Query 045263
Match_columns 742
No_of_seqs 370 out of 2742
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 11:30:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045263.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045263hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG1200 RecG RecG-like helicas 100.0 4E-94 8.6E-99 809.0 42.3 446 209-735 10-459 (677)
2 PRK10917 ATP-dependent DNA hel 100.0 2.3E-77 5.1E-82 704.6 48.7 450 206-735 6-457 (681)
3 TIGR00643 recG ATP-dependent D 100.0 3.4E-71 7.3E-76 647.9 47.4 431 228-735 1-434 (630)
4 COG1197 Mfd Transcription-repa 100.0 8E-40 1.7E-44 386.6 24.8 222 491-740 574-795 (1139)
5 TIGR00580 mfd transcription-re 100.0 6.6E-34 1.4E-38 341.9 28.3 213 495-735 435-647 (926)
6 PRK10689 transcription-repair 100.0 1.7E-30 3.7E-35 318.5 28.6 211 495-733 584-794 (1147)
7 PRK05580 primosome assembly pr 99.9 5E-24 1.1E-28 251.7 23.0 203 506-734 139-341 (679)
8 TIGR00595 priA primosomal prot 99.9 8.2E-23 1.8E-27 233.8 18.2 177 536-735 1-177 (505)
9 COG1198 PriA Primosomal protei 99.9 3.7E-23 7.9E-28 241.2 15.1 202 509-735 196-397 (730)
10 PRK10590 ATP-dependent RNA hel 99.8 4.1E-20 8.9E-25 209.8 21.2 196 499-729 11-224 (456)
11 PRK11776 ATP-dependent RNA hel 99.8 6.8E-20 1.5E-24 208.1 20.8 169 505-706 19-197 (460)
12 PF00270 DEAD: DEAD/DEAH box h 99.8 6.5E-20 1.4E-24 178.5 17.5 159 513-702 1-166 (169)
13 PRK11192 ATP-dependent RNA hel 99.8 2E-19 4.3E-24 202.7 22.3 173 499-705 11-196 (434)
14 PRK04837 ATP-dependent RNA hel 99.8 2.2E-19 4.8E-24 201.8 21.6 138 498-651 17-170 (423)
15 PLN00206 DEAD-box ATP-dependen 99.8 2.3E-19 5E-24 206.7 20.5 172 498-705 130-318 (518)
16 TIGR03817 DECH_helic helicase/ 99.8 8.7E-19 1.9E-23 209.1 22.7 184 500-716 24-223 (742)
17 cd00268 DEADc DEAD-box helicas 99.8 1E-18 2.2E-23 176.1 19.7 172 500-705 10-192 (203)
18 PTZ00110 helicase; Provisional 99.8 4E-19 8.7E-24 205.7 18.8 136 501-651 141-290 (545)
19 PRK01297 ATP-dependent RNA hel 99.8 1.2E-18 2.6E-23 198.8 21.9 139 498-651 96-250 (475)
20 PRK04537 ATP-dependent RNA hel 99.8 7.2E-19 1.6E-23 204.6 19.7 173 498-706 18-211 (572)
21 PTZ00424 helicase 45; Provisio 99.8 2.1E-18 4.6E-23 191.8 22.3 172 499-705 38-219 (401)
22 PRK11634 ATP-dependent RNA hel 99.8 1.5E-18 3.3E-23 203.4 21.8 138 499-651 16-162 (629)
23 COG0513 SrmB Superfamily II DN 99.8 2.3E-18 5.1E-23 197.9 21.4 166 498-701 38-219 (513)
24 PRK02362 ski2-like helicase; P 99.8 2E-18 4.3E-23 206.8 18.7 177 499-709 11-194 (737)
25 PRK00254 ski2-like helicase; P 99.8 2.3E-18 5.1E-23 205.7 19.0 173 502-710 13-193 (720)
26 PRK09401 reverse gyrase; Revie 99.8 6.3E-18 1.4E-22 208.7 22.3 142 499-651 68-214 (1176)
27 TIGR00614 recQ_fam ATP-depende 99.8 7E-18 1.5E-22 192.3 20.7 168 504-706 3-181 (470)
28 PRK01172 ski2-like helicase; P 99.8 4.9E-18 1.1E-22 201.7 19.1 173 503-709 14-192 (674)
29 KOG0348 ATP-dependent RNA heli 99.8 9.2E-19 2E-23 192.1 11.0 142 499-655 146-307 (708)
30 KOG0345 ATP-dependent RNA heli 99.8 6.7E-18 1.4E-22 183.4 17.3 183 498-715 14-216 (567)
31 KOG0331 ATP-dependent RNA heli 99.8 3.1E-18 6.8E-23 192.2 14.7 139 501-654 102-258 (519)
32 KOG0344 ATP-dependent RNA heli 99.8 6.3E-20 1.4E-24 204.2 1.0 453 117-656 1-474 (593)
33 KOG0330 ATP-dependent RNA heli 99.8 4E-18 8.8E-23 181.6 12.2 166 498-697 70-245 (476)
34 PRK14701 reverse gyrase; Provi 99.8 4.3E-17 9.3E-22 205.5 23.2 144 499-651 67-213 (1638)
35 TIGR01054 rgy reverse gyrase. 99.7 3.4E-17 7.4E-22 202.4 20.7 143 498-651 65-212 (1171)
36 COG1201 Lhr Lhr-like helicases 99.7 2.6E-17 5.7E-22 193.8 18.5 195 499-723 10-220 (814)
37 PRK13767 ATP-dependent helicas 99.7 3.6E-17 7.8E-22 198.7 18.8 175 511-709 32-230 (876)
38 TIGR01389 recQ ATP-dependent D 99.7 4.9E-17 1.1E-21 190.4 18.9 170 502-706 3-181 (591)
39 PRK14873 primosome assembly pr 99.7 1.1E-17 2.3E-22 196.2 13.0 173 539-733 167-339 (665)
40 COG1204 Superfamily II helicas 99.7 2.2E-17 4.8E-22 196.0 15.2 191 499-722 18-216 (766)
41 COG1111 MPH1 ERCC4-like helica 99.7 2.5E-17 5.5E-22 181.2 14.3 153 510-698 14-173 (542)
42 KOG0338 ATP-dependent RNA heli 99.7 3E-17 6.5E-22 179.5 14.6 167 505-705 196-376 (691)
43 KOG0342 ATP-dependent RNA heli 99.7 2.9E-17 6.3E-22 179.6 13.8 187 498-721 90-296 (543)
44 PHA02558 uvsW UvsW helicase; P 99.7 5.7E-17 1.2E-21 186.2 15.8 146 509-698 112-260 (501)
45 PRK11057 ATP-dependent DNA hel 99.7 3.3E-16 7.2E-21 183.8 20.0 169 502-705 15-192 (607)
46 PF04851 ResIII: Type III rest 99.7 5.5E-17 1.2E-21 159.2 10.5 159 510-698 2-183 (184)
47 TIGR00963 secA preprotein tran 99.7 2.9E-17 6.4E-22 191.6 9.9 163 501-703 46-221 (745)
48 COG1205 Distinct helicase fami 99.7 6.1E-16 1.3E-20 186.1 20.9 205 498-730 57-276 (851)
49 KOG0343 RNA Helicase [RNA proc 99.7 8.8E-17 1.9E-21 177.2 12.2 173 506-716 85-277 (758)
50 KOG0346 RNA helicase [RNA proc 99.7 8.7E-17 1.9E-21 173.4 11.4 197 502-733 31-250 (569)
51 PLN03137 ATP-dependent DNA hel 99.7 8.3E-16 1.8E-20 184.8 20.2 199 498-732 446-662 (1195)
52 KOG0347 RNA helicase [RNA proc 99.7 6.2E-17 1.3E-21 178.3 9.1 162 505-697 196-386 (731)
53 KOG0335 ATP-dependent RNA heli 99.7 5.4E-16 1.2E-20 171.8 13.2 130 506-650 90-238 (482)
54 KOG0339 ATP-dependent RNA heli 99.7 1.1E-15 2.3E-20 167.2 15.2 166 497-698 231-412 (731)
55 PRK13766 Hef nuclease; Provisi 99.6 1.5E-15 3.2E-20 183.2 17.1 154 509-698 13-173 (773)
56 smart00487 DEXDc DEAD-like hel 99.6 9.6E-15 2.1E-19 143.2 19.1 166 508-705 5-178 (201)
57 KOG0952 DNA/RNA helicase MER3/ 99.6 9.7E-16 2.1E-20 179.0 13.5 174 506-708 104-297 (1230)
58 COG4581 Superfamily II RNA hel 99.6 1.5E-15 3.2E-20 181.5 15.3 178 502-719 110-297 (1041)
59 KOG0328 Predicted ATP-dependen 99.6 3.6E-16 7.8E-21 160.7 8.5 205 498-737 36-252 (400)
60 KOG0333 U5 snRNP-like RNA heli 99.6 3E-15 6.6E-20 164.5 15.1 217 504-735 259-504 (673)
61 KOG0340 ATP-dependent RNA heli 99.6 1.6E-15 3.4E-20 160.4 11.4 177 496-706 13-202 (442)
62 KOG0350 DEAD-box ATP-dependent 99.6 1.7E-15 3.7E-20 165.8 11.7 137 511-655 159-312 (620)
63 TIGR02621 cas3_GSU0051 CRISPR- 99.6 6.3E-15 1.4E-19 174.7 16.0 141 500-649 4-182 (844)
64 PRK09751 putative ATP-dependen 99.6 6.2E-15 1.3E-19 183.5 15.2 157 537-715 1-188 (1490)
65 COG1061 SSL2 DNA or RNA helica 99.6 7.7E-15 1.7E-19 166.1 14.7 150 507-702 32-187 (442)
66 TIGR00603 rad25 DNA repair hel 99.6 1.2E-14 2.6E-19 170.7 15.3 147 509-698 253-412 (732)
67 TIGR03158 cas3_cyano CRISPR-as 99.6 3.2E-14 6.8E-19 157.0 17.7 170 515-705 1-199 (357)
68 KOG4284 DEAD box protein [Tran 99.6 4.6E-15 1E-19 165.8 10.6 192 506-732 41-246 (980)
69 KOG0354 DEAD-box like helicase 99.6 7.7E-15 1.7E-19 169.8 11.7 156 509-700 60-224 (746)
70 KOG0337 ATP-dependent RNA heli 99.6 1.1E-14 2.3E-19 156.9 10.2 172 503-711 34-219 (529)
71 KOG0334 RNA helicase [RNA proc 99.6 1.4E-14 3.1E-19 170.5 12.0 163 504-704 379-562 (997)
72 cd00046 DEXDc DEAD-like helica 99.5 8.2E-14 1.8E-18 128.7 14.5 136 534-697 2-144 (144)
73 KOG0326 ATP-dependent RNA heli 99.5 2.6E-15 5.6E-20 156.6 3.5 178 507-718 102-292 (459)
74 COG1202 Superfamily II helicas 99.5 4.8E-14 1E-18 156.4 12.1 189 500-719 204-403 (830)
75 KOG0341 DEAD-box protein abstr 99.5 2.4E-14 5.2E-19 152.4 5.3 192 493-716 174-386 (610)
76 PRK11448 hsdR type I restricti 99.5 2.5E-13 5.4E-18 167.5 14.6 129 510-650 412-552 (1123)
77 PHA02653 RNA helicase NPH-II; 99.5 5.4E-13 1.2E-17 157.0 16.4 186 512-732 161-365 (675)
78 KOG0336 ATP-dependent RNA heli 99.5 1.5E-13 3.3E-18 147.2 9.8 167 505-708 235-421 (629)
79 PRK12899 secA preprotein trans 99.5 3.3E-13 7.1E-18 159.9 13.3 126 508-650 89-227 (970)
80 PRK09200 preprotein translocas 99.5 7.6E-13 1.6E-17 157.0 15.9 133 500-651 67-212 (790)
81 KOG0327 Translation initiation 99.4 1.3E-13 2.8E-18 147.8 8.3 169 506-707 42-220 (397)
82 KOG0329 ATP-dependent RNA heli 99.4 1.5E-13 3.3E-18 139.7 8.3 129 508-650 60-197 (387)
83 TIGR01587 cas3_core CRISPR-ass 99.4 8.1E-13 1.8E-17 145.2 14.5 146 535-707 2-174 (358)
84 COG0514 RecQ Superfamily II DN 99.4 1.3E-12 2.8E-17 149.6 15.5 173 501-708 6-187 (590)
85 PRK11664 ATP-dependent RNA hel 99.4 1.3E-12 2.9E-17 157.1 16.2 175 519-733 9-191 (812)
86 KOG0948 Nuclear exosomal RNA h 99.4 6.9E-13 1.5E-17 150.7 12.6 180 506-732 124-313 (1041)
87 PRK12898 secA preprotein trans 99.4 1.1E-12 2.4E-17 152.7 14.2 131 501-650 93-254 (656)
88 KOG0947 Cytoplasmic exosomal R 99.4 1.3E-12 2.9E-17 151.7 14.4 167 497-707 283-455 (1248)
89 TIGR00348 hsdR type I site-spe 99.4 2.8E-12 6.1E-17 152.1 14.7 153 511-699 238-404 (667)
90 COG4098 comFA Superfamily II D 99.4 8.3E-12 1.8E-16 132.2 15.6 177 511-728 97-275 (441)
91 KOG0332 ATP-dependent RNA heli 99.4 1.5E-12 3.2E-17 138.8 9.5 202 500-735 101-314 (477)
92 TIGR01970 DEAH_box_HrpB ATP-de 99.3 1.9E-11 4E-16 147.1 17.5 173 520-732 7-187 (819)
93 COG4096 HsdR Type I site-speci 99.3 2.9E-12 6.2E-17 148.6 9.8 131 511-660 165-307 (875)
94 PRK13104 secA preprotein trans 99.3 1E-11 2.2E-16 147.6 14.5 128 504-650 75-214 (896)
95 PRK13103 secA preprotein trans 99.3 1.3E-11 2.9E-16 146.3 14.5 128 504-650 75-214 (913)
96 PRK09694 helicase Cas3; Provis 99.3 1.4E-11 3.1E-16 148.4 15.1 139 509-656 284-457 (878)
97 TIGR03714 secA2 accessory Sec 99.3 2.1E-11 4.6E-16 143.7 15.3 122 512-650 69-207 (762)
98 PRK12904 preprotein translocas 99.3 1.6E-11 3.4E-16 145.7 14.1 131 502-651 72-214 (830)
99 KOG0344 ATP-dependent RNA heli 99.3 3.3E-12 7.2E-17 143.1 6.9 131 506-650 152-300 (593)
100 COG1110 Reverse gyrase [DNA re 99.3 6.7E-11 1.4E-15 139.2 15.9 144 498-650 69-215 (1187)
101 KOG0951 RNA helicase BRR2, DEA 99.2 7E-11 1.5E-15 140.5 12.2 193 512-735 310-523 (1674)
102 TIGR01407 dinG_rel DnaQ family 99.2 3E-10 6.5E-15 138.6 17.8 96 503-603 237-333 (850)
103 PF00176 SNF2_N: SNF2 family N 99.2 1.2E-10 2.6E-15 123.7 12.3 158 515-703 1-178 (299)
104 KOG0352 ATP-dependent DNA heli 99.2 2.4E-10 5.3E-15 123.6 13.6 174 500-707 7-196 (641)
105 PRK07246 bifunctional ATP-depe 99.2 3.4E-10 7.4E-15 137.0 15.7 87 508-602 242-329 (820)
106 PRK04914 ATP-dependent helicas 99.1 2.7E-10 6E-15 138.3 13.3 128 509-651 150-285 (956)
107 TIGR03117 cas_csf4 CRISPR-asso 99.1 6.5E-10 1.4E-14 129.9 15.8 82 516-602 2-86 (636)
108 PRK12906 secA preprotein trans 99.1 7.4E-10 1.6E-14 131.2 13.9 132 500-650 69-212 (796)
109 PRK12326 preprotein translocas 99.0 1.5E-09 3.3E-14 126.4 13.4 130 502-650 69-210 (764)
110 KOG0351 ATP-dependent DNA heli 99.0 8E-10 1.7E-14 133.5 10.5 197 499-731 251-465 (941)
111 smart00488 DEXDc2 DEAD-like he 99.0 4.4E-09 9.6E-14 113.0 14.3 76 507-584 4-85 (289)
112 smart00489 DEXDc3 DEAD-like he 99.0 4.4E-09 9.6E-14 113.0 14.3 76 507-584 4-85 (289)
113 PLN03142 Probable chromatin-re 99.0 4E-09 8.6E-14 128.9 15.5 160 511-705 169-337 (1033)
114 PRK08074 bifunctional ATP-depe 99.0 4.5E-09 9.7E-14 129.2 15.9 91 504-602 249-345 (928)
115 COG4889 Predicted helicase [Ge 98.9 4.7E-09 1E-13 121.4 10.9 134 507-650 157-316 (1518)
116 PRK13107 preprotein translocas 98.9 6.9E-09 1.5E-13 123.5 12.6 127 505-650 76-214 (908)
117 PRK11747 dinG ATP-dependent DN 98.9 1.7E-08 3.7E-13 120.6 16.2 77 503-579 16-97 (697)
118 PF07652 Flavi_DEAD: Flaviviru 98.9 1.1E-08 2.4E-13 97.9 10.9 98 534-651 6-108 (148)
119 KOG0949 Predicted helicase, DE 98.8 9.8E-09 2.1E-13 120.3 10.0 163 509-707 509-682 (1330)
120 PF07517 SecA_DEAD: SecA DEAD- 98.7 2.3E-07 4.9E-12 98.3 15.9 131 502-651 68-210 (266)
121 KOG0353 ATP-dependent DNA heli 98.7 1.6E-07 3.5E-12 100.6 11.7 173 497-704 78-267 (695)
122 COG1203 CRISPR-associated heli 98.6 1E-07 2.2E-12 114.7 10.7 78 509-588 193-274 (733)
123 PRK11131 ATP-dependent RNA hel 98.6 1.1E-06 2.4E-11 109.3 16.9 156 534-732 91-259 (1294)
124 KOG0385 Chromatin remodeling c 98.5 1.2E-06 2.6E-11 101.3 14.3 162 510-704 166-334 (971)
125 KOG0950 DNA polymerase theta/e 98.5 3.2E-07 7E-12 108.4 9.7 167 512-712 224-403 (1008)
126 CHL00122 secA preprotein trans 98.5 9.4E-07 2E-11 105.3 12.5 130 502-650 67-208 (870)
127 PRK15483 type III restriction- 98.5 3.2E-06 7E-11 102.3 16.9 142 510-652 5-215 (986)
128 PRK12902 secA preprotein trans 98.4 1.4E-06 3.1E-11 103.7 12.7 128 504-650 78-217 (939)
129 TIGR01967 DEAH_box_HrpA ATP-de 98.4 1.4E-06 2.9E-11 108.8 12.8 158 534-732 84-252 (1283)
130 PF13086 AAA_11: AAA domain; P 98.4 1E-06 2.3E-11 89.5 8.8 67 511-582 1-75 (236)
131 KOG0387 Transcription-coupled 98.4 3E-06 6.6E-11 98.5 13.2 163 512-705 206-383 (923)
132 KOG0390 DNA repair protein, SN 98.4 4.9E-06 1.1E-10 98.5 14.8 168 511-705 238-422 (776)
133 KOG1123 RNA polymerase II tran 98.4 2.5E-07 5.4E-12 102.4 3.7 124 511-654 302-438 (776)
134 KOG0389 SNF2 family DNA-depend 98.3 3.8E-06 8.1E-11 97.7 12.0 131 508-650 396-536 (941)
135 COG0610 Type I site-specific r 98.2 1E-05 2.2E-10 99.8 13.7 155 530-718 271-438 (962)
136 cd04488 RecG_wedge_OBF RecG_we 98.1 1.6E-05 3.4E-10 66.7 9.1 72 261-366 1-73 (75)
137 COG0556 UvrB Helicase subunit 98.1 6.7E-06 1.4E-10 92.4 8.3 75 508-586 9-83 (663)
138 PRK12903 secA preprotein trans 98.1 3.3E-05 7.2E-10 92.1 13.3 131 501-650 68-210 (925)
139 KOG0386 Chromatin remodeling c 98.1 1.3E-05 2.8E-10 95.4 9.5 163 511-705 394-566 (1157)
140 COG1643 HrpA HrpA-like helicas 98.0 6.9E-05 1.5E-09 90.5 15.5 162 534-732 67-236 (845)
141 TIGR00631 uvrb excinuclease AB 98.0 4E-05 8.6E-10 91.2 13.3 113 508-631 6-143 (655)
142 KOG0951 RNA helicase BRR2, DEA 98.0 5.7E-06 1.2E-10 99.8 5.3 123 512-651 1144-1266(1674)
143 KOG1803 DNA helicase [Replicat 98.0 1.8E-05 4E-10 90.2 9.0 72 505-581 179-250 (649)
144 COG1200 RecG RecG-like helicas 98.0 1.8E-05 4E-10 91.8 8.7 145 488-661 422-574 (677)
145 TIGR00376 DNA helicase, putati 97.9 8.6E-05 1.9E-09 88.2 14.1 68 510-582 156-223 (637)
146 KOG4439 RNA polymerase II tran 97.9 1.7E-05 3.6E-10 91.4 7.4 130 509-650 323-475 (901)
147 PF02562 PhoH: PhoH-like prote 97.8 3.2E-05 7E-10 79.0 7.0 128 512-660 5-141 (205)
148 PF13604 AAA_30: AAA domain; P 97.8 0.00013 2.8E-09 74.1 11.2 65 511-579 1-65 (196)
149 PF09848 DUF2075: Uncharacteri 97.8 3.9E-05 8.5E-10 84.8 7.3 50 534-583 3-54 (352)
150 TIGR02562 cas3_yersinia CRISPR 97.8 0.00016 3.4E-09 88.0 12.7 86 512-602 409-498 (1110)
151 KOG1802 RNA helicase nonsense 97.8 0.00013 2.9E-09 83.7 11.1 67 511-583 410-477 (935)
152 KOG0388 SNF2 family DNA-depend 97.8 7.5E-05 1.6E-09 86.0 8.7 164 511-705 567-741 (1185)
153 PRK05298 excinuclease ABC subu 97.7 0.00022 4.7E-09 85.2 12.9 115 505-630 6-145 (652)
154 KOG0922 DEAH-box RNA helicase 97.7 0.00034 7.4E-09 80.9 13.3 160 534-732 68-236 (674)
155 COG1199 DinG Rad3-related DNA 97.7 0.00011 2.4E-09 87.7 9.8 76 506-583 10-86 (654)
156 KOG1000 Chromatin remodeling p 97.7 0.0002 4.4E-09 79.9 10.5 120 512-651 199-321 (689)
157 TIGR00604 rad3 DNA repair heli 97.7 0.00011 2.4E-09 88.5 9.2 75 507-583 5-83 (705)
158 KOG0384 Chromodomain-helicase 97.6 0.00017 3.6E-09 87.7 9.0 138 502-650 357-509 (1373)
159 KOG0391 SNF2 family DNA-depend 97.6 0.0002 4.3E-09 86.2 8.8 159 511-705 615-783 (1958)
160 KOG0920 ATP-dependent RNA heli 97.5 0.00081 1.8E-08 81.4 13.9 182 503-730 167-358 (924)
161 PRK12900 secA preprotein trans 97.5 0.00022 4.7E-09 86.5 9.1 104 536-650 155-270 (1025)
162 PF13245 AAA_19: Part of AAA d 97.5 0.00023 4.9E-09 61.4 6.7 47 534-580 12-62 (76)
163 KOG1002 Nucleotide excision re 97.5 0.0003 6.5E-09 78.5 9.2 129 511-654 184-332 (791)
164 TIGR01448 recD_rel helicase, p 97.4 0.0017 3.7E-08 78.4 14.7 72 500-577 312-385 (720)
165 PRK10536 hypothetical protein; 97.4 0.00033 7.2E-09 73.9 7.6 130 512-660 60-198 (262)
166 PRK10689 transcription-repair 97.4 0.0011 2.3E-08 83.6 13.2 97 551-655 800-896 (1147)
167 PRK12901 secA preprotein trans 97.4 0.00043 9.4E-09 84.0 8.4 125 509-650 165-302 (1112)
168 KOG0925 mRNA splicing factor A 97.3 0.0027 5.9E-08 71.1 13.3 162 534-735 64-234 (699)
169 TIGR00643 recG ATP-dependent D 97.3 0.0024 5.3E-08 76.1 14.1 100 550-657 438-545 (630)
170 TIGR00580 mfd transcription-re 97.3 0.0014 3.1E-08 80.7 12.1 96 552-655 652-747 (926)
171 PRK06526 transposase; Provisio 97.3 0.0014 3E-08 69.5 10.2 37 532-568 98-134 (254)
172 KOG0923 mRNA splicing factor A 97.2 0.0024 5.3E-08 73.7 12.2 185 501-733 257-452 (902)
173 PF00580 UvrD-helicase: UvrD/R 97.2 0.00073 1.6E-08 72.1 7.7 67 512-586 1-71 (315)
174 KOG0392 SNF2 family DNA-depend 97.1 0.0018 3.9E-08 79.0 10.0 157 512-703 976-1144(1549)
175 KOG0952 DNA/RNA helicase MER3/ 97.1 0.00038 8.2E-09 83.7 4.3 108 534-653 945-1061(1230)
176 KOG0926 DEAH-box RNA helicase 97.1 0.00073 1.6E-08 79.2 6.3 126 503-654 250-388 (1172)
177 COG1197 Mfd Transcription-repa 97.1 0.0026 5.5E-08 78.3 10.8 104 550-661 793-896 (1139)
178 PRK10917 ATP-dependent DNA hel 97.0 0.0089 1.9E-07 72.0 15.2 99 551-657 462-568 (681)
179 KOG0924 mRNA splicing factor A 97.0 0.009 2E-07 69.4 14.1 180 504-732 351-541 (1042)
180 PF05970 PIF1: PIF1-like helic 97.0 0.0014 3.1E-08 72.9 7.3 66 511-576 1-66 (364)
181 cd00009 AAA The AAA+ (ATPases 97.0 0.0049 1.1E-07 57.0 9.5 55 516-570 3-57 (151)
182 COG0553 HepA Superfamily II DN 96.8 0.0044 9.4E-08 75.8 9.9 132 510-650 337-484 (866)
183 PF12340 DUF3638: Protein of u 96.8 0.024 5.2E-07 59.0 13.5 116 507-631 19-142 (229)
184 KOG0349 Putative DEAD-box RNA 96.8 0.002 4.4E-08 71.0 5.9 86 559-650 285-375 (725)
185 COG0653 SecA Preprotein transl 96.8 0.0066 1.4E-07 72.9 10.6 126 506-650 75-212 (822)
186 COG3587 Restriction endonuclea 96.7 0.011 2.4E-07 70.4 11.8 117 532-652 74-219 (985)
187 PF13401 AAA_22: AAA domain; P 96.7 0.0089 1.9E-07 55.5 9.0 52 534-585 6-63 (131)
188 PF02399 Herpes_ori_bp: Origin 96.6 0.011 2.4E-07 70.7 11.1 149 534-716 51-211 (824)
189 TIGR02768 TraA_Ti Ti-type conj 96.6 0.011 2.5E-07 71.7 11.4 65 508-577 349-413 (744)
190 PRK10875 recD exonuclease V su 96.6 0.025 5.4E-07 67.1 13.9 78 502-585 141-224 (615)
191 KOG1805 DNA replication helica 96.6 0.013 2.7E-07 70.7 11.3 133 511-650 669-808 (1100)
192 PRK08181 transposase; Validate 96.5 0.022 4.8E-07 60.9 11.5 62 512-576 88-149 (269)
193 PRK13889 conjugal transfer rel 96.5 0.028 6E-07 69.9 13.5 65 506-576 341-406 (988)
194 TIGR00631 uvrb excinuclease AB 96.4 0.021 4.5E-07 68.4 11.5 101 542-652 424-524 (655)
195 PF13872 AAA_34: P-loop contai 96.3 0.027 5.9E-07 60.7 11.1 125 512-650 38-184 (303)
196 TIGR01447 recD exodeoxyribonuc 96.3 0.026 5.7E-07 66.7 12.0 66 513-584 147-217 (586)
197 PF01336 tRNA_anti-codon: OB-f 96.1 0.039 8.4E-07 46.2 8.9 34 333-367 41-74 (75)
198 PRK11054 helD DNA helicase IV; 96.1 0.014 3E-07 70.2 8.2 74 504-585 188-266 (684)
199 TIGR00595 priA primosomal prot 96.1 0.048 1E-06 63.5 12.1 70 573-650 271-342 (505)
200 PRK07952 DNA replication prote 96.0 0.043 9.4E-07 57.9 10.6 54 513-566 78-133 (244)
201 PRK04296 thymidine kinase; Pro 96.0 0.0059 1.3E-07 61.7 3.8 35 534-568 4-38 (190)
202 smart00382 AAA ATPases associa 96.0 0.012 2.6E-07 53.6 5.5 42 533-574 3-44 (148)
203 PRK12723 flagellar biosynthesi 95.9 0.1 2.2E-06 58.7 13.4 125 532-707 174-307 (388)
204 cd01120 RecA-like_NTPases RecA 95.9 0.041 8.9E-07 52.3 8.9 40 535-574 2-41 (165)
205 PRK08084 DNA replication initi 95.8 0.069 1.5E-06 55.8 11.1 36 533-568 46-81 (235)
206 TIGR02760 TraI_TIGR conjugativ 95.8 0.059 1.3E-06 71.8 12.8 125 509-661 427-552 (1960)
207 PRK13826 Dtr system oriT relax 95.7 0.062 1.3E-06 67.3 11.7 64 508-576 378-441 (1102)
208 COG3421 Uncharacterized protei 95.7 0.0074 1.6E-07 69.3 3.1 107 537-654 2-128 (812)
209 PRK14722 flhF flagellar biosyn 95.6 0.1 2.2E-06 58.4 11.8 35 533-567 138-174 (374)
210 COG2256 MGS1 ATPase related to 95.6 0.052 1.1E-06 60.4 9.4 24 531-554 47-70 (436)
211 cd00079 HELICc Helicase superf 95.6 0.17 3.7E-06 46.4 11.6 96 544-649 12-107 (131)
212 PRK13342 recombination factor 95.6 0.07 1.5E-06 60.5 10.8 23 530-552 34-56 (413)
213 PRK05298 excinuclease ABC subu 95.6 0.093 2E-06 63.0 12.2 103 540-652 426-528 (652)
214 PRK14956 DNA polymerase III su 95.5 0.085 1.8E-06 60.6 11.1 41 515-555 22-63 (484)
215 cd04485 DnaE_OBF DnaE_OBF: A s 95.5 0.073 1.6E-06 45.1 8.2 68 262-360 2-69 (84)
216 PRK14962 DNA polymerase III su 95.4 0.13 2.9E-06 59.3 12.4 23 533-555 37-59 (472)
217 PF01695 IstB_IS21: IstB-like 95.4 0.035 7.7E-07 55.6 6.7 61 514-575 29-89 (178)
218 PRK04537 ATP-dependent RNA hel 95.4 0.11 2.3E-06 61.6 11.5 80 559-648 256-335 (572)
219 PRK09183 transposase/IS protei 95.3 0.099 2.1E-06 55.6 10.1 42 533-575 103-144 (259)
220 cd04492 YhaM_OBF_like YhaM_OBF 95.3 0.14 3E-06 43.7 9.2 34 334-369 44-77 (83)
221 PRK14974 cell division protein 95.3 0.21 4.5E-06 55.2 12.8 45 532-576 140-187 (336)
222 PRK10919 ATP-dependent DNA hel 95.3 0.024 5.2E-07 68.2 5.9 67 511-585 2-72 (672)
223 TIGR03015 pepcterm_ATPase puta 95.3 0.14 2.9E-06 54.0 11.0 43 511-554 23-65 (269)
224 PRK08116 hypothetical protein; 95.2 0.17 3.7E-06 54.1 11.7 64 512-576 89-157 (268)
225 PF11798 IMS_HHH: IMS family H 95.2 0.012 2.7E-07 42.2 2.0 22 209-230 11-32 (32)
226 KOG1015 Transcription regulato 95.2 0.16 3.4E-06 61.4 12.0 116 533-650 697-833 (1567)
227 PLN03025 replication factor C 95.2 0.13 2.9E-06 56.1 10.7 25 533-557 35-59 (319)
228 PRK13767 ATP-dependent helicas 95.1 0.12 2.6E-06 64.2 11.4 91 553-647 277-367 (876)
229 PRK13480 3'-5' exoribonuclease 95.0 0.13 2.9E-06 56.1 10.2 86 251-368 5-90 (314)
230 PF05127 Helicase_RecD: Helica 95.0 0.0088 1.9E-07 59.9 1.0 110 536-659 1-111 (177)
231 PRK05703 flhF flagellar biosyn 95.0 0.26 5.6E-06 56.2 12.7 35 533-567 222-258 (424)
232 PTZ00110 helicase; Provisional 94.9 0.14 3E-06 60.3 10.7 87 550-646 366-453 (545)
233 PHA03333 putative ATPase subun 94.9 0.28 6.1E-06 58.3 13.0 146 508-659 166-315 (752)
234 KOG1001 Helicase-like transcri 94.9 0.2 4.4E-06 60.0 12.1 104 533-651 153-267 (674)
235 PRK04837 ATP-dependent RNA hel 94.8 0.17 3.6E-06 57.4 10.9 78 559-646 254-331 (423)
236 PRK06645 DNA polymerase III su 94.8 0.21 4.7E-06 58.0 11.6 42 515-556 25-67 (507)
237 PRK11773 uvrD DNA-dependent he 94.7 0.05 1.1E-06 66.0 6.6 67 511-585 9-79 (721)
238 TIGR00614 recQ_fam ATP-depende 94.7 0.17 3.6E-06 58.4 10.6 80 559-648 225-304 (470)
239 PHA02533 17 large terminase pr 94.7 0.076 1.7E-06 62.1 7.8 125 508-651 56-182 (534)
240 PRK14964 DNA polymerase III su 94.6 0.28 6E-06 56.9 11.9 39 516-554 18-57 (491)
241 TIGR01547 phage_term_2 phage t 94.6 0.13 2.8E-06 57.7 9.1 114 534-659 3-122 (396)
242 PRK14963 DNA polymerase III su 94.6 0.22 4.8E-06 57.9 11.2 41 516-556 19-60 (504)
243 PRK11192 ATP-dependent RNA hel 94.6 0.2 4.3E-06 56.9 10.5 76 559-644 244-319 (434)
244 PF04994 TfoX_C: TfoX C-termin 94.5 0.029 6.2E-07 49.1 2.9 32 208-239 2-33 (81)
245 TIGR03817 DECH_helic helicase/ 94.5 0.18 3.9E-06 61.4 10.7 93 553-647 264-356 (742)
246 PRK08727 hypothetical protein; 94.5 0.11 2.5E-06 54.1 7.8 34 534-567 43-76 (233)
247 PRK10590 ATP-dependent RNA hel 94.5 0.24 5.2E-06 56.9 11.1 77 560-646 245-321 (456)
248 COG1444 Predicted P-loop ATPas 94.5 0.29 6.2E-06 58.9 11.8 131 511-659 211-344 (758)
249 PRK05580 primosome assembly pr 94.5 0.24 5.2E-06 59.8 11.5 126 566-711 432-563 (679)
250 PRK14949 DNA polymerase III su 94.5 0.18 3.8E-06 61.8 10.2 42 515-556 20-62 (944)
251 PF11731 Cdd1: Pathogenicity l 94.4 0.028 6.1E-07 50.3 2.5 35 209-243 12-46 (93)
252 cd01124 KaiC KaiC is a circadi 94.4 0.069 1.5E-06 52.8 5.6 48 535-583 2-49 (187)
253 cd01122 GP4d_helicase GP4d_hel 94.3 0.11 2.5E-06 54.9 7.5 60 522-584 22-82 (271)
254 TIGR01074 rep ATP-dependent DN 94.3 0.071 1.5E-06 64.0 6.6 67 511-585 1-71 (664)
255 TIGR01587 cas3_core CRISPR-ass 94.3 0.27 6E-06 54.1 10.7 87 553-648 215-305 (358)
256 PRK11889 flhF flagellar biosyn 94.3 0.42 9.1E-06 53.9 11.8 36 532-567 241-276 (436)
257 PRK14961 DNA polymerase III su 94.3 0.19 4.1E-06 56.0 9.4 41 515-555 20-61 (363)
258 PHA02558 uvsW UvsW helicase; P 94.2 0.25 5.4E-06 57.5 10.7 81 556-645 340-420 (501)
259 PF00448 SRP54: SRP54-type pro 94.2 0.22 4.7E-06 50.8 9.0 50 533-582 2-53 (196)
260 TIGR01075 uvrD DNA helicase II 94.1 0.073 1.6E-06 64.6 6.2 67 511-585 4-74 (715)
261 COG1474 CDC6 Cdc6-related prot 94.1 0.16 3.4E-06 56.8 8.3 49 511-559 20-69 (366)
262 PRK13341 recombination factor 94.1 0.22 4.8E-06 60.4 9.9 24 530-553 50-73 (725)
263 PRK07994 DNA polymerase III su 94.0 0.3 6.5E-06 58.3 10.8 42 515-556 20-62 (647)
264 COG0556 UvrB Helicase subunit 94.0 0.32 6.9E-06 55.9 10.3 93 550-652 436-528 (663)
265 PF03354 Terminase_1: Phage Te 94.0 0.15 3.3E-06 58.8 8.1 74 514-587 1-81 (477)
266 PLN00206 DEAD-box ATP-dependen 93.9 0.31 6.7E-06 56.9 10.7 78 560-646 367-444 (518)
267 PF14520 HHH_5: Helix-hairpin- 93.9 0.031 6.7E-07 45.8 1.7 32 208-239 4-35 (60)
268 PRK12402 replication factor C 93.9 0.33 7.2E-06 52.7 10.3 42 516-557 20-61 (337)
269 PRK05973 replicative DNA helic 93.9 0.12 2.6E-06 54.3 6.4 59 522-583 56-114 (237)
270 PRK14958 DNA polymerase III su 93.8 0.42 9E-06 55.8 11.4 41 516-556 21-62 (509)
271 PRK00440 rfc replication facto 93.8 0.44 9.5E-06 51.3 10.9 40 516-555 22-61 (319)
272 TIGR03877 thermo_KaiC_1 KaiC d 93.8 0.12 2.6E-06 54.0 6.3 50 533-583 22-71 (237)
273 PRK07003 DNA polymerase III su 93.7 0.34 7.3E-06 58.5 10.5 41 516-556 21-62 (830)
274 PRK01297 ATP-dependent RNA hel 93.7 0.4 8.8E-06 55.2 11.0 77 560-646 335-411 (475)
275 PRK11776 ATP-dependent RNA hel 93.7 0.3 6.6E-06 55.9 9.9 80 559-648 241-320 (460)
276 COG3973 Superfamily I DNA and 93.7 0.14 3E-06 59.5 6.8 65 512-583 213-283 (747)
277 PRK07764 DNA polymerase III su 93.6 0.53 1.2E-05 57.9 12.3 41 516-556 20-61 (824)
278 PTZ00112 origin recognition co 93.6 0.32 7E-06 59.3 10.0 44 512-555 759-804 (1164)
279 KOG0953 Mitochondrial RNA heli 93.6 0.053 1.1E-06 62.1 3.4 100 534-656 193-293 (700)
280 PRK14955 DNA polymerase III su 93.6 0.29 6.4E-06 55.2 9.4 41 516-556 21-62 (397)
281 PRK14960 DNA polymerase III su 93.6 0.27 5.9E-06 58.5 9.2 40 516-555 20-60 (702)
282 PTZ00424 helicase 45; Provisio 93.6 0.44 9.5E-06 53.2 10.7 77 560-646 267-343 (401)
283 KOG0734 AAA+-type ATPase conta 93.6 0.5 1.1E-05 54.4 10.9 39 687-725 437-479 (752)
284 KOG0331 ATP-dependent RNA heli 93.6 0.27 5.9E-06 56.8 9.0 92 542-644 322-415 (519)
285 TIGR00064 ftsY signal recognit 93.5 0.65 1.4E-05 49.8 11.4 36 532-567 72-107 (272)
286 PRK05896 DNA polymerase III su 93.5 0.44 9.6E-06 56.3 10.8 42 515-556 20-62 (605)
287 PRK09112 DNA polymerase III su 93.5 0.24 5.2E-06 55.0 8.2 43 515-557 27-70 (351)
288 PF00271 Helicase_C: Helicase 93.4 0.18 3.9E-06 42.7 5.7 55 594-649 8-62 (78)
289 PRK09694 helicase Cas3; Provis 93.4 0.46 9.9E-06 58.8 11.2 99 549-655 549-655 (878)
290 PRK14959 DNA polymerase III su 93.4 0.43 9.3E-06 56.7 10.5 41 516-556 21-62 (624)
291 PRK14957 DNA polymerase III su 93.4 0.34 7.5E-06 56.8 9.7 41 515-555 20-61 (546)
292 PF06745 KaiC: KaiC; InterPro 93.3 0.11 2.4E-06 53.5 5.0 50 533-583 20-70 (226)
293 PRK07940 DNA polymerase III su 93.3 0.52 1.1E-05 53.2 10.6 24 532-555 36-59 (394)
294 PRK00771 signal recognition pa 93.3 0.9 2E-05 52.0 12.6 37 531-567 94-130 (437)
295 PRK05563 DNA polymerase III su 93.2 0.47 1E-05 56.0 10.6 40 516-555 21-61 (559)
296 TIGR01073 pcrA ATP-dependent D 93.2 0.17 3.6E-06 61.6 7.1 67 511-585 4-74 (726)
297 COG1484 DnaC DNA replication p 93.2 0.28 6E-06 52.1 7.9 67 512-581 84-153 (254)
298 COG4098 comFA Superfamily II D 93.2 0.43 9.4E-06 52.1 9.3 84 557-650 302-385 (441)
299 PHA02544 44 clamp loader, smal 93.2 0.54 1.2E-05 50.8 10.4 20 534-553 45-64 (316)
300 TIGR02237 recomb_radB DNA repa 93.1 0.47 1E-05 48.1 9.2 36 534-569 14-49 (209)
301 PRK11057 ATP-dependent DNA hel 93.1 0.3 6.6E-06 58.2 8.9 78 559-646 235-312 (607)
302 PRK06647 DNA polymerase III su 93.1 0.64 1.4E-05 54.9 11.5 42 515-556 20-62 (563)
303 PRK00411 cdc6 cell division co 93.1 0.25 5.4E-06 55.2 7.7 54 513-566 35-91 (394)
304 PRK00149 dnaA chromosomal repl 93.1 0.54 1.2E-05 53.9 10.6 42 534-576 150-193 (450)
305 PRK05707 DNA polymerase III su 93.0 0.39 8.4E-06 52.9 8.9 43 512-556 4-46 (328)
306 COG1419 FlhF Flagellar GTP-bin 93.0 1.4 3E-05 49.6 13.2 122 533-706 204-332 (407)
307 PRK14952 DNA polymerase III su 93.0 0.75 1.6E-05 54.5 11.8 41 515-555 17-58 (584)
308 TIGR02012 tigrfam_recA protein 93.0 0.5 1.1E-05 51.9 9.6 56 518-575 41-98 (321)
309 PRK13531 regulatory ATPase Rav 92.9 0.31 6.7E-06 56.1 8.1 38 515-554 24-61 (498)
310 PRK12323 DNA polymerase III su 92.9 0.61 1.3E-05 55.5 10.7 41 516-556 21-62 (700)
311 COG1875 NYN ribonuclease and A 92.9 0.27 5.8E-06 54.3 7.2 62 507-572 223-288 (436)
312 PRK11634 ATP-dependent RNA hel 92.8 0.66 1.4E-05 55.6 11.1 76 560-645 245-320 (629)
313 COG4626 Phage terminase-like p 92.8 0.7 1.5E-05 53.6 10.7 81 506-586 56-144 (546)
314 cd00983 recA RecA is a bacter 92.7 0.39 8.4E-06 52.8 8.4 57 519-577 42-100 (325)
315 TIGR03499 FlhF flagellar biosy 92.7 0.51 1.1E-05 50.8 9.1 35 533-567 195-231 (282)
316 PF05876 Terminase_GpA: Phage 92.7 0.066 1.4E-06 63.0 2.5 126 511-650 16-146 (557)
317 COG0513 SrmB Superfamily II DN 92.6 0.56 1.2E-05 54.8 10.0 74 560-643 273-346 (513)
318 PRK08691 DNA polymerase III su 92.6 0.66 1.4E-05 55.7 10.6 41 516-556 21-62 (709)
319 TIGR02928 orc1/cdc6 family rep 92.6 0.58 1.3E-05 51.6 9.7 44 512-555 19-63 (365)
320 KOG1133 Helicase of the DEAD s 92.5 0.18 3.9E-06 59.3 5.6 50 508-559 12-61 (821)
321 PRK11823 DNA repair protein Ra 92.5 0.45 9.8E-06 54.6 8.9 49 534-583 82-130 (446)
322 PRK14948 DNA polymerase III su 92.5 1.2 2.6E-05 53.3 12.7 42 515-556 20-62 (620)
323 TIGR02640 gas_vesic_GvpN gas v 92.4 0.3 6.6E-06 51.8 6.9 53 510-567 1-53 (262)
324 KOG2028 ATPase related to the 92.4 0.33 7.3E-06 53.4 7.1 41 534-574 164-204 (554)
325 PRK09111 DNA polymerase III su 92.3 0.61 1.3E-05 55.4 9.9 42 515-556 28-70 (598)
326 PRK14954 DNA polymerase III su 92.2 0.57 1.2E-05 55.9 9.4 41 515-555 20-61 (620)
327 TIGR02760 TraI_TIGR conjugativ 92.1 1.6 3.6E-05 58.6 14.5 139 508-650 1016-1181(1960)
328 PRK14950 DNA polymerase III su 92.1 1.2 2.6E-05 52.9 12.1 41 516-556 21-62 (585)
329 PRK14953 DNA polymerase III su 92.1 1.3 2.7E-05 51.6 12.0 41 515-555 20-61 (486)
330 KOG0731 AAA+-type ATPase conta 92.1 0.44 9.6E-06 57.4 8.3 64 494-567 313-376 (774)
331 PF13177 DNA_pol3_delta2: DNA 92.0 0.7 1.5E-05 45.5 8.5 43 516-558 2-45 (162)
332 TIGR01389 recQ ATP-dependent D 92.0 0.56 1.2E-05 55.6 9.3 76 560-645 224-299 (591)
333 PRK08506 replicative DNA helic 92.0 0.58 1.3E-05 54.1 9.1 122 518-650 180-314 (472)
334 TIGR02785 addA_Gpos recombinat 92.0 0.3 6.6E-06 62.8 7.4 67 512-586 2-71 (1232)
335 PRK01172 ski2-like helicase; P 92.0 0.89 1.9E-05 54.8 11.0 94 555-650 231-340 (674)
336 cd01121 Sms Sms (bacterial rad 91.9 0.5 1.1E-05 53.0 8.2 48 534-582 84-131 (372)
337 PRK09354 recA recombinase A; P 91.9 0.79 1.7E-05 50.9 9.6 55 519-575 47-103 (349)
338 PF10391 DNA_pol_lambd_f: Fing 91.9 0.1 2.3E-06 41.8 2.0 26 212-237 5-30 (52)
339 PRK12377 putative replication 91.9 0.5 1.1E-05 50.0 7.8 64 513-578 80-146 (248)
340 TIGR03600 phage_DnaB phage rep 91.8 0.7 1.5E-05 52.5 9.4 122 519-651 183-318 (421)
341 PRK12727 flagellar biosynthesi 91.8 4.7 0.0001 47.2 15.9 35 533-567 351-387 (559)
342 PRK09751 putative ATP-dependen 91.8 0.71 1.5E-05 59.9 10.2 95 553-648 237-355 (1490)
343 PF03796 DnaB_C: DnaB-like hel 91.8 0.46 1E-05 50.1 7.4 123 519-652 8-144 (259)
344 smart00490 HELICc helicase sup 91.6 0.67 1.5E-05 38.5 6.9 54 594-648 12-65 (82)
345 TIGR02397 dnaX_nterm DNA polym 91.6 1.3 2.9E-05 48.5 11.0 41 515-555 18-59 (355)
346 KOG0742 AAA+-type ATPase [Post 91.6 0.2 4.4E-06 55.7 4.4 142 512-719 359-515 (630)
347 cd00984 DnaB_C DnaB helicase C 91.6 0.43 9.2E-06 49.5 6.7 46 520-567 3-49 (242)
348 PRK14965 DNA polymerase III su 91.5 1.2 2.7E-05 52.8 11.3 40 516-555 21-61 (576)
349 COG1221 PspF Transcriptional r 91.5 1 2.2E-05 50.8 10.0 108 517-660 88-195 (403)
350 PRK06835 DNA replication prote 91.5 0.45 9.7E-06 52.5 7.1 63 512-576 161-226 (329)
351 PRK14969 DNA polymerase III su 91.5 1.3 2.8E-05 52.0 11.3 41 515-555 20-61 (527)
352 PRK06921 hypothetical protein; 91.5 1.7 3.7E-05 46.4 11.3 46 532-578 117-163 (266)
353 PRK10867 signal recognition pa 91.4 1.2 2.6E-05 51.0 10.5 36 532-567 100-136 (433)
354 KOG1132 Helicase of the DEAD s 91.4 0.16 3.6E-06 61.0 3.7 48 507-556 17-64 (945)
355 TIGR03420 DnaA_homol_Hda DnaA 91.2 0.47 1E-05 48.5 6.6 52 515-566 21-72 (226)
356 TIGR00665 DnaB replicative DNA 91.2 0.83 1.8E-05 52.0 9.2 121 519-650 184-317 (434)
357 PRK07133 DNA polymerase III su 91.2 1.9 4.2E-05 52.2 12.4 41 515-555 22-63 (725)
358 PRK05642 DNA replication initi 91.2 2.6 5.7E-05 44.0 12.2 42 533-575 46-87 (234)
359 TIGR03878 thermo_KaiC_2 KaiC d 91.1 0.43 9.2E-06 50.7 6.3 35 534-568 38-72 (259)
360 KOG0333 U5 snRNP-like RNA heli 91.1 1.3 2.8E-05 50.9 10.1 91 541-643 500-590 (673)
361 PHA00350 putative assembly pro 91.0 0.47 1E-05 53.5 6.7 32 533-564 2-34 (399)
362 TIGR00959 ffh signal recogniti 91.0 1.3 2.9E-05 50.5 10.4 36 532-567 99-135 (428)
363 PF03118 RNA_pol_A_CTD: Bacter 91.0 0.17 3.6E-06 42.6 2.4 34 205-239 8-41 (66)
364 PRK12724 flagellar biosynthesi 90.9 2.4 5.3E-05 48.2 12.3 43 533-575 224-269 (432)
365 TIGR03881 KaiC_arch_4 KaiC dom 90.6 0.56 1.2E-05 48.3 6.5 60 519-581 8-68 (229)
366 PRK06871 DNA polymerase III su 90.6 0.78 1.7E-05 50.5 7.9 46 512-557 3-49 (325)
367 PRK08769 DNA polymerase III su 90.6 1.9 4E-05 47.5 10.8 46 512-557 5-51 (319)
368 PRK02362 ski2-like helicase; P 90.5 1.4 2.9E-05 53.9 10.7 90 553-643 236-352 (737)
369 TIGR01425 SRP54_euk signal rec 90.5 1.5 3.3E-05 49.9 10.2 47 532-578 100-148 (429)
370 PRK06731 flhF flagellar biosyn 90.4 8 0.00017 41.6 15.2 45 533-577 76-123 (270)
371 PRK07471 DNA polymerase III su 90.4 1.6 3.4E-05 48.9 10.2 43 515-557 23-66 (365)
372 TIGR03346 chaperone_ClpB ATP-d 90.4 0.74 1.6E-05 57.1 8.4 45 512-556 174-218 (852)
373 CHL00176 ftsH cell division pr 90.4 1.9 4E-05 51.8 11.4 26 529-554 213-238 (638)
374 PRK08451 DNA polymerase III su 90.4 2.1 4.6E-05 50.2 11.6 41 516-556 19-60 (535)
375 PRK08760 replicative DNA helic 90.4 0.95 2.1E-05 52.4 8.7 121 519-650 218-351 (476)
376 cd01703 PolY_Pol_iota DNA Poly 90.3 0.21 4.6E-06 56.1 3.2 31 209-239 172-202 (379)
377 PRK06904 replicative DNA helic 90.3 1.5 3.3E-05 50.7 10.2 127 512-650 205-346 (472)
378 TIGR03880 KaiC_arch_3 KaiC dom 90.2 0.63 1.4E-05 47.9 6.5 50 533-583 17-66 (224)
379 PRK05748 replicative DNA helic 90.2 1.2 2.6E-05 51.1 9.3 122 518-650 191-326 (448)
380 PRK00254 ski2-like helicase; P 90.2 1.4 3.1E-05 53.6 10.5 95 551-646 229-347 (720)
381 COG1201 Lhr Lhr-like helicases 90.2 1.3 2.9E-05 54.0 10.0 102 533-643 221-327 (814)
382 TIGR01241 FtsH_fam ATP-depende 90.2 1.5 3.2E-05 51.0 10.2 25 529-553 85-109 (495)
383 PRK13894 conjugal transfer ATP 90.2 1.3 2.7E-05 48.8 9.0 55 512-572 133-190 (319)
384 PRK04328 hypothetical protein; 90.2 0.51 1.1E-05 49.8 5.8 50 533-583 24-73 (249)
385 PRK01216 DNA polymerase IV; Va 90.1 0.22 4.9E-06 55.3 3.2 34 209-243 178-211 (351)
386 COG3267 ExeA Type II secretory 90.1 0.99 2.1E-05 47.8 7.6 56 517-574 37-94 (269)
387 PRK14951 DNA polymerase III su 90.0 2.2 4.7E-05 51.0 11.5 41 516-556 21-62 (618)
388 PRK08533 flagellar accessory p 89.9 0.53 1.2E-05 49.1 5.7 48 534-582 26-73 (230)
389 PRK03352 DNA polymerase IV; Va 89.8 0.2 4.4E-06 55.3 2.6 35 208-243 176-210 (346)
390 cd01700 PolY_Pol_V_umuC umuC s 89.8 0.23 5.1E-06 54.7 3.0 34 208-242 175-208 (344)
391 cd01129 PulE-GspE PulE/GspE Th 89.7 1.9 4E-05 46.1 9.7 50 512-566 64-114 (264)
392 PRK14712 conjugal transfer nic 89.7 1.2 2.5E-05 58.2 9.3 147 500-650 824-999 (1623)
393 KOG1131 RNA polymerase II tran 89.6 1.6 3.4E-05 50.3 9.2 77 507-585 11-92 (755)
394 PRK07004 replicative DNA helic 89.6 0.87 1.9E-05 52.5 7.6 121 519-651 202-337 (460)
395 PRK09165 replicative DNA helic 89.6 1 2.2E-05 52.5 8.2 123 519-650 206-353 (497)
396 COG3743 Uncharacterized conser 89.6 0.26 5.7E-06 46.6 2.7 32 209-240 67-98 (133)
397 KOG0349 Putative DEAD-box RNA 89.6 0.075 1.6E-06 59.1 -1.1 46 506-557 18-64 (725)
398 PRK03609 umuC DNA polymerase V 89.6 0.24 5.1E-06 56.4 2.9 35 209-244 179-213 (422)
399 cd00424 PolY Y-family of DNA p 89.5 0.25 5.5E-06 54.5 3.0 32 209-241 173-204 (343)
400 COG2805 PilT Tfp pilus assembl 89.5 2.9 6.2E-05 45.4 10.6 26 533-559 126-151 (353)
401 KOG0332 ATP-dependent RNA heli 89.4 1.1 2.4E-05 49.5 7.6 73 561-643 331-403 (477)
402 cd01394 radB RadB. The archaea 89.3 0.64 1.4E-05 47.5 5.6 47 519-567 7-54 (218)
403 PRK12726 flagellar biosynthesi 89.0 4.5 9.7E-05 45.6 12.2 36 532-567 206-241 (407)
404 TIGR02621 cas3_GSU0051 CRISPR- 89.0 1.9 4.1E-05 53.0 10.1 77 558-647 270-362 (844)
405 PRK14970 DNA polymerase III su 89.0 2.4 5.2E-05 47.1 10.3 40 515-554 21-61 (367)
406 COG0467 RAD55 RecA-superfamily 89.0 0.65 1.4E-05 49.0 5.6 49 533-582 24-72 (260)
407 PTZ00205 DNA polymerase kappa; 89.0 0.28 6.1E-06 57.4 2.9 32 209-240 309-340 (571)
408 PF06309 Torsin: Torsin; Inte 88.9 1.4 3.1E-05 41.8 7.1 69 517-585 35-114 (127)
409 cd03115 SRP The signal recogni 88.9 2.3 5.1E-05 41.7 9.1 33 535-567 3-35 (173)
410 PRK02406 DNA polymerase IV; Va 88.8 0.31 6.6E-06 53.8 3.0 36 209-245 168-203 (343)
411 PRK14723 flhF flagellar biosyn 88.7 4.7 0.0001 49.2 13.0 34 534-567 187-222 (767)
412 TIGR01243 CDC48 AAA family ATP 88.7 2.5 5.4E-05 51.6 11.0 30 525-554 480-509 (733)
413 PRK14133 DNA polymerase IV; Pr 88.7 0.33 7.2E-06 53.6 3.3 36 208-244 172-207 (347)
414 PRK14971 DNA polymerase III su 88.7 2.2 4.8E-05 51.0 10.3 40 515-554 21-61 (614)
415 PF05621 TniB: Bacterial TniB 88.6 1.7 3.6E-05 47.3 8.3 52 532-583 61-119 (302)
416 TIGR00767 rho transcription te 88.5 1.6 3.5E-05 49.3 8.4 25 533-558 169-193 (415)
417 PF12846 AAA_10: AAA-like doma 88.5 0.56 1.2E-05 49.5 4.7 37 534-570 3-39 (304)
418 COG0552 FtsY Signal recognitio 88.5 2.8 6.1E-05 46.0 10.0 94 531-651 138-234 (340)
419 cd01393 recA_like RecA is a b 88.5 3.9 8.4E-05 41.8 10.8 37 534-570 21-63 (226)
420 PRK08006 replicative DNA helic 88.5 2.4 5.2E-05 49.1 10.1 122 519-650 213-348 (471)
421 PRK14087 dnaA chromosomal repl 88.4 3.1 6.7E-05 47.9 10.9 45 534-580 143-190 (450)
422 PRK06321 replicative DNA helic 88.3 2.2 4.8E-05 49.4 9.6 126 512-651 210-349 (472)
423 TIGR03345 VI_ClpV1 type VI sec 88.3 1.3 2.8E-05 54.9 8.2 53 515-568 570-631 (852)
424 KOG0739 AAA+-type ATPase [Post 88.2 1.3 2.8E-05 47.9 7.0 130 534-719 168-299 (439)
425 TIGR01970 DEAH_box_HrpB ATP-de 88.2 2.9 6.3E-05 51.6 11.1 78 560-644 209-286 (819)
426 PRK13709 conjugal transfer nic 88.2 1.7 3.8E-05 57.3 9.6 145 502-650 958-1131(1747)
427 KOG0328 Predicted ATP-dependen 88.1 1.6 3.4E-05 46.7 7.5 74 561-644 267-340 (400)
428 PRK06964 DNA polymerase III su 87.9 3.4 7.3E-05 45.9 10.4 44 512-556 2-45 (342)
429 PRK08058 DNA polymerase III su 87.9 2.2 4.8E-05 47.0 8.9 45 512-556 7-52 (329)
430 PRK07399 DNA polymerase III su 87.8 3.8 8.2E-05 44.9 10.7 43 515-557 8-51 (314)
431 PRK03858 DNA polymerase IV; Va 87.8 0.35 7.5E-06 54.4 2.7 36 209-245 173-208 (396)
432 PRK13833 conjugal transfer pro 87.8 1.1 2.4E-05 49.2 6.5 55 512-572 129-186 (323)
433 PF14229 DUF4332: Domain of un 87.7 0.46 1E-05 44.8 3.0 28 215-242 1-28 (122)
434 PRK09361 radB DNA repair and r 87.6 0.97 2.1E-05 46.5 5.7 36 533-568 24-59 (225)
435 PHA03368 DNA packaging termina 87.5 4.4 9.5E-05 48.5 11.3 131 534-697 256-390 (738)
436 PRK10416 signal recognition pa 87.4 3.9 8.5E-05 44.9 10.5 36 532-567 114-149 (318)
437 COG1198 PriA Primosomal protei 87.4 2.6 5.7E-05 51.1 9.8 122 573-714 493-620 (730)
438 TIGR00678 holB DNA polymerase 87.4 5.4 0.00012 39.8 10.7 26 532-557 14-39 (188)
439 PRK06067 flagellar accessory p 87.4 1.5 3.1E-05 45.6 6.8 50 533-583 26-75 (234)
440 PLN03137 ATP-dependent DNA hel 87.3 3.6 7.8E-05 52.0 11.1 75 560-644 680-754 (1195)
441 PRK05636 replicative DNA helic 87.2 1.8 3.9E-05 50.5 8.1 122 519-651 254-388 (505)
442 PRK08840 replicative DNA helic 87.2 3 6.5E-05 48.2 9.9 128 512-651 201-342 (464)
443 TIGR02782 TrbB_P P-type conjug 87.0 1.6 3.6E-05 47.4 7.3 55 512-572 117-174 (299)
444 COG4962 CpaF Flp pilus assembl 87.0 0.79 1.7E-05 50.4 4.7 62 509-576 154-216 (355)
445 PRK06305 DNA polymerase III su 87.0 3.3 7.1E-05 47.7 10.0 42 515-556 21-63 (451)
446 PRK03348 DNA polymerase IV; Pr 86.9 0.46 9.9E-06 54.7 3.1 37 208-245 179-215 (454)
447 COG0470 HolB ATPase involved i 86.9 3.3 7.2E-05 44.5 9.6 24 534-557 26-49 (325)
448 PRK08939 primosomal protein Dn 86.8 1.5 3.3E-05 47.8 6.9 35 532-566 156-190 (306)
449 PRK02794 DNA polymerase IV; Pr 86.7 0.42 9.2E-06 54.3 2.6 36 209-245 209-244 (419)
450 COG3972 Superfamily I DNA and 86.6 2.9 6.2E-05 48.0 8.8 132 512-651 163-308 (660)
451 cd01131 PilT Pilus retraction 86.4 3.9 8.5E-05 41.5 9.3 37 534-571 3-41 (198)
452 PRK08903 DnaA regulatory inact 86.4 1.9 4.1E-05 44.4 7.1 51 515-567 27-77 (227)
453 TIGR02655 circ_KaiC circadian 86.4 1.1 2.4E-05 52.0 5.8 50 533-583 22-72 (484)
454 TIGR02655 circ_KaiC circadian 86.4 1 2.2E-05 52.3 5.5 64 518-583 250-313 (484)
455 PRK01810 DNA polymerase IV; Va 86.3 0.48 1E-05 53.5 2.8 35 209-244 179-213 (407)
456 PRK06893 DNA replication initi 86.2 1.6 3.5E-05 45.4 6.4 35 534-568 41-75 (229)
457 PRK03103 DNA polymerase IV; Re 86.2 0.49 1.1E-05 53.5 2.7 33 209-242 181-213 (409)
458 PRK04301 radA DNA repair and r 86.1 0.51 1.1E-05 51.5 2.8 33 209-241 6-38 (317)
459 TIGR02639 ClpA ATP-dependent C 86.0 7.3 0.00016 47.7 12.8 112 514-627 185-319 (731)
460 PF05496 RuvB_N: Holliday junc 85.9 1.9 4.1E-05 45.1 6.6 83 533-626 51-136 (233)
461 PRK08699 DNA polymerase III su 85.9 8.4 0.00018 42.5 12.1 114 512-628 2-152 (325)
462 PRK13900 type IV secretion sys 85.7 2.4 5.3E-05 46.8 7.8 39 533-572 161-199 (332)
463 cd01701 PolY_Rev1 DNA polymera 85.7 0.49 1.1E-05 53.5 2.5 31 209-239 222-252 (404)
464 COG2804 PulE Type II secretory 85.6 1.3 2.9E-05 50.9 5.8 43 512-559 242-284 (500)
465 PRK11034 clpA ATP-dependent Cl 85.5 2 4.4E-05 52.5 7.6 26 531-556 206-231 (758)
466 PRK05595 replicative DNA helic 85.5 2.2 4.7E-05 49.0 7.6 127 512-651 185-324 (444)
467 PRK04195 replication factor C 85.4 7.8 0.00017 45.0 12.1 54 513-569 19-73 (482)
468 TIGR02639 ClpA ATP-dependent C 85.3 1.9 4E-05 52.7 7.3 40 515-554 458-506 (731)
469 KOG4150 Predicted ATP-dependen 85.2 0.96 2.1E-05 52.2 4.3 196 501-724 275-491 (1034)
470 PRK13851 type IV secretion sys 85.2 1.2 2.6E-05 49.4 5.1 40 533-573 163-202 (344)
471 PRK09302 circadian clock prote 85.2 1.7 3.6E-05 50.8 6.5 62 519-583 261-323 (509)
472 KOG0989 Replication factor C, 85.1 1.2 2.7E-05 48.2 4.9 43 514-556 39-81 (346)
473 PF13481 AAA_25: AAA domain; P 85.0 2 4.3E-05 42.7 6.2 50 534-584 34-93 (193)
474 cd03586 PolY_Pol_IV_kappa DNA 84.9 0.69 1.5E-05 50.6 3.0 33 209-242 171-203 (334)
475 TIGR02688 conserved hypothetic 84.7 4.3 9.4E-05 46.2 9.2 79 498-582 173-256 (449)
476 KOG0991 Replication factor C, 84.6 1.9 4E-05 45.3 5.7 24 533-556 49-72 (333)
477 PRK11664 ATP-dependent RNA hel 84.5 5.3 0.00012 49.4 10.7 78 560-644 212-289 (812)
478 PF00004 AAA: ATPase family as 84.5 2.2 4.7E-05 39.1 5.8 35 535-572 1-35 (132)
479 PRK10436 hypothetical protein; 84.4 1.9 4E-05 49.8 6.4 42 512-558 202-243 (462)
480 cd04484 polC_OBF polC_OBF: A s 84.4 17 0.00036 31.8 10.9 64 260-352 2-66 (82)
481 PRK07773 replicative DNA helic 84.4 2.3 5E-05 53.1 7.6 123 518-651 205-340 (886)
482 KOG0729 26S proteasome regulat 84.3 7.9 0.00017 41.4 10.2 24 527-550 206-229 (435)
483 PRK13766 Hef nuclease; Provisi 84.2 7.6 0.00016 47.7 11.9 96 544-649 347-452 (773)
484 COG1219 ClpX ATP-dependent pro 84.1 0.74 1.6E-05 50.1 2.7 21 533-553 98-118 (408)
485 PF07728 AAA_5: AAA domain (dy 84.1 1.5 3.2E-05 41.4 4.6 21 534-554 1-21 (139)
486 PRK06995 flhF flagellar biosyn 83.8 7.9 0.00017 45.0 11.1 35 533-567 257-293 (484)
487 PRK09302 circadian clock prote 83.6 2.1 4.5E-05 50.0 6.4 62 519-583 19-82 (509)
488 PRK07993 DNA polymerase III su 83.5 7.4 0.00016 43.1 10.4 45 512-556 3-48 (334)
489 PRK09519 recA DNA recombinatio 83.4 5.1 0.00011 49.0 9.7 55 519-575 47-103 (790)
490 PRK14721 flhF flagellar biosyn 83.3 6.8 0.00015 44.7 10.2 37 533-569 192-231 (420)
491 PRK06090 DNA polymerase III su 83.3 6.9 0.00015 43.1 9.9 45 512-556 4-49 (319)
492 KOG0340 ATP-dependent RNA heli 83.2 6 0.00013 43.8 9.1 87 548-644 240-328 (442)
493 smart00483 POLXc DNA polymeras 83.1 0.77 1.7E-05 50.7 2.5 31 210-240 90-120 (334)
494 COG0210 UvrD Superfamily I DNA 83.1 2 4.3E-05 51.6 6.2 67 511-585 2-72 (655)
495 cd01128 rho_factor Transcripti 83.1 3.7 8.1E-05 43.5 7.5 24 533-557 17-40 (249)
496 COG1222 RPT1 ATP-dependent 26S 83.1 1.1 2.4E-05 49.5 3.6 29 524-552 177-205 (406)
497 PHA00729 NTP-binding motif con 82.2 2.6 5.6E-05 44.0 5.8 31 526-556 11-41 (226)
498 COG1435 Tdk Thymidine kinase [ 82.1 1.4 3E-05 44.9 3.7 37 534-570 6-42 (201)
499 KOG0738 AAA+-type ATPase [Post 82.1 2.9 6.2E-05 46.8 6.3 32 688-719 351-382 (491)
500 PF13191 AAA_16: AAA ATPase do 82.1 2.6 5.6E-05 41.1 5.6 46 514-559 6-51 (185)
No 1
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=100.00 E-value=4e-94 Score=809.00 Aligned_cols=446 Identities=41% Similarity=0.622 Sum_probs=400.5
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCcceeccc--ccccCCCCCeEEEEEEEEEeeccccCCCceEEEEEEe
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRTYADLQN--AQIDLDDGQYFIFIGEIISSRGMKAGCSFSFLEVIVG 286 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrrYeDr~~--~i~~l~~Ge~vti~G~V~~~~~~~~~~~~~~l~v~v~ 286 (742)
.|++.++||||+++++|++|||+|+.|||+|||++|+|++. .+.++.+|+.||++|+|.+..... .+++..+++.+.
T Consensus 10 ~~l~~l~gig~~~a~~l~~Lgi~tv~DLL~~~P~~YeD~~~~~~i~~~~~g~~vti~g~V~~~~~~~-~~~~~~l~v~~~ 88 (677)
T COG1200 10 VPLSTLKGIGPKTAEKLKKLGIHTVQDLLLYLPRRYEDRTLLPGIAEARPGEIVTIEGTVLSHEKFP-FGKRKLLKVTLS 88 (677)
T ss_pred cchhhhcCcCHHHHHHHHHcCCCcHHHHHHhCccchhhccccCChhhcCCCceEEEEEEEEeeeccC-CCCCceEEEEEe
Confidence 37999999999999999999999999999999999999984 679999999999999999886554 566777888776
Q ss_pred eeeccCCCCCCcceeeecCCCceeEEEEEeeeeecccccccc-hhHhhhccccCCcEEEEEEEEeecCCCceeEEeecee
Q 045263 287 CEIADTETTSGDEVVNIDSGQKKKIYLHLKKFFRGTRFTSIP-FLKSIEGKHKVGEFVCVSGKVRAMRSNNHYEMREYNI 365 (742)
Q Consensus 287 ~~~~~~~~~~~~~~~~~~~g~~~~i~l~~~~ff~~~~Ffn~p-fl~~~~~~l~~G~~v~v~GKv~~~~~~~~~~m~~~~~ 365 (742)
+ ++| .+. ..|||++ |++ ++|++|+++.+||||++++ +.++|.||++
T Consensus 89 d----------------~~~---~l~---------l~fFn~~~~l~---~~~~~G~~v~v~Gk~~~~~--~~~~~~hpe~ 135 (677)
T COG1200 89 D----------------GTG---VLT---------LVFFNFPAYLK---KKLKVGERVIVYGKVKRFK--GGLQITHPEY 135 (677)
T ss_pred c----------------CcE---EEE---------EEEECccHHHH---hhCCCCCEEEEEEEEeecc--CceEEEcceE
Confidence 2 112 122 2577888 876 8999999999999999976 5689999999
Q ss_pred eecCcchhhhhhccCCCccccCCCCCCCHHHHHHHHHHHHHhCC-CCCCCCCHhHHhhcCCCCHHHHHHhccCCCCcchH
Q 045263 366 DVLKDEDDLSLRAKGRPYPIYPSKGGLNASLLRDTIARALQALP-ANFDPVPKEITQEFGLLCLFDAYMGIHQPKHIDEA 444 (742)
Q Consensus 366 e~l~~~~~~~~~~~~~I~PIYp~t~GLs~~~lrk~I~~aL~~~~-~~~d~LP~~l~~k~~l~~~~~Al~~IH~P~~~~~~ 444 (742)
.+..+... ...+|.||||+|+|++++++|++|.+||+.+. ...|+||..++++|+++++.+|++.||+|++.+++
T Consensus 136 ~~~~~~~~----~~~~i~PvY~~t~gl~~~~lrk~i~~aL~~~~~~l~e~lp~~l~~k~~l~~~~~al~~lH~P~~~~~~ 211 (677)
T COG1200 136 IVNDDGSE----LEERLTPVYPLTEGLKQKTLRKLIQQALEVLPSELEELLPEELLEKYGLPSLDEALRTLHFPKDEEDL 211 (677)
T ss_pred EecCCCcc----cccceeeeeecccccCHHHHHHHHHHHHHhhhhhccccCCHHHHhhccCccHHHHHHhccCCCCHHHH
Confidence 87643321 24679999999999999999999999999886 57899999999999999999999999999999999
Q ss_pred HHHHHhhchhHHHHHHHHHHHHHHhhcccchhhchhhhhccccccccccccCchHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 045263 445 DLARKRLIFDEFFYLQLGRLYQMLEGLGTQFEKEGLLDKYRKPRLNAAYMEGWSSLTKKLLRALPYSLTSSQLSAISEII 524 (742)
Q Consensus 445 ~~Ar~Rl~f~El~~~ql~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~lpf~Lt~~Q~~aI~~I~ 524 (742)
..+++|++|+|+|.+|+++++++.+. ....+ ...+....+.++|++.|||+||..|++++.+|.
T Consensus 212 ~~~~rRL~f~Ell~~ql~l~~~r~~~-----------~~~~~-----~~~~~~~~l~~~~~~~LPF~LT~aQ~~vi~EI~ 275 (677)
T COG1200 212 KRARRRLAFEELLALQLSLLLRRAKR-----------QKRSG-----IPLPANGELLAKFLAALPFKLTNAQKRVIKEIL 275 (677)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-----------hhccC-----CCCCccHHHHHHHHHhCCCCccHHHHHHHHHHH
Confidence 99999999999999999998555421 11122 223345678999999999999999999999999
Q ss_pred HhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCC
Q 045263 525 WDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTP 604 (742)
Q Consensus 525 ~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~ 604 (742)
.|+.++.||+||||||+|||||+||+++++.++.+|+|+++||||+.||+|||+.+.+++++++ ++|++++|+.+
T Consensus 276 ~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~-----i~V~lLtG~~k 350 (677)
T COG1200 276 ADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWLEPLG-----IRVALLTGSLK 350 (677)
T ss_pred hhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHhhhcC-----CeEEEeecccc
Confidence 9999999999999999999999999999999999999999999999999999999999999998 99999999999
Q ss_pred hHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccchhhhhhhhhccccccccccccCCCCCCCCC
Q 045263 605 VKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQ 684 (742)
Q Consensus 605 ~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~ 684 (742)
.++|+.+++++.+|+++||||||+++++.+.|++++|||||||||||+.||..|.+|+ .
T Consensus 351 gk~r~~~l~~l~~G~~~ivVGTHALiQd~V~F~~LgLVIiDEQHRFGV~QR~~L~~KG--------------------~- 409 (677)
T COG1200 351 GKARKEILEQLASGEIDIVVGTHALIQDKVEFHNLGLVIIDEQHRFGVHQRLALREKG--------------------E- 409 (677)
T ss_pred hhHHHHHHHHHhCCCCCEEEEcchhhhcceeecceeEEEEeccccccHHHHHHHHHhC--------------------C-
Confidence 9999999999999999999999999999999999999999999999999999999984 1
Q ss_pred CCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEEEcCCcc
Q 045263 685 HMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRIPIKTYIIEGNEK 735 (742)
Q Consensus 685 ~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~~~~~~~ 735 (742)
..||+|.|||||||||+|++.|||||+|.|+|+|+||+||+|+++..+..
T Consensus 410 -~~Ph~LvMTATPIPRTLAlt~fgDldvS~IdElP~GRkpI~T~~i~~~~~ 459 (677)
T COG1200 410 -QNPHVLVMTATPIPRTLALTAFGDLDVSIIDELPPGRKPITTVVIPHERR 459 (677)
T ss_pred -CCCcEEEEeCCCchHHHHHHHhccccchhhccCCCCCCceEEEEeccccH
Confidence 16999999999999999999999999999999999999999999998665
No 2
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=100.00 E-value=2.3e-77 Score=704.57 Aligned_cols=450 Identities=42% Similarity=0.647 Sum_probs=390.3
Q ss_pred hhhccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCcceeccc--ccccCCCCCeEEEEEEEEEeeccccCCCceEEEE
Q 045263 206 LLDKCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRTYADLQN--AQIDLDDGQYFIFIGEIISSRGMKAGCSFSFLEV 283 (742)
Q Consensus 206 ~L~~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrrYeDr~~--~i~~l~~Ge~vti~G~V~~~~~~~~~~~~~~l~v 283 (742)
.|++||+.|+||||+++++|+++||+|+.|||+||||+|+|++. ++.++.+|+.+++.|+|.+....+. +++++++
T Consensus 6 ~~~~~~~~l~gvg~~~~~~l~~lgi~t~~dll~~~P~~y~d~~~~~~i~~l~~g~~vtv~g~V~~~~~~~~--~~~~~~v 83 (681)
T PRK10917 6 LLDAPLTSLKGVGPKTAEKLAKLGIHTVQDLLLHLPRRYEDRTRLKPIAELRPGEKVTVEGEVLSAEVVFG--KRRRLTV 83 (681)
T ss_pred cccCChhhcCCCCHHHHHHHHHcCCCCHHHHhhcCCCceEEcCCcCCHHHCCCCCEEEEEEEEEEEEEccC--CceEEEE
Confidence 57789999999999999999999999999999999999999963 6789999999999999998754332 4567777
Q ss_pred EEeeeeccCCCCCCcceeeecCCCceeEEEEEeeeeecccccccchhHhhhccccCCcEEEEEEEEeecCCCceeEEeec
Q 045263 284 IVGCEIADTETTSGDEVVNIDSGQKKKIYLHLKKFFRGTRFTSIPFLKSIEGKHKVGEFVCVSGKVRAMRSNNHYEMREY 363 (742)
Q Consensus 284 ~v~~~~~~~~~~~~~~~~~~~~g~~~~i~l~~~~ff~~~~Ffn~pfl~~~~~~l~~G~~v~v~GKv~~~~~~~~~~m~~~ 363 (742)
.+. |++|. +. + .|| +||+||++ +.|++|+.++|||||+.++ +.++|.||
T Consensus 84 ~l~----------------D~tg~---i~--l-~~F----~~n~~~~~---~~l~~G~~~~v~Gkv~~~~--~~~qm~~P 132 (681)
T PRK10917 84 TVS----------------DGTGN---LT--L-RFF----NFNQPYLK---KQLKVGKRVAVYGKVKRGK--YGLEMVHP 132 (681)
T ss_pred EEE----------------ECCeE---EE--E-EEE----ccCcHHHH---hhCCCCCEEEEEEEEEecC--CeEEEEcC
Confidence 776 23332 22 2 343 12789876 8899999999999999854 46899999
Q ss_pred eeeecCcchhhhhhccCCCccccCCCCCCCHHHHHHHHHHHHHhCCCCCCCCCHhHHhhcCCCCHHHHHHhccCCCCcch
Q 045263 364 NIDVLKDEDDLSLRAKGRPYPIYPSKGGLNASLLRDTIARALQALPANFDPVPKEITQEFGLLCLFDAYMGIHQPKHIDE 443 (742)
Q Consensus 364 ~~e~l~~~~~~~~~~~~~I~PIYp~t~GLs~~~lrk~I~~aL~~~~~~~d~LP~~l~~k~~l~~~~~Al~~IH~P~~~~~ 443 (742)
++++.+++.. ...++|+||||+|+||+++.|+++|.++|+.+....|+||++++++|+|+++.+|++.||+|.+.++
T Consensus 133 ~~~~~~~~~~---~~~~~i~PvY~~~~gl~~~~~~~~i~~~l~~~~~~~e~lp~~~~~~~~l~~~~~al~~iH~P~~~~~ 209 (681)
T PRK10917 133 EYEVLEEESP---ELEGRLTPVYPLTEGLKQKTLRKLIKQALELLDALPELLPEELLEKYGLLSLAEALRAIHFPPSDED 209 (681)
T ss_pred EEEecccccc---cccCceEeecCCCCCcCHHHHHHHHHHHHhhccCCCCCCCHHHHHhcCCCCHHHHHHHhCCCCChHH
Confidence 9976532211 1136799999999999999999999999998766789999999999999999999999999999999
Q ss_pred HHHHHHhhchhHHHHHHHHHHHHHHhhcccchhhchhhhhccccccccccccCchHHHHHHHHhCCCCCCHHHHHHHHHH
Q 045263 444 ADLARKRLIFDEFFYLQLGRLYQMLEGLGTQFEKEGLLDKYRKPRLNAAYMEGWSSLTKKLLRALPYSLTSSQLSAISEI 523 (742)
Q Consensus 444 ~~~Ar~Rl~f~El~~~ql~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~lpf~Lt~~Q~~aI~~I 523 (742)
...|++||+|+|+|.+|+++...+... ....++. ......+.+.+.+.+||+||++|++|+++|
T Consensus 210 ~~~a~~rl~~~El~~~q~~~~~~~~~~-----------~~~~~~~-----~~~~~~~~~~~~~~l~f~lt~~Q~~ai~~I 273 (681)
T PRK10917 210 LHPARRRLKFEELFALQLSLLLLRAGR-----------RSKKAGP-----LPYDGELLKKFLASLPFELTGAQKRVVAEI 273 (681)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HhccCCC-----CCCChHHHHHHHHhCCCCCCHHHHHHHHHH
Confidence 999999999999999999986544310 1111111 112367889999999999999999999999
Q ss_pred HHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCC
Q 045263 524 IWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGST 603 (742)
Q Consensus 524 ~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~ 603 (742)
.+++.++.+|++|++||||||||++|+++++..+.+|.|++||+||++||.|+++.+++++..++ +++.+++|+.
T Consensus 274 ~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~-----i~v~ll~G~~ 348 (681)
T PRK10917 274 LADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLEPLG-----IRVALLTGSL 348 (681)
T ss_pred HHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHhhcC-----cEEEEEcCCC
Confidence 99999999999999999999999999999999999999999999999999999999999998887 8999999999
Q ss_pred ChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccchhhhhhhhhccccccccccccCCCCCCCC
Q 045263 604 PVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDD 683 (742)
Q Consensus 604 ~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~ 683 (742)
+.+++...+..+.+|+++|+||||+++++.+.|+++++|||||+|+||+.||..+..+.
T Consensus 349 ~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~v~~~~l~lvVIDE~Hrfg~~qr~~l~~~~--------------------- 407 (681)
T PRK10917 349 KGKERREILEAIASGEADIVIGTHALIQDDVEFHNLGLVIIDEQHRFGVEQRLALREKG--------------------- 407 (681)
T ss_pred CHHHHHHHHHHHhCCCCCEEEchHHHhcccchhcccceEEEechhhhhHHHHHHHHhcC---------------------
Confidence 99999999999999999999999999998888999999999999999999998776531
Q ss_pred CCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEEEcCCcc
Q 045263 684 QHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRIPIKTYIIEGNEK 735 (742)
Q Consensus 684 ~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~~~~~~~ 735 (742)
..+++|+|||||+|+++++..+|+++++.|+++|+||+||.|.++..+..
T Consensus 408 --~~~~iL~~SATp~prtl~~~~~g~~~~s~i~~~p~~r~~i~~~~~~~~~~ 457 (681)
T PRK10917 408 --ENPHVLVMTATPIPRTLAMTAYGDLDVSVIDELPPGRKPITTVVIPDSRR 457 (681)
T ss_pred --CCCCEEEEeCCCCHHHHHHHHcCCCceEEEecCCCCCCCcEEEEeCcccH
Confidence 24789999999999999999999999999999999999999998876644
No 3
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=100.00 E-value=3.4e-71 Score=647.94 Aligned_cols=431 Identities=44% Similarity=0.643 Sum_probs=365.3
Q ss_pred CCCCCHhHHhhcCCCcceeccc--ccccCCCCCeEEEEEEEEEeeccccCCCceEEEEEEeeeeccCCCCCCcceeeecC
Q 045263 228 CGFYTLRKLLHHFPRTYADLQN--AQIDLDDGQYFIFIGEIISSRGMKAGCSFSFLEVIVGCEIADTETTSGDEVVNIDS 305 (742)
Q Consensus 228 lGI~Tv~DLL~~fPrrYeDr~~--~i~~l~~Ge~vti~G~V~~~~~~~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~~~~ 305 (742)
+||+|+.|||+||||+|+|++. ++.++.+|+.+++.|+|++..... +++++++++.+.+. ++
T Consensus 1 ~gi~t~~dll~~~P~~y~d~~~~~~i~~~~~g~~~~~~~~v~~~~~~~-~~~~~~~~~~~~d~---------------~~ 64 (630)
T TIGR00643 1 LGIHTVQDLLFYFPRRYEDRTLLQTIGELLPGERATIVGEVLSHCIFG-FKRRKVLKLRLKDG---------------GY 64 (630)
T ss_pred CCCCcHHHHhhcCCCceEecCcccCHHHcCCCCEEEEEEEEEEeEecc-CCCCceEEEEEEEC---------------CC
Confidence 6999999999999999999973 689999999999999998753222 23345677766520 22
Q ss_pred CCceeEEEEEeeeeecccccccchhHhhhccccCCcEEEEEEEEeecCCCceeEEeeceeeecCcchhhhhhccCCCccc
Q 045263 306 GQKKKIYLHLKKFFRGTRFTSIPFLKSIEGKHKVGEFVCVSGKVRAMRSNNHYEMREYNIDVLKDEDDLSLRAKGRPYPI 385 (742)
Q Consensus 306 g~~~~i~l~~~~ff~~~~Ffn~pfl~~~~~~l~~G~~v~v~GKv~~~~~~~~~~m~~~~~e~l~~~~~~~~~~~~~I~PI 385 (742)
|. +. .+|||+||++ +.|++|+.++|+|||+.++ ++++|.||++....+... ..++|+||
T Consensus 65 ~~---~~---------~~~F~~~~~~---~~~~~g~~~~~~Gk~~~~~--~~~~~~~p~~~~~~~~~~----~~~~i~Pv 123 (630)
T TIGR00643 65 KK---LE---------LRFFNRAFLK---KKFKVGSKVVVYGKVKSSK--FKAYLIHPEFISEKDGVE----FELKILPV 123 (630)
T ss_pred CE---EE---------EEEECCHHHH---hhCCCCCEEEEEEEEEeeC--CEEEEECCEEeccccccc----ccCceEee
Confidence 31 22 2467889876 8899999999999999864 468999998843211001 12569999
Q ss_pred cCCCCCCCHHHHHHHHHHHHHhCC-CCCCCCCHhHHhhcCCCCHHHHHHhccCCCCcchHHHHHHhhchhHHHHHHHHHH
Q 045263 386 YPSKGGLNASLLRDTIARALQALP-ANFDPVPKEITQEFGLLCLFDAYMGIHQPKHIDEADLARKRLIFDEFFYLQLGRL 464 (742)
Q Consensus 386 Yp~t~GLs~~~lrk~I~~aL~~~~-~~~d~LP~~l~~k~~l~~~~~Al~~IH~P~~~~~~~~Ar~Rl~f~El~~~ql~~~ 464 (742)
||+++||++++|+++|.++|+.+. ...|+||++++++|+|+++.+|++.||+|.+.+++..|++||+|+|+|.+|+++.
T Consensus 124 Y~~~~gl~~~~~~~~i~~~l~~~~~~~~e~lp~~~~~~~~l~~~~~al~~iH~P~~~~~~~~a~~rl~~~E~~~~ql~l~ 203 (630)
T TIGR00643 124 YPLTEGLTQKKLRKLIQQALDQLDKSLEDPLPEELREKYGLLSLEDALRAIHFPKTLSLLELARRRLIFDEFFYLQLAML 203 (630)
T ss_pred ccCCCCcCHHHHHHHHHHHHHhccccCCCCCCHHHHhhcCCCCHHHHHHHcCCccCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999764 3679999999999999999999999999999999999999999999999999986
Q ss_pred HHHHhhcccchhhchhhhhccccccccccccCchHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCCh
Q 045263 465 YQMLEGLGTQFEKEGLLDKYRKPRLNAAYMEGWSSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCG 544 (742)
Q Consensus 465 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSG 544 (742)
..+... ......+. ......+...+.+.+||+||+.|++|+++|..++.++.||++|++||||||
T Consensus 204 ~~~~~~----------~~~~~~~~-----~~~~~~~~~~~~~~lpf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSG 268 (630)
T TIGR00643 204 ARRLGE----------KQQFSAPP-----ANPSEELLTKFLASLPFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSG 268 (630)
T ss_pred HHHHHH----------HhhcCCCC-----CCCChHHHHHHHHhCCCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCc
Confidence 443310 00111111 112246788999999999999999999999999988899999999999999
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEE
Q 045263 545 KTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVI 624 (742)
Q Consensus 545 KT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVV 624 (742)
||.+|+++++.++.+|.|+++|+||++||.|+++.+++++..++ +++++++|+.+.+++...++.+.+|+++|||
T Consensus 269 KT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~~~g-----i~v~lltg~~~~~~r~~~~~~i~~g~~~IiV 343 (630)
T TIGR00643 269 KTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLAPLG-----IEVALLTGSLKGKRRKELLETIASGQIHLVV 343 (630)
T ss_pred HHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhcccC-----cEEEEEecCCCHHHHHHHHHHHhCCCCCEEE
Confidence 99999999999999999999999999999999999999998877 8999999999999999999999999999999
Q ss_pred echHHHhhccccCCccEEEEeCCccccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHH
Q 045263 625 GTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLAL 704 (742)
Q Consensus 625 gT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~ 704 (742)
|||+++++.+.|+++++|||||+|+||+.||..+..+.. ....+++|+|||||+|+++++
T Consensus 344 gT~~ll~~~~~~~~l~lvVIDEaH~fg~~qr~~l~~~~~--------------------~~~~~~~l~~SATp~prtl~l 403 (630)
T TIGR00643 344 GTHALIQEKVEFKRLALVIIDEQHRFGVEQRKKLREKGQ--------------------GGFTPHVLVMSATPIPRTLAL 403 (630)
T ss_pred ecHHHHhccccccccceEEEechhhccHHHHHHHHHhcc--------------------cCCCCCEEEEeCCCCcHHHHH
Confidence 999999988999999999999999999999988776521 012578999999999999999
Q ss_pred HHcCCCCeeeeccCCCCCCCcEEEEEcCCcc
Q 045263 705 ALYGDMSLTQITDLPPGRIPIKTYIIEGNEK 735 (742)
Q Consensus 705 ~l~gdl~~s~I~e~P~gr~~i~t~~~~~~~~ 735 (742)
+.+|+++++.++++|.||.||.|.++..+..
T Consensus 404 ~~~~~l~~~~i~~~p~~r~~i~~~~~~~~~~ 434 (630)
T TIGR00643 404 TVYGDLDTSIIDELPPGRKPITTVLIKHDEK 434 (630)
T ss_pred HhcCCcceeeeccCCCCCCceEEEEeCcchH
Confidence 9999999999999999999999998876544
No 4
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=100.00 E-value=8e-40 Score=386.65 Aligned_cols=222 Identities=37% Similarity=0.575 Sum_probs=210.2
Q ss_pred cccccCchHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccH
Q 045263 491 AAYMEGWSSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTE 570 (742)
Q Consensus 491 ~~~~~~~~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~ 570 (742)
+..++...++.+.|.+.|||+-|+.|..||++|.+||.++.||+||||||+|-|||.||+-|+..++.+|+||++||||.
T Consensus 574 G~af~~d~~~q~~F~~~FPyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~GKQVAvLVPTT 653 (1139)
T COG1197 574 GFAFPPDTEWQEEFEASFPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDGKQVAVLVPTT 653 (1139)
T ss_pred CCCCCCChHHHHHHHhcCCCcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCCCeEEEEcccH
Confidence 34455677889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccc
Q 045263 571 LLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 571 ~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrf 650 (742)
.||+|||++|++.|.+++ ++|.++..-.+.++...+++++++|.+|||||||.+|++.+.|++|||+||||.|||
T Consensus 654 lLA~QHy~tFkeRF~~fP-----V~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrLL~kdv~FkdLGLlIIDEEqRF 728 (1139)
T COG1197 654 LLAQQHYETFKERFAGFP-----VRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRLLSKDVKFKDLGLLIIDEEQRF 728 (1139)
T ss_pred HhHHHHHHHHHHHhcCCC-----eeEEEecccCCHHHHHHHHHHHhcCCccEEEechHhhCCCcEEecCCeEEEechhhc
Confidence 999999999999999998 999999999999999999999999999999999999999999999999999999999
Q ss_pred cccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEEE
Q 045263 651 GVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRIPIKTYII 730 (742)
Q Consensus 651 G~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~~ 730 (742)
||+|.+++.+-. .+.|+|-||||||||||.|++.|--|+|.|...|.+|.||+|++.
T Consensus 729 GVk~KEkLK~Lr-----------------------~~VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP~~R~pV~T~V~ 785 (1139)
T COG1197 729 GVKHKEKLKELR-----------------------ANVDVLTLSATPIPRTLNMSLSGIRDLSVIATPPEDRLPVKTFVS 785 (1139)
T ss_pred CccHHHHHHHHh-----------------------ccCcEEEeeCCCCcchHHHHHhcchhhhhccCCCCCCcceEEEEe
Confidence 999999887631 367999999999999999999999999999999999999999999
Q ss_pred cCCccccccc
Q 045263 731 EGNEKGYENV 740 (742)
Q Consensus 731 ~~~~~~~~~~ 740 (742)
+.++..+++.
T Consensus 786 ~~d~~~ireA 795 (1139)
T COG1197 786 EYDDLLIREA 795 (1139)
T ss_pred cCChHHHHHH
Confidence 9988876653
No 5
>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=100.00 E-value=6.6e-34 Score=341.88 Aligned_cols=213 Identities=39% Similarity=0.621 Sum_probs=196.1
Q ss_pred cCchHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHH
Q 045263 495 EGWSSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLAT 574 (742)
Q Consensus 495 ~~~~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~ 574 (742)
...+.+.+.|.+.+||+||+.|++||++|.+++.++.+|++|++||||||||.+|+.+++.++.+|.|++||+||++||.
T Consensus 435 ~~~~~~~~~~~~~~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~ 514 (926)
T TIGR00580 435 PPDLEWQQEFEDSFPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQ 514 (926)
T ss_pred CCCHHHHHHHHHhCCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHH
Confidence 34567889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccc
Q 045263 575 QHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQ 654 (742)
Q Consensus 575 Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~q 654 (742)
||++.|++++..++ +++.+++|..+.+++..++..+.+|.++||||||..++..+.|++++++||||+|+||+.+
T Consensus 515 Q~~~~f~~~~~~~~-----i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll~~~v~f~~L~llVIDEahrfgv~~ 589 (926)
T TIGR00580 515 QHFETFKERFANFP-----VTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLLQKDVKFKDLGLLIIDEEQRFGVKQ 589 (926)
T ss_pred HHHHHHHHHhccCC-----cEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHhhCCCCcccCCEEEeecccccchhH
Confidence 99999999998877 8999999999999999999999999999999999999888899999999999999999999
Q ss_pred hhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEEEcCCc
Q 045263 655 RGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRIPIKTYIIEGNE 734 (742)
Q Consensus 655 r~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~~~~~~ 734 (742)
+..+... ...+++|+|||||+||+++++++|..+++.|...|.+|.+|+|++...+.
T Consensus 590 ~~~L~~~-----------------------~~~~~vL~~SATpiprtl~~~l~g~~d~s~I~~~p~~R~~V~t~v~~~~~ 646 (926)
T TIGR00580 590 KEKLKEL-----------------------RTSVDVLTLSATPIPRTLHMSMSGIRDLSIIATPPEDRLPVRTFVMEYDP 646 (926)
T ss_pred HHHHHhc-----------------------CCCCCEEEEecCCCHHHHHHHHhcCCCcEEEecCCCCccceEEEEEecCH
Confidence 8776442 13578999999999999999999999999999999999999999876554
Q ss_pred c
Q 045263 735 K 735 (742)
Q Consensus 735 ~ 735 (742)
.
T Consensus 647 ~ 647 (926)
T TIGR00580 647 E 647 (926)
T ss_pred H
Confidence 3
No 6
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.97 E-value=1.7e-30 Score=318.47 Aligned_cols=211 Identities=35% Similarity=0.561 Sum_probs=191.4
Q ss_pred cCchHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHH
Q 045263 495 EGWSSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLAT 574 (742)
Q Consensus 495 ~~~~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~ 574 (742)
.....+...|.+++||++|+.|++||+.+..++.++.||++|++||||+|||.+|+.++..++..|.|++||+||++||.
T Consensus 584 ~~~~~~~~~~~~~~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~ 663 (1147)
T PRK10689 584 KHDREQYQLFCDSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQ 663 (1147)
T ss_pred CCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHH
Confidence 34567889999999999999999999999999999999999999999999999999999888889999999999999999
Q ss_pred HHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccc
Q 045263 575 QHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQ 654 (742)
Q Consensus 575 Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~q 654 (742)
|+++.|.+.+..++ +++.+++|..+.+++..++..+.+|.++||||||+.+...+.+++++++||||+|+||+.+
T Consensus 664 Q~~~~f~~~~~~~~-----v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL~~~v~~~~L~lLVIDEahrfG~~~ 738 (1147)
T PRK10689 664 QHYDNFRDRFANWP-----VRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLLQSDVKWKDLGLLIVDEEHRFGVRH 738 (1147)
T ss_pred HHHHHHHHhhccCC-----ceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHHhCCCCHhhCCEEEEechhhcchhH
Confidence 99999999887766 8899999999999999999889999999999999999877889999999999999999988
Q ss_pred hhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEEEcCC
Q 045263 655 RGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRIPIKTYIIEGN 733 (742)
Q Consensus 655 r~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~~~~~ 733 (742)
...+... ...+++|+|||||+|+++.++..|..+.+.|...|.+|.+|+|++....
T Consensus 739 ~e~lk~l-----------------------~~~~qvLl~SATpiprtl~l~~~gl~d~~~I~~~p~~r~~v~~~~~~~~ 794 (1147)
T PRK10689 739 KERIKAM-----------------------RADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRLAVKTFVREYD 794 (1147)
T ss_pred HHHHHhc-----------------------CCCCcEEEEcCCCCHHHHHHHHhhCCCcEEEecCCCCCCCceEEEEecC
Confidence 7665321 1357899999999999999999999999999998899999999876644
No 7
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.92 E-value=5e-24 Score=251.70 Aligned_cols=203 Identities=27% Similarity=0.245 Sum_probs=169.1
Q ss_pred HhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 506 RALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 506 ~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
...+++||+.|++|++.+.+++ ...+.+++|+||||||.+|+.++...+..|.++++++||++|+.|++++|++.+
T Consensus 139 ~~~~~~Lt~~Q~~ai~~i~~~~---~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~f- 214 (679)
T PRK05580 139 AFEPPTLNPEQAAAVEAIRAAA---GFSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARF- 214 (679)
T ss_pred ccCCCCCCHHHHHHHHHHHhcc---CCCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHh-
Confidence 4567889999999999999864 234789999999999999999999999999999999999999999999999876
Q ss_pred hccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccchhhhhhhhhcc
Q 045263 586 NMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNSKLYYT 665 (742)
Q Consensus 586 ~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~ 665 (742)
+ .++.+++|+.+.+++...|.++.+|+++|||||++.+ +.+++++++|||||+|.++++|..... |+.
T Consensus 215 --g-----~~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal--~~p~~~l~liVvDEeh~~s~~~~~~p~---y~~ 282 (679)
T PRK05580 215 --G-----APVAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSAL--FLPFKNLGLIIVDEEHDSSYKQQEGPR---YHA 282 (679)
T ss_pred --C-----CCEEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHh--cccccCCCEEEEECCCccccccCcCCC---CcH
Confidence 3 5799999999999999999999999999999999988 578999999999999999988754221 111
Q ss_pred ccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEEEcCCc
Q 045263 666 SMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRIPIKTYIIEGNE 734 (742)
Q Consensus 666 ~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~~~~~~ 734 (742)
.. ++..|+... ..+++++||||++++++++..|.+++..+.+.+.++......+++..+
T Consensus 283 r~---------va~~ra~~~-~~~~il~SATps~~s~~~~~~g~~~~~~l~~r~~~~~~p~v~~id~~~ 341 (679)
T PRK05580 283 RD---------LAVVRAKLE-NIPVVLGSATPSLESLANAQQGRYRLLRLTKRAGGARLPEVEIIDMRE 341 (679)
T ss_pred HH---------HHHHHhhcc-CCCEEEEcCCCCHHHHHHHhccceeEEEeccccccCCCCeEEEEechh
Confidence 00 001122222 356888999999999999999999999999999888777777777643
No 8
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.89 E-value=8.2e-23 Score=233.77 Aligned_cols=177 Identities=25% Similarity=0.278 Sum_probs=148.5
Q ss_pred EEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHh
Q 045263 536 LLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDL 615 (742)
Q Consensus 536 LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l 615 (742)
||+|+||||||.+|+.++..++..|++++||+|+++|+.|++++|++.+. .++.++||+.+.+++...|.++
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~--------~~v~vlhs~~~~~er~~~~~~~ 72 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFG--------SQVAVLHSGLSDSEKLQAWRKV 72 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhC--------CcEEEEECCCCHHHHHHHHHHH
Confidence 58999999999999999988889999999999999999999999998763 5788999999999999999999
Q ss_pred hcCCccEEEechHHHhhccccCCccEEEEeCCccccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcC
Q 045263 616 QTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSA 695 (742)
Q Consensus 616 ~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSA 695 (742)
.+|+++|||||++.+ +.+++++++|||||+|.++++|..... |+... ++..|+...+ .+++++||
T Consensus 73 ~~g~~~IVVGTrsal--f~p~~~l~lIIVDEeh~~sykq~~~p~---y~ar~---------~a~~ra~~~~-~~vil~SA 137 (505)
T TIGR00595 73 KNGEILVVIGTRSAL--FLPFKNLGLIIVDEEHDSSYKQEEGPR---YHARD---------VAVYRAKKFN-CPVVLGSA 137 (505)
T ss_pred HcCCCCEEECChHHH--cCcccCCCEEEEECCCccccccccCCC---CcHHH---------HHHHHHHhcC-CCEEEEeC
Confidence 999999999999998 578999999999999999998865321 11100 0112233333 46888999
Q ss_pred CCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEEEcCCcc
Q 045263 696 TPIPRTLALALYGDMSLTQITDLPPGRIPIKTYIIEGNEK 735 (742)
Q Consensus 696 TPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~~~~~~~ 735 (742)
||+++++.++..|.+.+..+.+.+.++....+.+++..+.
