Query 042872
Match_columns 381
No_of_seqs 286 out of 1637
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 10:26:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042872.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042872hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0514 RecQ Superfamily II DN 99.9 1.5E-23 3.2E-28 220.5 10.7 117 214-381 6-143 (590)
2 KOG0351 ATP-dependent DNA heli 99.9 4E-23 8.7E-28 226.8 11.8 126 212-381 251-397 (941)
3 PLN03137 ATP-dependent DNA hel 99.9 1.4E-22 2.9E-27 224.6 14.3 126 212-381 447-593 (1195)
4 TIGR00614 recQ_fam ATP-depende 99.9 1.3E-21 2.9E-26 200.3 13.6 116 217-381 3-139 (470)
5 KOG0352 ATP-dependent DNA heli 99.9 8.2E-22 1.8E-26 199.7 10.4 124 213-381 7-153 (641)
6 TIGR01389 recQ ATP-dependent D 99.9 2.7E-21 5.8E-26 203.0 13.4 116 215-381 3-139 (591)
7 KOG0330 ATP-dependent RNA heli 99.8 1.3E-21 2.9E-26 196.1 7.2 131 197-381 56-216 (476)
8 PRK11057 ATP-dependent DNA hel 99.8 4.1E-20 8.9E-25 195.5 13.8 116 215-381 15-151 (607)
9 PRK04837 ATP-dependent RNA hel 99.8 4E-20 8.7E-25 186.1 12.8 57 201-258 7-63 (423)
10 PRK11192 ATP-dependent RNA hel 99.8 1.5E-19 3.2E-24 182.1 12.4 55 203-258 2-56 (434)
11 PRK10590 ATP-dependent RNA hel 99.8 1.7E-19 3.7E-24 184.0 12.5 55 203-258 2-56 (456)
12 PRK04537 ATP-dependent RNA hel 99.8 4.6E-19 9.9E-24 186.7 12.8 56 202-258 9-64 (572)
13 PTZ00110 helicase; Provisional 99.8 5.6E-19 1.2E-23 184.9 13.0 56 202-258 130-185 (545)
14 PRK01297 ATP-dependent RNA hel 99.8 2.4E-18 5.1E-23 176.1 17.1 57 201-258 86-142 (475)
15 PLN00206 DEAD-box ATP-dependen 99.8 6.6E-19 1.4E-23 183.0 12.2 57 201-258 120-176 (518)
16 PRK11776 ATP-dependent RNA hel 99.8 8.8E-19 1.9E-23 178.2 12.3 56 202-258 4-59 (460)
17 COG0513 SrmB Superfamily II DN 99.8 2.5E-18 5.4E-23 179.0 13.4 125 202-381 29-186 (513)
18 KOG0340 ATP-dependent RNA heli 99.8 8.3E-19 1.8E-23 174.6 8.9 130 201-381 6-165 (442)
19 KOG0331 ATP-dependent RNA heli 99.8 4.2E-18 9.2E-23 177.1 12.3 124 203-381 92-251 (519)
20 KOG0353 ATP-dependent DNA heli 99.8 2.2E-18 4.8E-23 173.2 9.7 123 215-381 84-227 (695)
21 PRK11634 ATP-dependent RNA hel 99.8 4.8E-18 1E-22 181.0 12.8 56 202-258 6-61 (629)
22 PTZ00424 helicase 45; Provisio 99.7 1.8E-17 4E-22 163.9 13.4 56 202-258 28-83 (401)
23 KOG0338 ATP-dependent RNA heli 99.7 8.2E-18 1.8E-22 173.5 8.1 126 202-381 181-339 (691)
24 KOG0348 ATP-dependent RNA heli 99.7 8.6E-17 1.9E-21 166.7 11.6 149 202-381 136-299 (708)
25 TIGR03817 DECH_helic helicase/ 99.7 2.4E-16 5.3E-21 170.8 13.2 38 221-258 32-69 (742)
