_15: RNA cap guanine-N2 methyltransferase; InterPro: IPR019012 RNA cap guanine-N2 methyltransferases such as Schizosaccharomyces pombe (Fission yeast) trimethylguanosine synthase (Tgs1) and Giardia lamblia (Giardia intestinalis) Tgs2, catalyse the methylation step(s) for the conversion of the 7-monomethylguanosine (m(7)G) caps of snRNAs and snoRNAs to a 2,2,7-trimethylguanosine (m(2,2,7)G) cap structure [, , ]. Trimethylguanosine synthase is specific for guanine, and N7 methylation must precede N2 methylation. This enzyme is required for pre-mRNA splicing, pre-rRNA processing and small ribosomal subunit synthesis. As such, this enzyme plays a role in transcriptional regulation. ; GO: 0008168 methyltransferase activity, 0001510 RNA methylation, 0009452 RNA capping; PDB: 3EGI_B 3GDH_A.
Probab=22.66 E-value=42 Score=23.51 Aligned_cols=16 Identities=13% Similarity=-0.076 Sum_probs=9.2
Q ss_pred CeEEEeCCCCCcchHH
Q 032027 61 DTVVIHDMDFNPQIDR 76 (148)
Q Consensus 61 ~~vi~~d~~~~~~~~~ 76 (148)
-.+||++|||....|.
T Consensus 70 ~D~vFlSPPWGGp~Y~ 85 (163)
T PF09445_consen 70 FDVVFLSPPWGGPSYS 85 (163)
T ss_dssp -SEEEE---BSSGGGG
T ss_pred ccEEEECCCCCCcccc
Confidence 3578999999876664
No 241
>PRK01222 N-(5'-phosphoribosyl)anthranilate isomerase; Provisional
Probab=22.59 E-value=2.1e+02 Score=20.65 Aligned_cols=33 Identities=6% Similarity=0.089 Sum_probs=24.8
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHH
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDA 34 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~ 34 (148)
.+.+.+.++..++.++.+||..+++.-......
T Consensus 66 ~~~i~~~~~~~~~d~vQLHg~e~~~~~~~l~~~ 98 (210)
T PRK01222 66 DEEIDEIVETVPLDLLQLHGDETPEFCRQLKRR 98 (210)
T ss_pred HHHHHHHHHhcCCCEEEECCCCCHHHHHHHHhh
Confidence 456777888889999999999887665444433
No 242
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=22.49 E-value=1.7e+02 Score=24.78 Aligned_cols=56 Identities=7% Similarity=0.108 Sum_probs=33.2
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccc------cCcCCCCCCeEEE
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGG------QGLNLTGADTVVI 65 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~------~Glnl~~a~~vi~ 65 (148)
+..+....++.+..++|+.+.......+. . .+.|+++++...- ..+++..+..+|+
T Consensus 104 ~~~l~~~~~i~v~~l~Gg~~~~~q~~~l~---~--~~dIiV~TP~rL~~~l~~~~~~~l~~v~~lVi 165 (572)
T PRK04537 104 AVKFGADLGLRFALVYGGVDYDKQRELLQ---Q--GVDVIIATPGRLIDYVKQHKVVSLHACEICVL 165 (572)
T ss_pred HHHHhccCCceEEEEECCCCHHHHHHHHh---C--CCCEEEECHHHHHHHHHhccccchhheeeeEe
Confidence 34444556888999999988766554443 2 3456777764321 1345555555554
No 243
>PRK03094 hypothetical protein; Provisional
Probab=22.36 E-value=98 Score=19.03 Aligned_cols=20 Identities=20% Similarity=0.175 Sum_probs=16.8
Q ss_pred HHHHHHHHHhcCCeEEEEeC
Q 032027 2 LDILEWTLDVIGVTYRRLDG 21 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G 21 (148)
|.-|.++|+.+|+.++.+.+
T Consensus 10 Ls~i~~~L~~~GYeVv~l~~ 29 (80)
T PRK03094 10 LTDVQQALKQKGYEVVQLRS 29 (80)
T ss_pred cHHHHHHHHHCCCEEEecCc
Confidence 45588999999999998875
No 244
>PRK10329 glutaredoxin-like protein; Provisional
Probab=22.18 E-value=1.9e+02 Score=17.30 Aligned_cols=44 Identities=2% Similarity=0.039 Sum_probs=28.6
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeee
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLS 47 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s 47 (148)
.+.+..+|++.|++|..++=...++.++.... . ....+.++++.