T Consensus 138 TPsles~~~~~~g~~~~~~l~~r~~~~~~p~v~vid~~~~ 177 (505)
T TIGR00595 138 TPSLESYHNAKQKAYRLLVLTRRVSGRKPPEVKLIDMRKE 177 (505)
T ss_pred CCCHHHHHHHhcCCeEEeechhhhcCCCCCeEEEEecccc
Confidence 9999999999999999999999998888878888876543
No 9
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=99.89 E-value=3.7e-23 Score=241.22 Aligned_cols=202 Identities=26% Similarity=0.279 Sum_probs=175.0
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhcc
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNME 588 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~ 588 (742)
+..|++.|+.|++.|.... +.....|++|.||||||.+|+.++...+..|+|+|+|+|.++|..|+.++|+..|.
T Consensus 196 ~~~Ln~~Q~~a~~~i~~~~--~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg--- 270 (730)
T COG1198 196 WLALNQEQQAAVEAILSSL--GGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFG--- 270 (730)
T ss_pred ccccCHHHHHHHHHHHHhc--ccccceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhC---
Confidence 3469999999999999875 23357899999999999999999999999999999999999999999999999885
Q ss_pred CCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccchhhhhhhhhccccc
Q 045263 589 EDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNSKLYYTSMS 668 (742)
Q Consensus 589 ~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~~~~ 668 (742)
.+++++|++.+..+|.+.|.++.+|++.|||||.+.+ +.+|++||||||||.|..+|+|.... +||+.
T Consensus 271 -----~~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAl--F~Pf~~LGLIIvDEEHD~sYKq~~~p---rYhAR-- 338 (730)
T COG1198 271 -----AKVAVLHSGLSPGERYRVWRRARRGEARVVIGTRSAL--FLPFKNLGLIIVDEEHDSSYKQEDGP---RYHAR-- 338 (730)
T ss_pred -----CChhhhcccCChHHHHHHHHHHhcCCceEEEEechhh--cCchhhccEEEEeccccccccCCcCC---CcCHH--
Confidence 4799999999999999999999999999999999999 79999999999999999999997632 23321
Q ss_pred cccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEEEcCCcc
Q 045263 669 SGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRIPIKTYIIEGNEK 735 (742)
Q Consensus 669 ~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~~~~~~~ 735 (742)
.++..|++..++| +++.||||+.+|++.+..|.+....+..+...-.+....++++...
T Consensus 339 -------dvA~~Ra~~~~~p-vvLgSATPSLES~~~~~~g~y~~~~L~~R~~~a~~p~v~iiDmr~e 397 (730)
T COG1198 339 -------DVAVLRAKKENAP-VVLGSATPSLESYANAESGKYKLLRLTNRAGRARLPRVEIIDMRKE 397 (730)
T ss_pred -------HHHHHHHHHhCCC-EEEecCCCCHHHHHhhhcCceEEEEccccccccCCCcceEEecccc
Confidence 1345677777777 6666999999999999999999999998887444666677877655
No 10
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.85 E-value=4.1e-20 Score=209.83 Aligned_cols=196 Identities=17% Similarity=0.201 Sum_probs=138.8
Q ss_pred HHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC---------CeEEEEcc
Q 045263 499 SLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG---------YQAAFMVP 568 (742)
Q Consensus 499 ~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g---------~qvlilaP 568 (742)
.+.+.+ ..++|. ||++|++||+.++++ .++++++|||||||++|++|++..+..+ .++||++|
T Consensus 11 ~l~~~l-~~~g~~~pt~iQ~~ai~~il~g------~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~P 83 (456)
T PRK10590 11 DILRAV-AEQGYREPTPIQQQAIPAVLEG------RDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTP 83 (456)
T ss_pred HHHHHH-HHCCCCCCCHHHHHHHHHHhCC------CCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeC
Confidence 344444 557775 999999999999874 3899999999999999999999887542 37999999
Q ss_pred cHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEE
Q 045263 569 TELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAI 643 (742)
Q Consensus 569 T~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVI 643 (742)
|++||.|+++.+..+....+ +++..++|+.+....... + .+.++|+|+||+.+.+ .+.++++++||
T Consensus 84 treLa~Qi~~~~~~~~~~~~-----~~~~~~~gg~~~~~~~~~---l-~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~lV 154 (456)
T PRK10590 84 TRELAAQIGENVRDYSKYLN-----IRSLVVFGGVSINPQMMK---L-RGGVDVLVATPGRLLDLEHQNAVKLDQVEILV 154 (456)
T ss_pred cHHHHHHHHHHHHHHhccCC-----CEEEEEECCcCHHHHHHH---H-cCCCcEEEEChHHHHHHHHcCCcccccceEEE
Confidence 99999999999999987776 788889999876654332 2 3568999999998854 34688999999
Q ss_pred EeCCccccccch-hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHH--HHHHHcCCCCeeeeccCCC
Q 045263 644 VDEQQRFGVVQR-GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRT--LALALYGDMSLTQITDLPP 720 (742)
Q Consensus 644 IDEaHrfG~~qr-~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprt--la~~l~gdl~~s~I~e~P~ 720 (742)
|||+|++..... ..+.... ..+....+++++|||+.++. ++..+..+.....+.....
T Consensus 155 iDEah~ll~~~~~~~i~~il-------------------~~l~~~~q~l~~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~ 215 (456)
T PRK10590 155 LDEADRMLDMGFIHDIRRVL-------------------AKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNT 215 (456)
T ss_pred eecHHHHhccccHHHHHHHH-------------------HhCCccCeEEEEeCCCcHHHHHHHHHHcCCCeEEEEecccc
Confidence 999999743222 1111110 11223457899999976643 4444444443333333333
Q ss_pred CCCCcEEEE
Q 045263 721 GRIPIKTYI 729 (742)
Q Consensus 721 gr~~i~t~~ 729 (742)
....+..++
T Consensus 216 ~~~~i~~~~ 224 (456)
T PRK10590 216 ASEQVTQHV 224 (456)
T ss_pred cccceeEEE
Confidence 333444444
No 11
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.84 E-value=6.8e-20 Score=208.13 Aligned_cols=169 Identities=22% Similarity=0.288 Sum_probs=129.2
Q ss_pred HHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC---CeEEEEcccHHHHHHHHHHH
Q 045263 505 LRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG---YQAAFMVPTELLATQHYEHL 580 (742)
Q Consensus 505 ~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g---~qvlilaPT~~La~Q~~~~l 580 (742)
+..++|+ |||+|++|++.++++ ++++++||||||||.+|++|++..+..+ .+++|++||++||.|+.+.+
T Consensus 19 l~~~g~~~~t~iQ~~ai~~~l~g------~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~ 92 (460)
T PRK11776 19 LNELGYTEMTPIQAQSLPAILAG------KDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEI 92 (460)
T ss_pred HHHCCCCCCCHHHHHHHHHHhcC------CCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHH
Confidence 4668886 999999999999974 3899999999999999999999988653 48999999999999999999
Q ss_pred HHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccccccch
Q 045263 581 LKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFGVVQR 655 (742)
Q Consensus 581 ~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG~~qr 655 (742)
+.+..... ++++..++|+.+...+... +. +.++|+||||+.+.+ .+.++++++||+||+|++.....
T Consensus 93 ~~~~~~~~----~~~v~~~~Gg~~~~~~~~~---l~-~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~~l~~g~ 164 (460)
T PRK11776 93 RRLARFIP----NIKVLTLCGGVPMGPQIDS---LE-HGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLDMGF 164 (460)
T ss_pred HHHHhhCC----CcEEEEEECCCChHHHHHH---hc-CCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHHHHhCcCc
Confidence 98875442 2789999999887655443 33 458999999999865 34678999999999998643221
Q ss_pred -hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHH
Q 045263 656 -GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALAL 706 (742)
Q Consensus 656 -~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l 706 (742)
..+.... .......+++++|||+.++...+..
T Consensus 165 ~~~l~~i~-------------------~~~~~~~q~ll~SAT~~~~~~~l~~ 197 (460)
T PRK11776 165 QDAIDAII-------------------RQAPARRQTLLFSATYPEGIAAISQ 197 (460)
T ss_pred HHHHHHHH-------------------HhCCcccEEEEEEecCcHHHHHHHH
Confidence 1121111 1122356899999998776555443
No 12
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=99.84 E-value=6.5e-20 Score=178.53 Aligned_cols=159 Identities=23% Similarity=0.350 Sum_probs=120.0
Q ss_pred CHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCC--eEEEEcccHHHHHHHHHHHHHhhhhccCC
Q 045263 513 TSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGY--QAAFMVPTELLATQHYEHLLKLLDNMEED 590 (742)
Q Consensus 513 t~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~--qvlilaPT~~La~Q~~~~l~~~l~~~~~~ 590 (742)
||.|.++++.+..+ .++++.||||+|||.+++.+++..+.++. ++++++|+++|++|+++++.+++...+
T Consensus 1 t~~Q~~~~~~i~~~------~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~~~-- 72 (169)
T PF00270_consen 1 TPLQQEAIEAIISG------KNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSNTN-- 72 (169)
T ss_dssp -HHHHHHHHHHHTT------SEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTTTT--
T ss_pred CHHHHHHHHHHHcC------CCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccccc--
Confidence 79999999999953 37899999999999999999999887765 999999999999999999999987644
Q ss_pred CCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhcc-----ccCCccEEEEeCCccccccchhhhhhhhhcc
Q 045263 591 KHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKV-----EFSALRLAIVDEQQRFGVVQRGRFNSKLYYT 665 (742)
Q Consensus 591 ~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v-----~~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~ 665 (742)
+++..++|+.+.+.....+ + .++++|+|+||+.+.+.+ .+.++++||+||+|.++..............
T Consensus 73 ---~~~~~~~~~~~~~~~~~~~--~-~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~~~~~~~~~~i~~~ 146 (169)
T PF00270_consen 73 ---VRVVLLHGGQSISEDQREV--L-SNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLSDETFRAMLKSILRR 146 (169)
T ss_dssp ---SSEEEESTTSCHHHHHHHH--H-HTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHHHTTHHHHHHHHHHH
T ss_pred ---ccccccccccccccccccc--c-cccccccccCcchhhccccccccccccceeeccCcccccccccHHHHHHHHHHH
Confidence 7889999988755232211 2 556999999999886522 4567999999999999775432222211110
Q ss_pred ccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHH
Q 045263 666 SMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTL 702 (742)
Q Consensus 666 ~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtl 702 (742)
-.....+++++|||||. ..+
T Consensus 147 ----------------~~~~~~~~~i~~SAT~~-~~~ 166 (169)
T PF00270_consen 147 ----------------LKRFKNIQIILLSATLP-SNV 166 (169)
T ss_dssp ----------------SHTTTTSEEEEEESSST-HHH
T ss_pred ----------------hcCCCCCcEEEEeeCCC-hhH
Confidence 00011467999999987 544
No 13
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.83 E-value=2e-19 Score=202.74 Aligned_cols=173 Identities=20% Similarity=0.193 Sum_probs=130.8
Q ss_pred HHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-------CCeEEEEcccH
Q 045263 499 SLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-------GYQAAFMVPTE 570 (742)
Q Consensus 499 ~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-------g~qvlilaPT~ 570 (742)
.+.+. ++..+|. ||++|.+|++.++++ .++++++|||||||++|++|++..+.. +.+++|++||+
T Consensus 11 ~l~~~-l~~~g~~~p~~iQ~~ai~~~~~g------~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~ 83 (434)
T PRK11192 11 SLLEA-LQDKGYTRPTAIQAEAIPPALDG------RDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTR 83 (434)
T ss_pred HHHHH-HHHCCCCCCCHHHHHHHHHHhCC------CCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcH
Confidence 34444 4557886 999999999999974 378999999999999999999988743 36899999999
Q ss_pred HHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEe
Q 045263 571 LLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVD 645 (742)
Q Consensus 571 ~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIID 645 (742)
+||.|+++.+..+....+ +++..++|+.....+...+ .+.++|+||||+.+.+ .+.+.++++||||
T Consensus 84 eLa~Q~~~~~~~l~~~~~-----~~v~~~~gg~~~~~~~~~l----~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViD 154 (434)
T PRK11192 84 ELAMQVADQARELAKHTH-----LDIATITGGVAYMNHAEVF----SENQDIVVATPGRLLQYIKEENFDCRAVETLILD 154 (434)
T ss_pred HHHHHHHHHHHHHHccCC-----cEEEEEECCCCHHHHHHHh----cCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEE
Confidence 999999999999987776 8999999998876665433 3458999999998865 3457889999999
Q ss_pred CCccccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 646 EQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 646 EaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
|+|++............. .......++++||||+....+...
T Consensus 155 Eah~~l~~~~~~~~~~i~------------------~~~~~~~q~~~~SAT~~~~~~~~~ 196 (434)
T PRK11192 155 EADRMLDMGFAQDIETIA------------------AETRWRKQTLLFSATLEGDAVQDF 196 (434)
T ss_pred CHHHHhCCCcHHHHHHHH------------------HhCccccEEEEEEeecCHHHHHHH
Confidence 999974322211111110 011234689999999865544443
No 14
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.83 E-value=2.2e-19 Score=201.83 Aligned_cols=138 Identities=22% Similarity=0.263 Sum_probs=113.6
Q ss_pred hHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc----------CCeEEEE
Q 045263 498 SSLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS----------GYQAAFM 566 (742)
Q Consensus 498 ~~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~----------g~qvlil 566 (742)
..+.+.+ ..++|. ||++|++||+.++.+ .+++++||||||||++|++|++..+.. +.+++|+
T Consensus 17 ~~l~~~l-~~~g~~~pt~iQ~~aip~il~g------~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil 89 (423)
T PRK04837 17 PQVVEAL-EKKGFHNCTPIQALALPLTLAG------RDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIM 89 (423)
T ss_pred HHHHHHH-HHCCCCCCCHHHHHHHHHHhCC------CcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEE
Confidence 3445544 557886 999999999999975 389999999999999999999887742 4689999
Q ss_pred cccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccE
Q 045263 567 VPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRL 641 (742)
Q Consensus 567 aPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~L 641 (742)
+||++||.|+++.+..+....+ +++..++|+........ .+.. .++|+||||+.+.+ .+.++++++
T Consensus 90 ~PtreLa~Qi~~~~~~l~~~~~-----~~v~~~~gg~~~~~~~~---~l~~-~~~IlV~TP~~l~~~l~~~~~~l~~v~~ 160 (423)
T PRK04837 90 APTRELAVQIHADAEPLAQATG-----LKLGLAYGGDGYDKQLK---VLES-GVDILIGTTGRLIDYAKQNHINLGAIQV 160 (423)
T ss_pred CCcHHHHHHHHHHHHHHhccCC-----ceEEEEECCCCHHHHHH---HhcC-CCCEEEECHHHHHHHHHcCCcccccccE
Confidence 9999999999999999888777 89999999877654433 2333 48999999998854 456889999
Q ss_pred EEEeCCcccc
Q 045263 642 AIVDEQQRFG 651 (742)
Q Consensus 642 VIIDEaHrfG 651 (742)
+||||+|++.
T Consensus 161 lViDEad~l~ 170 (423)
T PRK04837 161 VVLDEADRMF 170 (423)
T ss_pred EEEecHHHHh
Confidence 9999999973
No 15
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.82 E-value=2.3e-19 Score=206.70 Aligned_cols=172 Identities=24% Similarity=0.298 Sum_probs=127.5
Q ss_pred hHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh----------cCCeEEEE
Q 045263 498 SSLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG----------SGYQAAFM 566 (742)
Q Consensus 498 ~~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~----------~g~qvlil 566 (742)
+.+.+.+ ...+|. |||+|.+||+.++.+ .++++++|||||||++|++|++..+. .+.+++|+
T Consensus 130 ~~l~~~L-~~~g~~~ptpiQ~~aip~il~g------~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL 202 (518)
T PLN00206 130 PKLLLNL-ETAGYEFPTPIQMQAIPAALSG------RSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVL 202 (518)
T ss_pred HHHHHHH-HHcCCCCCCHHHHHHHHHHhcC------CCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEE
Confidence 3444444 567886 999999999999864 38999999999999999999987763 35689999
Q ss_pred cccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccE
Q 045263 567 VPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRL 641 (742)
Q Consensus 567 aPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~L 641 (742)
+||++||.|+++.++.+....+ +++..+.|+....+... .+..| ++|+|+||+.+.+ .+.++++++
T Consensus 203 ~PTreLa~Qi~~~~~~l~~~~~-----~~~~~~~gG~~~~~q~~---~l~~~-~~IiV~TPgrL~~~l~~~~~~l~~v~~ 273 (518)
T PLN00206 203 TPTRELCVQVEDQAKVLGKGLP-----FKTALVVGGDAMPQQLY---RIQQG-VELIVGTPGRLIDLLSKHDIELDNVSV 273 (518)
T ss_pred eCCHHHHHHHHHHHHHHhCCCC-----ceEEEEECCcchHHHHH---HhcCC-CCEEEECHHHHHHHHHcCCccchheeE
Confidence 9999999999999998877665 67777777766544332 34455 8999999998855 456889999
Q ss_pred EEEeCCccccccc-hhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 642 AIVDEQQRFGVVQ-RGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 642 VIIDEaHrfG~~q-r~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
|||||+|++.... +..+.... . .. ..++++++|||..++...++
T Consensus 274 lViDEad~ml~~gf~~~i~~i~-~------------------~l-~~~q~l~~SATl~~~v~~l~ 318 (518)
T PLN00206 274 LVLDEVDCMLERGFRDQVMQIF-Q------------------AL-SQPQVLLFSATVSPEVEKFA 318 (518)
T ss_pred EEeecHHHHhhcchHHHHHHHH-H------------------hC-CCCcEEEEEeeCCHHHHHHH
Confidence 9999999974322 22222111 0 01 24789999999766544443
No 16
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=99.81 E-value=8.7e-19 Score=209.07 Aligned_cols=184 Identities=18% Similarity=0.184 Sum_probs=136.2
Q ss_pred HHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHH
Q 045263 500 LTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQH 576 (742)
Q Consensus 500 l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~ 576 (742)
.+.+.++..+|+ ||++|.+||+.++++ .|+++++|||||||++|++|+++.+.. +.++||++||++||+|+
T Consensus 24 ~l~~~L~~~g~~~p~~~Q~~ai~~il~G------~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~ 97 (742)
T TIGR03817 24 DVVAALEAAGIHRPWQHQARAAELAHAG------RHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQ 97 (742)
T ss_pred HHHHHHHHcCCCcCCHHHHHHHHHHHCC------CCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHH
Confidence 344455778886 999999999999875 389999999999999999999998855 46999999999999999
Q ss_pred HHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhc---------cccCCccEEEEeCC
Q 045263 577 YEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEK---------VEFSALRLAIVDEQ 647 (742)
Q Consensus 577 ~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~---------v~~~~l~LVIIDEa 647 (742)
++.++++. ..+ +++..++|+++..++.. +..+ ++|||+||+.+... ..++++++|||||+
T Consensus 98 ~~~l~~l~-~~~-----i~v~~~~Gdt~~~~r~~----i~~~-~~IivtTPd~L~~~~L~~~~~~~~~l~~l~~vViDEa 166 (742)
T TIGR03817 98 LRAVRELT-LRG-----VRPATYDGDTPTEERRW----AREH-ARYVLTNPDMLHRGILPSHARWARFLRRLRYVVIDEC 166 (742)
T ss_pred HHHHHHhc-cCC-----eEEEEEeCCCCHHHHHH----HhcC-CCEEEEChHHHHHhhccchhHHHHHHhcCCEEEEeCh
Confidence 99999886 223 78999999998776643 3333 79999999988532 12789999999999
Q ss_pred cccccc---chhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcCCCCeeeec
Q 045263 648 QRFGVV---QRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYGDMSLTQIT 716 (742)
Q Consensus 648 HrfG~~---qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~gdl~~s~I~ 716 (742)
|++.-. +-..+...+... ...+...++++++||| +.|..++..+.|. ++..++
T Consensus 167 h~~~g~fg~~~~~il~rL~ri---------------~~~~g~~~q~i~~SATi~n~~~~~~~l~g~-~~~~i~ 223 (742)
T TIGR03817 167 HSYRGVFGSHVALVLRRLRRL---------------CARYGASPVFVLASATTADPAAAASRLIGA-PVVAVT 223 (742)
T ss_pred hhccCccHHHHHHHHHHHHHH---------------HHhcCCCCEEEEEecCCCCHHHHHHHHcCC-CeEEEC
Confidence 997211 111111111000 0112346899999999 7788887777774 234443
No 17
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=99.81 E-value=1e-18 Score=176.14 Aligned_cols=172 Identities=23% Similarity=0.248 Sum_probs=128.6
Q ss_pred HHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-----CCeEEEEcccHHHH
Q 045263 500 LTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-----GYQAAFMVPTELLA 573 (742)
Q Consensus 500 l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-----g~qvlilaPT~~La 573 (742)
+.+.+.+ ++|+ |+++|+++++.+.++ .+.++++|||+|||.+++++++..+.. +.+++|++||++|+
T Consensus 10 i~~~l~~-~~~~~~~~~Q~~~~~~~~~~------~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~ 82 (203)
T cd00268 10 LLRGIYA-LGFEKPTPIQARAIPPLLSG------RDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELA 82 (203)
T ss_pred HHHHHHH-cCCCCCCHHHHHHHHHHhcC------CcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHH
Confidence 3444444 6776 999999999999873 378999999999999999998887754 45899999999999
Q ss_pred HHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCc
Q 045263 574 TQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQ 648 (742)
Q Consensus 574 ~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaH 648 (742)
.|+.+.+.++....+ +.+..++|+.+..+....+ .+..+|+|+|+..+.+ ...+++++++|+||+|
T Consensus 83 ~q~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~----~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h 153 (203)
T cd00268 83 LQIAEVARKLGKHTN-----LKVVVIYGGTSIDKQIRKL----KRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEAD 153 (203)
T ss_pred HHHHHHHHHHhccCC-----ceEEEEECCCCHHHHHHHh----cCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChH
Confidence 999999999876554 7888999988775554433 2458999999987744 3457789999999999
Q ss_pred cccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 649 RFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 649 rfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
.++............ ..+...++++++||||.++.....
T Consensus 154 ~~~~~~~~~~~~~~~------------------~~l~~~~~~~~~SAT~~~~~~~~~ 192 (203)
T cd00268 154 RMLDMGFEDQIREIL------------------KLLPKDRQTLLFSATMPKEVRDLA 192 (203)
T ss_pred HhhccChHHHHHHHH------------------HhCCcccEEEEEeccCCHHHHHHH
Confidence 976333222221110 111235789999999887665543
No 18
>PTZ00110 helicase; Provisional
Probab=99.81 E-value=4e-19 Score=205.72 Aligned_cols=136 Identities=19% Similarity=0.251 Sum_probs=111.3
Q ss_pred HHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--------CCeEEEEcccHH
Q 045263 501 TKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--------GYQAAFMVPTEL 571 (742)
Q Consensus 501 ~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--------g~qvlilaPT~~ 571 (742)
+...+...+|+ ||++|.+|++.++.+ .++++++|||||||++|++|++..+.. |.++|||+||++
T Consensus 141 l~~~l~~~g~~~pt~iQ~~aip~~l~G------~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTre 214 (545)
T PTZ00110 141 ILKSLKNAGFTEPTPIQVQGWPIALSG------RDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRE 214 (545)
T ss_pred HHHHHHHCCCCCCCHHHHHHHHHHhcC------CCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHH
Confidence 33445677887 999999999999975 288999999999999999998877643 568999999999
Q ss_pred HHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhc-----cccCCccEEEEeC
Q 045263 572 LATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEK-----VEFSALRLAIVDE 646 (742)
Q Consensus 572 La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~-----v~~~~l~LVIIDE 646 (742)
||.|+++.+.++....+ +++..+.|+.+...... .+..+ ++|+|+||+.|.+. ..+.++.+|||||
T Consensus 215 La~Qi~~~~~~~~~~~~-----i~~~~~~gg~~~~~q~~---~l~~~-~~IlVaTPgrL~d~l~~~~~~l~~v~~lViDE 285 (545)
T PTZ00110 215 LAEQIREQCNKFGASSK-----IRNTVAYGGVPKRGQIY---ALRRG-VEILIACPGRLIDFLESNVTNLRRVTYLVLDE 285 (545)
T ss_pred HHHHHHHHHHHHhcccC-----ccEEEEeCCCCHHHHHH---HHHcC-CCEEEECHHHHHHHHHcCCCChhhCcEEEeeh
Confidence 99999999999877665 78888888877654433 34445 89999999988653 4578899999999
Q ss_pred Ccccc
Q 045263 647 QQRFG 651 (742)
Q Consensus 647 aHrfG 651 (742)
||++.
T Consensus 286 Ad~ml 290 (545)
T PTZ00110 286 ADRML 290 (545)
T ss_pred HHhhh
Confidence 99974
No 19
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.81 E-value=1.2e-18 Score=198.77 Aligned_cols=139 Identities=15% Similarity=0.230 Sum_probs=114.6
Q ss_pred hHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc----------CCeEEEE
Q 045263 498 SSLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS----------GYQAAFM 566 (742)
Q Consensus 498 ~~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~----------g~qvlil 566 (742)
..+.+.+ ..++|. +|++|.+|++.++++ .+++++++||||||++|++|++..+.. +.++||+
T Consensus 96 ~~l~~~l-~~~g~~~~~~iQ~~ai~~~~~G------~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil 168 (475)
T PRK01297 96 PELMHAI-HDLGFPYCTPIQAQVLGYTLAG------HDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALII 168 (475)
T ss_pred HHHHHHH-HHCCCCCCCHHHHHHHHHHhCC------CCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEE
Confidence 3444444 458887 999999999999875 388999999999999999999988754 3589999
Q ss_pred cccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccE
Q 045263 567 VPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRL 641 (742)
Q Consensus 567 aPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~L 641 (742)
+||++||.|+++.+..+....+ +.+..++|+.+...... .+..+.++|+|+||+.+.+ ...++++++
T Consensus 169 ~PtreLa~Q~~~~~~~l~~~~~-----~~v~~~~gg~~~~~~~~---~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~ 240 (475)
T PRK01297 169 APTRELVVQIAKDAAALTKYTG-----LNVMTFVGGMDFDKQLK---QLEARFCDILVATPGRLLDFNQRGEVHLDMVEV 240 (475)
T ss_pred eCcHHHHHHHHHHHHHhhccCC-----CEEEEEEccCChHHHHH---HHhCCCCCEEEECHHHHHHHHHcCCcccccCce
Confidence 9999999999999999887776 78999999876544432 3445678999999999865 345789999
Q ss_pred EEEeCCcccc
Q 045263 642 AIVDEQQRFG 651 (742)
Q Consensus 642 VIIDEaHrfG 651 (742)
|||||+|++.
T Consensus 241 lViDEah~l~ 250 (475)
T PRK01297 241 MVLDEADRML 250 (475)
T ss_pred EEechHHHHH
Confidence 9999999974
No 20
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.81 E-value=7.2e-19 Score=204.56 Aligned_cols=173 Identities=22% Similarity=0.259 Sum_probs=130.7
Q ss_pred hHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc----------CCeEEEE
Q 045263 498 SSLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS----------GYQAAFM 566 (742)
Q Consensus 498 ~~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~----------g~qvlil 566 (742)
..+++. +..++|+ +|++|.++|+.++++ .++++++|||||||++|++|+++.+.. +.++||+
T Consensus 18 ~~l~~~-L~~~g~~~ptpiQ~~~ip~~l~G------~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl 90 (572)
T PRK04537 18 PALLAG-LESAGFTRCTPIQALTLPVALPG------GDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALIL 90 (572)
T ss_pred HHHHHH-HHHCCCCCCCHHHHHHHHHHhCC------CCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEE
Confidence 344444 4667886 999999999999874 389999999999999999999987742 3689999
Q ss_pred cccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh------ccccCCcc
Q 045263 567 VPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE------KVEFSALR 640 (742)
Q Consensus 567 aPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~------~v~~~~l~ 640 (742)
+||++|+.|+++.+.++....+ +++..++|+.+...+...+ .+.++|||+||+.|.+ .+.+.+++
T Consensus 91 ~PTreLa~Qi~~~~~~l~~~~~-----i~v~~l~Gg~~~~~q~~~l----~~~~dIiV~TP~rL~~~l~~~~~~~l~~v~ 161 (572)
T PRK04537 91 APTRELAIQIHKDAVKFGADLG-----LRFALVYGGVDYDKQRELL----QQGVDVIIATPGRLIDYVKQHKVVSLHACE 161 (572)
T ss_pred eCcHHHHHHHHHHHHHHhccCC-----ceEEEEECCCCHHHHHHHH----hCCCCEEEECHHHHHHHHHhccccchhhee
Confidence 9999999999999999987776 8999999998876655433 3358999999998855 24567889
Q ss_pred EEEEeCCcccccc---ch-hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHH
Q 045263 641 LAIVDEQQRFGVV---QR-GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALAL 706 (742)
Q Consensus 641 LVIIDEaHrfG~~---qr-~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l 706 (742)
+|||||+|++.-. .. ..+.... . .....++++||||...+...+..
T Consensus 162 ~lViDEAh~lld~gf~~~i~~il~~l-------------------p-~~~~~q~ll~SATl~~~v~~l~~ 211 (572)
T PRK04537 162 ICVLDEADRMFDLGFIKDIRFLLRRM-------------------P-ERGTRQTLLFSATLSHRVLELAY 211 (572)
T ss_pred eeEecCHHHHhhcchHHHHHHHHHhc-------------------c-cccCceEEEEeCCccHHHHHHHH
Confidence 9999999986321 11 1111110 0 00145799999997776655543
No 21
>PTZ00424 helicase 45; Provisional
Probab=99.80 E-value=2.1e-18 Score=191.85 Aligned_cols=172 Identities=23% Similarity=0.301 Sum_probs=128.6
Q ss_pred HHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh---cCCeEEEEcccHHHHH
Q 045263 499 SLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG---SGYQAAFMVPTELLAT 574 (742)
Q Consensus 499 ~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~---~g~qvlilaPT~~La~ 574 (742)
.+.+.+ ..++|. ||++|.+|++.++++. +.++++|||||||++|+++++..+. .+.+++|++||++|+.
T Consensus 38 ~~~~~l-~~~~~~~~~~~Q~~ai~~i~~~~------d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~ 110 (401)
T PTZ00424 38 DLLRGI-YSYGFEKPSAIQQRGIKPILDGY------DTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQ 110 (401)
T ss_pred HHHHHH-HHcCCCCCCHHHHHHHHHHhCCC------CEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHH
Confidence 344443 557886 9999999999999753 7899999999999999999998876 3578999999999999
Q ss_pred HHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCcc
Q 045263 575 QHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQR 649 (742)
Q Consensus 575 Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHr 649 (742)
|+.+.+..+....+ +.+..+.|+....+.. ..+.++ ++|+|+||+.+.+ ...++++++|||||+|+
T Consensus 111 Q~~~~~~~~~~~~~-----~~~~~~~g~~~~~~~~---~~~~~~-~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~ 181 (401)
T PTZ00424 111 QIQKVVLALGDYLK-----VRCHACVGGTVVRDDI---NKLKAG-VHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADE 181 (401)
T ss_pred HHHHHHHHHhhhcC-----ceEEEEECCcCHHHHH---HHHcCC-CCEEEECcHHHHHHHHhCCcccccccEEEEecHHH
Confidence 99999998876655 6778888887654432 334444 7999999998754 35688999999999999
Q ss_pred ccccchh-hhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 650 FGVVQRG-RFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 650 fG~~qr~-~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
+...... .+.+.. ......++++++|||+..+.....
T Consensus 182 ~~~~~~~~~~~~i~-------------------~~~~~~~~~i~~SAT~~~~~~~~~ 219 (401)
T PTZ00424 182 MLSRGFKGQIYDVF-------------------KKLPPDVQVALFSATMPNEILELT 219 (401)
T ss_pred HHhcchHHHHHHHH-------------------hhCCCCcEEEEEEecCCHHHHHHH
Confidence 7543322 221111 112235689999999766554433
No 22
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.80 E-value=1.5e-18 Score=203.39 Aligned_cols=138 Identities=21% Similarity=0.271 Sum_probs=111.8
Q ss_pred HHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---CCeEEEEcccHHHHH
Q 045263 499 SLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---GYQAAFMVPTELLAT 574 (742)
Q Consensus 499 ~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---g~qvlilaPT~~La~ 574 (742)
.+.+.+ ..++|+ |||+|.++|+.++++ .++|++||||||||.+|++|++..+.. +.++||++||++||.
T Consensus 16 ~ll~al-~~~G~~~ptpiQ~~ai~~ll~g------~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~ 88 (629)
T PRK11634 16 PILEAL-NDLGYEKPSPIQAECIPHLLNG------RDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAV 88 (629)
T ss_pred HHHHHH-HHCCCCCCCHHHHHHHHHHHcC------CCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHH
Confidence 444444 567886 999999999999874 378999999999999999999888754 458999999999999
Q ss_pred HHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCcc
Q 045263 575 QHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQR 649 (742)
Q Consensus 575 Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHr 649 (742)
|+++.+..+...+. .+.+..++|+.+...+.. .+.. .++||||||+.+.+ .+.++++.+||+||+|.
T Consensus 89 Qv~~~l~~~~~~~~----~i~v~~~~gG~~~~~q~~---~l~~-~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~ 160 (629)
T PRK11634 89 QVAEAMTDFSKHMR----GVNVVALYGGQRYDVQLR---ALRQ-GPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADE 160 (629)
T ss_pred HHHHHHHHHHhhcC----CceEEEEECCcCHHHHHH---HhcC-CCCEEEECHHHHHHHHHcCCcchhhceEEEeccHHH
Confidence 99999998876542 178888888877654433 2333 48999999999865 35688999999999998
Q ss_pred cc
Q 045263 650 FG 651 (742)
Q Consensus 650 fG 651 (742)
+.
T Consensus 161 ml 162 (629)
T PRK11634 161 ML 162 (629)
T ss_pred Hh
Confidence 74
No 23
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.80 E-value=2.3e-18 Score=197.87 Aligned_cols=166 Identities=27% Similarity=0.363 Sum_probs=131.3
Q ss_pred hHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--C--Ce-EEEEcccHH
Q 045263 498 SSLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--G--YQ-AAFMVPTEL 571 (742)
Q Consensus 498 ~~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--g--~q-vlilaPT~~ 571 (742)
..+++.+.+ .+|+ +||+|..+|+.++.+ .+++.+++||||||.+|++|+++.+.. . .+ +||++||++
T Consensus 38 ~~ll~~l~~-~gf~~pt~IQ~~~IP~~l~g------~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRE 110 (513)
T COG0513 38 PELLQALKD-LGFEEPTPIQLAAIPLILAG------RDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRE 110 (513)
T ss_pred HHHHHHHHH-cCCCCCCHHHHHHHHHHhCC------CCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHH
Confidence 455555555 8887 999999999999986 388999999999999999999999873 2 23 999999999
Q ss_pred HHHHHHHHHHHhhhhc-cCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEe
Q 045263 572 LATQHYEHLLKLLDNM-EEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVD 645 (742)
Q Consensus 572 La~Q~~~~l~~~l~~~-~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIID 645 (742)
||.|+++.+..+.... + +++..++|+.+...+.. .+..| ++||||||+++.+ .+.+.++.++|+|
T Consensus 111 LA~Qi~~~~~~~~~~~~~-----~~~~~i~GG~~~~~q~~---~l~~~-~~ivVaTPGRllD~i~~~~l~l~~v~~lVlD 181 (513)
T COG0513 111 LAVQIAEELRKLGKNLGG-----LRVAVVYGGVSIRKQIE---ALKRG-VDIVVATPGRLLDLIKRGKLDLSGVETLVLD 181 (513)
T ss_pred HHHHHHHHHHHHHhhcCC-----ccEEEEECCCCHHHHHH---HHhcC-CCEEEECccHHHHHHHcCCcchhhcCEEEec
Confidence 9999999999998776 4 78999999988766654 45557 9999999999976 4577889999999
Q ss_pred CCccc---cccch-hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHH
Q 045263 646 EQQRF---GVVQR-GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRT 701 (742)
Q Consensus 646 EaHrf---G~~qr-~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprt 701 (742)
|||++ |+... ..+... .+...|++++|||.....
T Consensus 182 EADrmLd~Gf~~~i~~I~~~----------------------~p~~~qtllfSAT~~~~i 219 (513)
T COG0513 182 EADRMLDMGFIDDIEKILKA----------------------LPPDRQTLLFSATMPDDI 219 (513)
T ss_pred cHhhhhcCCCHHHHHHHHHh----------------------CCcccEEEEEecCCCHHH
Confidence 99997 43332 222211 122568999999955543
No 24
>PRK02362 ski2-like helicase; Provisional
Probab=99.78 E-value=2e-18 Score=206.77 Aligned_cols=177 Identities=22% Similarity=0.255 Sum_probs=132.5
Q ss_pred HHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHH
Q 045263 499 SLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHY 577 (742)
Q Consensus 499 ~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~ 577 (742)
.+.+.+ ...+|. |+|+|.+|++..+.. + .|+++++|||||||++|.++++..+..|.+++|++||++||.|.+
T Consensus 11 ~~~~~l-~~~g~~~l~p~Q~~ai~~~~~~---g--~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~raLa~q~~ 84 (737)
T PRK02362 11 GVIEFY-EAEGIEELYPPQAEAVEAGLLD---G--KNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPLRALASEKF 84 (737)
T ss_pred HHHHHH-HhCCCCcCCHHHHHHHHHHHhC---C--CcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHH
Confidence 444444 446775 999999999874431 2 389999999999999999999999988999999999999999999
Q ss_pred HHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccccc
Q 045263 578 EHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFGV 652 (742)
Q Consensus 578 ~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG~ 652 (742)
+.|+++. .++ +++..++|+....... .+..+|+|+||+.+.. ...++++++|||||+|.++.
T Consensus 85 ~~~~~~~-~~g-----~~v~~~tGd~~~~~~~-------l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l~d 151 (737)
T PRK02362 85 EEFERFE-ELG-----VRVGISTGDYDSRDEW-------LGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLIDS 151 (737)
T ss_pred HHHHHhh-cCC-----CEEEEEeCCcCccccc-------cCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECccccCC
Confidence 9999753 345 7999999987643321 1357999999997743 13367899999999999876
Q ss_pred cchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcCC
Q 045263 653 VQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYGD 709 (742)
Q Consensus 653 ~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~gd 709 (742)
..|+...+..... . ......+++++|||| |.++.++.++...
T Consensus 152 ~~rg~~le~il~r--------------l-~~~~~~~qii~lSATl~n~~~la~wl~~~ 194 (737)
T PRK02362 152 ANRGPTLEVTLAK--------------L-RRLNPDLQVVALSATIGNADELADWLDAE 194 (737)
T ss_pred CcchHHHHHHHHH--------------H-HhcCCCCcEEEEcccCCCHHHHHHHhCCC
Confidence 6554332211000 0 001235789999999 6789999988654
No 25
>PRK00254 ski2-like helicase; Provisional
Probab=99.78 E-value=2.3e-18 Score=205.71 Aligned_cols=173 Identities=22% Similarity=0.298 Sum_probs=132.3
Q ss_pred HHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-cCCeEEEEcccHHHHHHHHHH
Q 045263 502 KKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-SGYQAAFMVPTELLATQHYEH 579 (742)
Q Consensus 502 ~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~g~qvlilaPT~~La~Q~~~~ 579 (742)
...++..+|+ |+|+|.+|++..+. .+ .|+++++|||||||.+|.++++..+. .+.++++++|+++|+.|+++.
T Consensus 13 ~~~l~~~g~~~l~~~Q~~ai~~~~~---~g--~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~ 87 (720)
T PRK00254 13 KRVLKERGIEELYPPQAEALKSGVL---EG--KNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYRE 87 (720)
T ss_pred HHHHHhCCCCCCCHHHHHHHHHHHh---CC--CcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHH
Confidence 3345557885 99999999987433 12 38999999999999999999988765 578999999999999999999
Q ss_pred HHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhc-----cccCCccEEEEeCCccccccc
Q 045263 580 LLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEK-----VEFSALRLAIVDEQQRFGVVQ 654 (742)
Q Consensus 580 l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~-----v~~~~l~LVIIDEaHrfG~~q 654 (742)
+..+ ..++ ++|..++|+.....+. .+.++|+|+||+.+... ..++++++|||||+|.++...
T Consensus 88 ~~~~-~~~g-----~~v~~~~Gd~~~~~~~-------~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l~~~~ 154 (720)
T PRK00254 88 FKDW-EKLG-----LRVAMTTGDYDSTDEW-------LGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLIGSYD 154 (720)
T ss_pred HHHH-hhcC-----CEEEEEeCCCCCchhh-------hccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcCccCCcc
Confidence 9875 3455 8999999998654221 24589999999987432 346889999999999998766
Q ss_pred hhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcCCC
Q 045263 655 RGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYGDM 710 (742)
Q Consensus 655 r~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~gdl 710 (742)
|+...+... ......+++++|||| |.++.++.++....
T Consensus 155 rg~~le~il------------------~~l~~~~qiI~lSATl~n~~~la~wl~~~~ 193 (720)
T PRK00254 155 RGATLEMIL------------------THMLGRAQILGLSATVGNAEELAEWLNAEL 193 (720)
T ss_pred chHHHHHHH------------------HhcCcCCcEEEEEccCCCHHHHHHHhCCcc
Confidence 654433211 111235789999999 57999998876543
No 26
>PRK09401 reverse gyrase; Reviewed
Probab=99.78 E-value=6.3e-18 Score=208.68 Aligned_cols=142 Identities=17% Similarity=0.227 Sum_probs=115.5
Q ss_pred HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHH
Q 045263 499 SLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYE 578 (742)
Q Consensus 499 ~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~ 578 (742)
++.+-|.+.+++.||++|+.+++.++.+ .+++++||||||||..++.++......|.+++|++||++|+.|+++
T Consensus 68 ~~~~~f~~~~G~~pt~iQ~~~i~~il~g------~dv~i~ApTGsGKT~f~l~~~~~l~~~g~~alIL~PTreLa~Qi~~ 141 (1176)
T PRK09401 68 EFEKFFKKKTGSKPWSLQRTWAKRLLLG------ESFAIIAPTGVGKTTFGLVMSLYLAKKGKKSYIIFPTRLLVEQVVE 141 (1176)
T ss_pred HHHHHHHHhcCCCCcHHHHHHHHHHHCC------CcEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHH
Confidence 4445566788999999999999999875 3889999999999976555555444568999999999999999999
Q ss_pred HHHHhhhhccCCCCCcEEEEEeCCC--ChHHHHHHHHHhhcCCccEEEechHHHhhc---cccCCccEEEEeCCcccc
Q 045263 579 HLLKLLDNMEEDKHKPKIALLTGST--PVKQSRMIRKDLQTGDITLVIGTHSLIAEK---VEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 579 ~l~~~l~~~~~~~~~i~V~ll~G~~--~~~er~~i~~~l~~G~~~IVVgT~~~l~~~---v~~~~l~LVIIDEaHrfG 651 (742)
.++.+....+ +.+.++.|+. +.+++...+..+.+|.++|+||||+++.+. +...+++++||||||++.
T Consensus 142 ~l~~l~~~~~-----~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~~l~~~~~~~lVvDEaD~~L 214 (1176)
T PRK09401 142 KLEKFGEKVG-----CGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFDELPKKKFDFVFVDDVDAVL 214 (1176)
T ss_pred HHHHHhhhcC-----ceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHHhccccccCEEEEEChHHhh
Confidence 9999987766 6777776554 356667777778888899999999998663 445569999999999974
No 27
>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=99.78 E-value=7e-18 Score=192.33 Aligned_cols=168 Identities=20% Similarity=0.196 Sum_probs=130.3
Q ss_pred HHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHH
Q 045263 504 LLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 504 ~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~ 582 (742)
+.+.++|. ++|.|++||+.++++ .++++++|||||||++|++|++. .+..++|++||++|+.|+++.+..
T Consensus 3 l~~~~g~~~~r~~Q~~ai~~~l~g------~dvlv~apTGsGKTl~y~lp~l~---~~~~~lVi~P~~~L~~dq~~~l~~ 73 (470)
T TIGR00614 3 LKTVFGLSSFRPVQLEVINAVLLG------RDCFVVMPTGGGKSLCYQLPALC---SDGITLVISPLISLMEDQVLQLKA 73 (470)
T ss_pred hHhhcCCCCCCHHHHHHHHHHHcC------CCEEEEcCCCCcHhHHHHHHHHH---cCCcEEEEecHHHHHHHHHHHHHH
Confidence 45678887 999999999999975 27899999999999999999874 467899999999999999998875
Q ss_pred hhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh------cc-ccCCccEEEEeCCcccc---c
Q 045263 583 LLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE------KV-EFSALRLAIVDEQQRFG---V 652 (742)
Q Consensus 583 ~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~------~v-~~~~l~LVIIDEaHrfG---~ 652 (742)
. + +.+..++|+.+..++..++..+..|.++|+++||+.+.. .+ ...++++|||||+|+++ .
T Consensus 74 ~----g-----i~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH~i~~~g~ 144 (470)
T TIGR00614 74 S----G-----IPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCSASNRLLQTLEERKGITLIAVDEAHCISQWGH 144 (470)
T ss_pred c----C-----CcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHcCchhHHHHHHhcCCcCEEEEeCCcccCcccc
Confidence 3 4 778899999998888888888899999999999998632 22 56789999999999863 3
Q ss_pred cchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHH
Q 045263 653 VQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALAL 706 (742)
Q Consensus 653 ~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l 706 (742)
..|..+..-.. .+... ...+++++||||.++......
T Consensus 145 ~fr~~~~~l~~----------------l~~~~-~~~~~l~lTAT~~~~~~~di~ 181 (470)
T TIGR00614 145 DFRPDYKALGS----------------LKQKF-PNVPIMALTATASPSVREDIL 181 (470)
T ss_pred ccHHHHHHHHH----------------HHHHc-CCCceEEEecCCCHHHHHHHH
Confidence 33332221100 00111 234689999999988766554
No 28
>PRK01172 ski2-like helicase; Provisional
Probab=99.77 E-value=4.9e-18 Score=201.70 Aligned_cols=173 Identities=23% Similarity=0.270 Sum_probs=130.6
Q ss_pred HHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHH
Q 045263 503 KLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 503 ~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~ 582 (742)
...+..+|+|+++|.+|++.+..+ .++++++|||||||+++.++++..+..|.++++++|+++||.|+++++.+
T Consensus 14 ~~~~~~~~~l~~~Q~~ai~~l~~~------~nvlv~apTGSGKTl~a~lail~~l~~~~k~v~i~P~raLa~q~~~~~~~ 87 (674)
T PRK01172 14 NLFTGNDFELYDHQRMAIEQLRKG------ENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAMEKYEELSR 87 (674)
T ss_pred HHHhhCCCCCCHHHHHHHHHHhcC------CcEEEECCCCchHHHHHHHHHHHHHHhCCcEEEEechHHHHHHHHHHHHH
Confidence 344567899999999999997553 38999999999999999999999988899999999999999999999987
Q ss_pred hhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccccccchhh
Q 045263 583 LLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFGVVQRGR 657 (742)
Q Consensus 583 ~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG~~qr~~ 657 (742)
+. ..+ .++..++|+....... + ...+|+|+||+.+.. ...+.++++|||||+|.++...|+.
T Consensus 88 l~-~~g-----~~v~~~~G~~~~~~~~-----~--~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~d~~rg~ 154 (674)
T PRK01172 88 LR-SLG-----MRVKISIGDYDDPPDF-----I--KRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIGDEDRGP 154 (674)
T ss_pred Hh-hcC-----CeEEEEeCCCCCChhh-----h--ccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchhccCCCccH
Confidence 53 455 7888999987643221 1 247999999987632 2247789999999999987666543
Q ss_pred hhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcCC
Q 045263 658 FNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYGD 709 (742)
Q Consensus 658 l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~gd 709 (742)
..+..... . ......+++++|||| +.++.++.++...
T Consensus 155 ~le~ll~~--------------~-~~~~~~~riI~lSATl~n~~~la~wl~~~ 192 (674)
T PRK01172 155 TLETVLSS--------------A-RYVNPDARILALSATVSNANELAQWLNAS 192 (674)
T ss_pred HHHHHHHH--------------H-HhcCcCCcEEEEeCccCCHHHHHHHhCCC
Confidence 33321000 0 001135689999999 4688888876543
No 29
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.77 E-value=9.2e-19 Score=192.11 Aligned_cols=142 Identities=30% Similarity=0.432 Sum_probs=117.4
Q ss_pred HHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---------CCeEEEEcc
Q 045263 499 SLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---------GYQAAFMVP 568 (742)
Q Consensus 499 ~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---------g~qvlilaP 568 (742)
.+..-+...+.+. ||..|+++|+.++++ .+++|.++||||||++|++|+.+.+.. |.-+|+|||
T Consensus 146 ~lv~~L~~~m~i~~pTsVQkq~IP~lL~g------rD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivP 219 (708)
T KOG0348|consen 146 HLVSHLNTKMKISAPTSVQKQAIPVLLEG------RDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVP 219 (708)
T ss_pred HHHHHHHHHhccCccchHhhcchhhhhcC------cceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEec
Confidence 4566667778886 999999999999984 278999999999999999999998854 778999999
Q ss_pred cHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCC-CChHHHHHHHHHhhcCCccEEEechHHHhh------ccccCCccE
Q 045263 569 TELLATQHYEHLLKLLDNMEEDKHKPKIALLTGS-TPVKQSRMIRKDLQTGDITLVIGTHSLIAE------KVEFSALRL 641 (742)
Q Consensus 569 T~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~-~~~~er~~i~~~l~~G~~~IVVgT~~~l~~------~v~~~~l~L 641 (742)
|++||.|+|+.+.++++++.. +..+++.|+ ...+++.+ ++.| ++|+||||+++.| .+.+.+|.+
T Consensus 220 TREL~~Q~y~~~qKLl~~~hW----IVPg~lmGGEkkKSEKAR----LRKG-iNILIgTPGRLvDHLknT~~i~~s~LRw 290 (708)
T KOG0348|consen 220 TRELALQIYETVQKLLKPFHW----IVPGVLMGGEKKKSEKAR----LRKG-INILIGTPGRLVDHLKNTKSIKFSRLRW 290 (708)
T ss_pred hHHHHHHHHHHHHHHhcCceE----EeeceeecccccccHHHH----HhcC-ceEEEcCchHHHHHHhccchheeeeeeE
Confidence 999999999999999987653 445555555 44555554 5667 8999999999976 456889999
Q ss_pred EEEeCCccc---cccch
Q 045263 642 AIVDEQQRF---GVVQR 655 (742)
Q Consensus 642 VIIDEaHrf---G~~qr 655 (742)
||+||+||. |++..
T Consensus 291 lVlDEaDrlleLGfekd 307 (708)
T KOG0348|consen 291 LVLDEADRLLELGFEKD 307 (708)
T ss_pred EEecchhHHHhccchhh
Confidence 999999994 66554
No 30
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.77 E-value=6.7e-18 Score=183.40 Aligned_cols=183 Identities=22% Similarity=0.279 Sum_probs=140.3
Q ss_pred hHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc------C--CeEEEEcc
Q 045263 498 SSLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS------G--YQAAFMVP 568 (742)
Q Consensus 498 ~~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~------g--~qvlilaP 568 (742)
..++...++..+|+ +||.|..+|+.++.+ .++++.++||||||++|++|+++.+.. . ..++|++|
T Consensus 14 ~~~l~~~l~~~GF~~mTpVQa~tIPlll~~------KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsP 87 (567)
T KOG0345|consen 14 SPWLLEALDESGFEKMTPVQAATIPLLLKN------KDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISP 87 (567)
T ss_pred cHHHHHHHHhcCCcccCHHHHhhhHHHhcC------CceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecC
Confidence 34556667888997 999999999999974 488999999999999999999999933 1 36899999
Q ss_pred cHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-------ccccCCccE
Q 045263 569 TELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-------KVEFSALRL 641 (742)
Q Consensus 569 T~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-------~v~~~~l~L 641 (742)
|++||.|+.+.+..++..+. ++.+.++.|+.+..+.... +.+..++|+||||+++.+ .+.+.++.+
T Consensus 88 TRELa~QI~~V~~~F~~~l~----~l~~~l~vGG~~v~~Di~~---fkee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~ 160 (567)
T KOG0345|consen 88 TRELARQIREVAQPFLEHLP----NLNCELLVGGRSVEEDIKT---FKEEGPNILVGTPGRLLDILQREAEKLSFRSLEI 160 (567)
T ss_pred cHHHHHHHHHHHHHHHHhhh----ccceEEEecCccHHHHHHH---HHHhCCcEEEeCchhHHHHHhchhhhccccccce
Confidence 99999999999998887743 2789999999877665543 444558999999999966 356779999
Q ss_pred EEEeCCccc---cccch-hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeee
Q 045263 642 AIVDEQQRF---GVVQR-GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQI 715 (742)
Q Consensus 642 VIIDEaHrf---G~~qr-~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I 715 (742)
+|+|||||+ |++.. ..+.+. ++.....=++|||-.-+.-.+...|--+...+
T Consensus 161 LVLDEADrLldmgFe~~~n~ILs~----------------------LPKQRRTGLFSATq~~~v~dL~raGLRNpv~V 216 (567)
T KOG0345|consen 161 LVLDEADRLLDMGFEASVNTILSF----------------------LPKQRRTGLFSATQTQEVEDLARAGLRNPVRV 216 (567)
T ss_pred EEecchHhHhcccHHHHHHHHHHh----------------------cccccccccccchhhHHHHHHHHhhccCceee
Confidence 999999996 44332 222222 22334566789997777766777776554443
No 31
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.77 E-value=3.1e-18 Score=192.19 Aligned_cols=139 Identities=20% Similarity=0.276 Sum_probs=117.1
Q ss_pred HHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---------CCeEEEEcccH
Q 045263 501 TKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---------GYQAAFMVPTE 570 (742)
Q Consensus 501 ~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---------g~qvlilaPT~ 570 (742)
....++..+|+ |||+|.++++-++.+ .+++..+.||||||+.|++|++..+.+ +.++|+++||+
T Consensus 102 ~~~~lk~~g~~~PtpIQaq~wp~~l~G------rD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTR 175 (519)
T KOG0331|consen 102 LMKALKEQGFEKPTPIQAQGWPIALSG------RDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTR 175 (519)
T ss_pred HHHHHHhcCCCCCchhhhcccceeccC------CceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcH
Confidence 44555667776 999999999999986 378999999999999999999999876 57899999999
Q ss_pred HHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEe
Q 045263 571 LLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVD 645 (742)
Q Consensus 571 ~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIID 645 (742)
+||.|+.+.+.++...+. ++..+++|+.+...+.. .+.+| ++|+||||+++.+ .+.+.++.++|+|
T Consensus 176 ELA~QV~~~~~~~~~~~~-----~~~~cvyGG~~~~~Q~~---~l~~g-vdiviaTPGRl~d~le~g~~~l~~v~ylVLD 246 (519)
T KOG0331|consen 176 ELAVQVQAEAREFGKSLR-----LRSTCVYGGAPKGPQLR---DLERG-VDVVIATPGRLIDLLEEGSLNLSRVTYLVLD 246 (519)
T ss_pred HHHHHHHHHHHHHcCCCC-----ccEEEEeCCCCccHHHH---HHhcC-CcEEEeCChHHHHHHHcCCccccceeEEEec
Confidence 999999999999988776 77888888877655543 35566 9999999999976 5568889999999
Q ss_pred CCccc---cccc
Q 045263 646 EQQRF---GVVQ 654 (742)
Q Consensus 646 EaHrf---G~~q 654 (742)
|||+| |+++
T Consensus 247 EADrMldmGFe~ 258 (519)
T KOG0331|consen 247 EADRMLDMGFEP 258 (519)
T ss_pred cHHhhhccccHH
Confidence 99997 5544
No 32
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.76 E-value=6.3e-20 Score=204.18 Aligned_cols=453 Identities=25% Similarity=0.289 Sum_probs=295.8
Q ss_pred hcccCCceeeCCCCCcccccccccCcccchhhhhhhhhccccCCCcccccccCcccccccCCCCCCCC-CCCCCCc----
Q 045263 117 ACKRFPCITLGSTPPVGLYDETKAGGSEMKSLLADQSCEAVVSNPMDAELRVDRFGLSEAWPSLYPAL-PNESSTS---- 191 (742)
Q Consensus 117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~---- 191 (742)
+|++||+|++|.+.+++.|. ++ +.+..+.|.+...+.+.+-++++ .|.++++.++..-+-|+.. .++++|+
T Consensus 1 ~~~~f~~it~g~~~~~~~~~--k~-~~~~~~~lk~~~~~s~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ed 76 (593)
T KOG0344|consen 1 MCKRFRSITLGDSRKKESFP--KK-YAESSSILKTLTDNSKEPLPMHG-EWFDPDNLAEPLKSEEKEKLQNSDSSSPLED 76 (593)
T ss_pred CCCcccceecccccccccCC--Cc-chhhhhhccCCcccccccccccc-ccccccccccchhhccchhhhcccchhhhhh
Confidence 69999999999999999999 44 66899999999999999999999 9999999999999999987 7766666
Q ss_pred --ccccCCccccccchhhhccC----C----cCCCCCHHHHHHHHhCCCCCHhHHhhcCCCcceecccccccCCCCCeEE
Q 045263 192 --SEVGSLPSEASIEPLLDKCI----S----CVPGLSKRLYHQLENCGFYTLRKLLHHFPRTYADLQNAQIDLDDGQYFI 261 (742)
Q Consensus 192 --~~~~~~~~~~~~~~~L~~~I----~----~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrrYeDr~~~i~~l~~Ge~vt 261 (742)
...++....-.|++.+..++ . ..++-|.++..+++-.|.++..-|+.|+|++|.+--++.- +..+....
T Consensus 77 ~~~~~~~k~~~~~~e~~~~~~~~~~~k~~~~~~~~~~~Rk~~k~~v~G~~~~~~l~~f~~lt~~~~~~~~l-l~nl~~~~ 155 (593)
T KOG0344|consen 77 IDRRGSSKKTKPKMEEKLSEDVIAAKKKLQTSEKLLGIRKSNKINVDGFHLPPPLLSFSDLTYDYSMNKRL-LENLQELG 155 (593)
T ss_pred hhhcccccccCchhhhhccccHHHHHHHHhhhcccccchhcceeeccCCCCCCccccccccchhhhhcHHH-HHhHhhCC
Confidence 22333211113332221110 0 2455677888888889999999999999999988754211 22223333
Q ss_pred EEEEEEEeeccccCCCceEEEEEEeeeeccCCCCCCcceeeecCCCceeEEEEEeeeeecccccccchhHhhhccc----
Q 045263 262 FIGEIISSRGMKAGCSFSFLEVIVGCEIADTETTSGDEVVNIDSGQKKKIYLHLKKFFRGTRFTSIPFLKSIEGKH---- 337 (742)
Q Consensus 262 i~G~V~~~~~~~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~~~~g~~~~i~l~~~~ff~~~~Ffn~pfl~~~~~~l---- 337 (742)
|.+-..... +.-+.+...+..+.|. .+|+++++- ||-|-+..+....
T Consensus 156 F~~Pt~iq~--~aipvfl~~r~~lAca---------------pTGsgKtla------------f~~Pil~~L~~~~~~~~ 206 (593)
T KOG0344|consen 156 FDEPTPIQK--QAIPVFLEKRDVLACA---------------PTGSGKTLA------------FNLPILQHLKDLSQEKH 206 (593)
T ss_pred CCCCCcccc--hhhhhhhcccceEEec---------------cCCCcchhh------------hhhHHHHHHHHhhcccC
Confidence 333221111 0001111123334431 245555331 2445554444444
Q ss_pred cCCcEEEEEEEEeecCCCceeEEeeceeeecCcchhhhhhccCCCccccCCCCCCCHHHHHHHHHHHHHhCCCCCCCCCH
Q 045263 338 KVGEFVCVSGKVRAMRSNNHYEMREYNIDVLKDEDDLSLRAKGRPYPIYPSKGGLNASLLRDTIARALQALPANFDPVPK 417 (742)
Q Consensus 338 ~~G~~v~v~GKv~~~~~~~~~~m~~~~~e~l~~~~~~~~~~~~~I~PIYp~t~GLs~~~lrk~I~~aL~~~~~~~d~LP~ 417 (742)
+.|...+|.+..+......+.+|..+.++ .. .+....+.-.|.||.. +++.+.+....+|-. .|.
T Consensus 207 ~~gl~a~Il~ptreLa~Qi~re~~k~~~~---~~--t~~~a~~~~~~~~~~q---k~a~~~~~k~dili~-------TP~ 271 (593)
T KOG0344|consen 207 KVGLRALILSPTRELAAQIYREMRKYSID---EG--TSLRAAQFSKPAYPSQ---KPAFLSDEKYDILIS-------TPM 271 (593)
T ss_pred ccceEEEEecchHHHHHHHHHHHHhcCCC---CC--Cchhhhhcccccchhh---ccchhHHHHHHHHhc-------CHH
Confidence 88999999999876432233444433321 11 1122334567777754 555555555555433 366
Q ss_pred hHHhhcCCCCHHHHHHhccCCCCcchHHHHHHhhchhHHHHHHHHHHHHHHhhcccchhhchhhhhccccccccccccCc
Q 045263 418 EITQEFGLLCLFDAYMGIHQPKHIDEADLARKRLIFDEFFYLQLGRLYQMLEGLGTQFEKEGLLDKYRKPRLNAAYMEGW 497 (742)
Q Consensus 418 ~l~~k~~l~~~~~Al~~IH~P~~~~~~~~Ar~Rl~f~El~~~ql~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 497 (742)
.+..-.++.....++..+|++... +.+.+.++ +.|+.|++-.+..... ..-+...++ .........|
T Consensus 272 ri~~~~~~~~~~idl~~V~~lV~d-EaD~lfe~----~~f~~Qla~I~sac~s------~~i~~a~FS--at~~~~VEE~ 338 (593)
T KOG0344|consen 272 RIVGLLGLGKLNIDLSKVEWLVVD-EADLLFEP----EFFVEQLADIYSACQS------PDIRVALFS--ATISVYVEEW 338 (593)
T ss_pred HHHHHhcCCCccchhheeeeEeec-hHHhhhCh----hhHHHHHHHHHHHhcC------cchhhhhhh--ccccHHHHHH
Confidence 677777787778899999999766 45555544 6899999876655421 111111111 1111122222
Q ss_pred hHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC--CeEEEEcccHHHHHH
Q 045263 498 SSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG--YQAAFMVPTELLATQ 575 (742)
Q Consensus 498 ~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g--~qvlilaPT~~La~Q 575 (742)
..+........++.+++.| ++++-|..+++||+...++++.+.+..| ..++|.+-+.+-|.|
T Consensus 339 ~~~i~~~~~~vivg~~~sa----------------~~~V~QelvF~gse~~K~lA~rq~v~~g~~PP~lIfVQs~eRak~ 402 (593)
T KOG0344|consen 339 AELIKSDLKRVIVGLRNSA----------------NETVDQELVFCGSEKGKLLALRQLVASGFKPPVLIFVQSKERAKQ 402 (593)
T ss_pred HHHhhccceeEEEecchhH----------------hhhhhhhheeeecchhHHHHHHHHHhccCCCCeEEEEecHHHHHH
Confidence 2222222333345566655 2456677889999999999999999997 578888888888888
Q ss_pred HHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccch
Q 045263 576 HYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQR 655 (742)
Q Consensus 576 ~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr 655 (742)
++.++. .+. + +.|.++||..+..++...+++++.|++.++|+|- .+...+.|.++.+||.+..-.++..+-
T Consensus 403 L~~~L~-~~~--~-----i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTd-ll~RGiDf~gvn~VInyD~p~s~~syi 473 (593)
T KOG0344|consen 403 LFEELE-IYD--N-----INVDVIHGERSQKQRDETMERFRIGKIWVLICTD-LLARGIDFKGVNLVINYDFPQSDLSYI 473 (593)
T ss_pred HHHHhh-hcc--C-----cceeeEecccchhHHHHHHHHHhccCeeEEEehh-hhhccccccCcceEEecCCCchhHHHH
Confidence 888876 222 2 7899999999999999999999999999999994 566789999999999988777655443
Q ss_pred h
Q 045263 656 G 656 (742)
Q Consensus 656 ~ 656 (742)
.
T Consensus 474 h 474 (593)
T KOG0344|consen 474 H 474 (593)
T ss_pred H
Confidence 3
No 33
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.75 E-value=4e-18 Score=181.57 Aligned_cols=166 Identities=18% Similarity=0.170 Sum_probs=129.8
Q ss_pred hHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC---CeEEEEcccHHHH
Q 045263 498 SSLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG---YQAAFMVPTELLA 573 (742)
Q Consensus 498 ~~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g---~qvlilaPT~~La 573 (742)
+.+.+.. +.++|. ||++|++||+.++.+. +++..+.||||||.+|++|+++.+... +.+++++||++||
T Consensus 70 ~~L~~ac-~~l~~~~PT~IQ~~aiP~~L~g~------dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA 142 (476)
T KOG0330|consen 70 PELLEAC-QELGWKKPTKIQSEAIPVALGGR------DVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELA 142 (476)
T ss_pred HHHHHHH-HHhCcCCCchhhhhhcchhhCCC------cEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHH
Confidence 4455554 445576 9999999999999853 789999999999999999999998764 6899999999999
Q ss_pred HHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh------ccccCCccEEEEeCC
Q 045263 574 TQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE------KVEFSALRLAIVDEQ 647 (742)
Q Consensus 574 ~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~------~v~~~~l~LVIIDEa 647 (742)
.|+.+.|..+....| +++.++.|+......... ...+++|+|+||+++.+ .+.++.+.++|+|||
T Consensus 143 ~QI~e~fe~Lg~~ig-----lr~~~lvGG~~m~~q~~~----L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEA 213 (476)
T KOG0330|consen 143 QQIAEQFEALGSGIG-----LRVAVLVGGMDMMLQANQ----LSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEA 213 (476)
T ss_pred HHHHHHHHHhccccC-----eEEEEEecCchHHHHHHH----hhcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhchH
Confidence 999999999988888 999999999876444332 23468999999999977 345778999999999
Q ss_pred ccccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCC
Q 045263 648 QRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATP 697 (742)
Q Consensus 648 HrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATP 697 (742)
|++.-........+.. ...+...+.+++|||-
T Consensus 214 DrlLd~dF~~~ld~IL------------------k~ip~erqt~LfsATM 245 (476)
T KOG0330|consen 214 DRLLDMDFEEELDYIL------------------KVIPRERQTFLFSATM 245 (476)
T ss_pred HhhhhhhhHHHHHHHH------------------HhcCccceEEEEEeec
Confidence 9975444433333211 1122356889999994
No 34
>PRK14701 reverse gyrase; Provisional
Probab=99.75 E-value=4.3e-17 Score=205.52 Aligned_cols=144 Identities=15% Similarity=0.240 Sum_probs=120.9
Q ss_pred HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHH
Q 045263 499 SLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYE 578 (742)
Q Consensus 499 ~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~ 578 (742)
.+.+-|.+.++|+||+.|+.+++.++++ .+++++||||||||.+++.+++.....|.++++++||++|+.|+++
T Consensus 67 ~~~~~f~~~~G~~pt~iQ~~~i~~il~G------~d~li~APTGsGKTl~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~ 140 (1638)
T PRK14701 67 EFEEFFEKITGFEFWSIQKTWAKRILRG------KSFSIVAPTGMGKSTFGAFIALFLALKGKKCYIILPTTLLVKQTVE 140 (1638)
T ss_pred HHHHHHHHhhCCCCCHHHHHHHHHHHcC------CCEEEEEcCCCCHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHH
Confidence 4445555669999999999999999985 3789999999999997776666655678899999999999999999
Q ss_pred HHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhcc---ccCCccEEEEeCCcccc
Q 045263 579 HLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKV---EFSALRLAIVDEQQRFG 651 (742)
Q Consensus 579 ~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v---~~~~l~LVIIDEaHrfG 651 (742)
.++.+....+ .++++..++|+.+.+++...++.+.+|+++|+|+||+++.+.+ ...+++++||||||++.
T Consensus 141 ~l~~l~~~~~---~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~~l~~~~i~~iVVDEAD~ml 213 (1638)
T PRK14701 141 KIESFCEKAN---LDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQFLARNFPEMKHLKFDFIFVDDVDAFL 213 (1638)
T ss_pred HHHHHHhhcC---CceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCchhHHhHHHHhhCCCCEEEEECceecc
Confidence 9999887543 1267888999999999888888999999999999999886532 22678999999999873
No 35
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=99.75 E-value=3.4e-17 Score=202.42 Aligned_cols=143 Identities=17% Similarity=0.251 Sum_probs=116.4
Q ss_pred hHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHH
Q 045263 498 SSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHY 577 (742)
Q Consensus 498 ~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~ 577 (742)
.++.+-|.+..++.|+++|+.+++.++.+ .+++++||||||||..++.++......|.+++|++||++||.|++
T Consensus 65 ~~f~~~f~~~~g~~p~~iQ~~~i~~il~G------~d~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~ 138 (1171)
T TIGR01054 65 KEFEEFFKKAVGSEPWSIQKMWAKRVLRG------DSFAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVA 138 (1171)
T ss_pred HHHHHHHHHhcCCCCcHHHHHHHHHHhCC------CeEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHHHHHHH
Confidence 34555566778899999999999999875 278999999999998554444444456899999999999999999
Q ss_pred HHHHHhhhhccCCCCCcE---EEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccc-cC-CccEEEEeCCcccc
Q 045263 578 EHLLKLLDNMEEDKHKPK---IALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVE-FS-ALRLAIVDEQQRFG 651 (742)
Q Consensus 578 ~~l~~~l~~~~~~~~~i~---V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~-~~-~l~LVIIDEaHrfG 651 (742)
+.+.++....+ +. +..++|+.+.+++...+..+.+|.++|+||||+++.+.+. +. +++++||||||++.
T Consensus 139 ~~l~~l~~~~~-----i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~l~~~~~~iVvDEaD~~L 212 (1171)
T TIGR01054 139 EKISSLAEKAG-----VGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDELGPKFDFIFVDDVDALL 212 (1171)
T ss_pred HHHHHHHHhcC-----CceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHHhcCCCCEEEEeChHhhh
Confidence 99999987654 33 4468999999888888888889999999999999975322 22 78999999999984
No 36
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.74 E-value=2.6e-17 Score=193.78 Aligned_cols=195 Identities=24% Similarity=0.250 Sum_probs=149.2
Q ss_pred HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--------CCeEEEEcccH
Q 045263 499 SLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--------GYQAAFMVPTE 570 (742)
Q Consensus 499 ~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--------g~qvlilaPT~ 570 (742)
+...++.+..-.+||+.|..|++.|.++. |+||.+|||||||++|++|++..+.. |..++|+.|-+
T Consensus 10 ~~v~~~~~~~~~~~t~~Q~~a~~~i~~G~------nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLk 83 (814)
T COG1201 10 PRVREWFKRKFTSLTPPQRYAIPEIHSGE------NVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLK 83 (814)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHhCCC------ceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHH
Confidence 34445444444459999999999999753 89999999999999999999888754 25899999999
Q ss_pred HHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-------ccccCCccEEE
Q 045263 571 LLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-------KVEFSALRLAI 643 (742)
Q Consensus 571 ~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-------~v~~~~l~LVI 643 (742)
+|.+.+..++..++..+| +.|.+-||+++.++|.. .....+||+|+||+.++- .-.|.++.+||
T Consensus 84 ALn~Di~~rL~~~~~~~G-----~~v~vRhGDT~~~er~r----~~~~PPdILiTTPEsL~lll~~~~~r~~l~~vr~VI 154 (814)
T COG1201 84 ALNNDIRRRLEEPLRELG-----IEVAVRHGDTPQSEKQK----MLKNPPHILITTPESLAILLNSPKFRELLRDVRYVI 154 (814)
T ss_pred HHHHHHHHHHHHHHHHcC-----CccceecCCCChHHhhh----ccCCCCcEEEeChhHHHHHhcCHHHHHHhcCCcEEE
Confidence 999999999999999888 89999999999998876 455679999999998843 22478999999
Q ss_pred EeCCccccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcCCCCeeeeccCCCCC
Q 045263 644 VDEQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYGDMSLTQITDLPPGR 722 (742)
Q Consensus 644 IDEaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~gdl~~s~I~e~P~gr 722 (742)
|||.|.+.-..|+....-... | . ..+.+.++.+++||| -.|...+.++.|.-+...|-+.+.++
T Consensus 155 VDEiHel~~sKRG~~Lsl~Le-----R---------L-~~l~~~~qRIGLSATV~~~~~varfL~g~~~~~~Iv~~~~~k 219 (814)
T COG1201 155 VDEIHALAESKRGVQLALSLE-----R---------L-RELAGDFQRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSAAK 219 (814)
T ss_pred eehhhhhhccccchhhhhhHH-----H---------H-HhhCcccEEEeehhccCCHHHHHHHhcCCCCceEEEEcccCC
Confidence 999999865555422211000 0 0 111126899999999 66899999998876444455545444
Q ss_pred C
Q 045263 723 I 723 (742)
Q Consensus 723 ~ 723 (742)
+
T Consensus 220 ~ 220 (814)
T COG1201 220 K 220 (814)
T ss_pred c
Confidence 3
No 37
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.74 E-value=3.6e-17 Score=198.68 Aligned_cols=175 Identities=23% Similarity=0.215 Sum_probs=125.7
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---------CCeEEEEcccHHHHHHHHHHHH
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---------GYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---------g~qvlilaPT~~La~Q~~~~l~ 581 (742)
.||+.|.+|++.+.++ .|+++++|||||||++|++|++..+.. +.+++|++||++|++|+++++.
T Consensus 32 ~~tpiQ~~Ai~~il~g------~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 32 TFTPPQRYAIPLIHEG------KNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred CCCHHHHHHHHHHHcC------CCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 4999999999998764 389999999999999999999887642 4579999999999999998776
Q ss_pred Hhhh-------hccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhc-------cccCCccEEEEeCC
Q 045263 582 KLLD-------NMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEK-------VEFSALRLAIVDEQ 647 (742)
Q Consensus 582 ~~l~-------~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~-------v~~~~l~LVIIDEa 647 (742)
..+. ..+..-..+++.+++|+++..++...+ ...++|+|+||+.+... ..+.++++|||||+
T Consensus 106 ~~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~l----~~~p~IlVtTPE~L~~ll~~~~~~~~l~~l~~VVIDE~ 181 (876)
T PRK13767 106 EPLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQKML----KKPPHILITTPESLAILLNSPKFREKLRTVKWVIVDEI 181 (876)
T ss_pred HHHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHHHHH----hCCCCEEEecHHHHHHHhcChhHHHHHhcCCEEEEech
Confidence 4332 112111137899999999988776533 23589999999987431 13678999999999
Q ss_pred ccccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcCC
Q 045263 648 QRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYGD 709 (742)
Q Consensus 648 HrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~gd 709 (742)
|.+....|+...+.... +. +.-....++++++||| +.++.++.++.+.
T Consensus 182 H~l~~~~RG~~l~~~L~-----rL---------~~l~~~~~q~IglSATl~~~~~va~~L~~~ 230 (876)
T PRK13767 182 HSLAENKRGVHLSLSLE-----RL---------EELAGGEFVRIGLSATIEPLEEVAKFLVGY 230 (876)
T ss_pred hhhccCccHHHHHHHHH-----HH---------HHhcCCCCeEEEEecccCCHHHHHHHhcCc
Confidence 99875555322111000 00 0000135789999999 4467788887663
No 38
>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=99.73 E-value=4.9e-17 Score=190.39 Aligned_cols=170 Identities=18% Similarity=0.177 Sum_probs=133.5
Q ss_pred HHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHH
Q 045263 502 KKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHL 580 (742)
Q Consensus 502 ~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l 580 (742)
+.+.+.++|. +++.|++||+.++++ .++++.+|||+|||++|++|++. .+..++|++|+++|+.|+++.+
T Consensus 3 ~~l~~~fg~~~fr~~Q~~~i~~il~g------~dvlv~~PTG~GKTl~y~lpal~---~~g~~lVisPl~sL~~dq~~~l 73 (591)
T TIGR01389 3 QVLKRTFGYDDFRPGQEEIISHVLDG------RDVLVVMPTGGGKSLCYQVPALL---LKGLTVVISPLISLMKDQVDQL 73 (591)
T ss_pred HHHHHhcCCCCCCHHHHHHHHHHHcC------CCEEEEcCCCccHhHHHHHHHHH---cCCcEEEEcCCHHHHHHHHHHH
Confidence 3456779997 999999999999975 27899999999999999999873 3667999999999999999988
Q ss_pred HHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCcccc---c
Q 045263 581 LKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFG---V 652 (742)
Q Consensus 581 ~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG---~ 652 (742)
..+ + +.+..++|+.+..++..++..+.+|..+|+++||+.+.. .+...++++|||||+|.++ .
T Consensus 74 ~~~----g-----i~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tpe~l~~~~~~~~l~~~~l~~iViDEaH~i~~~g~ 144 (591)
T TIGR01389 74 RAA----G-----VAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLEQDYFLNMLQRIPIALVAVDEAHCVSQWGH 144 (591)
T ss_pred HHc----C-----CcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEEChhHhcChHHHHHHhcCCCCEEEEeCCcccccccC
Confidence 764 4 678899999999999888989999999999999998732 4456789999999999863 3
Q ss_pred cchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHH
Q 045263 653 VQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALAL 706 (742)
Q Consensus 653 ~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l 706 (742)
..|..+..-.. .+..++..| ++++|||+.+.+...+.
T Consensus 145 ~frp~y~~l~~----------------l~~~~~~~~-vi~lTAT~~~~~~~~i~ 181 (591)
T TIGR01389 145 DFRPEYQRLGS----------------LAERFPQVP-RIALTATADAETRQDIR 181 (591)
T ss_pred ccHHHHHHHHH----------------HHHhCCCCC-EEEEEeCCCHHHHHHHH
Confidence 33333222110 011122344 89999999888876554
No 39
>PRK14873 primosome assembly protein PriA; Provisional
Probab=99.73 E-value=1.1e-17 Score=196.23 Aligned_cols=173 Identities=14% Similarity=0.024 Sum_probs=138.6
Q ss_pred ccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcC
Q 045263 539 GDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTG 618 (742)
Q Consensus 539 a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G 618 (742)
+.+|||||.+|+.++..++..|+|+|+|+|++.|+.|+.+.|+..|.. ..++++|++.+..+|.+.|.++.+|
T Consensus 167 ~~~GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~-------~~v~~lhS~l~~~~R~~~w~~~~~G 239 (665)
T PRK14873 167 ALPGEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGA-------GDVAVLSAGLGPADRYRRWLAVLRG 239 (665)
T ss_pred cCCCCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCC-------CcEEEECCCCCHHHHHHHHHHHhCC
Confidence 335999999999999999999999999999999999999999998852 3689999999999999999999999
Q ss_pred CccEEEechHHHhhccccCCccEEEEeCCccccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCC
Q 045263 619 DITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPI 698 (742)
Q Consensus 619 ~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPi 698 (742)
++.|||||.+.+ +.++.+++||||||.|..+++|.... .||+- .++..|+...+++ +|+.||||+
T Consensus 240 ~~~IViGtRSAv--FaP~~~LgLIIvdEEhd~sykq~~~p---~yhaR---------dvA~~Ra~~~~~~-lvLgSaTPS 304 (665)
T PRK14873 240 QARVVVGTRSAV--FAPVEDLGLVAIWDDGDDLLAEPRAP---YPHAR---------EVALLRAHQHGCA-LLIGGHART 304 (665)
T ss_pred CCcEEEEcceeE--EeccCCCCEEEEEcCCchhhcCCCCC---CccHH---------HHHHHHHHHcCCc-EEEECCCCC
Confidence 999999999999 79999999999999999988875422 12221 1233456666666 677799999
Q ss_pred HHHHHHHHcCCCCeeeeccCCCCCCCcEEEEEcCC
Q 045263 699 PRTLALALYGDMSLTQITDLPPGRIPIKTYIIEGN 733 (742)
Q Consensus 699 prtla~~l~gdl~~s~I~e~P~gr~~i~t~~~~~~ 733 (742)
.+++.++..|.+..........+...-...+++..
T Consensus 305 les~~~~~~g~~~~~~~~~~~~~~~~P~v~~vd~~ 339 (665)
T PRK14873 305 AEAQALVESGWAHDLVAPRPVVRARAPRVRALGDS 339 (665)
T ss_pred HHHHHHHhcCcceeeccccccccCCCCeEEEEeCc
Confidence 99999999998764444333333333334566653
No 40
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.73 E-value=2.2e-17 Score=196.04 Aligned_cols=191 Identities=20% Similarity=0.308 Sum_probs=146.3
Q ss_pred HHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEcccHHHHHHH
Q 045263 499 SLTKKLLRALPY-SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMVPTELLATQH 576 (742)
Q Consensus 499 ~l~~~~~~~lpf-~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlilaPT~~La~Q~ 576 (742)
+....+.+..++ ++.+.|+.++.....+ + .|+|+++|||||||++|+++++..+.. |.+++|+||+++||+|.
T Consensus 18 ~~v~~i~~~~~~~el~~~qq~av~~~~~~---~--~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek 92 (766)
T COG1204 18 DRVLEILKGDGIDELFNPQQEAVEKGLLS---D--ENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEK 92 (766)
T ss_pred HHHHHHhccCChHHhhHHHHHHhhccccC---C--CcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHH
Confidence 344556666666 6999999999887764 2 499999999999999999999999988 58999999999999999
Q ss_pred HHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCcccc
Q 045263 577 YEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 577 ~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG 651 (742)
+++|. .+..+| ++|...||+....... -...+|+|+|++.+.. .....++++|||||+|..+
T Consensus 93 ~~~~~-~~~~~G-----irV~~~TgD~~~~~~~-------l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~ 159 (766)
T COG1204 93 YEEFS-RLEELG-----IRVGISTGDYDLDDER-------LARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLG 159 (766)
T ss_pred HHHhh-hHHhcC-----CEEEEecCCcccchhh-------hccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeecC
Confidence 99999 667778 9999999998744321 1347999999998732 2346689999999999998
Q ss_pred ccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcCCCCeeeeccCCCCC
Q 045263 652 VVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYGDMSLTQITDLPPGR 722 (742)
Q Consensus 652 ~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~gdl~~s~I~e~P~gr 722 (742)
...|+...+... .+ . .......+++++||| |+...+|.++.+....+...--|--|
T Consensus 160 d~~RG~~lE~iv-----~r---------~-~~~~~~~rivgLSATlpN~~evA~wL~a~~~~~~~rp~~l~~ 216 (766)
T COG1204 160 DRTRGPVLESIV-----AR---------M-RRLNELIRIVGLSATLPNAEEVADWLNAKLVESDWRPVPLRR 216 (766)
T ss_pred CcccCceehhHH-----HH---------H-HhhCcceEEEEEeeecCCHHHHHHHhCCcccccCCCCccccc
Confidence 887754433210 00 0 011123689999999 99999999999987655554444333
No 41
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.73 E-value=2.5e-17 Score=181.23 Aligned_cols=153 Identities=24% Similarity=0.326 Sum_probs=122.7
Q ss_pred CCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEcccHHHHHHHHHHHHHhhhhcc
Q 045263 510 YSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMVPTELLATQHYEHLLKLLDNME 588 (742)
Q Consensus 510 f~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlilaPT~~La~Q~~~~l~~~l~~~~ 588 (742)
++++.+|.......+.. |.|++.|||-|||.+|++.++..+.. +++++|++||+-|+.||++.+.+.+.-..
T Consensus 14 ie~R~YQ~~i~a~al~~-------NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~ 86 (542)
T COG1111 14 IEPRLYQLNIAAKALFK-------NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPE 86 (542)
T ss_pred ccHHHHHHHHHHHHhhc-------CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCCh
Confidence 36889999988888763 88999999999999999998877665 45799999999999999999999885433
Q ss_pred CCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccc-cccchhhhhhhh
Q 045263 589 EDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRF-GVVQRGRFNSKL 662 (742)
Q Consensus 589 ~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrf-G~~qr~~l~~k~ 662 (742)
-.++.++|..++.+|...|.. ..|+|+||+.+.. .++..++.++|+|||||. |-.....+...
T Consensus 87 -----~~i~~ltGev~p~~R~~~w~~-----~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAYv~Va~~- 155 (542)
T COG1111 87 -----DEIAALTGEVRPEEREELWAK-----KKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAYVFVAKE- 155 (542)
T ss_pred -----hheeeecCCCChHHHHHHHhh-----CCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcchHHHHHHH-
Confidence 478999999999999999975 6899999998855 456788999999999995 43333222221
Q ss_pred hccccccccccccCCCCCCCCCCCCCcEEEEcCCCC
Q 045263 663 YYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPI 698 (742)
Q Consensus 663 ~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPi 698 (742)
|.. ...+|++|+|||||-
T Consensus 156 y~~------------------~~k~~~ilgLTASPG 173 (542)
T COG1111 156 YLR------------------SAKNPLILGLTASPG 173 (542)
T ss_pred HHH------------------hccCceEEEEecCCC
Confidence 110 124789999999984
No 42
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.73 E-value=3e-17 Score=179.47 Aligned_cols=167 Identities=20% Similarity=0.212 Sum_probs=132.3
Q ss_pred HHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC------CeEEEEcccHHHHHHHH
Q 045263 505 LRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG------YQAAFMVPTELLATQHY 577 (742)
Q Consensus 505 ~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g------~qvlilaPT~~La~Q~~ 577 (742)
...++|. |||+|..+|+-.+-+ .++.-++.||||||.+|++|+++.+... .+||+++||++|+.|++
T Consensus 196 ~~~lGy~~PTpIQ~a~IPvallg------kDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~ 269 (691)
T KOG0338|consen 196 CSTLGYKKPTPIQVATIPVALLG------KDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVH 269 (691)
T ss_pred HHhcCCCCCCchhhhcccHHhhc------chhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHH
Confidence 4678997 999999999987764 2668899999999999999999988652 58999999999999999
Q ss_pred HHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh------ccccCCccEEEEeCCcccc
Q 045263 578 EHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE------KVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 578 ~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~------~v~~~~l~LVIIDEaHrfG 651 (742)
...+++..... +.++++.|+++.+.+...++ ++ +||||+||+++.+ .+.+.++..+|+|||+||.
T Consensus 270 sV~~qlaqFt~-----I~~~L~vGGL~lk~QE~~LR---s~-PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlDEADRML 340 (691)
T KOG0338|consen 270 SVTKQLAQFTD-----ITVGLAVGGLDLKAQEAVLR---SR-PDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRML 340 (691)
T ss_pred HHHHHHHhhcc-----ceeeeeecCccHHHHHHHHh---hC-CCEEEecchhHHHHhccCCCccccceeEEEechHHHHH
Confidence 99999887766 89999999999988887543 34 8999999999966 4568899999999999983
Q ss_pred ccc-hhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 652 VVQ-RGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 652 ~~q-r~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
-+- ...+.+.... -+.+.|.+++|||..-+.-.++
T Consensus 341 eegFademnEii~l-------------------cpk~RQTmLFSATMteeVkdL~ 376 (691)
T KOG0338|consen 341 EEGFADEMNEIIRL-------------------CPKNRQTMLFSATMTEEVKDLA 376 (691)
T ss_pred HHHHHHHHHHHHHh-------------------ccccccceeehhhhHHHHHHHH
Confidence 222 2233332111 1245689999999765554444
No 43
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.72 E-value=2.9e-17 Score=179.58 Aligned_cols=187 Identities=22% Similarity=0.298 Sum_probs=140.3
Q ss_pred hHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-------CCeEEEEccc
Q 045263 498 SSLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-------GYQAAFMVPT 569 (742)
Q Consensus 498 ~~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-------g~qvlilaPT 569 (742)
++..-+-+..++|+ +|+.|+.+|+.++.+. ++|..|-||||||++|++|+.+.+.. +..++|++||
T Consensus 90 S~~t~kAi~~~GF~~MT~VQ~~ti~pll~gk------Dvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PT 163 (543)
T KOG0342|consen 90 SPLTLKAIKEMGFETMTPVQQKTIPPLLEGK------DVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPT 163 (543)
T ss_pred CHHHHHHHHhcCccchhHHHHhhcCccCCCc------cceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEeccc
Confidence 34455567889997 9999999999999853 78999999999999999999998865 5689999999
Q ss_pred HHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh------ccccCCccEEE
Q 045263 570 ELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE------KVEFSALRLAI 643 (742)
Q Consensus 570 ~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~------~v~~~~l~LVI 643 (742)
++||.|++.+++.++.... .+.+.++.|+.......+ ++..| ++|+|+||++|.+ .+.+.+++++|
T Consensus 164 RELA~Q~~~eak~Ll~~h~----~~~v~~viGG~~~~~e~~---kl~k~-~niliATPGRLlDHlqNt~~f~~r~~k~lv 235 (543)
T KOG0342|consen 164 RELAMQIFAEAKELLKYHE----SITVGIVIGGNNFSVEAD---KLVKG-CNILIATPGRLLDHLQNTSGFLFRNLKCLV 235 (543)
T ss_pred HHHHHHHHHHHHHHHhhCC----CcceEEEeCCccchHHHH---Hhhcc-ccEEEeCCchHHhHhhcCCcchhhccceeE
Confidence 9999999999999998762 278999999877544333 34554 9999999999976 34578889999
Q ss_pred EeCCccc---cccch-hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHH--HHHHHcCCCCeeeecc
Q 045263 644 VDEQQRF---GVVQR-GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRT--LALALYGDMSLTQITD 717 (742)
Q Consensus 644 IDEaHrf---G~~qr-~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprt--la~~l~gdl~~s~I~e 717 (742)
+|||||. |++.. .++.. -++...+.+++|||-.++. ++...-+. |...++-
T Consensus 236 lDEADrlLd~GF~~di~~Ii~----------------------~lpk~rqt~LFSAT~~~kV~~l~~~~L~~-d~~~v~~ 292 (543)
T KOG0342|consen 236 LDEADRLLDIGFEEDVEQIIK----------------------ILPKQRQTLLFSATQPSKVKDLARGALKR-DPVFVNV 292 (543)
T ss_pred eecchhhhhcccHHHHHHHHH----------------------hccccceeeEeeCCCcHHHHHHHHHhhcC-CceEeec
Confidence 9999995 44332 12221 1234568899999954444 44443343 5556655
Q ss_pred CCCC
Q 045263 718 LPPG 721 (742)
Q Consensus 718 ~P~g 721 (742)
...|
T Consensus 293 ~d~~ 296 (543)
T KOG0342|consen 293 DDGG 296 (543)
T ss_pred CCCC
Confidence 5444
No 44
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.72 E-value=5.7e-17 Score=186.23 Aligned_cols=146 Identities=18% Similarity=0.167 Sum_probs=107.9
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCC-eEEEEcccHHHHHHHHHHHHHhhhhc
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGY-QAAFMVPTELLATQHYEHLLKLLDNM 587 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~-qvlilaPT~~La~Q~~~~l~~~l~~~ 587 (742)
.+.|+++|++|+..++++ .+.++++|||+|||+++...+...+..+. ++||++||++|++|+.+++.++....
T Consensus 112 ~~~~r~~Q~~av~~~l~~------~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~ 185 (501)
T PHA02558 112 KIEPHWYQYDAVYEGLKN------NRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRLFP 185 (501)
T ss_pred cCCCCHHHHHHHHHHHhc------CceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhcccc
Confidence 357999999999998864 25799999999999998765554455554 99999999999999999999876422
Q ss_pred cCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhcc--ccCCccEEEEeCCccccccchhhhhhhhhcc
Q 045263 588 EEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKV--EFSALRLAIVDEQQRFGVVQRGRFNSKLYYT 665 (742)
Q Consensus 588 ~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v--~~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~ 665 (742)
. ..+..+.|+.... ...+|+|+|++.+.+.. .++++++|||||||++...+...+...
T Consensus 186 ~-----~~~~~i~~g~~~~-----------~~~~I~VaT~qsl~~~~~~~~~~~~~iIvDEaH~~~~~~~~~il~~---- 245 (501)
T PHA02558 186 R-----EAMHKIYSGTAKD-----------TDAPIVVSTWQSAVKQPKEWFDQFGMVIVDECHLFTGKSLTSIITK---- 245 (501)
T ss_pred c-----cceeEEecCcccC-----------CCCCEEEeeHHHHhhchhhhccccCEEEEEchhcccchhHHHHHHh----
Confidence 2 2343444443221 23689999999886522 478999999999999976554443322
Q ss_pred ccccccccccCCCCCCCCCCCCCcEEEEcCCCC
Q 045263 666 SMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPI 698 (742)
Q Consensus 666 ~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPi 698 (742)
...+++++++||||.
T Consensus 246 ------------------~~~~~~~lGLTATp~ 260 (501)
T PHA02558 246 ------------------LDNCKFKFGLTGSLR 260 (501)
T ss_pred ------------------hhccceEEEEeccCC
Confidence 113567999999985
No 45
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.70 E-value=3.3e-16 Score=183.78 Aligned_cols=169 Identities=17% Similarity=0.131 Sum_probs=128.6
Q ss_pred HHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHH
Q 045263 502 KKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHL 580 (742)
Q Consensus 502 ~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l 580 (742)
+.+.+.++|. ++|.|+++++.++++ .++++.+|||+|||++|++|++.. +..+++++|+++|+.|+.+.+
T Consensus 15 ~~l~~~fG~~~~r~~Q~~ai~~il~g------~dvlv~apTGsGKTl~y~lpal~~---~g~tlVisPl~sL~~dqv~~l 85 (607)
T PRK11057 15 QVLQETFGYQQFRPGQQEIIDAVLSG------RDCLVVMPTGGGKSLCYQIPALVL---DGLTLVVSPLISLMKDQVDQL 85 (607)
T ss_pred HHHHHHcCCCCCCHHHHHHHHHHHcC------CCEEEEcCCCchHHHHHHHHHHHc---CCCEEEEecHHHHHHHHHHHH
Confidence 4455668996 999999999999874 378999999999999999998743 567999999999999999988
Q ss_pred HHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCcccc---c
Q 045263 581 LKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFG---V 652 (742)
Q Consensus 581 ~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG---~ 652 (742)
... + +.+..+.+..+..+...++..+.+|.++++++||+.+.. .+...++++|||||+|++. .
T Consensus 86 ~~~----g-----i~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tPe~l~~~~~~~~l~~~~l~~iVIDEaH~i~~~G~ 156 (607)
T PRK11057 86 LAN----G-----VAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNPALLAVDEAHCISQWGH 156 (607)
T ss_pred HHc----C-----CcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEEChHHhcChHHHHHHhhCCCCEEEEeCccccccccC
Confidence 763 3 678888999888888888888899999999999998742 3344578999999999863 2
Q ss_pred cchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 653 VQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 653 ~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
..+..+..-.. .+... ...+++++|||+.+.+...+
T Consensus 157 ~fr~~y~~L~~----------------l~~~~-p~~~~v~lTAT~~~~~~~di 192 (607)
T PRK11057 157 DFRPEYAALGQ----------------LRQRF-PTLPFMALTATADDTTRQDI 192 (607)
T ss_pred cccHHHHHHHH----------------HHHhC-CCCcEEEEecCCChhHHHHH
Confidence 22322211000 00111 23468999999887765443
No 46
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=99.70 E-value=5.5e-17 Score=159.22 Aligned_cols=159 Identities=20% Similarity=0.258 Sum_probs=105.5
Q ss_pred CCCCHHHHHHHHHHHHhcCCC-CCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhcc
Q 045263 510 YSLTSSQLSAISEIIWDLKQP-VPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNME 588 (742)
Q Consensus 510 f~Lt~~Q~~aI~~I~~~~~~~-~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~ 588 (742)
|+|+++|.+|+..+.+.+... ...+.++.+|||||||.+++.++..... ++++++|+..|++|+.+.+..+.....
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~---~~l~~~p~~~l~~Q~~~~~~~~~~~~~ 78 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR---KVLIVAPNISLLEQWYDEFDDFGSEKY 78 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC---EEEEEESSHHHHHHHHHHHHHHSTTSE
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc---ceeEecCHHHHHHHHHHHHHHhhhhhh
Confidence 679999999999999877655 4568999999999999999987777765 999999999999999999966654321
Q ss_pred CC-----CCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhcc----------------ccCCccEEEEeCC
Q 045263 589 ED-----KHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKV----------------EFSALRLAIVDEQ 647 (742)
Q Consensus 589 ~~-----~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v----------------~~~~l~LVIIDEa 647 (742)
.. .................. .........++++.|.+.+.... .....++||+||+
T Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEa 155 (184)
T PF04851_consen 79 NFFEKSIKPAYDSKEFISIQDDISD---KSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEA 155 (184)
T ss_dssp EEEE--GGGCCE-SEEETTTTEEEH---HHHHCBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETG
T ss_pred hhccccccccccccccccccccccc---ccccccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehh
Confidence 00 000000001111111111 11234556789999998885422 2246789999999
Q ss_pred ccccccc-hhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCC
Q 045263 648 QRFGVVQ-RGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPI 698 (742)
Q Consensus 648 HrfG~~q-r~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPi 698 (742)
|++...+ ...+... ..+.+|+|||||.
T Consensus 156 H~~~~~~~~~~i~~~------------------------~~~~~l~lTATp~ 183 (184)
T PF04851_consen 156 HHYPSDSSYREIIEF------------------------KAAFILGLTATPF 183 (184)
T ss_dssp GCTHHHHHHHHHHHS------------------------SCCEEEEEESS-S
T ss_pred hhcCCHHHHHHHHcC------------------------CCCeEEEEEeCcc
Confidence 9997666 4333321 2467999999983
No 47
>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=99.70 E-value=2.9e-17 Score=191.56 Aligned_cols=163 Identities=16% Similarity=0.139 Sum_probs=133.9
Q ss_pred HHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHH
Q 045263 501 TKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHL 580 (742)
Q Consensus 501 ~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l 580 (742)
.+.-.+.++..+++.|..+...+.++ .+.++.||+|||++|++|++.....|.++.+|+||..||.|+++.+
T Consensus 46 rEa~~R~lg~~p~~vQlig~~~l~~G--------~Iaem~TGeGKTLva~lpa~l~aL~G~~V~VvTpt~~LA~qdae~~ 117 (745)
T TIGR00963 46 REASKRVLGMRPFDVQLIGGIALHKG--------KIAEMKTGEGKTLTATLPAYLNALTGKGVHVVTVNDYLAQRDAEWM 117 (745)
T ss_pred HHHHHHHhCCCccchHHhhhhhhcCC--------ceeeecCCCccHHHHHHHHHHHHHhCCCEEEEcCCHHHHHHHHHHH
Confidence 34455678888999998887766542 3999999999999999999766678999999999999999999999
Q ss_pred HHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-hh-----------ccccCCccEEEEeCCc
Q 045263 581 LKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-AE-----------KVEFSALRLAIVDEQQ 648 (742)
Q Consensus 581 ~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-~~-----------~v~~~~l~LVIIDEaH 648 (742)
.+++..+| +++++++|+.+..++...+ .++|++|||+.+ .+ .+.+++++++||||+|
T Consensus 118 ~~l~~~LG-----Lsv~~i~g~~~~~~r~~~y------~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaD 186 (745)
T TIGR00963 118 GQVYRFLG-----LSVGLILSGMSPEERREAY------ACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVD 186 (745)
T ss_pred HHHhccCC-----CeEEEEeCCCCHHHHHHhc------CCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHH
Confidence 99999988 9999999999887766543 379999999977 22 3467899999999999
Q ss_pred cccc-cchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHH
Q 045263 649 RFGV-VQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLA 703 (742)
Q Consensus 649 rfG~-~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla 703 (742)
++++ ++|..+.-++ . ...++.+.|+|||+|+++.
T Consensus 187 s~LIDeaRtpLiisg--------------------~-~~~~~~ly~~a~~i~r~L~ 221 (745)
T TIGR00963 187 SILIDEARTPLIISG--------------------P-AEKSTELYLQANRFAKALE 221 (745)
T ss_pred HHhHHhhhhHHhhcC--------------------C-CCCchHHHHHHHHHHHhhc
Confidence 9998 7777665431 1 1235678899999999986
No 48
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.69 E-value=6.1e-16 Score=186.05 Aligned_cols=205 Identities=21% Similarity=0.216 Sum_probs=155.8
Q ss_pred hHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCC--eEEEEcccHHHHHH
Q 045263 498 SSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGY--QAAFMVPTELLATQ 575 (742)
Q Consensus 498 ~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~--qvlilaPT~~La~Q 575 (742)
+.+...+.+.++..|..+|.+|+..+.++ +|++|..+||||||.+|++|++..+..+. ++|++.||++||+.