26 PRK14701 reverse gyrase; Provi 99.7 8.5E-16 1.8E-20 177.5 15.0 122 207-381 62-212 (1638)
27 KOG0347 RNA helicase [RNA proc 99.6 1.1E-16 2.5E-21 166.2 6.2 128 195-381 181-352 (731)
28 cd00268 DEADc DEAD-box helicas 99.6 9.9E-16 2.1E-20 137.7 11.2 65 213-278 10-78 (203)
29 COG1201 Lhr Lhr-like helicases 99.6 9.2E-16 2E-20 166.9 10.5 103 223-380 20-160 (814)
30 PRK13767 ATP-dependent helicas 99.6 2.3E-15 5E-20 165.7 13.5 51 207-258 15-65 (876)
31 KOG0345 ATP-dependent RNA heli 99.6 2.2E-15 4.7E-20 154.5 11.3 49 202-258 13-61 (567)
32 KOG0333 U5 snRNP-like RNA heli 99.6 1.1E-15 2.5E-20 158.1 9.1 126 194-381 244-408 (673)
33 PRK02362 ski2-like helicase; P 99.6 2.5E-15 5.4E-20 162.2 11.6 142 204-381 3-149 (737)
34 PF00270 DEAD: DEAD/DEAH box h 99.6 3.7E-15 8.1E-20 128.9 9.2 32 227-258 1-32 (169)
35 KOG0336 ATP-dependent RNA heli 99.6 1.9E-15 4.1E-20 153.2 7.9 120 207-381 225-379 (629)
36 KOG0339 ATP-dependent RNA heli 99.6 5.1E-15 1.1E-19 153.0 9.4 126 201-381 222-382 (731)
37 PRK00254 ski2-like helicase; P 99.6 7.9E-15 1.7E-19 158.0 11.2 144 203-381 2-150 (720)
38 KOG0342 ATP-dependent RNA heli 99.6 4E-15 8.6E-20 153.0 8.0 147 199-381 86-242 (543)
39 KOG0343 RNA Helicase [RNA proc 99.6 2.1E-15 4.6E-20 157.0 5.8 133 221-381 87-227 (758)
40 KOG0335 ATP-dependent RNA heli 99.6 1.8E-15 4E-20 155.9 4.7 143 212-381 83-238 (482)
41 KOG0346 RNA helicase [RNA proc 99.6 6.5E-15 1.4E-19 150.2 7.8 148 201-381 18-182 (569)
42 PRK09401 reverse gyrase; Revie 99.5 3.1E-14 6.7E-19 160.9 13.6 51 207-258 63-113 (1176)
43 KOG0350 DEAD-box ATP-dependent 99.5 1.2E-14 2.6E-19 150.0 9.0 119 214-381 149-307 (620)
44 KOG0334 RNA helicase [RNA proc 99.5 2.9E-14 6.3E-19 156.2 9.8 125 204-381 367-527 (997)
45 PRK10917 ATP-dependent DNA hel 99.5 7.4E-14 1.6E-18 150.1 12.1 111 215-381 252-395 (681)
46 PRK01172 ski2-like helicase; P 99.5 5.7E-14 1.2E-18 150.0 10.9 140 205-381 4-147 (674)
47 TIGR00643 recG ATP-dependent D 99.5 1.1E-13 2.4E-18 147.3 11.7 108 217-380 228-368 (630)
48 COG1205 Distinct helicase fami 99.5 2.4E-13 5.1E-18 149.6 12.3 106 220-380 65-206 (851)
49 KOG0328 Predicted ATP-dependen 99.5 7.7E-14 1.7E-18 136.5 7.2 125 201-380 26-180 (400)
50 TIGR00580 mfd transcription-re 99.5 2.6E-13 5.6E-18 150.4 11.9 113 213-381 440-585 (926)
51 KOG0341 DEAD-box protein abstr 99.5 9E-15 2E-19 147.6 0.3 123 203-381 171-338 (610)
52 TIGR01054 rgy reverse gyrase. 99.4 4.6E-13 1E-17 151.5 12.7 119 209-381 63-211 (1171)
53 PRK12899 secA preprotein trans 99.4 4.8E-13 1E-17 147.1 11.9 129 204-381 64-227 (970)