T Consensus 14 C~~ak~~L~~~gI~~~~idi~~~~~~~~~~~~-~-g~~~vPvv~i~ 57 (81)
T PRK10329 14 CHATKRAMESRGFDFEMINVDRVPEAAETLRA-Q-GFRQLPVVIAG 57 (81)
T ss_pred HHHHHHHHHHCCCceEEEECCCCHHHHHHHHH-c-CCCCcCEEEEC
Confidence 35678899999999998888776655554433 2 22345555543
No 245
>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=22.11 E-value=2.2e+02 Score=19.67 Aligned_cols=40 Identities=5% Similarity=-0.025 Sum_probs=22.9
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeecc
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTR 49 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~ 49 (148)
+..+....++.+..++|+.+..+.... +. .++.++++++.
T Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~--~~~~iiv~T~~ 128 (203)
T cd00268 89 ARKLGKHTNLKVVVIYGGTSIDKQIRK---LK--RGPHIVVATPG 128 (203)
T ss_pred HHHHhccCCceEEEEECCCCHHHHHHH---hc--CCCCEEEEChH
Confidence 334444457788888888876554332 22 23455666654
No 246
>KOG1447 consensus GTP-specific succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=22.04 E-value=2.3e+02 Score=21.94 Aligned_cols=91 Identities=22% Similarity=0.222 Sum_probs=52.0
Q ss_pred HHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccccCcCC--CCCCeEEEeCCCCCc--chHHHHHHhh
Q 032027 7 WTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGGQGLNL--TGADTVVIHDMDFNP--QIDRQAEDRC 82 (148)
Q Consensus 7 ~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~~Glnl--~~a~~vi~~d~~~~~--~~~~Q~~gR~ 82 (148)
+.|.+.|..+-.+.-.-+..+-.+...+|+... .|+=...-++|+|-.. ....--++....-|. ....|-+|--
T Consensus 29 ~~l~k~Gv~vQ~F~Va~n~kea~E~~k~f~~~E--yVvKAQILAGGRGKG~F~nG~KGGVhiTk~k~~vl~l~~qMIG~r 106 (412)
T KOG1447|consen 29 EILSKNGVRVQRFFVADNAKEALEAAKRFNAKE--YVVKAQILAGGRGKGVFNNGLKGGVHITKDKNVVLQLAKQMIGYR 106 (412)
T ss_pred HHHHhcCeeEEEEEEecCcHHHHHHHHhcCCcc--eEEeeeeeecCcccceecCCccceeEEecCHhHHHHHHHHHHhhh
Confidence 567788998877776667677888888997654 5566666778887653 222233444333222 2223556543
Q ss_pred hhcCCC-C-cEEEEEEEeC
Q 032027 83 HRIGQT-R-PVTIYRLVTK 99 (148)
Q Consensus 83 ~R~Gq~-~-~v~v~~l~~~ 99 (148)
.-.-|+ + .|.|-.....