T Consensus 57 ~~l~~~l~~~g~~~lY~HQ~~A~~~~~~G------~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~D 130 (851)
T COG1205 57 ESLKSALVKAGIERLYSHQVDALRLIREG------RNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALAND 130 (851)
T ss_pred hHHHHHHHHhccccccHHHHHHHHHHHCC------CCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhh
Confidence 34567788888888999999999999986 48999999999999999999999998764 56999999999999
Q ss_pred HHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh---------ccccCCccEEEEeC
Q 045263 576 HYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE---------KVEFSALRLAIVDE 646 (742)
Q Consensus 576 ~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~---------~v~~~~l~LVIIDE 646 (742)
+.++|.++...++. ++.+..++|++...+++. +..+.++||++||..+.- ...+.++.+|||||
T Consensus 131 Q~~rl~~~~~~~~~---~v~~~~y~Gdt~~~~r~~----~~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDE 203 (851)
T COG1205 131 QAERLRELISDLPG---KVTFGRYTGDTPPEERRA----IIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDE 203 (851)
T ss_pred HHHHHHHHHHhCCC---cceeeeecCCCChHHHHH----HHhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEec
Confidence 99999999987762 578999999999988865 446689999999998743 23467899999999
Q ss_pred Cccccccchh---hhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcCCCCeeeeccCCCCC
Q 045263 647 QQRFGVVQRG---RFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYGDMSLTQITDLPPGR 722 (742)
Q Consensus 647 aHrfG~~qr~---~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~gdl~~s~I~e~P~gr 722 (742)
+|-+.-.|.. .+...+... ...++..++++.+||| -.|...+.-+.|..-...+++-...+
T Consensus 204 lHtYrGv~GS~vA~llRRL~~~---------------~~~~~~~~q~i~~SAT~~np~e~~~~l~~~~f~~~v~~~g~~~ 268 (851)
T COG1205 204 LHTYRGVQGSEVALLLRRLLRR---------------LRRYGSPLQIICTSATLANPGEFAEELFGRDFEVPVDEDGSPR 268 (851)
T ss_pred ceeccccchhHHHHHHHHHHHH---------------HhccCCCceEEEEeccccChHHHHHHhcCCcceeeccCCCCCC
Confidence 9987322321 111111110 0223457899999999 77889988888854333366555444
Q ss_pred CCcEEEEE
Q 045263 723 IPIKTYII 730 (742)
Q Consensus 723 ~~i~t~~~ 730 (742)
-++.....
T Consensus 269 ~~~~~~~~ 276 (851)
T COG1205 269 GLRYFVRR 276 (851)
T ss_pred CceEEEEe
Confidence 44544443
No 49
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.69 E-value=8.8e-17 Score=177.16 Aligned_cols=173 Identities=21% Similarity=0.271 Sum_probs=132.0
Q ss_pred HhCCC-CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-------CCeEEEEcccHHHHHHHH
Q 045263 506 RALPY-SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-------GYQAAFMVPTELLATQHY 577 (742)
Q Consensus 506 ~~lpf-~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-------g~qvlilaPT~~La~Q~~ 577 (742)
+.-.| .+|.+|+++|+..+.+. ++|-.+-||||||++|+.|+++.+.. |..+||+.||++||.|++
T Consensus 85 ke~~fv~~teiQ~~~Ip~aL~G~------DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtF 158 (758)
T KOG0343|consen 85 KEAKFVKMTEIQRDTIPMALQGH------DVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTF 158 (758)
T ss_pred hhcCCccHHHHHHhhcchhccCc------ccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHH
Confidence 33445 59999999999998863 78999999999999999999999854 678999999999999999
Q ss_pred HHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh------ccccCCccEEEEeCCccc-
Q 045263 578 EHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE------KVEFSALRLAIVDEQQRF- 650 (742)
Q Consensus 578 ~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~------~v~~~~l~LVIIDEaHrf- 650 (742)
+.+.+...... ++.+++.|+...+..... -..++|+||||++|.+ .+.-.++.++|+|||+|+
T Consensus 159 evL~kvgk~h~-----fSaGLiiGG~~~k~E~eR-----i~~mNILVCTPGRLLQHmde~~~f~t~~lQmLvLDEADR~L 228 (758)
T KOG0343|consen 159 EVLNKVGKHHD-----FSAGLIIGGKDVKFELER-----ISQMNILVCTPGRLLQHMDENPNFSTSNLQMLVLDEADRML 228 (758)
T ss_pred HHHHHHhhccc-----cccceeecCchhHHHHHh-----hhcCCeEEechHHHHHHhhhcCCCCCCcceEEEeccHHHHH
Confidence 99999988776 899999999876544332 2348999999999854 345668999999999996
Q ss_pred --cccch-hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHH--cCCCCeeeec
Q 045263 651 --GVVQR-GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALAL--YGDMSLTQIT 716 (742)
Q Consensus 651 --G~~qr-~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l--~gdl~~s~I~ 716 (742)
|+... ..+.+ .++...|.|++|||+.-.+--++. ..|.....+.
T Consensus 229 DMGFk~tL~~Ii~----------------------~lP~~RQTLLFSATqt~svkdLaRLsL~dP~~vsvh 277 (758)
T KOG0343|consen 229 DMGFKKTLNAIIE----------------------NLPKKRQTLLFSATQTKSVKDLARLSLKDPVYVSVH 277 (758)
T ss_pred HHhHHHHHHHHHH----------------------hCChhheeeeeecccchhHHHHHHhhcCCCcEEEEe
Confidence 54322 22222 233457899999997655444443 3565555444
No 50
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=99.69 E-value=8.7e-17 Score=173.45 Aligned_cols=197 Identities=21% Similarity=0.238 Sum_probs=138.4
Q ss_pred HHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---------CCeEEEEcccHH
Q 045263 502 KKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---------GYQAAFMVPTEL 571 (742)
Q Consensus 502 ~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---------g~qvlilaPT~~ 571 (742)
-+-+..++|+ +|-+|..||+-++++ .+++..|.||||||.+|++|+++.+.. |..++++|||++
T Consensus 31 lkAi~~lG~ekpTlIQs~aIplaLEg------KDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkE 104 (569)
T KOG0346|consen 31 LKAITKLGWEKPTLIQSSAIPLALEG------KDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKE 104 (569)
T ss_pred HHHHHHhCcCCcchhhhcccchhhcC------cceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHH
Confidence 3445778998 999999999999985 388999999999999999999998753 568999999999
Q ss_pred HHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh------ccccCCccEEEEe
Q 045263 572 LATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE------KVEFSALRLAIVD 645 (742)
Q Consensus 572 La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~------~v~~~~l~LVIID 645 (742)
||+|+|..+.++....+ ..+++.-++++++......+ ..+.++|||+||+.+.. ......+.++|+|
T Consensus 105 L~qQvy~viekL~~~c~---k~lr~~nl~s~~sdsv~~~~----L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~LVvD 177 (569)
T KOG0346|consen 105 LAQQVYKVIEKLVEYCS---KDLRAINLASSMSDSVNSVA----LMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVD 177 (569)
T ss_pred HHHHHHHHHHHHHHHHH---HhhhhhhhhcccchHHHHHH----HccCCCeEEeChHHHHHHHhhccchhhhheeeEEec
Confidence 99999999988765543 11566666766666554433 34579999999998854 2457789999999
Q ss_pred CCcc---ccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH--HcCCCCeeeec--cC
Q 045263 646 EQQR---FGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA--LYGDMSLTQIT--DL 718 (742)
Q Consensus 646 EaHr---fG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~--l~gdl~~s~I~--e~ 718 (742)
|||- |||+.... .-. ..++...|.++||||-.-...++- ....--+..+. ++
T Consensus 178 EADLllsfGYeedlk--~l~-------------------~~LPr~~Q~~LmSATl~dDv~~LKkL~l~nPviLkl~e~el 236 (569)
T KOG0346|consen 178 EADLLLSFGYEEDLK--KLR-------------------SHLPRIYQCFLMSATLSDDVQALKKLFLHNPVILKLTEGEL 236 (569)
T ss_pred hhhhhhhcccHHHHH--HHH-------------------HhCCchhhheeehhhhhhHHHHHHHHhccCCeEEEeccccC
Confidence 9996 57755432 111 224456789999999654443332 22222223333 33
Q ss_pred CCCCCCcEEEEEcCC
Q 045263 719 PPGRIPIKTYIIEGN 733 (742)
Q Consensus 719 P~gr~~i~t~~~~~~ 733 (742)
| +--....+++...
T Consensus 237 ~-~~dqL~Qy~v~cs 250 (569)
T KOG0346|consen 237 P-NPDQLTQYQVKCS 250 (569)
T ss_pred C-CcccceEEEEEec
Confidence 3 3334555655544
No 51
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.68 E-value=8.3e-16 Score=184.81 Aligned_cols=199 Identities=16% Similarity=0.119 Sum_probs=139.7
Q ss_pred hHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHH
Q 045263 498 SSLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQH 576 (742)
Q Consensus 498 ~~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~ 576 (742)
..+...+...|+|. ++|.|+++|+.++.+ .++++.+|||+|||++|.+|++.. +..++|++|+++|+.++
T Consensus 446 ~~L~~~lk~~FG~~sFRp~Q~eaI~aiL~G------rDVLVimPTGSGKSLcYQLPAL~~---~GiTLVISPLiSLmqDQ 516 (1195)
T PLN03137 446 KKLEVNNKKVFGNHSFRPNQREIINATMSG------YDVFVLMPTGGGKSLTYQLPALIC---PGITLVISPLVSLIQDQ 516 (1195)
T ss_pred HHHHHHHHHHcCCCCCCHHHHHHHHHHHcC------CCEEEEcCCCccHHHHHHHHHHHc---CCcEEEEeCHHHHHHHH
Confidence 34555566778986 999999999999875 388999999999999999999753 67899999999999876
Q ss_pred HHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhc--CCccEEEechHHHhh------cc----ccCCccEEEE
Q 045263 577 YEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQT--GDITLVIGTHSLIAE------KV----EFSALRLAIV 644 (742)
Q Consensus 577 ~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~--G~~~IVVgT~~~l~~------~v----~~~~l~LVII 644 (742)
...+.. .+ +++..+.|+.+..++..++..+.. |.++|+++||+.+.. .+ ....+.+|||
T Consensus 517 V~~L~~----~G-----I~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~~~d~ll~~L~~L~~~~~LslIVI 587 (1195)
T PLN03137 517 IMNLLQ----AN-----IPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLENLNSRGLLARFVI 587 (1195)
T ss_pred HHHHHh----CC-----CeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHHhhcchHHHHHHHhhhhccccceecc
Confidence 666554 24 788999999998888888877766 889999999998732 11 1245889999
Q ss_pred eCCccc---cccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHH--cCCCCeeeeccCC
Q 045263 645 DEQQRF---GVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALAL--YGDMSLTQITDLP 719 (742)
Q Consensus 645 DEaHrf---G~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l--~gdl~~s~I~e~P 719 (742)
||||++ |...|..+..-.. .+..+ ...+++++|||..++....+. .+..+...+.. .
T Consensus 588 DEAHcVSqWGhDFRpdYr~L~~----------------Lr~~f-p~vPilALTATAT~~V~eDI~~~L~l~~~~vfr~-S 649 (1195)
T PLN03137 588 DEAHCVSQWGHDFRPDYQGLGI----------------LKQKF-PNIPVLALTATATASVKEDVVQALGLVNCVVFRQ-S 649 (1195)
T ss_pred CcchhhhhcccchHHHHHHHHH----------------HHHhC-CCCCeEEEEecCCHHHHHHHHHHcCCCCcEEeec-c
Confidence 999985 4444443322100 00112 234588999998887666543 23333333332 2
Q ss_pred CCCCCcEEEEEcC
Q 045263 720 PGRIPIKTYIIEG 732 (742)
Q Consensus 720 ~gr~~i~t~~~~~ 732 (742)
..|..+...++..
T Consensus 650 f~RpNL~y~Vv~k 662 (1195)
T PLN03137 650 FNRPNLWYSVVPK 662 (1195)
T ss_pred cCccceEEEEecc
Confidence 3455555445443
No 52
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.68 E-value=6.2e-17 Score=178.35 Aligned_cols=162 Identities=22% Similarity=0.276 Sum_probs=126.6
Q ss_pred HHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--------------CCe--EEEEc
Q 045263 505 LRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--------------GYQ--AAFMV 567 (742)
Q Consensus 505 ~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--------------g~q--vlila 567 (742)
+..++|. ||++|..+|+++..+. .++|-.|.||||||++|.+|+++.+.. +.| +||++
T Consensus 196 L~~~gFs~Pt~IQsl~lp~ai~gk-----~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~LV~t 270 (731)
T KOG0347|consen 196 LSNLGFSRPTEIQSLVLPAAIRGK-----VDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIALVVT 270 (731)
T ss_pred HHhcCCCCCccchhhcccHhhccc-----hhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccCcceeEEec
Confidence 4678897 9999999999999862 377999999999999999999983321 456 99999
Q ss_pred ccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh--------ccccCCc
Q 045263 568 PTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE--------KVEFSAL 639 (742)
Q Consensus 568 PT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~--------~v~~~~l 639 (742)
||++||.|+.+.+.......+ ++++.++|++....+.++++. .++|||+||++|.+ .-.|+++
T Consensus 271 PTRELa~QV~~Hl~ai~~~t~-----i~v~si~GGLavqKQqRlL~~----~p~IVVATPGRlweli~e~n~~l~~~k~v 341 (731)
T KOG0347|consen 271 PTRELAHQVKQHLKAIAEKTQ-----IRVASITGGLAVQKQQRLLNQ----RPDIVVATPGRLWELIEEDNTHLGNFKKV 341 (731)
T ss_pred ChHHHHHHHHHHHHHhccccC-----eEEEEeechhHHHHHHHHHhc----CCCEEEecchHHHHHHHhhhhhhhhhhhc
Confidence 999999999999999988777 999999999988766665543 68999999999865 2258889
Q ss_pred cEEEEeCCcccc----ccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCC
Q 045263 640 RLAIVDEQQRFG----VVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATP 697 (742)
Q Consensus 640 ~LVIIDEaHrfG----~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATP 697 (742)
.++|+||++|+- +.....+.+.+. . ...+...|.|.+|||-
T Consensus 342 kcLVlDEaDRmvekghF~Els~lL~~L~-e----------------~~~~~qrQTlVFSATl 386 (731)
T KOG0347|consen 342 KCLVLDEADRMVEKGHFEELSKLLKHLN-E----------------EQKNRQRQTLVFSATL 386 (731)
T ss_pred eEEEEccHHHHhhhccHHHHHHHHHHhh-h----------------hhcccccceEEEEEEe
Confidence 999999999982 222334433321 0 1122345889999993
No 53
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.66 E-value=5.4e-16 Score=171.82 Aligned_cols=130 Identities=19% Similarity=0.264 Sum_probs=107.6
Q ss_pred HhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC-------------CeEEEEcccHH
Q 045263 506 RALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG-------------YQAAFMVPTEL 571 (742)
Q Consensus 506 ~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g-------------~qvlilaPT~~ 571 (742)
+.-+|. +||+|+.+|+.|..+. +.+.+|+||||||.+|++|++..+... .+++||+||++
T Consensus 90 ~~~~~~~ptpvQk~sip~i~~Gr------dl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTRe 163 (482)
T KOG0335|consen 90 KRSGYTKPTPVQKYSIPIISGGR------DLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRE 163 (482)
T ss_pred ccccccCCCcceeeccceeecCC------ceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHH
Confidence 344565 9999999999998863 679999999999999999999887541 58999999999
Q ss_pred HHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeC
Q 045263 572 LATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDE 646 (742)
Q Consensus 572 La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDE 646 (742)
||.|+|++.+++.-..+ +++..+.|+.+..... ..+..| ++|+|+||+.+.+ .+.+.+++++|+||
T Consensus 164 L~~Qi~nea~k~~~~s~-----~~~~~~ygg~~~~~q~---~~~~~g-cdIlvaTpGrL~d~~e~g~i~l~~~k~~vLDE 234 (482)
T KOG0335|consen 164 LVDQIYNEARKFSYLSG-----MKSVVVYGGTDLGAQL---RFIKRG-CDILVATPGRLKDLIERGKISLDNCKFLVLDE 234 (482)
T ss_pred HhhHHHHHHHhhccccc-----ceeeeeeCCcchhhhh---hhhccC-ccEEEecCchhhhhhhcceeehhhCcEEEecc
Confidence 99999999999876555 7888888886543332 234555 9999999999966 56788999999999
Q ss_pred Cccc
Q 045263 647 QQRF 650 (742)
Q Consensus 647 aHrf 650 (742)
|++|
T Consensus 235 ADrM 238 (482)
T KOG0335|consen 235 ADRM 238 (482)
T ss_pred hHHh
Confidence 9997
No 54
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.66 E-value=1.1e-15 Score=167.18 Aligned_cols=166 Identities=19% Similarity=0.202 Sum_probs=130.7
Q ss_pred chHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--------CCeEEEEcc
Q 045263 497 WSSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--------GYQAAFMVP 568 (742)
Q Consensus 497 ~~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--------g~qvlilaP 568 (742)
.+.++..+.+.--.++||+|-++++..+.+. +++-.+-||||||.+|+.|++..+.. |.-.+|++|
T Consensus 231 DkqLm~airk~Ey~kptpiq~qalptalsgr------dvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvP 304 (731)
T KOG0339|consen 231 DKQLMTAIRKSEYEKPTPIQCQALPTALSGR------DVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVP 304 (731)
T ss_pred hHHHHHHHhhhhcccCCcccccccccccccc------cchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEec
Confidence 4556666655555569999999999987642 67889999999999999999888753 567899999
Q ss_pred cHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEE
Q 045263 569 TELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAI 643 (742)
Q Consensus 569 T~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVI 643 (742)
|++||.|++.+.+++.+.++ +++..++|+.+..++.. .++.| +.|||+||++|.+ .+.+.++.++|
T Consensus 305 Trela~Qi~~eaKkf~K~yg-----l~~v~~ygGgsk~eQ~k---~Lk~g-~EivVaTPgRlid~VkmKatn~~rvS~LV 375 (731)
T KOG0339|consen 305 TRELASQIFSEAKKFGKAYG-----LRVVAVYGGGSKWEQSK---ELKEG-AEIVVATPGRLIDMVKMKATNLSRVSYLV 375 (731)
T ss_pred cHHHHHHHHHHHHHhhhhcc-----ceEEEeecCCcHHHHHH---hhhcC-CeEEEechHHHHHHHHhhcccceeeeEEE
Confidence 99999999999999988888 89999999988766654 45555 8999999999976 44677889999
Q ss_pred EeCCccc---cccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCC
Q 045263 644 VDEQQRF---GVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPI 698 (742)
Q Consensus 644 IDEaHrf---G~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPi 698 (742)
+||++|+ |++..-+-.. .+.....|.|++|||-.
T Consensus 376 ~DEadrmfdmGfe~qVrSI~---------------------~hirpdrQtllFsaTf~ 412 (731)
T KOG0339|consen 376 LDEADRMFDMGFEPQVRSIK---------------------QHIRPDRQTLLFSATFK 412 (731)
T ss_pred EechhhhhccccHHHHHHHH---------------------hhcCCcceEEEeeccch
Confidence 9999996 6654432221 11223568999999943
No 55
>PRK13766 Hef nuclease; Provisional
Probab=99.65 E-value=1.5e-15 Score=183.23 Aligned_cols=154 Identities=23% Similarity=0.297 Sum_probs=119.1
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-cCCeEEEEcccHHHHHHHHHHHHHhhhhc
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-SGYQAAFMVPTELLATQHYEHLLKLLDNM 587 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~g~qvlilaPT~~La~Q~~~~l~~~l~~~ 587 (742)
.++++++|++++..++.. |.|+++|||+|||.+|++++...+. .+.++||++||++|++|+.+.+++++...
T Consensus 13 ~~~~r~yQ~~~~~~~l~~-------n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~ 85 (773)
T PRK13766 13 TIEARLYQQLLAATALKK-------NTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLNIP 85 (773)
T ss_pred cCCccHHHHHHHHHHhcC-------CeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHhCCC
Confidence 467999999999887763 7899999999999999988887764 36899999999999999999999987533
Q ss_pred cCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccccccc-hhhhhhh
Q 045263 588 EEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFGVVQ-RGRFNSK 661 (742)
Q Consensus 588 ~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG~~q-r~~l~~k 661 (742)
+ ..+..++|+.+..++...|.. .+|+|+||..+.. .+.+.++++|||||||+..... ...+...
T Consensus 86 ~-----~~v~~~~g~~~~~~r~~~~~~-----~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~~~~~~i~~~ 155 (773)
T PRK13766 86 E-----EKIVVFTGEVSPEKRAELWEK-----AKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGNYAYVYIAER 155 (773)
T ss_pred C-----ceEEEEeCCCCHHHHHHHHhC-----CCEEEECHHHHHHHHHcCCCChhhCcEEEEECCccccccccHHHHHHH
Confidence 2 478889999988887776643 6899999987733 4567889999999999974322 2222221
Q ss_pred hhccccccccccccCCCCCCCCCCCCCcEEEEcCCCC
Q 045263 662 LYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPI 698 (742)
Q Consensus 662 ~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPi 698 (742)
. .. ....|.+++|||||.
T Consensus 156 ~-~~------------------~~~~~~il~lTaTP~ 173 (773)
T PRK13766 156 Y-HE------------------DAKNPLVLGLTASPG 173 (773)
T ss_pred H-Hh------------------cCCCCEEEEEEcCCC
Confidence 1 10 113578999999984
No 56
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.64 E-value=9.6e-15 Score=143.19 Aligned_cols=166 Identities=26% Similarity=0.305 Sum_probs=118.5
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC--CeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG--YQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g--~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
.+++++++|.++++.+.... .+.++.++||+|||.+++.+++..+..+ .++++++||..++.|+.+.+...+.
T Consensus 5 ~~~~~~~~Q~~~~~~~~~~~-----~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~ 79 (201)
T smart00487 5 GFEPLRPYQKEAIEALLSGL-----RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGP 79 (201)
T ss_pred CCCCCCHHHHHHHHHHHcCC-----CcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhc
Confidence 35679999999999988642 3789999999999999999999988775 8899999999999999999998875
Q ss_pred hccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhc-----cccCCccEEEEeCCccccc-cchhhhh
Q 045263 586 NMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEK-----VEFSALRLAIVDEQQRFGV-VQRGRFN 659 (742)
Q Consensus 586 ~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~-----v~~~~l~LVIIDEaHrfG~-~qr~~l~ 659 (742)
... ......+++..... .+..+.++..+++++|++.+.+. .....++++|+||+|.+.. .....+.
T Consensus 80 ~~~----~~~~~~~~~~~~~~----~~~~~~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~~~~~~~~~ 151 (201)
T smart00487 80 SLG----LKVVGLYGGDSKRE----QLRKLESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLDGGFGDQLE 151 (201)
T ss_pred cCC----eEEEEEeCCcchHH----HHHHHhcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhcCCcHHHHH
Confidence 422 02344455544322 23345566569999999887552 3455688999999999865 3332222
Q ss_pred hhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 660 SKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 660 ~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
... . .....+++++|||||....-...
T Consensus 152 ~~~-~------------------~~~~~~~~v~~saT~~~~~~~~~ 178 (201)
T smart00487 152 KLL-K------------------LLPKNVQLLLLSATPPEEIENLL 178 (201)
T ss_pred HHH-H------------------hCCccceEEEEecCCchhHHHHH
Confidence 211 0 01235789999999965544443
No 57
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.64 E-value=9.7e-16 Score=178.99 Aligned_cols=174 Identities=22% Similarity=0.289 Sum_probs=132.0
Q ss_pred HhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc----------CCeEEEEcccHHHHH
Q 045263 506 RALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS----------GYQAAFMVPTELLAT 574 (742)
Q Consensus 506 ~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~----------g~qvlilaPT~~La~ 574 (742)
.-++|+ ++..|..+++.+++. + -|.||+||||||||.+|++++++.+.+ +.++++++|+++||.
T Consensus 104 ~~f~f~~fN~iQS~vFp~aY~S---n--eNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~ 178 (1230)
T KOG0952|consen 104 GFFSFEEFNRIQSEVFPVAYKS---N--ENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAA 178 (1230)
T ss_pred hcccHHHHHHHHHHhhhhhhcC---C--CCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHH
Confidence 456776 999999999999873 2 388999999999999999999999983 579999999999999
Q ss_pred HHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHh--------hccccCCccEEEEeC
Q 045263 575 QHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIA--------EKVEFSALRLAIVDE 646 (742)
Q Consensus 575 Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~--------~~v~~~~l~LVIIDE 646 (742)
.+++.|.+.+.++| ++|.-+||++....-+ +. +++|||+||+-+- +...+..++||||||
T Consensus 179 Em~~~~~kkl~~~g-----i~v~ELTGD~ql~~te-i~------~tqiiVTTPEKwDvvTRk~~~d~~l~~~V~LviIDE 246 (1230)
T KOG0952|consen 179 EMVDKFSKKLAPLG-----ISVRELTGDTQLTKTE-IA------DTQIIVTTPEKWDVVTRKSVGDSALFSLVRLVIIDE 246 (1230)
T ss_pred HHHHHHhhhccccc-----ceEEEecCcchhhHHH-HH------hcCEEEecccceeeeeeeeccchhhhhheeeEEeee
Confidence 99999999999888 9999999998654333 22 3799999999761 133477899999999
Q ss_pred CccccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcC
Q 045263 647 QQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYG 708 (742)
Q Consensus 647 aHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~g 708 (742)
.|-.- ..|+...+-. +.|.. ..++ ......+++++||| |+-+.+|.++.-
T Consensus 247 VHlLh-d~RGpvlEti-----VaRtl--r~ve----ssqs~IRivgLSATlPN~eDvA~fL~v 297 (1230)
T KOG0952|consen 247 VHLLH-DDRGPVLETI-----VARTL--RLVE----SSQSMIRIVGLSATLPNYEDVARFLRV 297 (1230)
T ss_pred ehhhc-CcccchHHHH-----HHHHH--HHHH----hhhhheEEEEeeccCCCHHHHHHHhcC
Confidence 99862 2232221110 00000 0000 01124679999999 999999999864
No 58
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.64 E-value=1.5e-15 Score=181.54 Aligned_cols=178 Identities=21% Similarity=0.280 Sum_probs=144.9
Q ss_pred HHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHH
Q 045263 502 KKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 502 ~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~ 581 (742)
..+...+||+|.++|++|+..+.++- ++++++|||||||+|+.+|+..++.+|.++++..|.++|.+|.|..|.
T Consensus 110 ~~~~~~~~F~LD~fQ~~a~~~Ler~e------sVlV~ApTssGKTvVaeyAi~~al~~~qrviYTsPIKALsNQKyrdl~ 183 (1041)
T COG4581 110 APPAREYPFELDPFQQEAIAILERGE------SVLVCAPTSSGKTVVAEYAIALALRDGQRVIYTSPIKALSNQKYRDLL 183 (1041)
T ss_pred CcHHHhCCCCcCHHHHHHHHHHhCCC------cEEEEccCCCCcchHHHHHHHHHHHcCCceEeccchhhhhhhHHHHHH
Confidence 34567899999999999999888753 789999999999999999999999999999999999999999999999
Q ss_pred HhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccccccchh
Q 045263 582 KLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFGVVQRG 656 (742)
Q Consensus 582 ~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG~~qr~ 656 (742)
..+.... -.++++||+.+. |+++.++|.|.+.|.. .....++..||+||+|.++-..|+
T Consensus 184 ~~fgdv~-----~~vGL~TGDv~I-----------N~~A~clvMTTEILRnMlyrg~~~~~~i~~ViFDEvHyi~D~eRG 247 (1041)
T COG4581 184 AKFGDVA-----DMVGLMTGDVSI-----------NPDAPCLVMTTEILRNMLYRGSESLRDIEWVVFDEVHYIGDRERG 247 (1041)
T ss_pred HHhhhhh-----hhccceecceee-----------CCCCceEEeeHHHHHHHhccCcccccccceEEEEeeeeccccccc
Confidence 8876431 356899999864 5678999999987754 345678999999999999998988
Q ss_pred hhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHc----CCCCeeeeccCC
Q 045263 657 RFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALY----GDMSLTQITDLP 719 (742)
Q Consensus 657 ~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~----gdl~~s~I~e~P 719 (742)
..++-... .++...++++|||| |+|..++.++. ++..+..-+.+|
T Consensus 248 ~VWEE~Ii------------------~lP~~v~~v~LSATv~N~~EF~~Wi~~~~~~~~~vv~t~~Rp 297 (1041)
T COG4581 248 VVWEEVII------------------LLPDHVRFVFLSATVPNAEEFAEWIQRVHSQPIHVVSTEHRP 297 (1041)
T ss_pred hhHHHHHH------------------hcCCCCcEEEEeCCCCCHHHHHHHHHhccCCCeEEEeecCCC
Confidence 76664211 12345689999999 99999999986 344444445444
No 59
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.64 E-value=3.6e-16 Score=160.75 Aligned_cols=205 Identities=19% Similarity=0.185 Sum_probs=154.4
Q ss_pred hHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---CCeEEEEcccHHHH
Q 045263 498 SSLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---GYQAAFMVPTELLA 573 (742)
Q Consensus 498 ~~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---g~qvlilaPT~~La 573 (742)
++++..+ -+++|+ |+.+|++||..|+++. +++.|+..|+|||.+|...+++.+.- ..|++++.||++||
T Consensus 36 edlLrgi-Y~yGfekPS~IQqrAi~~IlkGr------dViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa 108 (400)
T KOG0328|consen 36 EDLLRGI-YAYGFEKPSAIQQRAIPQILKGR------DVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELA 108 (400)
T ss_pred HHHHHHH-HHhccCCchHHHhhhhhhhhccc------ceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHH
Confidence 3444333 457887 9999999999999863 89999999999999998888877654 37999999999999
Q ss_pred HHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCc
Q 045263 574 TQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQ 648 (742)
Q Consensus 574 ~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaH 648 (742)
.|+.+.+..+..+++ +++..+.|+.+..+.-.. +.-| .++|.|||+++.+ .+..+.+.++|+||++
T Consensus 109 ~Qi~~vi~alg~~mn-----vq~hacigg~n~gedikk---ld~G-~hvVsGtPGrv~dmikr~~L~tr~vkmlVLDEaD 179 (400)
T KOG0328|consen 109 VQIQKVILALGDYMN-----VQCHACIGGKNLGEDIKK---LDYG-QHVVSGTPGRVLDMIKRRSLRTRAVKMLVLDEAD 179 (400)
T ss_pred HHHHHHHHHhccccc-----ceEEEEecCCccchhhhh---hccc-ceEeeCCCchHHHHHHhccccccceeEEEeccHH
Confidence 999999999988887 899999999886655432 3456 7999999999976 4556788999999999
Q ss_pred cccccch-hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCC--Cc
Q 045263 649 RFGVVQR-GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRI--PI 725 (742)
Q Consensus 649 rfG~~qr-~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~--~i 725 (742)
.+..+-. .++..-. .-++++.|++++|||-+-+.+.++..-.-|...|-..+.+-. .|
T Consensus 180 emL~kgfk~Qiydiy-------------------r~lp~~~Qvv~~SATlp~eilemt~kfmtdpvrilvkrdeltlEgI 240 (400)
T KOG0328|consen 180 EMLNKGFKEQIYDIY-------------------RYLPPGAQVVLVSATLPHEILEMTEKFMTDPVRILVKRDELTLEGI 240 (400)
T ss_pred HHHHhhHHHHHHHHH-------------------HhCCCCceEEEEeccCcHHHHHHHHHhcCCceeEEEecCCCchhhh
Confidence 8743211 1111110 113456799999999888888888776667676655554432 26
Q ss_pred EEEEEcCCcccc
Q 045263 726 KTYIIEGNEKGY 737 (742)
Q Consensus 726 ~t~~~~~~~~~~ 737 (742)
+.+++..+.+.|
T Consensus 241 Kqf~v~ve~Eew 252 (400)
T KOG0328|consen 241 KQFFVAVEKEEW 252 (400)
T ss_pred hhheeeechhhh
Confidence 677776665554
No 60
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.63 E-value=3e-15 Score=164.52 Aligned_cols=217 Identities=19% Similarity=0.240 Sum_probs=149.4
Q ss_pred HHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc------------CCeEEEEcccH
Q 045263 504 LLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS------------GYQAAFMVPTE 570 (742)
Q Consensus 504 ~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~------------g~qvlilaPT~ 570 (742)
+++..+|. +||+|..||+-.+++ .+.|..+.||||||.+|++|++..+.+ |..+++|+||+
T Consensus 259 ~I~~~~y~eptpIqR~aipl~lQ~------rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptR 332 (673)
T KOG0333|consen 259 VIKKPGYKEPTPIQRQAIPLGLQN------RDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTR 332 (673)
T ss_pred HHHhcCCCCCchHHHhhccchhcc------CCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHH
Confidence 67888886 999999999977664 378999999999999999999877743 78999999999
Q ss_pred HHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEe
Q 045263 571 LLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVD 645 (742)
Q Consensus 571 ~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIID 645 (742)
+|++|+.++-.++..+++ +++..+.|+.+..++-- .+..| ++|+|+||+.|.+ .+.++...+||+|
T Consensus 333 eLaqqIeeEt~kf~~~lg-----~r~vsvigg~s~EEq~f---qls~g-ceiviatPgrLid~Lenr~lvl~qctyvvld 403 (673)
T KOG0333|consen 333 ELAQQIEEETNKFGKPLG-----IRTVSVIGGLSFEEQGF---QLSMG-CEIVIATPGRLIDSLENRYLVLNQCTYVVLD 403 (673)
T ss_pred HHHHHHHHHHHHhccccc-----ceEEEEecccchhhhhh---hhhcc-ceeeecCchHHHHHHHHHHHHhccCceEecc
Confidence 999999999999999988 89999999988776632 24556 8999999999965 4567889999999
Q ss_pred CCccc---cccch-hhhhhhhhccccccccccccCCCCCCCCC---CCCCcEEEEcCCCCH--HHHHHHHcCCCCeeeec
Q 045263 646 EQQRF---GVVQR-GRFNSKLYYTSMSSGMAMVNSDGSPKDDQ---HMAPHVLAMSATPIP--RTLALALYGDMSLTQIT 716 (742)
Q Consensus 646 EaHrf---G~~qr-~~l~~k~~~~~~~~~~~~~~~~~~~r~~~---~~~p~vL~mSATPip--rtla~~l~gdl~~s~I~ 716 (742)
|+++| |++.. ..+.+.....+..+...........++.+ ....+.+++|||..| +-++.....+--+.+|.
T Consensus 404 eadrmiDmgfE~dv~~iL~~mPssn~k~~tde~~~~~~~~~~~~~~k~yrqT~mftatm~p~verlar~ylr~pv~vtig 483 (673)
T KOG0333|consen 404 EADRMIDMGFEPDVQKILEQMPSSNAKPDTDEKEGEERVRKNFSSSKKYRQTVMFTATMPPAVERLARSYLRRPVVVTIG 483 (673)
T ss_pred chhhhhcccccHHHHHHHHhCCccccCCCccchhhHHHHHhhcccccceeEEEEEecCCChHHHHHHHHHhhCCeEEEec
Confidence 99996 55543 23333221111111111110000001100 123578999999444 45555566666666665
Q ss_pred cC--CCCCCCcEEEEEcCCcc
Q 045263 717 DL--PPGRIPIKTYIIEGNEK 735 (742)
Q Consensus 717 e~--P~gr~~i~t~~~~~~~~ 735 (742)
.. |..|..-....++.+++
T Consensus 484 ~~gk~~~rveQ~v~m~~ed~k 504 (673)
T KOG0333|consen 484 SAGKPTPRVEQKVEMVSEDEK 504 (673)
T ss_pred cCCCCccchheEEEEecchHH
Confidence 44 44443333333444433
No 61
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.62 E-value=1.6e-15 Score=160.39 Aligned_cols=177 Identities=23% Similarity=0.245 Sum_probs=136.2
Q ss_pred CchHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---CCeEEEEcccHH
Q 045263 496 GWSSLTKKLLRALPY-SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---GYQAAFMVPTEL 571 (742)
Q Consensus 496 ~~~~l~~~~~~~lpf-~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---g~qvlilaPT~~ 571 (742)
+..+|+-.-.+.++. ++||.|+.+|+.|+++. ++|-++.||||||.+|.+|+++.+.. |.-++|+.||++
T Consensus 13 Gl~~Wlve~l~~l~i~~pTpiQ~~cIpkILeGr------dcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrE 86 (442)
T KOG0340|consen 13 GLSPWLVEQLKALGIKKPTPIQQACIPKILEGR------DCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRE 86 (442)
T ss_pred CccHHHHHHHHHhcCCCCCchHhhhhHHHhccc------ccccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHH
Confidence 345566666677876 49999999999999963 78999999999999999999999876 678999999999
Q ss_pred HHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh---------ccccCCccEE
Q 045263 572 LATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE---------KVEFSALRLA 642 (742)
Q Consensus 572 La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~---------~v~~~~l~LV 642 (742)
||.|+.+.|.-+.+..+ +++.++.|+++.-..... ....+|+||+||+++.+ ...|.++.++
T Consensus 87 LA~QiaEQF~alGk~l~-----lK~~vivGG~d~i~qa~~----L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkfl 157 (442)
T KOG0340|consen 87 LALQIAEQFIALGKLLN-----LKVSVIVGGTDMIMQAAI----LSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFL 157 (442)
T ss_pred HHHHHHHHHHHhccccc-----ceEEEEEccHHHhhhhhh----cccCCCeEecCccccccccccCCccchhhhhceeeE
Confidence 99999999999988887 899999999876444332 23458999999999855 2247789999
Q ss_pred EEeCCccccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHH
Q 045263 643 IVDEQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALAL 706 (742)
Q Consensus 643 IIDEaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l 706 (742)
|+|||+++-........+..+ ..++...+.|++||| +-.+.....
T Consensus 158 VlDEADrvL~~~f~d~L~~i~------------------e~lP~~RQtLlfSAT-itd~i~ql~ 202 (442)
T KOG0340|consen 158 VLDEADRVLAGCFPDILEGIE------------------ECLPKPRQTLLFSAT-ITDTIKQLF 202 (442)
T ss_pred EecchhhhhccchhhHHhhhh------------------ccCCCccceEEEEee-hhhHHHHhh
Confidence 999999985444433322211 112223478999999 555555443
No 62
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.62 E-value=1.7e-15 Score=165.76 Aligned_cols=137 Identities=20% Similarity=0.385 Sum_probs=113.3
Q ss_pred CCCHHHHHHHHHHHHhcCCC---CCCceEEEccCCChHHHHHHHHHHHHHhcC----CeEEEEcccHHHHHHHHHHHHHh
Q 045263 511 SLTSSQLSAISEIIWDLKQP---VPMNRLLQGDVGCGKTVVAFLACMEVIGSG----YQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~---~~~~~LL~a~TGSGKT~val~ail~~l~~g----~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
.+.|.|..+++.++.....+ .+.++.+.+|||||||++|.+|+.+++... -+++|++||++|+.|+++.|.++
T Consensus 159 ~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~ 238 (620)
T KOG0350|consen 159 RLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRL 238 (620)
T ss_pred cccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHh
Confidence 38899999999998887643 256899999999999999999999998764 59999999999999999999999
Q ss_pred hhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCC----ccEEEechHHHhh------ccccCCccEEEEeCCcccccc
Q 045263 584 LDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGD----ITLVIGTHSLIAE------KVEFSALRLAIVDEQQRFGVV 653 (742)
Q Consensus 584 l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~----~~IVVgT~~~l~~------~v~~~~l~LVIIDEaHrfG~~ 653 (742)
....| +.|..+.|..+...... .+.+-+ +||+|+||+++.+ .+.+++|+++|||||||++-.
T Consensus 239 ~~~tg-----L~V~~~sgq~sl~~E~~---qL~~~~~~~~~DIlVaTPGRLVDHl~~~k~f~Lk~LrfLVIDEADRll~q 310 (620)
T KOG0350|consen 239 NSGTG-----LAVCSLSGQNSLEDEAR---QLASDPPECRIDILVATPGRLVDHLNNTKSFDLKHLRFLVIDEADRLLDQ 310 (620)
T ss_pred ccCCc-----eEEEecccccchHHHHH---HHhcCCCccccceEEcCchHHHHhccCCCCcchhhceEEEechHHHHHHH
Confidence 98877 88999998877544333 233333 4999999999976 445889999999999998644
Q ss_pred ch
Q 045263 654 QR 655 (742)
Q Consensus 654 qr 655 (742)
.+
T Consensus 311 sf 312 (620)
T KOG0350|consen 311 SF 312 (620)
T ss_pred HH
Confidence 44
No 63
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.61 E-value=6.3e-15 Score=174.68 Aligned_cols=141 Identities=16% Similarity=0.104 Sum_probs=102.4
Q ss_pred HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh--cCCeE-EEEcccHHHHHHH
Q 045263 500 LTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG--SGYQA-AFMVPTELLATQH 576 (742)
Q Consensus 500 l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~--~g~qv-lilaPT~~La~Q~ 576 (742)
+.+-|.+..+|+|||+|+++++.++.+. .+.++++|||||||.++....+.... ...|. ++++||++|+.|+
T Consensus 4 f~~ff~~~~G~~PtpiQ~~~i~~il~G~-----~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi 78 (844)
T TIGR02621 4 FDEWYQGLHGYSPFPWQLSLAERFVAGQ-----PPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQV 78 (844)
T ss_pred HHHHHHHHhCCCCCHHHHHHHHHHHcCC-----CcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHH
Confidence 4455666789999999999999998652 14688999999999865433332111 12344 4577999999999
Q ss_pred HHHHHHhhhhcc------------------CCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccc---
Q 045263 577 YEHLLKLLDNME------------------EDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVE--- 635 (742)
Q Consensus 577 ~~~l~~~l~~~~------------------~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~--- 635 (742)
++++.++.+.+. ....++++..+.|+.+..... ..+..+ ++|||||...+.....
T Consensus 79 ~~~~~~~~k~l~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~---~~l~~~-p~IIVgT~D~i~sr~L~~g 154 (844)
T TIGR02621 79 TEEAEKIGERLPDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEW---MLDPHR-PAVIVGTVDMIGSRLLFSG 154 (844)
T ss_pred HHHHHHHHHHhcccchhhhhhhhhhccccccccCCeEEEEEECCCChHHHH---HhcCCC-CcEEEECHHHHcCCccccc
Confidence 999999887552 112347899999998765432 344555 7999999887755332
Q ss_pred --------------cCCccEEEEeCCcc
Q 045263 636 --------------FSALRLAIVDEQQR 649 (742)
Q Consensus 636 --------------~~~l~LVIIDEaHr 649 (742)
++++.++|+||||-
T Consensus 155 Yg~~~~~~pi~ag~L~~v~~LVLDEADL 182 (844)
T TIGR02621 155 YGCGFKSRPLHAGFLGQDALIVHDEAHL 182 (844)
T ss_pred cccccccccchhhhhccceEEEEehhhh
Confidence 57899999999993
No 64
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.60 E-value=6.2e-15 Score=183.54 Aligned_cols=157 Identities=22% Similarity=0.274 Sum_probs=112.8
Q ss_pred EEccCCChHHHHHHHHHHHHHhc-------------CCeEEEEcccHHHHHHHHHHHHHhhhh-------ccCCCCCcEE
Q 045263 537 LQGDVGCGKTVVAFLACMEVIGS-------------GYQAAFMVPTELLATQHYEHLLKLLDN-------MEEDKHKPKI 596 (742)
Q Consensus 537 L~a~TGSGKT~val~ail~~l~~-------------g~qvlilaPT~~La~Q~~~~l~~~l~~-------~~~~~~~i~V 596 (742)
|++|||||||++|++|++..+.. +.++||++|+++|++|++++++..+.. ++.....++|
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V 80 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRV 80 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEE
Confidence 47899999999999998877632 468999999999999999998763321 1111123899
Q ss_pred EEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhc------cccCCccEEEEeCCccccccchh----hhhhhhhccc
Q 045263 597 ALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEK------VEFSALRLAIVDEQQRFGVVQRG----RFNSKLYYTS 666 (742)
Q Consensus 597 ~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~------v~~~~l~LVIIDEaHrfG~~qr~----~l~~k~~~~~ 666 (742)
..++|+++.+++... ....++|+|+||+.+... ..++++++|||||+|.+.-..|+ ...+++..
T Consensus 81 ~vrtGDt~~~eR~rl----l~~ppdILVTTPEsL~~LLtsk~r~~L~~Vr~VIVDE~H~L~g~kRG~~Lel~LeRL~~-- 154 (1490)
T PRK09751 81 GIRTGDTPAQERSKL----TRNPPDILITTPESLYLMLTSRARETLRGVETVIIDEVHAVAGSKRGAHLALSLERLDA-- 154 (1490)
T ss_pred EEEECCCCHHHHHHH----hcCCCCEEEecHHHHHHHHhhhhhhhhccCCEEEEecHHHhcccccccHHHHHHHHHHH--
Confidence 999999999887653 234589999999988542 25789999999999998643332 11222110
Q ss_pred cccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcCCCCeeee
Q 045263 667 MSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYGDMSLTQI 715 (742)
Q Consensus 667 ~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~gdl~~s~I 715 (742)
-....++++++||| +.++.++.++.+.-.+..+
T Consensus 155 ----------------l~~~~~QrIgLSATI~n~eevA~~L~g~~pv~Iv 188 (1490)
T PRK09751 155 ----------------LLHTSAQRIGLSATVRSASDVAAFLGGDRPVTVV 188 (1490)
T ss_pred ----------------hCCCCCeEEEEEeeCCCHHHHHHHhcCCCCEEEE
Confidence 01235789999999 6678888888775333333
No 65
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.60 E-value=7.7e-15 Score=166.08 Aligned_cols=150 Identities=25% Similarity=0.248 Sum_probs=111.2
Q ss_pred hCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 507 ALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 507 ~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
...++|+++|++|++++.+.... ..+.++++|||+|||.+++.++... +..++|+|||++|+.||++.+.+.+..
T Consensus 32 ~~~~~lr~yQ~~al~a~~~~~~~--~~~gvivlpTGaGKT~va~~~~~~~---~~~~Lvlv~~~~L~~Qw~~~~~~~~~~ 106 (442)
T COG1061 32 AFEFELRPYQEEALDALVKNRRT--ERRGVIVLPTGAGKTVVAAEAIAEL---KRSTLVLVPTKELLDQWAEALKKFLLL 106 (442)
T ss_pred ccCCCCcHHHHHHHHHHHhhccc--CCceEEEeCCCCCHHHHHHHHHHHh---cCCEEEEECcHHHHHHHHHHHHHhcCC
Confidence 45567999999999999997655 4578999999999999999998876 444999999999999999888887643
Q ss_pred ccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccccccchhhhhhh
Q 045263 587 MEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFGVVQRGRFNSK 661 (742)
Q Consensus 587 ~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG~~qr~~l~~k 661 (742)
. ..++.+.|+.... .+ ..|+|+|-+.+.. ......+++||+||+||.+......+.+.
T Consensus 107 ~------~~~g~~~~~~~~~----------~~-~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~~~~~~~~~ 169 (442)
T COG1061 107 N------DEIGIYGGGEKEL----------EP-AKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPSYRRILEL 169 (442)
T ss_pred c------cccceecCceecc----------CC-CcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcHHHHHHHHh
Confidence 2 1355666654321 01 3699999887743 23334699999999999986554444332
Q ss_pred hhccccccccccccCCCCCCCCCCCCCc-EEEEcCCCCHHHH
Q 045263 662 LYYTSMSSGMAMVNSDGSPKDDQHMAPH-VLAMSATPIPRTL 702 (742)
Q Consensus 662 ~~~~~~~~~~~~~~~~~~~r~~~~~~p~-vL~mSATPiprtl 702 (742)
. .++. +|++||||. |+.
T Consensus 170 ~-----------------------~~~~~~LGLTATp~-R~D 187 (442)
T COG1061 170 L-----------------------SAAYPRLGLTATPE-RED 187 (442)
T ss_pred h-----------------------hcccceeeeccCce-eec
Confidence 1 1234 899999986 554
No 66
>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=99.59 E-value=1.2e-14 Score=170.72 Aligned_cols=147 Identities=16% Similarity=0.175 Sum_probs=108.3
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhcc
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNME 588 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~ 588 (742)
.++|+++|++|+..+... +...+.+|++|||+|||++++.++... +.++||+||+..|++||.++|.+++....
T Consensus 253 ~~~LRpYQ~eAl~~~~~~---gr~r~GIIvLPtGaGKTlvai~aa~~l---~k~tLILvps~~Lv~QW~~ef~~~~~l~~ 326 (732)
T TIGR00603 253 TTQIRPYQEKSLSKMFGN---GRARSGIIVLPCGAGKSLVGVTAACTV---KKSCLVLCTSAVSVEQWKQQFKMWSTIDD 326 (732)
T ss_pred CCCcCHHHHHHHHHHHhc---CCCCCcEEEeCCCCChHHHHHHHHHHh---CCCEEEEeCcHHHHHHHHHHHHHhcCCCC
Confidence 467999999999998753 222356999999999999998776643 67899999999999999999999864322
Q ss_pred CCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-------------ccccCCccEEEEeCCccccccch
Q 045263 589 EDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-------------KVEFSALRLAIVDEQQRFGVVQR 655 (742)
Q Consensus 589 ~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-------------~v~~~~l~LVIIDEaHrfG~~qr 655 (742)
..+..++|+.... ..+..+|+|+|.+.+.. .+.-..++|||+||+|+.+..+.
T Consensus 327 -----~~I~~~tg~~k~~---------~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA~~f 392 (732)
T TIGR00603 327 -----SQICRFTSDAKER---------FHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPAAMF 392 (732)
T ss_pred -----ceEEEEecCcccc---------cccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccHHHH
Confidence 4677777764321 12346899999987732 22234789999999999876554
Q ss_pred hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCC
Q 045263 656 GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPI 698 (742)
Q Consensus 656 ~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPi 698 (742)
..+.... .+...|++||||.
T Consensus 393 r~il~~l-----------------------~a~~RLGLTATP~ 412 (732)
T TIGR00603 393 RRVLTIV-----------------------QAHCKLGLTATLV 412 (732)
T ss_pred HHHHHhc-----------------------CcCcEEEEeecCc
Confidence 4332211 2456899999996
No 67
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=99.58 E-value=3.2e-14 Score=156.96 Aligned_cols=170 Identities=14% Similarity=0.142 Sum_probs=112.6
Q ss_pred HHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCc
Q 045263 515 SQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKP 594 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i 594 (742)
+|.++++.+.++- ..++++.+|||||||.+|+++++. .+.++++++|+++|++|+++++.+++..+. ...+.
T Consensus 1 hQ~~~~~~~~~~~----~~~~~i~apTGsGKT~~~~~~~l~---~~~~~~~~~P~~aL~~~~~~~~~~~~~~~~-~~~~~ 72 (357)
T TIGR03158 1 HQVATFEALQSKD----ADIIFNTAPTGAGKTLAWLTPLLH---GENDTIALYPTNALIEDQTEAIKEFVDVFK-PERDV 72 (357)
T ss_pred CHHHHHHHHHcCC----CCEEEEECCCCCCHHHHHHHHHHH---cCCCEEEEeChHHHHHHHHHHHHHHHHhcC-CCCCc
Confidence 5999999998742 225799999999999999998874 466899999999999999999999986542 12236
Q ss_pred EEEEEeCCCChHHHHH----------------HHHHhhcCCccEEEechHHHhhcc-------------ccCCccEEEEe
Q 045263 595 KIALLTGSTPVKQSRM----------------IRKDLQTGDITLVIGTHSLIAEKV-------------EFSALRLAIVD 645 (742)
Q Consensus 595 ~V~ll~G~~~~~er~~----------------i~~~l~~G~~~IVVgT~~~l~~~v-------------~~~~l~LVIID 645 (742)
.+..++|.+....+.. +.+.+....+.|+++||+.+.... .+.++++||+|
T Consensus 73 ~v~~~~g~~~~d~~~~~~~~~~~~~g~~~~~~~r~~~~~~~p~illT~p~~l~~llr~~~~~~~~~~~~~~~~~~~iV~D 152 (357)
T TIGR03158 73 NLLHVSKATLKDIKEYANDKVGSSKGEKLYNLLRNPIGTSTPIILLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFD 152 (357)
T ss_pred eEEEecCCchHHHHHhhhhhcccCccchhhhhHHHHHhcCCCCEEEecHHHHHHHHhhhccCcccchhhhhcCCCEEEEe
Confidence 7778888743321110 111223346789999998774210 14789999999
Q ss_pred CCccccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 646 EQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 646 EaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
|+|.++..+...+.--.... ...+.. ...+++++|||||.|.-....
T Consensus 153 E~H~~~~~~~~~~~~~l~~~------------~~~~~~-~~~~~~i~lSAT~~~~~~~~l 199 (357)
T TIGR03158 153 EFHLYDAKQLVGMLFLLAYM------------QLIRFF-ECRRKFVFLSATPDPALILRL 199 (357)
T ss_pred cccccCcccchhhhhhhHHH------------HHHHhh-hcCCcEEEEecCCCHHHHHHH
Confidence 99998765543222100000 000111 113589999999877644433
No 68
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.58 E-value=4.6e-15 Score=165.80 Aligned_cols=192 Identities=26% Similarity=0.321 Sum_probs=143.0
Q ss_pred HhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---CCeEEEEcccHHHHHHHHHHHH
Q 045263 506 RALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---GYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 506 ~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---g~qvlilaPT~~La~Q~~~~l~ 581 (742)
+.-.|. +|++|..||+.++.. |+.|+|+..|+|||+||..++++.+.. ..|.+|++||+++|.|+.+.+.
T Consensus 41 rrn~f~~ptkiQaaAIP~~~~k------mDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~ 114 (980)
T KOG4284|consen 41 RRNAFALPTKIQAAAIPAIFSK------MDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVR 114 (980)
T ss_pred HhhcccCCCchhhhhhhhhhcc------cceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHH
Confidence 444665 999999999999985 588999999999999998888877654 4799999999999999999999
Q ss_pred HhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccccc-cc-
Q 045263 582 KLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFGV-VQ- 654 (742)
Q Consensus 582 ~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG~-~q- 654 (742)
.+...+.+ .++.++.|++..+.....+ .+++|+||||++|.. .+...+++|+|+||||.+-- +.
T Consensus 115 ~v~~sf~g----~~csvfIGGT~~~~d~~rl-----k~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~~t~sf 185 (980)
T KOG4284|consen 115 KVAPSFTG----ARCSVFIGGTAHKLDLIRL-----KQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLMDTESF 185 (980)
T ss_pred HhcccccC----cceEEEecCchhhhhhhhh-----hhceEEecCchHHHHHHHhcCCCccceeEEEeccHHhhhchhhH
Confidence 99876642 7899999998876554322 347899999999854 56778999999999998621 11
Q ss_pred hhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCC---CeeeeccCCCCCCCcEEEEEc
Q 045263 655 RGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDM---SLTQITDLPPGRIPIKTYIIE 731 (742)
Q Consensus 655 r~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl---~~s~I~e~P~gr~~i~t~~~~ 731 (742)
+..+ .+.+ ..++...+++++||| -|+.|...+...| -+....+.-+--..|+.+++.
T Consensus 186 q~~I-n~ii------------------~slP~~rQv~a~SAT-Yp~nLdn~Lsk~mrdp~lVr~n~~d~~L~GikQyv~~ 245 (980)
T KOG4284|consen 186 QDDI-NIII------------------NSLPQIRQVAAFSAT-YPRNLDNLLSKFMRDPALVRFNADDVQLFGIKQYVVA 245 (980)
T ss_pred HHHH-HHHH------------------HhcchhheeeEEecc-CchhHHHHHHHHhcccceeecccCCceeechhheeee
Confidence 1111 1111 123456799999999 6999998886643 344445444444556666654
Q ss_pred C
Q 045263 732 G 732 (742)
Q Consensus 732 ~ 732 (742)
.
T Consensus 246 ~ 246 (980)
T KOG4284|consen 246 K 246 (980)
T ss_pred c
Confidence 3
No 69
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.57 E-value=7.7e-15 Score=169.78 Aligned_cols=156 Identities=17% Similarity=0.211 Sum_probs=115.8
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
.+.|+++|.+.+...+ + .|.||++|||+|||++|+..|+..++. ..+++|||||+-|+.|+...+..++.+
T Consensus 60 ~~~lR~YQ~eivq~AL-g------kNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~~ 132 (746)
T KOG0354|consen 60 NLELRNYQEELVQPAL-G------KNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIP 132 (746)
T ss_pred cccccHHHHHHhHHhh-c------CCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccCc
Confidence 4679999999998877 3 389999999999999999999999976 578999999999999999989888765
Q ss_pred ccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhcc------ccCCccEEEEeCCccc-cccchhhhh
Q 045263 587 MEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKV------EFSALRLAIVDEQQRF-GVVQRGRFN 659 (742)
Q Consensus 587 ~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v------~~~~l~LVIIDEaHrf-G~~qr~~l~ 659 (742)
.. ..+.+.|..+...+..+|.. .+|+|.||+.+...+ .++.+.++|||||||. |-.....+.
T Consensus 133 ~~------~T~~l~~~~~~~~r~~i~~s-----~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~kn~~Y~~Vm 201 (746)
T KOG0354|consen 133 YS------VTGQLGDTVPRSNRGEIVAS-----KRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSKNHPYNNIM 201 (746)
T ss_pred cc------ceeeccCccCCCchhhhhcc-----cceEEeChHhhhhhcccccccccceEEEEEEcccccccccccHHHHH
Confidence 32 33444554666666666543 699999999886522 2677999999999996 322333222
Q ss_pred hhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHH
Q 045263 660 SKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPR 700 (742)
Q Consensus 660 ~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPipr 700 (742)
... +. .. ....++|++||||--.
T Consensus 202 r~~-l~----------------~k-~~~~qILgLTASpG~~ 224 (746)
T KOG0354|consen 202 REY-LD----------------LK-NQGNQILGLTASPGSK 224 (746)
T ss_pred HHH-HH----------------hh-hccccEEEEecCCCcc
Confidence 111 00 01 1234899999999833
No 70
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.55 E-value=1.1e-14 Score=156.88 Aligned_cols=172 Identities=22% Similarity=0.305 Sum_probs=131.8
Q ss_pred HHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc----CCeEEEEcccHHHHHHHH
Q 045263 503 KLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS----GYQAAFMVPTELLATQHY 577 (742)
Q Consensus 503 ~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~----g~qvlilaPT~~La~Q~~ 577 (742)
+-+..-+|. +||+|++.|+-|++.. +++-.+-||||||.++++||++.+.. |.+++++.||++|+.|..
T Consensus 34 raI~kkg~~~ptpiqRKTipliLe~~------dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~qtl 107 (529)
T KOG0337|consen 34 RAIHKKGFNTPTPIQRKTIPLILEGR------DVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQTL 107 (529)
T ss_pred HHHHHhhcCCCCchhcccccceeecc------ccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHHHH
Confidence 334445664 9999999999999853 56788999999999999999999876 459999999999999999
Q ss_pred HHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccc--
Q 045263 578 EHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRF-- 650 (742)
Q Consensus 578 ~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrf-- 650 (742)
+.++++....+ .+..++.|+.+..++...+ ++..|||++||+.+.. .+.++.+.+||+||+++.
T Consensus 108 kvvkdlgrgt~-----lr~s~~~ggD~~eeqf~~l----~~npDii~ATpgr~~h~~vem~l~l~sveyVVfdEadrlfe 178 (529)
T KOG0337|consen 108 KVVKDLGRGTK-----LRQSLLVGGDSIEEQFILL----NENPDIIIATPGRLLHLGVEMTLTLSSVEYVVFDEADRLFE 178 (529)
T ss_pred HHHHHhccccc-----hhhhhhcccchHHHHHHHh----ccCCCEEEecCceeeeeehheeccccceeeeeehhhhHHHh
Confidence 99999887666 7888888877776665532 3457999999998844 456788999999999994
Q ss_pred -cccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHH-cCCCC
Q 045263 651 -GVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALAL-YGDMS 711 (742)
Q Consensus 651 -G~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l-~gdl~ 711 (742)
|+. +++.+.+ ..++...+.++|||| -|+.|.... .|..+
T Consensus 179 mgfq--eql~e~l-------------------~rl~~~~QTllfSat-lp~~lv~fakaGl~~ 219 (529)
T KOG0337|consen 179 MGFQ--EQLHEIL-------------------SRLPESRQTLLFSAT-LPRDLVDFAKAGLVP 219 (529)
T ss_pred hhhH--HHHHHHH-------------------HhCCCcceEEEEecc-CchhhHHHHHccCCC
Confidence 332 3333332 112345589999999 588876665 35433
No 71
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=99.55 E-value=1.4e-14 Score=170.54 Aligned_cols=163 Identities=24% Similarity=0.338 Sum_probs=130.0
Q ss_pred HHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--------CCeEEEEcccHHHHH
Q 045263 504 LLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--------GYQAAFMVPTELLAT 574 (742)
Q Consensus 504 ~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--------g~qvlilaPT~~La~ 574 (742)
.++.++|. +|++|.+||+.|+.+. ++|.+|-||||||+.|++|++.++.. |.-++||+||++|+.
T Consensus 379 tlkkl~y~k~~~IQ~qAiP~ImsGr------dvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtrela~ 452 (997)
T KOG0334|consen 379 TLKKLGYEKPTPIQAQAIPAIMSGR------DVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRELAM 452 (997)
T ss_pred HHHHhcCCCCcchhhhhcchhccCc------ceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHHHHH
Confidence 34889997 9999999999999863 88999999999999999999988754 678999999999999
Q ss_pred HHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhcc--------ccCCccEEEEeC
Q 045263 575 QHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKV--------EFSALRLAIVDE 646 (742)
Q Consensus 575 Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v--------~~~~l~LVIIDE 646 (742)
|+++.+..+...++ +++..+.|+...++... .++.| +.|+|+||+++.+.+ .+.+..++|+||
T Consensus 453 QI~r~~~kf~k~l~-----ir~v~vygg~~~~~qia---elkRg-~eIvV~tpGRmiD~l~~n~grvtnlrR~t~lv~de 523 (997)
T KOG0334|consen 453 QIHREVRKFLKLLG-----IRVVCVYGGSGISQQIA---ELKRG-AEIVVCTPGRMIDILCANSGRVTNLRRVTYLVLDE 523 (997)
T ss_pred HHHHHHHHHHhhcC-----ceEEEecCCccHHHHHH---HHhcC-CceEEeccchhhhhHhhcCCccccccccceeeech
Confidence 99999999998887 89999999987765543 57788 999999999986622 344455999999
Q ss_pred Cccc---cccchh-hhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHH
Q 045263 647 QQRF---GVVQRG-RFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLAL 704 (742)
Q Consensus 647 aHrf---G~~qr~-~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~ 704 (742)
+||+ |++... .+... +....|++++||| -||.+.-
T Consensus 524 aDrmfdmgfePq~~~Ii~n----------------------lrpdrQtvlfSat-fpr~m~~ 562 (997)
T KOG0334|consen 524 ADRMFDMGFEPQITRILQN----------------------LRPDRQTVLFSAT-FPRSMEA 562 (997)
T ss_pred hhhhheeccCcccchHHhh----------------------cchhhhhhhhhhh-hhHHHHH
Confidence 9996 444332 22221 1234688999999 5776433
No 72
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=99.55 E-value=8.2e-14 Score=128.65 Aligned_cols=136 Identities=33% Similarity=0.462 Sum_probs=101.2
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHh--cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIG--SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMI 611 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~--~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i 611 (742)
+.++.++||+|||.+++..+..... ...++++++|+..|+.|+.+.+.+.... + ..+..+++.........
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~-~-----~~~~~~~~~~~~~~~~~- 74 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGE-G-----IKVGYLIGGTSIKQQEK- 74 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhC-C-----cEEEEEecCcchhHHHH-
Confidence 5799999999999999999988876 4579999999999999999999988764 3 67888888766554432
Q ss_pred HHHhhcCCccEEEechHHHhhccc-----cCCccEEEEeCCccccccchhhhhhhhhccccccccccccCCCCCCCCCCC
Q 045263 612 RKDLQTGDITLVIGTHSLIAEKVE-----FSALRLAIVDEQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHM 686 (742)
Q Consensus 612 ~~~l~~G~~~IVVgT~~~l~~~v~-----~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~ 686 (742)
......+|+++|++.+..... ....+++||||+|.+...+........ . .....
T Consensus 75 ---~~~~~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~~~~~~~~~-~-----------------~~~~~ 133 (144)
T cd00046 75 ---LLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGFGLLGLKI-L-----------------LKLPK 133 (144)
T ss_pred ---HhcCCCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcchHHHHHHH-H-----------------hhCCc
Confidence 234568999999997755332 347899999999998665544321000 0 00113
Q ss_pred CCcEEEEcCCC
Q 045263 687 APHVLAMSATP 697 (742)
Q Consensus 687 ~p~vL~mSATP 697 (742)
.+.++++||||
T Consensus 134 ~~~~i~~saTp 144 (144)
T cd00046 134 DRQVLLLSATP 144 (144)
T ss_pred cceEEEEeccC
Confidence 56799999998
No 73
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.54 E-value=2.6e-15 Score=156.63 Aligned_cols=178 Identities=23% Similarity=0.260 Sum_probs=135.9
Q ss_pred hCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---CCeEEEEcccHHHHHHHHHHHHH
Q 045263 507 ALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---GYQAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 507 ~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---g~qvlilaPT~~La~Q~~~~l~~ 582 (742)
..+|+ |+|+|.++|+-++.+. +.|..+..|+|||.+|..|+++.+.. ..|+++++||++||-|..+..+.
T Consensus 102 e~G~ekPSPiQeesIPiaLtGr------diLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrelALQtSqvc~~ 175 (459)
T KOG0326|consen 102 EKGFEKPSPIQEESIPIALTGR------DILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTRELALQTSQVCKE 175 (459)
T ss_pred HhccCCCCCccccccceeecch------hhhhhccCCCCCccceechhhhhcCccccceeEEEEeecchhhHHHHHHHHH
Confidence 34666 9999999999888752 77999999999999999999999865 36999999999999999999999
Q ss_pred hhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccccccchhh
Q 045263 583 LLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFGVVQRGR 657 (742)
Q Consensus 583 ~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG~~qr~~ 657 (742)
+.+.++ ++|.+.+|+++....- + ++ ++.++++||||+++.+ ...+++..++|+|||+.+.......
T Consensus 176 lskh~~-----i~vmvttGGT~lrDDI--~-Rl-~~~VH~~vgTPGRIlDL~~KgVa~ls~c~~lV~DEADKlLs~~F~~ 246 (459)
T KOG0326|consen 176 LSKHLG-----IKVMVTTGGTSLRDDI--M-RL-NQTVHLVVGTPGRILDLAKKGVADLSDCVILVMDEADKLLSVDFQP 246 (459)
T ss_pred HhcccC-----eEEEEecCCcccccce--e-ee-cCceEEEEcCChhHHHHHhcccccchhceEEEechhhhhhchhhhh
Confidence 988888 8999999998764332 2 22 3458999999999976 3357888999999999985544444
Q ss_pred hhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHH----cCCCCeeeeccC
Q 045263 658 FNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALAL----YGDMSLTQITDL 718 (742)
Q Consensus 658 l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l----~gdl~~s~I~e~ 718 (742)
..+++. ..++...++|++||| .|-+..... ..-+.+.-.+|+
T Consensus 247 ~~e~li------------------~~lP~~rQillySAT-FP~tVk~Fm~~~l~kPy~INLM~eL 292 (459)
T KOG0326|consen 247 IVEKLI------------------SFLPKERQILLYSAT-FPLTVKGFMDRHLKKPYEINLMEEL 292 (459)
T ss_pred HHHHHH------------------HhCCccceeeEEecc-cchhHHHHHHHhccCcceeehhhhh
Confidence 444321 234567899999999 455544433 334555555554
No 74
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.52 E-value=4.8e-14 Score=156.43 Aligned_cols=189 Identities=22% Similarity=0.283 Sum_probs=138.6
Q ss_pred HHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH-HhcCCeEEEEcccHHHHHHHH
Q 045263 500 LTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV-IGSGYQAAFMVPTELLATQHY 577 (742)
Q Consensus 500 l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~-l~~g~qvlilaPT~~La~Q~~ 577 (742)
-.+.+++..+++ |.|.|..|++.-+ -.+. |.++..+|+||||+++-++=+.. +..|.+.+|++|..+||+|-|
T Consensus 204 ~fk~~lk~~G~~eLlPVQ~laVe~GL---LeG~--nllVVSaTasGKTLIgElAGi~~~l~~g~KmlfLvPLVALANQKy 278 (830)
T COG1202 204 KFKRMLKREGIEELLPVQVLAVEAGL---LEGE--NLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKY 278 (830)
T ss_pred HHHHHHHhcCcceecchhhhhhhhcc---ccCC--ceEEEeccCCCcchHHHhhCcHHHHhCCCeEEEEehhHHhhcchH
Confidence 356667778886 9999999987643 3333 88999999999999998775554 455899999999999999999
Q ss_pred HHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH----hhccccCCccEEEEeCCcccccc
Q 045263 578 EHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI----AEKVEFSALRLAIVDEQQRFGVV 653 (742)
Q Consensus 578 ~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l----~~~v~~~~l~LVIIDEaHrfG~~ 653 (742)
+.|++...+++ +++++-.|....+.+......-..-++||||||.+-+ .....+.++|.|||||.|....+
T Consensus 279 ~dF~~rYs~Lg-----lkvairVG~srIk~~~~pv~~~t~~dADIIVGTYEGiD~lLRtg~~lgdiGtVVIDEiHtL~de 353 (830)
T COG1202 279 EDFKERYSKLG-----LKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLLRTGKDLGDIGTVVIDEIHTLEDE 353 (830)
T ss_pred HHHHHHhhccc-----ceEEEEechhhhcccCCccccCCCCCCcEEEeechhHHHHHHcCCcccccceEEeeeeeeccch
Confidence 99999988888 7888877765544443211111234689999998755 33467889999999999998665
Q ss_pred chh----hhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcCCCCeeeeccCC
Q 045263 654 QRG----RFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYGDMSLTQITDLP 719 (742)
Q Consensus 654 qr~----~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~gdl~~s~I~e~P 719 (742)
.|+ .+...+ ..+.+..|++++||| -+|..+|..+...+ ..-++.|
T Consensus 354 ERG~RLdGLI~RL-------------------r~l~~~AQ~i~LSATVgNp~elA~~l~a~l--V~y~~RP 403 (830)
T COG1202 354 ERGPRLDGLIGRL-------------------RYLFPGAQFIYLSATVGNPEELAKKLGAKL--VLYDERP 403 (830)
T ss_pred hcccchhhHHHHH-------------------HHhCCCCeEEEEEeecCChHHHHHHhCCee--EeecCCC
Confidence 553 111111 112345799999999 88999998876544 4445544
No 75
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=99.48 E-value=2.4e-14 Score=152.45 Aligned_cols=192 Identities=18% Similarity=0.219 Sum_probs=136.2
Q ss_pred cccCchHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-----------CC
Q 045263 493 YMEGWSSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-----------GY 561 (742)
Q Consensus 493 ~~~~~~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-----------g~ 561 (742)
.+.....+++-+.+.-=-.+||+|.+-++.++.+. +.+-.+-||||||++|.+|+...... |.
T Consensus 174 eMKFP~~~L~~lk~KGI~~PTpIQvQGlPvvLsGR------DmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP 247 (610)
T KOG0341|consen 174 EMKFPKPLLRGLKKKGIVHPTPIQVQGLPVVLSGR------DMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGP 247 (610)
T ss_pred hccCCHHHHHHHHhcCCCCCCceeecCcceEeecC------ceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCC
Confidence 33344556555555333459999999999999753 56888999999999999997655432 67
Q ss_pred eEEEEcccHHHHHHHHHHHHHhhhhccCCC-CCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccc
Q 045263 562 QAAFMVPTELLATQHYEHLLKLLDNMEEDK-HKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVE 635 (742)
Q Consensus 562 qvlilaPT~~La~Q~~~~l~~~l~~~~~~~-~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~ 635 (742)
-.||++|+++||.|.++.+..++..+.... +.++..++.|+.+..+.... ++.| ++|+|+||+++.+ .+.
T Consensus 248 ~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~eql~~---v~~G-vHivVATPGRL~DmL~KK~~s 323 (610)
T KOG0341|consen 248 YGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQLDV---VRRG-VHIVVATPGRLMDMLAKKIMS 323 (610)
T ss_pred eeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHHHHHH---HhcC-eeEEEcCcchHHHHHHHhhcc
Confidence 899999999999999999998887654222 23678899999998777654 5566 9999999999976 345
Q ss_pred cCCccEEEEeCCccc---cccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHH-cCCCC
Q 045263 636 FSALRLAIVDEQQRF---GVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALAL-YGDMS 711 (742)
Q Consensus 636 ~~~l~LVIIDEaHrf---G~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l-~gdl~ 711 (742)
+.-..++.+|||+|+ |++..- ...+++ +....+.|++|||. |+...... .....
T Consensus 324 Ld~CRyL~lDEADRmiDmGFEddi--r~iF~~-------------------FK~QRQTLLFSATM-P~KIQ~FAkSALVK 381 (610)
T KOG0341|consen 324 LDACRYLTLDEADRMIDMGFEDDI--RTIFSF-------------------FKGQRQTLLFSATM-PKKIQNFAKSALVK 381 (610)
T ss_pred HHHHHHhhhhhHHHHhhccchhhH--HHHHHH-------------------Hhhhhheeeeeccc-cHHHHHHHHhhccc
Confidence 666789999999996 665532 111111 11245899999994 55544443 33344
Q ss_pred eeeec
Q 045263 712 LTQIT 716 (742)
Q Consensus 712 ~s~I~ 716 (742)
..+++
T Consensus 382 PvtvN 386 (610)
T KOG0341|consen 382 PVTVN 386 (610)
T ss_pred ceEEe
Confidence 44443
No 76
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.47 E-value=2.5e-13 Score=167.52 Aligned_cols=129 Identities=17% Similarity=0.140 Sum_probs=91.5
Q ss_pred CCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHHHHHHHHhhhhc
Q 045263 510 YSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQHYEHLLKLLDNM 587 (742)
Q Consensus 510 f~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~~~~l~~~l~~~ 587 (742)
+.|+++|.+||+.+.+.+..+. .+.||+++||||||.+++..+...+.. ..++||++|+.+|+.|+.+.|..+....
T Consensus 412 ~~lR~YQ~~AI~ai~~a~~~g~-r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~ 490 (1123)
T PRK11448 412 LGLRYYQEDAIQAVEKAIVEGQ-REILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEG 490 (1123)
T ss_pred CCCCHHHHHHHHHHHHHHHhcc-CCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhccccc
Confidence 5799999999999987765432 468999999999999988777776654 3799999999999999999998863211
Q ss_pred cCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhc----------cccCCccEEEEeCCccc
Q 045263 588 EEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEK----------VEFSALRLAIVDEQQRF 650 (742)
Q Consensus 588 ~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~----------v~~~~l~LVIIDEaHrf 650 (742)
. ..+.-+.+..... ......+..|+|+|...+... ..+..+++||||||||.
T Consensus 491 ~-----~~~~~i~~i~~L~------~~~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs 552 (1123)
T PRK11448 491 D-----QTFASIYDIKGLE------DKFPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRG 552 (1123)
T ss_pred c-----cchhhhhchhhhh------hhcccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCC
Confidence 1 1111111111000 111234578999999876331 34677899999999995
No 77
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.47 E-value=5.4e-13 Score=157.01 Aligned_cols=186 Identities=21% Similarity=0.213 Sum_probs=113.7
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHH---------HHHHHHHHH---h---cCCeEEEEcccHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVV---------AFLACMEVI---G---SGYQAAFMVPTELLATQH 576 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~v---------al~ail~~l---~---~g~qvlilaPT~~La~Q~ 576 (742)
|++.|.++=.+++..+..+ .+++++|+||||||.+ |+++.+..+ . .+.++++++||++||.|+
T Consensus 161 l~~~~~~iQ~qil~~i~~g--kdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi 238 (675)
T PHA02653 161 LASLQPDVQLKIFEAWISR--KPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLH 238 (675)
T ss_pred CCchhHHHHHHHHHHHHhC--CCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHH
Confidence 5655444444444433333 3899999999999987 333333333 2 256999999999999999
Q ss_pred HHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccchh
Q 045263 577 YEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRG 656 (742)
Q Consensus 577 ~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~ 656 (742)
..++.+.+.... ..+.++.+..|+.+...... .....+|+|+|+... ...++++++|||||+|++......
T Consensus 239 ~~~i~~~vg~~~--~~g~~v~v~~Gg~~~~~~~t-----~~k~~~Ilv~T~~L~--l~~L~~v~~VVIDEaHEr~~~~Dl 309 (675)
T PHA02653 239 SITLLKSLGFDE--IDGSPISLKYGSIPDELINT-----NPKPYGLVFSTHKLT--LNKLFDYGTVIIDEVHEHDQIGDI 309 (675)
T ss_pred HHHHHHHhCccc--cCCceEEEEECCcchHHhhc-----ccCCCCEEEEeCccc--ccccccCCEEEccccccCccchhH
Confidence 999987664311 11267888899887322111 111358999998742 235789999999999997544321
Q ss_pred hhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHH--HHHHHHcCCCCeeeeccCCCCC--CCcEEEEEcC
Q 045263 657 RFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPR--TLALALYGDMSLTQITDLPPGR--IPIKTYIIEG 732 (742)
Q Consensus 657 ~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPipr--tla~~l~gdl~~s~I~e~P~gr--~~i~t~~~~~ 732 (742)
+..-... ......++++||||...+ .+.. ..++.....+ | || .||+.+++..
T Consensus 310 -lL~llk~------------------~~~~~rq~ILmSATl~~dv~~l~~-~~~~p~~I~I---~-grt~~pV~~~yi~~ 365 (675)
T PHA02653 310 -IIAVARK------------------HIDKIRSLFLMTATLEDDRDRIKE-FFPNPAFVHI---P-GGTLFPISEVYVKN 365 (675)
T ss_pred -HHHHHHH------------------hhhhcCEEEEEccCCcHhHHHHHH-HhcCCcEEEe---C-CCcCCCeEEEEeec
Confidence 1111000 000124799999997443 3332 2344444443 2 44 5788777643
No 78
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.46 E-value=1.5e-13 Score=147.25 Aligned_cols=167 Identities=22% Similarity=0.284 Sum_probs=120.8
Q ss_pred HHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---------CCeEEEEcccHHHHH
Q 045263 505 LRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---------GYQAAFMVPTELLAT 574 (742)
Q Consensus 505 ~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---------g~qvlilaPT~~La~ 574 (742)
+...+|+ |||+|.+|.+-++++. +.+..+.||+|||+.|++|-+..+.. +..+|+++||++||.
T Consensus 235 IkK~GFqKPtPIqSQaWPI~LQG~------DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLal 308 (629)
T KOG0336|consen 235 IKKTGFQKPTPIQSQAWPILLQGI------DLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELAL 308 (629)
T ss_pred HHhccCCCCCcchhcccceeecCc------ceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHH
Confidence 4567887 9999999999999864 77999999999999999997666543 578999999999999
Q ss_pred HHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCcc
Q 045263 575 QHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQR 649 (742)
Q Consensus 575 Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHr 649 (742)
|+.-+..++--. + -..+.++.|+....+ .+.++.| .+|+|+||++|.+ .+.+.++.++|+|||++
T Consensus 309 qie~e~~kysyn-g----~ksvc~ygggnR~eq----ie~lkrg-veiiiatPgrlndL~~~n~i~l~siTYlVlDEADr 378 (629)
T KOG0336|consen 309 QIEGEVKKYSYN-G----LKSVCVYGGGNRNEQ----IEDLKRG-VEIIIATPGRLNDLQMDNVINLASITYLVLDEADR 378 (629)
T ss_pred HHHhHHhHhhhc-C----cceEEEecCCCchhH----HHHHhcC-ceEEeeCCchHhhhhhcCeeeeeeeEEEEecchhh
Confidence 999888776422 2 135555555544333 3345566 8999999999965 56788899999999999
Q ss_pred c---cccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC--CCHHHHHHHHcC
Q 045263 650 F---GVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT--PIPRTLALALYG 708 (742)
Q Consensus 650 f---G~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT--Piprtla~~l~g 708 (742)
| |++.. +...++ ......++++.||| +..|-|+....+
T Consensus 379 MLDMgFEpq--Irkill-------------------diRPDRqtvmTSATWP~~VrrLa~sY~K 421 (629)
T KOG0336|consen 379 MLDMGFEPQ--IRKILL-------------------DIRPDRQTVMTSATWPEGVRRLAQSYLK 421 (629)
T ss_pred hhcccccHH--HHHHhh-------------------hcCCcceeeeecccCchHHHHHHHHhhh
Confidence 6 55432 222111 01135688999999 334555555433
No 79
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.46 E-value=3.3e-13 Score=159.91 Aligned_cols=126 Identities=17% Similarity=0.250 Sum_probs=107.4
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhc
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNM 587 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~ 587 (742)
.||.+||+|.+++..+..+ .+++.+++||+|||++|++|++..+..|..+++++||++||.|..+.+..+...+
T Consensus 89 ~p~~~tp~qvQ~I~~i~l~------~gvIAeaqTGeGKTLAf~LP~l~~aL~g~~v~IVTpTrELA~Qdae~m~~L~k~l 162 (970)
T PRK12899 89 QQWDMVPYDVQILGAIAMH------KGFITEMQTGEGKTLTAVMPLYLNALTGKPVHLVTVNDYLAQRDCEWVGSVLRWL 162 (970)
T ss_pred CCCCCChHHHHHhhhhhcC------CCeEEEeCCCCChHHHHHHHHHHHHhhcCCeEEEeCCHHHHHHHHHHHHHHHhhc
Confidence 4667899999999998875 2679999999999999999999888778889999999999999999999998888
Q ss_pred cCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-hhcc-----ccC-------CccEEEEeCCccc
Q 045263 588 EEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-AEKV-----EFS-------ALRLAIVDEQQRF 650 (742)
Q Consensus 588 ~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-~~~v-----~~~-------~l~LVIIDEaHrf 650 (742)
+ +++..+.|+.+..++...+ .++|+||||+.+ .+.+ .++ .+.++||||+|++
T Consensus 163 G-----LsV~~i~GG~~~~eq~~~y------~~DIVygTPgRLgfDyLrd~~~~~~~~~~vqr~~~~~IIDEADsm 227 (970)
T PRK12899 163 G-----LTTGVLVSGSPLEKRKEIY------QCDVVYGTASEFGFDYLRDNSIATRKEEQVGRGFYFAIIDEVDSI 227 (970)
T ss_pred C-----CeEEEEeCCCCHHHHHHHc------CCCEEEECCChhHHHHhhCCCCCcCHHHhhcccccEEEEechhhh
Confidence 7 8999999999887765432 389999999998 5522 222 4579999999996
No 80
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.45 E-value=7.6e-13 Score=156.95 Aligned_cols=133 Identities=17% Similarity=0.160 Sum_probs=111.2
Q ss_pred HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHH
Q 045263 500 LTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEH 579 (742)
Q Consensus 500 l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~ 579 (742)
..+...+.++..+++.|..++..+.+ ..+.++.||+|||++|++|++.....|.++++++||+.||.|+++.
T Consensus 67 vrea~~R~~g~~p~~vQl~~~~~l~~--------G~Iaem~TGeGKTL~a~lp~~l~al~G~~v~VvTpt~~LA~qd~e~ 138 (790)
T PRK09200 67 VREAAKRVLGMRPYDVQLIGALVLHE--------GNIAEMQTGEGKTLTATMPLYLNALEGKGVHLITVNDYLAKRDAEE 138 (790)
T ss_pred HHHHHHHHhCCCCchHHHHhHHHHcC--------CceeeecCCCcchHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHH
Confidence 34445567888899999888776654 2399999999999999999998888999999999999999999999
Q ss_pred HHHhhhhccCCCCCcEEEEEeCCCC-hHHHHHHHHHhhcCCccEEEechHHH-----hhc-------cccCCccEEEEeC
Q 045263 580 LLKLLDNMEEDKHKPKIALLTGSTP-VKQSRMIRKDLQTGDITLVIGTHSLI-----AEK-------VEFSALRLAIVDE 646 (742)
Q Consensus 580 l~~~l~~~~~~~~~i~V~ll~G~~~-~~er~~i~~~l~~G~~~IVVgT~~~l-----~~~-------v~~~~l~LVIIDE 646 (742)
+..++..+| ++++++.|+.+ ..+++..+ .++|++|||+.+ .+. .....+.++||||
T Consensus 139 ~~~l~~~lG-----l~v~~i~g~~~~~~~r~~~y------~~dIvygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDE 207 (790)
T PRK09200 139 MGQVYEFLG-----LTVGLNFSDIDDASEKKAIY------EADIIYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDE 207 (790)
T ss_pred HHHHHhhcC-----CeEEEEeCCCCcHHHHHHhc------CCCEEEECCccccchhHHhccccchhhhcccccceEEEec
Confidence 999999988 99999999998 76666432 389999999887 222 1346789999999
Q ss_pred Ccccc
Q 045263 647 QQRFG 651 (742)
Q Consensus 647 aHrfG 651 (742)
+|++.
T Consensus 208 aDsiL 212 (790)
T PRK09200 208 IDSIL 212 (790)
T ss_pred cccce
Confidence 99963
No 81
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=99.45 E-value=1.3e-13 Score=147.77 Aligned_cols=169 Identities=21% Similarity=0.240 Sum_probs=129.5
Q ss_pred HhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---CCeEEEEcccHHHHHHHHHHHH
Q 045263 506 RALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---GYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 506 ~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---g~qvlilaPT~~La~Q~~~~l~ 581 (742)
-.++|+ |+.+|++||..+.++. ++..++++|+|||.++..+++..+.- ..|+++++||++||.|..+...
T Consensus 42 y~yGFekPSaIQqraI~p~i~G~------dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtreLa~qi~~v~~ 115 (397)
T KOG0327|consen 42 YAYGFEKPSAIQQRAILPCIKGH------DVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQKVVR 115 (397)
T ss_pred HhhccCCchHHHhccccccccCC------ceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHHHHHHHHHHHH
Confidence 457887 9999999999999874 88999999999999999999988754 4799999999999999999888
Q ss_pred HhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhcc-----ccCCccEEEEeCCccccc-cch
Q 045263 582 KLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKV-----EFSALRLAIVDEQQRFGV-VQR 655 (742)
Q Consensus 582 ~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v-----~~~~l~LVIIDEaHrfG~-~qr 655 (742)
.+....+ +++..+.|+......... +..-.++|+||||+++.+.+ ..+.+.+.|+||++.+-. .-+
T Consensus 116 ~lg~~~~-----~~v~~~igg~~~~~~~~~---i~~~~~hivvGTpgrV~dml~~~~l~~~~iKmfvlDEaDEmLs~gfk 187 (397)
T KOG0327|consen 116 ALGDHMD-----VSVHACIGGTNVRREDQA---LLKDKPHIVVGTPGRVFDMLNRGSLSTDGIKMFVLDEADEMLSRGFK 187 (397)
T ss_pred hhhcccc-----eeeeeecCcccchhhhhh---hhccCceeecCCchhHHHhhccccccccceeEEeecchHhhhccchH
Confidence 8887766 788888888765533332 23334799999999997644 566789999999998732 223
Q ss_pred hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHc
Q 045263 656 GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALY 707 (742)
Q Consensus 656 ~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~ 707 (742)
+.+..-. ...+...+++++|||-.+..+..+..
T Consensus 188 dqI~~if-------------------~~lp~~vQv~l~SAT~p~~vl~vt~~ 220 (397)
T KOG0327|consen 188 DQIYDIF-------------------QELPSDVQVVLLSATMPSDVLEVTKK 220 (397)
T ss_pred HHHHHHH-------------------HHcCcchhheeecccCcHHHHHHHHH
Confidence 3333322 12334678999999966666666543
No 82
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.45 E-value=1.5e-13 Score=139.73 Aligned_cols=129 Identities=24% Similarity=0.314 Sum_probs=111.1
Q ss_pred CCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--C-CeEEEEcccHHHHHHHHHHHHHh
Q 045263 508 LPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--G-YQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 508 lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--g-~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
-+|+ |++.|.++|+...-+ |++|.|+..|-|||.||.++.++.++. | ..+++|++|++||-|+.+++.++
T Consensus 60 cgfehpsevqhecipqailg------mdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~~ey~rf 133 (387)
T KOG0329|consen 60 CGFEHPSEVQHECIPQAILG------MDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQISKEYERF 133 (387)
T ss_pred ccCCCchHhhhhhhhHHhhc------chhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHHHHHHHHHHHHH
Confidence 4787 999999999998875 589999999999999999999998876 3 46899999999999998888877
Q ss_pred hhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccc
Q 045263 584 LDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 584 l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrf 650 (742)
.+.++. ++++++.|++..+...+.+. + -++|+||||+++.. .+.++++...|+|||+.+
T Consensus 134 skymP~----vkvaVFfGG~~Ikkdee~lk---~-~PhivVgTPGrilALvr~k~l~lk~vkhFvlDEcdkm 197 (387)
T KOG0329|consen 134 SKYMPS----VKVSVFFGGLFIKKDEELLK---N-CPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDKM 197 (387)
T ss_pred HhhCCC----ceEEEEEcceeccccHHHHh---C-CCeEEEcCcHHHHHHHHhccCchhhcceeehhhHHHH
Confidence 776653 89999999999887776543 4 58999999998843 667889999999999987
No 83
>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=99.44 E-value=8.1e-13 Score=145.16 Aligned_cols=146 Identities=22% Similarity=0.193 Sum_probs=95.7
Q ss_pred eEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHH-----
Q 045263 535 RLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQ----- 607 (742)
Q Consensus 535 ~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~e----- 607 (742)
++++||||||||.+|+.+++..+.+ +.++++++|+++|+.|+++++..++.. .+.+++|+.....
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~~--------~~~~~~~~~~~~~~~~~~ 73 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFGS--------NLGLLHSSSSFKRIKEMG 73 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhCc--------ccEEeeccHHHHHHhccC
Confidence 6899999999999999999988754 579999999999999999999998742 3556666543110
Q ss_pred ----HHHHHHHhhc-----CCccEEEechHHHhhccc--c-------C--CccEEEEeCCccccccchhhhhhhhhcccc
Q 045263 608 ----SRMIRKDLQT-----GDITLVIGTHSLIAEKVE--F-------S--ALRLAIVDEQQRFGVVQRGRFNSKLYYTSM 667 (742)
Q Consensus 608 ----r~~i~~~l~~-----G~~~IVVgT~~~l~~~v~--~-------~--~l~LVIIDEaHrfG~~qr~~l~~k~~~~~~ 667 (742)
....+..... -..+|+|+||+.+...+. + . ...+||+||+|.+.......+.......
T Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~~~~~l~~~l~~l-- 151 (358)
T TIGR01587 74 DSEEFEHLFPLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEYTLALILAVLEVL-- 151 (358)
T ss_pred CchhHHHHHHHHhhchhhhhhCCeeeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHHHHHHHHHHHHHH--
Confidence 0111111111 135799999998744221 1 1 2378999999998754443332211000
Q ss_pred ccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHc
Q 045263 668 SSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALY 707 (742)
Q Consensus 668 ~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~ 707 (742)
. ...+++++||||+ |+.+.....
T Consensus 152 --------------~--~~~~~~i~~SATl-p~~l~~~~~ 174 (358)
T TIGR01587 152 --------------K--DNDVPILLMSATL-PKFLKEYAE 174 (358)
T ss_pred --------------H--HcCCCEEEEecCc-hHHHHHHHh
Confidence 0 1246799999996 555554443
No 84
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.43 E-value=1.3e-12 Score=149.63 Aligned_cols=173 Identities=17% Similarity=0.239 Sum_probs=140.6
Q ss_pred HHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHH
Q 045263 501 TKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEH 579 (742)
Q Consensus 501 ~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~ 579 (742)
...+.+-++|+ +++.|+++|+.++.+ ++.++..|||.||+++|.+|++.. .| -+|++.|-.+|...+.+.
T Consensus 6 ~~~L~~~fGy~~FR~gQ~evI~~~l~g------~d~lvvmPTGgGKSlCyQiPAll~--~G-~TLVVSPLiSLM~DQV~~ 76 (590)
T COG0514 6 QQVLKQVFGYASFRPGQQEIIDALLSG------KDTLVVMPTGGGKSLCYQIPALLL--EG-LTLVVSPLISLMKDQVDQ 76 (590)
T ss_pred HHHHHHHhCccccCCCHHHHHHHHHcC------CcEEEEccCCCCcchHhhhHHHhc--CC-CEEEECchHHHHHHHHHH
Confidence 34567778997 999999999999985 488999999999999999999843 45 699999999999999998
Q ss_pred HHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCcc---cc
Q 045263 580 LLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQR---FG 651 (742)
Q Consensus 580 l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHr---fG 651 (742)
++.. | +.++.+.+..+..++..++..+..|..+++.-+|+++.. .+.--.+.+++|||||. +|
T Consensus 77 l~~~----G-----i~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisPErl~~~~f~~~L~~~~i~l~vIDEAHCiSqWG 147 (590)
T COG0514 77 LEAA----G-----IRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSPRFLELLKRLPISLVAIDEAHCISQWG 147 (590)
T ss_pred HHHc----C-----ceeehhhcccCHHHHHHHHHHHhcCceeEEEECchhhcChHHHHHHHhCCCceEEechHHHHhhcC
Confidence 8874 3 789999999999999999999999999999999998843 44456788999999997 46
Q ss_pred ccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcC
Q 045263 652 VVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYG 708 (742)
Q Consensus 652 ~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~g 708 (742)
..-|..+..-... +..++ .+.++++|||..|++...+...
T Consensus 148 hdFRP~Y~~lg~l----------------~~~~~-~~p~~AlTATA~~~v~~DI~~~ 187 (590)
T COG0514 148 HDFRPDYRRLGRL----------------RAGLP-NPPVLALTATATPRVRDDIREQ 187 (590)
T ss_pred CccCHhHHHHHHH----------------HhhCC-CCCEEEEeCCCChHHHHHHHHH
Confidence 5556544432211 12233 4569999999999998888653
No 85
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.43 E-value=1.3e-12 Score=157.11 Aligned_cols=175 Identities=19% Similarity=0.180 Sum_probs=116.5
Q ss_pred HHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhh-hccCCCCCcEEE
Q 045263 519 AISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLD-NMEEDKHKPKIA 597 (742)
Q Consensus 519 aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~-~~~~~~~~i~V~ 597 (742)
+.++|++.+.+. .+++++|+||||||.++..++++....+.+++++.||+++|.|+++++.+.+. ..+ ..|+
T Consensus 9 ~~~~i~~~l~~~--~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPrR~aA~qia~rva~~l~~~~g-----~~VG 81 (812)
T PRK11664 9 VLPELLTALKTA--PQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPRRLAARNVAQRLAEQLGEKPG-----ETVG 81 (812)
T ss_pred HHHHHHHHHHhC--CCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECChHHHHHHHHHHHHHHhCcccC-----ceEE
Confidence 345555555443 37999999999999999999887654456999999999999999999876553 233 5677
Q ss_pred EEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCccccccchhh--hhhhhhcccccccc
Q 045263 598 LLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQRFGVVQRGR--FNSKLYYTSMSSGM 671 (742)
Q Consensus 598 ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHrfG~~qr~~--l~~k~~~~~~~~~~ 671 (742)
...+..+.. +...+|+|+|++.+.+ ...++++++|||||+|..+...... +.....
T Consensus 82 y~vr~~~~~----------~~~t~I~v~T~G~Llr~l~~d~~L~~v~~IIlDEaHER~l~~Dl~L~ll~~i~-------- 143 (812)
T PRK11664 82 YRMRAESKV----------GPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLALALLLDVQ-------- 143 (812)
T ss_pred EEecCcccc----------CCCCcEEEEChhHHHHHHhhCCCcCcCcEEEEcCCCccccccchHHHHHHHHH--------
Confidence 666554321 1235799999998854 4468899999999999866544321 111100
Q ss_pred ccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCC-CCcEEEEEcCC
Q 045263 672 AMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGR-IPIKTYIIEGN 733 (742)
Q Consensus 672 ~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr-~~i~t~~~~~~ 733 (742)
.......++++||||.....+... .++..+..+ .|| .||+++++...
T Consensus 144 ----------~~lr~~lqlilmSATl~~~~l~~~-~~~~~~I~~----~gr~~pV~~~y~~~~ 191 (812)
T PRK11664 144 ----------QGLRDDLKLLIMSATLDNDRLQQL-LPDAPVIVS----EGRSFPVERRYQPLP 191 (812)
T ss_pred ----------HhCCccceEEEEecCCCHHHHHHh-cCCCCEEEe----cCccccceEEeccCc
Confidence 011134689999999766655433 333333222 244 47888876543
No 86
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=99.43 E-value=6.9e-13 Score=150.75 Aligned_cols=180 Identities=22% Similarity=0.287 Sum_probs=142.9
Q ss_pred HhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 506 RALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 506 ~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
+.+||+|.|.|..||.-|-.+ ..+|+.|-|.+|||+||-+|+...+.+..+|++-.|-++|.+|-|++|..-|+
T Consensus 124 k~YPF~LDpFQ~~aI~Cidr~------eSVLVSAHTSAGKTVVAeYAIA~sLr~kQRVIYTSPIKALSNQKYREl~~EF~ 197 (1041)
T KOG0948|consen 124 KTYPFTLDPFQSTAIKCIDRG------ESVLVSAHTSAGKTVVAEYAIAMSLREKQRVIYTSPIKALSNQKYRELLEEFK 197 (1041)
T ss_pred cCCCcccCchHhhhhhhhcCC------ceEEEEeecCCCcchHHHHHHHHHHHhcCeEEeeChhhhhcchhHHHHHHHhc
Confidence 578999999999999877653 37899999999999999999999999999999999999999999999988774
Q ss_pred hccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCccccccchhhhhh
Q 045263 586 NMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFGVVQRGRFNS 660 (742)
Q Consensus 586 ~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG~~qr~~l~~ 660 (742)
.|++.||+.+. +-.+..+|.|.+.|.. .-.++.+++||+||.|.|-.+.|+-.|+
T Consensus 198 ---------DVGLMTGDVTI-----------nP~ASCLVMTTEILRsMLYRGSEvmrEVaWVIFDEIHYMRDkERGVVWE 257 (1041)
T KOG0948|consen 198 ---------DVGLMTGDVTI-----------NPDASCLVMTTEILRSMLYRGSEVMREVAWVIFDEIHYMRDKERGVVWE 257 (1041)
T ss_pred ---------ccceeecceee-----------CCCCceeeeHHHHHHHHHhccchHhheeeeEEeeeehhccccccceeee
Confidence 57799999874 4457899999987754 2346789999999999997777776665
Q ss_pred hhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcC----CCCeeeeccCCCCCCCcEEEEEcC
Q 045263 661 KLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYG----DMSLTQITDLPPGRIPIKTYIIEG 732 (742)
Q Consensus 661 k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~g----dl~~s~I~e~P~gr~~i~t~~~~~ 732 (742)
.-. --++++.+.+.+||| |+-+.+|.|... -..+..-+=+| +|...++++.
T Consensus 258 ETI------------------IllP~~vr~VFLSATiPNA~qFAeWI~~ihkQPcHVVYTdyRP---TPLQHyifP~ 313 (1041)
T KOG0948|consen 258 ETI------------------ILLPDNVRFVFLSATIPNARQFAEWICHIHKQPCHVVYTDYRP---TPLQHYIFPA 313 (1041)
T ss_pred eeE------------------EeccccceEEEEeccCCCHHHHHHHHHHHhcCCceEEeecCCC---CcceeeeecC
Confidence 310 013457889999999 889999998643 35555555555 4556665553
No 87
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.42 E-value=1.1e-12 Score=152.72 Aligned_cols=131 Identities=19% Similarity=0.213 Sum_probs=110.0
Q ss_pred HHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHH
Q 045263 501 TKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHL 580 (742)
Q Consensus 501 ~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l 580 (742)
.+.....++..+++.|..++..++.+ .+.++.||+|||++|++|++.....|.+++||+||++||.|.++.+
T Consensus 93 rEa~~R~lg~~p~~VQ~~~~~~ll~G--------~Iae~~TGeGKTla~~lp~~~~al~G~~v~VvTptreLA~qdae~~ 164 (656)
T PRK12898 93 REASGRVLGQRHFDVQLMGGLALLSG--------RLAEMQTGEGKTLTATLPAGTAALAGLPVHVITVNDYLAERDAELM 164 (656)
T ss_pred HHHHHHHhCCCCChHHHHHHHHHhCC--------CeeeeeCCCCcHHHHHHHHHHHhhcCCeEEEEcCcHHHHHHHHHHH
Confidence 34456778999999999999999874 2999999999999999999999999999999999999999999999
Q ss_pred HHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-h----hccc--------------------
Q 045263 581 LKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-A----EKVE-------------------- 635 (742)
Q Consensus 581 ~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-~----~~v~-------------------- 635 (742)
.+++..++ ++++++.|+.+..++... . .++|++||...+ + |.+.