54 KOG4284 DEAD box protein [Tran 99.4 2.4E-13 5.1E-18 143.8 8.5 125 200-380 23-178 (980)
55 PRK10689 transcription-repair 99.4 7.7E-13 1.7E-17 149.4 12.4 113 213-381 589-734 (1147)
56 KOG0326 ATP-dependent RNA heli 99.4 7.1E-14 1.5E-18 138.5 2.3 125 201-380 84-238 (459)
57 TIGR02621 cas3_GSU0051 CRISPR- 99.4 6.3E-13 1.4E-17 145.5 9.4 45 213-258 4-49 (844)
58 KOG0337 ATP-dependent RNA heli 99.4 3.3E-13 7.1E-18 137.3 4.3 148 199-381 25-176 (529)
59 KOG0329 ATP-dependent RNA heli 99.3 2.5E-12 5.5E-17 124.7 6.3 121 204-379 44-195 (387)
60 PRK05580 primosome assembly pr 99.3 2.7E-11 6E-16 130.5 12.3 100 225-381 144-270 (679)
61 COG1204 Superfamily II helicas 99.2 2.5E-11 5.4E-16 132.5 8.8 104 221-381 27-158 (766)
62 KOG0327 Translation initiation 99.2 1.7E-11 3.7E-16 123.4 6.8 124 203-380 27-180 (397)
63 PRK09200 preprotein translocas 99.2 1.7E-10 3.7E-15 126.2 11.9 120 210-381 64-211 (790)
64 TIGR03714 secA2 accessory Sec 99.1 1.3E-10 2.8E-15 126.5 10.3 43 213-258 59-101 (762)
65 TIGR00963 secA preprotein tran 99.1 1.7E-10 3.6E-15 125.2 11.1 121 209-381 41-188 (745)
66 PHA02558 uvsW UvsW helicase; P 99.1 2E-10 4.4E-15 119.3 11.0 122 224-381 113-234 (501)
67 smart00487 DEXDc DEAD-like hel 99.1 2.4E-10 5.3E-15 98.2 9.7 38 221-258 4-42 (201)
68 PRK13766 Hef nuclease; Provisi 99.1 2.5E-10 5.4E-15 123.5 10.8 52 225-277 15-66 (773)
69 PRK12898 secA preprotein trans 99.1 6.6E-10 1.4E-14 119.5 12.1 136 211-381 90-254 (656)
70 KOG0952 DNA/RNA helicase MER3/ 99.1 1.5E-10 3.3E-15 127.5 7.0 40 219-258 104-144 (1230)
71 KOG0344 ATP-dependent RNA heli 99.0 4.4E-10 9.5E-15 118.1 7.1 128 219-381 152-300 (593)
72 PRK13104 secA preprotein trans 99.0 1.9E-09 4.2E-14 118.8 11.0 116 213-381 71-214 (896)
73 COG1111 MPH1 ERCC4-like helica 99.0 1.5E-09 3.3E-14 112.8 8.3 103 222-380 12-142 (542)
74 KOG0354 DEAD-box like helicase 98.9 1.2E-09 2.7E-14 118.0 7.2 55 225-280 62-117 (746)
75 TIGR03158 cas3_cyano CRISPR-as 98.9 4.2E-09 9.1E-14 105.2 10.4 30 229-258 1-32 (357)
76 KOG0349 Putative DEAD-box RNA 98.9 8.2E-10 1.8E-14 113.4 3.0 55 203-258 3-57 (725)
77 PRK09751 putative ATP-dependen 98.9 1.8E-09 4E-14 124.5 6.0 38 320-381 99-136 (1490)
78 COG4581 Superfamily II RNA hel 98.9 7.6E-09 1.7E-13 115.5 10.1 125 220-381 115-241 (1041)
79 PRK12904 preprotein translocas 98.9 9.8E-09 2.1E-13 112.8 10.6 117 213-381 70-213 (830)
80 PF04851 ResIII: Type III rest 98.8 8.1E-09 1.8E-13 89.6 6.8 50 225-278 3-59 (184)
81 COG1202 Superfamily II helicas 98.8 1E-08 2.2E-13 108.3 8.1 39 220-258 211-250 (830)