T Consensus 107 L~TKQTpkeGv~VnKVMvA 125 (412)
T KOG1447|consen 107 LATKQTPKEGVKVNKVMVA 125 (412)
T ss_pred hhhccCCccceeeeeEEEe
Confidence 333343 2 2655554443
No 247
>PF08360 TetR_C_5: QacR-like protein, C-terminal region; InterPro: IPR013571 This entry represents the C-terminal domain found in the multidrug-binding transcription regulator QacR (P23217 from SWISSPROT) from Staphylococcus aureus, which is a member of the TetR (tetracycline-resistance) transcriptional regulator family of proteins. QacR is able to bind various environmental agents, which include a number of cationic lipophilic compounds, and thus regulate the transcription of QacA (P23215 from SWISSPROT), a multidrug efflux pump []. The C-terminal region of QacR contains a multifaceted, expansive drug-binding pocket, which is composed of several separate, but linked, binding sites []. The C-terminal domains of QacR and TetR share a multi-helical, interlocking structure.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G0E_E 1JUM_A 1RPW_D 1QVT_B 2HQ5_D 1JT0_B 2DTZ_E 1JUP_D 1JT6_D 1JUS_E ....
Probab=22.01 E-value=1.9e+02 Score=19.22 Aligned_cols=47 Identities=26% Similarity=0.289 Sum_probs=33.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHhcCcccCCCCCCchhHHHHHHHhhhc
Q 032027 101 TVDENVYEIAKRKLILDAAVLESGVEVDNEGDTSDKTMGEILSSILM 147 (148)
Q Consensus 101 t~ee~i~~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 147 (148)
.+.+++..+...-......++..|....+....+-+.+.-++-..+.
T Consensus 54 ev~~~l~~i~~~~~~~~~~ileeGI~~GEF~~~dv~~~a~il~s~l~ 100 (131)
T PF08360_consen 54 EVLEKLNEIRRKYLEFFQKILEEGIDSGEFSIDDVEELAYILMSLLD 100 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTTSS--STHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHH
Confidence 47888888888888899999998888777766655666655555443
No 248
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=21.81 E-value=5.2e+02 Score=22.21 Aligned_cols=53 Identities=11% Similarity=0.110 Sum_probs=36.9
Q ss_pred HhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeecccc-----ccCcCCCCCCeEEEeC
Q 032027 10 DVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAG-----GQGLNLTGADTVVIHD 67 (148)
Q Consensus 10 ~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~-----~~Glnl~~a~~vi~~d 67 (148)
+.-|+.++.+||+.+.-+....++ .+. -++++++.-. --++||.+++++++=+
T Consensus 321 K~ygl~~v~~ygGgsk~eQ~k~Lk---~g~--EivVaTPgRlid~VkmKatn~~rvS~LV~DE 378 (731)
T KOG0339|consen 321 KAYGLRVVAVYGGGSKWEQSKELK---EGA--EIVVATPGRLIDMVKMKATNLSRVSYLVLDE 378 (731)
T ss_pred hhccceEEEeecCCcHHHHHHhhh---cCC--eEEEechHHHHHHHHhhcccceeeeEEEEec
Confidence 556999999999999877766665 333 3456655321 1478899988888744
No 249
>PLN02790 transketolase
Probab=21.74 E-value=4.7e+02 Score=22.60 Aligned_cols=78 Identities=9% Similarity=0.011 Sum_probs=47.1
Q ss_pred HHHHHHHhcCCeEEEEeCC-CCHHHHHHHHHHhcC-CCCcceeeeeccccccCcCCCCCCeEEEeCCCCCcchHHHHHHh
Q 032027 4 ILEWTLDVIGVTYRRLDGS-TQVTERQAIVDAFNN-DTSIFACLLSTRAGGQGLNLTGADTVVIHDMDFNPQIDRQAEDR 81 (148)
Q Consensus 4 ~l~~~L~~~~~~~~~~~G~-~~~~~r~~~~~~F~~-~~~~~vll~s~~~~~~Glnl~~a~~vi~~d~~~~~~~~~Q~~gR 81 (148)
-+.+.++..|+++..++|+ ...++-.++++.-.+ .+.+.++.+. ..-|.|........-.+ ..+.++..+.|+...