T Consensus 165 ~~l~~~lG-----lsv~~i~gg~~~~~r~~~-----y-~~dIvygT~~e~~FDyLrd~~~~~~~~~~~~~~~~~l~~~~~ 233 (656)
T PRK12898 165 RPLYEALG-----LTVGCVVEDQSPDERRAA-----Y-GADITYCTNKELVFDYLRDRLALGQRASDARLALESLHGRSS 233 (656)
T ss_pred HHHHhhcC-----CEEEEEeCCCCHHHHHHH-----c-CCCEEEECCCchhhhhccccccccccccchhhhhhhhccccC
Confidence 99999888 999999999887655442 2 379999998766 2 2211
Q ss_pred ------cCCccEEEEeCCccc
Q 045263 636 ------FSALRLAIVDEQQRF 650 (742)
Q Consensus 636 ------~~~l~LVIIDEaHrf 650 (742)
...+.++||||+|..
T Consensus 234 ~~~~~v~r~~~~aIvDEvDSi 254 (656)
T PRK12898 234 RSTQLLLRGLHFAIVDEADSV 254 (656)
T ss_pred chhhhcccccceeEeecccce
Confidence 245678999999975
No 88
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=99.42 E-value=1.3e-12 Score=151.66 Aligned_cols=167 Identities=20% Similarity=0.238 Sum_probs=136.6
Q ss_pred chHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHH
Q 045263 497 WSSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQH 576 (742)
Q Consensus 497 ~~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~ 576 (742)
+..+.+.....+||+|...|++||-.+..+ ..+.+.|+|.+|||+||-+|+..+...+.+++|-.|-++|.+|-
T Consensus 283 f~~lVpe~a~~~pFelD~FQk~Ai~~lerg------~SVFVAAHTSAGKTvVAEYAialaq~h~TR~iYTSPIKALSNQK 356 (1248)
T KOG0947|consen 283 FYQLVPEMALIYPFELDTFQKEAIYHLERG------DSVFVAAHTSAGKTVVAEYAIALAQKHMTRTIYTSPIKALSNQK 356 (1248)
T ss_pred HHHhchhHHhhCCCCccHHHHHHHHHHHcC------CeEEEEecCCCCcchHHHHHHHHHHhhccceEecchhhhhccch
Confidence 456677788899999999999999887764 27899999999999999999999989999999999999999999
Q ss_pred HHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----ccccCCccEEEEeCCcccc
Q 045263 577 YEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----KVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 577 ~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~v~~~~l~LVIIDEaHrfG 651 (742)
++.|+..|. .|.++||+... +-++.++|.|.+.|.. .-...++.+||+||+|...
T Consensus 357 fRDFk~tF~---------DvgLlTGDvqi-----------nPeAsCLIMTTEILRsMLYrgadliRDvE~VIFDEVHYiN 416 (1248)
T KOG0947|consen 357 FRDFKETFG---------DVGLLTGDVQI-----------NPEASCLIMTTEILRSMLYRGADLIRDVEFVIFDEVHYIN 416 (1248)
T ss_pred HHHHHHhcc---------ccceeecceee-----------CCCcceEeehHHHHHHHHhcccchhhccceEEEeeeeecc
Confidence 999999774 45699998643 4468899999987744 2246789999999999987
Q ss_pred ccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHc
Q 045263 652 VVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALY 707 (742)
Q Consensus 652 ~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~ 707 (742)
-..|+..++.... -++...+++++||| |++-.+|.|..
T Consensus 417 D~eRGvVWEEViI------------------MlP~HV~~IlLSATVPN~~EFA~WIG 455 (1248)
T KOG0947|consen 417 DVERGVVWEEVII------------------MLPRHVNFILLSATVPNTLEFADWIG 455 (1248)
T ss_pred cccccccceeeee------------------eccccceEEEEeccCCChHHHHHHhh
Confidence 7777766664210 12346789999999 88888888863
No 89
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=99.38 E-value=2.8e-12 Score=152.07 Aligned_cols=153 Identities=18% Similarity=0.187 Sum_probs=105.1
Q ss_pred CCCHHHHHHHHHHHHhcCCC----CCCceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHHHHHHHHhh
Q 045263 511 SLTSSQLSAISEIIWDLKQP----VPMNRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQHYEHLLKLL 584 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~----~~~~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~~~~l~~~l 584 (742)
-++.+|..|++.+.+.+... ...+.+++.+||||||++++..+...+.. +.+++|++|+..|..|+.+.|.++.
T Consensus 238 ~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 238 YQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred ehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 38999999999998876542 23478999999999999998888766543 5689999999999999999999875
Q ss_pred hhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhcc-------ccCCc-cEEEEeCCccccccchh
Q 045263 585 DNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKV-------EFSAL-RLAIVDEQQRFGVVQRG 656 (742)
Q Consensus 585 ~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v-------~~~~l-~LVIIDEaHrfG~~qr~ 656 (742)
... + .+..+. ..+...+.+.+..|+|+|.+.+...+ +...- -+||+|||||..+....
T Consensus 318 ~~~--------~---~~~~s~---~~L~~~l~~~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~~~~~~ 383 (667)
T TIGR00348 318 KDC--------A---ERIESI---AELKRLLEKDDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQYGELA 383 (667)
T ss_pred CCC--------C---cccCCH---HHHHHHHhCCCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCccccchHHH
Confidence 310 1 011111 12223345556789999999885311 11111 28999999998665433
Q ss_pred hhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCH
Q 045263 657 RFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIP 699 (742)
Q Consensus 657 ~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPip 699 (742)
....+. + .+..+|+|||||.-
T Consensus 384 ~~l~~~---------------------~-p~a~~lGfTaTP~~ 404 (667)
T TIGR00348 384 KNLKKA---------------------L-KNASFFGFTGTPIF 404 (667)
T ss_pred HHHHhh---------------------C-CCCcEEEEeCCCcc
Confidence 222211 1 23579999999974
No 90
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.37 E-value=8.3e-12 Score=132.15 Aligned_cols=177 Identities=21% Similarity=0.322 Sum_probs=133.4
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCC
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEED 590 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~ 590 (742)
+||+.|+.|-+.+...+.+.. ..|++|-||+|||.+....+..++.+|..+.+..|....+-.++.+++..|..
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~--~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~~---- 170 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKE--DTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFSN---- 170 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcC--cEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCcccchHHHHHHHHHhhcc----
Confidence 499999999999998887655 78999999999999999999999999999999999999999999999998865
Q ss_pred CCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEe-chHHHhhccccCCccEEEEeCCccccccchhhhhhhhhcccccc
Q 045263 591 KHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIG-THSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNSKLYYTSMSS 669 (742)
Q Consensus 591 ~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVg-T~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~~~~~ 669 (742)
..+.+++|+.+...+ .++||+ ||+++. ..+.++++||||+|.|.+.....|.-....
T Consensus 171 ---~~I~~Lyg~S~~~fr-----------~plvVaTtHQLlr---Fk~aFD~liIDEVDAFP~~~d~~L~~Av~~----- 228 (441)
T COG4098 171 ---CDIDLLYGDSDSYFR-----------APLVVATTHQLLR---FKQAFDLLIIDEVDAFPFSDDQSLQYAVKK----- 228 (441)
T ss_pred ---CCeeeEecCCchhcc-----------ccEEEEehHHHHH---HHhhccEEEEeccccccccCCHHHHHHHHH-----
Confidence 468899998876433 355555 566552 235789999999999977665544321100
Q ss_pred ccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCC-CCcEEE
Q 045263 670 GMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGR-IPIKTY 728 (742)
Q Consensus 670 ~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr-~~i~t~ 728 (742)
+..... ..+.|||||.-+-...+..|.+....+..+-.|+ .||.-.
T Consensus 229 ------------ark~~g-~~IylTATp~k~l~r~~~~g~~~~~klp~RfH~~pLpvPkf 275 (441)
T COG4098 229 ------------ARKKEG-ATIYLTATPTKKLERKILKGNLRILKLPARFHGKPLPVPKF 275 (441)
T ss_pred ------------hhcccC-ceEEEecCChHHHHHHhhhCCeeEeecchhhcCCCCCCCce
Confidence 111123 3677899986666666778988777776665555 334333
No 91
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.36 E-value=1.5e-12 Score=138.78 Aligned_cols=202 Identities=19% Similarity=0.188 Sum_probs=142.2
Q ss_pred HHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---CCeEEEEcccHHHHHH
Q 045263 500 LTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---GYQAAFMVPTELLATQ 575 (742)
Q Consensus 500 l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---g~qvlilaPT~~La~Q 575 (742)
+++.+.. +.|+ |+.+|..|++-++.. .|.|.+-|+..|+|||.+|.+.|+..+.. -.|++.++||++||.|
T Consensus 101 llkgly~-M~F~kPskIQe~aLPlll~~----Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~PQ~iCLaPtrELA~Q 175 (477)
T KOG0332|consen 101 LLKGLYA-MKFQKPSKIQETALPLLLAE----PPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVPQCICLAPTRELAPQ 175 (477)
T ss_pred HHhHHHH-hccCCcchHHHhhcchhhcC----CchhhhhhhcCCCchhHHHHHHHHHhcCccccCCCceeeCchHHHHHH
Confidence 3444443 7887 999999999998863 46799999999999999999999988866 3799999999999999
Q ss_pred HHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh------ccccCCccEEEEeCCcc
Q 045263 576 HYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE------KVEFSALRLAIVDEQQR 649 (742)
Q Consensus 576 ~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~------~v~~~~l~LVIIDEaHr 649 (742)
+.+.+.+..+..+ +++.....+.....-..+ ..+|+||||+.+.+ .+.+..+...|+|||+.
T Consensus 176 ~~eVv~eMGKf~~-----ita~yair~sk~~rG~~i-------~eqIviGTPGtv~Dlm~klk~id~~kikvfVlDEAD~ 243 (477)
T KOG0332|consen 176 TGEVVEEMGKFTE-----LTASYAIRGSKAKRGNKL-------TEQIVIGTPGTVLDLMLKLKCIDLEKIKVFVLDEADV 243 (477)
T ss_pred HHHHHHHhcCcee-----eeEEEEecCcccccCCcc-------hhheeeCCCccHHHHHHHHHhhChhhceEEEecchhh
Confidence 9999999876654 666655444321111111 25899999998865 34567889999999999
Q ss_pred ccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHH--HHHHHcCCCCeeeeccCCCCCCCcEE
Q 045263 650 FGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRT--LALALYGDMSLTQITDLPPGRIPIKT 727 (742)
Q Consensus 650 fG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprt--la~~l~gdl~~s~I~e~P~gr~~i~t 727 (742)
+-..|.-.=... .+. ..++.+.++|++|||-.-.. ++...-.+-+...++..--.--+|+.
T Consensus 244 Mi~tqG~~D~S~----------------rI~-~~lP~~~QllLFSATf~e~V~~Fa~kivpn~n~i~Lk~eel~L~~IkQ 306 (477)
T KOG0332|consen 244 MIDTQGFQDQSI----------------RIM-RSLPRNQQLLLFSATFVEKVAAFALKIVPNANVIILKREELALDNIKQ 306 (477)
T ss_pred hhhcccccccch----------------hhh-hhcCCcceEEeeechhHHHHHHHHHHhcCCCceeeeehhhccccchhh
Confidence 855442110000 001 11234679999999954333 33334566677777666666667877
Q ss_pred EEEcCCcc
Q 045263 728 YIIEGNEK 735 (742)
Q Consensus 728 ~~~~~~~~ 735 (742)
+++....+
T Consensus 307 lyv~C~~~ 314 (477)
T KOG0332|consen 307 LYVLCACR 314 (477)
T ss_pred heeeccch
Confidence 77776655
No 92
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=99.33 E-value=1.9e-11 Score=147.13 Aligned_cols=173 Identities=18% Similarity=0.202 Sum_probs=113.4
Q ss_pred HHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhh-hccCCCCCcEEEE
Q 045263 520 ISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLD-NMEEDKHKPKIAL 598 (742)
Q Consensus 520 I~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~-~~~~~~~~i~V~l 598 (742)
.++|++.+... .+++++|+||||||..+..+++.....+.+++++.||+++|.|+++++.+.+. ..+ ..|+.
T Consensus 7 ~~~i~~~l~~~--~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g-----~~VGy 79 (819)
T TIGR01970 7 LPALRDALAAH--PQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLAARSAAQRLASQLGEAVG-----QTVGY 79 (819)
T ss_pred HHHHHHHHHcC--CcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcHHHHHHHHHHHHHHhCCCcC-----cEEEE
Confidence 34444444333 38899999999999999999998776678999999999999999999976553 233 45555
Q ss_pred EeCCCChHHHHHHHHHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCccccccch--hhhhhhhhccccccccc
Q 045263 599 LTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQRFGVVQR--GRFNSKLYYTSMSSGMA 672 (742)
Q Consensus 599 l~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHrfG~~qr--~~l~~k~~~~~~~~~~~ 672 (742)
..+..+. + +...+|+|+|++.+.+ ...+.++++|||||+|....... ..+.....
T Consensus 80 ~vr~~~~---------~-s~~t~I~v~T~G~Llr~l~~d~~L~~v~~VIiDEaHER~L~~Dl~L~ll~~i~--------- 140 (819)
T TIGR01970 80 RVRGENK---------V-SRRTRLEVVTEGILTRMIQDDPELDGVGALIFDEFHERSLDADLGLALALDVQ--------- 140 (819)
T ss_pred EEccccc---------c-CCCCcEEEECCcHHHHHHhhCcccccCCEEEEeccchhhhccchHHHHHHHHH---------
Confidence 4443221 1 2246899999998754 34588999999999996333221 11111110
Q ss_pred cccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCC-CCcEEEEEcC
Q 045263 673 MVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGR-IPIKTYIIEG 732 (742)
Q Consensus 673 ~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr-~~i~t~~~~~ 732 (742)
.......++++||||.....+... .++..+..+ +|| .||++++...
T Consensus 141 ---------~~lr~dlqlIlmSATl~~~~l~~~-l~~~~vI~~----~gr~~pVe~~y~~~ 187 (819)
T TIGR01970 141 ---------SSLREDLKILAMSATLDGERLSSL-LPDAPVVES----EGRSFPVEIRYLPL 187 (819)
T ss_pred ---------HhcCCCceEEEEeCCCCHHHHHHH-cCCCcEEEe----cCcceeeeeEEeec
Confidence 001124689999999777666443 344333332 344 4788887654
No 93
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.33 E-value=2.9e-12 Score=148.57 Aligned_cols=131 Identities=19% Similarity=0.183 Sum_probs=104.3
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC--CeEEEEcccHHHHHHHHHHHHHhhhhcc
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG--YQAAFMVPTELLATQHYEHLLKLLDNME 588 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g--~qvlilaPT~~La~Q~~~~l~~~l~~~~ 588 (742)
.++.+|..||..+.+.+.++.+ ..||++.||+|||.+|+..+...+..| +++||||-+.+|++|.+..+.++++...
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~-raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~~ 243 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQN-RALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPFGT 243 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCc-eEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCCcc
Confidence 6999999999999999988775 489999999999999999999988886 7999999999999999999999885432
Q ss_pred CCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh----------ccccCCccEEEEeCCccccccchhhh
Q 045263 589 EDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE----------KVEFSALRLAIVDEQQRFGVVQRGRF 658 (742)
Q Consensus 589 ~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~----------~v~~~~l~LVIIDEaHrfG~~qr~~l 658 (742)
.+..+.+... .+...|.|+|-..+.. .+....++|||||||||-.+.....+
T Consensus 244 ------~~n~i~~~~~------------~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRgi~~~~~~I 305 (875)
T COG4096 244 ------KMNKIEDKKG------------DTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRGIYSEWSSI 305 (875)
T ss_pred ------ceeeeecccC------------CcceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhhhHHhhhHHH
Confidence 3444444322 1246899999888743 34455699999999999766555544
Q ss_pred hh
Q 045263 659 NS 660 (742)
Q Consensus 659 ~~ 660 (742)
..
T Consensus 306 ~d 307 (875)
T COG4096 306 LD 307 (875)
T ss_pred HH
Confidence 44
No 94
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.33 E-value=1e-11 Score=147.56 Aligned_cols=128 Identities=21% Similarity=0.224 Sum_probs=105.2
Q ss_pred HHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 504 LLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 504 ~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
-.+.++..+.+.|.-.--.+.+ ..+.+++||+|||++|.+|++..+..|.++++++||..||.|.++.+..+
T Consensus 75 ~~R~lg~~~ydvQliGg~~Lh~--------G~Iaem~TGeGKTL~a~Lpa~~~al~G~~V~VvTpn~yLA~qd~e~m~~l 146 (896)
T PRK13104 75 SLRTLGLRHFDVQLIGGMVLHE--------GNIAEMRTGEGKTLVATLPAYLNAISGRGVHIVTVNDYLAKRDSQWMKPI 146 (896)
T ss_pred HHHHcCCCcchHHHhhhhhhcc--------CccccccCCCCchHHHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHH
Confidence 3455677777888655444333 23999999999999999999988888999999999999999999999999
Q ss_pred hhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-hh----cccc-------CCccEEEEeCCccc
Q 045263 584 LDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-AE----KVEF-------SALRLAIVDEQQRF 650 (742)
Q Consensus 584 l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-~~----~v~~-------~~l~LVIIDEaHrf 650 (742)
+..+| +++++++|+.+..++...+ .++|++|||+.+ +| .+.+ ..+.++||||+|++
T Consensus 147 ~~~lG-----Ltv~~i~gg~~~~~r~~~y------~~dIvygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsi 214 (896)
T PRK13104 147 YEFLG-----LTVGVIYPDMSHKEKQEAY------KADIVYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSI 214 (896)
T ss_pred hcccC-----ceEEEEeCCCCHHHHHHHh------CCCEEEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhh
Confidence 99888 9999999999887776543 379999999997 33 2222 57899999999996
No 95
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=99.31 E-value=1.3e-11 Score=146.29 Aligned_cols=128 Identities=20% Similarity=0.229 Sum_probs=110.3
Q ss_pred HHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 504 LLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 504 ~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
-.+.++..+.+.|.-.--.+.+ ..+.++.||+|||+++.+|++.....|++|.+|+||..||.|+++.+..+
T Consensus 75 ~~R~lGm~~ydVQliGg~~Lh~--------G~iaEM~TGEGKTLvA~l~a~l~al~G~~VhvvT~ndyLA~RD~e~m~~l 146 (913)
T PRK13103 75 GKRVMGMRHFDVQLIGGMTLHE--------GKIAEMRTGEGKTLVGTLAVYLNALSGKGVHVVTVNDYLARRDANWMRPL 146 (913)
T ss_pred HHHHhCCCcchhHHHhhhHhcc--------CccccccCCCCChHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHHH
Confidence 3456677777888655444333 23999999999999999999999999999999999999999999999999
Q ss_pred hhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-----hhcccc-------CCccEEEEeCCccc
Q 045263 584 LDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-----AEKVEF-------SALRLAIVDEQQRF 650 (742)
Q Consensus 584 l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-----~~~v~~-------~~l~LVIIDEaHrf 650 (742)
+..+| ++|++++++++.++|+..+. ++|++||++.+ .+.+.+ ..++++||||+|..
T Consensus 147 ~~~lG-----l~v~~i~~~~~~~err~~Y~------~dI~YGT~~e~gFDYLrD~~~~~~~~~vqr~l~~aIVDEvDsi 214 (913)
T PRK13103 147 YEFLG-----LSVGIVTPFQPPEEKRAAYA------ADITYGTNNEFGFDYLRDNMAFSLDDKFQRELNFAVIDEVDSI 214 (913)
T ss_pred hcccC-----CEEEEECCCCCHHHHHHHhc------CCEEEEcccccccchhhccceechhhhcccccceeEechhhhe
Confidence 99998 99999999999999887664 79999999986 666666 88999999999986
No 96
>PRK09694 helicase Cas3; Provisional
Probab=99.31 E-value=1.4e-11 Score=148.40 Aligned_cols=139 Identities=18% Similarity=0.169 Sum_probs=94.8
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC--CeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG--YQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g--~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
.|.++|.|+.+... . ..|...+|.+|||+|||.+++.++...+..| .+++|..||+++++|+++++.+++..
T Consensus 284 ~~~p~p~Q~~~~~~-~-----~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~ 357 (878)
T PRK09694 284 GYQPRQLQTLVDAL-P-----LQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALASK 357 (878)
T ss_pred CCCChHHHHHHHhh-c-----cCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHH
Confidence 56899999977422 1 1345789999999999999999888766654 68999999999999999999886654
Q ss_pred ccCCCCCcEEEEEeCCCChHHHH---------------------HHHHHh-hc-CCccEEEechHHHhh-ccc-----cC
Q 045263 587 MEEDKHKPKIALLTGSTPVKQSR---------------------MIRKDL-QT-GDITLVIGTHSLIAE-KVE-----FS 637 (742)
Q Consensus 587 ~~~~~~~i~V~ll~G~~~~~er~---------------------~i~~~l-~~-G~~~IVVgT~~~l~~-~v~-----~~ 637 (742)
... ...+.++||........ .++..- +. --.+|+|||...+.. .++ +.
T Consensus 358 ~f~---~~~v~L~Hg~a~l~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~kr~llapi~V~TiDQlL~a~l~~kh~~lR 434 (878)
T PRK09694 358 LFP---SPNLILAHGNSRFNHLFQSLKSRAATEQGQEEAWVQCCEWLSQSNKRVFLGQIGVCTIDQVLISVLPVKHRFIR 434 (878)
T ss_pred hcC---CCceEeecCcchhhhhhhhhhcccccccccchhhhHHHHHHhhhhhhhhcCCEEEcCHHHHHHHHHccchHHHH
Confidence 310 14688899876432111 111100 00 125899999865532 111 22
Q ss_pred Ccc----EEEEeCCccccccchh
Q 045263 638 ALR----LAIVDEQQRFGVVQRG 656 (742)
Q Consensus 638 ~l~----LVIIDEaHrfG~~qr~ 656 (742)
.++ +|||||+|.+......
T Consensus 435 ~~~La~svvIiDEVHAyD~ym~~ 457 (878)
T PRK09694 435 GFGLGRSVLIVDEVHAYDAYMYG 457 (878)
T ss_pred HHhhccCeEEEechhhCCHHHHH
Confidence 344 7999999998665443
No 97
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=99.30 E-value=2.1e-11 Score=143.74 Aligned_cols=122 Identities=17% Similarity=0.202 Sum_probs=94.5
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCC
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDK 591 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~ 591 (742)
++|+|.+++..+... . ..+++++||+|||++|++|++.....|..++|++||..||.|.++.+..++..+|
T Consensus 69 lrpydVQlig~l~l~--~----G~Iaem~TGeGKTLta~Lpa~l~aL~g~~V~VVTpn~yLA~Rdae~m~~l~~~LG--- 139 (762)
T TIGR03714 69 MFPYDVQVLGAIVLH--Q----GNIAEMKTGEGKTLTATMPLYLNALTGKGAMLVTTNDYLAKRDAEEMGPVYEWLG--- 139 (762)
T ss_pred CCccHHHHHHHHHhc--C----CceeEecCCcchHHHHHHHHHHHhhcCCceEEeCCCHHHHHHHHHHHHHHHhhcC---
Confidence 455555555555432 2 2499999999999999999988888899999999999999999999999998888
Q ss_pred CCcEEEEEeCCC-----ChHHHHHHHHHhhcCCccEEEechHHH-hh-----------ccccCCccEEEEeCCccc
Q 045263 592 HKPKIALLTGST-----PVKQSRMIRKDLQTGDITLVIGTHSLI-AE-----------KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 592 ~~i~V~ll~G~~-----~~~er~~i~~~l~~G~~~IVVgT~~~l-~~-----------~v~~~~l~LVIIDEaHrf 650 (742)
+++.+..++. ...++.. . ..++|++|||+.+ .+ ...+.++.++||||+|.+
T Consensus 140 --Lsv~~~~~~s~~~~~~~~~rr~-----~-y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsI 207 (762)
T TIGR03714 140 --LTVSLGVVDDPDEEYDANEKRK-----I-YNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSV 207 (762)
T ss_pred --CcEEEEECCCCccccCHHHHHH-----h-CCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhH
Confidence 8888877652 2222322 2 2489999999988 22 123678899999999996
No 98
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.30 E-value=1.6e-11 Score=145.72 Aligned_cols=131 Identities=19% Similarity=0.158 Sum_probs=108.4
Q ss_pred HHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHH
Q 045263 502 KKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 502 ~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~ 581 (742)
+...+.++..+++.|.-..-.+.+ ..+.++.||+|||++|.+|++.....|+++.+|+||..||.|+++.+.
T Consensus 72 Ea~~R~lg~~~~dvQlig~l~L~~--------G~Iaem~TGeGKTLva~lpa~l~aL~G~~V~IvTpn~yLA~rd~e~~~ 143 (830)
T PRK12904 72 EASKRVLGMRHFDVQLIGGMVLHE--------GKIAEMKTGEGKTLVATLPAYLNALTGKGVHVVTVNDYLAKRDAEWMG 143 (830)
T ss_pred HHHHHHhCCCCCccHHHhhHHhcC--------CchhhhhcCCCcHHHHHHHHHHHHHcCCCEEEEecCHHHHHHHHHHHH
Confidence 344556788888888766654433 239999999999999999998666789999999999999999999999
Q ss_pred HhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-hh----c-------cccCCccEEEEeCCcc
Q 045263 582 KLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-AE----K-------VEFSALRLAIVDEQQR 649 (742)
Q Consensus 582 ~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-~~----~-------v~~~~l~LVIIDEaHr 649 (742)
.++..+| +++++++|+++..++...+. ++|++|||+.+ +| . .....+.++||||+|+
T Consensus 144 ~l~~~LG-----lsv~~i~~~~~~~er~~~y~------~dI~ygT~~elgfDyLrd~~~~~~~~~~~r~~~~aIvDEaDs 212 (830)
T PRK12904 144 PLYEFLG-----LSVGVILSGMSPEERREAYA------ADITYGTNNEFGFDYLRDNMVFSLEERVQRGLNYAIVDEVDS 212 (830)
T ss_pred HHHhhcC-----CeEEEEcCCCCHHHHHHhcC------CCeEEECCcchhhhhhhcccccchhhhcccccceEEEechhh
Confidence 9999998 99999999999988876542 79999999988 44 1 1356788999999999
Q ss_pred cc
Q 045263 650 FG 651 (742)
Q Consensus 650 fG 651 (742)
+.
T Consensus 213 iL 214 (830)
T PRK12904 213 IL 214 (830)
T ss_pred he
Confidence 63
No 99
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.29 E-value=3.3e-12 Score=143.12 Aligned_cols=131 Identities=22% Similarity=0.283 Sum_probs=103.2
Q ss_pred HhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--------CCeEEEEcccHHHHHHH
Q 045263 506 RALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--------GYQAAFMVPTELLATQH 576 (742)
Q Consensus 506 ~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--------g~qvlilaPT~~La~Q~ 576 (742)
...+|. +++.|.+|++.++.. .+++.++|||||||+.|.+|++..+.. |.+++|+.||++|+.|+
T Consensus 152 ~~~~F~~Pt~iq~~aipvfl~~------r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi 225 (593)
T KOG0344|consen 152 QELGFDEPTPIQKQAIPVFLEK------RDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQI 225 (593)
T ss_pred hhCCCCCCCcccchhhhhhhcc------cceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHH
Confidence 456786 999999999999874 378999999999999999999988754 57999999999999999
Q ss_pred HHHHHHhh--hhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-------ccccCCccEEEEeCC
Q 045263 577 YEHLLKLL--DNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-------KVEFSALRLAIVDEQ 647 (742)
Q Consensus 577 ~~~l~~~l--~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-------~v~~~~l~LVIIDEa 647 (742)
+.++.++. ...+ .+++.+.......++..... ....+|+|+||..+-. .+.+.++.++|+||+
T Consensus 226 ~re~~k~~~~~~t~-----~~a~~~~~~~~~~qk~a~~~---~~k~dili~TP~ri~~~~~~~~~~idl~~V~~lV~dEa 297 (593)
T KOG0344|consen 226 YREMRKYSIDEGTS-----LRAAQFSKPAYPSQKPAFLS---DEKYDILISTPMRIVGLLGLGKLNIDLSKVEWLVVDEA 297 (593)
T ss_pred HHHHHhcCCCCCCc-----hhhhhcccccchhhccchhH---HHHHHHHhcCHHHHHHHhcCCCccchhheeeeEeechH
Confidence 99999987 3333 56666666655444332221 1236899999998844 246778899999999
Q ss_pred ccc
Q 045263 648 QRF 650 (742)
Q Consensus 648 Hrf 650 (742)
++.
T Consensus 298 D~l 300 (593)
T KOG0344|consen 298 DLL 300 (593)
T ss_pred Hhh
Confidence 985
No 100
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=99.26 E-value=6.7e-11 Score=139.24 Aligned_cols=144 Identities=18% Similarity=0.289 Sum_probs=121.5
Q ss_pred hHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHH
Q 045263 498 SSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHY 577 (742)
Q Consensus 498 ~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~ 577 (742)
+.+.+-|.+..+|.|+..|+-....+..+- ..-+.||||.|||...+...+.....|+++++++||..|+.|.+
T Consensus 69 e~~~~fF~k~~G~~~ws~QR~WakR~~rg~------SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~ 142 (1187)
T COG1110 69 EEFEEFFKKATGFRPWSAQRVWAKRLVRGK------SFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVY 142 (1187)
T ss_pred HHHHHHHHHhhCCCchHHHHHHHHHHHcCC------ceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHH
Confidence 455667788899999999999988888752 67899999999999888887777788999999999999999999
Q ss_pred HHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh---ccccCCccEEEEeCCccc
Q 045263 578 EHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE---KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 578 ~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~---~v~~~~l~LVIIDEaHrf 650 (742)
+.+.++....+ ...+.+. +||.++.++++..++++.+|+.||+|+|.+.+.. .+.-.++++|+||.+|.+
T Consensus 143 ~kl~~~~e~~~--~~~~~~~-yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~e~L~~~kFdfifVDDVDA~ 215 (1187)
T COG1110 143 ERLKKFAEDAG--SLDVLVV-YHSALPTKEKEEALERIESGDFDILITTSQFLSKRFEELSKLKFDFIFVDDVDAI 215 (1187)
T ss_pred HHHHHHHhhcC--Ccceeee-eccccchHHHHHHHHHHhcCCccEEEEeHHHHHhhHHHhcccCCCEEEEccHHHH
Confidence 99999886544 1224444 9999999999999999999999999999998854 222347899999999974
No 101
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.20 E-value=7e-11 Score=140.52 Aligned_cols=193 Identities=21% Similarity=0.254 Sum_probs=132.5
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC-----------CeEEEEcccHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG-----------YQAAFMVPTELLATQHYEHL 580 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g-----------~qvlilaPT~~La~Q~~~~l 580 (742)
|+.+|.++.+..+.. + -|.+++||||+|||.+|++.+++.+.++ .++++++|.++|++.+...|
T Consensus 310 LNrIQS~v~daAl~~---~--EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~Vgsf 384 (1674)
T KOG0951|consen 310 LNRIQSKVYDAALRG---D--ENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSF 384 (1674)
T ss_pred hhHHHHHHHHHHhcC---c--CcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHH
Confidence 899999999888763 2 3889999999999999999999999764 47999999999999999999
Q ss_pred HHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHh---h----ccccCCccEEEEeCCcccccc
Q 045263 581 LKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIA---E----KVEFSALRLAIVDEQQRFGVV 653 (742)
Q Consensus 581 ~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~---~----~v~~~~l~LVIIDEaHrfG~~ 653 (742)
.+.+.++| ++|.-+||+....... -.+.+|+||||+-.- . ..-.+-++++||||.|-.+-.
T Consensus 385 SkRla~~G-----I~V~ElTgD~~l~~~q-------ieeTqVIV~TPEK~DiITRk~gdraY~qlvrLlIIDEIHLLhDd 452 (1674)
T KOG0951|consen 385 SKRLAPLG-----ITVLELTGDSQLGKEQ-------IEETQVIVTTPEKWDIITRKSGDRAYEQLVRLLIIDEIHLLHDD 452 (1674)
T ss_pred HhhccccC-----cEEEEecccccchhhh-------hhcceeEEeccchhhhhhcccCchhHHHHHHHHhhhhhhhcccc
Confidence 99999999 9999999986633221 113789999999761 1 111234789999999986432
Q ss_pred chhhhhhhhhccccccccccccCCCCCC-CCCCCCCcEEEEcCC-CCHHHHHHHHcCCC-CeeeeccCCCCCCCcEEEEE
Q 045263 654 QRGRFNSKLYYTSMSSGMAMVNSDGSPK-DDQHMAPHVLAMSAT-PIPRTLALALYGDM-SLTQITDLPPGRIPIKTYII 730 (742)
Q Consensus 654 qr~~l~~k~~~~~~~~~~~~~~~~~~~r-~~~~~~p~vL~mSAT-Piprtla~~l~gdl-~~s~I~e~P~gr~~i~t~~~ 730 (742)
-...+.+.. .|. .++ ..-...+.++++||| |+-...+..+.-+. ++...+. --..-|++..++
T Consensus 453 RGpvLESIV------aRt-------~r~ses~~e~~RlVGLSATLPNy~DV~~Fl~v~~~glf~fd~-syRpvPL~qq~I 518 (1674)
T KOG0951|consen 453 RGPVLESIV------ART-------FRRSESTEEGSRLVGLSATLPNYEDVASFLRVDPEGLFYFDS-SYRPVPLKQQYI 518 (1674)
T ss_pred cchHHHHHH------HHH-------HHHhhhcccCceeeeecccCCchhhhHHHhccCcccccccCc-ccCcCCccceEe
Confidence 222211100 000 000 011235789999999 88888888765433 2222221 122245666666
Q ss_pred cCCcc
Q 045263 731 EGNEK 735 (742)
Q Consensus 731 ~~~~~ 735 (742)
+-.++
T Consensus 519 gi~ek 523 (1674)
T KOG0951|consen 519 GITEK 523 (1674)
T ss_pred ccccC
Confidence 65544
No 102
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=99.19 E-value=3e-10 Score=138.55 Aligned_cols=96 Identities=21% Similarity=0.248 Sum_probs=74.8
Q ss_pred HHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHH-HH
Q 045263 503 KLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEH-LL 581 (742)
Q Consensus 503 ~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~-l~ 581 (742)
..+...+|+.++.|.+.++.|.+.+..+. ..+++||||+|||.+|++|++.....+.+++|.+||++|++|+... +.
T Consensus 237 ~~~~~~~~~~r~~Q~~~~~~i~~~~~~~~--~~~~eA~TG~GKT~ayLlp~~~~~~~~~~vvi~t~t~~Lq~Ql~~~~~~ 314 (850)
T TIGR01407 237 KNIDRLGLEYRPEQLKLAELVLDQLTHSE--KSLIEAPTGTGKTLGYLLPALYYAITEKPVVISTNTKVLQSQLLEKDIP 314 (850)
T ss_pred HhhhhcCCccCHHHHHHHHHHHHHhccCC--cEEEECCCCCchhHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHHHHH
Confidence 33445789999999999999998886653 7899999999999999999987766788999999999999999763 44
Q ss_pred HhhhhccCCCCCcEEEEEeCCC
Q 045263 582 KLLDNMEEDKHKPKIALLTGST 603 (742)
Q Consensus 582 ~~l~~~~~~~~~i~V~ll~G~~ 603 (742)
.+.+.++ .+++++++.|+.
T Consensus 315 ~l~~~~~---~~~~~~~~kG~~ 333 (850)
T TIGR01407 315 LLNEILN---FKINAALIKGKS 333 (850)
T ss_pred HHHHHcC---CCceEEEEEcch
Confidence 3332222 126677777653
No 103
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=99.19 E-value=1.2e-10 Score=123.68 Aligned_cols=158 Identities=23% Similarity=0.274 Sum_probs=98.5
Q ss_pred HHHHHHHHHHHhc-------CCCCCCceEEEccCCChHHHHHHHHHHHHHhcCC-----eEEEEcccHHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDL-------KQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGY-----QAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 515 ~Q~~aI~~I~~~~-------~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~-----qvlilaPT~~La~Q~~~~l~~ 582 (742)
+|.+++.-+++-. ........+|.-++|+|||..++..+......+. .+||++|. .+..||..++.+
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~ 79 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEK 79 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhcc
Confidence 5888888777654 1122346788899999999998888775555432 49999999 788999999999
Q ss_pred hhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHh--------hccccCCccEEEEeCCccccccc
Q 045263 583 LLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIA--------EKVEFSALRLAIVDEQQRFGVVQ 654 (742)
Q Consensus 583 ~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~--------~~v~~~~l~LVIIDEaHrfG~~q 654 (742)
++.+.. .++..+.|....... ..-.....+++|+|.+.+. +.+.--++++|||||+|++....
T Consensus 80 ~~~~~~-----~~v~~~~~~~~~~~~----~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~~ 150 (299)
T PF00176_consen 80 WFDPDS-----LRVIIYDGDSERRRL----SKNQLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNKD 150 (299)
T ss_dssp HSGT-T-----S-EEEESSSCHHHHT----TSSSCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTTT
T ss_pred cccccc-----ccccccccccccccc----cccccccceeeeccccccccccccccccccccccceeEEEeccccccccc
Confidence 986433 578888877611111 0112345789999999887 12333458999999999983222
Q ss_pred hhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHH
Q 045263 655 RGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLA 703 (742)
Q Consensus 655 r~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla 703 (742)
...... . ..+ ...+++++||||.+..+.
T Consensus 151 s~~~~~-l-------------------~~l-~~~~~~lLSgTP~~n~~~ 178 (299)
T PF00176_consen 151 SKRYKA-L-------------------RKL-RARYRWLLSGTPIQNSLE 178 (299)
T ss_dssp SHHHHH-H-------------------HCC-CECEEEEE-SS-SSSGSH
T ss_pred cccccc-c-------------------ccc-ccceEEeecccccccccc
Confidence 111111 0 001 246789999999876544
No 104
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.17 E-value=2.4e-10 Score=123.65 Aligned_cols=174 Identities=19% Similarity=0.163 Sum_probs=131.5
Q ss_pred HHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHH
Q 045263 500 LTKKLLRALPYS--LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHY 577 (742)
Q Consensus 500 l~~~~~~~lpf~--Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~ 577 (742)
..+.+.+.|+|. -++.|++|+..+.+.- .++.+++|||+||+++|.+|.+.. +.-.+++.|..+|...+.
T Consensus 7 VreaLKK~FGh~kFKs~LQE~A~~c~VK~k-----~DVyVsMPTGaGKSLCyQLPaL~~---~gITIV~SPLiALIkDQi 78 (641)
T KOG0352|consen 7 VREALKKLFGHKKFKSRLQEQAINCIVKRK-----CDVYVSMPTGAGKSLCYQLPALVH---GGITIVISPLIALIKDQI 78 (641)
T ss_pred HHHHHHHHhCchhhcChHHHHHHHHHHhcc-----CcEEEeccCCCchhhhhhchHHHh---CCeEEEehHHHHHHHHHH
Confidence 345667778887 6999999999998742 478999999999999999998843 447889999999999999
Q ss_pred HHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCC--ccEEEechHHH-----hh----ccccCCccEEEEeC
Q 045263 578 EHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGD--ITLVIGTHSLI-----AE----KVEFSALRLAIVDE 646 (742)
Q Consensus 578 ~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~--~~IVVgT~~~l-----~~----~v~~~~l~LVIIDE 646 (742)
+.+..+- +++.-|.+.++..+|.+++.+++... ..++--||+.. ++ ...-+.|.++||||
T Consensus 79 DHL~~LK---------Vp~~SLNSKlSt~ER~ri~~DL~~ekp~~K~LYITPE~AAt~~FQ~lLn~L~~r~~L~Y~vVDE 149 (641)
T KOG0352|consen 79 DHLKRLK---------VPCESLNSKLSTVERSRIMGDLAKEKPTIKMLYITPEGAATDGFQKLLNGLANRDVLRYIVVDE 149 (641)
T ss_pred HHHHhcC---------CchhHhcchhhHHHHHHHHHHHHhcCCceeEEEEchhhhhhhhHHHHHHHHhhhceeeeEEech
Confidence 9888753 67788999999999999998887754 45788888733 22 33455689999999
Q ss_pred Ccc---ccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHc
Q 045263 647 QQR---FGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALY 707 (742)
Q Consensus 647 aHr---fG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~ 707 (742)
+|. +|..-|..+..-+ ..|+.+++.| -+.+|||..|+....+..
T Consensus 150 AHCVSQWGHDFRPDYL~LG----------------~LRS~~~~vp-wvALTATA~~~VqEDi~~ 196 (641)
T KOG0352|consen 150 AHCVSQWGHDFRPDYLTLG----------------SLRSVCPGVP-WVALTATANAKVQEDIAF 196 (641)
T ss_pred hhhHhhhccccCcchhhhh----------------hHHhhCCCCc-eEEeecccChhHHHHHHH
Confidence 997 3444444333211 1234455555 677899999888776654
No 105
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.16 E-value=3.4e-10 Score=136.95 Aligned_cols=87 Identities=21% Similarity=0.192 Sum_probs=70.3
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHH-HHHHHhhhh
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHY-EHLLKLLDN 586 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~-~~l~~~l~~ 586 (742)
.+|+.++.|.+....|.+.+..+. ..+++++||+|||++|++|++... .+.+++|++||++|++|+. +.+..+.+.
T Consensus 242 ~~~e~R~~Q~~ma~~V~~~l~~~~--~~~~eA~tGtGKT~ayllp~l~~~-~~~~vvI~t~T~~Lq~Ql~~~~i~~l~~~ 318 (820)
T PRK07246 242 LGLEERPKQESFAKLVGEDFHDGP--ASFIEAQTGIGKTYGYLLPLLAQS-DQRQIIVSVPTKILQDQIMAEEVKAIQEV 318 (820)
T ss_pred CCCccCHHHHHHHHHHHHHHhCCC--cEEEECCCCCcHHHHHHHHHHHhc-CCCcEEEEeCcHHHHHHHHHHHHHHHHHh
Confidence 359999999999999998887654 789999999999999999987643 5789999999999999995 555554444
Q ss_pred ccCCCCCcEEEEEeCC
Q 045263 587 MEEDKHKPKIALLTGS 602 (742)
Q Consensus 587 ~~~~~~~i~V~ll~G~ 602 (742)
++ +++.++.|+
T Consensus 319 ~~-----~~~~~~kg~ 329 (820)
T PRK07246 319 FH-----IDCHSLKGP 329 (820)
T ss_pred cC-----CcEEEEECC
Confidence 44 566666654
No 106
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.13 E-value=2.7e-10 Score=138.33 Aligned_cols=128 Identities=21% Similarity=0.243 Sum_probs=91.6
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC--CeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG--YQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g--~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
...|.|+|..++..+.... ..++||.-++|.|||+.+.+.+...+..| .++||+||+ .|..||..++.+.|.
T Consensus 150 ~~~l~pHQl~~~~~vl~~~----~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~-sL~~QW~~El~~kF~- 223 (956)
T PRK04914 150 RASLIPHQLYIAHEVGRRH----APRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPE-TLQHQWLVEMLRRFN- 223 (956)
T ss_pred CCCCCHHHHHHHHHHhhcc----CCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCH-HHHHHHHHHHHHHhC-
Confidence 3579999999988876642 34789999999999999988888777776 599999998 799999999988764
Q ss_pred ccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh------ccccCCccEEEEeCCcccc
Q 045263 587 MEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE------KVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 587 ~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~------~v~~~~l~LVIIDEaHrfG 651 (742)
+...++.+......+..-.+.+ ...+++|+|.+.+.. .+.-.++++|||||||+..
T Consensus 224 -------l~~~i~~~~~~~~~~~~~~~pf--~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk 285 (956)
T PRK04914 224 -------LRFSLFDEERYAEAQHDADNPF--ETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLV 285 (956)
T ss_pred -------CCeEEEcCcchhhhcccccCcc--ccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhc
Confidence 3455555543221100000000 125799999887743 2233578999999999974
No 107
>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=99.13 E-value=6.5e-10 Score=129.86 Aligned_cols=82 Identities=23% Similarity=0.334 Sum_probs=65.0
Q ss_pred HHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh--cCCeEEEEcccHHHHHHHHHHHHHhh-hhccCCCC
Q 045263 516 QLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG--SGYQAAFMVPTELLATQHYEHLLKLL-DNMEEDKH 592 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~--~g~qvlilaPT~~La~Q~~~~l~~~l-~~~~~~~~ 592 (742)
|.+.+..|.+.+..+ ...+++++||+|||++|++|++..+. .+.+++|++||++|++|+++.+..+. +.++ .
T Consensus 2 Q~~~~~~i~~al~~~--~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~---~ 76 (636)
T TIGR03117 2 QALFYLNCLTSLRQK--RIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLTAEGLA---G 76 (636)
T ss_pred HHHHHHHHHHHHhcC--CeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHHHhhcC---C
Confidence 888888998887654 47899999999999999999987765 47899999999999999999887765 2221 1
Q ss_pred CcEEEEEeCC
Q 045263 593 KPKIALLTGS 602 (742)
Q Consensus 593 ~i~V~ll~G~ 602 (742)
++++.++.|.
T Consensus 77 ~i~~~~lkGr 86 (636)
T TIGR03117 77 PVQAGFFPGS 86 (636)
T ss_pred CeeEEEEECC
Confidence 2556665554
No 108
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.09 E-value=7.4e-10 Score=131.22 Aligned_cols=132 Identities=18% Similarity=0.145 Sum_probs=109.6
Q ss_pred HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHH
Q 045263 500 LTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEH 579 (742)
Q Consensus 500 l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~ 579 (742)
..+...+.++..+++.|.-..-.+.. ..+.++.||+|||+++.+|++.....|++|.+|+||..||.|+++.
T Consensus 69 vrEa~~R~~g~~~~dvQlig~l~l~~--------G~iaEm~TGEGKTLvA~l~a~l~al~G~~v~vvT~neyLA~Rd~e~ 140 (796)
T PRK12906 69 AREGAKRVLGLRPFDVQIIGGIVLHE--------GNIAEMKTGEGKTLTATLPVYLNALTGKGVHVVTVNEYLSSRDATE 140 (796)
T ss_pred HHHHHHHHhCCCCchhHHHHHHHHhc--------CCcccccCCCCCcHHHHHHHHHHHHcCCCeEEEeccHHHHHhhHHH
Confidence 34445567888899999876654433 2399999999999999999999999999999999999999999999
Q ss_pred HHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHh-----hcc-------ccCCccEEEEeCC
Q 045263 580 LLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIA-----EKV-------EFSALRLAIVDEQ 647 (742)
Q Consensus 580 l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~-----~~v-------~~~~l~LVIIDEa 647 (742)
+..++..+| ++|++++|+++.++|+..+. +||+-||.+.+. +.+ ....+.++||||+
T Consensus 141 ~~~~~~~LG-----l~vg~i~~~~~~~~r~~~y~------~dI~Y~t~~e~gfDyLRD~m~~~~~~~v~r~~~~aIvDEv 209 (796)
T PRK12906 141 MGELYRWLG-----LTVGLNLNSMSPDEKRAAYN------CDITYSTNSELGFDYLRDNMVVYKEQMVQRPLNYAIVDEV 209 (796)
T ss_pred HHHHHHhcC-----CeEEEeCCCCCHHHHHHHhc------CCCeecCCccccccchhhccccchhhhhccCcceeeeccc
Confidence 999999999 99999999999988887653 799999987652 221 1246789999999
Q ss_pred ccc
Q 045263 648 QRF 650 (742)
Q Consensus 648 Hrf 650 (742)
|..
T Consensus 210 DSi 212 (796)
T PRK12906 210 DSI 212 (796)
T ss_pred hhe
Confidence 985
No 109
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=99.04 E-value=1.5e-09 Score=126.39 Aligned_cols=130 Identities=16% Similarity=0.192 Sum_probs=110.0
Q ss_pred HHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHH
Q 045263 502 KKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 502 ~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~ 581 (742)
+...+.++..+++.|.-..-.++.+ .+.++.||+|||+++.+|++.....|++|.+|+|+..||.|.++.+.
T Consensus 69 Ea~~R~lg~r~ydvQlig~l~Ll~G--------~VaEM~TGEGKTLvA~l~a~l~AL~G~~VhvvT~NdyLA~RDae~m~ 140 (764)
T PRK12326 69 EAAERTLGLRPFDVQLLGALRLLAG--------DVIEMATGEGKTLAGAIAAAGYALQGRRVHVITVNDYLARRDAEWMG 140 (764)
T ss_pred HHHHHHcCCCcchHHHHHHHHHhCC--------CcccccCCCCHHHHHHHHHHHHHHcCCCeEEEcCCHHHHHHHHHHHH
Confidence 3445567888999998888777653 28899999999999999999999999999999999999999999999
Q ss_pred HhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-----hhcc-------ccCCccEEEEeCCcc
Q 045263 582 KLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-----AEKV-------EFSALRLAIVDEQQR 649 (742)
Q Consensus 582 ~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-----~~~v-------~~~~l~LVIIDEaHr 649 (742)
.++..+| ++|++++++++.++|+..+. +||+-||.+.+ .+.+ ....+.++||||+|.
T Consensus 141 ~ly~~LG-----Lsvg~i~~~~~~~err~aY~------~DItYgTn~e~gFDyLRDnm~~~~~~~v~R~~~faIVDEvDS 209 (764)
T PRK12326 141 PLYEALG-----LTVGWITEESTPEERRAAYA------CDVTYASVNEIGFDVLRDQLVTDVADLVSPNPDVAIIDEADS 209 (764)
T ss_pred HHHHhcC-----CEEEEECCCCCHHHHHHHHc------CCCEEcCCcccccccchhhhccChHhhcCCccceeeecchhh
Confidence 9999998 99999999999998887663 79999998765 1211 235578999999997
Q ss_pred c
Q 045263 650 F 650 (742)
Q Consensus 650 f 650 (742)
.
T Consensus 210 i 210 (764)
T PRK12326 210 V 210 (764)
T ss_pred h
Confidence 5
No 110
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.02 E-value=8e-10 Score=133.45 Aligned_cols=197 Identities=19% Similarity=0.171 Sum_probs=142.6
Q ss_pred HHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHH
Q 045263 499 SLTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHY 577 (742)
Q Consensus 499 ~l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~ 577 (742)
+....+...|++. +++.|.+||..++.+. +.++.+|||.||.++|.+|++. . +.-.+++.|-++|.+.+.
T Consensus 251 ~~~~~l~~~Fg~~~FR~~Q~eaI~~~l~Gk------d~fvlmpTG~GKSLCYQlPA~l--~-~gitvVISPL~SLm~DQv 321 (941)
T KOG0351|consen 251 ELELLLKEVFGHKGFRPNQLEAINATLSGK------DCFVLMPTGGGKSLCYQLPALL--L-GGVTVVISPLISLMQDQV 321 (941)
T ss_pred HHHHHHHHHhccccCChhHHHHHHHHHcCC------ceEEEeecCCceeeEeeccccc--c-CCceEEeccHHHHHHHHH
Confidence 4556667778876 9999999999888752 7799999999999999999873 3 557899999999999888
Q ss_pred HHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcC--CccEEEechHHHhh-------ccccCC---ccEEEEe
Q 045263 578 EHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTG--DITLVIGTHSLIAE-------KVEFSA---LRLAIVD 645 (742)
Q Consensus 578 ~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G--~~~IVVgT~~~l~~-------~v~~~~---l~LVIID 645 (742)
..+.. .+ +....++|..+..++..+++.+.+| .++|+--||+.+.. ...+.. +.++|||
T Consensus 322 ~~L~~----~~-----I~a~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtPE~v~~~~~l~~~~~~L~~~~~lal~vID 392 (941)
T KOG0351|consen 322 THLSK----KG-----IPACFLSSIQTAAERLAILQKLANGNPIIKILYVTPEKVVASEGLLESLADLYARGLLALFVID 392 (941)
T ss_pred Hhhhh----cC-----cceeeccccccHHHHHHHHHHHhCCCCeEEEEEeCHHHhhcccchhhHHHhccCCCeeEEEEec
Confidence 77743 23 7889999999999999999999999 88999999997733 223344 8899999
Q ss_pred CCcc---ccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHc--CCCCeeeeccCCC
Q 045263 646 EQQR---FGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALY--GDMSLTQITDLPP 720 (742)
Q Consensus 646 EaHr---fG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~--gdl~~s~I~e~P~ 720 (742)
|||. ||..-|..+..-.. .+......| +|++|||..+++...++. |.-+...+.. -+
T Consensus 393 EAHCVSqWgHdFRp~Yk~l~~----------------l~~~~~~vP-~iALTATAT~~v~~DIi~~L~l~~~~~~~~-sf 454 (941)
T KOG0351|consen 393 EAHCVSQWGHDFRPSYKRLGL----------------LRIRFPGVP-FIALTATATERVREDVIRSLGLRNPELFKS-SF 454 (941)
T ss_pred HHHHhhhhcccccHHHHHHHH----------------HHhhCCCCC-eEEeehhccHHHHHHHHHHhCCCCcceecc-cC
Confidence 9996 45444543322110 111222334 999999998888877764 3333333332 24
Q ss_pred CCCCcEEEEEc
Q 045263 721 GRIPIKTYIIE 731 (742)
Q Consensus 721 gr~~i~t~~~~ 731 (742)
.|....-.+..
T Consensus 455 nR~NL~yeV~~ 465 (941)
T KOG0351|consen 455 NRPNLKYEVSP 465 (941)
T ss_pred CCCCceEEEEe
Confidence 55555444443
No 111
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=99.00 E-value=4.4e-09 Score=112.99 Aligned_cols=76 Identities=21% Similarity=0.242 Sum_probs=65.5
Q ss_pred hCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-CC-----eEEEEcccHHHHHHHHHHH
Q 045263 507 ALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-GY-----QAAFMVPTELLATQHYEHL 580 (742)
Q Consensus 507 ~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g~-----qvlilaPT~~La~Q~~~~l 580 (742)
.|||+++|.|.+.+..+...+..+. +.++.+|||+|||++++.|++..+.. +. ++++.++|..+.+|....+
T Consensus 4 ~FPy~~r~~Q~~~m~~v~~~~~~~~--~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l 81 (289)
T smart00488 4 YFPYEPYPIQYEFMEELKRVLDRGK--IGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEEL 81 (289)
T ss_pred cCCCCCCHHHHHHHHHHHHHHHcCC--cEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHH
Confidence 4899999999999999998887654 88999999999999999999765443 43 8999999999999998888
Q ss_pred HHhh
Q 045263 581 LKLL 584 (742)
Q Consensus 581 ~~~l 584 (742)
++..
T Consensus 82 ~~~~ 85 (289)
T smart00488 82 RKLM 85 (289)
T ss_pred Hhcc
Confidence 7653
No 112
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=99.00 E-value=4.4e-09 Score=112.99 Aligned_cols=76 Identities=21% Similarity=0.242 Sum_probs=65.5
Q ss_pred hCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-CC-----eEEEEcccHHHHHHHHHHH
Q 045263 507 ALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-GY-----QAAFMVPTELLATQHYEHL 580 (742)
Q Consensus 507 ~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g~-----qvlilaPT~~La~Q~~~~l 580 (742)
.|||+++|.|.+.+..+...+..+. +.++.+|||+|||++++.|++..+.. +. ++++.++|..+.+|....+
T Consensus 4 ~FPy~~r~~Q~~~m~~v~~~~~~~~--~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l 81 (289)
T smart00489 4 YFPYEPYPIQYEFMEELKRVLDRGK--IGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEEL 81 (289)
T ss_pred cCCCCCCHHHHHHHHHHHHHHHcCC--cEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHH
Confidence 4899999999999999998887654 88999999999999999999765443 43 8999999999999998888
Q ss_pred HHhh
Q 045263 581 LKLL 584 (742)
Q Consensus 581 ~~~l 584 (742)
++..
T Consensus 82 ~~~~ 85 (289)
T smart00489 82 RKLM 85 (289)
T ss_pred Hhcc
Confidence 7653
No 113
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=99.00 E-value=4e-09 Score=128.91 Aligned_cols=160 Identities=14% Similarity=0.167 Sum_probs=108.5
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---CCeEEEEcccHHHHHHHHHHHHHhhhhc
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---GYQAAFMVPTELLATQHYEHLLKLLDNM 587 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---g~qvlilaPT~~La~Q~~~~l~~~l~~~ 587 (742)
+|+++|.+++.-+..-...+ .+.||.-++|.|||+.++..+...... ...+||++|. .|..||.+++.++++.
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g--~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~-SlL~nW~~Ei~kw~p~- 244 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENG--INGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPK-STLGNWMNEIRRFCPV- 244 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcC--CCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeCh-HHHHHHHHHHHHHCCC-
Confidence 69999999998776543333 377999999999999876665544332 2578999997 5678899999998854
Q ss_pred cCCCCCcEEEEEeCCCChHHHHHHH-HHhhcCCccEEEechHHHhh---ccccCCccEEEEeCCccccccc--hhhhhhh
Q 045263 588 EEDKHKPKIALLTGSTPVKQSRMIR-KDLQTGDITLVIGTHSLIAE---KVEFSALRLAIVDEQQRFGVVQ--RGRFNSK 661 (742)
Q Consensus 588 ~~~~~~i~V~ll~G~~~~~er~~i~-~~l~~G~~~IVVgT~~~l~~---~v~~~~l~LVIIDEaHrfG~~q--r~~l~~k 661 (742)
+++..++|.... +.... ..+..+..+|+|+|.+.+.. .+.--++++|||||+|++--.. +.+....
T Consensus 245 ------l~v~~~~G~~~e--R~~~~~~~~~~~~~dVvITSYe~l~~e~~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~ 316 (1033)
T PLN03142 245 ------LRAVKFHGNPEE--RAHQREELLVAGKFDVCVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRL 316 (1033)
T ss_pred ------CceEEEeCCHHH--HHHHHHHHhcccCCCcceecHHHHHHHHHHhccCCCCEEEEcCccccCCHHHHHHHHHHH
Confidence 467788886432 22222 22345678999999987743 2223357899999999973221 1111111
Q ss_pred hhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 662 LYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 662 ~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
....+.|++|+||+...+...
T Consensus 317 -----------------------L~a~~RLLLTGTPlqNnl~EL 337 (1033)
T PLN03142 317 -----------------------FSTNYRLLITGTPLQNNLHEL 337 (1033)
T ss_pred -----------------------hhcCcEEEEecCCCCCCHHHH
Confidence 023567889999987554443
No 114
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.99 E-value=4.5e-09 Score=129.24 Aligned_cols=91 Identities=23% Similarity=0.283 Sum_probs=71.5
Q ss_pred HHHhC-CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-cCCeEEEEcccHHHHHHHHHH--
Q 045263 504 LLRAL-PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-SGYQAAFMVPTELLATQHYEH-- 579 (742)
Q Consensus 504 ~~~~l-pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~g~qvlilaPT~~La~Q~~~~-- 579 (742)
+...+ +|+.++.|.+.++.|.+.+..+. ..++.|+||+|||++|++|++.... ++.+++|.++|+.|.+|+...
T Consensus 249 l~~~~~~~e~R~~Q~~m~~~v~~~l~~~~--~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~kDi 326 (928)
T PRK08074 249 LSLAMPKYEKREGQQEMMKEVYTALRDSE--HALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEKDI 326 (928)
T ss_pred HHHhCCCCcCCHHHHHHHHHHHHHHhcCC--CEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHhhH
Confidence 34444 49999999999999999887654 7889999999999999999876544 689999999999999999764
Q ss_pred --HHHhhhhccCCCCCcEEEEEeCC
Q 045263 580 --LLKLLDNMEEDKHKPKIALLTGS 602 (742)
Q Consensus 580 --l~~~l~~~~~~~~~i~V~ll~G~ 602 (742)
+.+.++ +. ++++++-|.
T Consensus 327 P~L~~~~~-~~-----~~~~~lKGr 345 (928)
T PRK08074 327 PLLQKIFP-FP-----VEAALLKGR 345 (928)
T ss_pred HHHHHHcC-CC-----ceEEEEEcc
Confidence 344332 22 566666665
No 115
>COG4889 Predicted helicase [General function prediction only]
Probab=98.91 E-value=4.7e-09 Score=121.41 Aligned_cols=134 Identities=17% Similarity=0.190 Sum_probs=92.2
Q ss_pred hCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 507 ALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 507 ~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
.-|..|+|+|+.||+...+++.... +--|.+.+|+|||.+++-.+..... .++|+++|++.|..|..+++..--.
T Consensus 157 ~~~kk~R~hQq~Aid~a~~~F~~n~--RGkLIMAcGTGKTfTsLkisEala~--~~iL~LvPSIsLLsQTlrew~~~~~- 231 (1518)
T COG4889 157 KKPKKPRPHQQTAIDAAKEGFSDND--RGKLIMACGTGKTFTSLKISEALAA--ARILFLVPSISLLSQTLREWTAQKE- 231 (1518)
T ss_pred CCCCCCChhHHHHHHHHHhhccccc--CCcEEEecCCCccchHHHHHHHHhh--hheEeecchHHHHHHHHHHHhhccC-
Confidence 3467899999999999999886633 3355677899999999877665433 7899999999999999888765432
Q ss_pred ccCCCCCcEEEEEeCCCChH--------------------HHHHHHHHh-hcCCccEEEechHHHh-----hccccCCcc
Q 045263 587 MEEDKHKPKIALLTGSTPVK--------------------QSRMIRKDL-QTGDITLVIGTHSLIA-----EKVEFSALR 640 (742)
Q Consensus 587 ~~~~~~~i~V~ll~G~~~~~--------------------er~~i~~~l-~~G~~~IVVgT~~~l~-----~~v~~~~l~ 640 (742)
+. ++...++++.+.+ .-...|... +....-||++|.+.+. +..-+..++
T Consensus 232 l~-----~~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTYQSl~~i~eAQe~G~~~fD 306 (1518)
T COG4889 232 LD-----FRASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTYQSLPRIKEAQEAGLDEFD 306 (1518)
T ss_pred cc-----ceeEEEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEEEcccchHHHHHHHHcCCCCcc
Confidence 11 4444444443211 111111111 2233578899987662 245678899
Q ss_pred EEEEeCCccc
Q 045263 641 LAIVDEQQRF 650 (742)
Q Consensus 641 LVIIDEaHrf 650 (742)
|||.|||||.
T Consensus 307 liicDEAHRT 316 (1518)
T COG4889 307 LIICDEAHRT 316 (1518)
T ss_pred EEEecchhcc
Confidence 9999999995
No 116
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.91 E-value=6.9e-09 Score=123.52 Aligned_cols=127 Identities=17% Similarity=0.181 Sum_probs=102.7
Q ss_pred HHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhh
Q 045263 505 LRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLL 584 (742)
Q Consensus 505 ~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l 584 (742)
.+.++..+.+.|.-.--.+.+ ..+.++.||.|||++|.+|++.....|..|.|++|+..||.|-.+.+..++
T Consensus 76 ~R~lgm~~ydVQliGgl~L~~--------G~IaEm~TGEGKTL~a~lp~~l~al~g~~VhIvT~ndyLA~RD~e~m~~l~ 147 (908)
T PRK13107 76 KRVFEMRHFDVQLLGGMVLDS--------NRIAEMRTGEGKTLTATLPAYLNALTGKGVHVITVNDYLARRDAENNRPLF 147 (908)
T ss_pred HHHhCCCcCchHHhcchHhcC--------CccccccCCCCchHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHHH
Confidence 455677777888654433332 349999999999999999999888899999999999999999999999999
Q ss_pred hhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-hh----ccc-------cCCccEEEEeCCccc
Q 045263 585 DNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-AE----KVE-------FSALRLAIVDEQQRF 650 (742)
Q Consensus 585 ~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-~~----~v~-------~~~l~LVIIDEaHrf 650 (742)
..+| ++|..+.|+.+..++...+ .++|++||++.+ +| .+. ...+.++||||+|.+
T Consensus 148 ~~lG-----lsv~~i~~~~~~~~r~~~Y------~~dI~YgT~~e~gfDyLrdnm~~~~~~~vqr~~~~aIvDEvDsi 214 (908)
T PRK13107 148 EFLG-----LTVGINVAGLGQQEKKAAY------NADITYGTNNEFGFDYLRDNMAFSPQERVQRPLHYALIDEVDSI 214 (908)
T ss_pred HhcC-----CeEEEecCCCCHHHHHhcC------CCCeEEeCCCcccchhhhccCccchhhhhccccceeeecchhhh
Confidence 9998 9999999998876554422 479999999987 33 111 256788999999985
No 117
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.91 E-value=1.7e-08 Score=120.56 Aligned_cols=77 Identities=21% Similarity=0.223 Sum_probs=63.8
Q ss_pred HHHHhCC-CCCCHHHHHHHHHHHHhcCCC---CCCceEEEccCCChHHHHHHHHHHHHH-hcCCeEEEEcccHHHHHHHH
Q 045263 503 KLLRALP-YSLTSSQLSAISEIIWDLKQP---VPMNRLLQGDVGCGKTVVAFLACMEVI-GSGYQAAFMVPTELLATQHY 577 (742)
Q Consensus 503 ~~~~~lp-f~Lt~~Q~~aI~~I~~~~~~~---~~~~~LL~a~TGSGKT~val~ail~~l-~~g~qvlilaPT~~La~Q~~ 577 (742)
.+.+.+| |+.++.|.+.+.+|.+.+... .+...++.|+||+|||+.|++|++... .+|.+++|-+.|+.|.+|+.
T Consensus 16 ~l~~~~~~~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k~vVIST~T~~LQeQL~ 95 (697)
T PRK11747 16 ALQEQLPGFIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKKKLVISTATVALQEQLV 95 (697)
T ss_pred HHHHhCCCCCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCCeEEEEcCCHHHHHHHH
Confidence 3445544 999999999999999888653 134689999999999999999987644 47899999999999999997
Q ss_pred HH
Q 045263 578 EH 579 (742)
Q Consensus 578 ~~ 579 (742)
..
T Consensus 96 ~k 97 (697)
T PRK11747 96 SK 97 (697)
T ss_pred hh
Confidence 44
No 118
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=98.89 E-value=1.1e-08 Score=97.91 Aligned_cols=98 Identities=20% Similarity=0.233 Sum_probs=62.8
Q ss_pred ceEEEccCCChHHHHHH-HHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAF-LACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIR 612 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val-~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~ 612 (742)
..+|...+|+|||--.+ ..+.+++..+.++|+|+||+.+++.+.+.++.. + +++. +.-...
T Consensus 6 ~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~~~----~-----~~~~--t~~~~~------- 67 (148)
T PF07652_consen 6 LTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALKGL----P-----VRFH--TNARMR------- 67 (148)
T ss_dssp EEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTTS----S-----EEEE--STTSS--------
T ss_pred eeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHhcC----C-----cccC--ceeeec-------
Confidence 56889999999998544 445667888999999999999999888776542 2 2222 211111
Q ss_pred HHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCcccc
Q 045263 613 KDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 613 ~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHrfG 651 (742)
-..|..-|-|.||+.+.. .....++++||+||+|-..
T Consensus 68 --~~~g~~~i~vMc~at~~~~~~~p~~~~~yd~II~DEcH~~D 108 (148)
T PF07652_consen 68 --THFGSSIIDVMCHATYGHFLLNPCRLKNYDVIIMDECHFTD 108 (148)
T ss_dssp -----SSSSEEEEEHHHHHHHHHTSSCTTS-SEEEECTTT--S
T ss_pred --cccCCCcccccccHHHHHHhcCcccccCccEEEEeccccCC
Confidence 113456788899987633 4456789999999999863
No 119
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=98.83 E-value=9.8e-09 Score=120.32 Aligned_cols=163 Identities=18% Similarity=0.191 Sum_probs=121.4
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
.|.+..+|.+.++.+-.+ ...+|.+||.+|||.+-.+++-.+++. ..-+++++||++|++|....+...+..
T Consensus 509 dF~Pd~WQ~elLDsvDr~------eSavIVAPTSaGKTfisfY~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~ 582 (1330)
T KOG0949|consen 509 DFCPDEWQRELLDSVDRN------ESAVIVAPTSAGKTFISFYAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARFDT 582 (1330)
T ss_pred ccCCcHHHHHHhhhhhcc------cceEEEeeccCCceeccHHHHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhhcc
Confidence 478999999988775442 267999999999999999998888765 467899999999999999999888732
Q ss_pred ccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhc--------cccCCccEEEEeCCccccccchhhh
Q 045263 587 MEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEK--------VEFSALRLAIVDEQQRFGVVQRGRF 658 (742)
Q Consensus 587 ~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~--------v~~~~l~LVIIDEaHrfG~~qr~~l 658 (742)
.- ..+...+.|..+..-+...| .++|+|+-|+.++.. ...+++++||+||+|..|....+.+
T Consensus 583 ~t----~~rg~sl~g~ltqEYsinp~------nCQVLITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~ed~l~ 652 (1330)
T KOG0949|consen 583 KT----FLRGVSLLGDLTQEYSINPW------NCQVLITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNEEDGLL 652 (1330)
T ss_pred Cc----cccchhhHhhhhHHhcCCch------hceEEEEchHHHHHHhcCchhhhhhhhcceEEEechhhhccccccchH
Confidence 11 03444566666654443322 379999999987542 2356789999999999998887777
Q ss_pred hhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHc
Q 045263 659 NSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALY 707 (742)
Q Consensus 659 ~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~ 707 (742)
++...+. ..+| +|++||| .+|.-+..++.
T Consensus 653 ~Eqll~l-------------------i~CP-~L~LSATigN~~l~qkWln 682 (1330)
T KOG0949|consen 653 WEQLLLL-------------------IPCP-FLVLSATIGNPNLFQKWLN 682 (1330)
T ss_pred HHHHHHh-------------------cCCC-eeEEecccCCHHHHHHHHH
Confidence 6654221 2356 8889999 66777777765
No 120
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=98.74 E-value=2.3e-07 Score=98.30 Aligned_cols=131 Identities=21% Similarity=0.221 Sum_probs=103.7
Q ss_pred HHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHH
Q 045263 502 KKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 502 ~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~ 581 (742)
+...+.+++.|++.|.-++-.+.. ..|.+..||-|||+++.++++.....|..|-++....-||..=++.+.
T Consensus 68 ea~~r~~g~~p~~vQll~~l~L~~--------G~laEm~TGEGKTli~~l~a~~~AL~G~~V~vvT~NdyLA~RD~~~~~ 139 (266)
T PF07517_consen 68 EAARRTLGLRPYDVQLLGALALHK--------GRLAEMKTGEGKTLIAALPAALNALQGKGVHVVTSNDYLAKRDAEEMR 139 (266)
T ss_dssp HHHHHHTS----HHHHHHHHHHHT--------TSEEEESTTSHHHHHHHHHHHHHHTTSS-EEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHcCCcccHHHHhhhhhccc--------ceeEEecCCCCcHHHHHHHHHHHHHhcCCcEEEeccHHHhhccHHHHH
Confidence 344567888999999988876644 349999999999999999988888899999999999999999999999
Q ss_pred HhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHh-----h-------ccccCCccEEEEeCCcc
Q 045263 582 KLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIA-----E-------KVEFSALRLAIVDEQQR 649 (742)
Q Consensus 582 ~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~-----~-------~v~~~~l~LVIIDEaHr 649 (742)
.++..+| ++++..+++.+..+|...+. ++|+-||.+.+. + ......+.++||||+|.
T Consensus 140 ~~y~~LG-----lsv~~~~~~~~~~~r~~~Y~------~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~~~~ivDEvDs 208 (266)
T PF07517_consen 140 PFYEFLG-----LSVGIITSDMSSEERREAYA------ADIVYGTNSEFGFDYLRDNLALSKNEQVQRGFDFAIVDEVDS 208 (266)
T ss_dssp HHHHHTT-------EEEEETTTEHHHHHHHHH------SSEEEEEHHHHHHHHHHHTT-SSGGG--SSSSSEEEECTHHH
T ss_pred HHHHHhh-----hccccCccccCHHHHHHHHh------CcccccccchhhHHHHHHHHhhccchhccCCCCEEEEeccce
Confidence 9999999 99999999999888877664 589999988662 1 11246788999999998
Q ss_pred cc
Q 045263 650 FG 651 (742)
Q Consensus 650 fG 651 (742)
+-
T Consensus 209 ~L 210 (266)
T PF07517_consen 209 IL 210 (266)
T ss_dssp HT
T ss_pred EE
Confidence 63
No 121
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=98.65 E-value=1.6e-07 Score=100.61 Aligned_cols=173 Identities=19% Similarity=0.225 Sum_probs=119.8
Q ss_pred chH-HHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHH
Q 045263 497 WSS-LTKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLAT 574 (742)
Q Consensus 497 ~~~-l~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~ 574 (742)
|+. ..+-+.+.+..+ ++|.|..+|+..+.+ ...++..|||.||+++|.+|++- . ..-+|+++|.+.|++
T Consensus 78 ws~e~~~ilk~~f~lekfrplq~~ain~~ma~------ed~~lil~tgggkslcyqlpal~--a-dg~alvi~plislme 148 (695)
T KOG0353|consen 78 WSDEAKDILKEQFHLEKFRPLQLAAINATMAG------EDAFLILPTGGGKSLCYQLPALC--A-DGFALVICPLISLME 148 (695)
T ss_pred CchHHHHHHHHHhhHHhcChhHHHHhhhhhcc------CceEEEEeCCCccchhhhhhHHh--c-CCceEeechhHHHHH
Confidence 544 444455556665 899999999998874 26799999999999999999873 3 556999999999999
Q ss_pred HHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcC--CccEEEechHHHhh----------ccccCCccEE
Q 045263 575 QHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTG--DITLVIGTHSLIAE----------KVEFSALRLA 642 (742)
Q Consensus 575 Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G--~~~IVVgT~~~l~~----------~v~~~~l~LV 642 (742)
.+.-.++.+ | +....+....+..+-..+-..+.+. +..++-.||+.+.. .+....+.+|
T Consensus 149 dqil~lkql----g-----i~as~lnansske~~k~v~~~i~nkdse~kliyvtpekiaksk~~mnkleka~~~~~~~~i 219 (695)
T KOG0353|consen 149 DQILQLKQL----G-----IDASMLNANSSKEEAKRVEAAITNKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAGFFKLI 219 (695)
T ss_pred HHHHHHHHh----C-----cchhhccCcccHHHHHHHHHHHcCCCceeEEEEecHHHHHHHHHHHHHHHHHhhcceeEEE
Confidence 888777764 3 6667777777776666655555553 56788999987632 3445678899
Q ss_pred EEeCCccc---cccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHH
Q 045263 643 IVDEQQRF---GVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLAL 704 (742)
Q Consensus 643 IIDEaHrf---G~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~ 704 (742)
-|||.|.. |...|..+..-+ +.+....+. .+|++|||..-..+..
T Consensus 220 aidevhccsqwghdfr~dy~~l~----------------ilkrqf~~~-~iigltatatn~vl~d 267 (695)
T KOG0353|consen 220 AIDEVHCCSQWGHDFRPDYKALG----------------ILKRQFKGA-PIIGLTATATNHVLDD 267 (695)
T ss_pred eecceeehhhhCcccCcchHHHH----------------HHHHhCCCC-ceeeeehhhhcchhhH
Confidence 99999974 444443221110 001122334 4999999966555443
No 122
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.63 E-value=1e-07 Score=114.65 Aligned_cols=78 Identities=14% Similarity=0.223 Sum_probs=66.2
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc----CCeEEEEcccHHHHHHHHHHHHHhh
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS----GYQAAFMVPTELLATQHYEHLLKLL 584 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~----g~qvlilaPT~~La~Q~~~~l~~~l 584 (742)
+....+.|..+++.+......+. .+++.+|||+|||.+++.+++..... ..+++++.|++.++++++++++.++
T Consensus 193 ~~~~~~~~~~~~~~~~~~~~~~~--~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~ 270 (733)
T COG1203 193 EHEGYELQEKALELILRLEKRSL--LVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIF 270 (733)
T ss_pred CchhhHHHHHHHHHHHhcccccc--cEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhh
Confidence 33468999999999988654432 88999999999999999998888777 5789999999999999999999988
Q ss_pred hhcc
Q 045263 585 DNME 588 (742)
Q Consensus 585 ~~~~ 588 (742)
...+
T Consensus 271 ~~~~ 274 (733)
T COG1203 271 GLFS 274 (733)
T ss_pred cccc
Confidence 6544
No 123
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.56 E-value=1.1e-06 Score=109.31 Aligned_cols=156 Identities=15% Similarity=0.190 Sum_probs=88.6
Q ss_pred ceEEEccCCChHHHHHHHHHH-HHHhcCC--eEEEEcc----cHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChH
Q 045263 534 NRLLQGDVGCGKTVVAFLACM-EVIGSGY--QAAFMVP----TELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVK 606 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail-~~l~~g~--qvlilaP----T~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~ 606 (742)
.++++|+||||||.. +|.+ .....|. .+++.-| +++||.|+.+++...+ | -.|+.-..-.+
T Consensus 91 VviI~GeTGSGKTTq--lPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~~l---G-----~~VGY~vrf~~-- 158 (1294)
T PRK11131 91 VVIVAGETGSGKTTQ--LPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELETEL---G-----GCVGYKVRFND-- 158 (1294)
T ss_pred eEEEECCCCCCHHHH--HHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhhhh---c-----ceeceeecCcc--
Confidence 578999999999983 5533 2222332 3334457 4567777777766432 2 12222111111
Q ss_pred HHHHHHHHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCccccccch--hhhhhhhhccccccccccccCCCCC
Q 045263 607 QSRMIRKDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQRFGVVQR--GRFNSKLYYTSMSSGMAMVNSDGSP 680 (742)
Q Consensus 607 er~~i~~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHrfG~~qr--~~l~~k~~~~~~~~~~~~~~~~~~~ 680 (742)
.. +...+|+++|++.+.+ ...+.++++|||||+|....... ..+.....
T Consensus 159 -------~~-s~~t~I~v~TpG~LL~~l~~d~~Ls~~~~IIIDEAHERsLn~DfLLg~Lk~lL----------------- 213 (1294)
T PRK11131 159 -------QV-SDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELL----------------- 213 (1294)
T ss_pred -------cc-CCCCCEEEEChHHHHHHHhcCCccccCcEEEecCccccccccchHHHHHHHhh-----------------
Confidence 01 2247999999998854 23478999999999995322211 11111100
Q ss_pred CCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEEEcC
Q 045263 681 KDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRIPIKTYIIEG 732 (742)
Q Consensus 681 r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~~~~ 732 (742)
. .....++++||||..++.++.. ++...+..+ +....||++++...
T Consensus 214 -~-~rpdlKvILmSATid~e~fs~~-F~~apvI~V---~Gr~~pVei~y~p~ 259 (1294)
T PRK11131 214 -P-RRPDLKVIITSATIDPERFSRH-FNNAPIIEV---SGRTYPVEVRYRPI 259 (1294)
T ss_pred -h-cCCCceEEEeeCCCCHHHHHHH-cCCCCEEEE---cCccccceEEEeec
Confidence 0 0124589999999888766654 343333333 32235788777654
No 124
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=98.51 E-value=1.2e-06 Score=101.28 Aligned_cols=162 Identities=16% Similarity=0.249 Sum_probs=113.0
Q ss_pred CCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHH--HHHHhc-CCeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 510 YSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLAC--MEVIGS-GYQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 510 f~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ai--l~~l~~-g~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
.+|+++|.+-++-+..-...+. |.++.-..|-|||+-.+..+ +..... .+.-||++|-..|.+ |..+|+++.+.
T Consensus 166 g~lr~YQveGlnWLi~l~engi--ngILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~N-W~~Ef~rf~P~ 242 (971)
T KOG0385|consen 166 GELRDYQLEGLNWLISLYENGI--NGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLDN-WMNEFKRFTPS 242 (971)
T ss_pred CccchhhhccHHHHHHHHhcCc--ccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhhHHH-HHHHHHHhCCC
Confidence 4699999999998887666655 88999999999998754333 332222 467999999987755 78889998865
Q ss_pred ccCCCCCcEEEEEeCCCChHHHHHHHHHh-hcCCccEEEechHHHhh---ccccCCccEEEEeCCccccccchhhhhhhh
Q 045263 587 MEEDKHKPKIALLTGSTPVKQSRMIRKDL-QTGDITLVIGTHSLIAE---KVEFSALRLAIVDEQQRFGVVQRGRFNSKL 662 (742)
Q Consensus 587 ~~~~~~~i~V~ll~G~~~~~er~~i~~~l-~~G~~~IVVgT~~~l~~---~v~~~~l~LVIIDEaHrfG~~qr~~l~~k~ 662 (742)
+.+..++|+. .+|....+.+ ..|..+|+|+|.+.... .+.--++.++||||+||.--.. ..|...+
T Consensus 243 -------l~~~~~~Gdk--~eR~~~~r~~~~~~~fdV~iTsYEi~i~dk~~lk~~~W~ylvIDEaHRiKN~~-s~L~~~l 312 (971)
T KOG0385|consen 243 -------LNVVVYHGDK--EERAALRRDIMLPGRFDVCITSYEIAIKDKSFLKKFNWRYLVIDEAHRIKNEK-SKLSKIL 312 (971)
T ss_pred -------cceEEEeCCH--HHHHHHHHHhhccCCCceEeehHHHHHhhHHHHhcCCceEEEechhhhhcchh-hHHHHHH
Confidence 5788899975 5555555443 45689999999986632 3333467899999999973222 2222111
Q ss_pred hccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHH
Q 045263 663 YYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLAL 704 (742)
Q Consensus 663 ~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~ 704 (742)
.. ....+.|++|.||+.-.|..
T Consensus 313 r~--------------------f~~~nrLLlTGTPLQNNL~E 334 (971)
T KOG0385|consen 313 RE--------------------FKTDNRLLLTGTPLQNNLHE 334 (971)
T ss_pred HH--------------------hcccceeEeeCCcccccHHH
Confidence 00 12456788899998766544
No 125
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=98.50 E-value=3.2e-07 Score=108.39 Aligned_cols=167 Identities=20% Similarity=0.185 Sum_probs=122.8
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH-HhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCC
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV-IGSGYQAAFMVPTELLATQHYEHLLKLLDNMEED 590 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~-l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~ 590 (742)
+..+|.+++..=.- . ...|.+...||+.|||+|+-+.++.. +..++.++++.|..+.+......+..++..+|
T Consensus 224 ~fewq~ecls~~~~--~--e~~nliys~Pts~gktlvaeilml~~~l~~rr~~llilp~vsiv~Ek~~~l~~~~~~~G-- 297 (1008)
T KOG0950|consen 224 LFEWQAECLSLPRL--L--ERKNLIYSLPTSAGKTLVAEILMLREVLCRRRNVLLILPYVSIVQEKISALSPFSIDLG-- 297 (1008)
T ss_pred HHHHHHHHhcchhh--h--cccceEEeCCCccchHHHHHHHHHHHHHHHhhceeEecceeehhHHHHhhhhhhccccC--
Confidence 77888888754211 1 12489999999999999998777665 45578899999999999999999999888888
Q ss_pred CCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-------hhccccCCccEEEEeCCccccccchhhhhh---
Q 045263 591 KHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-------AEKVEFSALRLAIVDEQQRFGVVQRGRFNS--- 660 (742)
Q Consensus 591 ~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-------~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~--- 660 (742)
+.|.-+.|..++..+.. .-++-|+|-+.- .+.-....+|+|||||-|.+|-+.|+...+
T Consensus 298 ---~~ve~y~g~~~p~~~~k--------~~sv~i~tiEkanslin~lie~g~~~~~g~vvVdElhmi~d~~rg~~lE~~l 366 (1008)
T KOG0950|consen 298 ---FPVEEYAGRFPPEKRRK--------RESVAIATIEKANSLINSLIEQGRLDFLGMVVVDELHMIGDKGRGAILELLL 366 (1008)
T ss_pred ---CcchhhcccCCCCCccc--------ceeeeeeehHhhHhHHHHHHhcCCccccCcEEEeeeeeeeccccchHHHHHH
Confidence 88888888877654433 257889997632 223356789999999999999888854433
Q ss_pred -hhhccccccccccccCCCCCCCCCCCCCcEEEEcCC-CCHHHHHHHHcCCCCe
Q 045263 661 -KLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSAT-PIPRTLALALYGDMSL 712 (742)
Q Consensus 661 -k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSAT-Piprtla~~l~gdl~~ 712 (742)
|..... .....++++|||| |+..-++.++..++-.
T Consensus 367 ~k~~y~~-----------------~~~~~~iIGMSATi~N~~lL~~~L~A~~y~ 403 (1008)
T KOG0950|consen 367 AKILYEN-----------------LETSVQIIGMSATIPNNSLLQDWLDAFVYT 403 (1008)
T ss_pred HHHHHhc-----------------cccceeEeeeecccCChHHHHHHhhhhhee
Confidence 321110 1122579999999 8888888888765433
No 126
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=98.46 E-value=9.4e-07 Score=105.31 Aligned_cols=130 Identities=16% Similarity=0.152 Sum_probs=105.5
Q ss_pred HHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHH
Q 045263 502 KKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 502 ~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~ 581 (742)
+.....++..+++.|.-..-.+.+ ..+.++.||.|||+++.+|++.....|..|-++.++..||.+-++.+.
T Consensus 67 Ea~~R~lG~r~ydvQlig~l~L~~--------G~IaEm~TGEGKTL~a~l~ayl~aL~G~~VhVvT~NdyLA~RD~e~m~ 138 (870)
T CHL00122 67 EASFRTLGLRHFDVQLIGGLVLND--------GKIAEMKTGEGKTLVATLPAYLNALTGKGVHIVTVNDYLAKRDQEWMG 138 (870)
T ss_pred HHHHHHhCCCCCchHhhhhHhhcC--------CccccccCCCCchHHHHHHHHHHHhcCCceEEEeCCHHHHHHHHHHHH
Confidence 334456777788888766543332 349999999999999999998777789999999999999999999999
Q ss_pred HhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-----hhcc-------ccCCccEEEEeCCcc
Q 045263 582 KLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-----AEKV-------EFSALRLAIVDEQQR 649 (742)
Q Consensus 582 ~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-----~~~v-------~~~~l~LVIIDEaHr 649 (742)
.++..+| ++|++..++++..+|+..+. +||+-||.+.+ .|.+ ....+.++||||+|.
T Consensus 139 pvy~~LG-----Lsvg~i~~~~~~~err~aY~------~DItYgTn~e~gFDyLRDnm~~~~~~~v~r~~~faIVDEvDS 207 (870)
T CHL00122 139 QIYRFLG-----LTVGLIQEGMSSEERKKNYL------KDITYVTNSELGFDYLRDNMALSLSDVVQRPFNYCIIDEVDS 207 (870)
T ss_pred HHHHHcC-----CceeeeCCCCChHHHHHhcC------CCCEecCCccccccchhhccCcChHHhhccccceeeeecchh
Confidence 9999998 99999999999988887653 69999998754 2221 235688999999998
Q ss_pred c
Q 045263 650 F 650 (742)
Q Consensus 650 f 650 (742)
.
T Consensus 208 i 208 (870)
T CHL00122 208 I 208 (870)
T ss_pred h
Confidence 5
No 127
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=98.46 E-value=3.2e-06 Score=102.26 Aligned_cols=142 Identities=15% Similarity=0.216 Sum_probs=90.1
Q ss_pred CCCCHHHHHHHHHHHHhcCC--------------------------------CCCCceEEEccCCChHHHHHHHHHHHHH
Q 045263 510 YSLTSSQLSAISEIIWDLKQ--------------------------------PVPMNRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 510 f~Lt~~Q~~aI~~I~~~~~~--------------------------------~~~~~~LL~a~TGSGKT~val~ail~~l 557 (742)
|+--|+|++|+++|...+.. ....++.+.++||+|||.+|+..|++..
T Consensus 5 ~e~l~hQ~~av~ai~~~F~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~n~~~~M~TGtGKT~~~~~~i~~l~ 84 (986)
T PRK15483 5 LEELPHQEQALAAILAAFTGIDIASADPNHYANPLIKLRYENGIPGRSRTRIDDKANIDIKMETGTGKTYVYTRLMYELH 84 (986)
T ss_pred cccChhHHHHHHHHHHHhcCCCccCCccccccCcccccchhhccccccccccCccceEEEEeCCCCCHHHHHHHHHHHHH
Confidence 34467888888888764421 1124789999999999999999999887
Q ss_pred hc-C-CeEEEEcccHHHHHHHHHHHH-----HhhhhccCCCCCcEEEEEeCCCCh-HHH---HHHHHHhhcC------Cc
Q 045263 558 GS-G-YQAAFMVPTELLATQHYEHLL-----KLLDNMEEDKHKPKIALLTGSTPV-KQS---RMIRKDLQTG------DI 620 (742)
Q Consensus 558 ~~-g-~qvlilaPT~~La~Q~~~~l~-----~~l~~~~~~~~~i~V~ll~G~~~~-~er---~~i~~~l~~G------~~ 620 (742)
.. | .+++|+||+.+.-+.+.+.+. ..|...- +...+....+.++... +.| -..+..+..+ .+
T Consensus 85 ~~~~~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y-~~~~~~~~~~~S~k~~k~gr~~~~~~i~~Fa~~~~~~~~~I 163 (986)
T PRK15483 85 QKYGLFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFY-ENTRIELYVINAGDKKKSGRKNFPAQLSNFVKASRQNSNTI 163 (986)
T ss_pred HHcCCcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHc-CCceeEEEEEecCcccccccccChHHHHHHHhccccCCCce
Confidence 66 5 579999999999888876655 3343211 1122555666654311 111 0111222222 58
Q ss_pred cEEEechHHHhhcc----------------ccCCc----cEEEEeCCccccc
Q 045263 621 TLVIGTHSLIAEKV----------------EFSAL----RLAIVDEQQRFGV 652 (742)
Q Consensus 621 ~IVVgT~~~l~~~v----------------~~~~l----~LVIIDEaHrfG~ 652 (742)
+|+|.|-+.+.... ++..+ -.||+||.|+|..
T Consensus 164 ~Ilv~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~~~PivIiDEPh~~~~ 215 (986)
T PRK15483 164 HVLLINAGMLNSASMTRDDYDQTLLGGFTSPVDALAATRPVVIIDEPHRFPR 215 (986)
T ss_pred EEEEEehHHhcccccccchhhhhhccCCCChHHHHHhCCCEEEEECCCCCCc
Confidence 99999998875421 11111 2689999999943
No 128
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=98.43 E-value=1.4e-06 Score=103.74 Aligned_cols=128 Identities=16% Similarity=0.147 Sum_probs=105.7
Q ss_pred HHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 504 LLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 504 ~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
-.+.++..+.+.|.-.--.+.+ ..+.++.||.|||+++.+|++.....|+.|-++.++.-||..=++.+..+
T Consensus 78 ~~R~lG~r~ydVQliGgl~Lh~--------G~IAEM~TGEGKTL~atlpaylnAL~GkgVhVVTvNdYLA~RDae~m~~v 149 (939)
T PRK12902 78 SKRVLGMRHFDVQLIGGMVLHE--------GQIAEMKTGEGKTLVATLPSYLNALTGKGVHVVTVNDYLARRDAEWMGQV 149 (939)
T ss_pred HHHHhCCCcchhHHHhhhhhcC--------CceeeecCCCChhHHHHHHHHHHhhcCCCeEEEeCCHHHHHhHHHHHHHH
Confidence 3456777788888765544433 23999999999999999999988899999999999999999999999999
Q ss_pred hhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-----hhc-------cccCCccEEEEeCCccc
Q 045263 584 LDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-----AEK-------VEFSALRLAIVDEQQRF 650 (742)
Q Consensus 584 l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-----~~~-------v~~~~l~LVIIDEaHrf 650 (742)
+..+| ++|++..++++..+|...+ .+||+.||.+.+ .|. .....+.++||||+|..
T Consensus 150 y~~LG-----Ltvg~i~~~~~~~err~aY------~~DItYgTn~e~gFDYLRDnm~~~~~~~vqR~~~faIVDEvDSI 217 (939)
T PRK12902 150 HRFLG-----LSVGLIQQDMSPEERKKNY------ACDITYATNSELGFDYLRDNMATDISEVVQRPFNYCVIDEVDSI 217 (939)
T ss_pred HHHhC-----CeEEEECCCCChHHHHHhc------CCCeEEecCCcccccchhhhhcccccccccCccceEEEecccce
Confidence 99998 9999999999888887655 379999999876 221 12466889999999985
No 129
>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=98.42 E-value=1.4e-06 Score=108.77 Aligned_cols=158 Identities=16% Similarity=0.206 Sum_probs=92.8
Q ss_pred ceEEEccCCChHHHHHHHHHHHH-HhcC--CeEEEEcccHHHHHHHHHHHHHhhhh-ccCCCCCcEEEEEeCCCChHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEV-IGSG--YQAAFMVPTELLATQHYEHLLKLLDN-MEEDKHKPKIALLTGSTPVKQSR 609 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~-l~~g--~qvlilaPT~~La~Q~~~~l~~~l~~-~~~~~~~i~V~ll~G~~~~~er~ 609 (742)
.++|+|+||||||... |.+.. ...| ..+++.-|.+.-|..+++++.+.+.. .| -.|+.-....+.
T Consensus 84 vvii~g~TGSGKTTql--Pq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg~~lG-----~~VGY~vR~~~~---- 152 (1283)
T TIGR01967 84 VVIIAGETGSGKTTQL--PKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLG-----EKVGYKVRFHDQ---- 152 (1283)
T ss_pred eEEEeCCCCCCcHHHH--HHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhCCCcc-----eEEeeEEcCCcc----
Confidence 6799999999999843 43322 1123 24555669988888888887776531 12 233321111111
Q ss_pred HHHHHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCccccccchh--hhhhhhhccccccccccccCCCCCCCC
Q 045263 610 MIRKDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQRFGVVQRG--RFNSKLYYTSMSSGMAMVNSDGSPKDD 683 (742)
Q Consensus 610 ~i~~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHrfG~~qr~--~l~~k~~~~~~~~~~~~~~~~~~~r~~ 683 (742)
.+....|+++|++.+.+ .-.+.++++|||||+|..+..... .+...... .+
T Consensus 153 ------~s~~T~I~~~TdGiLLr~l~~d~~L~~~~~IIIDEaHERsL~~D~LL~lLk~il~---------------~r-- 209 (1283)
T TIGR01967 153 ------VSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLP---------------RR-- 209 (1283)
T ss_pred ------cCCCceeeeccccHHHHHhhhCcccccCcEEEEcCcchhhccchhHHHHHHHHHh---------------hC--
Confidence 12346899999998754 334789999999999953332221 11111100 01
Q ss_pred CCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCC-CCcEEEEEcC
Q 045263 684 QHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGR-IPIKTYIIEG 732 (742)
Q Consensus 684 ~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr-~~i~t~~~~~ 732 (742)
...++++||||..++.++... +...+..+ | || .||++++...
T Consensus 210 --pdLKlIlmSATld~~~fa~~F-~~apvI~V---~-Gr~~PVev~Y~~~ 252 (1283)
T TIGR01967 210 --PDLKIIITSATIDPERFSRHF-NNAPIIEV---S-GRTYPVEVRYRPL 252 (1283)
T ss_pred --CCCeEEEEeCCcCHHHHHHHh-cCCCEEEE---C-CCcccceeEEecc
Confidence 245799999998877766664 33333222 3 44 5788777543
No 130
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=98.37 E-value=1e-06 Score=89.49 Aligned_cols=67 Identities=25% Similarity=0.254 Sum_probs=50.6
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH--------HhcCCeEEEEcccHHHHHHHHHHHHH
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV--------IGSGYQAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~--------l~~g~qvlilaPT~~La~Q~~~~l~~ 582 (742)
.|++.|.+|+..++..- .-.+|+||+|||||.+....+... ...+.++++++||..-++++.+.+.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~-----~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 1 KLNESQREAIQSALSSN-----GITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp ---HHHHHHHHHHCTSS-----E-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHHHHcCC-----CCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 37899999998877631 027999999999998776666655 35578999999999999999999888
No 131
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=98.37 E-value=3e-06 Score=98.49 Aligned_cols=163 Identities=18% Similarity=0.151 Sum_probs=106.6
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHH--HHHHHHHH-hcCCeEEEEcccHHHHHHHHHHHHHhhhhcc
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVA--FLACMEVI-GSGYQAAFMVPTELLATQHYEHLLKLLDNME 588 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~va--l~ail~~l-~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~ 588 (742)
|.++|++.+.-+.+-.... .--+|--+.|-|||+-. +++.+..- .--..+||++|.. +..||.++|..|++.
T Consensus 206 Lf~yQreGV~WL~~L~~q~--~GGILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~T-ii~qW~~E~~~w~p~-- 280 (923)
T KOG0387|consen 206 LFPYQREGVQWLWELYCQR--AGGILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPAT-IIHQWMKEFQTWWPP-- 280 (923)
T ss_pred hhHHHHHHHHHHHHHHhcc--CCCeecccccCccchhHHHHHHHHhhcccccCceEEEccHH-HHHHHHHHHHHhCcc--
Confidence 7899999998876543322 23489999999999753 33333222 1236899999996 678999999999876
Q ss_pred CCCCCcEEEEEeCCCCh---------HHHHHHHHHhhcCCccEEEechHHHh---hccccCCccEEEEeCCccccccchh
Q 045263 589 EDKHKPKIALLTGSTPV---------KQSRMIRKDLQTGDITLVIGTHSLIA---EKVEFSALRLAIVDEQQRFGVVQRG 656 (742)
Q Consensus 589 ~~~~~i~V~ll~G~~~~---------~er~~i~~~l~~G~~~IVVgT~~~l~---~~v~~~~l~LVIIDEaHrfG~~qr~ 656 (742)
.+|.++||..+. ..+..++.+...-...|+|+|.+.+. +.+.-..++++|+||.|+.--..-.
T Consensus 281 -----~rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~~d~l~~~~W~y~ILDEGH~IrNpns~ 355 (923)
T KOG0387|consen 281 -----FRVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQGDDLLGILWDYVILDEGHRIRNPNSK 355 (923)
T ss_pred -----eEEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhcccCcccccccccEEEecCcccccCCccH
Confidence 578999887663 11122222222334579999988773 2455567899999999996211111
Q ss_pred hhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 657 RFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 657 ~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
.... + .....+|.+.+|.||+.-.|...
T Consensus 356 isla------------------c---kki~T~~RiILSGTPiQNnL~EL 383 (923)
T KOG0387|consen 356 ISLA------------------C---KKIRTVHRIILSGTPIQNNLTEL 383 (923)
T ss_pred HHHH------------------H---HhccccceEEeeCccccchHHHH
Confidence 0000 0 00135688889999998776554
No 132
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=98.36 E-value=4.9e-06 Score=98.48 Aligned_cols=168 Identities=15% Similarity=0.118 Sum_probs=109.8
Q ss_pred CCCHHHHHHHHHHHHhcCCC----CCCceEEEccCCChHHHHHHHHHHHHHhc--C-----CeEEEEcccHHHHHHHHHH
Q 045263 511 SLTSSQLSAISEIIWDLKQP----VPMNRLLQGDVGCGKTVVAFLACMEVIGS--G-----YQAAFMVPTELLATQHYEH 579 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~----~~~~~LL~a~TGSGKT~val~ail~~l~~--g-----~qvlilaPT~~La~Q~~~~ 579 (742)
.|+|+|++.++=+.+.+... ...-+++.-..|+|||+..+.-+...+.. + .+.+|++|. .|+..|+++
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~-sLv~nWkkE 316 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPS-SLVNNWKKE 316 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccH-HHHHHHHHH
Confidence 59999999999998876544 34467888899999999877666666655 3 568999998 588999999
Q ss_pred HHHhhhhccCCCCCcEEEEEeCCCCh-H-HHHHHH-HHhhcCCccEEEechHHHh---hccccCCccEEEEeCCcccccc
Q 045263 580 LLKLLDNMEEDKHKPKIALLTGSTPV-K-QSRMIR-KDLQTGDITLVIGTHSLIA---EKVEFSALRLAIVDEQQRFGVV 653 (742)
Q Consensus 580 l~~~l~~~~~~~~~i~V~ll~G~~~~-~-er~~i~-~~l~~G~~~IVVgT~~~l~---~~v~~~~l~LVIIDEaHrfG~~ 653 (742)
|.+|..... +.+..+.|.... . ....++ ..-.+-...|.+-+.+.+. +.+....++++|+||.|+.- .
T Consensus 317 F~KWl~~~~-----i~~l~~~~~~~~~w~~~~sil~~~~~~~~~~vli~sye~~~~~~~~il~~~~glLVcDEGHrlk-N 390 (776)
T KOG0390|consen 317 FGKWLGNHR-----INPLDFYSTKKSSWIKLKSILFLGYKQFTTPVLIISYETASDYCRKILLIRPGLLVCDEGHRLK-N 390 (776)
T ss_pred HHHhccccc-----cceeeeecccchhhhhhHHHHHhhhhheeEEEEeccHHHHHHHHHHHhcCCCCeEEECCCCCcc-c
Confidence 999986422 555556665543 0 011111 1111112345566666553 35567889999999999962 1
Q ss_pred chhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 654 QRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 654 qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
+...++.-+ .. -..++.|++|.||+.-.+...
T Consensus 391 ~~s~~~kaL-------------------~~-l~t~rRVLLSGTp~QNdl~Ey 422 (776)
T KOG0390|consen 391 SDSLTLKAL-------------------SS-LKTPRRVLLTGTPIQNDLKEY 422 (776)
T ss_pred hhhHHHHHH-------------------Hh-cCCCceEEeeCCcccccHHHH
Confidence 122222211 00 135778888999987665544
No 133
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=98.35 E-value=2.5e-07 Score=102.39 Aligned_cols=124 Identities=14% Similarity=0.150 Sum_probs=95.8
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCC
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEED 590 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~ 590 (742)
.++|+|++.+..+..+ ++...-+|+.|.|+|||+|.+.++... .+.+|+++.+-.-++||...|+.|..--+
T Consensus 302 ~iRpYQEksL~KMFGN---gRARSGiIVLPCGAGKtLVGvTAa~ti---kK~clvLcts~VSVeQWkqQfk~wsti~d-- 373 (776)
T KOG1123|consen 302 QIRPYQEKSLSKMFGN---GRARSGIIVLPCGAGKTLVGVTAACTI---KKSCLVLCTSAVSVEQWKQQFKQWSTIQD-- 373 (776)
T ss_pred ccCchHHHHHHHHhCC---CcccCceEEEecCCCCceeeeeeeeee---cccEEEEecCccCHHHHHHHHHhhcccCc--
Confidence 4999999999988753 344466999999999999988776643 67899999999999999999999875433
Q ss_pred CCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-------------hhccccCCccEEEEeCCccccccc
Q 045263 591 KHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-------------AEKVEFSALRLAIVDEQQRFGVVQ 654 (742)
Q Consensus 591 ~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-------------~~~v~~~~l~LVIIDEaHrfG~~q 654 (742)
-.++.+|++.+. + ..+.+.|+|+|.+.+ .+.+.-..+|++|+||+|-.....
T Consensus 374 ---~~i~rFTsd~Ke--~-------~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEVHvvPA~M 438 (776)
T KOG1123|consen 374 ---DQICRFTSDAKE--R-------FPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHVVPAKM 438 (776)
T ss_pred ---cceEEeeccccc--c-------CCCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEeehhccchHHH
Confidence 467888876542 1 123478999997755 235556789999999999865444
No 134
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=98.31 E-value=3.8e-06 Score=97.65 Aligned_cols=131 Identities=24% Similarity=0.350 Sum_probs=99.7
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHH--HHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVA--FLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~va--l~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
-+++|-++|.--++-+.--.+. .++.+|.-..|-|||.-. +++.+........=||+||.-.| +.|.++|.+|++
T Consensus 396 s~i~LkdYQlvGvNWL~Llyk~--~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTl-eNWlrEf~kwCP 472 (941)
T KOG0389|consen 396 SGIQLKDYQLVGVNWLLLLYKK--KLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTL-ENWLREFAKWCP 472 (941)
T ss_pred CCCcccchhhhhHHHHHHHHHc--cccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchhH-HHHHHHHHHhCC
Confidence 3577999999888876543322 367899999999999764 44444333334677999999766 568899999997
Q ss_pred hccCCCCCcEEEEEeCCCChHHHHHHHHHhhcC--CccEEEechHHHhh------ccccCCccEEEEeCCccc
Q 045263 586 NMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTG--DITLVIGTHSLIAE------KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 586 ~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G--~~~IVVgT~~~l~~------~v~~~~l~LVIIDEaHrf 650 (742)
. ++|..++|+. .+|+++...+..+ ..+|+++|..+... ++.-.++.++|.||.|..
T Consensus 473 s-------l~Ve~YyGSq--~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmL 536 (941)
T KOG0389|consen 473 S-------LKVEPYYGSQ--DERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHML 536 (941)
T ss_pred c-------eEEEeccCcH--HHHHHHHHHHhccCCCccEEEEEeecccCChHHHHHHHhccccEEEecchhhh
Confidence 5 6899999987 6788888778776 78999999876621 344567889999999986
No 135
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.21 E-value=1e-05 Score=99.82 Aligned_cols=155 Identities=17% Similarity=0.167 Sum_probs=99.2
Q ss_pred CCCCceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHH
Q 045263 530 PVPMNRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQ 607 (742)
Q Consensus 530 ~~~~~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~e 607 (742)
+....-+|+--+|||||++.+..+..++.. ...++|++-.+.|-.|+.++|.++..... ... ...+.++
T Consensus 271 ~~~~~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~------~~~---~~~s~~~ 341 (962)
T COG0610 271 GDGKGGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAF------NDP---KAESTSE 341 (962)
T ss_pred CcCCceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechHHHHHHHHHHHHHHHHhhh------hcc---cccCHHH
Confidence 344567999999999999988887766654 57899999999999999999999765432 111 3344444
Q ss_pred HHHHHHHhhcCCccEEEechHHHhhcc------ccCCc-cEEEEeCCccccccchhhhhhhhhccccccccccccCCCCC
Q 045263 608 SRMIRKDLQTGDITLVIGTHSLIAEKV------EFSAL-RLAIVDEQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSP 680 (742)
Q Consensus 608 r~~i~~~l~~G~~~IVVgT~~~l~~~v------~~~~l-~LVIIDEaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~ 680 (742)
-.+ .+..+.-.|||+|-+-+...+ ...+- =+||+|||||.-+..........
T Consensus 342 Lk~---~l~~~~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaHRSQ~G~~~~~~~~~------------------ 400 (962)
T COG0610 342 LKE---LLEDGKGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHRSQYGELAKLLKKA------------------ 400 (962)
T ss_pred HHH---HHhcCCCcEEEEEecccchhhhcccccccCCCcEEEEEechhhccccHHHHHHHHH------------------
Confidence 443 344455589999987664322 11222 26778999996333322222221
Q ss_pred CCCCCCCCcEEEEcCCCCHHHHHHH---HcCC-CCeeeeccC
Q 045263 681 KDDQHMAPHVLAMSATPIPRTLALA---LYGD-MSLTQITDL 718 (742)
Q Consensus 681 r~~~~~~p~vL~mSATPiprtla~~---l~gd-l~~s~I~e~ 718 (742)
+ .....+++|.||+-..-..+ .+|+ ++.-+|++.
T Consensus 401 ---~-~~a~~~gFTGTPi~~~d~~tt~~~fg~ylh~Y~i~da 438 (962)
T COG0610 401 ---L-KKAIFIGFTGTPIFKEDKDTTKDVFGDYLHTYTITDA 438 (962)
T ss_pred ---h-ccceEEEeeCCccccccccchhhhhcceeEEEecchh
Confidence 1 23579999999987665552 2443 344444443
No 136
>cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha
Probab=98.12 E-value=1.6e-05 Score=66.74 Aligned_cols=72 Identities=25% Similarity=0.335 Sum_probs=49.3
Q ss_pred EEEEEEEEeeccccCCCceEEEEEEeeeeccCCCCCCcceeeecCCCceeEEEEEeeeeecccccc-cchhHhhhccccC
Q 045263 261 IFIGEIISSRGMKAGCSFSFLEVIVGCEIADTETTSGDEVVNIDSGQKKKIYLHLKKFFRGTRFTS-IPFLKSIEGKHKV 339 (742)
Q Consensus 261 ti~G~V~~~~~~~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~~~~g~~~~i~l~~~~ff~~~~Ffn-~pfl~~~~~~l~~ 339 (742)
++.|+|.+....+.+ +++++++.+.+ ++|. +. + .||| ++|+. +.|++
T Consensus 1 ~i~~~V~~~~~~~~~-~~~~~~~~~~D----------------~~g~---i~--~-------~~F~~~~~~~---~~~~~ 48 (75)
T cd04488 1 TVEGTVVSVEVVPRR-GRRRLKVTLSD----------------GTGT---LT--L-------VFFNFQPYLK---KQLPP 48 (75)
T ss_pred CEEEEEEEEEeccCC-CccEEEEEEEc----------------CCCE---EE--E-------EEECCCHHHH---hcCCC
Confidence 467888876443333 45577777652 2231 22 2 3445 77765 88999
Q ss_pred CcEEEEEEEEeecCCCceeEEeeceee
Q 045263 340 GEFVCVSGKVRAMRSNNHYEMREYNID 366 (742)
Q Consensus 340 G~~v~v~GKv~~~~~~~~~~m~~~~~e 366 (742)
|+.+.++||++.++ +.+||.||+++
T Consensus 49 G~~~~v~Gkv~~~~--~~~qi~~P~~~ 73 (75)
T cd04488 49 GTRVRVSGKVKRFR--GGLQIVHPEYE 73 (75)
T ss_pred CCEEEEEEEEeecC--CeeEEeCCcEE
Confidence 99999999999875 46899999875
No 137
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.11 E-value=6.7e-06 Score=92.36 Aligned_cols=75 Identities=21% Similarity=0.315 Sum_probs=65.6
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
-+|.|+..|-+||.++.+++.++. ..-.|.|.||||||.+..-.+... +..+|+|+|.+.||-|+|.+|+.+|+.
T Consensus 9 s~f~PaGDQP~AI~~Lv~gi~~g~-~~QtLLGvTGSGKTfT~AnVI~~~---~rPtLV~AhNKTLAaQLy~Efk~fFP~ 83 (663)
T COG0556 9 SPFKPAGDQPEAIAELVEGIENGL-KHQTLLGVTGSGKTFTMANVIAKV---QRPTLVLAHNKTLAAQLYSEFKEFFPE 83 (663)
T ss_pred cCCCCCCCcHHHHHHHHHHHhcCc-eeeEEeeeccCCchhHHHHHHHHh---CCCeEEEecchhHHHHHHHHHHHhCcC
Confidence 478999999999999999988765 345777999999999877766654 889999999999999999999999975
No 138
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.06 E-value=3.3e-05 Score=92.11 Aligned_cols=131 Identities=15% Similarity=0.134 Sum_probs=105.8
Q ss_pred HHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHH
Q 045263 501 TKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHL 580 (742)
Q Consensus 501 ~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l 580 (742)
.+...+.++..+.+.|.-.--.+.. ..+.++.||-|||+++.+|++.....|..|-++....-||..=.+.+
T Consensus 68 REA~~R~lG~r~ydVQliGglvLh~--------G~IAEMkTGEGKTLvAtLpayLnAL~GkgVhVVTvNdYLA~RDae~m 139 (925)
T PRK12903 68 REATKRVLGKRPYDVQIIGGIILDL--------GSVAEMKTGEGKTITSIAPVYLNALTGKGVIVSTVNEYLAERDAEEM 139 (925)
T ss_pred HHHHHHHhCCCcCchHHHHHHHHhc--------CCeeeecCCCCccHHHHHHHHHHHhcCCceEEEecchhhhhhhHHHH
Confidence 3444566788888888766644433 23999999999999999999988889999999999999999999999
Q ss_pred HHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-----hhcc-------ccCCccEEEEeCCc
Q 045263 581 LKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-----AEKV-------EFSALRLAIVDEQQ 648 (742)
Q Consensus 581 ~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-----~~~v-------~~~~l~LVIIDEaH 648 (742)
..++..+| ++|++...+++..+|+..+. +||+-||.+.+ .+.+ ....+.++||||+|
T Consensus 140 g~vy~fLG-----LsvG~i~~~~~~~~rr~aY~------~DItYgTn~E~gFDYLRDnm~~~~~~~vqR~~~faIVDEVD 208 (925)
T PRK12903 140 GKVFNFLG-----LSVGINKANMDPNLKREAYA------CDITYSVHSELGFDYLRDNMVSSKEEKVQRGLNFCLIDEVD 208 (925)
T ss_pred HHHHHHhC-----CceeeeCCCCChHHHHHhcc------CCCeeecCcccchhhhhhcccccHHHhcCcccceeeeccch
Confidence 99998888 99999999888888877553 79999998765 2211 23567899999999
Q ss_pred cc
Q 045263 649 RF 650 (742)
Q Consensus 649 rf 650 (742)
..
T Consensus 209 SI 210 (925)
T PRK12903 209 SI 210 (925)
T ss_pred he
Confidence 85
No 139
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=98.05 E-value=1.3e-05 Score=95.36 Aligned_cols=163 Identities=19% Similarity=0.260 Sum_probs=112.6
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---CCeEEEEcccHHHHHHHHHHHHHhhhhc
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---GYQAAFMVPTELLATQHYEHLLKLLDNM 587 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---g~qvlilaPT~~La~Q~~~~l~~~l~~~ 587 (742)
+|.++|..-+.-+..-. +. .-|-++.-.+|-|||+.-+..+...++. ...-+|+||+-.|.+ |..+|..|.+
T Consensus 394 ~Lk~YQl~GLqWmVSLy-NN-nLNGILADEMGLGKTIQtIsLitYLmE~K~~~GP~LvivPlstL~N-W~~Ef~kWaP-- 468 (1157)
T KOG0386|consen 394 ELKEYQLHGLQWMVSLY-NN-NLNGILADEMGLGKTIQTISLITYLMEHKQMQGPFLIIVPLSTLVN-WSSEFPKWAP-- 468 (1157)
T ss_pred CCchhhhhhhHHHhhcc-CC-CcccccchhcccchHHHHHHHHHHHHHHcccCCCeEEeccccccCC-chhhcccccc--
Confidence 58899999887765433 22 2477999999999999877666665554 467899999998877 4555666653
Q ss_pred cCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-cccc--CCccEEEEeCCccccccchhhhhhhhhc
Q 045263 588 EEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-KVEF--SALRLAIVDEQQRFGVVQRGRFNSKLYY 664 (742)
Q Consensus 588 ~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-~v~~--~~l~LVIIDEaHrfG~~qr~~l~~k~~~ 664 (742)
+|..+.+..++.+|..+...+..|..+|+++|...+.. ...+ -++.++||||.||+.-.+- ++...+
T Consensus 469 -------Sv~~i~YkGtp~~R~~l~~qir~gKFnVLlTtyEyiikdk~lLsKI~W~yMIIDEGHRmKNa~~-KLt~~L-- 538 (1157)
T KOG0386|consen 469 -------SVQKIQYKGTPQQRSGLTKQQRHGKFNVLLTTYEYIIKDKALLSKISWKYMIIDEGHRMKNAIC-KLTDTL-- 538 (1157)
T ss_pred -------ceeeeeeeCCHHHHhhHHHHHhcccceeeeeeHHHhcCCHHHHhccCCcceeecccccccchhh-HHHHHh--
Confidence 45555555567788888888889999999999987743 2222 2466899999999843332 221111
Q ss_pred cccccccccccCCCCCCCCCCCCCcEEEEcCCCC----HHHHHHH
Q 045263 665 TSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPI----PRTLALA 705 (742)
Q Consensus 665 ~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPi----prtla~~ 705 (742)
.....+++.|++|.||. |+-+++.
T Consensus 539 -----------------~t~y~~q~RLLLTGTPLQN~LpELWaLL 566 (1157)
T KOG0386|consen 539 -----------------NTHYRAQRRLLLTGTPLQNNLPELWALL 566 (1157)
T ss_pred -----------------hccccchhhhhhcCChhhhccHHHHHHH
Confidence 11223567888899997 5555554
No 140
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=98.03 E-value=6.9e-05 Score=90.46 Aligned_cols=162 Identities=14% Similarity=0.117 Sum_probs=101.9
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHh-cCCeEEEEcccHHHHHHHHHHHHHhhhh-ccCCCCCcEEEEEeCCCChHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIG-SGYQAAFMVPTELLATQHYEHLLKLLDN-MEEDKHKPKIALLTGSTPVKQSRMI 611 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~-~g~qvlilaPT~~La~Q~~~~l~~~l~~-~~~~~~~i~V~ll~G~~~~~er~~i 611 (742)
.++|.|+||||||...=..+++.-. .+..+.+.-|.+.=|..+++++.+.+.. .| -.|+.-.-..
T Consensus 67 vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G-----~~VGY~iRfe-------- 133 (845)
T COG1643 67 VVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGEKLG-----ETVGYSIRFE-------- 133 (845)
T ss_pred EEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHhCCCcC-----ceeeEEEEee--------
Confidence 6899999999999876555555432 2356777789998899998888876643 22 2333221110
Q ss_pred HHHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCccccccchh--hhhhhhhccccccccccccCCCCCCCCCC
Q 045263 612 RKDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQRFGVVQRG--RFNSKLYYTSMSSGMAMVNSDGSPKDDQH 685 (742)
Q Consensus 612 ~~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHrfG~~qr~--~l~~k~~~~~~~~~~~~~~~~~~~r~~~~ 685 (742)
...+....|-+.|.+.|.. .-.+..+++|||||+|.=+..-.- .+..... ....
T Consensus 134 --~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~------------------~~rr 193 (845)
T COG1643 134 --SKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLL------------------ARRR 193 (845)
T ss_pred --ccCCCCceeEEeccHHHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHH------------------hhcC
Confidence 1112345788889887633 445899999999999984333221 1111100 0011
Q ss_pred CCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEEEcC
Q 045263 686 MAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRIPIKTYIIEG 732 (742)
Q Consensus 686 ~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~~~~ 732 (742)
..-.+|.||||-..+.++..+.+ ..+..+ |....||++++...
T Consensus 194 ~DLKiIimSATld~~rfs~~f~~-apvi~i---~GR~fPVei~Y~~~ 236 (845)
T COG1643 194 DDLKLIIMSATLDAERFSAYFGN-APVIEI---EGRTYPVEIRYLPE 236 (845)
T ss_pred CCceEEEEecccCHHHHHHHcCC-CCEEEe---cCCccceEEEecCC
Confidence 13579999999988888877554 333333 44458999988443
No 141
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=98.03 E-value=4e-05 Score=91.18 Aligned_cols=113 Identities=17% Similarity=0.220 Sum_probs=85.0
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhc
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNM 587 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~ 587 (742)
-||.|+..|..++.++.+++..+. ...+|.|.||||||++....+.. .+..+||++|++.+|.|++..|+.+++.
T Consensus 6 ~~~~~~~~Q~~ai~~l~~~~~~~~-~~~~l~Gvtgs~kt~~~a~~~~~---~~~p~Lvi~~n~~~A~ql~~el~~f~p~- 80 (655)
T TIGR00631 6 SPFQPAGDQPKAIAKLVEGLTDGE-KHQTLLGVTGSGKTFTMANVIAQ---VNRPTLVIAHNKTLAAQLYNEFKEFFPE- 80 (655)
T ss_pred cCCCCChHHHHHHHHHHHhhhcCC-CcEEEECCCCcHHHHHHHHHHHH---hCCCEEEEECCHHHHHHHHHHHHHhCCC-
Confidence 479999999999999999886543 24579999999999886654432 3788999999999999999999999853
Q ss_pred cCCCCCcEEEEE-------------eC------------CCChHHHHHHHHHhhcCCccEEEechHHHh
Q 045263 588 EEDKHKPKIALL-------------TG------------STPVKQSRMIRKDLQTGDITLVIGTHSLIA 631 (742)
Q Consensus 588 ~~~~~~i~V~ll-------------~G------------~~~~~er~~i~~~l~~G~~~IVVgT~~~l~ 631 (742)
..|..+ -. ..-...|...+..+.++...|||+|.+.++
T Consensus 81 ------~~V~~f~sy~d~y~pe~y~P~~d~~~~k~~~~~~~i~~~R~~al~~L~~~~~~ivVasv~~i~ 143 (655)
T TIGR00631 81 ------NAVEYFVSYYDYYQPEAYVPSKDTYIEKDASINDEIERLRHSATRSLLERRDVIVVASVSCIY 143 (655)
T ss_pred ------CeEEEEeeecccCCccccCCCccccccccCCCChHHHHHHHHHHHHHHhCCCeEEEEcHHHhc
Confidence 235444 11 111244556677777777779999987763
No 142
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=97.99 E-value=5.7e-06 Score=99.85 Aligned_cols=123 Identities=25% Similarity=0.276 Sum_probs=97.5
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCC
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDK 591 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~ 591 (742)
.++.|.++++.+.+. ..++++.+|+|||||.++-++++. -..-.++++++|..+.+..++..+.+.+....
T Consensus 1144 ~n~iqtqVf~~~y~~-----nd~v~vga~~gsgkt~~ae~a~l~-~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~--- 1214 (1674)
T KOG0951|consen 1144 FNPIQTQVFTSLYNT-----NDNVLVGAPNGSGKTACAELALLR-PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLL--- 1214 (1674)
T ss_pred cCCceEEEEeeeecc-----cceEEEecCCCCchhHHHHHHhcC-CccceEEEEecchHHHHHHHHHHHHHhhcccc---
Confidence 388888888877762 248999999999999999999887 23346899999999999999999988876543
Q ss_pred CCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCcccc
Q 045263 592 HKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 592 ~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG 651 (742)
+..+..++|..+..-+. ++. .+|+|.||+.+...-....+++.|.||.|..|
T Consensus 1215 -G~~~~~l~ge~s~~lkl-----~~~--~~vii~tpe~~d~lq~iQ~v~l~i~d~lh~ig 1266 (1674)
T KOG0951|consen 1215 -GLRIVKLTGETSLDLKL-----LQK--GQVIISTPEQWDLLQSIQQVDLFIVDELHLIG 1266 (1674)
T ss_pred -CceEEecCCccccchHH-----hhh--cceEEechhHHHHHhhhhhcceEeeehhhhhc
Confidence 27888899988765442 223 48999999977332356789999999999987
No 143
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.99 E-value=1.8e-05 Score=90.24 Aligned_cols=72 Identities=21% Similarity=0.203 Sum_probs=61.6
Q ss_pred HHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHH
Q 045263 505 LRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 505 ~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~ 581 (742)
+..++..+.+.|++|+....... .-.+++||+|+|||.+....+.+++..|.|+|+.+||.+-+..+.+++.
T Consensus 179 ~~~~~~~ln~SQk~Av~~~~~~k-----~l~~I~GPPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 179 ITFFNKNLNSSQKAAVSFAINNK-----DLLIIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred cccCCccccHHHHHHHHHHhccC-----CceEeeCCCCCCceeeHHHHHHHHHHcCCeEEEEcCchHHHHHHHHHhc
Confidence 34567779999999998877632 2469999999999999999999999999999999999999888888643
No 144
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.97 E-value=1.8e-05 Score=91.79 Aligned_cols=145 Identities=19% Similarity=0.299 Sum_probs=103.4
Q ss_pred ccccccccCchHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 488 RLNAAYMEGWSSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 488 ~~~~~~~~~~~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
.++.+....++++--.+++.+|..=+|+|..++.. ..+..++- -+...+..|.|+.+++
T Consensus 422 IPRTLAlt~fgDldvS~IdElP~GRkpI~T~~i~~--------------------~~~~~v~e-~i~~ei~~GrQaY~Vc 480 (677)
T COG1200 422 IPRTLALTAFGDLDVSIIDELPPGRKPITTVVIPH--------------------ERRPEVYE-RIREEIAKGRQAYVVC 480 (677)
T ss_pred chHHHHHHHhccccchhhccCCCCCCceEEEEecc--------------------ccHHHHHH-HHHHHHHcCCEEEEEe
Confidence 33444444445555555666666555554333321 22233333 4455567899999999
Q ss_pred ccHHH--------HHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc
Q 045263 568 PTELL--------ATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL 639 (742)
Q Consensus 568 PT~~L--------a~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l 639 (742)
|.++= |...++.++.+++. .+|+++||.++.+++..+++.+++|+.+|+|+|.- +.-.++..|.
T Consensus 481 PLIeESE~l~l~~a~~~~~~L~~~~~~-------~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTV-IEVGVdVPnA 552 (677)
T COG1200 481 PLIEESEKLELQAAEELYEELKSFLPE-------LKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTV-IEVGVDVPNA 552 (677)
T ss_pred ccccccccchhhhHHHHHHHHHHHccc-------ceeEEEecCCChHHHHHHHHHHHcCCCcEEEEeeE-EEecccCCCC
Confidence 98763 55666666655543 67999999999999999999999999999999963 3346788899
Q ss_pred cEEEEeCCccccccchhhhhhh
Q 045263 640 RLAIVDEQQRFGVVQRGRFNSK 661 (742)
Q Consensus 640 ~LVIIDEaHrfG~~qr~~l~~k 661 (742)
.++||..|+|||..|-.+|+..
T Consensus 553 TvMVIe~AERFGLaQLHQLRGR 574 (677)
T COG1200 553 TVMVIENAERFGLAQLHQLRGR 574 (677)
T ss_pred eEEEEechhhhhHHHHHHhccc
Confidence 9999999999999999888764
No 145
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=97.95 E-value=8.6e-05 Score=88.24 Aligned_cols=68 Identities=22% Similarity=0.230 Sum_probs=59.1
Q ss_pred CCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHH
Q 045263 510 YSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 510 f~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~ 582 (742)
..|++.|.+|+..++.. ....+|+||+|+|||.+....+.+++..|.++++++||..-+.++.+.+..
T Consensus 156 ~~ln~~Q~~Av~~~l~~-----~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 156 PNLNESQKEAVSFALSS-----KDLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCCHHHHHHHHHHhcC-----CCeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCcHHHHHHHHHHHHh
Confidence 35899999999887652 126799999999999999888888888999999999999999999888876
No 146
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=97.93 E-value=1.7e-05 Score=91.37 Aligned_cols=130 Identities=20% Similarity=0.289 Sum_probs=92.2
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-----C-----CeEEEEcccHHHHHHHHH
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-----G-----YQAAFMVPTELLATQHYE 578 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-----g-----~qvlilaPT~~La~Q~~~ 578 (742)
.+.|-|+|+.++.-+... .+..|..-+|..+-|-|||+..+..++..-.. + ...||++|- .|..||+.
T Consensus 323 ~v~LmpHQkaal~Wl~wR-E~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~TLII~Pa-Sli~qW~~ 400 (901)
T KOG4439|consen 323 KVELMPHQKAALRWLLWR-ESQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESASKTLIICPA-SLIHQWEA 400 (901)
T ss_pred eeecchhhhhhhhhhccc-ccCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccCCeEEeCcH-HHHHHHHH
Confidence 356899999999776653 44445677999999999999766665544211 1 258999998 58899999
Q ss_pred HHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----------ccccCC--ccEEEEe
Q 045263 579 HLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----------KVEFSA--LRLAIVD 645 (742)
Q Consensus 579 ~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----------~v~~~~--l~LVIID 645 (742)
++.+.+.... ++|.++||.....-....+. ..||||+|...+-. .-++.+ +.-||+|
T Consensus 401 Ev~~rl~~n~-----LsV~~~HG~n~r~i~~~~L~-----~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W~RVILD 470 (901)
T KOG4439|consen 401 EVARRLEQNA-----LSVYLYHGPNKREISAKELR-----KYDVVITTYNLVANKPDDELEEGKNSSPLARIAWSRVILD 470 (901)
T ss_pred HHHHHHhhcc-----eEEEEecCCccccCCHHHHh-----hcceEEEeeeccccCCchhhhcccCccHHHHhhHHHhhhh
Confidence 9999887654 89999999874322222222 37999999887632 111222 3469999
Q ss_pred CCccc
Q 045263 646 EQQRF 650 (742)
Q Consensus 646 EaHrf 650 (742)
|||..
T Consensus 471 EAH~I 475 (901)
T KOG4439|consen 471 EAHNI 475 (901)
T ss_pred hhhhh
Confidence 99985
No 147
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=97.84 E-value=3.2e-05 Score=79.03 Aligned_cols=128 Identities=20% Similarity=0.246 Sum_probs=68.5
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC--CeEEEEcccHHHHHH-------HHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG--YQAAFMVPTELLATQ-------HYEHLLK 582 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g--~qvlilaPT~~La~Q-------~~~~l~~ 582 (742)
.|..|..+++.+... ..+++.||.|||||+.++.++++.+.+| .++++.-|+....+. ..+.+..
T Consensus 5 ~~~~Q~~~~~al~~~------~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p 78 (205)
T PF02562_consen 5 KNEEQKFALDALLNN------DLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEP 78 (205)
T ss_dssp -SHHHHHHHHHHHH-------SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------T
T ss_pred CCHHHHHHHHHHHhC------CeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHH
Confidence 689999999999942 2789999999999999999999998887 478888888653111 1111111
Q ss_pred hhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccchhhhhh
Q 045263 583 LLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNS 660 (742)
Q Consensus 583 ~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~ 660 (742)
++.++-. ....+.+... -.. .+.+| .|-+..++.+. ...|++ .+||||||+.+..++-..+..
T Consensus 79 ~~~p~~d-----~l~~~~~~~~---~~~---~~~~~--~Ie~~~~~~iR-Grt~~~-~~iIvDEaQN~t~~~~k~ilT 141 (205)
T PF02562_consen 79 YLRPIYD-----ALEELFGKEK---LEE---LIQNG--KIEIEPLAFIR-GRTFDN-AFIIVDEAQNLTPEELKMILT 141 (205)
T ss_dssp TTHHHHH-----HHTTTS-TTC---HHH---HHHTT--SEEEEEGGGGT-T--B-S-EEEEE-SGGG--HHHHHHHHT
T ss_pred HHHHHHH-----HHHHHhChHh---HHH---HhhcC--eEEEEehhhhc-Cccccc-eEEEEecccCCCHHHHHHHHc
Confidence 1111100 0000001111 111 12334 56666666664 334544 799999999998777666554
No 148
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.83 E-value=0.00013 Score=74.14 Aligned_cols=65 Identities=25% Similarity=0.255 Sum_probs=46.9
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHH
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEH 579 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~ 579 (742)
+|++.|++|+..++..- ..-.+|+|+.|+|||.+...........|.++++++||...+..+.+.
T Consensus 1 ~L~~~Q~~a~~~~l~~~----~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSG----DRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREK 65 (196)
T ss_dssp -S-HHHHHHHHHHHHCT----CSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhcC----CeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHh
Confidence 48999999999998632 124689999999999875554444445589999999999888876554
No 149
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=97.79 E-value=3.9e-05 Score=84.80 Aligned_cols=50 Identities=28% Similarity=0.369 Sum_probs=44.3
Q ss_pred ceEEEccCCChHHHHHHHHHHHH--HhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEV--IGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~--l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
.++|+|.+|||||++++..+... ...+..++++++...|...+.+.+.+.
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~ 54 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKK 54 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhh
Confidence 46999999999999999888887 667899999999999999888887764
No 150
>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=97.79 E-value=0.00016 Score=88.01 Aligned_cols=86 Identities=20% Similarity=0.116 Sum_probs=58.3
Q ss_pred CCHHHHHHHHHHHHhcCC--CCCCceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHHHHHHHHhhhhc
Q 045263 512 LTSSQLSAISEIIWDLKQ--PVPMNRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQHYEHLLKLLDNM 587 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~--~~~~~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~~~~l~~~l~~~ 587 (742)
-..+|.+|.+.+..-..+ ..+--.+=.|.||||||++=+-.|+..... |.+..+-.--+.|.-|.-+.+++.+.--
T Consensus 409 rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNARImyaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL~L~ 488 (1110)
T TIGR02562 409 RFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANARAMYALRDDKQGARFAIALGLRSLTLQTGHALKTRLNLS 488 (1110)
T ss_pred CcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHHHHHHHhCCCCCCceEEEEccccceeccchHHHHHhcCCC
Confidence 457999999988763322 222345677999999999876666554443 4577888888888888888888766422
Q ss_pred cCCCCCcEEEEEeCC
Q 045263 588 EEDKHKPKIALLTGS 602 (742)
Q Consensus 588 ~~~~~~i~V~ll~G~ 602 (742)
. -..+++.|+
T Consensus 489 ~-----ddLAVlIGs 498 (1110)
T TIGR02562 489 D-----DDLAVLIGG 498 (1110)
T ss_pred c-----cceEEEECH
Confidence 1 245555554
No 151
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=97.78 E-value=0.00013 Score=83.73 Aligned_cols=67 Identities=24% Similarity=0.285 Sum_probs=58.2
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEcccHHHHHHHHHHHHHh
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
+|+..|..|++.++.. .-.|||||+|+|||++....+++.+.. +.++|+.+|+..-+.|+++.+.+.
T Consensus 410 kLN~SQ~~AV~~VL~r------plsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~t 477 (935)
T KOG1802|consen 410 KLNASQSNAVKHVLQR------PLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKT 477 (935)
T ss_pred hhchHHHHHHHHHHcC------CceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhc
Confidence 4999999999999873 245999999999999998888888776 579999999999999999888763
No 152
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=97.75 E-value=7.5e-05 Score=85.98 Aligned_cols=164 Identities=19% Similarity=0.264 Sum_probs=110.0
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC---CeEEEEcccHHHHHHHHHHHHHhhhhc
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG---YQAAFMVPTELLATQHYEHLLKLLDNM 587 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g---~qvlilaPT~~La~Q~~~~l~~~l~~~ 587 (742)
+|-++|.+-++-+..-...+. |-+|.-+.|-|||+-.+..+....+.. +..|+++|...| ..|.+++.++++.
T Consensus 567 tLKEYQlkGLnWLvnlYdqGi--NGILADeMGLGKTVQsisvlAhLaE~~nIwGPFLVVtpaStL-~NWaqEisrFlP~- 642 (1185)
T KOG0388|consen 567 TLKEYQLKGLNWLVNLYDQGI--NGILADEMGLGKTVQSISVLAHLAETHNIWGPFLVVTPASTL-HNWAQEISRFLPS- 642 (1185)
T ss_pred hhHHHhhccHHHHHHHHHccc--cceehhhhccchhHHHHHHHHHHHHhccCCCceEEeehHHHH-hHHHHHHHHhCcc-
Confidence 466888888877765544443 789999999999999877777666653 578999999877 4578889998875
Q ss_pred cCCCCCcEEEEEeCCCChHHH-HHHHHH----hhcCCccEEEechHHHh-h--ccccCCccEEEEeCCccccccchhhhh
Q 045263 588 EEDKHKPKIALLTGSTPVKQS-RMIRKD----LQTGDITLVIGTHSLIA-E--KVEFSALRLAIVDEQQRFGVVQRGRFN 659 (742)
Q Consensus 588 ~~~~~~i~V~ll~G~~~~~er-~~i~~~----l~~G~~~IVVgT~~~l~-~--~v~~~~l~LVIIDEaHrfG~~qr~~l~ 659 (742)
+++.-+.|+.....- +..|.+ -++...+|+|++.+++. + .+.--.+.+.|+|||+..-..+..++.
T Consensus 643 ------~k~lpywGs~~eRkiLrKfw~rKnmY~rna~fhVviTSYQlvVtDeky~qkvKWQYMILDEAQAIKSSsS~RWK 716 (1185)
T KOG0388|consen 643 ------FKVLPYWGSPSERKILRKFWNRKNMYRRNAPFHVVITSYQLVVTDEKYLQKVKWQYMILDEAQAIKSSSSSRWK 716 (1185)
T ss_pred ------ceeecCcCChhhhHHHHHhcchhhhhccCCCceEEEEeeeeeechHHHHHhhhhhheehhHHHHhhhhhhhHHH
Confidence 578888888653211 111110 12445799999987662 1 112224678999999987444433332
Q ss_pred hhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 660 SKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 660 ~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
.-+ + ..+...|++|.|||..+++..
T Consensus 717 tLL-------------------s--F~cRNRLLLTGTPIQNsMqEL 741 (1185)
T KOG0388|consen 717 TLL-------------------S--FKCRNRLLLTGTPIQNSMQEL 741 (1185)
T ss_pred HHh-------------------h--hhccceeeecCCccchHHHHH
Confidence 211 1 135567889999998876543
No 153
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=97.74 E-value=0.00022 Score=85.16 Aligned_cols=115 Identities=18% Similarity=0.204 Sum_probs=85.6
Q ss_pred HHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhh
Q 045263 505 LRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLL 584 (742)
Q Consensus 505 ~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l 584 (742)
.-.-+|.|++.|..++..+.+.+..+. ...++.|.+|||||.++...+. ..+.++|+++|+..+|.|+++.+..++
T Consensus 6 ~~~~~~~~~~~Q~~ai~~l~~~~~~~~-~~~ll~Gl~gs~ka~lia~l~~---~~~r~vLIVt~~~~~A~~l~~dL~~~~ 81 (652)
T PRK05298 6 KLVSPYKPAGDQPQAIEELVEGIEAGE-KHQTLLGVTGSGKTFTMANVIA---RLQRPTLVLAHNKTLAAQLYSEFKEFF 81 (652)
T ss_pred ccccCCCCChHHHHHHHHHHHhhhcCC-CcEEEEcCCCcHHHHHHHHHHH---HhCCCEEEEECCHHHHHHHHHHHHHhc
Confidence 345689999999999999998875442 2457999999999988653222 237889999999999999999999987
Q ss_pred hhccCCCCCcEEEEEe-------------------------CCCChHHHHHHHHHhhcCCccEEEechHHH
Q 045263 585 DNMEEDKHKPKIALLT-------------------------GSTPVKQSRMIRKDLQTGDITLVIGTHSLI 630 (742)
Q Consensus 585 ~~~~~~~~~i~V~ll~-------------------------G~~~~~er~~i~~~l~~G~~~IVVgT~~~l 630 (742)
+. ..|..+. +..-...|...+..+.+++..|||+|.+.+
T Consensus 82 ~~-------~~v~~f~s~~~~~~~~~~~P~~d~~~~~~~~~~~~~~~~R~~~l~~L~~~~~~ivv~s~~al 145 (652)
T PRK05298 82 PE-------NAVEYFVSYYDYYQPEAYVPSSDTYIEKDSSINEEIERLRHSATKSLLERRDVIVVASVSCI 145 (652)
T ss_pred CC-------CeEEEeCChhhccCccccCCCCcccccccCCCChHHHHHHHHHHHHHHhCCCEEEEEcHHHh
Confidence 53 2344440 011124556677788887778999998888
No 154
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=97.71 E-value=0.00034 Score=80.94 Aligned_cols=160 Identities=16% Similarity=0.207 Sum_probs=98.3
Q ss_pred ceEEEccCCChHHHHHHHHHHHH-HhcCCeEEEEcccHHHHHHHHHHHHHhhh-hccCCCCCcEEEEEeCCCChHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEV-IGSGYQAAFMVPTELLATQHYEHLLKLLD-NMEEDKHKPKIALLTGSTPVKQSRMI 611 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~-l~~g~qvlilaPT~~La~Q~~~~l~~~l~-~~~~~~~~i~V~ll~G~~~~~er~~i 611 (742)
..+|.|+||||||.-.-.-++++ ..+...+.+.-|.+.=|.-++++...-.. .+| -.|+.-..-
T Consensus 68 vlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAeE~~~~lG-----~~VGY~IRF--------- 133 (674)
T KOG0922|consen 68 VLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAEEMGCQLG-----EEVGYTIRF--------- 133 (674)
T ss_pred EEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHHHhCCCcC-----ceeeeEEEe---------
Confidence 68999999999997543333322 12223488888999988888887765443 233 233322111
Q ss_pred HHHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCccccccch--hhhhhhhhccccccccccccCCCCCCCCCC
Q 045263 612 RKDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQRFGVVQR--GRFNSKLYYTSMSSGMAMVNSDGSPKDDQH 685 (742)
Q Consensus 612 ~~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHrfG~~qr--~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~ 685 (742)
+...+.+..|..-|.+.|.. .-.+.....|||||||.-..... -.+..+... .|
T Consensus 134 -ed~ts~~TrikymTDG~LLRE~l~Dp~LskYsvIIlDEAHERsl~TDiLlGlLKki~~---------------~R---- 193 (674)
T KOG0922|consen 134 -EDSTSKDTRIKYMTDGMLLREILKDPLLSKYSVIILDEAHERSLHTDILLGLLKKILK---------------KR---- 193 (674)
T ss_pred -cccCCCceeEEEecchHHHHHHhcCCccccccEEEEechhhhhhHHHHHHHHHHHHHh---------------cC----
Confidence 11123346899999998755 33478899999999997443332 122222100 11
Q ss_pred CCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCC-CCcEEEEEcC
Q 045263 686 MAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGR-IPIKTYIIEG 732 (742)
Q Consensus 686 ~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr-~~i~t~~~~~ 732 (742)
..-.+++||||-.-+.+.....+ ..+..| | || -||+..+...
T Consensus 194 ~~LklIimSATlda~kfS~yF~~-a~i~~i---~-GR~fPVei~y~~~ 236 (674)
T KOG0922|consen 194 PDLKLIIMSATLDAEKFSEYFNN-APILTI---P-GRTFPVEILYLKE 236 (674)
T ss_pred CCceEEEEeeeecHHHHHHHhcC-CceEee---c-CCCCceeEEeccC
Confidence 23479999999888888777666 333333 3 55 7888777653
No 155
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=97.71 E-value=0.00011 Score=87.69 Aligned_cols=76 Identities=20% Similarity=0.200 Sum_probs=65.6
Q ss_pred HhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-cCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 506 RALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-SGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 506 ~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
.-.+|++++.|.+++..+...+..+. ..+++||||+|||+.|+.|++.... .+.++++.++|+.|.+|..++...+
T Consensus 10 ~~~~~~~r~~Q~~~~~~v~~a~~~~~--~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 10 AFPGFEPRPEQREMAEAVAEALKGGE--GLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred hCCCCCCCHHHHHHHHHHHHHHcCCC--cEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcch
Confidence 34568899999999999998776654 5899999999999999999887754 4689999999999999999887664
No 156
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=97.68 E-value=0.0002 Score=79.93 Aligned_cols=120 Identities=18% Similarity=0.186 Sum_probs=80.4
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCC
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDK 591 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~ 591 (742)
|-|+|.+-+.-.++ ++ .+.+|.-+.|-|||+-|+..+. ........+|++|.. |-..|.+.+.++++...
T Consensus 199 LlPFQreGv~faL~---Rg--GR~llADeMGLGKTiQAlaIA~-yyraEwplliVcPAs-vrftWa~al~r~lps~~--- 268 (689)
T KOG1000|consen 199 LLPFQREGVIFALE---RG--GRILLADEMGLGKTIQALAIAR-YYRAEWPLLIVCPAS-VRFTWAKALNRFLPSIH--- 268 (689)
T ss_pred hCchhhhhHHHHHh---cC--CeEEEecccccchHHHHHHHHH-HHhhcCcEEEEecHH-HhHHHHHHHHHhccccc---
Confidence 45667777766554 22 2679999999999998765544 445567799999984 66789999999997654
Q ss_pred CCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh---ccccCCccEEEEeCCcccc
Q 045263 592 HKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE---KVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 592 ~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~---~v~~~~l~LVIIDEaHrfG 651 (742)
.+.++.++...--. +-. ...|.|.+...++. .+.-...++||+||.|..-
T Consensus 269 ---pi~vv~~~~D~~~~------~~t-~~~v~ivSye~ls~l~~~l~~~~~~vvI~DEsH~Lk 321 (689)
T KOG1000|consen 269 ---PIFVVDKSSDPLPD------VCT-SNTVAIVSYEQLSLLHDILKKEKYRVVIFDESHMLK 321 (689)
T ss_pred ---ceEEEecccCCccc------ccc-CCeEEEEEHHHHHHHHHHHhcccceEEEEechhhhh
Confidence 35566555432100 000 13567777766532 3344558999999999873
No 157
>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=97.67 E-value=0.00011 Score=88.50 Aligned_cols=75 Identities=21% Similarity=0.215 Sum_probs=67.6
Q ss_pred hCCCCC-CHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-cC--CeEEEEcccHHHHHHHHHHHHH
Q 045263 507 ALPYSL-TSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-SG--YQAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 507 ~lpf~L-t~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~g--~qvlilaPT~~La~Q~~~~l~~ 582 (742)
.|||++ +|.|.+.+..+.+.+..+. +.++++|||+|||++.+.+++.... .+ .+++|.+.|..-..|..+++++
T Consensus 5 ~FPy~~~y~~Q~~~m~~v~~~l~~~~--~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 5 YFPYEKIYPEQRSYMRDLKRSLDRGD--EAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred ecCCCCCCHHHHHHHHHHHHHhccCC--ceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 589996 9999999999999987765 8899999999999999999988766 34 6999999999999999999998
Q ss_pred h
Q 045263 583 L 583 (742)
Q Consensus 583 ~ 583 (742)
.
T Consensus 83 ~ 83 (705)
T TIGR00604 83 L 83 (705)
T ss_pred h
Confidence 5
No 158
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=97.60 E-value=0.00017 Score=87.70 Aligned_cols=138 Identities=19% Similarity=0.267 Sum_probs=98.7
Q ss_pred HHHHHhCCC----CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHH---HHHHHHhcCCeEEEEcccHHHHH
Q 045263 502 KKLLRALPY----SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFL---ACMEVIGSGYQAAFMVPTELLAT 574 (742)
Q Consensus 502 ~~~~~~lpf----~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~---ail~~l~~g~qvlilaPT~~La~ 574 (742)
.++...-.| +|+.+|.+-++-+.-..-... |++|.-..|-|||+--+. -+.....-.+..|++||...++
T Consensus 357 ~Kle~qp~~~~g~~LRdyQLeGlNWl~~~W~~~~--n~ILADEmgLgktvqti~fl~~l~~~~~~~gpflvvvplst~~- 433 (1373)
T KOG0384|consen 357 RKLEKQPEYKGGNELRDYQLEGLNWLLYSWYKRN--NCILADEMGLGKTVQTITFLSYLFHSLQIHGPFLVVVPLSTIT- 433 (1373)
T ss_pred HHhhcCccccccchhhhhhcccchhHHHHHHhcc--cceehhhcCCCcchHHHHHHHHHHHhhhccCCeEEEeehhhhH-
Confidence 444444444 699999999988876544443 899999999999986433 3333333346799999986554
Q ss_pred HHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcC-----CccEEEechHHHhh-ccccC--CccEEEEeC
Q 045263 575 QHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTG-----DITLVIGTHSLIAE-KVEFS--ALRLAIVDE 646 (742)
Q Consensus 575 Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G-----~~~IVVgT~~~l~~-~v~~~--~l~LVIIDE 646 (742)
-|.++|..+. . ..+.+++|+....+-.+.++-...+ ..+++++|.+.+.. ...+. .+.+++|||
T Consensus 434 ~W~~ef~~w~-~-------mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~LkDk~~L~~i~w~~~~vDe 505 (1373)
T KOG0384|consen 434 AWEREFETWT-D-------MNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVLKDKAELSKIPWRYLLVDE 505 (1373)
T ss_pred HHHHHHHHHh-h-------hceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHhccHhhhccCCcceeeecH
Confidence 4777888887 3 5789999998877666666555555 57899999998744 22233 467899999
Q ss_pred Cccc
Q 045263 647 QQRF 650 (742)
Q Consensus 647 aHrf 650 (742)
|||.
T Consensus 506 ahrL 509 (1373)
T KOG0384|consen 506 AHRL 509 (1373)
T ss_pred Hhhc
Confidence 9997
No 159
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=97.56 E-value=0.0002 Score=86.23 Aligned_cols=159 Identities=18% Similarity=0.207 Sum_probs=104.6
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHH-HHHHhcC--CeEEEEcccHHHHHHHHHHHHHhhhhc
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLAC-MEVIGSG--YQAAFMVPTELLATQHYEHLLKLLDNM 587 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ai-l~~l~~g--~qvlilaPT~~La~Q~~~~l~~~l~~~ 587 (742)
.|+.+|+.-++-+..-..+. -|-||.-..|-|||+-.+..+ ..+++.| +.-||+|||-.+.+ |--+|++|+..
T Consensus 615 qLReYQkiGLdWLatLYekn--lNGILADEmGLGKTIQtISllAhLACeegnWGPHLIVVpTsviLn-WEMElKRwcPg- 690 (1958)
T KOG0391|consen 615 QLREYQKIGLDWLATLYEKN--LNGILADEMGLGKTIQTISLLAHLACEEGNWGPHLIVVPTSVILN-WEMELKRWCPG- 690 (1958)
T ss_pred HHHHHHHhhHHHHHHHHHhc--ccceehhhhcccchhHHHHHHHHHHhcccCCCCceEEeechhhhh-hhHHHhhhCCc-
Confidence 37889998887765433332 478999999999998754332 2233444 46799999987765 67789999875
Q ss_pred cCCCCCcEEEEEeCCCChHHHHHHHHHhh-cCCccEEEechHHHhh---ccccCCccEEEEeCCccc-cccc-h-hhhhh
Q 045263 588 EEDKHKPKIALLTGSTPVKQSRMIRKDLQ-TGDITLVIGTHSLIAE---KVEFSALRLAIVDEQQRF-GVVQ-R-GRFNS 660 (742)
Q Consensus 588 ~~~~~~i~V~ll~G~~~~~er~~i~~~l~-~G~~~IVVgT~~~l~~---~v~~~~l~LVIIDEaHrf-G~~q-r-~~l~~ 660 (742)
++|..+.|+.. +|+...++.. -+..+|.|++..++.. .+.-+++.++|+||+|+. +++. | ..+..
T Consensus 691 ------lKILTYyGs~k--ErkeKRqgW~kPnaFHVCItSYklv~qd~~AFkrkrWqyLvLDEaqnIKnfksqrWQAlln 762 (1958)
T KOG0391|consen 691 ------LKILTYYGSHK--ERKEKRQGWAKPNAFHVCITSYKLVFQDLTAFKRKRWQYLVLDEAQNIKNFKSQRWQALLN 762 (1958)
T ss_pred ------ceEeeecCCHH--HHHHHhhcccCCCeeEEeehhhHHHHhHHHHHHhhccceeehhhhhhhcchhHHHHHHHhc
Confidence 57888888753 3333222222 2345788888777633 233457899999999986 2222 1 22221
Q ss_pred hhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHH
Q 045263 661 KLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALA 705 (742)
Q Consensus 661 k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~ 705 (742)
- ..-+.|++|.||.-.+++..
T Consensus 763 f------------------------nsqrRLLLtgTPLqNslmEL 783 (1958)
T KOG0391|consen 763 F------------------------NSQRRLLLTGTPLQNSLMEL 783 (1958)
T ss_pred c------------------------chhheeeecCCchhhHHHHH
Confidence 1 13357888999998887654
No 160
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=97.55 E-value=0.00081 Score=81.43 Aligned_cols=182 Identities=20% Similarity=0.269 Sum_probs=108.9
Q ss_pred HHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH-HhcC--CeEEEEcccHHHHHHHHHH
Q 045263 503 KLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV-IGSG--YQAAFMVPTELLATQHYEH 579 (742)
Q Consensus 503 ~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~-l~~g--~qvlilaPT~~La~Q~~~~ 579 (742)
.+.+++|+ ...+++.++.|.+. ..+++.|.||||||.-.-.-++.. +.+| ..+++--|.+.-|--++++
T Consensus 167 ~~R~~LPa--~~~r~~Il~~i~~~------qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeR 238 (924)
T KOG0920|consen 167 RFRESLPA--YKMRDTILDAIEEN------QVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAER 238 (924)
T ss_pred HHHHhCcc--HHHHHHHHHHHHhC------ceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHH
Confidence 34455664 44555566666553 378999999999998765555544 3444 4566777999988888888
Q ss_pred HHHhh-hhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCccccccc
Q 045263 580 LLKLL-DNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQRFGVVQ 654 (742)
Q Consensus 580 l~~~l-~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHrfG~~q 654 (742)
+..-- ...| -.|+.-.+-.+. ..-+..+..+|.+.+.. .-.+.++..||+||+|.-+...
T Consensus 239 Va~ER~~~~g-----~~VGYqvrl~~~----------~s~~t~L~fcTtGvLLr~L~~~~~l~~vthiivDEVHER~i~~ 303 (924)
T KOG0920|consen 239 VAKERGESLG-----EEVGYQVRLESK----------RSRETRLLFCTTGVLLRRLQSDPTLSGVTHIIVDEVHERSINT 303 (924)
T ss_pred HHHHhccccC-----CeeeEEEeeecc----------cCCceeEEEecHHHHHHHhccCcccccCceeeeeeEEEccCCc
Confidence 76543 2222 233322211111 11126789999997754 3457789999999999865544
Q ss_pred hhhhhh-hhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCC-CCcEEEEE
Q 045263 655 RGRFNS-KLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGR-IPIKTYII 730 (742)
Q Consensus 655 r~~l~~-k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr-~~i~t~~~ 730 (742)
.--+.- +.. -.....-.+++||||-.-+.+... +|-..+..| +|| .||+++..
T Consensus 304 DflLi~lk~l------------------L~~~p~LkvILMSAT~dae~fs~Y-F~~~pvi~i----~grtfpV~~~fL 358 (924)
T KOG0920|consen 304 DFLLILLKDL------------------LPRNPDLKVILMSATLDAELFSDY-FGGCPVITI----PGRTFPVKEYFL 358 (924)
T ss_pred ccHHHHHHHH------------------hhhCCCceEEEeeeecchHHHHHH-hCCCceEee----cCCCcchHHHHH
Confidence 321111 100 001134579999999876666555 454444444 344 56766554
No 161
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=97.55 E-value=0.00022 Score=86.46 Aligned_cols=104 Identities=17% Similarity=0.195 Sum_probs=88.9
Q ss_pred EEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHh
Q 045263 536 LLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDL 615 (742)
Q Consensus 536 LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l 615 (742)
+..+.||-|||+++.+|++.....|..|-++.-..-||..=.+.+..++..+| ++|+++..+++..+|+..+
T Consensus 155 IAEM~TGEGKTLvatlp~yLnAL~G~gVHvVTvNDYLA~RDaewm~p~y~flG-----LtVg~i~~~~~~~~Rr~aY--- 226 (1025)
T PRK12900 155 ISEMATGEGKTLVSTLPTFLNALTGRGVHVVTVNDYLAQRDKEWMNPVFEFHG-----LSVGVILNTMRPEERREQY--- 226 (1025)
T ss_pred ccccCCCCCcchHhHHHHHHHHHcCCCcEEEeechHhhhhhHHHHHHHHHHhC-----CeeeeeCCCCCHHHHHHhC---
Confidence 89999999999999999998889999999999999999999999999988888 9999998888888887655
Q ss_pred hcCCccEEEechHHH-h----h-------ccccCCccEEEEeCCccc
Q 045263 616 QTGDITLVIGTHSLI-A----E-------KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 616 ~~G~~~IVVgT~~~l-~----~-------~v~~~~l~LVIIDEaHrf 650 (742)
.+||+-||..-+ + | ......+.+.||||+|..
T Consensus 227 ---~~DItYgTn~EfGFDYLRDnma~~~~~~vqR~~~faIVDEvDSv 270 (1025)
T PRK12900 227 ---LCDITYGTNNEFGFDYLRDNMAGTPEEMVQRDFYFAIVDEVDSV 270 (1025)
T ss_pred ---CCcceecCCCccccccchhccccchhhhhccCCceEEEechhhh
Confidence 379999998755 1 1 112356789999999974
No 162
>PF13245 AAA_19: Part of AAA domain
Probab=97.54 E-value=0.00023 Score=61.45 Aligned_cols=47 Identities=28% Similarity=0.355 Sum_probs=41.6
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhc----CCeEEEEcccHHHHHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGS----GYQAAFMVPTELLATQHYEHL 580 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~----g~qvlilaPT~~La~Q~~~~l 580 (742)
-.+|+||+|||||.+.+..+...+.. +.++++++||+..++.+.+++
T Consensus 12 ~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 12 LFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 35679999999999888888888866 889999999999999998887
No 163
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.53 E-value=0.0003 Score=78.46 Aligned_cols=129 Identities=16% Similarity=0.203 Sum_probs=87.7
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCC
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEED 590 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~ 590 (742)
.|-|+|++-+.-+...-.+. -..-+|....|-|||+-++..++.- -.+.+.|+++|+.+| .||.+++...-...
T Consensus 184 ~LL~fQkE~l~Wl~~QE~Ss-~~GGiLADEMGMGKTIQtIaLllae-~~ra~tLVvaP~VAl-mQW~nEI~~~T~gs--- 257 (791)
T KOG1002|consen 184 PLLPFQKEGLAWLTSQEESS-VAGGILADEMGMGKTIQTIALLLAE-VDRAPTLVVAPTVAL-MQWKNEIERHTSGS--- 257 (791)
T ss_pred cchhhhHHHHHHHHHhhhhh-hccceehhhhccchHHHHHHHHHhc-cccCCeeEEccHHHH-HHHHHHHHHhccCc---
Confidence 46788888776554322211 1234888999999999887766653 236789999999987 57888888876522
Q ss_pred CCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh------------------ccccCCcc--EEEEeCCccc
Q 045263 591 KHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE------------------KVEFSALR--LAIVDEQQRF 650 (742)
Q Consensus 591 ~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~------------------~v~~~~l~--LVIIDEaHrf 650 (742)
.++.++||....+.-.++ . ..|+|.+|.+.+.. .-.+++++ -||+||||..
T Consensus 258 ---lkv~~YhG~~R~~nikel----~--~YDvVLTty~vvEs~yRk~~~GfrrKngv~ke~SlLHsi~~~RiIlDEAH~I 328 (791)
T KOG1002|consen 258 ---LKVYIYHGAKRDKNIKEL----M--NYDVVLTTYAVVESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRIILDEAHNI 328 (791)
T ss_pred ---eEEEEEecccccCCHHHh----h--cCcEEEEecHHHHHHHHhccccccccCCcccccchhhhceeeeeehhhhccc
Confidence 789999998655444332 1 27999999887732 11233333 5999999986
Q ss_pred cccc
Q 045263 651 GVVQ 654 (742)
Q Consensus 651 G~~q 654 (742)
-..+
T Consensus 329 K~R~ 332 (791)
T KOG1002|consen 329 KDRQ 332 (791)
T ss_pred cccc
Confidence 4333
No 164
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=97.43 E-value=0.0017 Score=78.39 Aligned_cols=72 Identities=21% Similarity=0.165 Sum_probs=53.7
Q ss_pred HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC--CeEEEEcccHHHHHHHH
Q 045263 500 LTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG--YQAAFMVPTELLATQHY 577 (742)
Q Consensus 500 l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g--~qvlilaPT~~La~Q~~ 577 (742)
....+.+..++.|++.|++|+..+..+ ...+|+|++|+|||.+.-..+...-..| ..+++++||-.-|..+.
T Consensus 312 ~i~~~~~~~~~~l~~~Q~~Ai~~~~~~------~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~ 385 (720)
T TIGR01448 312 HIWEVEKKLRKGLSEEQKQALDTAIQH------KVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLG 385 (720)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHhC------CeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHH
Confidence 344556678899999999999998642 2679999999999987644433333445 78999999987776443
No 165
>PRK10536 hypothetical protein; Provisional
Probab=97.43 E-value=0.00033 Score=73.86 Aligned_cols=130 Identities=16% Similarity=0.176 Sum_probs=73.8
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC-Ce-EEEEcccHHHHH-------HHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG-YQ-AAFMVPTELLAT-------QHYEHLLK 582 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g-~q-vlilaPT~~La~-------Q~~~~l~~ 582 (742)
.|..|...+..+.+. ..+++.|++|||||..+....+..+.++ +. +++.-|+....+ ...+.+..
T Consensus 60 ~n~~Q~~~l~al~~~------~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~~~eK~~p 133 (262)
T PRK10536 60 RNEAQAHYLKAIESK------QLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGDIAEKFAP 133 (262)
T ss_pred CCHHHHHHHHHHhcC------CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCCHHHHHHH
Confidence 788999988877542 3789999999999999998888766444 44 444446543211 12222333
Q ss_pred hhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccchhhhhh
Q 045263 583 LLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNS 660 (742)
Q Consensus 583 ~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~ 660 (742)
|+.++-. ....+.|. +.....+ ....| .|-|...+.+. ..+|.+ ++|||||++.+...|-..+..
T Consensus 134 ~~~pi~D-----~L~~~~~~---~~~~~~~-~~~~~--~Iei~~l~ymR-Grtl~~-~~vIvDEaqn~~~~~~k~~lt 198 (262)
T PRK10536 134 YFRPVYD-----VLVRRLGA---SFMQYCL-RPEIG--KVEIAPFAYMR-GRTFEN-AVVILDEAQNVTAAQMKMFLT 198 (262)
T ss_pred HHHHHHH-----HHHHHhCh---HHHHHHH-HhccC--cEEEecHHHhc-CCcccC-CEEEEechhcCCHHHHHHHHh
Confidence 3322110 00001111 1111111 01223 46666666664 344544 799999999998877665554
No 166
>PRK10689 transcription-repair coupling factor; Provisional
Probab=97.42 E-value=0.0011 Score=83.57 Aligned_cols=97 Identities=18% Similarity=0.274 Sum_probs=83.5
Q ss_pred HHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH
Q 045263 551 LACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI 630 (742)
Q Consensus 551 ~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l 630 (742)
.+++..+..|.|+++++|+..-++.+++.+.+.++. .++..+||+++..+|..++.++.+|+.+|+|+|. .+
T Consensus 800 ~~il~el~r~gqv~vf~n~i~~ie~la~~L~~~~p~-------~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTd-Ii 871 (1147)
T PRK10689 800 EAILREILRGGQVYYLYNDVENIQKAAERLAELVPE-------ARIAIGHGQMRERELERVMNDFHHQRFNVLVCTT-II 871 (1147)
T ss_pred HHHHHHHhcCCeEEEEECCHHHHHHHHHHHHHhCCC-------CcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECc-hh
Confidence 344555667889999999999999999988887643 5788999999999999999999999999999995 46
Q ss_pred hhccccCCccEEEEeCCccccccch
Q 045263 631 AEKVEFSALRLAIVDEQQRFGVVQR 655 (742)
Q Consensus 631 ~~~v~~~~l~LVIIDEaHrfG~~qr 655 (742)
...+.+.++.+||++.+++||..|.
T Consensus 872 erGIDIP~v~~VIi~~ad~fglaq~ 896 (1147)
T PRK10689 872 ETGIDIPTANTIIIERADHFGLAQL 896 (1147)
T ss_pred hcccccccCCEEEEecCCCCCHHHH
Confidence 6689999999999999999987654
No 167
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=97.36 E-value=0.00043 Score=84.04 Aligned_cols=125 Identities=18% Similarity=0.222 Sum_probs=96.1
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhcc
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNME 588 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~ 588 (742)
.|.++++=.+.+-.+.-. . ..+..+.||-|||+++.+|++.....|+.|-++....-||..=.+.+..++..+|
T Consensus 165 ~W~m~~yDVQliGgivLh--~----G~IAEM~TGEGKTLvAtlp~yLnAL~GkgVHvVTVNDYLA~RDaewmgply~fLG 238 (1112)
T PRK12901 165 TWDMVHYDVQLIGGVVLH--Q----GKIAEMATGEGKTLVATLPVYLNALTGNGVHVVTVNDYLAKRDSEWMGPLYEFHG 238 (1112)
T ss_pred cCCCcccchHHhhhhhhc--C----CceeeecCCCCchhHHHHHHHHHHHcCCCcEEEEechhhhhccHHHHHHHHHHhC
Confidence 345555544455444332 2 2399999999999999999999889999999999999999998998888888888
Q ss_pred CCCCCcEEEEEeC-CCChHHHHHHHHHhhcCCccEEEechHHH-----hh-------ccccCCccEEEEeCCccc
Q 045263 589 EDKHKPKIALLTG-STPVKQSRMIRKDLQTGDITLVIGTHSLI-----AE-------KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 589 ~~~~~i~V~ll~G-~~~~~er~~i~~~l~~G~~~IVVgT~~~l-----~~-------~v~~~~l~LVIIDEaHrf 650 (742)
++|+++.. .++..+|+..+ .+||+-||..-+ .| ......+.+.||||+|..
T Consensus 239 -----Lsvg~i~~~~~~~~~rr~aY------~~DItYgTn~EfGFDYLRDnm~~~~~~~vqR~~~fAIVDEvDSI 302 (1112)
T PRK12901 239 -----LSVDCIDKHQPNSEARRKAY------NADITYGTNNEFGFDYLRDNMAHSPEDLVQRKHNYAIVDEVDSV 302 (1112)
T ss_pred -----CceeecCCCCCCHHHHHHhC------CCcceecCCCccccccchhccccchHhhhCcCCceeEeechhhh
Confidence 89998866 66777777654 379999998755 11 112355789999999974
No 168
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.32 E-value=0.0027 Score=71.12 Aligned_cols=162 Identities=17% Similarity=0.215 Sum_probs=91.5
Q ss_pred ceEEEccCCChHHHHHHHHHHH-HHhcCCeEEEEcccHHHHHHHHHHHHHhhhh-ccC-CCCCcEEEEEeCCCChHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACME-VIGSGYQAAFMVPTELLATQHYEHLLKLLDN-MEE-DKHKPKIALLTGSTPVKQSRM 610 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~-~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~-~~~-~~~~i~V~ll~G~~~~~er~~ 610 (742)
.+++.|+||||||.-.=..++. .+....+++.--|.+.-|.+++.+..+-..- +|+ ....++..-++|..+
T Consensus 64 ~~v~vGetgsGKttQiPq~~~~~~~~~~~~v~CTQprrvaamsva~RVadEMDv~lG~EVGysIrfEdC~~~~T------ 137 (699)
T KOG0925|consen 64 IIVLVGETGSGKTTQIPQFVLEYELSHLTGVACTQPRRVAAMSVAQRVADEMDVTLGEEVGYSIRFEDCTSPNT------ 137 (699)
T ss_pred eEEEEecCCCCccccCcHHHHHHHHhhccceeecCchHHHHHHHHHHHHHHhccccchhccccccccccCChhH------
Confidence 6799999999999764333322 2333577888889999999998887765421 110 000012222222111
Q ss_pred HHHHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCccccccch--hhhhhhhhccccccccccccCCCCCCCCC
Q 045263 611 IRKDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQRFGVVQR--GRFNSKLYYTSMSSGMAMVNSDGSPKDDQ 684 (742)
Q Consensus 611 i~~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHrfG~~qr--~~l~~k~~~~~~~~~~~~~~~~~~~r~~~ 684 (742)
+++ .+|.+.+.. .-.+...+.||+||+|.-..... ..+.... .+.+
T Consensus 138 ~Lk----------y~tDgmLlrEams~p~l~~y~viiLDeahERtlATDiLmGllk~v-----------------~~~r- 189 (699)
T KOG0925|consen 138 LLK----------YCTDGMLLREAMSDPLLGRYGVIILDEAHERTLATDILMGLLKEV-----------------VRNR- 189 (699)
T ss_pred HHH----------HhcchHHHHHHhhCcccccccEEEechhhhhhHHHHHHHHHHHHH-----------------HhhC-
Confidence 111 233333322 33467899999999997432221 1111110 0111
Q ss_pred CCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEEEcCCcc
Q 045263 685 HMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRIPIKTYIIEGNEK 735 (742)
Q Consensus 685 ~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~~~~~~~ 735 (742)
..-.++.||||---..+ ...+|+..+..+ +|+.||+.++.++-++
T Consensus 190 -pdLk~vvmSatl~a~Kf-q~yf~n~Pll~v----pg~~PvEi~Yt~e~er 234 (699)
T KOG0925|consen 190 -PDLKLVVMSATLDAEKF-QRYFGNAPLLAV----PGTHPVEIFYTPEPER 234 (699)
T ss_pred -CCceEEEeecccchHHH-HHHhCCCCeeec----CCCCceEEEecCCCCh
Confidence 24578999999544444 344677655544 4588998887776554
No 169
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.32 E-value=0.0024 Score=76.10 Aligned_cols=100 Identities=22% Similarity=0.395 Sum_probs=79.7
Q ss_pred HHHHHHHHhcCCeEEEEcccHH--------HHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCcc
Q 045263 550 FLACMEVIGSGYQAAFMVPTEL--------LATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDIT 621 (742)
Q Consensus 550 l~ail~~l~~g~qvlilaPT~~--------La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~ 621 (742)
+..+...+.+|.|+++++|+.+ -++++++.+.+.+. + ..++++||+++..+|..+++.+++|+.+
T Consensus 438 ~~~i~~~l~~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~--~-----~~v~~lHG~m~~~eR~~i~~~F~~g~~~ 510 (630)
T TIGR00643 438 YEFIEEEIAKGRQAYVVYPLIEESEKLDLKAAEALYERLKKAFP--K-----YNVGLLHGRMKSDEKEAVMEEFREGEVD 510 (630)
T ss_pred HHHHHHHHHhCCcEEEEEccccccccchHHHHHHHHHHHHhhCC--C-----CcEEEEeCCCCHHHHHHHHHHHHcCCCC
Confidence 3344555677999999999863 35566666666542 2 6899999999999999999999999999
Q ss_pred EEEechHHHhhccccCCccEEEEeCCccccccchhh
Q 045263 622 LVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGR 657 (742)
Q Consensus 622 IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~ 657 (742)
|+|+|. .+...+++.++.+||+..++++|..+-.+
T Consensus 511 ILVaT~-vie~GvDiP~v~~VIi~~~~r~gls~lhQ 545 (630)
T TIGR00643 511 ILVATT-VIEVGVDVPNATVMVIEDAERFGLSQLHQ 545 (630)
T ss_pred EEEECc-eeecCcccCCCcEEEEeCCCcCCHHHHHH
Confidence 999995 56668899999999999999998655443
No 170
>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=97.29 E-value=0.0014 Score=80.73 Aligned_cols=96 Identities=16% Similarity=0.261 Sum_probs=83.1
Q ss_pred HHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHh
Q 045263 552 ACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIA 631 (742)
Q Consensus 552 ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~ 631 (742)
++...+..|.|+++++|+..-++.+++.+++.++. .++..+||.++..+|..++..+.+|+.+|+|+|. .+.
T Consensus 652 ~i~~el~~g~qv~if~n~i~~~e~l~~~L~~~~p~-------~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~-iie 723 (926)
T TIGR00580 652 AIRRELLRGGQVFYVHNRIESIEKLATQLRELVPE-------ARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTT-IIE 723 (926)
T ss_pred HHHHHHHcCCeEEEEECCcHHHHHHHHHHHHhCCC-------CeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECC-hhh
Confidence 34455667899999999999999888888876542 6899999999999999999999999999999996 566
Q ss_pred hccccCCccEEEEeCCccccccch
Q 045263 632 EKVEFSALRLAIVDEQQRFGVVQR 655 (742)
Q Consensus 632 ~~v~~~~l~LVIIDEaHrfG~~qr 655 (742)
..+.+.++.+||++.++++|..+.
T Consensus 724 ~GIDIp~v~~VIi~~a~~~gls~l 747 (926)
T TIGR00580 724 TGIDIPNANTIIIERADKFGLAQL 747 (926)
T ss_pred cccccccCCEEEEecCCCCCHHHH
Confidence 789999999999999999986554
No 171
>PRK06526 transposase; Provisional
Probab=97.28 E-value=0.0014 Score=69.51 Aligned_cols=37 Identities=24% Similarity=0.298 Sum_probs=31.4
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcc
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVP 568 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaP 568 (742)
+.|+++.||+|+|||..+......++..|+.+++...
T Consensus 98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~ 134 (254)
T PRK06526 98 KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATA 134 (254)
T ss_pred CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhH
Confidence 3589999999999999998888888888988877543
No 172
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.24 E-value=0.0024 Score=73.73 Aligned_cols=185 Identities=15% Similarity=0.161 Sum_probs=105.1
Q ss_pred HHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH-H-hcCCeEEEEcccHHHHHHHHH
Q 045263 501 TKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV-I-GSGYQAAFMVPTELLATQHYE 578 (742)
Q Consensus 501 ~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~-l-~~g~qvlilaPT~~La~Q~~~ 578 (742)
.+...+.||.- ++-.+.+.+|.+. .-.+|.|.||||||.-.=.-+.++ + ..|+.+-+--|.+.-|..++.
T Consensus 257 iee~RksLPVy--~ykdell~av~e~------QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAa 328 (902)
T KOG0923|consen 257 IEEVRKSLPVY--PYKDELLKAVKEH------QVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAA 328 (902)
T ss_pred HHHHHhcCCch--hhHHHHHHHHHhC------cEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHH
Confidence 34455667643 3333345555542 357999999999997532222221 1 224558888899999999988
Q ss_pred HHHHhhh-hccCCCCC--cEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCcccc
Q 045263 579 HLLKLLD-NMEEDKHK--PKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 579 ~l~~~l~-~~~~~~~~--i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHrfG 651 (742)
+..+-.. .+| -+.+ ++..-+++ ...-|=..|.+.|.. ...+.....|||||||.--
T Consensus 329 RVA~EMgvkLG-~eVGYsIRFEdcTS----------------ekTvlKYMTDGmLlREfL~epdLasYSViiiDEAHERT 391 (902)
T KOG0923|consen 329 RVAEEMGVKLG-HEVGYSIRFEDCTS----------------EKTVLKYMTDGMLLREFLSEPDLASYSVIIVDEAHERT 391 (902)
T ss_pred HHHHHhCcccc-cccceEEEeccccC----------------cceeeeeecchhHHHHHhccccccceeEEEeehhhhhh
Confidence 8766432 222 0001 11111221 123455777776633 3457788899999999631
Q ss_pred ccch--hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCCCCcEEEE
Q 045263 652 VVQR--GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGRIPIKTYI 729 (742)
Q Consensus 652 ~~qr--~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr~~i~t~~ 729 (742)
.... -.|... + +...+.-.+|.+|||---+-+... +++. .|-..|..|-||.+++
T Consensus 392 L~TDILfgLvKD---------------I----ar~RpdLKllIsSAT~DAekFS~f-FDda---pIF~iPGRRyPVdi~Y 448 (902)
T KOG0923|consen 392 LHTDILFGLVKD---------------I----ARFRPDLKLLISSATMDAEKFSAF-FDDA---PIFRIPGRRYPVDIFY 448 (902)
T ss_pred hhhhHHHHHHHH---------------H----HhhCCcceEEeeccccCHHHHHHh-ccCC---cEEeccCcccceeeec
Confidence 1111 011110 0 111134578999999766665433 4444 5556688899999887
Q ss_pred EcCC
Q 045263 730 IEGN 733 (742)
Q Consensus 730 ~~~~ 733 (742)
-...
T Consensus 449 t~~P 452 (902)
T KOG0923|consen 449 TKAP 452 (902)
T ss_pred ccCC
Confidence 5443
No 173
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=97.23 E-value=0.00073 Score=72.07 Aligned_cols=67 Identities=22% Similarity=0.207 Sum_probs=55.7
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC----CeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG----YQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g----~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
||+.|.+++.. .. .+.+|.|..|||||.+.+.-+...+..+ .+++++++|+..+..+.+++...+..
T Consensus 1 l~~eQ~~~i~~-~~-------~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~ 71 (315)
T PF00580_consen 1 LTDEQRRIIRS-TE-------GPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEE 71 (315)
T ss_dssp S-HHHHHHHHS--S-------SEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC-CC-------CCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCc
Confidence 68999999977 32 2789999999999999998888887765 58999999999999999999987754
No 174
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=97.12 E-value=0.0018 Score=78.96 Aligned_cols=157 Identities=16% Similarity=0.261 Sum_probs=100.9
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHH-HHhc--------CCeEEEEcccHHHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACME-VIGS--------GYQAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~-~l~~--------g~qvlilaPT~~La~Q~~~~l~~ 582 (742)
|+.+|++-++-+-- +. ...-+-+|+-|.|-|||+-.+-.+.. .... ...++|++|. .|+--|..++.+
T Consensus 976 LRkYQqEGVnWLaF-Ln-ky~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPs-TLtGHW~~E~~k 1052 (1549)
T KOG0392|consen 976 LRKYQQEGVNWLAF-LN-KYKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPS-TLTGHWKSEVKK 1052 (1549)
T ss_pred HHHHHHhccHHHHH-HH-HhcccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCc-hhhhHHHHHHHH
Confidence 78999999987631 11 11235599999999999986544332 2222 2458999998 499999999999
Q ss_pred hhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh---ccccCCccEEEEeCCccccccchhhhh
Q 045263 583 LLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE---KVEFSALRLAIVDEQQRFGVVQRGRFN 659 (742)
Q Consensus 583 ~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~---~v~~~~l~LVIIDEaHrfG~~qr~~l~ 659 (742)
+++.+ +|..+.|.. .+|....... ..++|+|++...+.. .+.-.++.++|+||-|-+--.+ .++.
T Consensus 1053 f~pfL-------~v~~yvg~p--~~r~~lR~q~--~~~~iiVtSYDv~RnD~d~l~~~~wNYcVLDEGHVikN~k-tkl~ 1120 (1549)
T KOG0392|consen 1053 FFPFL-------KVLQYVGPP--AERRELRDQY--KNANIIVTSYDVVRNDVDYLIKIDWNYCVLDEGHVIKNSK-TKLT 1120 (1549)
T ss_pred hcchh-------hhhhhcCCh--HHHHHHHhhc--cccceEEeeHHHHHHHHHHHHhcccceEEecCcceecchH-HHHH
Confidence 98753 566666653 3444433332 346999999988753 2233467799999999863222 2222
Q ss_pred hhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHH
Q 045263 660 SKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLA 703 (742)
Q Consensus 660 ~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla 703 (742)
... ... .+-|.|.+|.||+.....
T Consensus 1121 kav---------------kqL-----~a~hRLILSGTPIQNnvl 1144 (1549)
T KOG0392|consen 1121 KAV---------------KQL-----RANHRLILSGTPIQNNVL 1144 (1549)
T ss_pred HHH---------------HHH-----hhcceEEeeCCCcccCHH
Confidence 110 001 134678889999965543
No 175
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.12 E-value=0.00038 Score=83.67 Aligned_cols=108 Identities=25% Similarity=0.298 Sum_probs=86.9
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMI 611 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i 611 (742)
+.++-+|||+|||++|..++...... +.++++++|-.+|+....+.+......-| +++.-++|+...+-..
T Consensus 945 ~~~~g~ptgsgkt~~ae~a~~~~~~~~p~~kvvyIap~kalvker~~Dw~~r~~~~g-----~k~ie~tgd~~pd~~~-- 1017 (1230)
T KOG0952|consen 945 NFLLGAPTGSGKTVVAELAIFRALSYYPGSKVVYIAPDKALVKERSDDWSKRDELPG-----IKVIELTGDVTPDVKA-- 1017 (1230)
T ss_pred hhhhcCCccCcchhHHHHHHHHHhccCCCccEEEEcCCchhhcccccchhhhcccCC-----ceeEeccCccCCChhh--
Confidence 67889999999999999999888765 68999999999999998888877664434 8899999988765221
Q ss_pred HHHhhcCCccEEEechHHHhh-------ccccCCccEEEEeCCcccccc
Q 045263 612 RKDLQTGDITLVIGTHSLIAE-------KVEFSALRLAIVDEQQRFGVV 653 (742)
Q Consensus 612 ~~~l~~G~~~IVVgT~~~l~~-------~v~~~~l~LVIIDEaHrfG~~ 653 (742)
--+++++|+||..+.. .--+.++.++|+||.|..|..
T Consensus 1018 -----v~~~~~~ittpek~dgi~Rsw~~r~~v~~v~~iv~de~hllg~~ 1061 (1230)
T KOG0952|consen 1018 -----VREADIVITTPEKWDGISRSWQTRKYVQSVSLIVLDEIHLLGED 1061 (1230)
T ss_pred -----eecCceEEcccccccCccccccchhhhccccceeecccccccCC
Confidence 1247999999987732 233678999999999998754
No 176
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=97.10 E-value=0.00073 Score=79.22 Aligned_cols=126 Identities=16% Similarity=0.172 Sum_probs=78.4
Q ss_pred HHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHH-h-----cCCeEEEEcccHHHHHHH
Q 045263 503 KLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVI-G-----SGYQAAFMVPTELLATQH 576 (742)
Q Consensus 503 ~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l-~-----~g~qvlilaPT~~La~Q~ 576 (742)
+-...||+ + ..-++.+++|.++ --++|+|.||||||.-.=.-++++= . ++.-+-|--|.+.-|--+
T Consensus 250 ~sR~~LPI-~-aeEq~IMEaIn~n------~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiam 321 (1172)
T KOG0926|consen 250 ESRLDLPI-V-AEEQRIMEAINEN------PVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAM 321 (1172)
T ss_pred HHHhcCch-h-HHHHHHHHHhhcC------CeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHH
Confidence 33444554 2 2233456666653 2689999999999975322222221 1 123456677999988888
Q ss_pred HHHHHHhhhhccCCCCCcEEEE---EeCCCChHHHHHHHHHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCcc
Q 045263 577 YEHLLKLLDNMEEDKHKPKIAL---LTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQR 649 (742)
Q Consensus 577 ~~~l~~~l~~~~~~~~~i~V~l---l~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHr 649 (742)
+++...-+..++ -.|.. +.|.. .....|-+.|.+.|.. .+.+.....|||||||.
T Consensus 322 AkRVa~EL~~~~-----~eVsYqIRfd~ti-------------~e~T~IkFMTDGVLLrEi~~DflL~kYSvIIlDEAHE 383 (1172)
T KOG0926|consen 322 AKRVAFELGVLG-----SEVSYQIRFDGTI-------------GEDTSIKFMTDGVLLREIENDFLLTKYSVIILDEAHE 383 (1172)
T ss_pred HHHHHHHhccCc-----cceeEEEEecccc-------------CCCceeEEecchHHHHHHHHhHhhhhceeEEechhhh
Confidence 888776665544 23332 22222 2246899999997743 66788999999999997
Q ss_pred ccccc
Q 045263 650 FGVVQ 654 (742)
Q Consensus 650 fG~~q 654 (742)
-++..
T Consensus 384 RSvnT 388 (1172)
T KOG0926|consen 384 RSVNT 388 (1172)
T ss_pred ccchH
Confidence 54433
No 177
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.07 E-value=0.0026 Score=78.30 Aligned_cols=104 Identities=16% Similarity=0.268 Sum_probs=91.8
Q ss_pred HHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHH
Q 045263 550 FLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSL 629 (742)
Q Consensus 550 l~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~ 629 (742)
--++++-+..|+|+.|+.|..+-.++..+.++.+.+. .+|++.||.++..+-+.++..+.+|+.||+|+|. .
T Consensus 793 reAI~REl~RgGQvfYv~NrV~~Ie~~~~~L~~LVPE-------arI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TT-I 864 (1139)
T COG1197 793 REAILRELLRGGQVFYVHNRVESIEKKAERLRELVPE-------ARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTT-I 864 (1139)
T ss_pred HHHHHHHHhcCCEEEEEecchhhHHHHHHHHHHhCCc-------eEEEEeecCCCHHHHHHHHHHHHcCCCCEEEEee-e
Confidence 3566777788999999999999999999999999865 5899999999999999999999999999999995 3
Q ss_pred HhhccccCCccEEEEeCCccccccchhhhhhh
Q 045263 630 IAEKVEFSALRLAIVDEQQRFGVVQRGRFNSK 661 (742)
Q Consensus 630 l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~k 661 (742)
+...++..+...+||+-||+||..|--+|+..
T Consensus 865 IEtGIDIPnANTiIIe~AD~fGLsQLyQLRGR 896 (1139)
T COG1197 865 IETGIDIPNANTIIIERADKFGLAQLYQLRGR 896 (1139)
T ss_pred eecCcCCCCCceEEEeccccccHHHHHHhccc
Confidence 45578889999999999999999998777653
No 178
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.04 E-value=0.0089 Score=71.98 Aligned_cols=99 Identities=22% Similarity=0.382 Sum_probs=79.0
Q ss_pred HHHHHHHhcCCeEEEEcccHH--------HHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccE
Q 045263 551 LACMEVIGSGYQAAFMVPTEL--------LATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITL 622 (742)
Q Consensus 551 ~ail~~l~~g~qvlilaPT~~--------La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~I 622 (742)
..+...+.+|.|+++++|+.+ -+.++++.+.+.+.. .++..+||+++..+|..+++.+++|+.+|
T Consensus 462 ~~i~~~~~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~-------~~v~~lHG~m~~~eR~~i~~~F~~g~~~I 534 (681)
T PRK10917 462 ERIREEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQEAFPE-------LRVGLLHGRMKPAEKDAVMAAFKAGEIDI 534 (681)
T ss_pred HHHHHHHHcCCcEEEEEcccccccchhHHHHHHHHHHHHHHCCC-------CcEEEEeCCCCHHHHHHHHHHHHcCCCCE
Confidence 444555678999999999643 345566666655432 57999999999999999999999999999
Q ss_pred EEechHHHhhccccCCccEEEEeCCccccccchhh
Q 045263 623 VIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGR 657 (742)
Q Consensus 623 VVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~ 657 (742)
+|+|. .+...+++.++.+||+..+++||..+-.+
T Consensus 535 LVaT~-vie~GiDip~v~~VIi~~~~r~gls~lhQ 568 (681)
T PRK10917 535 LVATT-VIEVGVDVPNATVMVIENAERFGLAQLHQ 568 (681)
T ss_pred EEECc-ceeeCcccCCCcEEEEeCCCCCCHHHHHH
Confidence 99996 56668899999999999999998655443
No 179
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.04 E-value=0.009 Score=69.36 Aligned_cols=180 Identities=16% Similarity=0.183 Sum_probs=100.9
Q ss_pred HHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH-HhcCCeEEEEcccHHHHHHHHHHHHH
Q 045263 504 LLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV-IGSGYQAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 504 ~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~-l~~g~qvlilaPT~~La~Q~~~~l~~ 582 (742)
..+.||. -..+.+.+..|.++ .-++|.|.||||||.-...-+++. ...+.-+-+--|.+.-|..+++++..
T Consensus 351 qrq~LPv--f~~R~~ll~~ir~n------~vvvivgETGSGKTTQl~QyL~edGY~~~GmIGcTQPRRvAAiSVAkrVa~ 422 (1042)
T KOG0924|consen 351 QRQYLPV--FACRDQLLSVIREN------QVVVIVGETGSGKTTQLAQYLYEDGYADNGMIGCTQPRRVAAISVAKRVAE 422 (1042)
T ss_pred HHhhcch--HHHHHHHHHHHhhC------cEEEEEecCCCCchhhhHHHHHhcccccCCeeeecCchHHHHHHHHHHHHH
Confidence 3444442 23344445555442 267999999999997643333322 11122344456999999988888876
Q ss_pred hhh-hccCCCC--CcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh----ccccCCccEEEEeCCccccccch
Q 045263 583 LLD-NMEEDKH--KPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE----KVEFSALRLAIVDEQQRFGVVQR 655 (742)
Q Consensus 583 ~l~-~~~~~~~--~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~----~v~~~~l~LVIIDEaHrfG~~qr 655 (742)
-+. .+| ... .++..-+|+ ....|=..|.+.|.. .-.+.+...||+||||.-.....
T Consensus 423 EM~~~lG-~~VGYsIRFEdvT~----------------~~T~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERslNtD 485 (1042)
T KOG0924|consen 423 EMGVTLG-DTVGYSIRFEDVTS----------------EDTKIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSLNTD 485 (1042)
T ss_pred HhCCccc-cccceEEEeeecCC----------------CceeEEEeccchHHHHHhhhhhhhheeEEEechhhhcccchH
Confidence 552 222 000 022222232 123455667665532 33467788999999998544332
Q ss_pred --hhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCCCCC-CCcEEEEEcC
Q 045263 656 --GRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLPPGR-IPIKTYIIEG 732 (742)
Q Consensus 656 --~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P~gr-~~i~t~~~~~ 732 (742)
..+..+.. ..| ..-.++++|||-.-.-++.. +|.....+| +|| .||.+.....
T Consensus 486 ilfGllk~~l---------------arR----rdlKliVtSATm~a~kf~nf-Fgn~p~f~I----pGRTyPV~~~~~k~ 541 (1042)
T KOG0924|consen 486 ILFGLLKKVL---------------ARR----RDLKLIVTSATMDAQKFSNF-FGNCPQFTI----PGRTYPVEIMYTKT 541 (1042)
T ss_pred HHHHHHHHHH---------------Hhh----ccceEEEeeccccHHHHHHH-hCCCceeee----cCCccceEEEeccC
Confidence 11222110 011 14578999999888777766 565555555 466 6787776443
No 180
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=96.99 E-value=0.0014 Score=72.88 Aligned_cols=66 Identities=18% Similarity=0.221 Sum_probs=53.4
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHH
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQH 576 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~ 576 (742)
.|++.|+++++.+++......+.+..|.|+-|+|||.++-......-..+..++++|||-.=|..+
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhc
Confidence 489999999999988776667779999999999999887555554444578899999997666655
No 181
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=96.95 E-value=0.0049 Score=56.95 Aligned_cols=55 Identities=31% Similarity=0.380 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccH
Q 045263 516 QLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTE 570 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~ 570 (742)
|...+..+...+.......+++.|++|+|||..+...+......+..++++....
T Consensus 3 ~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~ 57 (151)
T cd00009 3 QEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASD 57 (151)
T ss_pred hHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhh
Confidence 4445555555544433457899999999999876666655544456666655443
No 182
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=96.79 E-value=0.0044 Score=75.85 Aligned_cols=132 Identities=21% Similarity=0.286 Sum_probs=88.3
Q ss_pred CCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc----CCeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 510 YSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS----GYQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 510 f~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~----g~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
-++.++|.+.++-+...+.. ...+.++..+.|.|||+-.+..+...... ...+++++|+. +..+|.+++.++.+
T Consensus 337 ~~lr~yq~~g~~wl~~~l~~-~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~~~liv~p~s-~~~nw~~e~~k~~~ 414 (866)
T COG0553 337 AELRPYQLEGVNWLSELLRS-NLLGGILADDMGLGKTVQTIALLLSLLESIKVYLGPALIVVPAS-LLSNWKREFEKFAP 414 (866)
T ss_pred hhhHHHHHHHHHHHHHHHHh-ccCCCcccccccchhHHHHHHHHHhhhhcccCCCCCeEEEecHH-HHHHHHHHHhhhCc
Confidence 45889999999665522211 23467999999999998877766553333 24799999995 67778888877765
Q ss_pred hccCCCCCcE-EEEEeCCCC-hHHHHHHHHHhhc-C---CccEEEechHHHhh------ccccCCccEEEEeCCccc
Q 045263 586 NMEEDKHKPK-IALLTGSTP-VKQSRMIRKDLQT-G---DITLVIGTHSLIAE------KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 586 ~~~~~~~~i~-V~ll~G~~~-~~er~~i~~~l~~-G---~~~IVVgT~~~l~~------~v~~~~l~LVIIDEaHrf 650 (742)
.+ + +...+|... ...+...+..+.. + ..+++++|-+.+.. .+.-..++.+|+||+|+.
T Consensus 415 ~~-------~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~v~itty~~l~~~~~~~~~l~~~~~~~~v~DEa~~i 484 (866)
T COG0553 415 DL-------RLVLVYHGEKSELDKKREALRDLLKLHLVIIFDVVITTYELLRRFLVDHGGLKKIEWDRVVLDEAHRI 484 (866)
T ss_pred cc-------cceeeeeCCcccccHHHHHHHHHhhhcccceeeEEechHHHHHHhhhhHHHHhhceeeeeehhhHHHH
Confidence 43 4 777888765 1212222222222 2 26899999988754 223345789999999995
No 183
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=96.77 E-value=0.024 Score=58.97 Aligned_cols=116 Identities=22% Similarity=0.262 Sum_probs=77.3
Q ss_pred hCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 507 ALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 507 ~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
...+.+++.|.+...++.+. ....|.++|.-.|.|||-|.+-.+...+.+|.+.+.++=-++|.+|.++.+...+..
T Consensus 19 e~~iliR~~Q~~ia~~mi~~---~~~~n~v~QlnMGeGKTsVI~Pmla~~LAdg~~LvrviVpk~Ll~q~~~~L~~~lg~ 95 (229)
T PF12340_consen 19 ESNILIRPVQVEIAREMISP---PSGKNSVMQLNMGEGKTSVIVPMLALALADGSRLVRVIVPKALLEQMRQMLRSRLGG 95 (229)
T ss_pred HcCceeeHHHHHHHHHHhCC---CCCCCeEeeecccCCccchHHHHHHHHHcCCCcEEEEEcCHHHHHHHHHHHHHHHHH
Confidence 44567999999999998863 233588999999999999987777777777876655554457999999999888765
Q ss_pred ccCCCCCcEEEEE--eCCCCh--HH---HHHHHHHh-hcCCccEEEechHHHh
Q 045263 587 MEEDKHKPKIALL--TGSTPV--KQ---SRMIRKDL-QTGDITLVIGTHSLIA 631 (742)
Q Consensus 587 ~~~~~~~i~V~ll--~G~~~~--~e---r~~i~~~l-~~G~~~IVVgT~~~l~ 631 (742)
.- + -+|..+ .-++.. .. -..+++.. .+| .|+++||+.+.
T Consensus 96 l~--~--r~i~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~--gill~~PEhil 142 (229)
T PF12340_consen 96 LL--N--RRIYHLPFSRSTPLTPETLEKIRQLLEECMRSG--GILLATPEHIL 142 (229)
T ss_pred Hh--C--CeeEEecccCCCCCCHHHHHHHHHHHHHHHHcC--CEEEeChHHHH
Confidence 32 1 233333 222221 11 12222222 233 69999998663
No 184
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=96.76 E-value=0.002 Score=71.03 Aligned_cols=86 Identities=20% Similarity=0.318 Sum_probs=60.5
Q ss_pred cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-----c
Q 045263 559 SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-----K 633 (742)
Q Consensus 559 ~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-----~ 633 (742)
+..+++||-|.++|++|.+..++++-.... .+.++..++.|+.-...+. ..+.+| .+||||||+++.+ .
T Consensus 285 Nap~avivepsrelaEqt~N~i~~Fk~h~~--np~~r~lLmiggv~~r~Q~---~ql~~g-~~ivvGtpgRl~~~is~g~ 358 (725)
T KOG0349|consen 285 NAPEAVIVEPSRELAEQTHNQIEEFKMHTS--NPEVRSLLMIGGVLKRTQC---KQLKDG-THIVVGTPGRLLQPISKGL 358 (725)
T ss_pred CCcceeEecCcHHHHHHHHhhHHHHHhhcC--ChhhhhhhhhhhHHhHHHH---HHhhcC-ceeeecCchhhhhhhhccc
Confidence 457899999999999999997766544332 1224444555543332222 235667 8999999999866 3
Q ss_pred cccCCccEEEEeCCccc
Q 045263 634 VEFSALRLAIVDEQQRF 650 (742)
Q Consensus 634 v~~~~l~LVIIDEaHrf 650 (742)
+.+.+..++|+||++-+
T Consensus 359 ~~lt~crFlvlDead~l 375 (725)
T KOG0349|consen 359 VTLTHCRFLVLDEADLL 375 (725)
T ss_pred eeeeeeEEEEecchhhh
Confidence 35677889999999987
No 185
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=96.76 E-value=0.0066 Score=72.93 Aligned_cols=126 Identities=20% Similarity=0.196 Sum_probs=99.6
Q ss_pred HhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 506 RALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 506 ~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
..++..+...|.-.-=.+.. .-+..+-||-|||+++.+|++.....|..+.++.-..=||.--.+.+..++.
T Consensus 75 Rvlg~~~~dVQliG~i~lh~--------g~iaEM~TGEGKTL~atlp~ylnaL~gkgVhvVTvNdYLA~RDae~m~~l~~ 146 (822)
T COG0653 75 RVLGMRHFDVQLLGGIVLHL--------GDIAEMRTGEGKTLVATLPAYLNALAGKGVHVVTVNDYLARRDAEWMGPLYE 146 (822)
T ss_pred HhcCCChhhHHHhhhhhhcC--------CceeeeecCCchHHHHHHHHHHHhcCCCCcEEeeehHHhhhhCHHHHHHHHH
Confidence 34555555666543322222 3489999999999999999998888999999999999999999999999999
Q ss_pred hccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHH-hh-----------ccccCCccEEEEeCCccc
Q 045263 586 NMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLI-AE-----------KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 586 ~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l-~~-----------~v~~~~l~LVIIDEaHrf 650 (742)
.+| .+|++...+++..++...+. +||.-||.+.+ +| ......+.+.||||++..
T Consensus 147 ~LG-----lsvG~~~~~m~~~ek~~aY~------~DItY~TnnElGFDYLRDNm~~~~ee~vqr~~~faIvDEvDSI 212 (822)
T COG0653 147 FLG-----LSVGVILAGMSPEEKRAAYA------CDITYGTNNELGFDYLRDNMVTSQEEKVQRGLNFAIVDEVDSI 212 (822)
T ss_pred HcC-----CceeeccCCCChHHHHHHHh------cCceeccccccCcchhhhhhhccHHHhhhccCCeEEEcchhhe
Confidence 888 89999999999998888775 69999998866 11 122346788999999874
No 186
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=96.72 E-value=0.011 Score=70.41 Aligned_cols=117 Identities=16% Similarity=0.190 Sum_probs=68.8
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHhc-C-CeEEEEcccHHHHHHHHHHHHHhhhhc-cCCCCCcEEEEEeCCCChHHH
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIGS-G-YQAAFMVPTELLATQHYEHLLKLLDNM-EEDKHKPKIALLTGSTPVKQS 608 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~~-g-~qvlilaPT~~La~Q~~~~l~~~l~~~-~~~~~~i~V~ll~G~~~~~er 608 (742)
+.|+=|.+.||+|||.+|+-.|.+.-.. | .+.+++|||.+.-+-++..+...-.++ .+.-.+.+...+.-... ..+
T Consensus 74 ~lNiDI~METGTGKTy~YlrtmfeLhk~YG~~KFIivVPs~AIkeGv~~~s~~~~ehF~k~~Yent~~e~~i~~~~-~~~ 152 (985)
T COG3587 74 KLNIDILMETGTGKTYTYLRTMFELHKKYGLFKFIIVVPSLAIKEGVFLTSKETTEHFFKSEYENTRLESYIYDED-IEK 152 (985)
T ss_pred cceeeEEEecCCCceeeHHHHHHHHHHHhCceeEEEEeccHHHHhhhHHHHHHHHHHHhhhhccCcceeEEeechH-HHH
Confidence 4588899999999999999998876544 4 589999999998665444433222222 10001133444433211 111
Q ss_pred HHHHHHhhcCCccEEEechHHHhhc-----------cccCC-----------c----cEEEEeCCccccc
Q 045263 609 RMIRKDLQTGDITLVIGTHSLIAEK-----------VEFSA-----------L----RLAIVDEQQRFGV 652 (742)
Q Consensus 609 ~~i~~~l~~G~~~IVVgT~~~l~~~-----------v~~~~-----------l----~LVIIDEaHrfG~ 652 (742)
...-.++.+.+++-|-+++... ....+ + ..|||||=|+|..
T Consensus 153 ---~~~~~~~~~~vLl~~~~Afnk~~inan~iN~~s~~~~~~~~~~~spvd~la~~rPIvIvDEPh~f~~ 219 (985)
T COG3587 153 ---FKFKSNNKPCVLLIFVSAFNKEEINANMINSESMENTNLFNGATSPVDALASMRPIVIVDEPHRFLG 219 (985)
T ss_pred ---HhhccCCCceEEEEehhhhccccccccccchhhhcccCccccccCHHHHHHhcCCEEEecChhhccc
Confidence 1122355677777776655321 11111 1 2799999999954
No 187
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=96.69 E-value=0.0089 Score=55.54 Aligned_cols=52 Identities=15% Similarity=0.217 Sum_probs=31.5
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhc-----CCeEEE-EcccHHHHHHHHHHHHHhhh
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGS-----GYQAAF-MVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~-----g~qvli-laPT~~La~Q~~~~l~~~l~ 585 (742)
..+|.|++|+|||.++-..+...... ...+++ -+|...-...++..+...+.
T Consensus 6 ~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~ 63 (131)
T PF13401_consen 6 ILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALG 63 (131)
T ss_dssp -EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT
T ss_pred ccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhC
Confidence 67999999999999877666655432 344443 34554434555555555543
No 188
>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=96.61 E-value=0.011 Score=70.72 Aligned_cols=149 Identities=16% Similarity=0.089 Sum_probs=89.2
Q ss_pred ceEEEccCCChHHHHHHHHHHHHH-hcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVI-GSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIR 612 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l-~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~ 612 (742)
-.+|.+|.|||||...+..+...+ ..+.+++++...+.|+.+...+|+...-. + .. .+.......
T Consensus 51 V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~l~-g-----Fv--~Y~d~~~~~------ 116 (824)
T PF02399_consen 51 VLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAGLS-G-----FV--NYLDSDDYI------ 116 (824)
T ss_pred eEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcCCC-c-----ce--eeecccccc------
Confidence 459999999999987777666655 45789999999999999999999864210 1 11 111111100
Q ss_pred HHhhcCCc-cEEEechHHHhh-ccccCCccEEEEeCCccc-------cccchhhhhhhhhccccccccccccCCCCCCCC
Q 045263 613 KDLQTGDI-TLVIGTHSLIAE-KVEFSALRLAIVDEQQRF-------GVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDD 683 (742)
Q Consensus 613 ~~l~~G~~-~IVVgT~~~l~~-~v~~~~l~LVIIDEaHrf-------G~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~ 683 (742)
+..... .++|.-.++..- .-.+++.++|||||+-.. ..+++......+.+ -
T Consensus 117 --i~~~~~~rLivqIdSL~R~~~~~l~~yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~------------------l 176 (824)
T PF02399_consen 117 --IDGRPYDRLIVQIDSLHRLDGSLLDRYDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKE------------------L 176 (824)
T ss_pred --ccccccCeEEEEehhhhhcccccccccCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHH------------------H
Confidence 011012 455555554322 223567899999999752 12333222222111 1
Q ss_pred CCCCCcEEEEcCCCCHHHHHHHHc--CCCCeeeec
Q 045263 684 QHMAPHVLAMSATPIPRTLALALY--GDMSLTQIT 716 (742)
Q Consensus 684 ~~~~p~vL~mSATPiprtla~~l~--gdl~~s~I~ 716 (742)
+..++++|+|-||-...+...... |+-++..|.
T Consensus 177 I~~ak~VI~~DA~ln~~tvdFl~~~Rp~~~i~vI~ 211 (824)
T PF02399_consen 177 IRNAKTVIVMDADLNDQTVDFLASCRPDENIHVIV 211 (824)
T ss_pred HHhCCeEEEecCCCCHHHHHHHHHhCCCCcEEEEE
Confidence 124678999999988888777653 554444443
No 189
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=96.60 E-value=0.011 Score=71.68 Aligned_cols=65 Identities=18% Similarity=0.150 Sum_probs=49.6
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHH
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHY 577 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~ 577 (742)
.++.|++.|++|+..+... . ...+|+|+.|+|||.+.-......-..|+++++++||-.-+..+.