T Consensus 191 ~~~~~f~a~G~~~~~vdgg~hd~~~l~~a~~~a~~~~~~P~lI~~~-T~kG~G~~~~e~~~~~H-~~~~~~~~~~~~~~~ 268 (654)
T PLN02790 191 DVDKRYEALGWHTIWVKNGNTDYDEIRAAIKEAKAVTDKPTLIKVT-TTIGYGSPNKANSYSVH-GAALGEKEVDATRKN 268 (654)
T ss_pred hHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCeEEEEEE-EeecCCCccccCCCCcC-CCCCCHHHHHHHHHH
Confidence 3566778889999999887 577777777776654 3334444444 34457776422222222 344456666666665
Q ss_pred hh
Q 032027 82 CH 83 (148)
Q Consensus 82 ~~ 83 (148)
.+
T Consensus 269 l~ 270 (654)
T PLN02790 269 LG 270 (654)
T ss_pred hC
Confidence 54
No 250
>PF03602 Cons_hypoth95: Conserved hypothetical protein 95; InterPro: IPR004398 This entry contains Ribosomal RNA small subunit methyltransferase D as well as the putative rRNA methyltransferase YlbH. They methylate the guanosine in position 966 of 16S rRNA in the assembled 30S particle [].; GO: 0008168 methyltransferase activity, 0031167 rRNA methylation; PDB: 3P9N_A 2ESR_B 2IFT_A 1WS6_A 2FPO_B 2FHP_A.
Probab=21.57 E-value=1.3e+02 Score=21.29 Aligned_cols=28 Identities=4% Similarity=-0.013 Sum_probs=18.7
Q ss_pred CCCeEEEeCCCCCcchH-HHHHHhhhhcC
Q 032027 59 GADTVVIHDMDFNPQID-RQAEDRCHRIG 86 (148)
Q Consensus 59 ~a~~vi~~d~~~~~~~~-~Q~~gR~~R~G 86 (148)
..-.+|++|||+....+ .+....+...+
T Consensus 113 ~~fDiIflDPPY~~~~~~~~~l~~l~~~~ 141 (183)
T PF03602_consen 113 EKFDIIFLDPPYAKGLYYEELLELLAENN 141 (183)
T ss_dssp S-EEEEEE--STTSCHHHHHHHHHHHHTT
T ss_pred CCceEEEECCCcccchHHHHHHHHHHHCC
Confidence 34568999999999884 77777776533
No 251
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=21.08 E-value=1.4e+02 Score=26.70 Aligned_cols=45 Identities=20% Similarity=0.211 Sum_probs=31.7
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeecccc
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAG 51 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~ 51 (148)
..-|...++..|+++..-||.+++.+|++... ++ +.+|+.++.+.
T Consensus 90 ~~rL~~~~~~~G~~v~vRhGDT~~~er~r~~~---~P--PdILiTTPEsL 134 (814)
T COG1201 90 RRRLEEPLRELGIEVAVRHGDTPQSEKQKMLK---NP--PHILITTPESL 134 (814)
T ss_pred HHHHHHHHHHcCCccceecCCCChHHhhhccC---CC--CcEEEeChhHH
Confidence 34567778889999999999999998876331 22 35566666553
No 252
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=21.03 E-value=2.7e+02 Score=22.16 Aligned_cols=56 Identities=14% Similarity=0.100 Sum_probs=33.4
Q ss_pred HHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccc-----cCcCCCCCCeEEE
Q 032027 5 LEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGG-----QGLNLTGADTVVI 65 (148)
Q Consensus 5 l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~-----~Glnl~~a~~vi~ 65 (148)
+....+..++++..++|+.+.......+ .. .+.|+++++.... ..+++.....+|+
T Consensus 103 ~~~l~~~~~~~v~~~~gg~~~~~~~~~l---~~--~~~IlV~TP~~l~~~l~~~~~~l~~v~~lVi 163 (423)
T PRK04837 103 AEPLAQATGLKLGLAYGGDGYDKQLKVL---ES--GVDILIGTTGRLIDYAKQNHINLGAIQVVVL 163 (423)
T ss_pred HHHHhccCCceEEEEECCCCHHHHHHHh---cC--CCCEEEECHHHHHHHHHcCCcccccccEEEE
Confidence 3344455688999999987765443333 22 3466787775432 2455666666665
No 253
>PF08497 Radical_SAM_N: Radical SAM N-terminal; InterPro: IPR013704 This domain tends to occur to the N terminus of PF04055 from PFAM radical SAM domain in hypothetical bacterial proteins. Proteins in this entry are radical SAM proteins, they catalyse diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].