T Consensus 349 ~~~~Ls~~Q~~Av~~i~~s---~--~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~ 413 (744)
T TIGR02768 349 QHYRLSEEQYEAVRHVTGS---G--DIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQ 413 (744)
T ss_pred ccCCCCHHHHHHHHHHhcC---C--CEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHH
Confidence 5688999999999998753 1 257999999999998755444333345899999999976665543
No 190
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=96.60 E-value=0.025 Score=67.12 Aligned_cols=78 Identities=21% Similarity=0.111 Sum_probs=54.0
Q ss_pred HHHHHhCCCC--CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh--c--CCeEEEEcccHHHHHH
Q 045263 502 KKLLRALPYS--LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG--S--GYQAAFMVPTELLATQ 575 (742)
Q Consensus 502 ~~~~~~lpf~--Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~--~--g~qvlilaPT~~La~Q 575 (742)
+.+.+.+|.. ..++|+.|+...+.. .-.+|.|++|+|||.+....+..... . +..+++++||--=|..
T Consensus 141 ~~l~~lf~~~~~~~d~Qk~Av~~a~~~------~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~r 214 (615)
T PRK10875 141 QTLDALFGPVTDEVDWQKVAAAVALTR------RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAAR 214 (615)
T ss_pred HHHHHhcCcCCCCCHHHHHHHHHHhcC------CeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHH
Confidence 3344445544 468999999887763 25799999999999875444333322 2 2578999999988888
Q ss_pred HHHHHHHhhh
Q 045263 576 HYEHLLKLLD 585 (742)
Q Consensus 576 ~~~~l~~~l~ 585 (742)
+.+.+.....
T Consensus 215 L~e~~~~~~~ 224 (615)
T PRK10875 215 LTESLGKALR 224 (615)
T ss_pred HHHHHHhhhh
Confidence 8777665443
No 191
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=96.59 E-value=0.013 Score=70.72 Aligned_cols=133 Identities=18% Similarity=0.104 Sum_probs=83.6
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhc---
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNM--- 587 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~--- 587 (742)
.|+..|++|+..++..- .-.||.|=+|+|||.+....+-..+..|++||+.+-|..=+..+.-.++..--.+
T Consensus 669 ~LN~dQr~A~~k~L~ae-----dy~LI~GMPGTGKTTtI~~LIkiL~~~gkkVLLtsyThsAVDNILiKL~~~~i~~lRL 743 (1100)
T KOG1805|consen 669 RLNNDQRQALLKALAAE-----DYALILGMPGTGKTTTISLLIKILVALGKKVLLTSYTHSAVDNILIKLKGFGIYILRL 743 (1100)
T ss_pred hcCHHHHHHHHHHHhcc-----chheeecCCCCCchhhHHHHHHHHHHcCCeEEEEehhhHHHHHHHHHHhccCcceeec
Confidence 48999999999988631 2569999999999999988888888889999999999877777766665532110
Q ss_pred cCC---CCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh-ccccCCccEEEEeCCccc
Q 045263 588 EED---KHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE-KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 588 ~~~---~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~-~v~~~~l~LVIIDEaHrf 650 (742)
|.. +..++=..++..++.+.-+.+.. .-+.+.||.+|=--+.+ -+..+.++++|||||-..
T Consensus 744 G~~~kih~~v~e~~~~~~~s~ks~~~l~~--~~~~~~IVa~TClgi~~plf~~R~FD~cIiDEASQI 808 (1100)
T KOG1805|consen 744 GSEEKIHPDVEEFTLTNETSEKSYADLKK--FLDQTSIVACTCLGINHPLFVNRQFDYCIIDEASQI 808 (1100)
T ss_pred CCccccchHHHHHhcccccchhhHHHHHH--HhCCCcEEEEEccCCCchhhhccccCEEEEcccccc
Confidence 100 00000001122222222222211 22457888888433322 123466999999999863
No 192
>PRK08181 transposase; Validated
Probab=96.49 E-value=0.022 Score=60.91 Aligned_cols=62 Identities=27% Similarity=0.272 Sum_probs=45.1
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQH 576 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~ 576 (742)
++..|..++..+..-... ..++++.||+|+|||-.+......++..|+.++|+. ...|..++
T Consensus 88 ~~~~~~~~L~~~~~~~~~--~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~-~~~L~~~l 149 (269)
T PRK08181 88 VSKAQVMAIAAGDSWLAK--GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR-TTDLVQKL 149 (269)
T ss_pred CCHHHHHHHHHHHHHHhc--CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee-HHHHHHHH
Confidence 577888888665322222 348999999999999988888877888898887764 34455544
No 193
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=96.46 E-value=0.028 Score=69.85 Aligned_cols=65 Identities=18% Similarity=0.185 Sum_probs=49.7
Q ss_pred HhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-cCCeEEEEcccHHHHHHH
Q 045263 506 RALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-SGYQAAFMVPTELLATQH 576 (742)
Q Consensus 506 ~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~g~qvlilaPT~~La~Q~ 576 (742)
...++.|++.|++|+..++..- ...+|+|..|+|||.+ +.++...+. .|++++.++||-.-|..+
T Consensus 341 ~~~g~~Ls~eQr~Av~~il~s~-----~v~vv~G~AGTGKTT~-l~~~~~~~e~~G~~V~~~ApTGkAA~~L 406 (988)
T PRK13889 341 EARGLVLSGEQADALAHVTDGR-----DLGVVVGYAGTGKSAM-LGVAREAWEAAGYEVRGAALSGIAAENL 406 (988)
T ss_pred HhcCCCCCHHHHHHHHHHhcCC-----CeEEEEeCCCCCHHHH-HHHHHHHHHHcCCeEEEecCcHHHHHHH
Confidence 3457899999999999988531 2568999999999987 444554444 489999999998666544
No 194
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=96.37 E-value=0.021 Score=68.38 Aligned_cols=101 Identities=16% Similarity=0.233 Sum_probs=83.3
Q ss_pred CChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCcc
Q 045263 542 GCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDIT 621 (742)
Q Consensus 542 GSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~ 621 (742)
-.|+-...+--+......|.+++|+++|+..++.+.+.|.+. + +.+..+||+.+..+|..++..++.|+++
T Consensus 424 ~~~qi~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~~----g-----i~~~~lh~~~~~~eR~~~l~~fr~G~i~ 494 (655)
T TIGR00631 424 TDGQVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKEL----G-----IKVRYLHSEIDTLERVEIIRDLRLGEFD 494 (655)
T ss_pred ccchHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhhh----c-----cceeeeeCCCCHHHHHHHHHHHhcCCce
Confidence 345554455555555677999999999999888887777653 4 7888999999999999999999999999
Q ss_pred EEEechHHHhhccccCCccEEEEeCCccccc
Q 045263 622 LVIGTHSLIAEKVEFSALRLAIVDEQQRFGV 652 (742)
Q Consensus 622 IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~ 652 (742)
|+||| +.+...+.+.++++||+-+++.||.
T Consensus 495 VLV~t-~~L~rGfDiP~v~lVvi~DadifG~ 524 (655)
T TIGR00631 495 VLVGI-NLLREGLDLPEVSLVAILDADKEGF 524 (655)
T ss_pred EEEEc-ChhcCCeeeCCCcEEEEeCcccccC
Confidence 99999 4677789999999999999988875
No 195
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=96.34 E-value=0.027 Score=60.68 Aligned_cols=125 Identities=15% Similarity=0.057 Sum_probs=82.5
Q ss_pred CCHHHHHHHHHHHHhc----CCCCCCceEEEccCCChHHHHHHHHHHHHHhcCC-eEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 512 LTSSQLSAISEIIWDL----KQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGY-QAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~----~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~-qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
|+..|.+++--..+.. ..+.+.-.+|--.||.||-......++.....|+ +++++..+..|-....+.++.+...
T Consensus 38 LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr~r~vwvS~s~dL~~Da~RDl~DIG~~ 117 (303)
T PF13872_consen 38 LSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGRKRAVWVSVSNDLKYDAERDLRDIGAD 117 (303)
T ss_pred ccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHcCCCceEEEECChhhhhHHHHHHHHhCCC
Confidence 8999999887665433 2334445688888999999998888888888876 5999999999999988888876432
Q ss_pred ccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhcc--------------c---cCCccEEEEeCCcc
Q 045263 587 MEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKV--------------E---FSALRLAIVDEQQR 649 (742)
Q Consensus 587 ~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v--------------~---~~~l~LVIIDEaHr 649 (742)
.+.+..+..- +.... ..+. -.|+++|.+.|.... . -.-=++||+||||+
T Consensus 118 ------~i~v~~l~~~-~~~~~----~~~~---~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDEcH~ 183 (303)
T PF13872_consen 118 ------NIPVHPLNKF-KYGDI----IRLK---EGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDECHK 183 (303)
T ss_pred ------cccceechhh-ccCcC----CCCC---CCccchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEeccchh
Confidence 1334333221 11000 0122 358999988763210 0 01125899999999
Q ss_pred c
Q 045263 650 F 650 (742)
Q Consensus 650 f 650 (742)
.
T Consensus 184 a 184 (303)
T PF13872_consen 184 A 184 (303)
T ss_pred c
Confidence 7
No 196
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=96.33 E-value=0.026 Score=66.66 Aligned_cols=66 Identities=23% Similarity=0.219 Sum_probs=48.2
Q ss_pred CHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-----CCeEEEEcccHHHHHHHHHHHHHhh
Q 045263 513 TSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-----GYQAAFMVPTELLATQHYEHLLKLL 584 (742)
Q Consensus 513 t~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-----g~qvlilaPT~~La~Q~~~~l~~~l 584 (742)
.+.|+.|+..++.. .-.+|.|++|+|||.+....+...... +.++++++||--=|..+.+.+....
T Consensus 147 ~~~Qk~A~~~al~~------~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~ 217 (586)
T TIGR01447 147 QNWQKVAVALALKS------NFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAV 217 (586)
T ss_pred cHHHHHHHHHHhhC------CeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhh
Confidence 37999999888873 267999999999998764444333221 1579999999888887777665543
No 197
>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands. The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....
Probab=96.13 E-value=0.039 Score=46.19 Aligned_cols=34 Identities=29% Similarity=0.433 Sum_probs=25.1
Q ss_pred hhccccCCcEEEEEEEEeecCCCceeEEeeceeee
Q 045263 333 IEGKHKVGEFVCVSGKVRAMRSNNHYEMREYNIDV 367 (742)
Q Consensus 333 ~~~~l~~G~~v~v~GKv~~~~~~~~~~m~~~~~e~ 367 (742)
+.+.+++|+.+.|+|+++.+++. .++|..+.+++
T Consensus 41 ~~~~l~~g~~v~v~G~v~~~~~~-~~~l~~~~i~~ 74 (75)
T PF01336_consen 41 FREKLKEGDIVRVRGKVKRYNGG-ELELIVPKIEI 74 (75)
T ss_dssp HHHTS-TTSEEEEEEEEEEETTS-SEEEEEEEEEE
T ss_pred HhhcCCCCeEEEEEEEEEEECCc-cEEEEECEEEE
Confidence 45789999999999999998642 37776666543
No 198
>PRK11054 helD DNA helicase IV; Provisional
Probab=96.11 E-value=0.014 Score=70.20 Aligned_cols=74 Identities=20% Similarity=0.187 Sum_probs=58.7
Q ss_pred HHHhCC-CCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC----CeEEEEcccHHHHHHHHH
Q 045263 504 LLRALP-YSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG----YQAAFMVPTELLATQHYE 578 (742)
Q Consensus 504 ~~~~lp-f~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g----~qvlilaPT~~La~Q~~~ 578 (742)
|.+... +.||+.|++|+..- . .+.+|.|..|||||.+.+.-+...+..+ .++++++.|+..|..+.+
T Consensus 188 ~f~~~e~~~L~~~Q~~av~~~-----~---~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~e 259 (684)
T PRK11054 188 FFSQVESSPLNPSQARAVVNG-----E---DSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDE 259 (684)
T ss_pred HHHhccCCCCCHHHHHHHhCC-----C---CCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHH
Confidence 334443 77999999998531 1 2569999999999999988877777553 589999999999999999
Q ss_pred HHHHhhh
Q 045263 579 HLLKLLD 585 (742)
Q Consensus 579 ~l~~~l~ 585 (742)
++...+.
T Consensus 260 RL~~~lg 266 (684)
T PRK11054 260 RIRERLG 266 (684)
T ss_pred HHHHhcC
Confidence 9987664
No 199
>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=96.06 E-value=0.048 Score=63.47 Aligned_cols=70 Identities=24% Similarity=0.335 Sum_probs=57.4
Q ss_pred HHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHH--HHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccc
Q 045263 573 ATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQS--RMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 573 a~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er--~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrf 650 (742)
.+++.+.+.+.|+. .++..++++++..++ ..+++.+.+|+++|+|||.. +...+.|.++.+|+|-.+|..
T Consensus 271 te~~~e~l~~~fp~-------~~v~~~d~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~-i~kG~d~~~v~lV~vl~aD~~ 342 (505)
T TIGR00595 271 TEQVEEELAKLFPG-------ARIARIDSDTTSRKGAHEALLNQFANGKADILIGTQM-IAKGHHFPNVTLVGVLDADSG 342 (505)
T ss_pred HHHHHHHHHhhCCC-------CcEEEEecccccCccHHHHHHHHHhcCCCCEEEeCcc-cccCCCCCcccEEEEEcCccc
Confidence 47777888887754 578999999876554 67889999999999999986 556788999999999889874
No 200
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.03 E-value=0.043 Score=57.86 Aligned_cols=54 Identities=20% Similarity=0.287 Sum_probs=39.5
Q ss_pred CHHHHHHHHHHHHhcCC--CCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEE
Q 045263 513 TSSQLSAISEIIWDLKQ--PVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFM 566 (742)
Q Consensus 513 t~~Q~~aI~~I~~~~~~--~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlil 566 (742)
++.|+.|+..+.+-... ......++.|++|+|||-.+...+..+...|..++++
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~i 133 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLII 133 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence 56777777776643221 1123689999999999998887777777778888777
No 201
>PRK04296 thymidine kinase; Provisional
Probab=96.01 E-value=0.0059 Score=61.71 Aligned_cols=35 Identities=14% Similarity=0.265 Sum_probs=30.6
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcc
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVP 568 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaP 568 (742)
-.++.||+|+|||..++..+.+....|.+++++-|
T Consensus 4 i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~ 38 (190)
T PRK04296 4 LEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKP 38 (190)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEec
Confidence 45899999999999988888888888999998866
No 202
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=95.99 E-value=0.012 Score=53.64 Aligned_cols=42 Identities=24% Similarity=0.257 Sum_probs=29.9
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLAT 574 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~ 574 (742)
...++.||+|+|||..+...+......+..++++.+......
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~ 44 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEE 44 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEcccc
Confidence 368999999999999877666654443446777777755433
No 203
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.90 E-value=0.1 Score=58.66 Aligned_cols=125 Identities=15% Similarity=0.056 Sum_probs=67.2
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHh----cCCeEEEEc--ccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCCh
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIG----SGYQAAFMV--PTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPV 605 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~----~g~qvlila--PT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~ 605 (742)
|..+++.||||+|||.++...+..... .|..+.++. +.+.-+..+.+ .+...++ +.+.... .
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~---~~a~~lg-----vpv~~~~--~-- 241 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQ---TYGDIMG-----IPVKAIE--S-- 241 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHH---HHhhcCC-----cceEeeC--c--
Confidence 457899999999999998766654432 356666664 33333333333 3333333 3332211 1
Q ss_pred HHHHHHHHHhhcCCccEEEechHHHhh-ccccCCccEEEEeCCccccccch--hhhhhhhhccccccccccccCCCCCCC
Q 045263 606 KQSRMIRKDLQTGDITLVIGTHSLIAE-KVEFSALRLAIVDEQQRFGVVQR--GRFNSKLYYTSMSSGMAMVNSDGSPKD 682 (742)
Q Consensus 606 ~er~~i~~~l~~G~~~IVVgT~~~l~~-~v~~~~l~LVIIDEaHrfG~~qr--~~l~~k~~~~~~~~~~~~~~~~~~~r~ 682 (742)
+..+.. ...+.+.++||||++.+...... ..+..-. . .
T Consensus 242 ---------------------~~~l~~~L~~~~~~DlVLIDTaGr~~~~~~~l~el~~~l-~-----------------~ 282 (388)
T PRK12723 242 ---------------------FKDLKEEITQSKDFDLVLVDTIGKSPKDFMKLAEMKELL-N-----------------A 282 (388)
T ss_pred ---------------------HHHHHHHHHHhCCCCEEEEcCCCCCccCHHHHHHHHHHH-H-----------------h
Confidence 111111 01246789999999998743211 1221110 0 0
Q ss_pred CCCCCCcEEEEcCCCCHHHHHHHHc
Q 045263 683 DQHMAPHVLAMSATPIPRTLALALY 707 (742)
Q Consensus 683 ~~~~~p~vL~mSATPiprtla~~l~ 707 (742)
.....-.+|++|||--+..+..+..
T Consensus 283 ~~~~~e~~LVlsat~~~~~~~~~~~ 307 (388)
T PRK12723 283 CGRDAEFHLAVSSTTKTSDVKEIFH 307 (388)
T ss_pred cCCCCeEEEEEcCCCCHHHHHHHHH
Confidence 0001124688899988888876653
No 204
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=95.88 E-value=0.041 Score=52.30 Aligned_cols=40 Identities=23% Similarity=0.364 Sum_probs=31.9
Q ss_pred eEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHH
Q 045263 535 RLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLAT 574 (742)
Q Consensus 535 ~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~ 574 (742)
.+|.|++|+|||..+...+......|..++++.....+..
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~ 41 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEE 41 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHH
Confidence 4899999999999988887777777888888876655443
No 205
>PRK08084 DNA replication initiation factor; Provisional
Probab=95.85 E-value=0.069 Score=55.83 Aligned_cols=36 Identities=19% Similarity=0.287 Sum_probs=28.0
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcc
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVP 568 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaP 568 (742)
...++.||+|+|||-.+...+......|.+++++.-
T Consensus 46 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~ 81 (235)
T PRK08084 46 GYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPL 81 (235)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEH
Confidence 478999999999998777666666666777777644
No 206
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=95.82 E-value=0.059 Score=71.77 Aligned_cols=125 Identities=21% Similarity=0.238 Sum_probs=77.2
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhcc
Q 045263 509 PYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNME 588 (742)
Q Consensus 509 pf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~ 588 (742)
+|.|++.|++|+..++..- ..-.+|+|+.|+|||.+.-......-..|++++.++||-.-+.++.+.....
T Consensus 427 ~~~Ls~~Q~~Av~~il~s~----~~v~ii~G~aGTGKTt~l~~l~~~~~~~G~~V~~lAPTgrAA~~L~e~~g~~----- 497 (1960)
T TIGR02760 427 EFALSPSNKDAVSTLFTST----KRFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLSAQELRQKIPRL----- 497 (1960)
T ss_pred cCCCCHHHHHHHHHHHhCC----CCeEEEEECCCCCHHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHHHHHhcch-----
Confidence 5789999999999998742 2357999999999998754444333345999999999987666554432110
Q ss_pred CCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEech-HHHhhccccCCccEEEEeCCccccccchhhhhhh
Q 045263 589 EDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTH-SLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNSK 661 (742)
Q Consensus 589 ~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~-~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~k 661 (742)
. .+. ..++..+..+. -..|- +.+....++..-++|||||+-..+..+-..|...
T Consensus 498 -------A------~Ti---~~~l~~l~~~~---~~~tv~~fl~~~~~l~~~~vlIVDEAsMl~~~~~~~Ll~~ 552 (1960)
T TIGR02760 498 -------A------STF---ITWVKNLFNDD---QDHTVQGLLDKSSPFSNKDIFVVDEANKLSNNELLKLIDK 552 (1960)
T ss_pred -------h------hhH---HHHHHhhcccc---cchhHHHhhcccCCCCCCCEEEEECCCCCCHHHHHHHHHH
Confidence 0 000 01111111111 11111 1122233456678999999999988887776653
No 207
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=95.71 E-value=0.062 Score=67.32 Aligned_cols=64 Identities=20% Similarity=0.103 Sum_probs=48.5
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHH
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQH 576 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~ 576 (742)
-++.|++.|.+|+..+... ..-.+|+|+.|+|||.+.-......-..|++++.++||-.=|..+
T Consensus 378 ~~~~Ls~eQ~~Av~~i~~~-----~r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkAA~~L 441 (1102)
T PRK13826 378 RHARLSDEQKTAIEHVAGP-----ARIAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGL 441 (1102)
T ss_pred cCCCCCHHHHHHHHHHhcc-----CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHHHHHH
Confidence 3789999999999987521 125799999999999875544433335699999999997666554
No 208
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=95.66 E-value=0.0074 Score=69.32 Aligned_cols=107 Identities=15% Similarity=0.222 Sum_probs=65.4
Q ss_pred EEccCCChHHHHHHHHHHHHHhcCCe-EEEEcccHHHHHHHHHHHHHhhh------h-ccCCCCCcEEEEEeCCCChHHH
Q 045263 537 LQGDVGCGKTVVAFLACMEVIGSGYQ-AAFMVPTELLATQHYEHLLKLLD------N-MEEDKHKPKIALLTGSTPVKQS 608 (742)
Q Consensus 537 L~a~TGSGKT~val~ail~~l~~g~q-vlilaPT~~La~Q~~~~l~~~l~------~-~~~~~~~i~V~ll~G~~~~~er 608 (742)
..+.||||||++.+..++++...|+| .++.|......+.....|..-+. . ....+..+.+--+..
T Consensus 2 f~matgsgkt~~ma~lil~~y~kgyr~flffvnq~nilekt~~nftd~~s~kylf~e~i~~~d~~i~ikkvn~------- 74 (812)
T COG3421 2 FEMATGSGKTLVMAGLILECYKKGYRNFLFFVNQANILEKTKLNFTDSVSSKYLFSENININDENIEIKKVNN------- 74 (812)
T ss_pred cccccCCChhhHHHHHHHHHHHhchhhEEEEecchhHHHHHHhhcccchhhhHhhhhhhhcCCceeeeeeecc-------
Confidence 46789999999999999999999974 67777776666665555532211 0 000001111111111
Q ss_pred HHHHHHhhcCCccEEEechHHHhh-----------ccccCCccEEEE-eCCccccccc
Q 045263 609 RMIRKDLQTGDITLVIGTHSLIAE-----------KVEFSALRLAIV-DEQQRFGVVQ 654 (742)
Q Consensus 609 ~~i~~~l~~G~~~IVVgT~~~l~~-----------~v~~~~l~LVII-DEaHrfG~~q 654 (742)
+.. .+..+.|+++|.+.+.. ...+++..+|.+ ||+|+.....
T Consensus 75 ---fse-hnd~iei~fttiq~l~~d~~~~ken~itledl~~~klvfl~deahhln~~t 128 (812)
T COG3421 75 ---FSE-HNDAIEIYFTTIQGLFSDFTRAKENAITLEDLKDQKLVFLADEAHHLNTET 128 (812)
T ss_pred ---cCc-cCCceEEEEeehHHHHHHHHhhccccccHhhHhhCceEEEechhhhhhhhh
Confidence 011 23458899999876633 224677788877 9999985433
No 209
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.63 E-value=0.1 Score=58.43 Aligned_cols=35 Identities=23% Similarity=0.223 Sum_probs=25.9
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHh-cC-CeEEEEc
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIG-SG-YQAAFMV 567 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~-~g-~qvlila 567 (742)
..+++.||||+|||.++...+...+. .| .++.++.
T Consensus 138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit 174 (374)
T PRK14722 138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLT 174 (374)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 47899999999999998777766543 35 4555554
No 210
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=95.63 E-value=0.052 Score=60.35 Aligned_cols=24 Identities=33% Similarity=0.299 Sum_probs=18.5
Q ss_pred CCCceEEEccCCChHHHHHHHHHH
Q 045263 531 VPMNRLLQGDVGCGKTVVAFLACM 554 (742)
Q Consensus 531 ~~~~~LL~a~TGSGKT~val~ail 554 (742)
.-.+.++.||+|+|||.+|-+.+-
T Consensus 47 ~l~SmIl~GPPG~GKTTlA~liA~ 70 (436)
T COG2256 47 HLHSMILWGPPGTGKTTLARLIAG 70 (436)
T ss_pred CCceeEEECCCCCCHHHHHHHHHH
Confidence 334779999999999987755543
No 211
>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=95.61 E-value=0.17 Score=46.37 Aligned_cols=96 Identities=20% Similarity=0.271 Sum_probs=73.5
Q ss_pred hHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEE
Q 045263 544 GKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLV 623 (742)
Q Consensus 544 GKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IV 623 (742)
+|-......+......+.++++++++..-++++++.+.+ .+ ..+..++|+.+..++..+...+.+|...|+
T Consensus 12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~----~~-----~~~~~~~~~~~~~~~~~~~~~f~~~~~~il 82 (131)
T cd00079 12 EKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRK----PG-----IKVAALHGDGSQEEREEVLKDFREGEIVVL 82 (131)
T ss_pred HHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHh----cC-----CcEEEEECCCCHHHHHHHHHHHHcCCCcEE
Confidence 444433333333333577899999999988888888876 22 578999999999999999999999999999
Q ss_pred EechHHHhhccccCCccEEEEeCCcc
Q 045263 624 IGTHSLIAEKVEFSALRLAIVDEQQR 649 (742)
Q Consensus 624 VgT~~~l~~~v~~~~l~LVIIDEaHr 649 (742)
++|.. +...+.+.....+|+.....
T Consensus 83 i~t~~-~~~G~d~~~~~~vi~~~~~~ 107 (131)
T cd00079 83 VATDV-IARGIDLPNVSVVINYDLPW 107 (131)
T ss_pred EEcCh-hhcCcChhhCCEEEEeCCCC
Confidence 99975 55577888888888877754
No 212
>PRK13342 recombination factor protein RarA; Reviewed
Probab=95.60 E-value=0.07 Score=60.47 Aligned_cols=23 Identities=30% Similarity=0.313 Sum_probs=18.0
Q ss_pred CCCCceEEEccCCChHHHHHHHH
Q 045263 530 PVPMNRLLQGDVGCGKTVVAFLA 552 (742)
Q Consensus 530 ~~~~~~LL~a~TGSGKT~val~a 552 (742)
......++.||+|+|||.++-..
T Consensus 34 ~~~~~ilL~GppGtGKTtLA~~i 56 (413)
T PRK13342 34 GRLSSMILWGPPGTGKTTLARII 56 (413)
T ss_pred CCCceEEEECCCCCCHHHHHHHH
Confidence 34457899999999999876544
No 213
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=95.57 E-value=0.093 Score=63.01 Aligned_cols=103 Identities=16% Similarity=0.236 Sum_probs=82.0
Q ss_pred cCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCC
Q 045263 540 DVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGD 619 (742)
Q Consensus 540 ~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~ 619 (742)
+.-.|+-...+--+......|++++|+++|+.-++.+.+.|.+ .+ +++..+||+.+..+|..++..++.|.
T Consensus 426 ~~~~~q~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~----~g-----i~~~~~h~~~~~~~R~~~l~~f~~g~ 496 (652)
T PRK05298 426 RPTKGQVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKE----LG-----IKVRYLHSDIDTLERVEIIRDLRLGE 496 (652)
T ss_pred eeccccHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhh----cc-----eeEEEEECCCCHHHHHHHHHHHHcCC
Confidence 3345554444444445556799999999998888877776654 34 78999999999999999999999999
Q ss_pred ccEEEechHHHhhccccCCccEEEEeCCccccc
Q 045263 620 ITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGV 652 (742)
Q Consensus 620 ~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~ 652 (742)
++|+||| +.+...+.+.++++||+=|++.||+
T Consensus 497 i~vlV~t-~~L~rGfdlp~v~lVii~d~eifG~ 528 (652)
T PRK05298 497 FDVLVGI-NLLREGLDIPEVSLVAILDADKEGF 528 (652)
T ss_pred ceEEEEe-CHHhCCccccCCcEEEEeCCccccc
Confidence 9999999 4566788899999999988888875
No 214
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.53 E-value=0.085 Score=60.65 Aligned_cols=41 Identities=27% Similarity=0.227 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~ 555 (742)
.|..++..+......+. +...|+.||.|+|||.++...+..
T Consensus 22 GQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~ 63 (484)
T PRK14956 22 HQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKR 63 (484)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence 45555555554444443 224799999999999988666554
No 215
>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=95.53 E-value=0.073 Score=45.10 Aligned_cols=68 Identities=18% Similarity=0.113 Sum_probs=42.7
Q ss_pred EEEEEEEeeccccCCCceEEEEEEeeeeccCCCCCCcceeeecCCCceeEEEEEeeeeecccccccchhHhhhccccCCc
Q 045263 262 FIGEIISSRGMKAGCSFSFLEVIVGCEIADTETTSGDEVVNIDSGQKKKIYLHLKKFFRGTRFTSIPFLKSIEGKHKVGE 341 (742)
Q Consensus 262 i~G~V~~~~~~~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~~~~g~~~~i~l~~~~ff~~~~Ffn~pfl~~~~~~l~~G~ 341 (742)
+.|.|.+......+++..++.+.+. |.+|. +. ..||+.+|.. ..+.+++|+
T Consensus 2 i~g~v~~~~~~~~k~g~~~~~~~l~----------------D~tg~---~~---------~~~f~~~~~~-~~~~l~~g~ 52 (84)
T cd04485 2 VAGLVTSVRRRRTKKGKRMAFVTLE----------------DLTGS---IE---------VVVFPETYEK-YRDLLKEDA 52 (84)
T ss_pred EEEEEEEeEEEEcCCCCEEEEEEEE----------------eCCCe---EE---------EEECHHHHHH-HHHHhcCCC
Confidence 5677777654444555566666665 23342 22 1345677722 347899999
Q ss_pred EEEEEEEEeecCCCceeEE
Q 045263 342 FVCVSGKVRAMRSNNHYEM 360 (742)
Q Consensus 342 ~v~v~GKv~~~~~~~~~~m 360 (742)
.+.++|+++.+.+ .++|
T Consensus 53 ~v~v~G~v~~~~~--~~~l 69 (84)
T cd04485 53 LLLVEGKVERRDG--GLRL 69 (84)
T ss_pred EEEEEEEEEecCC--ceEE
Confidence 9999999998653 3444
No 216
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.44 E-value=0.13 Score=59.28 Aligned_cols=23 Identities=30% Similarity=0.392 Sum_probs=18.1
Q ss_pred CceEEEccCCChHHHHHHHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~ 555 (742)
...|+.||+|+|||.++...+..
T Consensus 37 ~~~Lf~GPpGtGKTTlA~~lA~~ 59 (472)
T PRK14962 37 HAYIFAGPRGTGKTTVARILAKS 59 (472)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 34799999999999887665443
No 217
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=95.42 E-value=0.035 Score=55.62 Aligned_cols=61 Identities=25% Similarity=0.243 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHH
Q 045263 514 SSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQ 575 (742)
Q Consensus 514 ~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q 575 (742)
..++..+..+...---....+.++.|++|+|||..+...+.+++..|+.++|+- +..|.+.
T Consensus 29 ~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~-~~~L~~~ 89 (178)
T PF01695_consen 29 GIDKAQIAQLAALEFIENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT-ASDLLDE 89 (178)
T ss_dssp -----HHHHHHHH-S-SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE-HHHHHHH
T ss_pred hHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee-cCceecc
Confidence 444445555433221223468999999999999999988888888898888864 4445444
No 218
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=95.36 E-value=0.11 Score=61.60 Aligned_cols=80 Identities=15% Similarity=0.300 Sum_probs=68.6
Q ss_pred cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCC
Q 045263 559 SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSA 638 (742)
Q Consensus 559 ~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~ 638 (742)
.+.++||.++|+..++++++.|.+. + +.+..+||+++..+|..+++.+++|+.+|+|+|.. +...+++.+
T Consensus 256 ~~~k~LVF~nt~~~ae~l~~~L~~~----g-----~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTdv-~arGIDip~ 325 (572)
T PRK04537 256 EGARTMVFVNTKAFVERVARTLERH----G-----YRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDV-AARGLHIDG 325 (572)
T ss_pred cCCcEEEEeCCHHHHHHHHHHHHHc----C-----CCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEehh-hhcCCCccC
Confidence 4789999999999999988877653 3 68999999999999999999999999999999964 455788999
Q ss_pred ccEEEEeCCc
Q 045263 639 LRLAIVDEQQ 648 (742)
Q Consensus 639 l~LVIIDEaH 648 (742)
+.+||.-+.-
T Consensus 326 V~~VInyd~P 335 (572)
T PRK04537 326 VKYVYNYDLP 335 (572)
T ss_pred CCEEEEcCCC
Confidence 9999875443
No 219
>PRK09183 transposase/IS protein; Provisional
Probab=95.32 E-value=0.099 Score=55.59 Aligned_cols=42 Identities=31% Similarity=0.374 Sum_probs=32.1
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQ 575 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q 575 (742)
.++++.||+|+|||..+......+...|++++++. ...|..+
T Consensus 103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~-~~~l~~~ 144 (259)
T PRK09183 103 ENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT-AADLLLQ 144 (259)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe-HHHHHHH
Confidence 48999999999999988777777677888888764 3334433
No 220
>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Probab=95.29 E-value=0.14 Score=43.71 Aligned_cols=34 Identities=29% Similarity=0.514 Sum_probs=26.7
Q ss_pred hccccCCcEEEEEEEEeecCCCceeEEeeceeeecC
Q 045263 334 EGKHKVGEFVCVSGKVRAMRSNNHYEMREYNIDVLK 369 (742)
Q Consensus 334 ~~~l~~G~~v~v~GKv~~~~~~~~~~m~~~~~e~l~ 369 (742)
...+++|..+.|+|+++.++ +..+|.++++..++
T Consensus 44 ~~~l~~g~~v~v~G~v~~~~--~~~~l~~~~i~~l~ 77 (83)
T cd04492 44 EEKFKPGDIVHVKGRVEEYR--GRLQLKIQRIRLVT 77 (83)
T ss_pred HhhCCCCCEEEEEEEEEEeC--CceeEEEEEEEECC
Confidence 47899999999999998764 35777777776554
No 221
>PRK14974 cell division protein FtsY; Provisional
Probab=95.28 E-value=0.21 Score=55.19 Aligned_cols=45 Identities=18% Similarity=0.170 Sum_probs=32.6
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEccc---HHHHHHH
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPT---ELLATQH 576 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT---~~La~Q~ 576 (742)
|.-+++.|++|+|||.+....+......|.+++++... ..-.+|+
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL 187 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQL 187 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHH
Confidence 45789999999999998777766666677888777543 3344554
No 222
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=95.28 E-value=0.024 Score=68.20 Aligned_cols=67 Identities=24% Similarity=0.199 Sum_probs=56.0
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-C---CeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-G---YQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g---~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
.|++.|++|+.... ...+|.|..|||||.+...-+...+.. | .++++++.|+.-|..+.+++.+.+.
T Consensus 2 ~Ln~~Q~~av~~~~--------g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~ 72 (672)
T PRK10919 2 RLNPGQQQAVEFVT--------GPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLG 72 (672)
T ss_pred CCCHHHHHHHhCCC--------CCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhC
Confidence 48999999986421 256899999999999999888888864 4 4799999999999999999988764
No 223
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=95.27 E-value=0.14 Score=53.96 Aligned_cols=43 Identities=23% Similarity=0.237 Sum_probs=31.0
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHH
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACM 554 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail 554 (742)
-.++.+++++..+...+..+ +...+|.|++|+|||.++-..+.
T Consensus 23 ~~~~~~~~~~~~l~~~~~~~-~~~~~l~G~~G~GKTtl~~~l~~ 65 (269)
T TIGR03015 23 YPSKGHKRAMAYLEYGLSQR-EGFILITGEVGAGKTTLIRNLLK 65 (269)
T ss_pred CCCHHHHHHHHHHHHHHhcC-CCEEEEEcCCCCCHHHHHHHHHH
Confidence 46778888888776654332 23689999999999987765543
No 224
>PRK08116 hypothetical protein; Validated
Probab=95.25 E-value=0.17 Score=54.08 Aligned_cols=64 Identities=23% Similarity=0.227 Sum_probs=40.4
Q ss_pred CCHHHHHHHHHHH---HhcCC--CCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHH
Q 045263 512 LTSSQLSAISEII---WDLKQ--PVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQH 576 (742)
Q Consensus 512 Lt~~Q~~aI~~I~---~~~~~--~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~ 576 (742)
.++.|..|+..+. +.+.. .....++|.|++|+|||-.+...+...+..|..++++. ...|..++
T Consensus 89 ~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~-~~~ll~~i 157 (268)
T PRK08116 89 FDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN-FPQLLNRI 157 (268)
T ss_pred CChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE-HHHHHHHH
Confidence 4666766665544 22211 11124899999999999988877777777777776664 34444433
No 225
>PF11798 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 This helix-hairpin-helix motif is found in proteins belonging to the type-Y family of DNA polymerases []. This type of polymerases are thought to be involved in UV protection and mutation [, ]. ; PDB: 3PZP_B 2OH2_B 2W7O_B 3IN5_B 1T94_A 2W7P_B 2W8K_A 2AGQ_A 1RYR_A 3RAX_A ....
Probab=95.24 E-value=0.012 Score=42.22 Aligned_cols=22 Identities=23% Similarity=0.259 Sum_probs=19.2
Q ss_pred ccCCcCCCCCHHHHHHHHhCCC
Q 045263 209 KCISCVPGLSKRLYHQLENCGF 230 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI 230 (742)
.||+.+.|||++++++|+++||
T Consensus 11 lpi~~~~GIG~kt~~kL~~~GI 32 (32)
T PF11798_consen 11 LPIRKFWGIGKKTAKKLNKLGI 32 (32)
T ss_dssp SBGGGSTTS-HHHHHHHHCTT-
T ss_pred CCHHhhCCccHHHHHHHHHccC
Confidence 4999999999999999999997
No 226
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=95.22 E-value=0.16 Score=61.38 Aligned_cols=116 Identities=16% Similarity=0.190 Sum_probs=76.3
Q ss_pred CceEEEccCCChHHHH---HHHHHHHHHhcC-CeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHH
Q 045263 533 MNRLLQGDVGCGKTVV---AFLACMEVIGSG-YQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQS 608 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~v---al~ail~~l~~g-~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er 608 (742)
..++|.-=.|-|||+- |+..++.+...| ..+||++|-.. +..|+.+|.+|...+. ....+.|.-|..-....+|
T Consensus 697 sGcILAHcMGLGKTlQVvtflhTvL~c~klg~ktaLvV~PlNt-~~NW~~EFekWm~~~e-~~~~leV~eL~~vkr~e~R 774 (1567)
T KOG1015|consen 697 SGCILAHCMGLGKTLQVVTFLHTVLLCDKLGFKTALVVCPLNT-ALNWMNEFEKWMEGLE-DDEKLEVSELATVKRPEER 774 (1567)
T ss_pred cchHHHHhhcccceehhhHHHHHHHHhhccCCceEEEEcchHH-HHHHHHHHHHhccccc-ccccceeehhhhccChHHH
Confidence 3567777789999975 455555555555 58899999865 4568999999987643 3345777777766666777
Q ss_pred HHHHHHhhcCCccEEEechH-HH----------------hhccccCCccEEEEeCCccc
Q 045263 609 RMIRKDLQTGDITLVIGTHS-LI----------------AEKVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 609 ~~i~~~l~~G~~~IVVgT~~-~l----------------~~~v~~~~l~LVIIDEaHrf 650 (742)
...+.+..+..--+|||=.- ++ ...+.=...++||+||+|-.
T Consensus 775 ~~~L~~W~~~ggVmIiGYdmyRnLa~gr~vk~rk~ke~f~k~lvdpGPD~vVCDE~HiL 833 (1567)
T KOG1015|consen 775 SYMLQRWQEDGGVMIIGYDMYRNLAQGRNVKSRKLKEIFNKALVDPGPDFVVCDEGHIL 833 (1567)
T ss_pred HHHHHHHHhcCCEEEEehHHHHHHhcccchhhhHHHHHHHHhccCCCCCeEEecchhhh
Confidence 76666555533445666321 11 11222345689999999986
No 227
>PLN03025 replication factor C subunit; Provisional
Probab=95.15 E-value=0.13 Score=56.11 Aligned_cols=25 Identities=32% Similarity=0.453 Sum_probs=19.7
Q ss_pred CceEEEccCCChHHHHHHHHHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l 557 (742)
.+.+++||+|+|||..+...+....
T Consensus 35 ~~lll~Gp~G~GKTtla~~la~~l~ 59 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILALAHELL 59 (319)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHh
Confidence 3689999999999988766655543
No 228
>PRK13767 ATP-dependent helicase; Provisional
Probab=95.12 E-value=0.12 Score=64.15 Aligned_cols=91 Identities=14% Similarity=0.165 Sum_probs=73.7
Q ss_pred HHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh
Q 045263 553 CMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE 632 (742)
Q Consensus 553 il~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~ 632 (742)
+...+..+.+++|.++|+..|+.++..+.+.+... .....+..+||+.+..+|..+.+.+++|+.+|+|+|.. +..
T Consensus 277 L~~~i~~~~~~LVF~nTr~~ae~la~~L~~~~~~~---~~~~~i~~hHg~ls~~~R~~ve~~fk~G~i~vLVaTs~-Le~ 352 (876)
T PRK13767 277 LHELIKEHRTTLIFTNTRSGAERVLYNLRKRFPEE---YDEDNIGAHHSSLSREVRLEVEEKLKRGELKVVVSSTS-LEL 352 (876)
T ss_pred HHHHHhcCCCEEEEeCCHHHHHHHHHHHHHhchhh---ccccceeeeeCCCCHHHHHHHHHHHHcCCCeEEEECCh-HHh
Confidence 34445668899999999999999999998865421 01146899999999999999999999999999999976 445
Q ss_pred ccccCCccEEEEeCC
Q 045263 633 KVEFSALRLAIVDEQ 647 (742)
Q Consensus 633 ~v~~~~l~LVIIDEa 647 (742)
.+++.++++||....
T Consensus 353 GIDip~Vd~VI~~~~ 367 (876)
T PRK13767 353 GIDIGYIDLVVLLGS 367 (876)
T ss_pred cCCCCCCcEEEEeCC
Confidence 888999999997544
No 229
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=95.03 E-value=0.13 Score=56.10 Aligned_cols=86 Identities=21% Similarity=0.164 Sum_probs=57.1
Q ss_pred cccCCCCCeEEEEEEEEEeeccccCCCceEEEEEEeeeeccCCCCCCcceeeecCCCceeEEEEEeeeeecccccccchh
Q 045263 251 QIDLDDGQYFIFIGEIISSRGMKAGCSFSFLEVIVGCEIADTETTSGDEVVNIDSGQKKKIYLHLKKFFRGTRFTSIPFL 330 (742)
Q Consensus 251 i~~l~~Ge~vti~G~V~~~~~~~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~~~~g~~~~i~l~~~~ff~~~~Ffn~pfl 330 (742)
+.++++|+.+.....|.+......+.+..++.+.+. |.+|. |. . ..|.+..-.
T Consensus 5 i~~l~~g~~v~~~~lv~~~~~~~~knG~~yl~l~l~----------------D~tG~---I~--a------k~W~~~~~~ 57 (314)
T PRK13480 5 IEELEVGEQVDHFLLIKSATKGVASNGKPFLTLILQ----------------DKSGD---IE--A------KLWDVSPED 57 (314)
T ss_pred HhhcCCCCEeeEEEEEEEceeeecCCCCeEEEEEEE----------------cCCcE---EE--E------EeCCCChhh
Confidence 578889999888877877655556667778888776 23442 22 2 235443222
Q ss_pred HhhhccccCCcEEEEEEEEeecCCCceeEEeeceeeec
Q 045263 331 KSIEGKHKVGEFVCVSGKVRAMRSNNHYEMREYNIDVL 368 (742)
Q Consensus 331 ~~~~~~l~~G~~v~v~GKv~~~~~~~~~~m~~~~~e~l 368 (742)
...|++|+.|.|.|++..+++. +|+.-..+..+
T Consensus 58 ---~~~~~~g~vv~v~G~v~~y~g~--~Ql~i~~i~~~ 90 (314)
T PRK13480 58 ---EATYVPETIVHVKGDIINYRGR--KQLKVNQIRLA 90 (314)
T ss_pred ---HhhcCCCCEEEEEEEEEEECCc--ceEEEEEeEEC
Confidence 3679999999999999998764 44443334444
No 230
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=95.01 E-value=0.0088 Score=59.94 Aligned_cols=110 Identities=19% Similarity=0.124 Sum_probs=49.9
Q ss_pred EEEccCCChHHHHHHHHHHHHHhcCC-eEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHH
Q 045263 536 LLQGDVGCGKTVVAFLACMEVIGSGY-QAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKD 614 (742)
Q Consensus 536 LL~a~TGSGKT~val~ail~~l~~g~-qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~ 614 (742)
+|.|+-|.||+.+.-+++...+..+. ++++.+|+.+=++..++.+..-++..+ .+. ....+......
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~~~l~~~~-----~~~-------~~~~~~~~~~~ 68 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAEKGLKALG-----YKE-------EKKKRIGQIIK 68 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC----------------------------------
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHHhhccccc-----ccc-------ccccccccccc
Confidence 47899999999888777776666664 899999999888888877766555443 221 00000000011
Q ss_pred hhcCCccEEEechHHHhhccccCCccEEEEeCCccccccchhhhh
Q 045263 615 LQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFN 659 (742)
Q Consensus 615 l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~ 659 (742)
+..+...|-.-.|..+... -...+++|||||=...+..-.++.
T Consensus 69 ~~~~~~~i~f~~Pd~l~~~--~~~~DlliVDEAAaIp~p~L~~ll 111 (177)
T PF05127_consen 69 LRFNKQRIEFVAPDELLAE--KPQADLLIVDEAAAIPLPLLKQLL 111 (177)
T ss_dssp ----CCC--B--HHHHCCT------SCEEECTGGGS-HHHHHHHH
T ss_pred cccccceEEEECCHHHHhC--cCCCCEEEEechhcCCHHHHHHHH
Confidence 2222345666666665321 224689999999998776655554
No 231
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.95 E-value=0.26 Score=56.17 Aligned_cols=35 Identities=20% Similarity=0.113 Sum_probs=26.1
Q ss_pred CceEEEccCCChHHHHHHHHHHHHH--hcCCeEEEEc
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVI--GSGYQAAFMV 567 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l--~~g~qvlila 567 (742)
..+++.||||+|||.++...+.... ..|.++.++.
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~ 258 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALIT 258 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence 3679999999999988776655554 4467777664
No 232
>PTZ00110 helicase; Provisional
Probab=94.93 E-value=0.14 Score=60.28 Aligned_cols=87 Identities=14% Similarity=0.146 Sum_probs=70.6
Q ss_pred HHHHHHHHh-cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechH
Q 045263 550 FLACMEVIG-SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHS 628 (742)
Q Consensus 550 l~ail~~l~-~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~ 628 (742)
+..++..+. .+.++||.++|+.-++.+++.+... + +.+..+||+.+..+|..+++.+++|...|+|+|.
T Consensus 366 L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~~----g-----~~~~~ihg~~~~~eR~~il~~F~~G~~~ILVaTd- 435 (545)
T PTZ00110 366 LKMLLQRIMRDGDKILIFVETKKGADFLTKELRLD----G-----WPALCIHGDKKQEERTWVLNEFKTGKSPIMIATD- 435 (545)
T ss_pred HHHHHHHhcccCCeEEEEecChHHHHHHHHHHHHc----C-----CcEEEEECCCcHHHHHHHHHHHhcCCCcEEEEcc-
Confidence 334444433 6789999999999999888877642 3 6788999999999999999999999999999996
Q ss_pred HHhhccccCCccEEEEeC
Q 045263 629 LIAEKVEFSALRLAIVDE 646 (742)
Q Consensus 629 ~l~~~v~~~~l~LVIIDE 646 (742)
.+...+.+.++.+||.-.
T Consensus 436 v~~rGIDi~~v~~VI~~d 453 (545)
T PTZ00110 436 VASRGLDVKDVKYVINFD 453 (545)
T ss_pred hhhcCCCcccCCEEEEeC
Confidence 455688899999999643
No 233
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=94.93 E-value=0.28 Score=58.29 Aligned_cols=146 Identities=15% Similarity=0.106 Sum_probs=87.6
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-cCCeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-SGYQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~g~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
-|.-++|.=.+=|+++.+.+.+. -.++..|=|.|||.+..+.+...+. .|.++++.||...-+.+++++++..+..
T Consensus 166 np~~~~~~~~~~id~~~~~fkq~---~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~~le~ 242 (752)
T PHA03333 166 NPEAPSPRTLREIDRIFDEYGKC---YTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVETVVHA 242 (752)
T ss_pred CcCCCChhhHHHHHHHHHHHhhc---ceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHHHHHH
Confidence 35567888888888888877543 4578899999999987655544444 6899999999999999999999998874
Q ss_pred ccCC--C-CCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccchhhhh
Q 045263 587 MEED--K-HKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFN 659 (742)
Q Consensus 587 ~~~~--~-~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~ 659 (742)
.+.. . ..-.+....|+...- ....-...+.|...|..++.. .+...-.+.+++|||||+-........+.
T Consensus 243 lg~~~~fp~~~~iv~vkgg~E~I-~f~~p~gak~G~sti~F~Ars--~~s~RG~~~DLLIVDEAAfI~~~~l~aIl 315 (752)
T PHA03333 243 YQHKPWFPEEFKIVTLKGTDENL-EYISDPAAKEGKTTAHFLASS--PNAARGQNPDLVIVDEAAFVNPGALLSVL 315 (752)
T ss_pred hccccccCCCceEEEeeCCeeEE-EEecCcccccCcceeEEeccc--CCCcCCCCCCEEEEECcccCCHHHHHHHH
Confidence 4310 0 001222233322100 000000011122233333322 11223245689999999998776655543
No 234
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.91 E-value=0.2 Score=59.98 Aligned_cols=104 Identities=22% Similarity=0.246 Sum_probs=69.8
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHh---------cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCC
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIG---------SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGST 603 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~---------~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~ 603 (742)
.-.++.-+-|-|||+..+..++..-. .++..|+++|+ .+..||..++.+..+.. ...+.+++|..
T Consensus 153 ~ggIladd~glgkt~~ti~l~l~~~~~~~~~~~~~~~kttLivcp~-s~~~qW~~elek~~~~~-----~l~v~v~~gr~ 226 (674)
T KOG1001|consen 153 RGGILADDMGLGKTVKTIALILKQKLKSKEEDRQKEFKTTLIVCPT-SLLTQWKTELEKVTEED-----KLSIYVYHGRT 226 (674)
T ss_pred ccceEeeccccchHHHHHHHHHhcccCCcchhhccccCceeEecch-HHHHHHHHHHhccCCcc-----ceEEEEecccc
Confidence 34599999999999998777664421 23457888887 57788888885544332 27889999811
Q ss_pred ChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc--cEEEEeCCcccc
Q 045263 604 PVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL--RLAIVDEQQRFG 651 (742)
Q Consensus 604 ~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l--~LVIIDEaHrfG 651 (742)
+.... -...+||++|++.+.. .++..+ -.||+||+|...
T Consensus 227 --kd~~e------l~~~dVVltTy~il~~-~~l~~i~w~Riildea~~ik 267 (674)
T KOG1001|consen 227 --KDKSE------LNSYDVVLTTYDILKN-SPLVKIKWLRIVLDEAHTIK 267 (674)
T ss_pred --cccch------hcCCceEEeeHHHhhc-ccccceeEEEEEeccccccC
Confidence 11111 1236799999998841 333333 358999999964
No 235
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=94.84 E-value=0.17 Score=57.39 Aligned_cols=78 Identities=19% Similarity=0.275 Sum_probs=66.3
Q ss_pred cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCC
Q 045263 559 SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSA 638 (742)
Q Consensus 559 ~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~ 638 (742)
...+++|.++|+.-++.+++.+.. .+ +.+..+||+++.++|..+++.+.+|+++|+|+|.. +...+++.+
T Consensus 254 ~~~~~lVF~~t~~~~~~l~~~L~~----~g-----~~v~~lhg~~~~~~R~~~l~~F~~g~~~vLVaTdv-~~rGiDip~ 323 (423)
T PRK04837 254 WPDRAIIFANTKHRCEEIWGHLAA----DG-----HRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDV-AARGLHIPA 323 (423)
T ss_pred CCCeEEEEECCHHHHHHHHHHHHh----CC-----CcEEEecCCCChhHHHHHHHHHHcCCCcEEEEech-hhcCCCccc
Confidence 357899999999998888877764 24 68999999999999999999999999999999964 455788999
Q ss_pred ccEEEEeC
Q 045263 639 LRLAIVDE 646 (742)
Q Consensus 639 l~LVIIDE 646 (742)
+++||.-+
T Consensus 324 v~~VI~~d 331 (423)
T PRK04837 324 VTHVFNYD 331 (423)
T ss_pred cCEEEEeC
Confidence 99988654
No 236
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=94.78 E-value=0.21 Score=58.04 Aligned_cols=42 Identities=24% Similarity=0.232 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
.|..++..+...+..++ +...|++||.|+|||.++...+...
T Consensus 25 Gq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~L 67 (507)
T PRK06645 25 GQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAV 67 (507)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence 45666665554333332 3578999999999999886665543
No 237
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=94.73 E-value=0.05 Score=66.01 Aligned_cols=67 Identities=24% Similarity=0.231 Sum_probs=56.4
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-C---CeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-G---YQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g---~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
.|++.|++|+.... ...+|.|..|||||.+...-+...+.. | .++|+++-|+.-|..+.+++.+++.
T Consensus 9 ~Ln~~Q~~av~~~~--------g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~ 79 (721)
T PRK11773 9 SLNDKQREAVAAPL--------GNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLG 79 (721)
T ss_pred hcCHHHHHHHhCCC--------CCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhc
Confidence 49999999986321 267999999999999998888888764 4 5799999999999999999988775
No 238
>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=94.72 E-value=0.17 Score=58.36 Aligned_cols=80 Identities=14% Similarity=0.178 Sum_probs=68.1
Q ss_pred cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCC
Q 045263 559 SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSA 638 (742)
Q Consensus 559 ~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~ 638 (742)
.+..++|.++|+.-++++++.|.+. + +.+..+||+++..+|..+.+.+.+|+++|+|+|.. +...+.+.+
T Consensus 225 ~~~~~IIF~~s~~~~e~la~~L~~~----g-----~~~~~~H~~l~~~eR~~i~~~F~~g~~~vLVaT~~-~~~GID~p~ 294 (470)
T TIGR00614 225 KGKSGIIYCPSRKKSEQVTASLQNL----G-----IAAGAYHAGLEISARDDVHHKFQRDEIQVVVATVA-FGMGINKPD 294 (470)
T ss_pred CCCceEEEECcHHHHHHHHHHHHhc----C-----CCeeEeeCCCCHHHHHHHHHHHHcCCCcEEEEech-hhccCCccc
Confidence 4677799999999999998887753 4 78899999999999999999999999999999964 555788899
Q ss_pred ccEEEEeCCc
Q 045263 639 LRLAIVDEQQ 648 (742)
Q Consensus 639 l~LVIIDEaH 648 (742)
+++||.-..-
T Consensus 295 V~~VI~~~~P 304 (470)
T TIGR00614 295 VRFVIHYSLP 304 (470)
T ss_pred ceEEEEeCCC
Confidence 9999965543
No 239
>PHA02533 17 large terminase protein; Provisional
Probab=94.71 E-value=0.076 Score=62.13 Aligned_cols=125 Identities=11% Similarity=0.078 Sum_probs=76.8
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHH-HHHHHH-hcCCeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFL-ACMEVI-GSGYQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~-ail~~l-~~g~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
.||.|.|+|+..+..+... ...++.-+=..|||.++.. ++..++ ..+.++++++|+..-|..+++.++..+.
T Consensus 56 ~Pf~L~p~Q~~i~~~~~~~------R~~ii~~aRq~GKStl~a~~al~~a~~~~~~~v~i~A~~~~QA~~vF~~ik~~ie 129 (534)
T PHA02533 56 IKVQMRDYQKDMLKIMHKN------RFNACNLSRQLGKTTVVAIFLLHYVCFNKDKNVGILAHKASMAAEVLDRTKQAIE 129 (534)
T ss_pred eecCCcHHHHHHHHHHhcC------eEEEEEEcCcCChHHHHHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHHHH
Confidence 5899999999998876421 1346777888999999764 433343 4567999999999999999998887765
Q ss_pred hccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCcccc
Q 045263 586 NMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 586 ~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG 651 (742)
..+.. .+..+.. .. +..+ .+.+| ..|.+.|... +...-.+..++|+||+|...
T Consensus 130 ~~P~l---~~~~i~~-~~----~~~I--~l~NG-S~I~~lss~~--~t~rG~~~~~liiDE~a~~~ 182 (534)
T PHA02533 130 LLPDF---LQPGIVE-WN----KGSI--ELENG-SKIGAYASSP--DAVRGNSFAMIYIDECAFIP 182 (534)
T ss_pred hCHHH---hhcceee-cC----ccEE--EeCCC-CEEEEEeCCC--CccCCCCCceEEEeccccCC
Confidence 43310 0111100 00 0000 12455 3443333321 12223456789999999753
No 240
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.62 E-value=0.28 Score=56.87 Aligned_cols=39 Identities=26% Similarity=0.267 Sum_probs=24.4
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACM 554 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail 554 (742)
|..++..+.+.+..++ +...|++||.|+|||.++...+.
T Consensus 18 Qe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk 57 (491)
T PRK14964 18 QDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISL 57 (491)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHH
Confidence 3444444433333322 34689999999999998765544
No 241
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=94.59 E-value=0.13 Score=57.73 Aligned_cols=114 Identities=10% Similarity=0.090 Sum_probs=66.5
Q ss_pred ceEEEccCCChHHHHHHHHHHH-HHh--cCCeEEEEcccHH-HHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACME-VIG--SGYQAAFMVPTEL-LATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSR 609 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~-~l~--~g~qvlilaPT~~-La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~ 609 (742)
-.++.|..|||||.++...++. ++. .+.+++++.||.. |..-++..+...+..++ +....-....+..
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i~~~g-----~~~~~~~~~~~~~--- 74 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLLSIEG-----INYEFKKSKSSME--- 74 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHHHHcC-----ChhheeecCCccE---
Confidence 3589999999999997655544 444 4678899999988 77778888888777655 2211111111000
Q ss_pred HHHHHhhc-CCccEEEech-HHHhhccccCCccEEEEeCCccccccchhhhh
Q 045263 610 MIRKDLQT-GDITLVIGTH-SLIAEKVEFSALRLAIVDEQQRFGVVQRGRFN 659 (742)
Q Consensus 610 ~i~~~l~~-G~~~IVVgT~-~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~ 659 (742)
+ .+.+ | ..|+++.- ....+......++++.+||+..+.......+.
T Consensus 75 -i--~~~~~g-~~i~f~g~~d~~~~ik~~~~~~~~~idEa~~~~~~~~~~l~ 122 (396)
T TIGR01547 75 -I--KILNTG-KKFIFKGLNDKPNKLKSGAGIAIIWFEEASQLTFEDIKELI 122 (396)
T ss_pred -E--EecCCC-eEEEeecccCChhHhhCcceeeeehhhhhhhcCHHHHHHHH
Confidence 0 0112 3 23444332 21211122344689999999998654444443
No 242
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.59 E-value=0.22 Score=57.93 Aligned_cols=41 Identities=32% Similarity=0.311 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
|..+...+......+. +...|++||+|+|||.++...+...
T Consensus 19 q~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l 60 (504)
T PRK14963 19 QEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAV 60 (504)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence 4455555444333333 2235999999999999876554443
No 243
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=94.55 E-value=0.2 Score=56.95 Aligned_cols=76 Identities=16% Similarity=0.163 Sum_probs=65.6
Q ss_pred cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCC
Q 045263 559 SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSA 638 (742)
Q Consensus 559 ~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~ 638 (742)
...+++|.++|+.-++.+++.|.. .+ +.+..++|+++..+|..++..+++|+.+|+|+|. .+...+++.+
T Consensus 244 ~~~~~lVF~~s~~~~~~l~~~L~~----~~-----~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaTd-~~~~GiDip~ 313 (434)
T PRK11192 244 EVTRSIVFVRTRERVHELAGWLRK----AG-----INCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATD-VAARGIDIDD 313 (434)
T ss_pred CCCeEEEEeCChHHHHHHHHHHHh----CC-----CCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccCccCCC
Confidence 357899999999999988887765 23 7899999999999999999999999999999995 4455788899
Q ss_pred ccEEEE
Q 045263 639 LRLAIV 644 (742)
Q Consensus 639 l~LVII 644 (742)
+.+||.
T Consensus 314 v~~VI~ 319 (434)
T PRK11192 314 VSHVIN 319 (434)
T ss_pred CCEEEE
Confidence 999884
No 244
>PF04994 TfoX_C: TfoX C-terminal domain; InterPro: IPR007077 This domain is found in a number of bacterial proteins including the TfoX gene product of Haemophilus influenzae. TfoX may play a key role in the development of genetic competence by regulating the expression of late competence-specific genes []. This family corresponds to the C-terminal presumed domain of TfoX. The domain is found in association with the N-terminal domain in some, but not all members of this group, suggesting this is an autonomous and functionally unrelated domain. For example it is found associated with Q9JZR1 from SWISSPROT in IPR002125 from INTERPRO.; PDB: 3BQT_A 3MAB_A.
Probab=94.53 E-value=0.029 Score=49.12 Aligned_cols=32 Identities=16% Similarity=0.256 Sum_probs=23.1
Q ss_pred hccCCcCCCCCHHHHHHHHhCCCCCHhHHhhc
Q 045263 208 DKCISCVPGLSKRLYHQLENCGFYTLRKLLHH 239 (742)
Q Consensus 208 ~~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~ 239 (742)
...|++||++|++..+.|.+.||+|++||-..
T Consensus 2 ~~~l~~LpNig~~~e~~L~~vGI~t~~~L~~~ 33 (81)
T PF04994_consen 2 SNRLKDLPNIGPKSERMLAKVGIHTVEDLREL 33 (81)
T ss_dssp ---GCGSTT--HHHHHHHHHTT--SHHHHHHH
T ss_pred ccchhhCCCCCHHHHHHHHHcCCCCHHHHHHh
Confidence 35789999999999999999999999999653
No 245
>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=94.52 E-value=0.18 Score=61.42 Aligned_cols=93 Identities=16% Similarity=0.208 Sum_probs=74.1
Q ss_pred HHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh
Q 045263 553 CMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE 632 (742)
Q Consensus 553 il~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~ 632 (742)
+...+..+.++++.+.|+..++.++..+++.+.... ...+.++..++|+.+..+|..+.+++++|+.+++|+|..+ ..
T Consensus 264 l~~l~~~~~~~IVF~~sr~~ae~l~~~l~~~l~~~~-~~l~~~v~~~hgg~~~~eR~~ie~~f~~G~i~vLVaTd~l-er 341 (742)
T TIGR03817 264 LADLVAEGARTLTFVRSRRGAELVAAIARRLLGEVD-PDLAERVAAYRAGYLPEDRRELERALRDGELLGVATTNAL-EL 341 (742)
T ss_pred HHHHHHCCCCEEEEcCCHHHHHHHHHHHHHHHHhhc-cccccchhheecCCCHHHHHHHHHHHHcCCceEEEECchH-hc
Confidence 334455689999999999999999998887654321 0112578899999999999999999999999999999653 44
Q ss_pred ccccCCccEEEEeCC
Q 045263 633 KVEFSALRLAIVDEQ 647 (742)
Q Consensus 633 ~v~~~~l~LVIIDEa 647 (742)
.+++.++++||.-..
T Consensus 342 GIDI~~vd~VI~~~~ 356 (742)
T TIGR03817 342 GVDISGLDAVVIAGF 356 (742)
T ss_pred cCCcccccEEEEeCC
Confidence 788889998887665
No 246
>PRK08727 hypothetical protein; Validated
Probab=94.50 E-value=0.11 Score=54.09 Aligned_cols=34 Identities=29% Similarity=0.467 Sum_probs=27.6
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
.+++.|++|+|||-.+...+..+...|.+++++.
T Consensus 43 ~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~ 76 (233)
T PRK08727 43 WLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP 76 (233)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence 4799999999999877766666677788888764
No 247
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=94.49 E-value=0.24 Score=56.86 Aligned_cols=77 Identities=21% Similarity=0.207 Sum_probs=65.7
Q ss_pred CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc
Q 045263 560 GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL 639 (742)
Q Consensus 560 g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l 639 (742)
..+++|.++|+.-++.+++.+.+. + +.+..+||+++..+|..+++.+++|+.+|+|+|. .+...+++.++
T Consensus 245 ~~~~lVF~~t~~~~~~l~~~L~~~----g-----~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaTd-v~~rGiDip~v 314 (456)
T PRK10590 245 WQQVLVFTRTKHGANHLAEQLNKD----G-----IRSAAIHGNKSQGARTRALADFKSGDIRVLVATD-IAARGLDIEEL 314 (456)
T ss_pred CCcEEEEcCcHHHHHHHHHHHHHC----C-----CCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEcc-HHhcCCCcccC
Confidence 468999999999998888877652 3 6889999999999999999999999999999996 45568889999
Q ss_pred cEEEEeC
Q 045263 640 RLAIVDE 646 (742)
Q Consensus 640 ~LVIIDE 646 (742)
.+||.=+
T Consensus 315 ~~VI~~~ 321 (456)
T PRK10590 315 PHVVNYE 321 (456)
T ss_pred CEEEEeC
Confidence 9988543
No 248
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=94.48 E-value=0.29 Score=58.94 Aligned_cols=131 Identities=19% Similarity=0.130 Sum_probs=83.2
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC--CeEEEEcccHHHHHHHHHHHHHhhhhcc
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG--YQAAFMVPTELLATQHYEHLLKLLDNME 588 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g--~qvlilaPT~~La~Q~~~~l~~~l~~~~ 588 (742)
..|..|.+++..+..-+..+. .-++|.|+-|-|||.+.-+++..+...+ .++++.+||.+=++.+++.+.+-+..+|
T Consensus 211 ~~T~dQ~~~l~~~~~l~~~~~-~~~vlTAdRGRGKSA~lGi~~~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~~l~~lg 289 (758)
T COG1444 211 CLTEDQAEALEILERLLDAPK-RALVLTADRGRGKSAALGIALAAAARLAGSVRIIVTAPTPANVQTLFEFAGKGLEFLG 289 (758)
T ss_pred hcChhHHHHHHHHHHHHcCCC-ceEEEEcCCCCcHhHHHhHHHHHHHHhcCCceEEEeCCCHHHHHHHHHHHHHhHHHhC
Confidence 478999998888776655443 3789999999999999876664444444 4899999999999999888888777665
Q ss_pred CCCCCcEEEEEe-CCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccchhhhh
Q 045263 589 EDKHKPKIALLT-GSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFN 659 (742)
Q Consensus 589 ~~~~~i~V~ll~-G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~ 659 (742)
.+ ..|+.=. |.... .......|=.-+|...+ ..-+++|||||=..++.--.++.
T Consensus 290 -~~--~~v~~d~~g~~~~---------~~~~~~~i~y~~P~~a~-----~~~DllvVDEAAaIplplL~~l~ 344 (758)
T COG1444 290 -YK--RKVAPDALGEIRE---------VSGDGFRIEYVPPDDAQ-----EEADLLVVDEAAAIPLPLLHKLL 344 (758)
T ss_pred -Cc--cccccccccceee---------ecCCceeEEeeCcchhc-----ccCCEEEEehhhcCChHHHHHHH
Confidence 11 1111100 11100 01111223344444332 12789999999988764444443
No 249
>PRK05580 primosome assembly protein PriA; Validated
Probab=94.47 E-value=0.24 Score=59.78 Aligned_cols=126 Identities=17% Similarity=0.174 Sum_probs=82.1
Q ss_pred EcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCCh--HHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEE
Q 045263 566 MVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPV--KQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAI 643 (742)
Q Consensus 566 laPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~--~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVI 643 (742)
+.+...=++++.+.+.+.|+. .++..++++++. .++..++..+.+|+++|+|||.- +.....+.++++|+
T Consensus 432 l~~~g~G~e~~~e~l~~~fp~-------~~v~~~~~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~-iakG~d~p~v~lV~ 503 (679)
T PRK05580 432 LVPVGPGTERLEEELAELFPE-------ARILRIDRDTTRRKGALEQLLAQFARGEADILIGTQM-LAKGHDFPNVTLVG 503 (679)
T ss_pred eEEeeccHHHHHHHHHHhCCC-------CcEEEEeccccccchhHHHHHHHHhcCCCCEEEEChh-hccCCCCCCcCEEE
Confidence 444455677888888888764 568899998763 56778889999999999999986 45678899999999
Q ss_pred EeCCcccc----ccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCC
Q 045263 644 VDEQQRFG----VVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMS 711 (742)
Q Consensus 644 IDEaHrfG----~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~ 711 (742)
|-.+|.+. +...++......+.. ....|+. ..-.+++.|..|.-..+.....+|.+
T Consensus 504 il~aD~~l~~pdfra~Er~~~~l~q~~----------GRagR~~--~~g~viiqT~~p~~~~~~~~~~~d~~ 563 (679)
T PRK05580 504 VLDADLGLFSPDFRASERTFQLLTQVA----------GRAGRAE--KPGEVLIQTYHPEHPVIQALLAQDYD 563 (679)
T ss_pred EEcCchhccCCccchHHHHHHHHHHHH----------hhccCCC--CCCEEEEEeCCCCCHHHHHHHhCCHH
Confidence 99898652 223333322211110 0112222 23457777988865555444445443
No 250
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.45 E-value=0.18 Score=61.81 Aligned_cols=42 Identities=26% Similarity=0.267 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHhcCCCCCCc-eEEEccCCChHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPVPMN-RLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~~~~-~LL~a~TGSGKT~val~ail~~ 556 (742)
.|..++..+.+.+..++-.. .|+.||.|+|||.++...+...
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~L 62 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGL 62 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence 34444444443333333233 4899999999999876655443
No 251
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria []. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Probab=94.39 E-value=0.028 Score=50.31 Aligned_cols=35 Identities=17% Similarity=0.211 Sum_probs=32.1
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCc
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRT 243 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrr 243 (742)
..++.|||||++.++-|..|||+++.||...=|..
T Consensus 12 ~~L~~iP~IG~a~a~DL~~LGi~s~~~L~g~dP~~ 46 (93)
T PF11731_consen 12 SDLTDIPNIGKATAEDLRLLGIRSPADLKGRDPEE 46 (93)
T ss_pred HHHhcCCCccHHHHHHHHHcCCCCHHHHhCCCHHH
Confidence 57888999999999999999999999999888855
No 252
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=94.38 E-value=0.069 Score=52.84 Aligned_cols=48 Identities=25% Similarity=0.281 Sum_probs=38.8
Q ss_pred eEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 535 RLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 535 ~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
.+|.|++|+|||..++..+...+.+|.+++|+.. ++-.+++.+.+..+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~-e~~~~~~~~~~~~~ 49 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL-EESPEELIENAESL 49 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEEC-CCCHHHHHHHHHHc
Confidence 5899999999999999888888888999988864 45567776666554
No 253
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=94.34 E-value=0.11 Score=54.86 Aligned_cols=60 Identities=18% Similarity=0.200 Sum_probs=40.9
Q ss_pred HHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEcccHHHHHHHHHHHHHhh
Q 045263 522 EIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMVPTELLATQHYEHLLKLL 584 (742)
Q Consensus 522 ~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlilaPT~~La~Q~~~~l~~~l 584 (742)
.+..++..+. ..+|.|++|+|||..+...+...+.. |..++++.- +.-..++..++....
T Consensus 22 ~~~gG~~~g~--~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~-E~~~~~~~~r~~~~~ 82 (271)
T cd01122 22 KLTKGLRKGE--LIILTAGTGVGKTTFLREYALDLITQHGVRVGTISL-EEPVVRTARRLLGQY 82 (271)
T ss_pred eeeEEEcCCc--EEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEc-ccCHHHHHHHHHHHH
Confidence 3344444443 67999999999999888777777666 888888763 334556666655443
No 254
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=94.33 E-value=0.071 Score=64.00 Aligned_cols=67 Identities=25% Similarity=0.202 Sum_probs=55.6
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-C---CeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-G---YQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g---~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
.||+.|++|+... ..+++|.|..|||||.+.+.-+...+.. | .++++++.|+.-|.++.+++.+.+.
T Consensus 1 ~Ln~~Q~~av~~~--------~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~ 71 (664)
T TIGR01074 1 KLNPQQQEAVEYV--------TGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLG 71 (664)
T ss_pred CCCHHHHHHHhCC--------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhC
Confidence 3799999988542 1267999999999999999888888854 3 5789999999999999999988764
No 255
>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=94.29 E-value=0.27 Score=54.09 Aligned_cols=87 Identities=18% Similarity=0.282 Sum_probs=66.9
Q ss_pred HHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHH----HHHHhhcCCccEEEechH
Q 045263 553 CMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRM----IRKDLQTGDITLVIGTHS 628 (742)
Q Consensus 553 il~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~----i~~~l~~G~~~IVVgT~~ 628 (742)
++..+..+.+++++++|+.-++.+++.+++.... ..+..+||+.+..+|.. +++.+.+|...|+|+|.
T Consensus 215 l~~~~~~~~~~lVf~~t~~~~~~~~~~L~~~~~~-------~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~- 286 (358)
T TIGR01587 215 LLEFIKKGGKIAIIVNTVDRAQEFYQQLKENAPE-------EEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQ- 286 (358)
T ss_pred HHHHhhCCCeEEEEECCHHHHHHHHHHHHhhcCC-------CeEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECc-
Confidence 3444566889999999999999999888875421 36899999999888865 36778889999999997
Q ss_pred HHhhccccCCccEEEEeCCc
Q 045263 629 LIAEKVEFSALRLAIVDEQQ 648 (742)
Q Consensus 629 ~l~~~v~~~~l~LVIIDEaH 648 (742)
.+...+.+ +++++|.+...
T Consensus 287 ~~~~GiDi-~~~~vi~~~~~ 305 (358)
T TIGR01587 287 VIEASLDI-SADVMITELAP 305 (358)
T ss_pred chhceecc-CCCEEEEcCCC
Confidence 45556666 46777776443
No 256
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.26 E-value=0.42 Score=53.86 Aligned_cols=36 Identities=22% Similarity=0.255 Sum_probs=29.2
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
+..+.+.||+|+|||..+...+......|+++.++.
T Consensus 241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~ 276 (436)
T PRK11889 241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFIT 276 (436)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEe
Confidence 357899999999999998777777777787777665
No 257
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.26 E-value=0.19 Score=56.00 Aligned_cols=41 Identities=29% Similarity=0.278 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~ 555 (742)
.|..++..+......+. +...++.||.|+|||.++...+..
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~ 61 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKS 61 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHH
Confidence 45556655555444433 234699999999999887665543
No 258
>PHA02558 uvsW UvsW helicase; Provisional
Probab=94.24 E-value=0.25 Score=57.45 Aligned_cols=81 Identities=15% Similarity=0.218 Sum_probs=66.9
Q ss_pred HHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccc
Q 045263 556 VIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVE 635 (742)
Q Consensus 556 ~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~ 635 (742)
....|.++++++....-++.+++.|.+ .+ +++..++|+++.++|..+.+.+++|...|+|+|-..+.+.++
T Consensus 340 ~~~~~~~~lV~~~~~~h~~~L~~~L~~----~g-----~~v~~i~G~~~~~eR~~i~~~~~~~~~~vLvaT~~~l~eG~D 410 (501)
T PHA02558 340 LAKKGENTFVMFKYVEHGKPLYEMLKK----VY-----DKVYYVSGEVDTEDRNEMKKIAEGGKGIIIVASYGVFSTGIS 410 (501)
T ss_pred HHhcCCCEEEEEEEHHHHHHHHHHHHH----cC-----CCEEEEeCCCCHHHHHHHHHHHhCCCCeEEEEEcceeccccc
Confidence 335678899999887655555555544 44 689999999999999998888888988899999999999999
Q ss_pred cCCccEEEEe
Q 045263 636 FSALRLAIVD 645 (742)
Q Consensus 636 ~~~l~LVIID 645 (742)
+.+++.||+.
T Consensus 411 ip~ld~vIl~ 420 (501)
T PHA02558 411 IKNLHHVIFA 420 (501)
T ss_pred cccccEEEEe
Confidence 9999999985
No 259
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=94.23 E-value=0.22 Score=50.78 Aligned_cols=50 Identities=18% Similarity=0.167 Sum_probs=33.3
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcc--cHHHHHHHHHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVP--TELLATQHYEHLLK 582 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaP--T~~La~Q~~~~l~~ 582 (742)
.-.++.||||+|||.+....+.....+|.++.+++- .+.=|..+.+.+.+
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~ 53 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAE 53 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHH
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHH
Confidence 457899999999999988887777767888877762 33334433444443
No 260
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=94.15 E-value=0.073 Score=64.57 Aligned_cols=67 Identities=22% Similarity=0.173 Sum_probs=56.4
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-C---CeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-G---YQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g---~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
.|++.|++|+... ....+|.|..|||||.+...-+...+.. | .++|+++.|+.-|..+.+++.+++.
T Consensus 4 ~Ln~~Q~~av~~~--------~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~ 74 (715)
T TIGR01075 4 GLNDKQREAVAAP--------PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLG 74 (715)
T ss_pred ccCHHHHHHHcCC--------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhc
Confidence 4999999998531 1267999999999999998888888864 3 5899999999999999999988775
No 261
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=94.13 E-value=0.16 Score=56.81 Aligned_cols=49 Identities=20% Similarity=0.319 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHHHHHh-cCCCCCCceEEEccCCChHHHHHHHHHHHHHhc
Q 045263 511 SLTSSQLSAISEIIWD-LKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS 559 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~-~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~ 559 (742)
.-+..|.+.+..++.. +....|.|.++.|+||+|||.+.-..+-+....
T Consensus 20 ~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~ 69 (366)
T COG1474 20 PHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEES 69 (366)
T ss_pred cccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhh
Confidence 3567777777666543 445667789999999999999987777665544
No 262
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=94.05 E-value=0.22 Score=60.38 Aligned_cols=24 Identities=29% Similarity=0.311 Sum_probs=18.6
Q ss_pred CCCCceEEEccCCChHHHHHHHHH
Q 045263 530 PVPMNRLLQGDVGCGKTVVAFLAC 553 (742)
Q Consensus 530 ~~~~~~LL~a~TGSGKT~val~ai 553 (742)
+...+.++.||+|+|||.++....
T Consensus 50 ~~~~slLL~GPpGtGKTTLA~aIA 73 (725)
T PRK13341 50 DRVGSLILYGPPGVGKTTLARIIA 73 (725)
T ss_pred CCCceEEEECCCCCCHHHHHHHHH
Confidence 334478999999999998775554
No 263
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=94.00 E-value=0.3 Score=58.32 Aligned_cols=42 Identities=24% Similarity=0.249 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHhcCCCCC-CceEEEccCCChHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPVP-MNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~~-~~~LL~a~TGSGKT~val~ail~~ 556 (742)
.|..++..+...+..++- ...|+.|+.|+|||.++...+...
T Consensus 20 GQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L 62 (647)
T PRK07994 20 GQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGL 62 (647)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence 355555555554444332 235899999999999876655433
No 264
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=93.98 E-value=0.32 Score=55.88 Aligned_cols=93 Identities=16% Similarity=0.279 Sum_probs=78.7
Q ss_pred HHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHH
Q 045263 550 FLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSL 629 (742)
Q Consensus 550 l~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~ 629 (742)
+--+-..+..|.++++.+=|+-+|+.+.+ ++...| ++|..+|+....-+|.++++.++.|..||+||- .+
T Consensus 436 ~~EI~~r~~~~eRvLVTtLTKkmAEdLT~----Yl~e~g-----ikv~YlHSdidTlER~eIirdLR~G~~DvLVGI-NL 505 (663)
T COG0556 436 LSEIRKRVAKNERVLVTTLTKKMAEDLTE----YLKELG-----IKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGI-NL 505 (663)
T ss_pred HHHHHHHHhcCCeEEEEeehHHHHHHHHH----HHHhcC-----ceEEeeeccchHHHHHHHHHHHhcCCccEEEee-hh
Confidence 34455556778999999999887776554 555556 999999999999999999999999999999994 68
Q ss_pred HhhccccCCccEEEEeCCccccc
Q 045263 630 IAEKVEFSALRLAIVDEQQRFGV 652 (742)
Q Consensus 630 l~~~v~~~~l~LVIIDEaHrfG~ 652 (742)
|.+.+.+..+.||.|=+|+.-|+
T Consensus 506 LREGLDiPEVsLVAIlDADKeGF 528 (663)
T COG0556 506 LREGLDLPEVSLVAILDADKEGF 528 (663)
T ss_pred hhccCCCcceeEEEEeecCcccc
Confidence 88899999999999999999765
No 265
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=93.96 E-value=0.15 Score=58.84 Aligned_cols=74 Identities=15% Similarity=0.024 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHHhcCC-CC--CCceEEEccCCChHHHHHHHHHHHHH-h---cCCeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 514 SSQLSAISEIIWDLKQ-PV--PMNRLLQGDVGCGKTVVAFLACMEVI-G---SGYQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 514 ~~Q~~aI~~I~~~~~~-~~--~~~~LL~a~TGSGKT~val~ail~~l-~---~g~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
|+|+-.+..++.-... +. -..+++.-+=|.|||......++..+ . .|.++++.++++.-|...++.++.++..
T Consensus 1 PwQ~fi~~~i~G~~~~~g~rrf~~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~~QA~~~f~~~~~~i~~ 80 (477)
T PF03354_consen 1 PWQKFILRSIFGWRKDDGRRRFREVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTRDQAKIVFDEAKKMIEA 80 (477)
T ss_pred CcHHHHHHHHhceEcCCCCEEEEEEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCHHHHHHHHHHHHHHHHh
Confidence 5788777777732111 11 12457888999999998665544333 2 3679999999999999999999998865
Q ss_pred c
Q 045263 587 M 587 (742)
Q Consensus 587 ~ 587 (742)
.
T Consensus 81 ~ 81 (477)
T PF03354_consen 81 S 81 (477)
T ss_pred C
Confidence 3
No 266
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=93.93 E-value=0.31 Score=56.93 Aligned_cols=78 Identities=18% Similarity=0.266 Sum_probs=65.7
Q ss_pred CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc
Q 045263 560 GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL 639 (742)
Q Consensus 560 g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l 639 (742)
..++++.++|+.-++.+++.+.... + +++..+||+.+..+|..+++.+++|+.+|+|+|.. +...+++.++
T Consensus 367 ~~~~iVFv~s~~~a~~l~~~L~~~~---g-----~~~~~~Hg~~~~~eR~~il~~Fr~G~~~ILVaTdv-l~rGiDip~v 437 (518)
T PLN00206 367 KPPAVVFVSSRLGADLLANAITVVT---G-----LKALSIHGEKSMKERREVMKSFLVGEVPVIVATGV-LGRGVDLLRV 437 (518)
T ss_pred CCCEEEEcCCchhHHHHHHHHhhcc---C-----cceEEeeCCCCHHHHHHHHHHHHCCCCCEEEEecH-hhccCCcccC
Confidence 4589999999999888877766432 3 67889999999999999999999999999999974 4558889999
Q ss_pred cEEEEeC
Q 045263 640 RLAIVDE 646 (742)
Q Consensus 640 ~LVIIDE 646 (742)
++||.=+
T Consensus 438 ~~VI~~d 444 (518)
T PLN00206 438 RQVIIFD 444 (518)
T ss_pred CEEEEeC
Confidence 9999643
No 267
>PF14520 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU6_A 3AU2_A 3B0X_A 3B0Y_A 1SZP_C 3LDA_A 1WCN_A 2JZB_B 2ZTC_A ....
Probab=93.93 E-value=0.031 Score=45.79 Aligned_cols=32 Identities=22% Similarity=0.340 Sum_probs=28.2
Q ss_pred hccCCcCCCCCHHHHHHHHhCCCCCHhHHhhc
Q 045263 208 DKCISCVPGLSKRLYHQLENCGFYTLRKLLHH 239 (742)
Q Consensus 208 ~~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~ 239 (742)
+..+..++||||++++.|.+.||.|++||..-
T Consensus 4 ~~~L~~I~Gig~~~a~~L~~~G~~t~~~l~~a 35 (60)
T PF14520_consen 4 FDDLLSIPGIGPKRAEKLYEAGIKTLEDLANA 35 (60)
T ss_dssp HHHHHTSTTCHHHHHHHHHHTTCSSHHHHHTS
T ss_pred HHhhccCCCCCHHHHHHHHhcCCCcHHHHHcC
Confidence 44566799999999999999999999999873
No 268
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=93.91 E-value=0.33 Score=52.71 Aligned_cols=42 Identities=24% Similarity=0.270 Sum_probs=26.3
Q ss_pred HHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l 557 (742)
|..++..+......+.....++.||+|+|||.++...+....
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY 61 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence 333444444333333333689999999999988766655443
No 269
>PRK05973 replicative DNA helicase; Provisional
Probab=93.89 E-value=0.12 Score=54.29 Aligned_cols=59 Identities=25% Similarity=0.286 Sum_probs=44.8
Q ss_pred HHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 522 EIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 522 ~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
++..++..+. -.+|.|++|+|||..++..+...+.+|.+++|+.-... .+|+.+++..+
T Consensus 56 ~l~GGl~~Gs--l~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes-~~~i~~R~~s~ 114 (237)
T PRK05973 56 ELFSQLKPGD--LVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYT-EQDVRDRLRAL 114 (237)
T ss_pred HhcCCCCCCC--EEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCC-HHHHHHHHHHc
Confidence 3445554443 67999999999999999888888888999988865543 57777777654
No 270
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.83 E-value=0.42 Score=55.79 Aligned_cols=41 Identities=22% Similarity=0.273 Sum_probs=25.7
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
|..++..+.+.+..+. +...|++||.|+|||.++...+...
T Consensus 21 q~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l 62 (509)
T PRK14958 21 QAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCL 62 (509)
T ss_pred CHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence 4444444444443332 2346999999999998876655443
No 271
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=93.81 E-value=0.44 Score=51.30 Aligned_cols=40 Identities=25% Similarity=0.239 Sum_probs=26.4
Q ss_pred HHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~ 555 (742)
|.++++.+...+..+...+.++.|++|+|||.++-..+-.
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~ 61 (319)
T PRK00440 22 QEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARE 61 (319)
T ss_pred cHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence 4455555555444444446899999999999877554443
No 272
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=93.79 E-value=0.12 Score=53.97 Aligned_cols=50 Identities=18% Similarity=0.209 Sum_probs=40.7
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
...+|.|++|||||..++..+...+.+|..++|+. +++-..|+.+++..+
T Consensus 22 s~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs-~ee~~~~i~~~~~~~ 71 (237)
T TIGR03877 22 NVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA-LEEHPVQVRRNMAQF 71 (237)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE-eeCCHHHHHHHHHHh
Confidence 37899999999999999888888888899999988 455667777766654
No 273
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=93.74 E-value=0.34 Score=58.46 Aligned_cols=41 Identities=20% Similarity=0.244 Sum_probs=25.8
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
|..++..+.+.+..++ +...|++|+.|+|||.++...+...
T Consensus 21 Qe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaL 62 (830)
T PRK07003 21 QEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKAL 62 (830)
T ss_pred cHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 4555555444444433 2345999999999998876555433
No 274
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=93.72 E-value=0.4 Score=55.23 Aligned_cols=77 Identities=14% Similarity=0.164 Sum_probs=65.4
Q ss_pred CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc
Q 045263 560 GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL 639 (742)
Q Consensus 560 g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l 639 (742)
..++++.++++.-++.+++.+.+ .+ +.+..++|+++..+|..+.+.+++|+..|+|+|. .+...+++.++
T Consensus 335 ~~~~IVF~~s~~~~~~l~~~L~~----~~-----~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT~-~l~~GIDi~~v 404 (475)
T PRK01297 335 WERVMVFANRKDEVRRIEERLVK----DG-----INAAQLSGDVPQHKRIKTLEGFREGKIRVLVATD-VAGRGIHIDGI 404 (475)
T ss_pred CCeEEEEeCCHHHHHHHHHHHHH----cC-----CCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccCCcccCC
Confidence 46999999999988888776654 33 6788999999999999999999999999999996 45558889999
Q ss_pred cEEEEeC
Q 045263 640 RLAIVDE 646 (742)
Q Consensus 640 ~LVIIDE 646 (742)
++||...
T Consensus 405 ~~VI~~~ 411 (475)
T PRK01297 405 SHVINFT 411 (475)
T ss_pred CEEEEeC
Confidence 9999744
No 275
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=93.69 E-value=0.3 Score=55.92 Aligned_cols=80 Identities=13% Similarity=0.098 Sum_probs=67.9
Q ss_pred cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCC
Q 045263 559 SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSA 638 (742)
Q Consensus 559 ~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~ 638 (742)
.+.++++.++|+.-++.+++.+.+. + +.+..+||+++..+|..+++.+.+|..+|+|+|. .+...+.+.+
T Consensus 241 ~~~~~lVF~~t~~~~~~l~~~L~~~----~-----~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaTd-v~~rGiDi~~ 310 (460)
T PRK11776 241 QPESCVVFCNTKKECQEVADALNAQ----G-----FSALALHGDLEQRDRDQVLVRFANRSCSVLVATD-VAARGLDIKA 310 (460)
T ss_pred CCCceEEEECCHHHHHHHHHHHHhC----C-----CcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEec-ccccccchhc
Confidence 3568999999999999988887653 3 6899999999999999999999999999999996 4555788889
Q ss_pred ccEEEEeCCc
Q 045263 639 LRLAIVDEQQ 648 (742)
Q Consensus 639 l~LVIIDEaH 648 (742)
+.+||.-+.-
T Consensus 311 v~~VI~~d~p 320 (460)
T PRK11776 311 LEAVINYELA 320 (460)
T ss_pred CCeEEEecCC
Confidence 9999875543
No 276
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=93.66 E-value=0.14 Score=59.49 Aligned_cols=65 Identities=18% Similarity=0.177 Sum_probs=48.4
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc------CCeEEEEcccHHHHHHHHHHHHHh
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS------GYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~------g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
+.+.|-++|.. ....-.++||..|||||.+|+.-+...+.. +++++++.|.+.+.+-+...+-.+
T Consensus 213 IQkEQneIIR~-------ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis~VLPeL 283 (747)
T COG3973 213 IQKEQNEIIRF-------EKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYISRVLPEL 283 (747)
T ss_pred hhHhHHHHHhc-------cCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHHHHhchhh
Confidence 45566555532 222367999999999999999888777754 568999999999988776665544
No 277
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=93.64 E-value=0.53 Score=57.91 Aligned_cols=41 Identities=24% Similarity=0.249 Sum_probs=26.4
Q ss_pred HHHHHHHHHHhcCCCCCC-ceEEEccCCChHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPVPM-NRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~~~-~~LL~a~TGSGKT~val~ail~~ 556 (742)
|..++..+...+.+++.. -.|++|+.|+|||.++...+...
T Consensus 20 qe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L 61 (824)
T PRK07764 20 QEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSL 61 (824)
T ss_pred cHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence 444555554444343322 36999999999999887665543
No 278
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=93.64 E-value=0.32 Score=59.30 Aligned_cols=44 Identities=16% Similarity=0.169 Sum_probs=30.6
Q ss_pred CCHHHHHHHHHHHHhc-CCCCCCce-EEEccCCChHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDL-KQPVPMNR-LLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~-~~~~~~~~-LL~a~TGSGKT~val~ail~ 555 (742)
-+..|.+.|..++... ....+.++ +|.|+||+|||.+.-..+-+
T Consensus 759 hREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrE 804 (1164)
T PTZ00112 759 CREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQL 804 (1164)
T ss_pred ChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 3777888887776653 22334455 49999999999997665543
No 279
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=93.62 E-value=0.053 Score=62.12 Aligned_cols=100 Identities=27% Similarity=0.341 Sum_probs=69.9
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRK 613 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~ 613 (742)
-++=+|||.||||.-|+ +.+.+.+..++--|.+.||..+++++... | +.+.++||.-.. ..
T Consensus 193 Ii~H~GPTNSGKTy~AL----qrl~~aksGvycGPLrLLA~EV~~r~na~----g-----ipCdL~TGeE~~----~~-- 253 (700)
T KOG0953|consen 193 IIMHVGPTNSGKTYRAL----QRLKSAKSGVYCGPLRLLAHEVYDRLNAL----G-----IPCDLLTGEERR----FV-- 253 (700)
T ss_pred EEEEeCCCCCchhHHHH----HHHhhhccceecchHHHHHHHHHHHhhhc----C-----CCccccccceee----ec--
Confidence 34667999999997664 44555677899999999999999988864 3 788899985321 11
Q ss_pred HhhcC-CccEEEechHHHhhccccCCccEEEEeCCccccccchh
Q 045263 614 DLQTG-DITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRG 656 (742)
Q Consensus 614 ~l~~G-~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~ 656 (742)
.-+| .++.+-+|-+...- -..++..||||.+.+.-.+|+
T Consensus 254 -~~~~~~a~hvScTVEM~sv---~~~yeVAViDEIQmm~Dp~RG 293 (700)
T KOG0953|consen 254 -LDNGNPAQHVSCTVEMVSV---NTPYEVAVIDEIQMMRDPSRG 293 (700)
T ss_pred -CCCCCcccceEEEEEEeec---CCceEEEEehhHHhhcCcccc
Confidence 1122 35666777665421 234678999999988666664
No 280
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.61 E-value=0.29 Score=55.20 Aligned_cols=41 Identities=24% Similarity=0.169 Sum_probs=26.5
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
|..+...+...+.+++ +...|++||.|+|||.++...+-..
T Consensus 21 q~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l 62 (397)
T PRK14955 21 QEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAV 62 (397)
T ss_pred hHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHh
Confidence 5555555544444433 2347899999999999886665443
No 281
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.57 E-value=0.27 Score=58.51 Aligned_cols=40 Identities=23% Similarity=0.194 Sum_probs=25.0
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~ 555 (742)
|..+...+...+.+++ +...|+.||.|+|||.+|...+..
T Consensus 20 Qe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~ 60 (702)
T PRK14960 20 QNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKC 60 (702)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4444444444333333 335699999999999887655544
No 282
>PTZ00424 helicase 45; Provisional
Probab=93.57 E-value=0.44 Score=53.24 Aligned_cols=77 Identities=17% Similarity=0.252 Sum_probs=65.2
Q ss_pred CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc
Q 045263 560 GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL 639 (742)
Q Consensus 560 g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l 639 (742)
..++++.++|+.-++.+.+.+... + +.+..+||+++..+|..+.+.+++|+.+|+|+|. .+...+++.++
T Consensus 267 ~~~~ivF~~t~~~~~~l~~~l~~~----~-----~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~-~l~~GiDip~v 336 (401)
T PTZ00424 267 ITQAIIYCNTRRKVDYLTKKMHER----D-----FTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTD-LLARGIDVQQV 336 (401)
T ss_pred CCeEEEEecCcHHHHHHHHHHHHC----C-----CcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEcc-cccCCcCcccC
Confidence 568999999998888777766542 3 6799999999999999999999999999999996 45568889999
Q ss_pred cEEEEeC
Q 045263 640 RLAIVDE 646 (742)
Q Consensus 640 ~LVIIDE 646 (742)
++||.-.
T Consensus 337 ~~VI~~~ 343 (401)
T PTZ00424 337 SLVINYD 343 (401)
T ss_pred CEEEEEC
Confidence 9998644
No 283
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=93.56 E-value=0.5 Score=54.38 Aligned_cols=39 Identities=31% Similarity=0.466 Sum_probs=28.3
Q ss_pred CCcEEEEcCCCCHHHHHHHHc--CCCCeeeeccCC--CCCCCc
Q 045263 687 APHVLAMSATPIPRTLALALY--GDMSLTQITDLP--PGRIPI 725 (742)
Q Consensus 687 ~p~vL~mSATPiprtla~~l~--gdl~~s~I~e~P--~gr~~i 725 (742)
+--++.+-||-.|+.|-.++. |..|.-..-..| .||..|
T Consensus 437 NeGiIvigATNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eI 479 (752)
T KOG0734|consen 437 NEGIIVIGATNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEI 479 (752)
T ss_pred CCceEEEeccCChhhhhHHhcCCCccceeEecCCCCcccHHHH
Confidence 345888899999999988875 667766666666 566544
No 284
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.56 E-value=0.27 Score=56.84 Aligned_cols=92 Identities=13% Similarity=0.118 Sum_probs=71.6
Q ss_pred CChHHHHHHHHHHHHHh--cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCC
Q 045263 542 GCGKTVVAFLACMEVIG--SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGD 619 (742)
Q Consensus 542 GSGKT~val~ail~~l~--~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~ 619 (742)
...|-.. +.+++..+. .+.+++|.+-|+--|+++...+.... ..+..+||+.++.+|..+++.+++|.
T Consensus 322 ~~~K~~~-l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~---------~~a~~iHGd~sQ~eR~~~L~~FreG~ 391 (519)
T KOG0331|consen 322 ETAKLRK-LGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKG---------WPAVAIHGDKSQSERDWVLKGFREGK 391 (519)
T ss_pred HHHHHHH-HHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcC---------cceeeecccccHHHHHHHHHhcccCC
Confidence 4445332 333444443 45699999999999999888887632 46788999999999999999999999
Q ss_pred ccEEEechHHHhhccccCCccEEEE
Q 045263 620 ITLVIGTHSLIAEKVEFSALRLAIV 644 (742)
Q Consensus 620 ~~IVVgT~~~l~~~v~~~~l~LVII 644 (742)
..|+|+|--+- ..+++.++++||-
T Consensus 392 ~~vLVATdVAa-RGLDi~dV~lVIn 415 (519)
T KOG0331|consen 392 SPVLVATDVAA-RGLDVPDVDLVIN 415 (519)
T ss_pred cceEEEccccc-ccCCCccccEEEe
Confidence 99999996543 3678889999984
No 285
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=93.54 E-value=0.65 Score=49.80 Aligned_cols=36 Identities=22% Similarity=0.211 Sum_probs=29.2
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
+..+++.|++|+|||.++...+......|++++++.
T Consensus 72 ~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~ 107 (272)
T TIGR00064 72 PNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAA 107 (272)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEe
Confidence 346678899999999998877777777788888775
No 286
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=93.49 E-value=0.44 Score=56.32 Aligned_cols=42 Identities=17% Similarity=0.167 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
.|..++..+.+....+. +...|++||.|+|||.+|...+...
T Consensus 20 GQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L 62 (605)
T PRK05896 20 GQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAI 62 (605)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence 35555555555443332 3357899999999999886665544
No 287
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=93.45 E-value=0.24 Score=55.04 Aligned_cols=43 Identities=19% Similarity=0.245 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~l 557 (742)
.|.++...+...+.+++ |...|++||.|+|||..+...+...+
T Consensus 27 Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Ll 70 (351)
T PRK09112 27 GHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHIL 70 (351)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHc
Confidence 46667777766655544 34689999999999988766555443
No 288
>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=93.45 E-value=0.18 Score=42.67 Aligned_cols=55 Identities=22% Similarity=0.426 Sum_probs=49.4
Q ss_pred cEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCcc
Q 045263 594 PKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQR 649 (742)
Q Consensus 594 i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHr 649 (742)
+.+..++|+++..++..+++.+.+|+.+|+|+|. .+...+.+..+..||+-+.+.
T Consensus 8 ~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~-~~~~Gid~~~~~~vi~~~~~~ 62 (78)
T PF00271_consen 8 IKVAIIHGDMSQKERQEILKKFNSGEIRVLIATD-ILGEGIDLPDASHVIFYDPPW 62 (78)
T ss_dssp SSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESC-GGTTSSTSTTESEEEESSSES
T ss_pred CcEEEEECCCCHHHHHHHHHHhhccCceEEEeec-cccccccccccccccccccCC
Confidence 7899999999999999999999999999999994 577788999999999877753
No 289
>PRK09694 helicase Cas3; Provisional
Probab=93.42 E-value=0.46 Score=58.77 Aligned_cols=99 Identities=14% Similarity=0.225 Sum_probs=70.5
Q ss_pred HHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHH----HHHHHh-hcCC---c
Q 045263 549 AFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSR----MIRKDL-QTGD---I 620 (742)
Q Consensus 549 al~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~----~i~~~l-~~G~---~ 620 (742)
.+..+...+..|.+++++++|..-|+++++.+++.+.. . ..+.++||..+..+|. ++++.+ ++|. .
T Consensus 549 ~l~~i~~~~~~g~~vLVf~NTV~~Aq~ly~~L~~~~~~-~-----~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~ 622 (878)
T PRK09694 549 LLQRMIAAANAGAQVCLICNLVDDAQKLYQRLKELNNT-Q-----VDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQG 622 (878)
T ss_pred HHHHHHHHHhcCCEEEEEECCHHHHHHHHHHHHhhCCC-C-----ceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCC
Confidence 34445555677999999999999999999999875421 1 4789999999988774 345555 4554 3
Q ss_pred cEEEechHHHhhccccCCccEEEEeCCccccccch
Q 045263 621 TLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQR 655 (742)
Q Consensus 621 ~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr 655 (742)
.|+|+| +.+...+.+ +++++|.|-+=.-..-||
T Consensus 623 ~ILVaT-QViE~GLDI-d~DvlItdlaPidsLiQR 655 (878)
T PRK09694 623 RILVAT-QVVEQSLDL-DFDWLITQLCPVDLLFQR 655 (878)
T ss_pred eEEEEC-cchhheeec-CCCeEEECCCCHHHHHHH
Confidence 689999 456566666 578999986543233344
No 290
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.40 E-value=0.43 Score=56.70 Aligned_cols=41 Identities=20% Similarity=0.207 Sum_probs=25.9
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
|..++..+.+....++ +...|++||.|+|||.++...+...
T Consensus 21 Qe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L 62 (624)
T PRK14959 21 QETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKAL 62 (624)
T ss_pred CHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence 3444444443333332 3467899999999999987666544
No 291
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.39 E-value=0.34 Score=56.82 Aligned_cols=41 Identities=24% Similarity=0.310 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHhcCCCCC-CceEEEccCCChHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPVP-MNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~~-~~~LL~a~TGSGKT~val~ail~ 555 (742)
.|..++..+...+..++. ...|++||.|+|||.++...+..
T Consensus 20 Gq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~ 61 (546)
T PRK14957 20 GQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKC 61 (546)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 455555555555444332 34689999999999987666543
No 292
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=93.35 E-value=0.11 Score=53.53 Aligned_cols=50 Identities=20% Similarity=0.248 Sum_probs=37.3
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEcccHHHHHHHHHHHHHh
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
...+|.|++|+|||..++.-+...+.+ |.+++++.- .+-.+++.+.+..+
T Consensus 20 s~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~-ee~~~~l~~~~~s~ 70 (226)
T PF06745_consen 20 SVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSF-EEPPEELIENMKSF 70 (226)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEES-SS-HHHHHHHHHTT
T ss_pred cEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEe-cCCHHHHHHHHHHc
Confidence 478999999999999999988888888 999988873 34446666665543
No 293
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=93.28 E-value=0.52 Score=53.23 Aligned_cols=24 Identities=25% Similarity=0.328 Sum_probs=19.0
Q ss_pred CCceEEEccCCChHHHHHHHHHHH
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~ 555 (742)
+...|+.||.|+|||.++...+..
T Consensus 36 ~ha~Lf~Gp~G~GKt~lA~~lA~~ 59 (394)
T PRK07940 36 THAWLFTGPPGSGRSVAARAFAAA 59 (394)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHH
Confidence 456899999999999887665443
No 294
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=93.26 E-value=0.9 Score=52.00 Aligned_cols=37 Identities=24% Similarity=0.278 Sum_probs=30.6
Q ss_pred CCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 531 VPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 531 ~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
.|..+++.|++|+|||.++...+......|++++++.
T Consensus 94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~ 130 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVA 130 (437)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEec
Confidence 3567899999999999998877777667788888775
No 295
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=93.24 E-value=0.47 Score=56.00 Aligned_cols=40 Identities=25% Similarity=0.200 Sum_probs=24.6
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~ 555 (742)
|..++..+.+.+..+. +...|++||.|+|||.++-..+..
T Consensus 21 q~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAka 61 (559)
T PRK05563 21 QEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKA 61 (559)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4444444444333332 234688999999999987665543
No 296
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=93.22 E-value=0.17 Score=61.63 Aligned_cols=67 Identities=24% Similarity=0.211 Sum_probs=56.1
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-C---CeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-G---YQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g---~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
.|++.|++|+.... ..++|.|..|||||.+...-+...+.. | .++|+++-|+.-|..+.+++.+++.
T Consensus 4 ~Ln~~Q~~av~~~~--------g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~ 74 (726)
T TIGR01073 4 HLNPEQREAVKTTE--------GPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLG 74 (726)
T ss_pred ccCHHHHHHHhCCC--------CCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhc
Confidence 49999999996421 267999999999999999888888865 3 5899999999999999999987764
No 297
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=93.22 E-value=0.28 Score=52.09 Aligned_cols=67 Identities=18% Similarity=0.170 Sum_probs=46.6
Q ss_pred CCHHHHHHHHHHH---HhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEII---WDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 512 Lt~~Q~~aI~~I~---~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~ 581 (742)
....++.++..+. +.+. .+.++++.|++|+|||..+......++..|..|+ .+++-+|+.++...+.
T Consensus 84 ~~~~~~~~l~~~~~~~~~~~--~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~-f~~~~el~~~Lk~~~~ 153 (254)
T COG1484 84 QPGIDKKALEDLASLVEFFE--RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVL-FITAPDLLSKLKAAFD 153 (254)
T ss_pred CcchhHHHHHHHHHHHHHhc--cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEE-EEEHHHHHHHHHHHHh
Confidence 3445555555553 3443 4569999999999999999988888885566555 4566677777665444
No 298
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=93.20 E-value=0.43 Score=52.14 Aligned_cols=84 Identities=20% Similarity=0.280 Sum_probs=67.5
Q ss_pred HhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhcccc
Q 045263 557 IGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEF 636 (742)
Q Consensus 557 l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~ 636 (742)
...|+.+++.+|+++-.+|.++.+++.++. .+++.+++... .|.+..+.+++|+.+|+|+|. .+...+.|
T Consensus 302 ~~~~~P~liF~p~I~~~eq~a~~lk~~~~~-------~~i~~Vhs~d~--~R~EkV~~fR~G~~~lLiTTT-ILERGVTf 371 (441)
T COG4098 302 RKTGRPVLIFFPEIETMEQVAAALKKKLPK-------ETIASVHSEDQ--HRKEKVEAFRDGKITLLITTT-ILERGVTF 371 (441)
T ss_pred HhcCCcEEEEecchHHHHHHHHHHHhhCCc-------cceeeeeccCc--cHHHHHHHHHcCceEEEEEee-hhhccccc
Confidence 345899999999999999999999877654 46677776543 455556678899999999996 35568899
Q ss_pred CCccEEEEeCCccc
Q 045263 637 SALRLAIVDEQQRF 650 (742)
Q Consensus 637 ~~l~LVIIDEaHrf 650 (742)
.+++..|++-.|+.
T Consensus 372 p~vdV~Vlgaeh~v 385 (441)
T COG4098 372 PNVDVFVLGAEHRV 385 (441)
T ss_pred ccceEEEecCCccc
Confidence 99999999998885
No 299
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=93.19 E-value=0.54 Score=50.85 Aligned_cols=20 Identities=40% Similarity=0.418 Sum_probs=14.7
Q ss_pred ceEEEccCCChHHHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLAC 553 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ai 553 (742)
-.++.||+|+|||..+...+
T Consensus 45 ~lll~G~~G~GKT~la~~l~ 64 (316)
T PHA02544 45 MLLHSPSPGTGKTTVAKALC 64 (316)
T ss_pred EEEeeCcCCCCHHHHHHHHH
Confidence 34558999999998765443
No 300
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=93.14 E-value=0.47 Score=48.10 Aligned_cols=36 Identities=17% Similarity=0.340 Sum_probs=31.2
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEccc
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPT 569 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT 569 (742)
-.++.|++|||||..++..+......|.+++++.-.
T Consensus 14 i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e 49 (209)
T TIGR02237 14 ITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTE 49 (209)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECC
Confidence 579999999999999998888887888888888764
No 301
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=93.13 E-value=0.3 Score=58.18 Aligned_cols=78 Identities=10% Similarity=0.117 Sum_probs=67.2
Q ss_pred cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCC
Q 045263 559 SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSA 638 (742)
Q Consensus 559 ~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~ 638 (742)
.+.+++|.++|+.-++++++.|.+. + +.+..+||+++..+|..+.+.+.+|+.+|+|+|.. +...+.+.+
T Consensus 235 ~~~~~IIFc~tr~~~e~la~~L~~~----g-----~~v~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~a-~~~GIDip~ 304 (607)
T PRK11057 235 RGKSGIIYCNSRAKVEDTAARLQSR----G-----ISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVA-FGMGINKPN 304 (607)
T ss_pred CCCCEEEEECcHHHHHHHHHHHHhC----C-----CCEEEecCCCCHHHHHHHHHHHHCCCCCEEEEech-hhccCCCCC
Confidence 4678999999999999988888763 3 68999999999999999999999999999999986 455788889
Q ss_pred ccEEEEeC
Q 045263 639 LRLAIVDE 646 (742)
Q Consensus 639 l~LVIIDE 646 (742)
+.+||.-.
T Consensus 305 V~~VI~~d 312 (607)
T PRK11057 305 VRFVVHFD 312 (607)
T ss_pred cCEEEEeC
Confidence 99888533
No 302
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=93.11 E-value=0.64 Score=54.91 Aligned_cols=42 Identities=17% Similarity=0.135 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
.|..++..+.....++. +...|+.||.|+|||.++...+...
T Consensus 20 Gqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L 62 (563)
T PRK06647 20 GQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCL 62 (563)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence 35555555555444433 2347999999999998876655443
No 303
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=93.08 E-value=0.25 Score=55.20 Aligned_cols=54 Identities=20% Similarity=0.279 Sum_probs=34.5
Q ss_pred CHHHHHHHHHHHHh-cCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC--CeEEEE
Q 045263 513 TSSQLSAISEIIWD-LKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG--YQAAFM 566 (742)
Q Consensus 513 t~~Q~~aI~~I~~~-~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g--~qvlil 566 (742)
+..|.+.+...+.+ .....+.+.+|.|++|+|||.+.-..+-..-..+ ..++++
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~i 91 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYI 91 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEE
Confidence 45565666665543 3344556899999999999998766655443332 445554
No 304
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=93.07 E-value=0.54 Score=53.94 Aligned_cols=42 Identities=17% Similarity=0.286 Sum_probs=28.7
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQH 576 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~ 576 (742)
.+++.|++|+|||-.+.......... +.+++++ +...+..+.
T Consensus 150 ~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi-~~~~~~~~~ 193 (450)
T PRK00149 150 PLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYV-TSEKFTNDF 193 (450)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEE-EHHHHHHHH
Confidence 47899999999998876666655555 5566665 444454443
No 305
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=93.02 E-value=0.39 Score=52.92 Aligned_cols=43 Identities=23% Similarity=0.212 Sum_probs=32.0
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
+.|+|+.....+.+. ...+...|++||.|.|||..+...+...
T Consensus 4 ~yPWl~~~~~~~~~~--~r~~ha~Lf~G~~G~GK~~~A~~~A~~l 46 (328)
T PRK05707 4 IYPWQQSLWQQLAGR--GRHPHAYLLHGPAGIGKRALAERLAAAL 46 (328)
T ss_pred CCCCcHHHHHHHHHC--CCcceeeeeECCCCCCHHHHHHHHHHHH
Confidence 468888888888874 2234468999999999998876555443
No 306
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=93.00 E-value=1.4 Score=49.60 Aligned_cols=122 Identities=20% Similarity=0.154 Sum_probs=65.9
Q ss_pred CceEEEccCCChHHHHHHHHHHHHH--hcCCeEEEEc-cc-HHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVI--GSGYQAAFMV-PT-ELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQS 608 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l--~~g~qvlila-PT-~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er 608 (742)
..+.|.||||.|||.+.+-.+.... ...+++.++. -| ++=|..+ ++-|..-++ +.+.
T Consensus 204 ~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQ---Lk~Ya~im~-----vp~~----------- 264 (407)
T COG1419 204 RVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQ---LKTYADIMG-----VPLE----------- 264 (407)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHH---HHHHHHHhC-----CceE-----------
Confidence 4789999999999998765555444 3334444443 22 2222222 222222222 2222
Q ss_pred HHHHHHhhcCCccEEEechHHHhh-ccccCCccEEEEeCCccccccc--hhhhhhhhhccccccccccccCCCCCCCCCC
Q 045263 609 RMIRKDLQTGDITLVIGTHSLIAE-KVEFSALRLAIVDEQQRFGVVQ--RGRFNSKLYYTSMSSGMAMVNSDGSPKDDQH 685 (742)
Q Consensus 609 ~~i~~~l~~G~~~IVVgT~~~l~~-~v~~~~l~LVIIDEaHrfG~~q--r~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~ 685 (742)
++-+|.-+.+ -..+.+.++|.||=+-|--+.. ...+.+-. . .. +
T Consensus 265 --------------vv~~~~el~~ai~~l~~~d~ILVDTaGrs~~D~~~i~el~~~~--~----------------~~-~ 311 (407)
T COG1419 265 --------------VVYSPKELAEAIEALRDCDVILVDTAGRSQYDKEKIEELKELI--D----------------VS-H 311 (407)
T ss_pred --------------EecCHHHHHHHHHHhhcCCEEEEeCCCCCccCHHHHHHHHHHH--h----------------cc-c
Confidence 3333333322 3356778999999888743222 23332211 0 01 1
Q ss_pred CCCcEEEEcCCCCHHHHHHHH
Q 045263 686 MAPHVLAMSATPIPRTLALAL 706 (742)
Q Consensus 686 ~~p~vL~mSATPiprtla~~l 706 (742)
..-..|.+|||-.-+.+..+.
T Consensus 312 ~i~~~Lvlsat~K~~dlkei~ 332 (407)
T COG1419 312 SIEVYLVLSATTKYEDLKEII 332 (407)
T ss_pred cceEEEEEecCcchHHHHHHH
Confidence 233478889998888888876
No 307
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.98 E-value=0.75 Score=54.49 Aligned_cols=41 Identities=24% Similarity=0.248 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHhcCCCCCCc-eEEEccCCChHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPVPMN-RLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~~~~-~LL~a~TGSGKT~val~ail~ 555 (742)
.|..++..+...+.+++..+ .|++||.|+|||.++...+..
T Consensus 17 Gq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~ 58 (584)
T PRK14952 17 GQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARS 58 (584)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 36666666655554544334 589999999999988665543
No 308
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=92.97 E-value=0.5 Score=51.90 Aligned_cols=56 Identities=23% Similarity=0.189 Sum_probs=42.4
Q ss_pred HHHHHHHH--hcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHH
Q 045263 518 SAISEIIW--DLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQ 575 (742)
Q Consensus 518 ~aI~~I~~--~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q 575 (742)
..++.++. ++.++ .-.+|.||+|||||..++..+......|..++|+-....+..+
T Consensus 41 ~~LD~~Lg~GGlp~G--~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~ 98 (321)
T TIGR02012 41 LSLDLALGVGGLPRG--RIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPV 98 (321)
T ss_pred HHHHHHhcCCCCcCC--eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHH
Confidence 35666664 34333 3678999999999999999999888889999988776655554
No 309
>PRK13531 regulatory ATPase RavA; Provisional
Probab=92.89 E-value=0.31 Score=56.14 Aligned_cols=38 Identities=18% Similarity=0.129 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACM 554 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail 554 (742)
.|.++|+.+...+..+. ++|+.||+|+|||.++-....
T Consensus 24 gre~vI~lll~aalag~--hVLL~GpPGTGKT~LAraLa~ 61 (498)
T PRK13531 24 ERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKF 61 (498)
T ss_pred CcHHHHHHHHHHHccCC--CEEEECCCChhHHHHHHHHHH
Confidence 35566777766655544 899999999999998754444
No 310
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.87 E-value=0.61 Score=55.53 Aligned_cols=41 Identities=22% Similarity=0.302 Sum_probs=25.1
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
|..++..+.+.+..++ +...|++|+.|+|||.++...+-..
T Consensus 21 Qe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaL 62 (700)
T PRK12323 21 QEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSL 62 (700)
T ss_pred cHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence 3444444433333332 2346999999999999876665544
No 311
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=92.87 E-value=0.27 Score=54.31 Aligned_cols=62 Identities=23% Similarity=0.164 Sum_probs=43.5
Q ss_pred hCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-C--CeEEEEcccHHH
Q 045263 507 ALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-G--YQAAFMVPTELL 572 (742)
Q Consensus 507 ~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g--~qvlilaPT~~L 572 (742)
.++.. .+-.|.-|++.++.+ .-.-+.+.|..|||||+.|+.+.++.... + .++++.-|+..+
T Consensus 223 vwGi~prn~eQ~~ALdlLld~----dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpv 288 (436)
T COG1875 223 VWGIRPRNAEQRVALDLLLDD----DIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPV 288 (436)
T ss_pred hhccCcccHHHHHHHHHhcCC----CCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCc
Confidence 34555 455777788777753 22357899999999999999887776543 3 466666677654
No 312
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=92.80 E-value=0.66 Score=55.58 Aligned_cols=76 Identities=18% Similarity=0.164 Sum_probs=64.2
Q ss_pred CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc
Q 045263 560 GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL 639 (742)
Q Consensus 560 g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l 639 (742)
..++++.++|+.-+.++++.|.+. + +.+..+||+++..+|..+++.+++|+++|+|+|. .+...+.+.++
T Consensus 245 ~~~~IVF~~tk~~a~~l~~~L~~~----g-----~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVATd-v~arGIDip~V 314 (629)
T PRK11634 245 FDAAIIFVRTKNATLEVAEALERN----G-----YNSAALNGDMNQALREQTLERLKDGRLDILIATD-VAARGLDVERI 314 (629)
T ss_pred CCCEEEEeccHHHHHHHHHHHHhC----C-----CCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEcc-hHhcCCCcccC
Confidence 468999999999999888877653 3 6788999999999999999999999999999996 44457778888
Q ss_pred cEEEEe
Q 045263 640 RLAIVD 645 (742)
Q Consensus 640 ~LVIID 645 (742)
.+||.-
T Consensus 315 ~~VI~~ 320 (629)
T PRK11634 315 SLVVNY 320 (629)
T ss_pred CEEEEe
Confidence 888753
No 313
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=92.79 E-value=0.7 Score=53.64 Aligned_cols=81 Identities=15% Similarity=0.145 Sum_probs=59.9
Q ss_pred HhCCCCCCHHHHHHHHHHHHhcCCCCCC----ceEEEccCCChHHHHHHHHHHHHH----hcCCeEEEEcccHHHHHHHH
Q 045263 506 RALPYSLTSSQLSAISEIIWDLKQPVPM----NRLLQGDVGCGKTVVAFLACMEVI----GSGYQAAFMVPTELLATQHY 577 (742)
Q Consensus 506 ~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~----~~LL~a~TGSGKT~val~ail~~l----~~g~qvlilaPT~~La~Q~~ 577 (742)
...||.+-|+|+-.+-.++--..+.... -.+|..|-+-|||..+...+...+ ..|.+..+++|+.+-+.+.+
T Consensus 56 ~~~p~~l~PwQkFiia~l~G~~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~~l~~~~~~~~~~i~A~s~~qa~~~F 135 (546)
T COG4626 56 PGFPESLEPWQKFIVAALFGFYDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPSVEQAANSF 135 (546)
T ss_pred CCCccccchHHHHHHHHHhceeecCCCceEEEEEEEEEecCCchHHHHHHHHHHHHHhhhhcCCcEEEEeccHHHHHHhh
Confidence 4678999999999999998433333222 248889999999988653333222 45889999999999999888
Q ss_pred HHHHHhhhh
Q 045263 578 EHLLKLLDN 586 (742)
Q Consensus 578 ~~l~~~l~~ 586 (742)
..++..+..
T Consensus 136 ~~ar~mv~~ 144 (546)
T COG4626 136 NPARDMVKR 144 (546)
T ss_pred HHHHHHHHh
Confidence 888776643
No 314
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=92.75 E-value=0.39 Score=52.80 Aligned_cols=57 Identities=19% Similarity=0.118 Sum_probs=44.0
Q ss_pred HHHHHHH--hcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHH
Q 045263 519 AISEIIW--DLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHY 577 (742)
Q Consensus 519 aI~~I~~--~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~ 577 (742)
.++.++. ++..+ .-..|.||+|||||..++..+......|..++|+-....+-.+..
T Consensus 42 ~LD~~Lg~GGlp~G--~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a 100 (325)
T cd00983 42 SLDIALGIGGYPKG--RIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYA 100 (325)
T ss_pred HHHHHhcCCCccCC--eEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHH
Confidence 5666665 33333 257899999999999999999988888999999988777765433
No 315
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=92.66 E-value=0.51 Score=50.77 Aligned_cols=35 Identities=23% Similarity=0.225 Sum_probs=26.5
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhc-C-CeEEEEc
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGS-G-YQAAFMV 567 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~-g-~qvlila 567 (742)
..+++.||||+|||.+....+...... | .++.++.
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~ 231 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALIT 231 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEE
Confidence 467899999999999887776666554 4 6666664
No 316
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=92.66 E-value=0.066 Score=63.04 Aligned_cols=126 Identities=17% Similarity=0.143 Sum_probs=79.4
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEcccHHHHHHHH-HHHHHhhhhcc
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMVPTELLATQHY-EHLLKLLDNME 588 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlilaPT~~La~Q~~-~~l~~~l~~~~ 588 (742)
+.+|+|.+.++.+... .-..+.++.++-+|||.+.+..+...+.. ...++++.||..+|..+. ++|..++...+
T Consensus 16 ~~~Py~~eimd~~~~~----~v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~~P~~~l~v~Pt~~~a~~~~~~rl~Pmi~~sp 91 (557)
T PF05876_consen 16 DRTPYLREIMDALSDP----SVREVVVMKSAQVGKTELLLNWIGYSIDQDPGPMLYVQPTDDAAKDFSKERLDPMIRASP 91 (557)
T ss_pred CCChhHHHHHHhcCCc----CccEEEEEEcchhhHhHHHHhhceEEEEeCCCCEEEEEEcHHHHHHHHHHHHHHHHHhCH
Confidence 6899998777665542 23578999999999999877776665554 368999999999999988 56777765433
Q ss_pred CCCCCcEEEEEeCCCChHHHHHHH-HHhhcCCccEEEec--hHHHhhccccCCccEEEEeCCccc
Q 045263 589 EDKHKPKIALLTGSTPVKQSRMIR-KDLQTGDITLVIGT--HSLIAEKVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 589 ~~~~~i~V~ll~G~~~~~er~~i~-~~l~~G~~~IVVgT--~~~l~~~v~~~~l~LVIIDEaHrf 650 (742)
. ++ ..+...........+. ..+. |-.-.++|. ++.+ .-..++++++||.+++
T Consensus 92 ~----l~-~~~~~~~~~~~~~t~~~k~f~-gg~l~~~ga~S~~~l----~s~~~r~~~~DEvD~~ 146 (557)
T PF05876_consen 92 V----LR-RKLSPSKSRDSGNTILYKRFP-GGFLYLVGANSPSNL----RSRPARYLLLDEVDRY 146 (557)
T ss_pred H----HH-HHhCchhhcccCCchhheecC-CCEEEEEeCCCCccc----ccCCcCEEEEechhhc
Confidence 1 11 1222211111111111 1222 323334443 3333 3457889999999998
No 317
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=92.61 E-value=0.56 Score=54.82 Aligned_cols=74 Identities=20% Similarity=0.280 Sum_probs=62.3
Q ss_pred CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc
Q 045263 560 GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL 639 (742)
Q Consensus 560 g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l 639 (742)
..+++|.+.|+..++.++..+... | +++..+||++++.+|...++.+.+|+.+|+|+|--. ...+++.++
T Consensus 273 ~~~~IVF~~tk~~~~~l~~~l~~~----g-----~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaTDva-aRGiDi~~v 342 (513)
T COG0513 273 EGRVIVFVRTKRLVEELAESLRKR----G-----FKVAALHGDLPQEERDRALEKFKDGELRVLVATDVA-ARGLDIPDV 342 (513)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHC----C-----CeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEechh-hccCCcccc
Confidence 347999999999999977666653 4 789999999999999999999999999999999654 346777777
Q ss_pred cEEE
Q 045263 640 RLAI 643 (742)
Q Consensus 640 ~LVI 643 (742)
.+||
T Consensus 343 ~~Vi 346 (513)
T COG0513 343 SHVI 346 (513)
T ss_pred ceeE
Confidence 7776
No 318
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=92.59 E-value=0.66 Score=55.67 Aligned_cols=41 Identities=24% Similarity=0.283 Sum_probs=26.0
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
|..++..+...+..++ +...|++|+.|+|||.++...+...
T Consensus 21 Qe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~L 62 (709)
T PRK08691 21 QEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSL 62 (709)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence 4444444444333333 3467999999999999886655543
No 319
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=92.57 E-value=0.58 Score=51.63 Aligned_cols=44 Identities=23% Similarity=0.386 Sum_probs=29.2
Q ss_pred CCHHHHHHHHHHHHhc-CCCCCCceEEEccCCChHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDL-KQPVPMNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~-~~~~~~~~LL~a~TGSGKT~val~ail~ 555 (742)
=+..|.+.+...+... ....+.+.+|.||+|+|||.+.-..+..
T Consensus 19 gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~ 63 (365)
T TIGR02928 19 HRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKE 63 (365)
T ss_pred CcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence 3556666666655542 2344568999999999999876555443
No 320
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=92.51 E-value=0.18 Score=59.31 Aligned_cols=50 Identities=18% Similarity=0.294 Sum_probs=43.1
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS 559 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~ 559 (742)
+||+|+.+|.+-+.++++-+..+. --++..|||+|||+..+-+++..+..
T Consensus 12 fPy~PYdIQ~~lM~elyrvLe~Gk--IgIfESPTGTGKSLSLiCaaltWL~~ 61 (821)
T KOG1133|consen 12 FPYTPYDIQEDLMRELYRVLEEGK--IGIFESPTGTGKSLSLICAALTWLRD 61 (821)
T ss_pred CCCCchhHHHHHHHHHHHHHhcCC--eeeeeCCCCCCchHHHHHHHHHHHHH
Confidence 789999999999999998887765 67999999999999988777766643
No 321
>PRK11823 DNA repair protein RadA; Provisional
Probab=92.50 E-value=0.45 Score=54.59 Aligned_cols=49 Identities=20% Similarity=0.251 Sum_probs=38.1
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
-.+|.|++|+|||..++..+......|.+++|+.-. +-..|+..+..++
T Consensus 82 ~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~E-es~~qi~~ra~rl 130 (446)
T PRK11823 82 VVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGE-ESASQIKLRAERL 130 (446)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcc-ccHHHHHHHHHHc
Confidence 679999999999999888877777778899998754 4556776665543
No 322
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.48 E-value=1.2 Score=53.29 Aligned_cols=42 Identities=21% Similarity=0.170 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
.|..+...+...+..++ +...|+.||.|+|||.++...+-..
T Consensus 20 Gq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L 62 (620)
T PRK14948 20 GQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSL 62 (620)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence 45555555544433322 2367999999999999876665544
No 323
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=92.43 E-value=0.3 Score=51.84 Aligned_cols=53 Identities=21% Similarity=0.215 Sum_probs=40.1
Q ss_pred CCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 510 YSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 510 f~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
|..|+..++.++.+...+..+. +++|.|++|+|||.++...... .|.+++.+.
T Consensus 1 ~~~t~~~~~l~~~~l~~l~~g~--~vLL~G~~GtGKT~lA~~la~~---lg~~~~~i~ 53 (262)
T TIGR02640 1 FIETDAVKRVTSRALRYLKSGY--PVHLRGPAGTGKTTLAMHVARK---RDRPVMLIN 53 (262)
T ss_pred CCCCHHHHHHHHHHHHHHhcCC--eEEEEcCCCCCHHHHHHHHHHH---hCCCEEEEe
Confidence 4578888888888888776654 7899999999999988655432 266666663
No 324
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=92.36 E-value=0.33 Score=53.44 Aligned_cols=41 Identities=24% Similarity=0.258 Sum_probs=25.3
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLAT 574 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~ 574 (742)
..++.||+|+|||..+-+.+...-...++.+=+.-|.+-.+
T Consensus 164 SmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~ 204 (554)
T KOG2028|consen 164 SMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTN 204 (554)
T ss_pred ceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchH
Confidence 57999999999998776555433222344444444444333
No 325
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=92.30 E-value=0.61 Score=55.42 Aligned_cols=42 Identities=19% Similarity=0.208 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
.|..++..+...+..++ +...|++||.|+|||.++...+-..
T Consensus 28 Gq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L 70 (598)
T PRK09111 28 GQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARAL 70 (598)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence 35555555555444443 3458999999999999886665544
No 326
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.18 E-value=0.57 Score=55.87 Aligned_cols=41 Identities=22% Similarity=0.158 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~ 555 (742)
.|..++..+...+..++ +...|++||.|+|||.+|...+-.
T Consensus 20 GQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~ 61 (620)
T PRK14954 20 AQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKA 61 (620)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHH
Confidence 46666666655554433 234789999999999988665543
No 327
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=92.14 E-value=1.6 Score=58.57 Aligned_cols=139 Identities=22% Similarity=0.198 Sum_probs=83.6
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHH---HHHHHHHh-cCCeEEEEcccHHHHHHHH------
Q 045263 508 LPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAF---LACMEVIG-SGYQAAFMVPTELLATQHY------ 577 (742)
Q Consensus 508 lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val---~ail~~l~-~g~qvlilaPT~~La~Q~~------ 577 (742)
..+.|++.|++|+..++..- + .-.+|+|..|+|||.+.. .++...+. .|++++.++||-.-+.++.
T Consensus 1016 ~~~~Lt~~Q~~Ai~~il~~~--~--~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~~~g~~a 1091 (1960)
T TIGR02760 1016 LLERLTHGQKQAIHLIISTK--D--RFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELKSAGVQA 1091 (1960)
T ss_pred ccCCCCHHHHHHHHHHHhCC--C--cEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHhcCCch
Confidence 35789999999999998642 1 256899999999998762 33444444 4789999999987776653
Q ss_pred HHHHHhhhhcc-----CCCCCcEEEEEeCC--CChHHHHHHHHHhh-cCCccEEEechHHHhh---cc------ccCCcc
Q 045263 578 EHLLKLLDNME-----EDKHKPKIALLTGS--TPVKQSRMIRKDLQ-TGDITLVIGTHSLIAE---KV------EFSALR 640 (742)
Q Consensus 578 ~~l~~~l~~~~-----~~~~~i~V~ll~G~--~~~~er~~i~~~l~-~G~~~IVVgT~~~l~~---~v------~~~~l~ 640 (742)
..+.+++.... .......+.++.-. ........++..+. .|.--|+||=+..+.. .. ....++
T Consensus 1092 ~Ti~s~l~~~~~~~~~~~~~~~~v~ivDEasMv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~aG~~f~~~~~~~~~~ 1171 (1960)
T TIGR02760 1092 QTLDSFLTDISLYRNSGGDFRNTLFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLAAGKPFELAITFDIID 1171 (1960)
T ss_pred HhHHHHhcCcccccccCCCCcccEEEEEccccccHHHHHHHHHhccCCCCEEEEeCChhhcCCCCCCcCHHHHHhcCCCC
Confidence 23344442110 00111234444332 23333344444433 3434467887776632 11 234578
Q ss_pred EEEEeCCccc
Q 045263 641 LAIVDEQQRF 650 (742)
Q Consensus 641 LVIIDEaHrf 650 (742)
.+.++|..|=
T Consensus 1172 ~~~L~~I~RQ 1181 (1960)
T TIGR02760 1172 TAIMKEIVRQ 1181 (1960)
T ss_pred eEEeeeEecC
Confidence 8999999883
No 328
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.11 E-value=1.2 Score=52.92 Aligned_cols=41 Identities=22% Similarity=0.229 Sum_probs=26.0
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
|..++..+...+..+. +...|++||.|+|||.++...+-..
T Consensus 21 q~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l 62 (585)
T PRK14950 21 QEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAV 62 (585)
T ss_pred CHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence 5555555544433332 2346999999999999876665443
No 329
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.10 E-value=1.3 Score=51.56 Aligned_cols=41 Identities=20% Similarity=0.173 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHhcCCCCCCc-eEEEccCCChHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPVPMN-RLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~~~~-~LL~a~TGSGKT~val~ail~ 555 (742)
.|..++..+......+...+ .|+.||.|+|||.++...+..
T Consensus 20 Gq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~ 61 (486)
T PRK14953 20 GQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKV 61 (486)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 56666666666555544334 578999999999887665543
No 330
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=92.08 E-value=0.44 Score=57.36 Aligned_cols=64 Identities=22% Similarity=0.278 Sum_probs=40.9
Q ss_pred ccCchHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 494 MEGWSSLTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 494 ~~~~~~l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
+.+.++..+++.+-.-|-=+|.| +.++....|.-+||+||+|+|||+.|-..+- +.|...+-+.
T Consensus 313 VAG~deAK~El~E~V~fLKNP~~-------Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAG---EAgVPF~svS 376 (774)
T KOG0731|consen 313 VAGVDEAKEELMEFVKFLKNPEQ-------YQELGAKIPKGVLLVGPPGTGKTLLAKAIAG---EAGVPFFSVS 376 (774)
T ss_pred ccCcHHHHHHHHHHHHHhcCHHH-------HHHcCCcCcCceEEECCCCCcHHHHHHHHhc---ccCCceeeec
Confidence 33455555555555555555555 4556667788999999999999987654443 3355555444
No 331
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=92.04 E-value=0.7 Score=45.51 Aligned_cols=43 Identities=23% Similarity=0.257 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHHHh
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEVIG 558 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~l~ 558 (742)
|+++++.+......++ +...|++||.|+||+..+...+...+-
T Consensus 2 q~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~ 45 (162)
T PF13177_consen 2 QEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLC 45 (162)
T ss_dssp -HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-
T ss_pred cHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcC
Confidence 6667766665554433 345799999999999887666655443
No 332
>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=92.03 E-value=0.56 Score=55.63 Aligned_cols=76 Identities=12% Similarity=0.120 Sum_probs=64.9
Q ss_pred CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc
Q 045263 560 GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL 639 (742)
Q Consensus 560 g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l 639 (742)
+.+++|.++|+..++++++.+... + +.+..+||+++..+|..+.+.+.+|+++|+|+|.. +...+++.++
T Consensus 224 ~~~~IIf~~sr~~~e~la~~L~~~----g-----~~~~~~H~~l~~~~R~~i~~~F~~g~~~vlVaT~a-~~~GID~p~v 293 (591)
T TIGR01389 224 GQSGIIYASSRKKVEELAERLESQ----G-----ISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNA-FGMGIDKPNV 293 (591)
T ss_pred CCCEEEEECcHHHHHHHHHHHHhC----C-----CCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEech-hhccCcCCCC
Confidence 678999999999999998887652 3 67899999999999999999999999999999975 3447778889
Q ss_pred cEEEEe
Q 045263 640 RLAIVD 645 (742)
Q Consensus 640 ~LVIID 645 (742)
++||.-
T Consensus 294 ~~VI~~ 299 (591)
T TIGR01389 294 RFVIHY 299 (591)
T ss_pred CEEEEc
Confidence 988853
No 333
>PRK08506 replicative DNA helicase; Provisional
Probab=92.03 E-value=0.58 Score=54.10 Aligned_cols=122 Identities=16% Similarity=0.208 Sum_probs=74.1
Q ss_pred HHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEE
Q 045263 518 SAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIA 597 (742)
Q Consensus 518 ~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ 597 (742)
..++.+..++..+. -++|.|.+|.|||..++..+..++..|..++|+.. +.=..|+..++........ .. .
T Consensus 180 ~~LD~~~~G~~~G~--LivIaarpg~GKT~fal~ia~~~~~~g~~V~~fSl-EMs~~ql~~Rlla~~s~v~-----~~-~ 250 (472)
T PRK08506 180 VELNKMTKGFNKGD--LIIIAARPSMGKTTLCLNMALKALNQDKGVAFFSL-EMPAEQLMLRMLSAKTSIP-----LQ-N 250 (472)
T ss_pred HHHHhhcCCCCCCc--eEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEeC-cCCHHHHHHHHHHHhcCCC-----HH-H
Confidence 35666666665554 67899999999999999888888777888877743 3556777777655433221 10 1
Q ss_pred EEeCCCChHHHHHHH---HHhhcCCccEEEe-----chHHHhh---cc--ccCCccEEEEeCCccc
Q 045263 598 LLTGSTPVKQSRMIR---KDLQTGDITLVIG-----THSLIAE---KV--EFSALRLAIVDEQQRF 650 (742)
Q Consensus 598 ll~G~~~~~er~~i~---~~l~~G~~~IVVg-----T~~~l~~---~v--~~~~l~LVIIDEaHrf 650 (742)
+..|..+..++..+. ..+.+. .+.|- |...|.. .+ ...++++||||=.+.+
T Consensus 251 i~~~~l~~~e~~~~~~a~~~l~~~--~l~I~d~~~~ti~~I~~~~r~l~~~~~~~~lvvIDyLql~ 314 (472)
T PRK08506 251 LRTGDLDDDEWERLSDACDELSKK--KLFVYDSGYVNIHQVRAQLRKLKSQHPEIGLAVIDYLQLM 314 (472)
T ss_pred HhcCCCCHHHHHHHHHHHHHHHcC--CeEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEcChhhc
Confidence 234666665554332 223332 34443 2222321 11 1346899999998876
No 334
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=91.99 E-value=0.3 Score=62.80 Aligned_cols=67 Identities=25% Similarity=0.244 Sum_probs=56.7
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCC---eEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGY---QAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~---qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
+|+.|++||.. . ..+++|.|..|||||.+...-++..+..|. ++++++=|+.-|..+.+++.+.+..
T Consensus 2 ~t~~Q~~ai~~------~--~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~~ 71 (1232)
T TIGR02785 2 WTDEQWQAIYT------R--GQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQK 71 (1232)
T ss_pred CCHHHHHHHhC------C--CCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHHH
Confidence 68999999963 1 238899999999999999888888777663 5999999999999999999887754
No 335
>PRK01172 ski2-like helicase; Provisional
Probab=91.99 E-value=0.89 Score=54.84 Aligned_cols=94 Identities=22% Similarity=0.320 Sum_probs=69.1
Q ss_pred HHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCC-----C-----------CCcEEEEEeCCCChHHHHHHHHHhhcC
Q 045263 555 EVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEED-----K-----------HKPKIALLTGSTPVKQSRMIRKDLQTG 618 (742)
Q Consensus 555 ~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~-----~-----------~~i~V~ll~G~~~~~er~~i~~~l~~G 618 (742)
.....+.++++.+||+.-++.+++.+.+.+...... . ....|+.+||+++..+|..+.+.+++|
T Consensus 231 ~~~~~~~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f~~g 310 (674)
T PRK01172 231 ETVNDGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRNR 310 (674)
T ss_pred HHHhCCCcEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHHHcC
Confidence 335668999999999999998888887654321100 0 002478899999999999999999999
Q ss_pred CccEEEechHHHhhccccCCccEEEEeCCccc
Q 045263 619 DITLVIGTHSLIAEKVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 619 ~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrf 650 (742)
...|+|+|...- ..+.+.. ..|||+...++
T Consensus 311 ~i~VLvaT~~la-~Gvnipa-~~VII~~~~~~ 340 (674)
T PRK01172 311 YIKVIVATPTLA-AGVNLPA-RLVIVRDITRY 340 (674)
T ss_pred CCeEEEecchhh-ccCCCcc-eEEEEcCceEe
Confidence 999999996644 3555555 46777766555
No 336
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=91.95 E-value=0.5 Score=52.99 Aligned_cols=48 Identities=19% Similarity=0.216 Sum_probs=36.9
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~ 582 (742)
-.+|.|++|+|||..++..+......|.+++|+.-.+ -..|+..+..+
T Consensus 84 lvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EE-s~~qi~~Ra~r 131 (372)
T cd01121 84 VILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEE-SPEQIKLRADR 131 (372)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCc-CHHHHHHHHHH
Confidence 5799999999999998888777777778898887553 34666555544
No 337
>PRK09354 recA recombinase A; Provisional
Probab=91.92 E-value=0.79 Score=50.87 Aligned_cols=55 Identities=25% Similarity=0.216 Sum_probs=42.7
Q ss_pred HHHHHHH--hcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHH
Q 045263 519 AISEIIW--DLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQ 575 (742)
Q Consensus 519 aI~~I~~--~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q 575 (742)
.++.++. ++..+ .-..|.||+|||||..++..+......|..++|+-....+-..
T Consensus 47 ~LD~~LG~GGip~G--~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~ 103 (349)
T PRK09354 47 ALDIALGIGGLPRG--RIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPV 103 (349)
T ss_pred HHHHHhcCCCCcCC--eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHH
Confidence 4566655 23222 3568999999999999999999988889999999887777654
No 338
>PF10391 DNA_pol_lambd_f: Fingers domain of DNA polymerase lambda; InterPro: IPR018944 DNA polymerases catalyse the addition of dNMPs onto the 3-prime ends of DNA chains. There is a general polymerase fold consisting of three subdomains that have been likened to the fingers, palm, and thumb of a right hand. This entry represents the central three-helical region of DNA polymerase lambda referred to as the F and G helices of the fingers domain. Contacts with DNA involve this conserved helix-hairpin-helix motif in the fingers region which interacts with the primer strand. This motif is common to several DNA binding proteins and confers a sequence-independent interaction with the DNA backbone []. ; GO: 0016779 nucleotidyltransferase activity; PDB: 1KDH_A 1KEJ_A 1JMS_A 2IHM_A 3OGU_A 1MQ2_A 2P66_A 7ICI_A 1ZQN_A 1ZQK_A ....
Probab=91.92 E-value=0.1 Score=41.76 Aligned_cols=26 Identities=19% Similarity=0.202 Sum_probs=19.8
Q ss_pred CcCCCCCHHHHHHHHhCCCCCHhHHh
Q 045263 212 SCVPGLSKRLYHQLENCGFYTLRKLL 237 (742)
Q Consensus 212 ~~LkGVG~k~~~~L~klGI~Tv~DLL 237 (742)
..+-||||.+|+++-..|+.|++||-
T Consensus 5 ~~I~GVG~~tA~~w~~~G~rtl~Dl~ 30 (52)
T PF10391_consen 5 TGIWGVGPKTARKWYAKGIRTLEDLR 30 (52)
T ss_dssp HTSTT--HHHHHHHHHTT--SHHHHH
T ss_pred hhcccccHHHHHHHHHhCCCCHHHHh
Confidence 35789999999999999999999993
No 339
>PRK12377 putative replication protein; Provisional
Probab=91.91 E-value=0.5 Score=50.00 Aligned_cols=64 Identities=19% Similarity=0.159 Sum_probs=42.2
Q ss_pred CHHHHHHHHHHH---HhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHH
Q 045263 513 TSSQLSAISEII---WDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYE 578 (742)
Q Consensus 513 t~~Q~~aI~~I~---~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~ 578 (742)
++.|+.++..+. +.+.. ...++++.|++|+|||-.+...+..+...|..++++ +...|..++..
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~-~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i-~~~~l~~~l~~ 146 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMT-GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVV-TVPDVMSRLHE 146 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHh-cCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEE-EHHHHHHHHHH
Confidence 456666665443 22222 224789999999999998888877777778777554 44556555443
No 340
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=91.85 E-value=0.7 Score=52.47 Aligned_cols=122 Identities=21% Similarity=0.162 Sum_probs=70.0
Q ss_pred HHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHH-hcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEE
Q 045263 519 AISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVI-GSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIA 597 (742)
Q Consensus 519 aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l-~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ 597 (742)
.++.++.++..+. -.+|.|++|+|||..++..+.... ..|..++|+. .+.-.+|+..++........ . -.
T Consensus 183 ~LD~~~~G~~~g~--liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fS-lEm~~~~l~~Rl~~~~~~v~-----~-~~ 253 (421)
T TIGR03600 183 KLDRLTNGLVKGD--LIVIGARPSMGKTTLALNIAENVALREGKPVLFFS-LEMSAEQLGERLLASKSGIN-----T-GN 253 (421)
T ss_pred hHHHHhcCCCCCc--eEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEE-CCCCHHHHHHHHHHHHcCCC-----H-HH
Confidence 4566666665554 679999999999999888876665 5688888775 33445666665544332221 0 11
Q ss_pred EEeCCCChHHHHHHH---HHhhcCCccEEEe-ch----HHHhhc-----cccCCccEEEEeCCcccc
Q 045263 598 LLTGSTPVKQSRMIR---KDLQTGDITLVIG-TH----SLIAEK-----VEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 598 ll~G~~~~~er~~i~---~~l~~G~~~IVVg-T~----~~l~~~-----v~~~~l~LVIIDEaHrfG 651 (742)
+..|..+..+...+. ..+.. .++.|. ++ ..+... ....++++||||=.|.+.
T Consensus 254 ~~~~~l~~~~~~~~~~~~~~l~~--~~l~i~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDyLql~~ 318 (421)
T TIGR03600 254 IRTGRFNDSDFNRLLNAVDRLSE--KDLYIDDTGGLTVAQIRSIARRIKRKKGGLDLIVVDYIQLMA 318 (421)
T ss_pred HhcCCCCHHHHHHHHHHHHHHhc--CCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEecccccC
Confidence 234555554433322 22322 244443 22 222111 112368999999888764
No 341
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.79 E-value=4.7 Score=47.24 Aligned_cols=35 Identities=20% Similarity=0.151 Sum_probs=24.7
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEc
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMV 567 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~--g~qvlila 567 (742)
..+.+.|++|+|||.++...+...... +.++.++.
T Consensus 351 ~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 351 GVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 467899999999999876665554443 35565553
No 342
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=91.77 E-value=0.71 Score=59.87 Aligned_cols=95 Identities=17% Similarity=0.167 Sum_probs=71.8
Q ss_pred HHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhc------------------cC------CCCCcEEEEEeCCCChHHH
Q 045263 553 CMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNM------------------EE------DKHKPKIALLTGSTPVKQS 608 (742)
Q Consensus 553 il~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~------------------~~------~~~~i~V~ll~G~~~~~er 608 (742)
++..+..+.++||.++|+..|+.++..+++..... +. ......+..+||+.+..+|
T Consensus 237 il~~i~~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR 316 (1490)
T PRK09751 237 ILDEVLRHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQR 316 (1490)
T ss_pred HHHHHhcCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHH
Confidence 44445668899999999999999999988754210 00 0001225678899999999
Q ss_pred HHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCc
Q 045263 609 RMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQ 648 (742)
Q Consensus 609 ~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaH 648 (742)
..+.+.+++|...+||+|..+- -.+++.++++||.-+.-
T Consensus 317 ~~IE~~fK~G~LrvLVATssLE-LGIDIg~VDlVIq~gsP 355 (1490)
T PRK09751 317 AITEQALKSGELRCVVATSSLE-LGIDMGAVDLVIQVATP 355 (1490)
T ss_pred HHHHHHHHhCCceEEEeCcHHH-ccCCcccCCEEEEeCCC
Confidence 9999999999999999997643 37788899999975554
No 343
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=91.76 E-value=0.46 Score=50.10 Aligned_cols=123 Identities=18% Similarity=0.201 Sum_probs=70.4
Q ss_pred HHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEE
Q 045263 519 AISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIA 597 (742)
Q Consensus 519 aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ 597 (742)
.++.++.++..+. -.+|.|.+|.|||..++..+..++.. |..|+|+... .-.++++.++........ . -.
T Consensus 8 ~LD~~lgG~~~g~--L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlE-m~~~~l~~R~la~~s~v~-----~-~~ 78 (259)
T PF03796_consen 8 ALDRLLGGLRPGE--LTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLE-MSEEELAARLLARLSGVP-----Y-NK 78 (259)
T ss_dssp HHHHHHSSB-TT---EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESS-S-HHHHHHHHHHHHHTST-----H-HH
T ss_pred HHHHHhcCCCcCc--EEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCC-CCHHHHHHHHHHHhhcch-----h-hh
Confidence 4566666665543 67999999999999999999988887 5788888754 223444544444433221 0 01
Q ss_pred EEeCCCChHHHHHHH---HHhhcCCccEE-EechH----HHhh-----ccccCCccEEEEeCCccccc
Q 045263 598 LLTGSTPVKQSRMIR---KDLQTGDITLV-IGTHS----LIAE-----KVEFSALRLAIVDEQQRFGV 652 (742)
Q Consensus 598 ll~G~~~~~er~~i~---~~l~~G~~~IV-VgT~~----~l~~-----~v~~~~l~LVIIDEaHrfG~ 652 (742)
+..|..+..+...+. ..+.+. .+. ..++. .+.+ .....++++||||=.|.+..
T Consensus 79 i~~g~l~~~e~~~~~~~~~~l~~~--~l~i~~~~~~~~~~i~~~i~~~~~~~~~~~~v~IDyl~ll~~ 144 (259)
T PF03796_consen 79 IRSGDLSDEEFERLQAAAEKLSDL--PLYIEDTPSLTIDDIESKIRRLKREGKKVDVVFIDYLQLLKS 144 (259)
T ss_dssp HHCCGCHHHHHHHHHHHHHHHHTS--EEEEEESSS-BHHHHHHHHHHHHHHSTTEEEEEEEEGGGSBT
T ss_pred hhccccCHHHHHHHHHHHHHHhhC--cEEEECCCCCCHHHHHHHHHHHHhhccCCCEEEechHHHhcC
Confidence 223445544444332 233333 343 34332 2221 11237889999999998643
No 344
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=91.62 E-value=0.67 Score=38.54 Aligned_cols=54 Identities=19% Similarity=0.370 Sum_probs=46.0
Q ss_pred cEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCc
Q 045263 594 PKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQ 648 (742)
Q Consensus 594 i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaH 648 (742)
..+..++|+++..++..+...+.+|...|+|+|. .+...+.+.++..||+-+..
T Consensus 12 ~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~-~~~~Gi~~~~~~~vi~~~~~ 65 (82)
T smart00490 12 IKVARLHGGLSQEEREEILEKFNNGKIKVLVATD-VAERGLDLPGVDLVIIYDLP 65 (82)
T ss_pred CeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECC-hhhCCcChhcCCEEEEeCCC
Confidence 7899999999999999999999999999999886 55567778888888887764
No 345
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=91.60 E-value=1.3 Score=48.51 Aligned_cols=41 Identities=22% Similarity=0.235 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~ 555 (742)
.|.++++.+......+. +...|++||.|+|||.++...+..
T Consensus 18 g~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~ 59 (355)
T TIGR02397 18 GQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKA 59 (355)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 34555555554443333 335799999999999876554443
No 346
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=91.57 E-value=0.2 Score=55.75 Aligned_cols=142 Identities=23% Similarity=0.219 Sum_probs=76.0
Q ss_pred CCHHHHHHHHHHHHhcCC-----CCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhh
Q 045263 512 LTSSQLSAISEIIWDLKQ-----PVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDN 586 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~-----~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~ 586 (742)
|.|.=..=|+.+-....+ ..-.|+++.||+|+|||+++--.+. .
T Consensus 359 L~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr---~---------------------------- 407 (630)
T KOG0742|consen 359 LHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELAR---H---------------------------- 407 (630)
T ss_pred cCHHHHHHHHHHHHHhcccccccchhhheeeeCCCCCCchHHHHHHHh---h----------------------------
Confidence 677666666665432221 2235899999999999986633222 1
Q ss_pred ccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCcc-EEEEeCCccc---------cccchh
Q 045263 587 MEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALR-LAIVDEQQRF---------GVVQRG 656 (742)
Q Consensus 587 ~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~-LVIIDEaHrf---------G~~qr~ 656 (742)
.| +..++++|+.-..--.+ -|-.-|. ++|...-++=| |+.|||+|.| +-.||.
T Consensus 408 SG-----lDYA~mTGGDVAPlG~q-----------aVTkiH~-lFDWakkS~rGLllFIDEADAFLceRnktymSEaqRs 470 (630)
T KOG0742|consen 408 SG-----LDYAIMTGGDVAPLGAQ-----------AVTKIHK-LFDWAKKSRRGLLLFIDEADAFLCERNKTYMSEAQRS 470 (630)
T ss_pred cC-----CceehhcCCCccccchH-----------HHHHHHH-HHHHHhhcccceEEEehhhHHHHHHhchhhhcHHHHH
Confidence 12 44555555532210000 0000111 22322223333 5678999986 455677
Q ss_pred hhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeeeeccCC
Q 045263 657 RFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQITDLP 719 (742)
Q Consensus 657 ~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~I~e~P 719 (742)
.|..-+|..+. ....+++.=||--|..+.-+....+|-..--.+|
T Consensus 471 aLNAlLfRTGd------------------qSrdivLvlAtNrpgdlDsAV~DRide~veFpLP 515 (630)
T KOG0742|consen 471 ALNALLFRTGD------------------QSRDIVLVLATNRPGDLDSAVNDRIDEVVEFPLP 515 (630)
T ss_pred HHHHHHHHhcc------------------cccceEEEeccCCccchhHHHHhhhhheeecCCC
Confidence 77766655432 2335666778877777766665544433333333
No 347
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=91.56 E-value=0.43 Score=49.47 Aligned_cols=46 Identities=15% Similarity=0.189 Sum_probs=36.0
Q ss_pred HHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEc
Q 045263 520 ISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMV 567 (742)
Q Consensus 520 I~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlila 567 (742)
++.++.++..+. -.+|.|++|+|||..++..+...+.+ |..++++.
T Consensus 3 LD~~~~Gl~~G~--l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s 49 (242)
T cd00984 3 LDNLTGGLQPGD--LIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFS 49 (242)
T ss_pred hhhhhcCCCCCe--EEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEe
Confidence 345555554443 67999999999999998888888877 88888887
No 348
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.54 E-value=1.2 Score=52.77 Aligned_cols=40 Identities=20% Similarity=0.152 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~ 555 (742)
|..++..+...+..+. +...|+.||.|+|||.++...+..
T Consensus 21 q~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~ 61 (576)
T PRK14965 21 QEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKA 61 (576)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence 4444444444433333 345699999999999987665443
No 349
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=91.54 E-value=1 Score=50.81 Aligned_cols=108 Identities=19% Similarity=0.147 Sum_probs=59.0
Q ss_pred HHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEE
Q 045263 517 LSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKI 596 (742)
Q Consensus 517 ~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V 596 (742)
+++++.|.. -.+....+|+.|+||+||+.+|...-...-.....-.|-+.--++++.....- +| | ..-
T Consensus 88 ~~~~eqik~--~ap~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~~~~e--LF---G-----~~k 155 (403)
T COG1221 88 QELREQIKA--YAPSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQEAE--LF---G-----HEK 155 (403)
T ss_pred HHHHHHHHh--hCCCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhCcCHHHHH--Hh---c-----ccc
Confidence 345555555 23445689999999999999875544222111112233333333333322211 44 3 344
Q ss_pred EEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccccccchhhhhh
Q 045263 597 ALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNS 660 (742)
Q Consensus 597 ~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~ 660 (742)
+.++|....+ .| . +...+=|.+.+||.|++......++..
T Consensus 156 GaftGa~~~k----------~G----------l----fe~A~GGtLfLDEI~~LP~~~Q~kLl~ 195 (403)
T COG1221 156 GAFTGAQGGK----------AG----------L----FEQANGGTLFLDEIHRLPPEGQEKLLR 195 (403)
T ss_pred ceeecccCCc----------Cc----------h----heecCCCEEehhhhhhCCHhHHHHHHH
Confidence 5677733211 11 1 233466899999999997766665544
No 350
>PRK06835 DNA replication protein DnaC; Validated
Probab=91.50 E-value=0.45 Score=52.47 Aligned_cols=63 Identities=16% Similarity=0.204 Sum_probs=42.2
Q ss_pred CCHHHHHHHHHHH---HhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHH
Q 045263 512 LTSSQLSAISEII---WDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQH 576 (742)
Q Consensus 512 Lt~~Q~~aI~~I~---~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~ 576 (742)
++..++.++..+. +.+... ..++++.|+||+|||..+...+..++..|..|+++. ...|..++
T Consensus 161 ~~~~~~~~~~~~~~f~~~f~~~-~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t-~~~l~~~l 226 (329)
T PRK06835 161 PRKNMEKILEKCKNFIENFDKN-NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT-ADELIEIL 226 (329)
T ss_pred HHHHHHHHHHHHHHHHHHHhcc-CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE-HHHHHHHH
Confidence 4445555555333 333222 268999999999999988887777888888887764 34454444
No 351
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.48 E-value=1.3 Score=51.98 Aligned_cols=41 Identities=24% Similarity=0.268 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHhcCCCCC-CceEEEccCCChHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPVP-MNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~~-~~~LL~a~TGSGKT~val~ail~ 555 (742)
.|..++..+......++. ...|+.||.|+|||.++...+..
T Consensus 20 Gq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~ 61 (527)
T PRK14969 20 GQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKS 61 (527)
T ss_pred CcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 344455444443333332 24589999999999887655543
No 352
>PRK06921 hypothetical protein; Provisional
Probab=91.46 E-value=1.7 Score=46.42 Aligned_cols=46 Identities=20% Similarity=0.125 Sum_probs=33.6
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEcccHHHHHHHHH
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMVPTELLATQHYE 578 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlilaPT~~La~Q~~~ 578 (742)
..++++.|++|+|||-.+...+..++.. |..++++.. ..+..++..
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~-~~l~~~l~~ 163 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF-VEGFGDLKD 163 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH-HHHHHHHHH
Confidence 3579999999999998887766666766 777777654 445455433
No 353
>PRK10867 signal recognition particle protein; Provisional
Probab=91.38 E-value=1.2 Score=51.00 Aligned_cols=36 Identities=19% Similarity=0.158 Sum_probs=29.8
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEc
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMV 567 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlila 567 (742)
|.-+++.|++|+|||.++...+...... |.+++++.
T Consensus 100 p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~ 136 (433)
T PRK10867 100 PTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVA 136 (433)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEE
Confidence 4567999999999999988877777777 88887775
No 354
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=91.36 E-value=0.16 Score=61.01 Aligned_cols=48 Identities=21% Similarity=0.392 Sum_probs=40.3
Q ss_pred hCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH
Q 045263 507 ALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 507 ~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
.+||++++.|...+..++..+.+.. +.++..|||+|||+..+-..+..
T Consensus 17 ~fP~qpY~~Q~a~M~rvl~~L~~~q--~~llESPTGTGKSLsLLCS~LAW 64 (945)
T KOG1132|consen 17 EFPFQPYPTQLAFMTRVLSCLDRKQ--NGLLESPTGTGKSLSLLCSTLAW 64 (945)
T ss_pred eccCCcchHHHHHHHHHHHHHHHhh--hhhccCCCCCCccHHHHHHHHHH
Confidence 6899999999999999998876654 78999999999999876555433
No 355
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=91.25 E-value=0.47 Score=48.51 Aligned_cols=52 Identities=17% Similarity=0.185 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEE
Q 045263 515 SQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFM 566 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlil 566 (742)
.+..++..+.+-.....+..++|.|++|+|||..+..........+..++++
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i 72 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYL 72 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEE
Confidence 3444555554432233456899999999999998877666655555555443
No 356
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=91.20 E-value=0.83 Score=52.04 Aligned_cols=121 Identities=20% Similarity=0.168 Sum_probs=68.2
Q ss_pred HHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEE
Q 045263 519 AISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIA 597 (742)
Q Consensus 519 aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ 597 (742)
.++.+..++..+. -.+|.|++|+|||..++..+..... .|..++++.. +.-..|+.+++........ . -.
T Consensus 184 ~LD~~~~G~~~G~--l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~Sl-Em~~~~i~~R~~~~~~~v~-----~-~~ 254 (434)
T TIGR00665 184 DLDKLTSGLQPSD--LIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSL-EMSAEQLAMRMLSSESRVD-----S-QK 254 (434)
T ss_pred hhHhhcCCCCCCe--EEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeC-cCCHHHHHHHHHHHhcCCC-----H-HH
Confidence 5566666665543 6799999999999998877777654 5777777653 3345666666554432221 0 11
Q ss_pred EEeCCCChHHHHHHH---HHhhcCCccEEE-ec----hHHHhh----ccccCCccEEEEeCCccc
Q 045263 598 LLTGSTPVKQSRMIR---KDLQTGDITLVI-GT----HSLIAE----KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 598 ll~G~~~~~er~~i~---~~l~~G~~~IVV-gT----~~~l~~----~v~~~~l~LVIIDEaHrf 650 (742)
+..|..+..+...+. ..+.+ ..+.| .+ ...+.. ...-.++++||||=.+.+
T Consensus 255 ~~~g~l~~~~~~~~~~a~~~l~~--~~l~i~d~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~i 317 (434)
T TIGR00665 255 LRTGKLSDEDWEKLTSAAGKLSE--APLYIDDTPGLTITELRAKARRLKREHGLGLIVIDYLQLM 317 (434)
T ss_pred hccCCCCHHHHHHHHHHHHHHhc--CCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhc
Confidence 234555554443222 22333 23444 22 222321 111235899999988776
No 357
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=91.19 E-value=1.9 Score=52.15 Aligned_cols=41 Identities=24% Similarity=0.197 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACME 555 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~ 555 (742)
.|..++..+...+..+. +...|++||.|+|||.+|-..+..
T Consensus 22 GQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~ 63 (725)
T PRK07133 22 GQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANA 63 (725)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence 45556655555554433 334699999999999988655443
No 358
>PRK05642 DNA replication initiation factor; Validated
Probab=91.17 E-value=2.6 Score=43.97 Aligned_cols=42 Identities=21% Similarity=0.285 Sum_probs=29.6
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQ 575 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q 575 (742)
...+|.|++|+|||-.+.....+....|.+++++.. ..+...
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~-~~~~~~ 87 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL-AELLDR 87 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeH-HHHHhh
Confidence 367899999999998755555445556788877654 455544
No 359
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=91.14 E-value=0.43 Score=50.70 Aligned_cols=35 Identities=14% Similarity=0.146 Sum_probs=30.8
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcc
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVP 568 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaP 568 (742)
-.+|.|++|+|||..++..+...+.+|.+++|+.-
T Consensus 38 ~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~ 72 (259)
T TIGR03878 38 VINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTV 72 (259)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEe
Confidence 67999999999999999888888888989999873
No 360
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=91.09 E-value=1.3 Score=50.94 Aligned_cols=91 Identities=18% Similarity=0.130 Sum_probs=69.1
Q ss_pred CCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCc
Q 045263 541 VGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDI 620 (742)
Q Consensus 541 TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~ 620 (742)
+-.-| +-.+..++... ....++|.+.|+.=|+-+++.|.+. + .++..|||+.+..+|...++.+++|..
T Consensus 500 ~ed~k-~kkL~eil~~~-~~ppiIIFvN~kk~~d~lAk~LeK~----g-----~~~~tlHg~k~qeQRe~aL~~fr~~t~ 568 (673)
T KOG0333|consen 500 SEDEK-RKKLIEILESN-FDPPIIIFVNTKKGADALAKILEKA----G-----YKVTTLHGGKSQEQRENALADFREGTG 568 (673)
T ss_pred cchHH-HHHHHHHHHhC-CCCCEEEEEechhhHHHHHHHHhhc----c-----ceEEEeeCCccHHHHHHHHHHHHhcCC
Confidence 33444 33444444321 2468999999988877777766653 4 789999999999999999999999999
Q ss_pred cEEEechHHHhhccccCCccEEE
Q 045263 621 TLVIGTHSLIAEKVEFSALRLAI 643 (742)
Q Consensus 621 ~IVVgT~~~l~~~v~~~~l~LVI 643 (742)
+|+|+|...- ..+...++.+||
T Consensus 569 dIlVaTDvAg-RGIDIpnVSlVi 590 (673)
T KOG0333|consen 569 DILVATDVAG-RGIDIPNVSLVI 590 (673)
T ss_pred CEEEEecccc-cCCCCCccceee
Confidence 9999997654 367788888887
No 361
>PHA00350 putative assembly protein
Probab=91.03 E-value=0.47 Score=53.48 Aligned_cols=32 Identities=19% Similarity=0.221 Sum_probs=26.0
Q ss_pred CceEEEccCCChHHHHHHH-HHHHHHhcCCeEE
Q 045263 533 MNRLLQGDVGCGKTVVAFL-ACMEVIGSGYQAA 564 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~-ail~~l~~g~qvl 564 (742)
|-.++.|..|||||..++. -++.++..|+.++
T Consensus 2 mI~l~tG~pGSGKT~~aV~~~i~palk~GR~V~ 34 (399)
T PHA00350 2 MIYAIVGRPGSYKSYEAVVYHIIPALKDGRKVI 34 (399)
T ss_pred ceEEEecCCCCchhHHHHHHHHHHHHHCCCEEE
Confidence 4568999999999999886 5777888887553
No 362
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=90.98 E-value=1.3 Score=50.54 Aligned_cols=36 Identities=22% Similarity=0.231 Sum_probs=28.9
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHH-hcCCeEEEEc
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVI-GSGYQAAFMV 567 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l-~~g~qvlila 567 (742)
|..+++.|++|+|||.++...+.... ..|.+++++.
T Consensus 99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~ 135 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVA 135 (428)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEe
Confidence 45789999999999999887777654 4688887775
No 363
>PF03118 RNA_pol_A_CTD: Bacterial RNA polymerase, alpha chain C terminal domain; InterPro: IPR011260 The core of the bacterial RNA polymerase (RNAP) consists of four subunits, two alpha, a beta and a beta', which are conserved from bacteria to mammals. The alpha subunit (RpoA) initiates RNAP assembly by dimerising to form a platform on which the beta subunits can interact. The alpha subunit consists of a N-terminal domain (NTD) and a C-terminal domain (CTD), connected by a short linker. The NTD is essential for RNAP assembly, while the CTD is necessary for transcription regulation, interacting with transcription factors and promoter upstream elements. In Escherichia coli, the catabolite activator protein (CAP or CRP) was shown to exert its effect through its interactions with the CTD, where CAP binding to CTD promotes RNAP binding to promoter DNA, thereby stimulating transcription initiation at class I CAP-dependent promoters. At class II CAP-dependent promoters, the interaction of CAP with CTD is one of multiple interactions involved in activation []. The CTD has a compact structure of four helices and two long arms enclosing its hydrophobic core, making its folding topology distinct from most other binding proteins. The upstream promoter element-binding site is formed from helices 1 and 4 [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3N97_B 1XS9_D 3K4G_A 3N4M_B 1COO_A 1LB2_E 3IYD_A 1Z3E_B 3GFK_B 3IHQ_B ....
Probab=90.95 E-value=0.17 Score=42.57 Aligned_cols=34 Identities=38% Similarity=0.516 Sum_probs=29.1
Q ss_pred hhhhccCCcCCCCCHHHHHHHHhCCCCCHhHHhhc
Q 045263 205 PLLDKCISCVPGLSKRLYHQLENCGFYTLRKLLHH 239 (742)
Q Consensus 205 ~~L~~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~ 239 (742)
..++.||..| |++.+..+.|.+.||+||.||+.+
T Consensus 8 ~~~~~~I~~L-~LS~Ra~n~L~~~~I~tv~dL~~~ 41 (66)
T PF03118_consen 8 ELLDTPIEDL-GLSVRAYNCLKRAGIHTVGDLVKY 41 (66)
T ss_dssp HHHCSBGGGS-TSBHHHHHHHHCTT--BHHHHHCS
T ss_pred HHhcCcHHHh-CCCHHHHHHHHHhCCcCHHHHHhC
Confidence 3577899999 699999999999999999999987
No 364
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=90.94 E-value=2.4 Score=48.20 Aligned_cols=43 Identities=16% Similarity=0.193 Sum_probs=30.2
Q ss_pred CceEEEccCCChHHHHHHHHHHHH-HhcCCeEEEEc--ccHHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEV-IGSGYQAAFMV--PTELLATQ 575 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~-l~~g~qvlila--PT~~La~Q 575 (742)
.-+++.||+|+|||.++...+... ...|.+++++. +.+..+..
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~e 269 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIE 269 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHH
Confidence 357899999999999987777654 56677777665 33444443
No 365
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=90.61 E-value=0.56 Score=48.30 Aligned_cols=60 Identities=12% Similarity=0.213 Sum_probs=40.3
Q ss_pred HHHHHH-HhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHH
Q 045263 519 AISEII-WDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 519 aI~~I~-~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~ 581 (742)
.+++++ .++..+ ..+++.|++|+|||..+...+...+.+|..++++.- +..++++.+...
T Consensus 8 ~LD~~l~GGi~~G--~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~-e~~~~~i~~~~~ 68 (229)
T TIGR03881 8 GLDKLLEGGIPRG--FFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTT-EESRESIIRQAA 68 (229)
T ss_pred hHHHhhcCCCcCC--eEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEc-cCCHHHHHHHHH
Confidence 345554 234333 378999999999999888777767777888877764 344455554433
No 366
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=90.61 E-value=0.78 Score=50.48 Aligned_cols=46 Identities=15% Similarity=0.125 Sum_probs=33.3
Q ss_pred CCHHHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~l 557 (742)
+.|+|+.+...+...+.+++ +...|++||.|.||+.++...+...+
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~ll 49 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLM 49 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHc
Confidence 46778888888777665533 44678999999999988766554443
No 367
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=90.60 E-value=1.9 Score=47.46 Aligned_cols=46 Identities=24% Similarity=0.246 Sum_probs=35.2
Q ss_pred CCHHHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~l 557 (742)
+.|+|..+...+...+.+++ |...|+.||.|.||+..+...+...+
T Consensus 5 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~Ll 51 (319)
T PRK08769 5 FSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVL 51 (319)
T ss_pred ccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHh
Confidence 78899999999887765543 44589999999999988766554443
No 368
>PRK02362 ski2-like helicase; Provisional
Probab=90.54 E-value=1.4 Score=53.92 Aligned_cols=90 Identities=14% Similarity=0.207 Sum_probs=65.6
Q ss_pred HHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhh----------------c---cCC-C-------CCcEEEEEeCCCCh
Q 045263 553 CMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDN----------------M---EED-K-------HKPKIALLTGSTPV 605 (742)
Q Consensus 553 il~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~----------------~---~~~-~-------~~i~V~ll~G~~~~ 605 (742)
+...+..+.++++.+||+.-++..+..+.+.+.. + ... . -...|+.+||+++.
T Consensus 236 ~~~~~~~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~L~~~l~~gva~hHagl~~ 315 (737)
T PRK02362 236 VLDTLEEGGQCLVFVSSRRNAEGFAKRAASALKKTLTAAERAELAELAEEIREVSDTETSKDLADCVAKGAAFHHAGLSR 315 (737)
T ss_pred HHHHHHcCCCeEEEEeCHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhccCccccHHHHHHHHhCEEeecCCCCH
Confidence 3444567899999999999888887777654320 0 000 0 00258899999999
Q ss_pred HHHHHHHHHhhcCCccEEEechHHHhhccccCCccEEE
Q 045263 606 KQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAI 643 (742)
Q Consensus 606 ~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVI 643 (742)
.+|..+.+.+++|.+.|+|+|..+-. .+.+....+||
T Consensus 316 ~eR~~ve~~Fr~G~i~VLvaT~tla~-GvnlPa~~VVI 352 (737)
T PRK02362 316 EHRELVEDAFRDRLIKVISSTPTLAA-GLNLPARRVII 352 (737)
T ss_pred HHHHHHHHHHHcCCCeEEEechhhhh-hcCCCceEEEE
Confidence 99999999999999999999987653 56666665554
No 369
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=90.45 E-value=1.5 Score=49.94 Aligned_cols=47 Identities=15% Similarity=0.136 Sum_probs=33.2
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc--ccHHHHHHHHH
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV--PTELLATQHYE 578 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila--PT~~La~Q~~~ 578 (742)
|.-+++.|++|+|||.++...+......|.++++++ |.+.-|.++.+
T Consensus 100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk 148 (429)
T TIGR01425 100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLK 148 (429)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHH
Confidence 456789999999999888776666666788888776 33444443333
No 370
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=90.45 E-value=8 Score=41.55 Aligned_cols=45 Identities=20% Similarity=0.149 Sum_probs=31.2
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcc-c--HHHHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVP-T--ELLATQHY 577 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaP-T--~~La~Q~~ 577 (742)
....+.|++|+|||..+...+......+..+.++.- + ...+.|+.
T Consensus 76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~ 123 (270)
T PRK06731 76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQ 123 (270)
T ss_pred CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHH
Confidence 478999999999999887666665555666766653 2 24555544
No 371
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=90.45 E-value=1.6 Score=48.91 Aligned_cols=43 Identities=16% Similarity=0.230 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~l 557 (742)
.|..+...+.+.+.+++ +...|++||.|+||+..+...+-..+
T Consensus 23 Gq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Ll 66 (365)
T PRK07471 23 GHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLL 66 (365)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence 46777777666555443 34589999999999988766555444
No 372
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=90.43 E-value=0.74 Score=57.14 Aligned_cols=45 Identities=22% Similarity=0.209 Sum_probs=31.4
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
+--.|..-+..+..-+.+....|.+|.||+|+|||.++-..+...
T Consensus 174 ~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i 218 (852)
T TIGR03346 174 PVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRI 218 (852)
T ss_pred cCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence 333466667777765555555688999999999998876544443
No 373
>CHL00176 ftsH cell division protein; Validated
Probab=90.42 E-value=1.9 Score=51.81 Aligned_cols=26 Identities=35% Similarity=0.432 Sum_probs=20.1
Q ss_pred CCCCCceEEEccCCChHHHHHHHHHH
Q 045263 529 QPVPMNRLLQGDVGCGKTVVAFLACM 554 (742)
Q Consensus 529 ~~~~~~~LL~a~TGSGKT~val~ail 554 (742)
...++.+||.||+|+|||..+-..+-
T Consensus 213 ~~~p~gVLL~GPpGTGKT~LAralA~ 238 (638)
T CHL00176 213 AKIPKGVLLVGPPGTGKTLLAKAIAG 238 (638)
T ss_pred CCCCceEEEECCCCCCHHHHHHHHHH
Confidence 34466899999999999988755443
No 374
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=90.41 E-value=2.1 Score=50.20 Aligned_cols=41 Identities=24% Similarity=0.195 Sum_probs=25.6
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
|..+...+...+..+. +...|+.||.|+|||.++...+...
T Consensus 19 qe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L 60 (535)
T PRK08451 19 QESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARAL 60 (535)
T ss_pred cHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHh
Confidence 4444444444443333 2345899999999998876655443
No 375
>PRK08760 replicative DNA helicase; Provisional
Probab=90.36 E-value=0.95 Score=52.44 Aligned_cols=121 Identities=17% Similarity=0.120 Sum_probs=70.6
Q ss_pred HHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHH-hcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEE
Q 045263 519 AISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVI-GSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIA 597 (742)
Q Consensus 519 aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l-~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ 597 (742)
.++.+..++..+. -++|.|.+|.|||..++..+.... ..|..|+|.... .-.+|+..++........ . -.
T Consensus 218 ~LD~~t~G~~~G~--LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlE-Ms~~ql~~Rl~a~~s~i~-----~-~~ 288 (476)
T PRK08760 218 DFDAMTAGLQPTD--LIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSME-MSASQLAMRLISSNGRIN-----A-QR 288 (476)
T ss_pred HHHHHhcCCCCCc--eEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEecc-CCHHHHHHHHHHhhCCCc-----H-HH
Confidence 4566666665554 678999999999999988877665 447777777543 345677777665443222 1 01
Q ss_pred EEeCCCChHHHHHHH---HHhhcCCccEEEe-----chHHHhh----ccccCCccEEEEeCCccc
Q 045263 598 LLTGSTPVKQSRMIR---KDLQTGDITLVIG-----THSLIAE----KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 598 ll~G~~~~~er~~i~---~~l~~G~~~IVVg-----T~~~l~~----~v~~~~l~LVIIDEaHrf 650 (742)
+-.|..+..++..+. ..+.+ ..+.|- |...+.. ...-.++++||||=.+.+
T Consensus 289 i~~g~l~~~e~~~~~~a~~~l~~--~~l~I~d~~~~t~~~I~~~~r~l~~~~~~~lVvIDyLql~ 351 (476)
T PRK08760 289 LRTGALEDEDWARVTGAIKMLKE--TKIFIDDTPGVSPEVLRSKCRRLKREHDLGLIVIDYLQLM 351 (476)
T ss_pred HhcCCCCHHHHHHHHHHHHHHhc--CCEEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEecHHhc
Confidence 234555655544322 22322 345444 2233311 112246899999987766
No 376
>cd01703 PolY_Pol_iota DNA Polymerase iota. Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol iota is thought to be one of the least efficient polymerases, particularly when opposite pyrimidines; it can incorporate the correct nucleotide opposite a purine much more efficiently than opposite a pyrimidine, and prefers to insert guanosine instead of adenosine opposite thymidine. Pol iota is believed to use Hoogsteen rather than Watson-Crick base pairing, which may explain the varying efficiency for different template nucleotides.
Probab=90.28 E-value=0.21 Score=56.07 Aligned_cols=31 Identities=23% Similarity=0.414 Sum_probs=28.8
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhc
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHH 239 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~ 239 (742)
.||..|+|||+++.++|+++||+|+.||...
T Consensus 172 lpv~~l~GiG~~~~~kL~~~GI~tigdl~~~ 202 (379)
T cd01703 172 HDLRKIPGIGYKTAAKLEAHGISSVRDLQEF 202 (379)
T ss_pred CCccccCCcCHHHHHHHHHcCCCcHHHHHhC
Confidence 5999999999999999999999999999743
No 377
>PRK06904 replicative DNA helicase; Validated
Probab=90.27 E-value=1.5 Score=50.72 Aligned_cols=127 Identities=20% Similarity=0.183 Sum_probs=74.7
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-cCCeEEEEcccHHHHHHHHHHHHHhhhhccCC
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-SGYQAAFMVPTELLATQHYEHLLKLLDNMEED 590 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~ 590 (742)
+|.+ ..++.+..++..+. -++|.|.||.|||..++-.+..+.. .|..++|+. .+--.+|+..++........
T Consensus 205 ~TG~--~~LD~~t~Gl~~G~--LiiIaarPg~GKTafalnia~~~a~~~g~~Vl~fS-lEMs~~ql~~Rlla~~s~v~-- 277 (472)
T PRK06904 205 TTGF--TDLDKKTAGLQPSD--LIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFS-LEMPAEQIMMRMLASLSRVD-- 277 (472)
T ss_pred cCCh--HHHHHHHhccCCCc--EEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEe-ccCCHHHHHHHHHHhhCCCC--
Confidence 4443 35677777776654 6788999999999988777666654 477777764 34567777777666543322
Q ss_pred CCCcEEEEEeC-CCChHHHHHHHH---HhhcCCccEEEe-----chHHHhhcc-----ccCCccEEEEeCCccc
Q 045263 591 KHKPKIALLTG-STPVKQSRMIRK---DLQTGDITLVIG-----THSLIAEKV-----EFSALRLAIVDEQQRF 650 (742)
Q Consensus 591 ~~~i~V~ll~G-~~~~~er~~i~~---~l~~G~~~IVVg-----T~~~l~~~v-----~~~~l~LVIIDEaHrf 650 (742)
.-.+..| ..+..++..+-. .+.. ..++.|- |...+.... ....+++||||=.|.+
T Consensus 278 ----~~~i~~g~~l~~~e~~~~~~a~~~l~~-~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli 346 (472)
T PRK06904 278 ----QTKIRTGQNLDQQDWAKISSTVGMFKQ-KPNLYIDDSSGLTPTELRSRARRVYRENGGLSLIMVDYLQLM 346 (472)
T ss_pred ----HHHhccCCCCCHHHHHHHHHHHHHHhc-CCCEEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEecHHhc
Confidence 1112345 456555543322 2222 2335442 333332211 1236899999988766
No 378
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=90.24 E-value=0.63 Score=47.89 Aligned_cols=50 Identities=16% Similarity=0.166 Sum_probs=39.7
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
...++.|++|+|||..++..+...+.+|..++++.-.. -.+|+.+.+..+
T Consensus 17 ~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~-~~~~l~~~~~~~ 66 (224)
T TIGR03880 17 HVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE-REERILGYAKSK 66 (224)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CHHHHHHHHHHc
Confidence 36799999999999998888888888898898886554 466666666554
No 379
>PRK05748 replicative DNA helicase; Provisional
Probab=90.23 E-value=1.2 Score=51.15 Aligned_cols=122 Identities=18% Similarity=0.168 Sum_probs=70.4
Q ss_pred HHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-cCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEE
Q 045263 518 SAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-SGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKI 596 (742)
Q Consensus 518 ~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V 596 (742)
..++.+..++..+. -.+|.|.+|.|||..++..+..... .|..++|+. .+.-.+|+..++........ . -
T Consensus 191 ~~LD~~~~G~~~G~--livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fS-lEms~~~l~~R~l~~~~~v~-----~-~ 261 (448)
T PRK05748 191 TDLDKMTSGLQPND--LIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFS-LEMGAESLVMRMLCAEGNID-----A-Q 261 (448)
T ss_pred HHHHHhcCCCCCCc--eEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEe-CCCCHHHHHHHHHHHhcCCC-----H-H
Confidence 35666666666554 6789999999999999888777654 477777664 34456677776654332221 0 1
Q ss_pred EEEeCCCChHHHHHHH---HHhhcCCccEEEe-ch----HHHhh----ccc-cCCccEEEEeCCccc
Q 045263 597 ALLTGSTPVKQSRMIR---KDLQTGDITLVIG-TH----SLIAE----KVE-FSALRLAIVDEQQRF 650 (742)
Q Consensus 597 ~ll~G~~~~~er~~i~---~~l~~G~~~IVVg-T~----~~l~~----~v~-~~~l~LVIIDEaHrf 650 (742)
.+..|..+..++..+. ..+.+ ..+.|- ++ ..+.. ... ..++++||||=.|.+
T Consensus 262 ~i~~~~l~~~e~~~~~~a~~~l~~--~~~~i~d~~~~ti~~i~~~~r~~~~~~~~~~~vvIDyL~li 326 (448)
T PRK05748 262 RLRTGQLTDDDWPKLTIAMGSLSD--APIYIDDTPGIKVTEIRARCRRLAQEHGGLGLILIDYLQLI 326 (448)
T ss_pred HhhcCCCCHHHHHHHHHHHHHHhc--CCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccchhc
Confidence 1234555555443222 22222 234442 22 22321 111 126899999998876
No 380
>PRK00254 ski2-like helicase; Provisional
Probab=90.23 E-value=1.4 Score=53.58 Aligned_cols=95 Identities=21% Similarity=0.265 Sum_probs=67.5
Q ss_pred HHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhc----------------cC-CC-------CCcEEEEEeCCCChH
Q 045263 551 LACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNM----------------EE-DK-------HKPKIALLTGSTPVK 606 (742)
Q Consensus 551 ~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~----------------~~-~~-------~~i~V~ll~G~~~~~ 606 (742)
..+...+..+.++++.+||+.-++..+..+.+.+..+ .. .. ....|+.+||+++..
T Consensus 229 ~~~~~~i~~~~~vLVF~~sr~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~hHagl~~~ 308 (720)
T PRK00254 229 SLVYDAVKKGKGALVFVNTRRSAEKEALELAKKIKRFLTKPELRALKELADSLEENPTNEKLKKALRGGVAFHHAGLGRT 308 (720)
T ss_pred HHHHHHHHhCCCEEEEEcChHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhcCCCcHHHHHHHhhCEEEeCCCCCHH
Confidence 3455566778999999999988777665554322100 00 00 002489999999999
Q ss_pred HHHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeC
Q 045263 607 QSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDE 646 (742)
Q Consensus 607 er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDE 646 (742)
+|..+.+.+++|.++|+|+|..+-. .+++.....||.|-
T Consensus 309 eR~~ve~~F~~G~i~VLvaT~tLa~-Gvnipa~~vVI~~~ 347 (720)
T PRK00254 309 ERVLIEDAFREGLIKVITATPTLSA-GINLPAFRVIIRDT 347 (720)
T ss_pred HHHHHHHHHHCCCCeEEEeCcHHhh-hcCCCceEEEECCc
Confidence 9999999999999999999987553 56777777666543
No 381
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=90.18 E-value=1.3 Score=54.02 Aligned_cols=102 Identities=19% Similarity=0.170 Sum_probs=80.1
Q ss_pred CceEEEccCCC----hHHHHHHHH-HHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHH
Q 045263 533 MNRLLQGDVGC----GKTVVAFLA-CMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQ 607 (742)
Q Consensus 533 ~~~LL~a~TGS----GKT~val~a-il~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~e 607 (742)
+..-+.-|... |-...+++. +...+++...++|.++|+..|+-++.++++.+. ..+..-||+.+..+
T Consensus 221 ~~i~v~~p~~~~~~~~~~~~~~~~~i~~~v~~~~ttLIF~NTR~~aE~l~~~L~~~~~--------~~i~~HHgSlSre~ 292 (814)
T COG1201 221 LEIKVISPVEDLIYDEELWAALYERIAELVKKHRTTLIFTNTRSGAERLAFRLKKLGP--------DIIEVHHGSLSREL 292 (814)
T ss_pred ceEEEEecCCccccccchhHHHHHHHHHHHhhcCcEEEEEeChHHHHHHHHHHHHhcC--------CceeeecccccHHH
Confidence 34455555554 556665444 555566677899999999999999999998764 46889999999999
Q ss_pred HHHHHHHhhcCCccEEEechHHHhhccccCCccEEE
Q 045263 608 SRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAI 643 (742)
Q Consensus 608 r~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVI 643 (742)
|...-+++++|+...||+|.++ .-.+...++++||
T Consensus 293 R~~vE~~lk~G~lravV~TSSL-ELGIDiG~vdlVI 327 (814)
T COG1201 293 RLEVEERLKEGELKAVVATSSL-ELGIDIGDIDLVI 327 (814)
T ss_pred HHHHHHHHhcCCceEEEEccch-hhccccCCceEEE
Confidence 9999999999999999999874 2266778888887
No 382
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=90.15 E-value=1.5 Score=50.98 Aligned_cols=25 Identities=36% Similarity=0.507 Sum_probs=19.5
Q ss_pred CCCCCceEEEccCCChHHHHHHHHH
Q 045263 529 QPVPMNRLLQGDVGCGKTVVAFLAC 553 (742)
Q Consensus 529 ~~~~~~~LL~a~TGSGKT~val~ai 553 (742)
...|..+||.||+|+|||..+-..+
T Consensus 85 ~~~~~giLL~GppGtGKT~la~alA 109 (495)
T TIGR01241 85 AKIPKGVLLVGPPGTGKTLLAKAVA 109 (495)
T ss_pred CCCCCcEEEECCCCCCHHHHHHHHH
Confidence 3446689999999999998765443
No 383
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=90.15 E-value=1.3 Score=48.77 Aligned_cols=55 Identities=24% Similarity=0.270 Sum_probs=37.1
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHH---hcCCeEEEEcccHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVI---GSGYQAAFMVPTELL 572 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l---~~g~qvlilaPT~~L 572 (742)
+++.|.+.+..+... ..+.++.|+||||||.. +.+++..+ ....+++.+-.+.+|
T Consensus 133 ~~~~~~~~L~~~v~~-----~~~ilI~G~tGSGKTTl-l~aL~~~~~~~~~~~rivtIEd~~El 190 (319)
T PRK13894 133 MTAAQREAIIAAVRA-----HRNILVIGGTGSGKTTL-VNAIINEMVIQDPTERVFIIEDTGEI 190 (319)
T ss_pred CCHHHHHHHHHHHHc-----CCeEEEECCCCCCHHHH-HHHHHHhhhhcCCCceEEEEcCCCcc
Confidence 567788888776653 25899999999999954 44444432 234566666666655
No 384
>PRK04328 hypothetical protein; Provisional
Probab=90.15 E-value=0.51 Score=49.77 Aligned_cols=50 Identities=18% Similarity=0.209 Sum_probs=39.4
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
...+|.|++|+|||..++..+...+.+|..++|+. +++-..++.+.+..+
T Consensus 24 s~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis-~ee~~~~i~~~~~~~ 73 (249)
T PRK04328 24 NVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA-LEEHPVQVRRNMRQF 73 (249)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE-eeCCHHHHHHHHHHc
Confidence 36799999999999999888888888898888887 545556666655554
No 385
>PRK01216 DNA polymerase IV; Validated
Probab=90.14 E-value=0.22 Score=55.29 Aligned_cols=34 Identities=21% Similarity=0.262 Sum_probs=30.9
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCc
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRT 243 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrr 243 (742)
.||..|+|||+++++.|+++||+|+.||.. +|+.
T Consensus 178 LPi~~l~giG~~~~~~L~~~Gi~TigdL~~-~~~~ 211 (351)
T PRK01216 178 LDIADIPGIGDITAEKLKKLGVNKLVDTLR-IEFD 211 (351)
T ss_pred CCcccccCCCHHHHHHHHHcCCCcHHHHhc-CCHH
Confidence 499999999999999999999999999987 4653
No 386
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=90.08 E-value=0.99 Score=47.75 Aligned_cols=56 Identities=25% Similarity=0.229 Sum_probs=33.5
Q ss_pred HHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc--ccHHHHH
Q 045263 517 LSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV--PTELLAT 574 (742)
Q Consensus 517 ~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila--PT~~La~ 574 (742)
.+++-.+..+...+ .....+.|++|||||++.= +++.....+..++++. ||-..+.
T Consensus 37 ~e~l~~l~~~i~d~-qg~~~vtGevGsGKTv~~R-al~~s~~~d~~~~v~i~~~~~s~~~ 94 (269)
T COG3267 37 NEALLMLHAAIADG-QGILAVTGEVGSGKTVLRR-ALLASLNEDQVAVVVIDKPTLSDAT 94 (269)
T ss_pred hHHHHHHHHHHhcC-CceEEEEecCCCchhHHHH-HHHHhcCCCceEEEEecCcchhHHH
Confidence 34555555554332 2367899999999999877 5555555444444344 5544433
No 387
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.04 E-value=2.2 Score=50.98 Aligned_cols=41 Identities=24% Similarity=0.286 Sum_probs=27.0
Q ss_pred HHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 516 QLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 516 Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
|..++..+.+.+..++ +.-.|++|+.|+|||.++...+...
T Consensus 21 Qe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~L 62 (618)
T PRK14951 21 QEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSL 62 (618)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 5555555555444433 2345999999999999887665443
No 388
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=89.92 E-value=0.53 Score=49.08 Aligned_cols=48 Identities=19% Similarity=0.446 Sum_probs=37.1
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~ 582 (742)
..++.|++|+|||..++..+...+.+|.+++++.. .+-..|..+.+.+
T Consensus 26 ~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~-e~~~~~~~~~~~~ 73 (230)
T PRK08533 26 LILIEGDESTGKSILSQRLAYGFLQNGYSVSYVST-QLTTTEFIKQMMS 73 (230)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeC-CCCHHHHHHHHHH
Confidence 67999999999999988777777788989999884 4444555555543
No 389
>PRK03352 DNA polymerase IV; Validated
Probab=89.83 E-value=0.2 Score=55.27 Aligned_cols=35 Identities=17% Similarity=0.224 Sum_probs=31.3
Q ss_pred hccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCc
Q 045263 208 DKCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRT 243 (742)
Q Consensus 208 ~~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrr 243 (742)
..||..|+|||+++.++|+++||+|+.||+.. |+.
T Consensus 176 ~lpl~~l~gig~~~~~~L~~~Gi~ti~dl~~l-~~~ 210 (346)
T PRK03352 176 DRPTDALWGVGPKTAKRLAALGITTVADLAAA-DPA 210 (346)
T ss_pred cCCHHHcCCCCHHHHHHHHHcCCccHHHHhcC-CHH
Confidence 35999999999999999999999999999885 543
No 390
>cd01700 PolY_Pol_V_umuC umuC subunit of DNA Polymerase V. umuC subunit of Pol V. Pol V is a bacterial translesion synthesis (TLS) polymerase that consists of the heterotrimer of one umuC and two umuD subunits. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol V, RecA, single stranded DNA-binding protein, beta sliding clamp, and gamma clamp loading complex are responsible for inducing the SOS response in bacteria to repair UV-induced DNA damage.
Probab=89.77 E-value=0.23 Score=54.73 Aligned_cols=34 Identities=21% Similarity=0.169 Sum_probs=31.0
Q ss_pred hccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCC
Q 045263 208 DKCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPR 242 (742)
Q Consensus 208 ~~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPr 242 (742)
..||..|+|||+++.+.|+++||+|+.||..+ |+
T Consensus 175 ~lpl~~l~gig~~~~~~L~~~Gi~ti~dL~~~-~~ 208 (344)
T cd01700 175 ILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQA-DP 208 (344)
T ss_pred cCChhhcCccCHHHHHHHHHcCCCcHHHHhcC-CH
Confidence 35999999999999999999999999999985 54
No 391
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=89.72 E-value=1.9 Score=46.07 Aligned_cols=50 Identities=16% Similarity=0.227 Sum_probs=32.9
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-cCCeEEEE
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-SGYQAAFM 566 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~g~qvlil 566 (742)
+.+.|.+.+..+...- ...+++.|+||||||..... ++..+. .+..++.+
T Consensus 64 ~~~~~~~~l~~~~~~~----~GlilisG~tGSGKTT~l~a-ll~~i~~~~~~iiti 114 (264)
T cd01129 64 LKPENLEIFRKLLEKP----HGIILVTGPTGSGKTTTLYS-ALSELNTPEKNIITV 114 (264)
T ss_pred CCHHHHHHHHHHHhcC----CCEEEEECCCCCcHHHHHHH-HHhhhCCCCCeEEEE
Confidence 5788888887776532 12689999999999976543 333343 34445444
No 392
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=89.65 E-value=1.2 Score=58.20 Aligned_cols=147 Identities=20% Similarity=0.170 Sum_probs=84.6
Q ss_pred HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHH--HHHHHHHH-h-cCCeEEEEcccHHHHHH
Q 045263 500 LTKKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVA--FLACMEVI-G-SGYQAAFMVPTELLATQ 575 (742)
Q Consensus 500 l~~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~va--l~ail~~l-~-~g~qvlilaPT~~La~Q 575 (742)
++..+...+.+.||+.|++|+..++..- + ...+|+|..|+|||.+. ++.++..+ . .|++++.++||-.-+..
T Consensus 824 l~~~~~~~~~~~Lt~~Qr~Av~~iLts~--d--r~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~ 899 (1623)
T PRK14712 824 LMERVPGELMEKLTSGQRAATRMILETS--D--RFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGE 899 (1623)
T ss_pred hhhhhhhhhhcccCHHHHHHHHHHHhCC--C--ceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHH
Confidence 3344444556789999999999998642 1 26799999999999874 22233322 2 36789999999877665
Q ss_pred HHH------HHHHhhhhc------cC-CCCCcEEEEEeCC--CChHHHHHHHHHhhc-CCccEEEechHHHhh-------
Q 045263 576 HYE------HLLKLLDNM------EE-DKHKPKIALLTGS--TPVKQSRMIRKDLQT-GDITLVIGTHSLIAE------- 632 (742)
Q Consensus 576 ~~~------~l~~~l~~~------~~-~~~~i~V~ll~G~--~~~~er~~i~~~l~~-G~~~IVVgT~~~l~~------- 632 (742)
+.+ .+.+++... +. ......+.++.-. .+......++..+.. |.--|+||-+..+..
T Consensus 900 L~e~Gi~A~TIasfL~~~~~~~~~~~~~~~~~~llIVDEASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~aG~~F 979 (1623)
T PRK14712 900 MRSAGVDAQTLASFLHDTQLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPF 979 (1623)
T ss_pred HHHhCchHhhHHHHhccccchhhcccCCCCCCcEEEEEccccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCCCCHHH
Confidence 432 223333210 00 0011244444333 222333344444443 444567887665522
Q ss_pred -cc-ccCCccEEEEeCCccc
Q 045263 633 -KV-EFSALRLAIVDEQQRF 650 (742)
Q Consensus 633 -~v-~~~~l~LVIIDEaHrf 650 (742)
.+ ....+..+.++|.+|-
T Consensus 980 ~~lq~~~~~~ta~L~eI~RQ 999 (1623)
T PRK14712 980 RLQQTRSAADVVIMKEIVRQ 999 (1623)
T ss_pred HHHHHcCCCCeEEeCeeecC
Confidence 11 1224678899999984
No 393
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=89.64 E-value=1.6 Score=50.26 Aligned_cols=77 Identities=22% Similarity=0.235 Sum_probs=57.4
Q ss_pred hCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh----cCCeEEEEcccHHHHHHHHHHHH
Q 045263 507 ALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG----SGYQAAFMVPTELLATQHYEHLL 581 (742)
Q Consensus 507 ~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~----~g~qvlilaPT~~La~Q~~~~l~ 581 (742)
-|||. ..|.|-+-..++...+..+. ..||.+|+|+|||+..+..+..... .-.+.++-.-|..-.+....+++
T Consensus 11 ~FPY~~iYPEQ~~YM~elKrsLDakG--h~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El~ 88 (755)
T KOG1131|consen 11 YFPYDYIYPEQYEYMRELKRSLDAKG--HCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEELK 88 (755)
T ss_pred ecCCcccCHHHHHHHHHHHHhhccCC--cEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHHH
Confidence 46887 89999999999998776543 7899999999999876555443322 23578888777777777777776
Q ss_pred Hhhh
Q 045263 582 KLLD 585 (742)
Q Consensus 582 ~~l~ 585 (742)
.+..
T Consensus 89 ~l~~ 92 (755)
T KOG1131|consen 89 RLMD 92 (755)
T ss_pred HHHH
Confidence 6553
No 394
>PRK07004 replicative DNA helicase; Provisional
Probab=89.62 E-value=0.87 Score=52.53 Aligned_cols=121 Identities=17% Similarity=0.177 Sum_probs=69.1
Q ss_pred HHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHH-hcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEE
Q 045263 519 AISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVI-GSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIA 597 (742)
Q Consensus 519 aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l-~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ 597 (742)
.++.+..++..+. -++|.|.+|+|||..++-.+.... ..|..++|+. .+--.+|+..++....... ...
T Consensus 202 ~LD~~t~G~~~g~--liviaarpg~GKT~~al~ia~~~a~~~~~~v~~fS-lEM~~~ql~~R~la~~~~v-------~~~ 271 (460)
T PRK07004 202 DLDRMTSGMHGGE--LIIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFS-MEMPGTQLAMRMLGSVGRL-------DQH 271 (460)
T ss_pred HhcccccCCCCCc--eEEEEeCCCCCccHHHHHHHHHHHHHcCCeEEEEe-CCCCHHHHHHHHHHhhcCC-------CHH
Confidence 4555666665554 578899999999999887766654 4577777764 3334556666654333222 111
Q ss_pred -EEeCCCChHHHHHHHH---HhhcCCccEEEe-----chHHHhh---cc--ccCCccEEEEeCCcccc
Q 045263 598 -LLTGSTPVKQSRMIRK---DLQTGDITLVIG-----THSLIAE---KV--EFSALRLAIVDEQQRFG 651 (742)
Q Consensus 598 -ll~G~~~~~er~~i~~---~l~~G~~~IVVg-----T~~~l~~---~v--~~~~l~LVIIDEaHrfG 651 (742)
+..|..+..++..+.. .+.. ..+.|- |...+.. .+ ....+++||||=.|.+.
T Consensus 272 ~i~~g~l~~~e~~~~~~a~~~l~~--~~l~I~d~~~~~~~~i~~~~r~l~~~~~~~~lviIDYLql~~ 337 (460)
T PRK07004 272 RMRTGRLTDEDWPKLTHAVQKMSE--AQLFIDETGGLNPMELRSRARRLARQCGKLGLIIIDYLQLMS 337 (460)
T ss_pred HHhcCCCCHHHHHHHHHHHHHHhc--CCEEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEChhhhcc
Confidence 2356666665544332 2322 345542 2222211 11 23468999999888763
No 395
>PRK09165 replicative DNA helicase; Provisional
Probab=89.62 E-value=1 Score=52.49 Aligned_cols=123 Identities=19% Similarity=0.180 Sum_probs=70.2
Q ss_pred HHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---------------CCeEEEEcccHHHHHHHHHHHHHh
Q 045263 519 AISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---------------GYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 519 aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---------------g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
.++.++.++..+. -++|.|.+|.|||..++..+...... |..++|+ -.+.-.+|+..++...
T Consensus 206 ~LD~~~gG~~~g~--livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~f-SlEMs~~ql~~R~la~ 282 (497)
T PRK09165 206 DLDSKLGGLHPSD--LIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFF-SLEMSAEQLATRILSE 282 (497)
T ss_pred HHhhhcCCCCCCc--eEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEE-eCcCCHHHHHHHHHHH
Confidence 4566666665544 67899999999999988777666532 5666666 4445567777776554
Q ss_pred hhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhc-CCccEEEec-----hHHHhh----ccccCCccEEEEeCCccc
Q 045263 584 LDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQT-GDITLVIGT-----HSLIAE----KVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 584 l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~-G~~~IVVgT-----~~~l~~----~v~~~~l~LVIIDEaHrf 650 (742)
..... .. .+..|..+..+...+...... ....+.|-. ...+.. ...-..+++||||=.|-+
T Consensus 283 ~s~v~-----~~-~i~~~~l~~~e~~~l~~a~~~l~~~~l~I~d~~~~ti~~i~~~ir~l~~~~~~~lvvIDyLqli 353 (497)
T PRK09165 283 QSEIS-----SS-KIRRGKISEEDFEKLVDASQELQKLPLYIDDTPALSISQLRARARRLKRQHGLDLLVVDYLQLI 353 (497)
T ss_pred hcCCC-----HH-HHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhc
Confidence 33222 11 133566666555443332111 123444432 222211 111246899999988865
No 396
>COG3743 Uncharacterized conserved protein [Function unknown]
Probab=89.61 E-value=0.26 Score=46.63 Aligned_cols=32 Identities=16% Similarity=0.370 Sum_probs=28.1
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcC
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHF 240 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~f 240 (742)
+.|+.|+||||+..+.|+.+||+|..++--+=
T Consensus 67 DDLt~I~GIGPk~e~~Ln~~GI~tfaQIAAwt 98 (133)
T COG3743 67 DDLTRISGIGPKLEKVLNELGIFTFAQIAAWT 98 (133)
T ss_pred ccchhhcccCHHHHHHHHHcCCccHHHHHhcC
Confidence 57889999999999999999999988776543
No 397
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=89.56 E-value=0.075 Score=59.10 Aligned_cols=46 Identities=26% Similarity=0.364 Sum_probs=39.8
Q ss_pred HhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHH
Q 045263 506 RALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 506 ~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l 557 (742)
+.+.|. +|..|.++|+-|+.+ .++|..+.||||||-+|.+|+++.+
T Consensus 18 ~e~dw~lptdvqaeaiplilgg------gdvlmaaetgsgktgaf~lpilqiv 64 (725)
T KOG0349|consen 18 DELDWTLPTDVQAEAIPLILGG------GDVLMAAETGSGKTGAFCLPILQIV 64 (725)
T ss_pred hhhccccccccccccccEEecC------CcEEEEeccCCCCccceehhhHHHH
Confidence 456676 899999999999874 3789999999999999999998765
No 398
>PRK03609 umuC DNA polymerase V subunit UmuC; Reviewed
Probab=89.55 E-value=0.24 Score=56.36 Aligned_cols=35 Identities=20% Similarity=0.283 Sum_probs=31.5
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCcc
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRTY 244 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrrY 244 (742)
.||..|+|||+++++.|+++||+|+.||... |+..