Probab=20.89 E-value=1.6e+02 Score=22.92 Aligned_cols=76 Identities=14% Similarity=0.154 Sum_probs=52.1
Q ss_pred CCeEEEeCCCCCcchHHHHHHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcCcccCCCCCCchhHHH
Q 032027 60 ADTVVIHDMDFNPQIDRQAEDRCHRIGQTRPVTIYRLVTKGTVDENVYEIAKRKLILDAAVLESGVEVDNEGDTSDKTMG 139 (148)
Q Consensus 60 a~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~l~~~~t~ee~i~~~~~~K~~~~~~~~~~~~~~~~~~~~~~~~~~ 139 (148)
-..-|+-.|.|+......+.|| -..+..++.|.+|.-+...-..|+.-.+.....+.....-.+.+.-...
T Consensus 47 yrVgIiaQPdw~~~~df~~lG~---------PrLff~VsaGn~DSMV~hYTa~kk~R~~DaYtPGG~~g~RPDRAtiVY~ 117 (302)
T PF08497_consen 47 YRVGIIAQPDWRSPEDFKRLGR---------PRLFFGVSAGNMDSMVNHYTASKKRRSDDAYTPGGKAGRRPDRATIVYT 117 (302)
T ss_pred CeEEEEeCCCCCChHHHHHhCC---------CcEEEEEccccHHHHHHhhccccccccccCCCCCCCCCCCCCchhhHHH
Confidence 4556888999987765555444 4678899999999988887777777666666666655555555444444
Q ss_pred HHHHh
Q 032027 140 EILSS 144 (148)
Q Consensus 140 ~~l~~ 144 (148)
.+++.
T Consensus 118 n~ir~ 122 (302)
T PF08497_consen 118 NLIRE 122 (302)
T ss_pred HHHHH
Confidence 44444
No 254
>PRK09482 flap endonuclease-like protein; Provisional
Probab=20.85 E-value=2.4e+02 Score=21.31 Aligned_cols=48 Identities=15% Similarity=0.158 Sum_probs=32.6
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccc
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRA 50 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~ 50 (148)
+..+.+.|...|+++....|--...--.....+|...+ ..|+++|++-
T Consensus 86 ~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~-~~v~I~S~DK 133 (256)
T PRK09482 86 LPAIRAAFEELGIDSWHADGNEADDLIATLAVKVAQAG-HQATIVSTDK 133 (256)
T ss_pred HHHHHHHHHhCCCCEeccCCcCHHHHHHHHHHHHHHCC-CeEEEEECCC
Confidence 45778889999999988777555444455555665443 4677877653
No 255
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=20.40 E-value=3.6e+02 Score=19.80 Aligned_cols=34 Identities=12% Similarity=0.191 Sum_probs=28.1
Q ss_pred HHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcC
Q 032027 3 DILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNN 37 (148)
Q Consensus 3 ~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~ 37 (148)
+.|.+.|+..|+.+ ..+-..+..+-.+.+.+|..
T Consensus 35 ~~l~~~f~~lgF~V-~~~~nlt~~~~~~~l~~f~~ 68 (243)
T cd00032 35 ENLTKLFESLGYEV-EVKNNLTAEEILEELKEFAS 68 (243)
T ss_pred HHHHHHHHHCCCEE-EEeCCCCHHHHHHHHHHHHh
Confidence 56889999999986 45677788888999999974
No 256
>TIGR01957 nuoB_fam NADH-quinone oxidoreductase, B subunit. This model describes the B chain of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoB. The quinone is plastoquinone in Synechocystis (where the chain is designated K) and in chloroplast, where NADH may be replaced by NADPH. In the methanogenic archaeal genus Methanosarcina, NADH is replaced by F420H2.
Probab=20.23 E-value=3e+02 Score=18.88 Aligned_cols=34 Identities=6% Similarity=-0.024 Sum_probs=25.0
Q ss_pred CCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeee
Q 032027 13 GVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLL 46 (148)
Q Consensus 13 ~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~ 46 (148)
..+...+.|..+.+....+.+-++.-+..+.++.
T Consensus 57 ~aDvllVtG~vt~~~~~~l~~~~e~~p~pk~VIA 90 (145)
T TIGR01957 57 QADVMIVAGTVTKKMAPALRRLYDQMPEPKWVIS 90 (145)
T ss_pred cceEEEEecCCcHHHHHHHHHHHHhccCCceEEE
Confidence 3568899999999988888887876554454443
No 257
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=20.14 E-value=3.8e+02 Score=19.98 Aligned_cols=87 Identities=16% Similarity=0.189 Sum_probs=47.9
Q ss_pred HHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHhcCCCCcceeeeeccccc-cCcC-CCCC-CeEEEeCCC-CCc-----
Q 032027 2 LDILEWTLDVIGVTYRRLDGSTQVTERQAIVDAFNNDTSIFACLLSTRAGG-QGLN-LTGA-DTVVIHDMD-FNP----- 72 (148)
Q Consensus 2 l~~l~~~L~~~~~~~~~~~G~~~~~~r~~~~~~F~~~~~~~vll~s~~~~~-~Gln-l~~a-~~vi~~d~~-~~~----- 72 (148)
+.-+++.++..|+....+......+.. +.++.+.... +.-+++.+.... .-+. +... --+|+++.. .++
T Consensus 20 i~gIe~~a~~~Gy~l~l~~t~~~~~~e-~~i~~l~~~~-vDGiI~~s~~~~~~~l~~~~~~~iPvV~~~~~~~~~~~~~~ 97 (279)
T PF00532_consen 20 IRGIEQEAREHGYQLLLCNTGDDEEKE-EYIELLLQRR-VDGIILASSENDDEELRRLIKSGIPVVLIDRYIDNPEGVPS 97 (279)
T ss_dssp HHHHHHHHHHTTCEEEEEEETTTHHHH-HHHHHHHHTT-SSEEEEESSSCTCHHHHHHHHTTSEEEEESS-SCTTCTSCE
T ss_pred HHHHHHHHHHcCCEEEEecCCCchHHH-HHHHHHHhcC-CCEEEEecccCChHHHHHHHHcCCCEEEEEeccCCcccCCE
Confidence 456788899999998777766665444 7777776543 222333322221 1111 1111 234555544 222
Q ss_pred ------chHHHHHHhhhhcCCCCc
Q 032027 73 ------QIDRQAEDRCHRIGQTRP 90 (148)
Q Consensus 73 ------~~~~Q~~gR~~R~Gq~~~ 90 (148)
..-.++..+....|-+++
T Consensus 98 V~~D~~~a~~~a~~~Li~~Gh~~~ 121 (279)
T PF00532_consen 98 VYIDNYEAGYEATEYLIKKGHRRP 121 (279)
T ss_dssp EEEEHHHHHHHHHHHHHHTTCCST
T ss_pred EEEcchHHHHHHHHHHHhcccCCe
Confidence 122377777888888776
Done!