T Consensus 179 lPv~~l~GiG~~~~~~L~~lGi~TigdL~~~-~~~~ 213 (422)
T PRK03609 179 QPVEEVWGVGRRISKKLNAMGIKTALDLADT-NIRF 213 (422)
T ss_pred CChhhcCCccHHHHHHHHHcCCCcHHHHhcC-CHHH
Confidence 4999999999999999999999999999876 5443
No 399
>cd00424 PolY Y-family of DNA polymerases. Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Most TLS polymerases are members of the Y-family, including Pol eta, Pol kappa/IV, Pol iota, Rev1, and Pol V, which is found exclusively in bacteria. In eukaryotes, the B-family polymerase Pol zeta also functions as a TLS polymerase. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in ord
Probab=89.53 E-value=0.25 Score=54.49 Aligned_cols=32 Identities=22% Similarity=0.355 Sum_probs=29.9
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCC
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFP 241 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fP 241 (742)
.||+.|+|||+++.++|+++||+|+.||... |
T Consensus 173 lpi~~l~giG~~~~~~L~~~Gi~ti~dl~~~-~ 204 (343)
T cd00424 173 LPLTDLPGIGAVTAKRLEAVGINPIGDLLAA-S 204 (343)
T ss_pred CChhhcCCCCHHHHHHHHHcCCCcHHHHhcC-C
Confidence 4999999999999999999999999999874 6
No 400
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=89.48 E-value=2.9 Score=45.43 Aligned_cols=26 Identities=27% Similarity=0.367 Sum_probs=18.7
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhc
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGS 559 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~ 559 (742)
.-+|+.||||||||.+. .+|...+..
T Consensus 126 GLILVTGpTGSGKSTTl-AamId~iN~ 151 (353)
T COG2805 126 GLILVTGPTGSGKSTTL-AAMIDYINK 151 (353)
T ss_pred ceEEEeCCCCCcHHHHH-HHHHHHHhc
Confidence 46899999999999754 444444544
No 401
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.37 E-value=1.1 Score=49.51 Aligned_cols=73 Identities=19% Similarity=0.262 Sum_probs=61.3
Q ss_pred CeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCcc
Q 045263 561 YQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALR 640 (742)
Q Consensus 561 ~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~ 640 (742)
.|++|.+.|+.-|..++.++.... -.|.++||.++..+|..+..+++.|...|+|+|.-.. ..+....+.
T Consensus 331 gqsiIFc~tk~ta~~l~~~m~~~G---------h~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTnV~A-RGiDv~qVs 400 (477)
T KOG0332|consen 331 GQSIIFCHTKATAMWLYEEMRAEG---------HQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTNVCA-RGIDVAQVS 400 (477)
T ss_pred hheEEEEeehhhHHHHHHHHHhcC---------ceeEEeeccchhHHHHHHHHHHhcCcceEEEEechhh-cccccceEE
Confidence 589999999999999999988743 4799999999999999999999999999999996533 345556666
Q ss_pred EEE
Q 045263 641 LAI 643 (742)
Q Consensus 641 LVI 643 (742)
+||
T Consensus 401 ~Vv 403 (477)
T KOG0332|consen 401 VVV 403 (477)
T ss_pred EEE
Confidence 665
No 402
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=89.34 E-value=0.64 Score=47.53 Aligned_cols=47 Identities=23% Similarity=0.401 Sum_probs=35.7
Q ss_pred HHHHHHH-hcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 519 AISEIIW-DLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 519 aI~~I~~-~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
.++.++. ++..+ .-.+|.|++|||||..++..+......|.+++++.
T Consensus 7 ~LD~~l~GGi~~g--~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~ 54 (218)
T cd01394 7 GLDELLGGGVERG--TVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID 54 (218)
T ss_pred HHHHHhcCCccCC--eEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 4555553 33222 25789999999999999998888888888998883
No 403
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=89.02 E-value=4.5 Score=45.60 Aligned_cols=36 Identities=19% Similarity=0.234 Sum_probs=29.0
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
+..+++.||+|+|||.++...+......|.++.++.
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lIt 241 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFIT 241 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 346789999999999998777777777788777665
No 404
>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=89.02 E-value=1.9 Score=53.02 Aligned_cols=77 Identities=22% Similarity=0.154 Sum_probs=59.2
Q ss_pred hcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHH-----HHHHHhhc----CC-------cc
Q 045263 558 GSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSR-----MIRKDLQT----GD-------IT 621 (742)
Q Consensus 558 ~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~-----~i~~~l~~----G~-------~~ 621 (742)
..+.+++|+++|+.-|+.+++.|.+. + + .++||.++..+|. .+++.+.+ |. ..
T Consensus 270 e~g~~vLVF~NTv~~Aq~L~~~L~~~----g-----~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~~ 338 (844)
T TIGR02621 270 DSGGAILVFCRTVKHVRKVFAKLPKE----K-----F--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGTV 338 (844)
T ss_pred hCCCcEEEEECCHHHHHHHHHHHHhc----C-----C--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccce
Confidence 45789999999999999999988762 2 3 7899999999998 66777765 43 67
Q ss_pred EEEechHHHhhccccCCccEEEEeCC
Q 045263 622 LVIGTHSLIAEKVEFSALRLAIVDEQ 647 (742)
Q Consensus 622 IVVgT~~~l~~~v~~~~l~LVIIDEa 647 (742)
|+|+| +.+...+.+.. ..||.|-+
T Consensus 339 ILVAT-dVaerGLDId~-d~VI~d~a 362 (844)
T TIGR02621 339 YLVCT-SAGEVGVNISA-DHLVCDLA 362 (844)
T ss_pred EEecc-chhhhcccCCc-ceEEECCC
Confidence 89999 45555666654 67777665
No 405
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.01 E-value=2.4 Score=47.09 Aligned_cols=40 Identities=20% Similarity=0.254 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHhcCCC-CCCceEEEccCCChHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQP-VPMNRLLQGDVGCGKTVVAFLACM 554 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~-~~~~~LL~a~TGSGKT~val~ail 554 (742)
.|..++..+......+ .+...|++||.|+|||..+...+.
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~ 61 (367)
T PRK14970 21 GQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILAR 61 (367)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence 4555555555555443 344789999999999987765533
No 406
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=88.96 E-value=0.65 Score=49.04 Aligned_cols=49 Identities=20% Similarity=0.201 Sum_probs=38.8
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLK 582 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~ 582 (742)
...++.|++|||||..++..+...+..|.++++++-. +...++.+.+..
T Consensus 24 ~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~-e~~~~l~~~~~~ 72 (260)
T COG0467 24 SVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTE-ESPEELLENARS 72 (260)
T ss_pred cEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEec-CCHHHHHHHHHH
Confidence 3789999999999999999999999999888888743 345555555544
No 407
>PTZ00205 DNA polymerase kappa; Provisional
Probab=88.95 E-value=0.28 Score=57.38 Aligned_cols=32 Identities=25% Similarity=0.326 Sum_probs=29.8
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcC
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHF 240 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~f 240 (742)
.||..|+|||+++++.|+++||+|+.||...=
T Consensus 309 LpV~ki~GIG~~t~~~L~~~GI~TigDLa~~~ 340 (571)
T PTZ00205 309 LGLRSVPGVGKVTEALLKGLGITTLSDIYNRR 340 (571)
T ss_pred CCcceeCCcCHHHHHHHHHcCCCcHHHHhcCC
Confidence 59999999999999999999999999998753
No 408
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=88.90 E-value=1.4 Score=41.83 Aligned_cols=69 Identities=22% Similarity=0.253 Sum_probs=41.9
Q ss_pred HHHHHHHHHhcCCC---CCCceEEEccCCChHHHHHHHHHHHHHhcCCe---EEE-----EcccHHHHHHHHHHHHHhhh
Q 045263 517 LSAISEIIWDLKQP---VPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQ---AAF-----MVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 517 ~~aI~~I~~~~~~~---~~~~~LL~a~TGSGKT~val~ail~~l~~g~q---vli-----laPT~~La~Q~~~~l~~~l~ 585 (742)
+.+++++...+.++ +|.-.-++|+||+|||.++-+.+-.....|.+ |.. =.|....+.+-.+.++++..
T Consensus 35 ~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~~I~ 114 (127)
T PF06309_consen 35 EVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKSWIR 114 (127)
T ss_pred HHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHHHHH
Confidence 33444444444333 33334589999999999998888877776632 222 23555566666666666543
No 409
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=88.85 E-value=2.3 Score=41.67 Aligned_cols=33 Identities=27% Similarity=0.292 Sum_probs=26.6
Q ss_pred eEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 535 RLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 535 ~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
.++.|++|+|||.++...+......|.+++++.
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~ 35 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA 35 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 478999999999998877777667787776654
No 410
>PRK02406 DNA polymerase IV; Validated
Probab=88.80 E-value=0.31 Score=53.79 Aligned_cols=36 Identities=22% Similarity=0.327 Sum_probs=32.1
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCcce
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRTYA 245 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrrYe 245 (742)
.||+.|+|||+++.++|+++||+|+.||.. +|+.-.
T Consensus 168 lpi~~l~giG~~~~~~L~~~Gi~ti~dl~~-l~~~~L 203 (343)
T PRK02406 168 LPVEKIPGVGKVTAEKLHALGIYTCADLQK-YDLAEL 203 (343)
T ss_pred CCcchhcCCCHHHHHHHHHcCCCcHHHHHh-CCHHHH
Confidence 599999999999999999999999999987 476543
No 411
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=88.73 E-value=4.7 Score=49.22 Aligned_cols=34 Identities=26% Similarity=0.274 Sum_probs=24.1
Q ss_pred ceEEEccCCChHHHHHHHHHHHH-HhcC-CeEEEEc
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEV-IGSG-YQAAFMV 567 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~-l~~g-~qvlila 567 (742)
-+.+.||||+|||.+....+... ...| +++.++.
T Consensus 187 Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit 222 (767)
T PRK14723 187 VLALVGPTGVGKTTTTAKLAARCVAREGADQLALLT 222 (767)
T ss_pred EEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEec
Confidence 56899999999998876665544 3455 4665554
No 412
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=88.72 E-value=2.5 Score=51.64 Aligned_cols=30 Identities=30% Similarity=0.305 Sum_probs=21.5
Q ss_pred HhcCCCCCCceEEEccCCChHHHHHHHHHH
Q 045263 525 WDLKQPVPMNRLLQGDVGCGKTVVAFLACM 554 (742)
Q Consensus 525 ~~~~~~~~~~~LL~a~TGSGKT~val~ail 554 (742)
+.+....|..+||.||+|||||.++-..+.
T Consensus 480 ~~~g~~~~~giLL~GppGtGKT~lakalA~ 509 (733)
T TIGR01243 480 EKMGIRPPKGVLLFGPPGTGKTLLAKAVAT 509 (733)
T ss_pred HhcCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence 333334456789999999999987755544
No 413
>PRK14133 DNA polymerase IV; Provisional
Probab=88.72 E-value=0.33 Score=53.61 Aligned_cols=36 Identities=36% Similarity=0.558 Sum_probs=31.8
Q ss_pred hccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCcc
Q 045263 208 DKCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRTY 244 (742)
Q Consensus 208 ~~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrrY 244 (742)
..||+.|+|||+++.+.|+++||+|+.||+.. |+.-
T Consensus 172 ~lpv~~l~gig~~~~~~L~~~Gi~ti~dl~~l-~~~~ 207 (347)
T PRK14133 172 PLPISKVHGIGKKSVEKLNNIGIYTIEDLLKL-SREF 207 (347)
T ss_pred hCCccccCCCCHHHHHHHHHcCCccHHHHhhC-CHHH
Confidence 35999999999999999999999999999884 6543
No 414
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.70 E-value=2.2 Score=50.97 Aligned_cols=40 Identities=20% Similarity=0.166 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACM 554 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail 554 (742)
.|..+...+......+. +...|++||.|+|||.++...+.
T Consensus 21 Gq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk 61 (614)
T PRK14971 21 GQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAK 61 (614)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHH
Confidence 35566666555554443 23479999999999996654443
No 415
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=88.62 E-value=1.7 Score=47.29 Aligned_cols=52 Identities=21% Similarity=0.218 Sum_probs=29.1
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHH--hc-C---CeEEE-EcccHHHHHHHHHHHHHh
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVI--GS-G---YQAAF-MVPTELLATQHYEHLLKL 583 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l--~~-g---~qvli-laPT~~La~Q~~~~l~~~ 583 (742)
.-+.+|+|++|-|||.+.-.-.-..- .. + ..|++ -+|...-..-.|..+-..
T Consensus 61 mp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~ 119 (302)
T PF05621_consen 61 MPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEA 119 (302)
T ss_pred CCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHH
Confidence 34789999999999986522221110 00 1 23433 356666566666655443
No 416
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=88.51 E-value=1.6 Score=49.28 Aligned_cols=25 Identities=24% Similarity=0.209 Sum_probs=18.1
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHh
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIG 558 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~ 558 (742)
...+|.||+|+|||..+.. +...+.
T Consensus 169 q~~~IvG~~g~GKTtL~~~-i~~~I~ 193 (415)
T TIGR00767 169 QRGLIVAPPKAGKTVLLQK-IAQAIT 193 (415)
T ss_pred CEEEEECCCCCChhHHHHH-HHHhhc
Confidence 3789999999999976544 444443
No 417
>PF12846 AAA_10: AAA-like domain
Probab=88.50 E-value=0.56 Score=49.51 Aligned_cols=37 Identities=24% Similarity=0.362 Sum_probs=28.8
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTE 570 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~ 570 (742)
+.++.|+||||||..+...+.+.+..|..++++=|.-
T Consensus 3 h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g 39 (304)
T PF12846_consen 3 HTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKG 39 (304)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCc
Confidence 6799999999999988877777777776665554443
No 418
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=88.49 E-value=2.8 Score=46.03 Aligned_cols=94 Identities=15% Similarity=0.152 Sum_probs=58.0
Q ss_pred CCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEccc--HHHHHHHHHHHHHhhhhccCCCCCcEEEEE-eCCCChHH
Q 045263 531 VPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPT--ELLATQHYEHLLKLLDNMEEDKHKPKIALL-TGSTPVKQ 607 (742)
Q Consensus 531 ~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT--~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll-~G~~~~~e 607 (742)
.|--.|+.|..|+|||.+..-.+.....+|+++++.+-- |+=|..+.+.+ .+..+ +.+..- .|+.+.+-
T Consensus 138 ~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w---~er~g-----v~vI~~~~G~DpAaV 209 (340)
T COG0552 138 KPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVW---GERLG-----VPVISGKEGADPAAV 209 (340)
T ss_pred CcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHH---HHHhC-----CeEEccCCCCCcHHH
Confidence 355679999999999999998888888899999888743 33333333333 33344 343321 34444332
Q ss_pred HHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCcccc
Q 045263 608 SRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 608 r~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG 651 (742)
-++..+. ..-++.++|+||=|-|+-
T Consensus 210 afDAi~~-------------------Akar~~DvvliDTAGRLh 234 (340)
T COG0552 210 AFDAIQA-------------------AKARGIDVVLIDTAGRLH 234 (340)
T ss_pred HHHHHHH-------------------HHHcCCCEEEEeCccccc
Confidence 2222211 224567778888877763
No 419
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=88.47 E-value=3.9 Score=41.81 Aligned_cols=37 Identities=19% Similarity=0.280 Sum_probs=30.3
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcC------CeEEEEcccH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSG------YQAAFMVPTE 570 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g------~qvlilaPT~ 570 (742)
-..|.|++|+|||..++..+...+..+ ..++++....
T Consensus 21 v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 21 ITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred EEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence 679999999999999988887776666 7788877543
No 420
>PRK08006 replicative DNA helicase; Provisional
Probab=88.46 E-value=2.4 Score=49.11 Aligned_cols=122 Identities=16% Similarity=0.154 Sum_probs=71.5
Q ss_pred HHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHH-hcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEE
Q 045263 519 AISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVI-GSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIA 597 (742)
Q Consensus 519 aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l-~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ 597 (742)
.++.+..+++.+. -++|.|.+|.|||..++-.+..+. ..|..|+|+... -=.+|+..++........ ..
T Consensus 213 ~LD~~~~Gl~~G~--LiiIaarPgmGKTafalnia~~~a~~~g~~V~~fSlE-M~~~ql~~Rlla~~~~v~-------~~ 282 (471)
T PRK08006 213 DLNKKTAGLQPSD--LIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLE-MPGEQIMMRMLASLSRVD-------QT 282 (471)
T ss_pred HHHHhhcCCCCCc--EEEEEeCCCCCHHHHHHHHHHHHHHhcCCeEEEEecc-CCHHHHHHHHHHHhcCCC-------HH
Confidence 4666667776654 678899999999999888777765 457778777543 445666666655433221 11
Q ss_pred -EEeCCCChHHHHHHHHHhhc--CCccEEEe-----chHHHhh---c--cccCCccEEEEeCCccc
Q 045263 598 -LLTGSTPVKQSRMIRKDLQT--GDITLVIG-----THSLIAE---K--VEFSALRLAIVDEQQRF 650 (742)
Q Consensus 598 -ll~G~~~~~er~~i~~~l~~--G~~~IVVg-----T~~~l~~---~--v~~~~l~LVIIDEaHrf 650 (742)
+-.|..+..++..+...... ....+.|- |...+.. . .....+++||||=.|.+
T Consensus 283 ~i~~~~l~~~e~~~~~~a~~~~~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli 348 (471)
T PRK08006 283 RIRTGQLDDEDWARISGTMGILLEKRNMYIDDSSGLTPTEVRSRARRIFREHGGLSLIMIDYLQLM 348 (471)
T ss_pred HhhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccHHHc
Confidence 22466666655443322110 12345543 2222211 1 11236899999988876
No 421
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=88.42 E-value=3.1 Score=47.89 Aligned_cols=45 Identities=24% Similarity=0.352 Sum_probs=28.4
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHh---cCCeEEEEcccHHHHHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIG---SGYQAAFMVPTELLATQHYEHL 580 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~---~g~qvlilaPT~~La~Q~~~~l 580 (742)
..+|.|++|+|||-.+ .++...+. .+.+++++.+ ..+..++...+
T Consensus 143 pl~i~G~~G~GKTHLl-~Ai~~~l~~~~~~~~v~yv~~-~~f~~~~~~~l 190 (450)
T PRK14087 143 PLFIYGESGMGKTHLL-KAAKNYIESNFSDLKVSYMSG-DEFARKAVDIL 190 (450)
T ss_pred ceEEECCCCCcHHHHH-HHHHHHHHHhCCCCeEEEEEH-HHHHHHHHHHH
Confidence 4789999999999665 34444332 3567776555 45555554443
No 422
>PRK06321 replicative DNA helicase; Provisional
Probab=88.30 E-value=2.2 Score=49.41 Aligned_cols=126 Identities=15% Similarity=0.149 Sum_probs=71.7
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHH-hcCCeEEEEcccHHHHHHHHHHHHHhhhhccCC
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVI-GSGYQAAFMVPTELLATQHYEHLLKLLDNMEED 590 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l-~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~ 590 (742)
+|++ ..++.+..++..+. -++|.|.+|.|||..++..+..+. ..|..++|+.. +.=.+|+..++.......
T Consensus 210 ~tG~--~~LD~~t~Gl~~G~--LiiiaarPgmGKTafal~ia~~~a~~~g~~v~~fSL-EMs~~ql~~Rlla~~s~v--- 281 (472)
T PRK06321 210 PTHF--IDLDKMINGFSPSN--LMILAARPAMGKTALALNIAENFCFQNRLPVGIFSL-EMTVDQLIHRIICSRSEV--- 281 (472)
T ss_pred ccCc--HHHHHHhcCCCCCc--EEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEec-cCCHHHHHHHHHHhhcCC---
Confidence 4554 35677777776654 568899999999999887666654 45777777642 234566666654432221
Q ss_pred CCCcEE-EEEeCCCChHHHHHHHH---HhhcCCccEEEe-ch----HHHhh----ccccCCccEEEEeCCcccc
Q 045263 591 KHKPKI-ALLTGSTPVKQSRMIRK---DLQTGDITLVIG-TH----SLIAE----KVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 591 ~~~i~V-~ll~G~~~~~er~~i~~---~l~~G~~~IVVg-T~----~~l~~----~v~~~~l~LVIIDEaHrfG 651 (742)
.. .+..|..+..++..+.. .+.+ ..+.|- ++ ..+.. ...-.++++||||=.|-+.
T Consensus 282 ----~~~~i~~~~l~~~e~~~~~~a~~~l~~--~~~~idd~~~~ti~~i~~~~r~~~~~~~~~lvvIDyLql~~ 349 (472)
T PRK06321 282 ----ESKKISVGDLSGRDFQRIVSVVNEMQE--HTLLIDDQPGLKITDLRARARRMKESYDIQFLIIDYLQLLS 349 (472)
T ss_pred ----CHHHhhcCCCCHHHHHHHHHHHHHHHc--CCEEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHHcC
Confidence 11 12245565555543322 2222 345553 22 22211 1122468999999888763
No 423
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=88.29 E-value=1.3 Score=54.95 Aligned_cols=53 Identities=26% Similarity=0.267 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhc-------C-CCCCC-ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcc
Q 045263 515 SQLSAISEIIWDL-------K-QPVPM-NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVP 568 (742)
Q Consensus 515 ~Q~~aI~~I~~~~-------~-~~~~~-~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaP 568 (742)
.|..|+..+.+.+ . ..+|. .+++.||||+|||.++-..+.. +..+.+.++-..
T Consensus 570 GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~-l~~~~~~~~~~d 631 (852)
T TIGR03345 570 GQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAEL-LYGGEQNLITIN 631 (852)
T ss_pred ChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHH-HhCCCcceEEEe
Confidence 6777777776543 2 12343 4799999999999988655443 333344444443
No 424
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=88.25 E-value=1.3 Score=47.87 Aligned_cols=130 Identities=21% Similarity=0.180 Sum_probs=72.8
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRK 613 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~ 613 (742)
.+||.||+|+||+..+-..+- +.+ ...|-+-+..|+..|..+-.++.+.+ ++
T Consensus 168 giLLyGPPGTGKSYLAKAVAT---EAn-STFFSvSSSDLvSKWmGESEkLVknL------------------------Fe 219 (439)
T KOG0739|consen 168 GILLYGPPGTGKSYLAKAVAT---EAN-STFFSVSSSDLVSKWMGESEKLVKNL------------------------FE 219 (439)
T ss_pred eEEEeCCCCCcHHHHHHHHHh---hcC-CceEEeehHHHHHHHhccHHHHHHHH------------------------HH
Confidence 579999999999875543332 234 67888888888887766555543321 11
Q ss_pred HhhcCCccEEEechHHHhhccccCCccEEEEeCCcccc-ccchhhh-hhhhhccccccccccccCCCCCCCCCCCCCcEE
Q 045263 614 DLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRFG-VVQRGRF-NSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVL 691 (742)
Q Consensus 614 ~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrfG-~~qr~~l-~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL 691 (742)
..+ -+....|.|||.+.+. ......- ...+...+. ...+-+..+.+--+|
T Consensus 220 mAR-------------------e~kPSIIFiDEiDslcg~r~enEseasRRIKTEf---------LVQMqGVG~d~~gvL 271 (439)
T KOG0739|consen 220 MAR-------------------ENKPSIIFIDEIDSLCGSRSENESEASRRIKTEF---------LVQMQGVGNDNDGVL 271 (439)
T ss_pred HHH-------------------hcCCcEEEeehhhhhccCCCCCchHHHHHHHHHH---------HHhhhccccCCCceE
Confidence 111 1344578899999762 2111100 000000000 001113333455688
Q ss_pred EEcCCCCHHHHHHHHcCCCCeeeeccCC
Q 045263 692 AMSATPIPRTLALALYGDMSLTQITDLP 719 (742)
Q Consensus 692 ~mSATPiprtla~~l~gdl~~s~I~e~P 719 (742)
++-||-||=+|..++....+--+-..+|
T Consensus 272 VLgATNiPw~LDsAIRRRFekRIYIPLP 299 (439)
T KOG0739|consen 272 VLGATNIPWVLDSAIRRRFEKRIYIPLP 299 (439)
T ss_pred EEecCCCchhHHHHHHHHhhcceeccCC
Confidence 8999999999888876554444444444
No 425
>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=88.23 E-value=2.9 Score=51.62 Aligned_cols=78 Identities=18% Similarity=0.184 Sum_probs=63.8
Q ss_pred CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc
Q 045263 560 GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL 639 (742)
Q Consensus 560 g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l 639 (742)
+.++||.+|+..-++++++.+.+.+. .+ +.+..+||+++.+++..+++...+|...|||+|.- ....+.+.++
T Consensus 209 ~g~iLVFlpg~~eI~~l~~~L~~~~~-~~-----~~v~pLHg~L~~~eq~~~~~~~~~G~rkVlVATnI-AErgItIp~V 281 (819)
T TIGR01970 209 TGSILVFLPGQAEIRRVQEQLAERLD-SD-----VLICPLYGELSLAAQDRAIKPDPQGRRKVVLATNI-AETSLTIEGI 281 (819)
T ss_pred CCcEEEEECCHHHHHHHHHHHHhhcC-CC-----cEEEEecCCCCHHHHHHHHhhcccCCeEEEEecch-HhhcccccCc
Confidence 57899999999999999988877542 12 78999999999999999999999999999999963 3346677888
Q ss_pred cEEEE
Q 045263 640 RLAIV 644 (742)
Q Consensus 640 ~LVII 644 (742)
.+||=
T Consensus 282 ~~VID 286 (819)
T TIGR01970 282 RVVID 286 (819)
T ss_pred eEEEE
Confidence 76663
No 426
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=88.20 E-value=1.7 Score=57.30 Aligned_cols=145 Identities=19% Similarity=0.152 Sum_probs=84.7
Q ss_pred HHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHH--HHHHHH--hcCCeEEEEcccHHHHHHHH
Q 045263 502 KKLLRALPYSLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFL--ACMEVI--GSGYQAAFMVPTELLATQHY 577 (742)
Q Consensus 502 ~~~~~~lpf~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~--ail~~l--~~g~qvlilaPT~~La~Q~~ 577 (742)
..+.+.+.+.|++.|++|+..++..- + .-.+|+|..|+|||.+.-. .++..+ ..|++++.++||--=+.++.
T Consensus 958 ~~~~~~~~~~Lt~~Q~~Av~~il~s~--d--r~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~ 1033 (1747)
T PRK13709 958 ERVPGELMEGLTSGQRAATRMILEST--D--RFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMR 1033 (1747)
T ss_pred hhHHHHhcCCCCHHHHHHHHHHHhCC--C--cEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHH
Confidence 34445567889999999999999632 1 2679999999999987432 222222 23678999999986666543
Q ss_pred H------HHHHhhhhc------c-CCCCCcEEEEEeCC--CChHHHHHHHHHhhc-CCccEEEechHHHhh--------c
Q 045263 578 E------HLLKLLDNM------E-EDKHKPKIALLTGS--TPVKQSRMIRKDLQT-GDITLVIGTHSLIAE--------K 633 (742)
Q Consensus 578 ~------~l~~~l~~~------~-~~~~~i~V~ll~G~--~~~~er~~i~~~l~~-G~~~IVVgT~~~l~~--------~ 633 (742)
+ .+.+++... + .....-.+.++.-. .+...-..++..+.. |.--|+||-+..|.. .
T Consensus 1034 e~Gi~A~TI~s~L~~~~~~~~~~~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~aG~~f~~ 1113 (1747)
T PRK13709 1034 SAGVDAQTLASFLHDTQLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPGQPFRL 1113 (1747)
T ss_pred hcCcchhhHHHHhcccccccccccCCCCCCcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCCCChHHHH
Confidence 3 233333210 0 00011234444333 233444455555554 434466887665522 1
Q ss_pred c-ccCCccEEEEeCCccc
Q 045263 634 V-EFSALRLAIVDEQQRF 650 (742)
Q Consensus 634 v-~~~~l~LVIIDEaHrf 650 (742)
+ ....+..+.++|.+|=
T Consensus 1114 l~~~~~i~~~~L~eI~RQ 1131 (1747)
T PRK13709 1114 MQTRSAADVAIMKEIVRQ 1131 (1747)
T ss_pred HHHhCCCCeEEeCeEEcC
Confidence 1 1234667889998884
No 427
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=88.12 E-value=1.6 Score=46.75 Aligned_cols=74 Identities=19% Similarity=0.217 Sum_probs=61.6
Q ss_pred CeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCcc
Q 045263 561 YQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSALR 640 (742)
Q Consensus 561 ~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~ 640 (742)
.|+++.+.|+.-++-+.+.++... ..|..+||++..++|..+...+++|...|+|+|.- +...+....+.
T Consensus 267 tQavIFcnTk~kVdwLtekm~~~n---------ftVssmHGDm~qkERd~im~dFRsg~SrvLitTDV-waRGiDv~qVs 336 (400)
T KOG0328|consen 267 TQAVIFCNTKRKVDWLTEKMREAN---------FTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTDV-WARGIDVQQVS 336 (400)
T ss_pred heEEEEecccchhhHHHHHHHhhC---------ceeeeccCCcchhHHHHHHHHhhcCCceEEEEech-hhccCCcceeE
Confidence 689999999999888877777632 68999999999999999999999999999999964 33456667777
Q ss_pred EEEE
Q 045263 641 LAIV 644 (742)
Q Consensus 641 LVII 644 (742)
|||=
T Consensus 337 lviN 340 (400)
T KOG0328|consen 337 LVIN 340 (400)
T ss_pred EEEe
Confidence 7774
No 428
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=87.91 E-value=3.4 Score=45.89 Aligned_cols=44 Identities=23% Similarity=0.199 Sum_probs=31.3
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
+.|+|+...+.+..- ....+...|++||.|.||+..+...+...
T Consensus 2 ~yPW~~~~~~~l~~~-~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~L 45 (342)
T PRK06964 2 LYPWQTDDWNRLQAL-RARLPHALLLHGQAGIGKLDFAQHLAQGL 45 (342)
T ss_pred CCcccHHHHHHHHHh-cCCcceEEEEECCCCCCHHHHHHHHHHHH
Confidence 357777777777664 33445578999999999999876555433
No 429
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=87.86 E-value=2.2 Score=46.96 Aligned_cols=45 Identities=20% Similarity=0.254 Sum_probs=31.3
Q ss_pred CCHHHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
+...|..++..+...+..++ +...|+.||.|+|||..+...+...
T Consensus 7 i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l 52 (329)
T PRK08058 7 LTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSL 52 (329)
T ss_pred HHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence 34457778877777665544 3345999999999998776554443
No 430
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=87.84 E-value=3.8 Score=44.90 Aligned_cols=43 Identities=23% Similarity=0.245 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~l 557 (742)
.|..+...+.....+++ +...|++||.|+||+..+...+...+
T Consensus 8 Gq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~ll 51 (314)
T PRK07399 8 GQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLL 51 (314)
T ss_pred CHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHc
Confidence 35566666555544443 45789999999999987765555443
No 431
>PRK03858 DNA polymerase IV; Validated
Probab=87.83 E-value=0.35 Score=54.40 Aligned_cols=36 Identities=14% Similarity=0.160 Sum_probs=31.7
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCcce
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRTYA 245 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrrYe 245 (742)
.||+.|+|||+++++.|+++||+|+.||.. .|+...
T Consensus 173 lpl~~l~Gig~~~~~~L~~~Gi~t~~dl~~-l~~~~L 208 (396)
T PRK03858 173 LPVRRLWGVGPVTAAKLRAHGITTVGDVAE-LPESAL 208 (396)
T ss_pred CChhhcCCCCHHHHHHHHHhCCCcHHHHhc-CCHHHH
Confidence 599999999999999999999999999986 465443
No 432
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=87.75 E-value=1.1 Score=49.23 Aligned_cols=55 Identities=27% Similarity=0.320 Sum_probs=38.5
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh---cCCeEEEEcccHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG---SGYQAAFMVPTELL 572 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~---~g~qvlilaPT~~L 572 (742)
+++.|.+.+..+... +.|.++.|+||||||... .+++..+. .+.+++.+=.+.+|
T Consensus 129 ~~~~~~~~L~~~v~~-----~~nilI~G~tGSGKTTll-~aL~~~i~~~~~~~rivtiEd~~El 186 (323)
T PRK13833 129 MTEAQASVIRSAIDS-----RLNIVISGGTGSGKTTLA-NAVIAEIVASAPEDRLVILEDTAEI 186 (323)
T ss_pred CCHHHHHHHHHHHHc-----CCeEEEECCCCCCHHHHH-HHHHHHHhcCCCCceEEEecCCccc
Confidence 677888888877763 248999999999999765 44444442 34566666666665
No 433
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=87.67 E-value=0.46 Score=44.78 Aligned_cols=28 Identities=25% Similarity=0.338 Sum_probs=25.6
Q ss_pred CCCCHHHHHHHHhCCCCCHhHHhhcCCC
Q 045263 215 PGLSKRLYHQLENCGFYTLRKLLHHFPR 242 (742)
Q Consensus 215 kGVG~k~~~~L~klGI~Tv~DLL~~fPr 242 (742)
||+|++.+++|++.||+|+.|||..-|.
T Consensus 1 pgi~~~~~~~L~~~GI~t~~~Ll~~~~~ 28 (122)
T PF14229_consen 1 PGIGPKEAAKLKAAGIKTTGDLLEAGDT 28 (122)
T ss_pred CCCCHHHHHHHHHcCCCcHHHHHHcCCC
Confidence 7999999999999999999999987653
No 434
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=87.61 E-value=0.97 Score=46.45 Aligned_cols=36 Identities=19% Similarity=0.321 Sum_probs=30.8
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcc
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVP 568 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaP 568 (742)
.-.++.|++|+|||..++..+...+..|.+++|+.=
T Consensus 24 ~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~ 59 (225)
T PRK09361 24 TITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDT 59 (225)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEC
Confidence 367999999999999999888888888888888753
No 435
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=87.46 E-value=4.4 Score=48.46 Aligned_cols=131 Identities=14% Similarity=0.134 Sum_probs=79.5
Q ss_pred ceEEEccCCChHHHHHHHHHHHHH--hcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVI--GSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMI 611 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l--~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i 611 (742)
-.++..|==.|||++....+...+ ..|.++++.+|....++..++++...+.... ....+....|. ..
T Consensus 256 ~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~le~~f---~~~~v~~vkGe-~I------ 325 (738)
T PHA03368 256 ATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGARLRQWF---GASRVDHVKGE-TI------ 325 (738)
T ss_pred ceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHHHhhhc---chhheeeecCc-EE------
Confidence 447778888999997653333233 3599999999999999999999999876531 00122222331 11
Q ss_pred HHHhhcCC-ccEEEe-chHHHhhccccCCccEEEEeCCccccccchhhhhhhhhccccccccccccCCCCCCCCCCCCCc
Q 045263 612 RKDLQTGD-ITLVIG-THSLIAEKVEFSALRLAIVDEQQRFGVVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPH 689 (742)
Q Consensus 612 ~~~l~~G~-~~IVVg-T~~~l~~~v~~~~l~LVIIDEaHrfG~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~ 689 (742)
.-.+.+|. ..|.++ ++.. ....-.+++++|||||+-...++...+..-. . ..++.
T Consensus 326 ~i~f~nG~kstI~FaSarnt--NsiRGqtfDLLIVDEAqFIk~~al~~ilp~l-------------------~--~~n~k 382 (738)
T PHA03368 326 SFSFPDGSRSTIVFASSHNT--NGIRGQDFNLLFVDEANFIRPDAVQTIMGFL-------------------N--QTNCK 382 (738)
T ss_pred EEEecCCCccEEEEEeccCC--CCccCCcccEEEEechhhCCHHHHHHHHHHH-------------------h--ccCcc
Confidence 00123342 245555 2110 0123347899999999987666655544211 0 12678
Q ss_pred EEEEcCCC
Q 045263 690 VLAMSATP 697 (742)
Q Consensus 690 vL~mSATP 697 (742)
++.+|-|-
T Consensus 383 ~I~ISS~N 390 (738)
T PHA03368 383 IIFVSSTN 390 (738)
T ss_pred EEEEecCC
Confidence 88899884
No 436
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=87.38 E-value=3.9 Score=44.90 Aligned_cols=36 Identities=22% Similarity=0.226 Sum_probs=28.5
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
+..+++.||+|+|||.++...+......|++++++.
T Consensus 114 ~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~ 149 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAA 149 (318)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEe
Confidence 346789999999999988777666666788888775
No 437
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=87.37 E-value=2.6 Score=51.08 Aligned_cols=122 Identities=15% Similarity=0.161 Sum_probs=84.4
Q ss_pred HHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHH--HHHHHHHhhcCCccEEEechHHHhhccccCCccEEEEeCCccc
Q 045263 573 ATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQ--SRMIRKDLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQRF 650 (742)
Q Consensus 573 a~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~e--r~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHrf 650 (742)
.+++.+++.++|+. .++..+.++++... -+..+..+.+|+++|+|||.... +...|.++.||.|=.+|-.
T Consensus 493 terieeeL~~~FP~-------~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmia-KG~~fp~vtLVgvl~aD~~ 564 (730)
T COG1198 493 TERIEEELKRLFPG-------ARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIA-KGHDFPNVTLVGVLDADTG 564 (730)
T ss_pred HHHHHHHHHHHCCC-------CcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhh-cCCCcccceEEEEEechhh
Confidence 57888899999875 57888888876533 44677889999999999998644 5788999999999888875
Q ss_pred c----ccchhhhhhhhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHHHHcCCCCeee
Q 045263 651 G----VVQRGRFNSKLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLALALYGDMSLTQ 714 (742)
Q Consensus 651 G----~~qr~~l~~k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~~l~gdl~~s~ 714 (742)
. +...++........ .....|++ ....+++=|+.|.--++..+..+|++-..
T Consensus 565 L~~~DfRA~Er~fqll~Qv----------aGRAgR~~--~~G~VvIQT~~P~hp~i~~~~~~dy~~F~ 620 (730)
T COG1198 565 LGSPDFRASERTFQLLMQV----------AGRAGRAG--KPGEVVIQTYNPDHPAIQALKRGDYEAFY 620 (730)
T ss_pred hcCCCcchHHHHHHHHHHH----------HhhhccCC--CCCeEEEEeCCCCcHHHHHHHhcCHHHHH
Confidence 3 22223322221110 01112222 34468888999998888888888876654
No 438
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=87.36 E-value=5.4 Score=39.79 Aligned_cols=26 Identities=23% Similarity=0.415 Sum_probs=20.2
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHH
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l 557 (742)
+...|+.||.|+|||.++...+....
T Consensus 14 ~~~~L~~G~~G~gkt~~a~~~~~~l~ 39 (188)
T TIGR00678 14 AHAYLFAGPEGVGKELLALALAKALL 39 (188)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHc
Confidence 34689999999999988766655544
No 439
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=87.36 E-value=1.5 Score=45.55 Aligned_cols=50 Identities=16% Similarity=0.260 Sum_probs=37.7
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
..+++.|++|+|||..+...+...+.+|.+++|+.=.+. ..++.+.+.++
T Consensus 26 ~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~-~~~~~~~~~~~ 75 (234)
T PRK06067 26 SLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENT-SKSYLKQMESV 75 (234)
T ss_pred cEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCC-HHHHHHHHHHC
Confidence 367999999999999998888888888888888875433 34555555443
No 440
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=87.33 E-value=3.6 Score=51.99 Aligned_cols=75 Identities=16% Similarity=0.214 Sum_probs=64.0
Q ss_pred CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc
Q 045263 560 GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL 639 (742)
Q Consensus 560 g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l 639 (742)
+..++|.+.|+.-++++++.+.+ .+ +.+..+||+++..+|..+.+.+.+|+++|||+|-+. .-.+.+.++
T Consensus 680 ~esgIIYC~SRke~E~LAe~L~~----~G-----ika~~YHAGLs~eeR~~vqe~F~~Gei~VLVATdAF-GMGIDkPDV 749 (1195)
T PLN03137 680 DECGIIYCLSRMDCEKVAERLQE----FG-----HKAAFYHGSMDPAQRAFVQKQWSKDEINIICATVAF-GMGINKPDV 749 (1195)
T ss_pred CCCceeEeCchhHHHHHHHHHHH----CC-----CCeeeeeCCCCHHHHHHHHHHHhcCCCcEEEEechh-hcCCCccCC
Confidence 45688999999999888887765 34 789999999999999999999999999999999764 447888999
Q ss_pred cEEEE
Q 045263 640 RLAIV 644 (742)
Q Consensus 640 ~LVII 644 (742)
++||-
T Consensus 750 R~VIH 754 (1195)
T PLN03137 750 RFVIH 754 (1195)
T ss_pred cEEEE
Confidence 99884
No 441
>PRK05636 replicative DNA helicase; Provisional
Probab=87.19 E-value=1.8 Score=50.52 Aligned_cols=122 Identities=13% Similarity=0.141 Sum_probs=68.3
Q ss_pred HHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHH-hcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEE
Q 045263 519 AISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVI-GSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIA 597 (742)
Q Consensus 519 aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l-~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ 597 (742)
.++.+..+++.+. -++|.|.+|.|||..++..+.... ..|..++|. -.+.-..|+..++........ .. .
T Consensus 254 ~LD~~t~Gl~~G~--Liiiaarpg~GKT~~al~~a~~~a~~~g~~v~~f-SlEMs~~ql~~R~ls~~s~v~-----~~-~ 324 (505)
T PRK05636 254 DLDDLTNGLRGGQ--MIIVAARPGVGKSTLALDFMRSASIKHNKASVIF-SLEMSKSEIVMRLLSAEAEVR-----LS-D 324 (505)
T ss_pred HHhhhcCCCCCCc--eEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEE-EeeCCHHHHHHHHHHHhcCCC-----HH-H
Confidence 4566666665554 568899999999998886666554 457777666 333345555555544322211 00 1
Q ss_pred EEeCCCChHHHHHHHHH---hhcCCccEEEe-chH----HHhh----ccccCCccEEEEeCCcccc
Q 045263 598 LLTGSTPVKQSRMIRKD---LQTGDITLVIG-THS----LIAE----KVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 598 ll~G~~~~~er~~i~~~---l~~G~~~IVVg-T~~----~l~~----~v~~~~l~LVIIDEaHrfG 651 (742)
+..|..+..++..+... +.+ ..+.|- ++. .+.. ...-..+++||||=.|.+.
T Consensus 325 i~~g~l~~~e~~~~~~a~~~l~~--~~l~I~d~~~~ti~~I~~~~r~~~~~~~~~lvvIDYLql~~ 388 (505)
T PRK05636 325 MRGGKMDEDAWEKLVQRLGKIAQ--APIFIDDSANLTMMEIRSKARRLKQKHDLKLIVVDYLQLMS 388 (505)
T ss_pred HhcCCCCHHHHHHHHHHHHHHhc--CCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhcC
Confidence 23456666655443322 222 344443 222 2211 1122468999999999874
No 442
>PRK08840 replicative DNA helicase; Provisional
Probab=87.17 E-value=3 Score=48.19 Aligned_cols=128 Identities=16% Similarity=0.150 Sum_probs=73.8
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHH-hcCCeEEEEcccHHHHHHHHHHHHHhhhhccCC
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVI-GSGYQAAFMVPTELLATQHYEHLLKLLDNMEED 590 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l-~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~ 590 (742)
+|.+. .++.+..+++.+. -++|.|.+|.|||..++-.+..+. ..|..++|+... -=.+|+..++........
T Consensus 201 ~TG~~--~LD~~~~G~~~g~--LiviaarPg~GKTafalnia~~~a~~~~~~v~~fSlE-Ms~~ql~~Rlla~~s~v~-- 273 (464)
T PRK08840 201 DTGFT--DLNKKTAGLQGSD--LIIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLE-MPAEQLMMRMLASLSRVD-- 273 (464)
T ss_pred CCCcH--HHHHhhcCCCCCc--eEEEEeCCCCchHHHHHHHHHHHHHhCCCeEEEEecc-CCHHHHHHHHHHhhCCCC--
Confidence 45543 4666677776654 678899999999999877776665 457777777543 446777777655433221
Q ss_pred CCCcEEEEEeCCCChHHHHHHHH---HhhcCCccEEEe-c----hHHHhh---c--cccCCccEEEEeCCcccc
Q 045263 591 KHKPKIALLTGSTPVKQSRMIRK---DLQTGDITLVIG-T----HSLIAE---K--VEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 591 ~~~i~V~ll~G~~~~~er~~i~~---~l~~G~~~IVVg-T----~~~l~~---~--v~~~~l~LVIIDEaHrfG 651 (742)
.-.+..|..+..++..+.. .+.. ...+.|- + ...+.. . .....+++||||=.|.+.
T Consensus 274 ----~~~i~~~~l~~~e~~~~~~a~~~l~~-~~~l~I~d~~~~ti~~i~~~~r~~~~~~~~~~lvvIDYLql~~ 342 (464)
T PRK08840 274 ----QTKIRTGQLDDEDWARISSTMGILME-KKNMYIDDSSGLTPTEVRSRARRIAREHGGLSMIMVDYLQLMR 342 (464)
T ss_pred ----HHHHhcCCCCHHHHHHHHHHHHHHHh-cCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccHHhcC
Confidence 0112345666666554322 2211 2344443 2 222221 1 112358999999888763
No 443
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=87.04 E-value=1.6 Score=47.39 Aligned_cols=55 Identities=27% Similarity=0.338 Sum_probs=39.1
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc---CCeEEEEcccHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS---GYQAAFMVPTELL 572 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~---g~qvlilaPT~~L 572 (742)
+++.|.+.+..+... ..+.++.|+||||||... .+++..+.. +.+++.+=.+.+|
T Consensus 117 ~~~~~~~~L~~~v~~-----~~~ilI~G~tGSGKTTll-~al~~~i~~~~~~~ri~tiEd~~El 174 (299)
T TIGR02782 117 MTAAQRDVLREAVLA-----RKNILVVGGTGSGKTTLA-NALLAEIAKNDPTDRVVIIEDTREL 174 (299)
T ss_pred CCHHHHHHHHHHHHc-----CCeEEEECCCCCCHHHHH-HHHHHHhhccCCCceEEEECCchhh
Confidence 667777777777652 248999999999999765 444454432 5678877777666
No 444
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=87.01 E-value=0.79 Score=50.43 Aligned_cols=62 Identities=21% Similarity=0.214 Sum_probs=47.0
Q ss_pred CCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHH
Q 045263 509 PYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQH 576 (742)
Q Consensus 509 pf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~ 576 (742)
.|. +++.|-..+..+.... .|.|+.|.||||||.. +-++...+...-+++.+=-|.+|.-+|
T Consensus 154 ~~gt~~~~~a~~L~~av~~r-----~NILisGGTGSGKTTl-LNal~~~i~~~eRvItiEDtaELql~~ 216 (355)
T COG4962 154 IFGTMIRRAAKFLRRAVGIR-----CNILISGGTGSGKTTL-LNALSGFIDSDERVITIEDTAELQLAH 216 (355)
T ss_pred HcCCcCHHHHHHHHHHHhhc-----eeEEEeCCCCCCHHHH-HHHHHhcCCCcccEEEEeehhhhccCC
Confidence 454 8999999998888753 5899999999999964 344444455556899999998886554
No 445
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=87.00 E-value=3.3 Score=47.70 Aligned_cols=42 Identities=21% Similarity=0.203 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
.|..++..+......+. +...|+.||.|+|||.++...+-..
T Consensus 21 Gq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l 63 (451)
T PRK06305 21 GQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKAL 63 (451)
T ss_pred CcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence 35556665555544433 3457999999999999886665544
No 446
>PRK03348 DNA polymerase IV; Provisional
Probab=86.94 E-value=0.46 Score=54.66 Aligned_cols=37 Identities=14% Similarity=0.079 Sum_probs=32.0
Q ss_pred hccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCcce
Q 045263 208 DKCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRTYA 245 (742)
Q Consensus 208 ~~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrrYe 245 (742)
..||..|+|||+++.++|+++||+|+.||... |+...
T Consensus 179 ~LPv~~L~GIG~~t~~~L~~lGI~TigDLa~l-~~~~L 215 (454)
T PRK03348 179 PLPVRRLWGIGPVTEEKLHRLGIETIGDLAAL-SEAEV 215 (454)
T ss_pred hCCccccCCCCHHHHHHHHHcCCccHHHHhcC-CHHHH
Confidence 35999999999999999999999999999873 55443
No 447
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=86.86 E-value=3.3 Score=44.47 Aligned_cols=24 Identities=33% Similarity=0.476 Sum_probs=19.7
Q ss_pred ceEEEccCCChHHHHHHHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l 557 (742)
..|++||.|+|||.++...+-...
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~ 49 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELL 49 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHh
Confidence 489999999999998776666554
No 448
>PRK08939 primosomal protein DnaI; Reviewed
Probab=86.79 E-value=1.5 Score=47.79 Aligned_cols=35 Identities=23% Similarity=0.343 Sum_probs=30.2
Q ss_pred CCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEE
Q 045263 532 PMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFM 566 (742)
Q Consensus 532 ~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlil 566 (742)
..+.+|.|++|+|||..+...+..++..|..+.++
T Consensus 156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~ 190 (306)
T PRK08939 156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLL 190 (306)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 35789999999999999888888888888888776
No 449
>PRK02794 DNA polymerase IV; Provisional
Probab=86.69 E-value=0.42 Score=54.29 Aligned_cols=36 Identities=17% Similarity=0.146 Sum_probs=32.3
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCcce
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRTYA 245 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrrYe 245 (742)
.||+.|+|||+++.++|+++||+|+.||..+ |+...
T Consensus 209 lPl~~L~GiG~~~~~~L~~~GI~tigdL~~l-~~~~L 244 (419)
T PRK02794 209 KPVGIIWGVGPATAARLARDGIRTIGDLQRA-DEADL 244 (419)
T ss_pred CChhhhCCCCHHHHHHHHHhccchHHHHhhC-CHHHH
Confidence 4999999999999999999999999999875 76554
No 450
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=86.57 E-value=2.9 Score=48.02 Aligned_cols=132 Identities=17% Similarity=0.130 Sum_probs=72.7
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHHHHHHHHhhhhc--
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQHYEHLLKLLDNM-- 587 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~~~~l~~~l~~~-- 587 (742)
+...|.+|.-++..+- . .++|-.|||||.+.++-+.+.-.. .-|++|-.-|+.|+.|+...+.+++-..
T Consensus 163 fD~~Q~kaa~~~~~G~------q-rIrGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~f~~~e 235 (660)
T COG3972 163 FDTDQTKAAFQSGFGK------Q-RIRGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEFFFMRVE 235 (660)
T ss_pred ccchhheeeeecCCch------h-hhhcccCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHHHHHhh
Confidence 4556766654433221 1 678899999999866555444333 5799999999999999988877765221
Q ss_pred -cCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEec---------hHHHhhccccCCccEEEEeCCcccc
Q 045263 588 -EEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGT---------HSLIAEKVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 588 -~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT---------~~~l~~~v~~~~l~LVIIDEaHrfG 651 (742)
..+.+.+-+..-.|+.+..--...+..+ .+...+-.+- -+++++.-..+-++.|.|||.+.|.
T Consensus 236 ~~pdW~~~l~~h~wgG~t~~g~y~~~~~~-~~~~~~~fsg~g~~F~~aC~eli~~~~~~~~yD~ilIDE~QDFP 308 (660)
T COG3972 236 KQPDWGTKLFCHNWGGLTKEGFYGMYRYI-CHYYEIPFSGFGNGFDAACKELIADINNKKAYDYILIDESQDFP 308 (660)
T ss_pred cCCCccceEEEeccCCCCCCcchHHHHHH-hcccccccCCCCcchHHHHHHHHHhhhccccccEEEecccccCC
Confidence 1012222232223333322111111111 1111222111 1234443446678999999999873
No 451
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=86.44 E-value=3.9 Score=41.47 Aligned_cols=37 Identities=16% Similarity=0.145 Sum_probs=23.1
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTEL 571 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~ 571 (742)
-+++.||||||||.+... ++..+.. +..++.+--..+
T Consensus 3 lilI~GptGSGKTTll~~-ll~~~~~~~~~~i~t~e~~~E 41 (198)
T cd01131 3 LVLVTGPTGSGKSTTLAA-MIDYINKNKTHHILTIEDPIE 41 (198)
T ss_pred EEEEECCCCCCHHHHHHH-HHHHhhhcCCcEEEEEcCCcc
Confidence 468999999999987643 3333432 345555544333
No 452
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=86.44 E-value=1.9 Score=44.37 Aligned_cols=51 Identities=14% Similarity=0.157 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEc
Q 045263 515 SQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMV 567 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlila 567 (742)
....++..+.... .....+++.|++|+|||-.+..........|..++++-
T Consensus 27 ~~~~~l~~~~~~~--~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~ 77 (227)
T PRK08903 27 ELVARLRELAAGP--VADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLD 77 (227)
T ss_pred HHHHHHHHHHhcc--CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence 3344444444322 22347899999999999877666665556666666554
No 453
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=86.37 E-value=1.1 Score=51.98 Aligned_cols=50 Identities=16% Similarity=0.144 Sum_probs=38.0
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEcccHHHHHHHHHHHHHh
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
...||.|++|||||..++.-+.+.+.+ |..++|+.-. +-.+|+.+.+.++
T Consensus 22 ~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~~~ 72 (484)
T TIGR02655 22 RSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNARSF 72 (484)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHHHc
Confidence 368999999999999998888877776 7888888743 4455565555554
No 454
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=86.35 E-value=1 Score=52.25 Aligned_cols=64 Identities=16% Similarity=0.047 Sum_probs=48.5
Q ss_pred HHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 518 SAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 518 ~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
..+++++.+ .-......||.||+|+|||..++.-+...+.+|.+++|+. .++-.+|+..++..+
T Consensus 250 ~~lD~~lgG-G~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s-~eEs~~~i~~~~~~l 313 (484)
T TIGR02655 250 VRLDEMCGG-GFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFA-YEESRAQLLRNAYSW 313 (484)
T ss_pred HhHHHHhcC-CccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE-eeCCHHHHHHHHHHc
Confidence 456666643 1122247899999999999999999998888998999887 556678888887665
No 455
>PRK01810 DNA polymerase IV; Validated
Probab=86.25 E-value=0.48 Score=53.52 Aligned_cols=35 Identities=14% Similarity=0.237 Sum_probs=31.2
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCCcc
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPRTY 244 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPrrY 244 (742)
.||+.|+|||+++.++|+++||+|+.||.. .|+.-
T Consensus 179 lpv~~l~giG~~~~~~L~~~Gi~tigdL~~-~~~~~ 213 (407)
T PRK01810 179 LPVGEMHGIGEKTAEKLKDIGIQTIGDLAK-ADEHI 213 (407)
T ss_pred CCHhhcCCcCHHHHHHHHHcCCCcHHHHHh-CCHHH
Confidence 599999999999999999999999999876 47643
No 456
>PRK06893 DNA replication initiation factor; Validated
Probab=86.19 E-value=1.6 Score=45.36 Aligned_cols=35 Identities=11% Similarity=0.037 Sum_probs=28.1
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcc
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVP 568 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaP 568 (742)
..+++||+|+|||-.+...+.++..++.++.++--
T Consensus 41 ~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~ 75 (229)
T PRK06893 41 FFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPL 75 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeH
Confidence 46899999999998887777777777877777654
No 457
>PRK03103 DNA polymerase IV; Reviewed
Probab=86.15 E-value=0.49 Score=53.53 Aligned_cols=33 Identities=21% Similarity=0.334 Sum_probs=30.2
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCC
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPR 242 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPr 242 (742)
.||+.|+|||++..+.|+++||+|+.||... |+
T Consensus 181 lpi~~l~gig~~~~~~L~~~Gi~tigdl~~~-~~ 213 (409)
T PRK03103 181 LPVRKLFGVGSRMEKHLRRMGIRTIGQLANT-PL 213 (409)
T ss_pred CCHhhcCCccHHHHHHHHHcCCCCHHHHhcC-CH
Confidence 5999999999999999999999999998864 54
No 458
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=86.12 E-value=0.51 Score=51.53 Aligned_cols=33 Identities=21% Similarity=0.383 Sum_probs=30.0
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCC
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFP 241 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fP 241 (742)
.||..++|||++.+++|.+.||+|++||+..=|
T Consensus 6 ~~l~~l~gIg~~~a~~L~~~Gi~t~~dl~~~~~ 38 (317)
T PRK04301 6 KDLEDLPGVGPATAEKLREAGYDTVEAIAVASP 38 (317)
T ss_pred ccHhhcCCCCHHHHHHHHHcCCCCHHHHHcCCH
Confidence 488999999999999999999999999987633
No 459
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=86.00 E-value=7.3 Score=47.65 Aligned_cols=112 Identities=21% Similarity=0.282 Sum_probs=61.4
Q ss_pred HHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-------CCeEEEEcccHHHHH-----HHHHHHH
Q 045263 514 SSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-------GYQAAFMVPTELLAT-----QHYEHLL 581 (742)
Q Consensus 514 ~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-------g~qvlilaPT~~La~-----Q~~~~l~ 581 (742)
-.|..-+..+.+-+.+....|.+|.||+|+|||.++-..+...... +..++.+-.+..++. ++.++++
T Consensus 185 igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e~~l~ 264 (731)
T TIGR02639 185 IGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFEERLK 264 (731)
T ss_pred cCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHHHHHH
Confidence 3566666666665555556689999999999999987666655443 344444444333331 3335566
Q ss_pred HhhhhccCCCCCcEEEEE------eCC--C---ChHHHHHHHHHhhcCCccEEEech
Q 045263 582 KLLDNMEEDKHKPKIALL------TGS--T---PVKQSRMIRKDLQTGDITLVIGTH 627 (742)
Q Consensus 582 ~~l~~~~~~~~~i~V~ll------~G~--~---~~~er~~i~~~l~~G~~~IVVgT~ 627 (742)
+++..... . ...+..+ .|. . +......+...+.+|++.+|-+|.
T Consensus 265 ~i~~~~~~-~-~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g~i~~IgaTt 319 (731)
T TIGR02639 265 AVVSEIEK-E-PNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSGKLRCIGSTT 319 (731)
T ss_pred HHHHHHhc-c-CCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCCCeEEEEecC
Confidence 66543210 0 0122222 121 1 112233344567788887776665
No 460
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=85.94 E-value=1.9 Score=45.10 Aligned_cols=83 Identities=23% Similarity=0.275 Sum_probs=47.3
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeE-EEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEe--CCCChHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQA-AFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLT--GSTPVKQSR 609 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qv-lilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~--G~~~~~er~ 609 (742)
.++|+.||+|+|||..|-..+-+. |... .+-+|..+-+.++...+.++-. -.|..+. -..+..+..
T Consensus 51 ~h~lf~GPPG~GKTTLA~IIA~e~---~~~~~~~sg~~i~k~~dl~~il~~l~~--------~~ILFIDEIHRlnk~~qe 119 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLARIIANEL---GVNFKITSGPAIEKAGDLAAILTNLKE--------GDILFIDEIHRLNKAQQE 119 (233)
T ss_dssp -EEEEESSTTSSHHHHHHHHHHHC---T--EEEEECCC--SCHHHHHHHHT--T--------T-EEEECTCCC--HHHHH
T ss_pred ceEEEECCCccchhHHHHHHHhcc---CCCeEeccchhhhhHHHHHHHHHhcCC--------CcEEEEechhhccHHHHH
Confidence 368999999999998776655433 4433 3335654434444443333211 1343332 235667777
Q ss_pred HHHHHhhcCCccEEEec
Q 045263 610 MIRKDLQTGDITLVIGT 626 (742)
Q Consensus 610 ~i~~~l~~G~~~IVVgT 626 (742)
.++-.+.+|.++|+||.
T Consensus 120 ~LlpamEd~~idiiiG~ 136 (233)
T PF05496_consen 120 ILLPAMEDGKIDIIIGK 136 (233)
T ss_dssp HHHHHHHCSEEEEEBSS
T ss_pred HHHHHhccCeEEEEecc
Confidence 78888899999999985
No 461
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=85.92 E-value=8.4 Score=42.46 Aligned_cols=114 Identities=15% Similarity=0.178 Sum_probs=67.3
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh-c---------------------CCeEEEEccc
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG-S---------------------GYQAAFMVPT 569 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~-~---------------------g~qvlilaPT 569 (742)
+.|+|+.+...+.... ..-+...|+.||.|+|||..+...+...+- . ..-+.++.|+
T Consensus 2 ~yPW~~~~w~~l~~~~-~r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~ 80 (325)
T PRK08699 2 IYPWHQEQWRQIAEHW-ERRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPL 80 (325)
T ss_pred CCCccHHHHHHHHHhc-CCcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecc
Confidence 3578888888877653 233456899999999999887655544331 1 1346777784
Q ss_pred H-----------HHHHHHHHHHHHhhhhccCCCCCcEEEEEe--CCCChHHHHHHHHHhhcC--CccEEEechH
Q 045263 570 E-----------LLATQHYEHLLKLLDNMEEDKHKPKIALLT--GSTPVKQSRMIRKDLQTG--DITLVIGTHS 628 (742)
Q Consensus 570 ~-----------~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~--G~~~~~er~~i~~~l~~G--~~~IVVgT~~ 628 (742)
. .-++|+.+ +.+.+...+ ..++.+|.++. ..++......+++-+.+. ...+|+.||.
T Consensus 81 ~~~~~~g~~~~~I~id~iR~-l~~~~~~~p-~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~ 152 (325)
T PRK08699 81 SDEPENGRKLLQIKIDAVRE-IIDNVYLTS-VRGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHA 152 (325)
T ss_pred cccccccccCCCcCHHHHHH-HHHHHhhCc-ccCCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCC
Confidence 2 34566555 334332211 12336777763 335555566555555543 3557777764
No 462
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=85.74 E-value=2.4 Score=46.78 Aligned_cols=39 Identities=18% Similarity=0.175 Sum_probs=28.2
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELL 572 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~L 572 (742)
.++++.|+||||||... .+++..+..+.+++.+=-+.+|
T Consensus 161 ~nili~G~tgSGKTTll-~aL~~~ip~~~ri~tiEd~~El 199 (332)
T PRK13900 161 KNIIISGGTSTGKTTFT-NAALREIPAIERLITVEDAREI 199 (332)
T ss_pred CcEEEECCCCCCHHHHH-HHHHhhCCCCCeEEEecCCCcc
Confidence 58999999999999754 5566666666777666444444
No 463
>cd01701 PolY_Rev1 DNA polymerase Rev1. Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Rev1 has both structural and enzymatic roles. Structurally, it is believed to interact with other nonclassical polymerases and replication machinery to act as a scaffold. Enzymatically, it catalyzes the specific insertion of dCMP opposite abasic sites. Rev1 interacts with the Rev7 subunit of the B-family TLS polymerase Pol zeta (Rev3/Rev7). Rev1 is known to actively promote the introduction of mutations, potentially making it a significant target for cancer treatment.
Probab=85.71 E-value=0.49 Score=53.54 Aligned_cols=31 Identities=19% Similarity=0.047 Sum_probs=29.5
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhc
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHH 239 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~ 239 (742)
.||..|+|||+++++.|+++||+|+.||...
T Consensus 222 lPv~~l~GIG~~~~~~L~~~Gi~t~~dl~~~ 252 (404)
T cd01701 222 LKVGDLPGVGSSLAEKLVKLFGDTCGGLELR 252 (404)
T ss_pred CCHhHhCCCCHHHHHHHHHcCCcchHHHHhC
Confidence 4999999999999999999999999999876
No 464
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=85.56 E-value=1.3 Score=50.91 Aligned_cols=43 Identities=23% Similarity=0.378 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS 559 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~ 559 (742)
+++.|...+..+++. + ..-+|+.||||||||.+. ++++..+..
T Consensus 242 ~~~~~~~~~~~~~~~---p-~GliLvTGPTGSGKTTTL-Y~~L~~ln~ 284 (500)
T COG2804 242 MSPFQLARLLRLLNR---P-QGLILVTGPTGSGKTTTL-YAALSELNT 284 (500)
T ss_pred CCHHHHHHHHHHHhC---C-CeEEEEeCCCCCCHHHHH-HHHHHHhcC
Confidence 588888888887763 2 236899999999999764 444444444
No 465
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=85.49 E-value=2 Score=52.54 Aligned_cols=26 Identities=35% Similarity=0.397 Sum_probs=20.0
Q ss_pred CCCceEEEccCCChHHHHHHHHHHHH
Q 045263 531 VPMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 531 ~~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
...|.||.||+|+|||.++-..+...
T Consensus 206 ~~~n~LLvGppGvGKT~lae~la~~i 231 (758)
T PRK11034 206 RKNNPLLVGESGVGKTAIAEGLAWRI 231 (758)
T ss_pred CCCCeEEECCCCCCHHHHHHHHHHHH
Confidence 34588999999999999875555443
No 466
>PRK05595 replicative DNA helicase; Provisional
Probab=85.49 E-value=2.2 Score=48.96 Aligned_cols=127 Identities=17% Similarity=0.114 Sum_probs=71.7
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH-HhcCCeEEEEcccHHHHHHHHHHHHHhhhhccCC
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV-IGSGYQAAFMVPTELLATQHYEHLLKLLDNMEED 590 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~-l~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~ 590 (742)
+|++ ..++.+..++..+. -++|.|.||.|||..++..+... ...|..|+|+... .-.+|+..++........
T Consensus 185 ~tg~--~~ld~~~~G~~~g~--liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlE-ms~~~l~~R~~a~~~~v~-- 257 (444)
T PRK05595 185 ASGF--RELDAKTSGFQKGD--MILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLE-MSKEQLAYKLLCSEANVD-- 257 (444)
T ss_pred cCCh--HHHHHhcCCCCCCc--EEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecC-CCHHHHHHHHHHHhcCCC--
Confidence 4444 35677776666654 56889999999999988777654 4668888877543 345666666554432221
Q ss_pred CCCcEEEEEeCCCChHHHHHHHHH---hhcCCccEEEe-ch----HHHhh----ccccCCccEEEEeCCcccc
Q 045263 591 KHKPKIALLTGSTPVKQSRMIRKD---LQTGDITLVIG-TH----SLIAE----KVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 591 ~~~i~V~ll~G~~~~~er~~i~~~---l~~G~~~IVVg-T~----~~l~~----~v~~~~l~LVIIDEaHrfG 651 (742)
. ..+..|..+..++..+... +.+ ..+.|- ++ ..+.. ...-.++++||||=.|.+.
T Consensus 258 ---~-~~~~~~~l~~~e~~~~~~~~~~l~~--~~l~i~d~~~~t~~~i~~~~r~~~~~~~~~~vvIDylql~~ 324 (444)
T PRK05595 258 ---M-LRLRTGNLEDKDWENIARASGPLAA--AKIFIDDTAGVSVMEMRSKCRRLKIEHGIDMILIDYLQLMS 324 (444)
T ss_pred ---H-HHHhcCCCCHHHHHHHHHHHHHHhc--CCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEeHHHhcc
Confidence 0 1122455555554333322 222 234332 21 22211 1112468999999988763
No 467
>PRK04195 replication factor C large subunit; Provisional
Probab=85.37 E-value=7.8 Score=44.95 Aligned_cols=54 Identities=20% Similarity=0.212 Sum_probs=33.2
Q ss_pred CHHHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEccc
Q 045263 513 TSSQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPT 569 (742)
Q Consensus 513 t~~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT 569 (742)
.+.+.+.+..++.....+. +..+||.||+|+|||.++-..+-.. |..++.+-+.
T Consensus 19 ~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el---~~~~ielnas 73 (482)
T PRK04195 19 NEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY---GWEVIELNAS 73 (482)
T ss_pred CHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEccc
Confidence 3444444555544433222 4578999999999998775554432 6667766443
No 468
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=85.28 E-value=1.9 Score=52.73 Aligned_cols=40 Identities=30% Similarity=0.385 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHhcC-------C-CCCC-ceEEEccCCChHHHHHHHHHH
Q 045263 515 SQLSAISEIIWDLK-------Q-PVPM-NRLLQGDVGCGKTVVAFLACM 554 (742)
Q Consensus 515 ~Q~~aI~~I~~~~~-------~-~~~~-~~LL~a~TGSGKT~val~ail 554 (742)
.|..|++.+...+. . .+|. ..++.||||+|||.++-..+.
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~ 506 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAE 506 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHH
Confidence 46677766654432 1 2233 579999999999987755543
No 469
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=85.18 E-value=0.96 Score=52.25 Aligned_cols=196 Identities=9% Similarity=-0.016 Sum_probs=115.6
Q ss_pred HHHHHHhCCCC-CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc--CCeEEEEcccHHHHHHHH
Q 045263 501 TKKLLRALPYS-LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS--GYQAAFMVPTELLATQHY 577 (742)
Q Consensus 501 ~~~~~~~lpf~-Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~--g~qvlilaPT~~La~Q~~ 577 (742)
.+.+.+...-+ ...+|.++++.+.++. +..+...+.+||..++..+....... ....++..||.++++...
T Consensus 275 ~~~~~~~~~~E~~~~~~~~~~~~~~~G~------~~~~~~~~~~GK~~~~~~~s~~~~~~~~~s~~~~~~~~~~~~~~~~ 348 (1034)
T KOG4150|consen 275 IRSLLNKNTGESGIAISLELLKFASEGR------ADGGNEARQAGKGTCPTSGSRKFQTLCHATNSLLPSEMVEHLRNGS 348 (1034)
T ss_pred HHHHHhcccccchhhhhHHHHhhhhhcc------cccccchhhcCCccCcccchhhhhhcCcccceecchhHHHHhhccC
Confidence 34555554433 7889999998887753 66888899999999987776655433 456888899999987665
Q ss_pred HHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhh---------ccccCCccEEEEeCCc
Q 045263 578 EHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAE---------KVEFSALRLAIVDEQQ 648 (742)
Q Consensus 578 ~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~---------~v~~~~l~LVIIDEaH 648 (742)
+.+.-.+....... .--|....|.+...++..+ +.| .+++.+.|+.+.. .+++-.+.++++||+|
T Consensus 349 ~~~~V~~~~I~~~K-~A~V~~~D~~sE~~~~A~~----R~~-~~~~~s~~~~~~s~~L~~~~~~~~~~~~~~~~~~~~~~ 422 (1034)
T KOG4150|consen 349 KGQVVHVEVIKARK-SAYVEMSDKLSETTKSALK----RIG-LNTLYSHQAEAISAALAKSLCYNVPVFEELCKDTNSCA 422 (1034)
T ss_pred CceEEEEEehhhhh-cceeecccCCCchhHHHHH----hcC-cceeecCHHHHHHHHhhhccccccHHHHHHHhccccee
Confidence 54432222221100 0134455565555544432 223 6788887775532 2334456789999999
Q ss_pred ccc--ccc--hhhhhh--hhhccccccccccccCCCCCCCCCCCCCcEEEEcCCCCHHHHHH-HHcC--CCCeeeeccCC
Q 045263 649 RFG--VVQ--RGRFNS--KLYYTSMSSGMAMVNSDGSPKDDQHMAPHVLAMSATPIPRTLAL-ALYG--DMSLTQITDLP 719 (742)
Q Consensus 649 rfG--~~q--r~~l~~--k~~~~~~~~~~~~~~~~~~~r~~~~~~p~vL~mSATPiprtla~-~l~g--dl~~s~I~e~P 719 (742)
-+- ... ...++. .+.+.- ....+-+++-.+||-.-++..+ -++| .+.+..++..|
T Consensus 423 ~Y~~~~~~~~~~~~R~L~~L~~~F----------------~~~~~~~~~~~~~~~K~~~~~~~~~~~~~E~~Li~~DGSP 486 (1034)
T KOG4150|consen 423 LYLFPTKALAQDQLRALSDLIKGF----------------EASINMGVYDGDTPYKDRTRLRSELANLSELELVTIDGSP 486 (1034)
T ss_pred eeecchhhHHHHHHHHHHHHHHHH----------------HhhcCcceEeCCCCcCCHHHHHHHhcCCcceEEEEecCCC
Confidence 752 111 111111 111100 0012457888888854444333 3454 57788889999
Q ss_pred CCCCC
Q 045263 720 PGRIP 724 (742)
Q Consensus 720 ~gr~~ 724 (742)
.|.+.
T Consensus 487 s~~K~ 491 (1034)
T KOG4150|consen 487 SSEKL 491 (1034)
T ss_pred Cccce
Confidence 88763
No 470
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=85.18 E-value=1.2 Score=49.45 Aligned_cols=40 Identities=25% Similarity=0.267 Sum_probs=29.8
Q ss_pred CceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLA 573 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La 573 (742)
.|+++.|+||||||... .+++..+..+.+++.+=.+.+|.
T Consensus 163 ~nilI~G~tGSGKTTll-~aLl~~i~~~~rivtiEd~~El~ 202 (344)
T PRK13851 163 LTMLLCGPTGSGKTTMS-KTLISAIPPQERLITIEDTLELV 202 (344)
T ss_pred CeEEEECCCCccHHHHH-HHHHcccCCCCCEEEECCCcccc
Confidence 58999999999999654 55555555566777777776663
No 471
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=85.17 E-value=1.7 Score=50.76 Aligned_cols=62 Identities=16% Similarity=0.126 Sum_probs=45.8
Q ss_pred HHHHHHH-hcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHHHHHHHHHh
Q 045263 519 AISEIIW-DLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 519 aI~~I~~-~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
.+++++. ++..+ ...+|.|++|+|||..++..+...+.+|.+++++.-. +-.+|+.+.+..+
T Consensus 261 ~lD~~l~GG~~~g--~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e-~~~~~i~~~~~~~ 323 (509)
T PRK09302 261 DLDEMLGGGFFRG--SIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFE-ESRAQLIRNARSW 323 (509)
T ss_pred HHHHhhcCCCCCC--cEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec-CCHHHHHHHHHHc
Confidence 4566664 33333 3678999999999999998888888899999998644 4466776666543
No 472
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=85.07 E-value=1.2 Score=48.20 Aligned_cols=43 Identities=21% Similarity=0.212 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHH
Q 045263 514 SSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 514 ~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
..|..++..+.+...+..--+.|++||+|+|||-+++..+.+.
T Consensus 39 ~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L 81 (346)
T KOG0989|consen 39 AGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARAL 81 (346)
T ss_pred cchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHh
Confidence 4688888887776665444578999999999999887666543
No 473
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=85.03 E-value=2 Score=42.70 Aligned_cols=50 Identities=22% Similarity=0.263 Sum_probs=35.3
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHh----------cCCeEEEEcccHHHHHHHHHHHHHhh
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIG----------SGYQAAFMVPTELLATQHYEHLLKLL 584 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~----------~g~qvlilaPT~~La~Q~~~~l~~~l 584 (742)
-.++.|++|+|||.+.+..+...+. .+.+++++..... ..++.+++....
T Consensus 34 l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~ 93 (193)
T PF13481_consen 34 LTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALL 93 (193)
T ss_dssp EEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHH
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHh
Confidence 4799999999999998888777765 3457777765544 667777777765
No 474
>cd03586 PolY_Pol_IV_kappa DNA Polymerase IV/Kappa. Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a
Probab=84.86 E-value=0.69 Score=50.57 Aligned_cols=33 Identities=21% Similarity=0.281 Sum_probs=30.2
Q ss_pred ccCCcCCCCCHHHHHHHHhCCCCCHhHHhhcCCC
Q 045263 209 KCISCVPGLSKRLYHQLENCGFYTLRKLLHHFPR 242 (742)
Q Consensus 209 ~~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~fPr 242 (742)
.||+.|+|||++..++|+++||+|+.||... |+
T Consensus 171 lpl~~l~gig~~~~~~L~~~Gi~ti~dl~~~-~~ 203 (334)
T cd03586 171 LPVRKIPGVGKVTAEKLKELGIKTIGDLAKL-DV 203 (334)
T ss_pred CCchhhCCcCHHHHHHHHHcCCcCHHHHHcC-CH
Confidence 5999999999999999999999999999874 53
No 475
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=84.69 E-value=4.3 Score=46.23 Aligned_cols=79 Identities=14% Similarity=0.093 Sum_probs=45.3
Q ss_pred hHHHHHHHHhCCCCCCHHHHHH-HHHHH---HhcCCCCCCceEEEccCCChHHHHHHHHHHH-HHhcCCeEEEEcccHHH
Q 045263 498 SSLTKKLLRALPYSLTSSQLSA-ISEII---WDLKQPVPMNRLLQGDVGCGKTVVAFLACME-VIGSGYQAAFMVPTELL 572 (742)
Q Consensus 498 ~~l~~~~~~~lpf~Lt~~Q~~a-I~~I~---~~~~~~~~~~~LL~a~TGSGKT~val~ail~-~l~~g~qvlilaPT~~L 572 (742)
+++.+-++.+.+|+|+....++ +..+. .-..+ +-|+++.||+|+|||-+|...... ++.+| .+..+. .|
T Consensus 173 dEWid~LlrSiG~~P~~~~~r~k~~~L~rl~~fve~--~~Nli~lGp~GTGKThla~~l~~~~a~~sG---~f~T~a-~L 246 (449)
T TIGR02688 173 EEWIDVLIRSIGYEPEGFEARQKLLLLARLLPLVEP--NYNLIELGPKGTGKSYIYNNLSPYVILISG---GTITVA-KL 246 (449)
T ss_pred HHHHHHHHHhcCCCcccCChHHHHHHHHhhHHHHhc--CCcEEEECCCCCCHHHHHHHHhHHHHHHcC---CcCcHH-HH
Confidence 5677888888888754322211 22211 11222 349999999999999877664444 56677 222222 35
Q ss_pred HHHHHHHHHH
Q 045263 573 ATQHYEHLLK 582 (742)
Q Consensus 573 a~Q~~~~l~~ 582 (742)
..+......+
T Consensus 247 f~~L~~~~lg 256 (449)
T TIGR02688 247 FYNISTRQIG 256 (449)
T ss_pred HHHHHHHHHh
Confidence 5555543333
No 476
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=84.57 E-value=1.9 Score=45.25 Aligned_cols=24 Identities=29% Similarity=0.407 Sum_probs=19.0
Q ss_pred CceEEEccCCChHHHHHHHHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~ 556 (742)
-+.++.||+|+|||......+.+.
T Consensus 49 P~liisGpPG~GKTTsi~~LAr~L 72 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSILCLAREL 72 (333)
T ss_pred CceEeeCCCCCchhhHHHHHHHHH
Confidence 378999999999998776555544
No 477
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=84.55 E-value=5.3 Score=49.36 Aligned_cols=78 Identities=13% Similarity=0.146 Sum_probs=63.8
Q ss_pred CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEechHHHhhccccCCc
Q 045263 560 GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIGTHSLIAEKVEFSAL 639 (742)
Q Consensus 560 g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVgT~~~l~~~v~~~~l 639 (742)
+.++||.+|+..-++++++.+.+.+. .+ +.+..+||+++..++...+....+|...|||+|.- ....+.+.++
T Consensus 212 ~g~iLVFlpg~~ei~~l~~~L~~~~~-~~-----~~v~~Lhg~l~~~eq~~~~~~~~~G~rkVlvATnI-AErsLtIp~V 284 (812)
T PRK11664 212 SGSLLLFLPGVGEIQRVQEQLASRVA-SD-----VLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNI-AETSLTIEGI 284 (812)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHHhcc-CC-----ceEEEeeCCCCHHHHHHHhccccCCCeEEEEecch-HHhcccccCc
Confidence 57899999999999999999887432 12 67889999999999999888888999999999973 3346778888
Q ss_pred cEEEE
Q 045263 640 RLAIV 644 (742)
Q Consensus 640 ~LVII 644 (742)
.+||=
T Consensus 285 ~~VID 289 (812)
T PRK11664 285 RLVVD 289 (812)
T ss_pred eEEEE
Confidence 86663
No 478
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=84.45 E-value=2.2 Score=39.11 Aligned_cols=35 Identities=31% Similarity=0.391 Sum_probs=24.3
Q ss_pred eEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHH
Q 045263 535 RLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELL 572 (742)
Q Consensus 535 ~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~L 572 (742)
+||.||+|+|||.++-..+-.. +..++.+-.....
T Consensus 1 ill~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~ 35 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELI 35 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHH
T ss_pred CEEECcCCCCeeHHHHHHHhhc---ccccccccccccc
Confidence 4899999999998776555443 5556666555444
No 479
>PRK10436 hypothetical protein; Provisional
Probab=84.41 E-value=1.9 Score=49.83 Aligned_cols=42 Identities=24% Similarity=0.422 Sum_probs=29.8
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHh
Q 045263 512 LTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIG 558 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~ 558 (742)
+.+.|.+.+..+...- ...+|+.||||||||.+.. +++..+.
T Consensus 202 ~~~~~~~~l~~~~~~~----~GliLvtGpTGSGKTTtL~-a~l~~~~ 243 (462)
T PRK10436 202 MTPAQLAQFRQALQQP----QGLILVTGPTGSGKTVTLY-SALQTLN 243 (462)
T ss_pred cCHHHHHHHHHHHHhc----CCeEEEECCCCCChHHHHH-HHHHhhC
Confidence 6778888888776532 1368999999999998763 4444443
No 480
>cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=84.40 E-value=17 Score=31.78 Aligned_cols=64 Identities=23% Similarity=0.242 Sum_probs=40.6
Q ss_pred EEEEEEEEEeeccccCCCceEEEEEEeeeeccCCCCCCcceeeecCCCceeEEEEEeeeeecccccccchhHhhhcccc-
Q 045263 260 FIFIGEIISSRGMKAGCSFSFLEVIVGCEIADTETTSGDEVVNIDSGQKKKIYLHLKKFFRGTRFTSIPFLKSIEGKHK- 338 (742)
Q Consensus 260 vti~G~V~~~~~~~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~~~~g~~~~i~l~~~~ff~~~~Ffn~pfl~~~~~~l~- 338 (742)
|+|.|.|-.......+.+..++.+.+++ .++. +.++.|++ +..- ....++
T Consensus 2 v~i~G~Vf~~e~re~k~g~~i~~~~itD----------------~t~S-----i~~K~F~~-----~~~~---~~~~ik~ 52 (82)
T cd04484 2 VVVEGEVFDLEIRELKSGRKILTFKVTD----------------YTSS-----ITVKKFLR-----KDEK---DKEELKS 52 (82)
T ss_pred EEEEEEEEEEEEEEecCCCEEEEEEEEc----------------CCCC-----EEEEEecc-----CChh---HHhhccc
Confidence 7899999887554455667777777763 1221 23334431 2211 125688
Q ss_pred CCcEEEEEEEEeec
Q 045263 339 VGEFVCVSGKVRAM 352 (742)
Q Consensus 339 ~G~~v~v~GKv~~~ 352 (742)
.|+.+.+.|++...
T Consensus 53 ~G~~v~v~G~v~~D 66 (82)
T cd04484 53 KGDWVRVRGKVQYD 66 (82)
T ss_pred CCCEEEEEEEEEEc
Confidence 99999999999764
No 481
>PRK07773 replicative DNA helicase; Validated
Probab=84.38 E-value=2.3 Score=53.10 Aligned_cols=123 Identities=15% Similarity=0.101 Sum_probs=70.3
Q ss_pred HHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEE
Q 045263 518 SAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKI 596 (742)
Q Consensus 518 ~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V 596 (742)
..++.+..++..+. -.+|.|.+|+|||..++..+...... |..++|+. .+.-.+|+..++........ ..
T Consensus 205 ~~LD~l~~Gl~~G~--livIagrPg~GKT~fal~ia~~~a~~~~~~V~~fS-lEms~~ql~~R~~s~~~~i~-----~~- 275 (886)
T PRK07773 205 TELDAMTNGLHPGQ--LIIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFS-LEMSKEQLVMRLLSAEAKIK-----LS- 275 (886)
T ss_pred hHhccccCCCCCCc--EEEEEeCCCCCcHHHHHHHHHHHHHhcCCeEEEEe-cCCCHHHHHHHHHHHhcCCC-----HH-
Confidence 45666666665543 57899999999999998888777654 56666664 44456677777665433221 00
Q ss_pred EEEeCCCChHHHHHHH---HHhhcCCccEEEe-----chHHHhh----ccccCCccEEEEeCCcccc
Q 045263 597 ALLTGSTPVKQSRMIR---KDLQTGDITLVIG-----THSLIAE----KVEFSALRLAIVDEQQRFG 651 (742)
Q Consensus 597 ~ll~G~~~~~er~~i~---~~l~~G~~~IVVg-----T~~~l~~----~v~~~~l~LVIIDEaHrfG 651 (742)
.+-.|..+..+...+- ..+.+ ..+.|- |...+.. ...-.++++||||=.+.+.
T Consensus 276 ~i~~g~l~~~~~~~~~~a~~~l~~--~~i~i~d~~~~~i~~i~~~~r~~~~~~~~~lvvIDyLql~~ 340 (886)
T PRK07773 276 DMRSGRMSDDDWTRLARAMGEISE--APIFIDDTPNLTVMEIRAKARRLRQEANLGLIVVDYLQLMT 340 (886)
T ss_pred HHhcCCCCHHHHHHHHHHHHHHhc--CCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchhhcC
Confidence 1224555554443322 22222 344442 2222211 1112468999999988763
No 482
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=84.29 E-value=7.9 Score=41.37 Aligned_cols=24 Identities=42% Similarity=0.458 Sum_probs=19.3
Q ss_pred cCCCCCCceEEEccCCChHHHHHH
Q 045263 527 LKQPVPMNRLLQGDVGCGKTVVAF 550 (742)
Q Consensus 527 ~~~~~~~~~LL~a~TGSGKT~val 550 (742)
+.-+.|..+|+.||+|+|||+++-
T Consensus 206 lgidppkgvllygppgtgktl~ar 229 (435)
T KOG0729|consen 206 LGIDPPKGVLLYGPPGTGKTLCAR 229 (435)
T ss_pred cCCCCCCceEEeCCCCCchhHHHH
Confidence 344556789999999999998764
No 483
>PRK13766 Hef nuclease; Provisional
Probab=84.20 E-value=7.6 Score=47.65 Aligned_cols=96 Identities=16% Similarity=0.137 Sum_probs=72.6
Q ss_pred hHHHHHHHHHHHHH--hcCCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCC--------CChHHHHHHHH
Q 045263 544 GKTVVAFLACMEVI--GSGYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGS--------TPVKQSRMIRK 613 (742)
Q Consensus 544 GKT~val~ail~~l--~~g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~--------~~~~er~~i~~ 613 (742)
.|.....-.+...+ ..+.+++|++.++.-+.++++.+... + +.+..++|. ++..++..+..
T Consensus 347 pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~----~-----~~~~~~~g~~~~~~~~~~~~~~r~~~~~ 417 (773)
T PRK13766 347 PKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKE----G-----IKAVRFVGQASKDGDKGMSQKEQIEILD 417 (773)
T ss_pred hHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhC----C-----CceEEEEccccccccCCCCHHHHHHHHH
Confidence 45544433333333 35789999999999999998888542 3 566777776 67778888999
Q ss_pred HhhcCCccEEEechHHHhhccccCCccEEEEeCCcc
Q 045263 614 DLQTGDITLVIGTHSLIAEKVEFSALRLAIVDEQQR 649 (742)
Q Consensus 614 ~l~~G~~~IVVgT~~~l~~~v~~~~l~LVIIDEaHr 649 (742)
++.+|+.+|+|+|. .+.+.+.+.++++||+=+.+.
T Consensus 418 ~F~~g~~~vLvaT~-~~~eGldi~~~~~VI~yd~~~ 452 (773)
T PRK13766 418 KFRAGEFNVLVSTS-VAEEGLDIPSVDLVIFYEPVP 452 (773)
T ss_pred HHHcCCCCEEEECC-hhhcCCCcccCCEEEEeCCCC
Confidence 99999999999997 456678889999999877654
No 484
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=84.15 E-value=0.74 Score=50.12 Aligned_cols=21 Identities=43% Similarity=0.515 Sum_probs=17.4
Q ss_pred CceEEEccCCChHHHHHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLAC 553 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ai 553 (742)
.|+|+.||||||||+.|-..+
T Consensus 98 SNILLiGPTGsGKTlLAqTLA 118 (408)
T COG1219 98 SNILLIGPTGSGKTLLAQTLA 118 (408)
T ss_pred ccEEEECCCCCcHHHHHHHHH
Confidence 389999999999998775443
No 485
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=84.13 E-value=1.5 Score=41.37 Aligned_cols=21 Identities=38% Similarity=0.365 Sum_probs=16.5
Q ss_pred ceEEEccCCChHHHHHHHHHH
Q 045263 534 NRLLQGDVGCGKTVVAFLACM 554 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail 554 (742)
+++|.||+|+|||..+-..+.
T Consensus 1 ~vlL~G~~G~GKt~l~~~la~ 21 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLARELAA 21 (139)
T ss_dssp EEEEEESSSSSHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 469999999999987654444
No 486
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=83.80 E-value=7.9 Score=44.98 Aligned_cols=35 Identities=23% Similarity=0.263 Sum_probs=24.6
Q ss_pred CceEEEccCCChHHHHHHHHHHHH-HhcCC-eEEEEc
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEV-IGSGY-QAAFMV 567 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~-l~~g~-qvlila 567 (742)
.-+++.||||+|||.+....+... ...|. ++.++.
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 357899999999999977666544 34453 565443
No 487
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=83.62 E-value=2.1 Score=49.98 Aligned_cols=62 Identities=19% Similarity=0.255 Sum_probs=43.2
Q ss_pred HHHHHHH-hcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc-CCeEEEEcccHHHHHHHHHHHHHh
Q 045263 519 AISEIIW-DLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS-GYQAAFMVPTELLATQHYEHLLKL 583 (742)
Q Consensus 519 aI~~I~~-~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~-g~qvlilaPT~~La~Q~~~~l~~~ 583 (742)
.+++++. ++..+ ...+|.|++|+|||..++.-+...+.+ |.+++++. +++-.+|+.+.+..+
T Consensus 19 ~LD~~l~GG~p~G--s~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis-~ee~~~~i~~~~~~~ 82 (509)
T PRK09302 19 GFDDITHGGLPKG--RPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVT-FEESPEDIIRNVASF 82 (509)
T ss_pred hHHHhhcCCCCCC--cEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEE-ccCCHHHHHHHHHHc
Confidence 4566654 33333 367999999999999998888877777 87887774 344555666655543
No 488
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=83.51 E-value=7.4 Score=43.05 Aligned_cols=45 Identities=9% Similarity=0.031 Sum_probs=33.1
Q ss_pred CCHHHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
+.|+|+.+.+.+.+.+.+++ +...|+.||.|.||+..+...+...
T Consensus 3 ~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~L 48 (334)
T PRK07993 3 WYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWL 48 (334)
T ss_pred CCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHH
Confidence 56788888888877665533 4467899999999998876554433
No 489
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=83.37 E-value=5.1 Score=49.03 Aligned_cols=55 Identities=25% Similarity=0.237 Sum_probs=42.4
Q ss_pred HHHHHHH--hcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccHHHHHH
Q 045263 519 AISEIIW--DLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTELLATQ 575 (742)
Q Consensus 519 aI~~I~~--~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~~La~Q 575 (742)
.++.++. ++..+ .-.+|.|++|||||..++..+......|..++|+-....+...
T Consensus 47 ~LD~lLg~GGip~G--siteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~ 103 (790)
T PRK09519 47 ALDVALGIGGLPRG--RVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPD 103 (790)
T ss_pred HHHHhhcCCCccCC--eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHH
Confidence 5666664 33333 3678999999999999998888888889999999877777643
No 490
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=83.33 E-value=6.8 Score=44.72 Aligned_cols=37 Identities=22% Similarity=0.219 Sum_probs=23.5
Q ss_pred CceEEEccCCChHHHHHHHHHHHHH-hcC-Ce-EEEEccc
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVI-GSG-YQ-AAFMVPT 569 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l-~~g-~q-vlilaPT 569 (742)
..+.+.|++|+|||......+...+ ..+ .. .++.+.+
T Consensus 192 ~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~ 231 (420)
T PRK14721 192 GVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDS 231 (420)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCC
Confidence 3679999999999988765544332 223 33 3444454
No 491
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=83.30 E-value=6.9 Score=43.06 Aligned_cols=45 Identities=20% Similarity=0.067 Sum_probs=31.8
Q ss_pred CCHHHHHHHHHHHHhcCCCC-CCceEEEccCCChHHHHHHHHHHHH
Q 045263 512 LTSSQLSAISEIIWDLKQPV-PMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 512 Lt~~Q~~aI~~I~~~~~~~~-~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
+.|+|+.....+.+.+..++ +...|++||.|.||+..+...+...
T Consensus 4 ~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~l 49 (319)
T PRK06090 4 DYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRAL 49 (319)
T ss_pred CcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHH
Confidence 56777777777776554433 4468999999999998775555443
No 492
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=83.19 E-value=6 Score=43.78 Aligned_cols=87 Identities=13% Similarity=0.151 Sum_probs=68.0
Q ss_pred HHHHHHHHHHhc--CCeEEEEcccHHHHHHHHHHHHHhhhhccCCCCCcEEEEEeCCCChHHHHHHHHHhhcCCccEEEe
Q 045263 548 VAFLACMEVIGS--GYQAAFMVPTELLATQHYEHLLKLLDNMEEDKHKPKIALLTGSTPVKQSRMIRKDLQTGDITLVIG 625 (742)
Q Consensus 548 val~ail~~l~~--g~qvlilaPT~~La~Q~~~~l~~~l~~~~~~~~~i~V~ll~G~~~~~er~~i~~~l~~G~~~IVVg 625 (742)
+|+.-++...++ ...++|.+.|..-++-++..|+ .++ +++..+||.+++++|-..+.+++++.+.|+|+
T Consensus 240 aYLv~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~----~le-----~r~~~lHs~m~Q~eR~~aLsrFrs~~~~ilia 310 (442)
T KOG0340|consen 240 AYLVHLLRDFENKENGSIMIFVNTTRECQLLSMTLK----NLE-----VRVVSLHSQMPQKERLAALSRFRSNAARILIA 310 (442)
T ss_pred HHHHHHHhhhhhccCceEEEEeehhHHHHHHHHHHh----hhc-----eeeeehhhcchHHHHHHHHHHHhhcCccEEEE
Confidence 566667766666 5678888888766665544444 445 89999999999999999999999999999999
Q ss_pred chHHHhhccccCCccEEEE
Q 045263 626 THSLIAEKVEFSALRLAIV 644 (742)
Q Consensus 626 T~~~l~~~v~~~~l~LVII 644 (742)
|.-.- ..+....++|||=
T Consensus 311 TDVAs-RGLDIP~V~LVvN 328 (442)
T KOG0340|consen 311 TDVAS-RGLDIPTVELVVN 328 (442)
T ss_pred echhh-cCCCCCceeEEEe
Confidence 97543 3677888889884
No 493
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=83.14 E-value=0.77 Score=50.73 Aligned_cols=31 Identities=19% Similarity=0.166 Sum_probs=27.4
Q ss_pred cCCcCCCCCHHHHHHHHhCCCCCHhHHhhcC
Q 045263 210 CISCVPGLSKRLYHQLENCGFYTLRKLLHHF 240 (742)
Q Consensus 210 ~I~~LkGVG~k~~~~L~klGI~Tv~DLL~~f 240 (742)
.+..++||||++++.|-++||.|++||....
T Consensus 90 ~l~~i~GiGpk~a~~l~~lGi~tl~eL~~a~ 120 (334)
T smart00483 90 LFTNVFGVGPKTAAKWYRKGIRTLEELKKNK 120 (334)
T ss_pred HHHccCCcCHHHHHHHHHhCCCCHHHHHhcc
Confidence 4667999999999999889999999997644
No 494
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=83.12 E-value=2 Score=51.61 Aligned_cols=67 Identities=30% Similarity=0.222 Sum_probs=57.3
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhcC----CeEEEEcccHHHHHHHHHHHHHhhh
Q 045263 511 SLTSSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGSG----YQAAFMVPTELLATQHYEHLLKLLD 585 (742)
Q Consensus 511 ~Lt~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~g----~qvlilaPT~~La~Q~~~~l~~~l~ 585 (742)
.|++.|++|+.... ...+|.+..|||||.+...-+...+..+ .+++.+.=|.--|.++.+++.+++.
T Consensus 2 ~Ln~~Q~~av~~~~--------gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~ 72 (655)
T COG0210 2 KLNPEQREAVLHPD--------GPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLG 72 (655)
T ss_pred CCCHHHHHHHhcCC--------CCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhC
Confidence 48999999997651 2568899999999999999988888874 4799999999999999999999886
No 495
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=83.09 E-value=3.7 Score=43.47 Aligned_cols=24 Identities=21% Similarity=0.232 Sum_probs=17.1
Q ss_pred CceEEEccCCChHHHHHHHHHHHHH
Q 045263 533 MNRLLQGDVGCGKTVVAFLACMEVI 557 (742)
Q Consensus 533 ~~~LL~a~TGSGKT~val~ail~~l 557 (742)
.+.+|.||.|+|||..+ ..++..+
T Consensus 17 qr~~I~G~~G~GKTTLl-r~I~n~l 40 (249)
T cd01128 17 QRGLIVAPPKAGKTTLL-QSIANAI 40 (249)
T ss_pred CEEEEECCCCCCHHHHH-HHHHhcc
Confidence 37899999999999654 3344333
No 496
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=83.06 E-value=1.1 Score=49.48 Aligned_cols=29 Identities=34% Similarity=0.379 Sum_probs=21.5
Q ss_pred HHhcCCCCCCceEEEccCCChHHHHHHHH
Q 045263 524 IWDLKQPVPMNRLLQGDVGCGKTVVAFLA 552 (742)
Q Consensus 524 ~~~~~~~~~~~~LL~a~TGSGKT~val~a 552 (742)
++.+.-..|.-+||.||+|+|||+.|=..
T Consensus 177 F~~~GI~PPKGVLLYGPPGTGKTLLAkAV 205 (406)
T COG1222 177 FEELGIDPPKGVLLYGPPGTGKTLLAKAV 205 (406)
T ss_pred HHHcCCCCCCceEeeCCCCCcHHHHHHHH
Confidence 34444456778999999999999866433
No 497
>PHA00729 NTP-binding motif containing protein
Probab=82.23 E-value=2.6 Score=44.05 Aligned_cols=31 Identities=23% Similarity=0.302 Sum_probs=22.9
Q ss_pred hcCCCCCCceEEEccCCChHHHHHHHHHHHH
Q 045263 526 DLKQPVPMNRLLQGDVGCGKTVVAFLACMEV 556 (742)
Q Consensus 526 ~~~~~~~~~~LL~a~TGSGKT~val~ail~~ 556 (742)
++......+++|.|++|+|||..+...+..+
T Consensus 11 ~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l 41 (226)
T PHA00729 11 AYNNNGFVSAVIFGKQGSGKTTYALKVARDV 41 (226)
T ss_pred HHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence 3334445689999999999998877665543
No 498
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=82.13 E-value=1.4 Score=44.89 Aligned_cols=37 Identities=16% Similarity=0.164 Sum_probs=32.4
Q ss_pred ceEEEccCCChHHHHHHHHHHHHHhcCCeEEEEcccH
Q 045263 534 NRLLQGDVGCGKTVVAFLACMEVIGSGYQAAFMVPTE 570 (742)
Q Consensus 534 ~~LL~a~TGSGKT~val~ail~~l~~g~qvlilaPT~ 570 (742)
--++.||..||||.-.+..+......|.+++++.|-.
T Consensus 6 l~~i~gpM~SGKT~eLl~r~~~~~~~g~~v~vfkp~i 42 (201)
T COG1435 6 LEFIYGPMFSGKTEELLRRARRYKEAGMKVLVFKPAI 42 (201)
T ss_pred EEEEEccCcCcchHHHHHHHHHHHHcCCeEEEEeccc
Confidence 3489999999999988888888888899999998874
No 499
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=82.12 E-value=2.9 Score=46.82 Aligned_cols=32 Identities=25% Similarity=0.314 Sum_probs=20.6
Q ss_pred CcEEEEcCCCCHHHHHHHHcCCCCeeeeccCC
Q 045263 688 PHVLAMSATPIPRTLALALYGDMSLTQITDLP 719 (742)
Q Consensus 688 p~vL~mSATPiprtla~~l~gdl~~s~I~e~P 719 (742)
..|+++-||-.|=.+-.++...++--+.-.+|
T Consensus 351 k~VmVLAATN~PWdiDEAlrRRlEKRIyIPLP 382 (491)
T KOG0738|consen 351 KVVMVLAATNFPWDIDEALRRRLEKRIYIPLP 382 (491)
T ss_pred eeEEEEeccCCCcchHHHHHHHHhhheeeeCC
Confidence 45788899977777666665544444444555
No 500
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=82.10 E-value=2.6 Score=41.14 Aligned_cols=46 Identities=20% Similarity=0.295 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHhcCCCCCCceEEEccCCChHHHHHHHHHHHHHhc
Q 045263 514 SSQLSAISEIIWDLKQPVPMNRLLQGDVGCGKTVVAFLACMEVIGS 559 (742)
Q Consensus 514 ~~Q~~aI~~I~~~~~~~~~~~~LL~a~TGSGKT~val~ail~~l~~ 559 (742)
..|.+.+...+.......+..++|.|+.|+|||...-..+......
T Consensus 6 ~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~ 51 (185)
T PF13191_consen 6 EEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER 51 (185)
T ss_dssp HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 4445555555532234445689999999999998765444333333
Done!