82 TIGR00595 priA primosomal prot 98.8 1.5E-08 3.2E-13 106.2 8.0 81 244-381 1-105 (505)
83 COG1061 SSL2 DNA or RNA helica 98.7 2.1E-08 4.5E-13 103.3 7.5 49 225-277 36-88 (442)
84 KOG0332 ATP-dependent RNA heli 98.7 1.1E-08 2.4E-13 103.5 5.3 56 202-258 90-147 (477)
85 cd00046 DEXDc DEAD-like helica 98.7 7.9E-08 1.7E-12 77.8 7.9 37 241-277 1-38 (144)
86 PRK13107 preprotein translocas 98.7 7.1E-08 1.5E-12 106.6 9.4 117 213-381 71-214 (908)
87 TIGR01587 cas3_core CRISPR-ass 98.6 8.1E-08 1.7E-12 94.3 7.9 36 242-277 1-37 (358)
88 TIGR00603 rad25 DNA repair hel 98.6 2.3E-07 4.9E-12 101.3 9.7 50 225-278 255-307 (732)
89 PHA02653 RNA helicase NPH-II; 98.5 2E-07 4.3E-12 101.1 7.8 30 228-257 167-196 (675)
90 KOG0947 Cytoplasmic exosomal R 98.4 9.6E-07 2.1E-11 97.6 10.7 123 220-381 293-415 (1248)
91 PRK11664 ATP-dependent RNA hel 98.4 5.9E-07 1.3E-11 99.2 9.2 115 232-380 12-127 (812)
92 PF07517 SecA_DEAD: SecA DEAD- 98.4 7.8E-07 1.7E-11 86.8 8.7 117 213-381 66-209 (266)
93 PRK13103 secA preprotein trans 98.4 1.3E-06 2.7E-11 97.0 10.4 116 213-381 71-214 (913)
94 PRK12906 secA preprotein trans 98.4 1.4E-06 3.1E-11 95.8 9.9 120 210-381 66-212 (796)
95 TIGR01970 DEAH_box_HrpB ATP-de 98.4 1.2E-06 2.6E-11 96.9 9.3 114 232-379 9-123 (819)
96 PRK11448 hsdR type I restricti 98.4 1.9E-06 4.2E-11 98.1 11.1 53 225-277 413-471 (1123)
97 PRK12326 preprotein translocas 98.3 2.8E-06 6.1E-11 92.6 10.5 117 213-381 67-210 (764)
98 PRK12902 secA preprotein trans 98.2 7.7E-06 1.7E-10 90.8 11.2 117 213-381 74-217 (939)
99 KOG0951 RNA helicase BRR2, DEA 98.2 1.8E-06 3.8E-11 97.6 4.8 40 219-258 303-343 (1674)
100 PRK11131 ATP-dependent RNA hel 98.1 1.4E-05 3.1E-10 91.9 10.7 31 230-261 78-109 (1294)
101 COG1200 RecG RecG-like helicas 98.1 1.5E-05 3.3E-10 86.0 10.1 108 217-380 255-395 (677)
102 COG1198 PriA Primosomal protei 98.1 1.3E-05 2.8E-10 87.7 9.3 98 225-379 198-323 (730)
103 CHL00122 secA preprotein trans 98.0 1.6E-05 3.4E-10 88.2 9.1 118 212-381 64-208 (870)
104 PRK07246 bifunctional ATP-depe 97.9 5.9E-05 1.3E-09 83.7 11.5 60 221-281 242-332 (820)
105 TIGR00348 hsdR type I site-spe 97.9 2.9E-05 6.3E-10 84.1 8.2 52 226-277 239-301 (667)
106 PRK08074 bifunctional ATP-depe 97.8 0.00013 2.8E-09 81.9 12.0 36 222-258 255-294 (928)
107 COG1110 Reverse gyrase [DNA re 97.8 0.00016 3.4E-09 81.2 11.9 122 206-380 64-214 (1187)
108 TIGR01967 DEAH_box_HrpA ATP-de 97.8 0.00012 2.5E-09 84.6 10.3 127 221-379 60-189 (1283)
109 PRK12903 secA preprotein trans 97.7 0.00018 4E-09 79.9 11.4 119 211-381 65-210 (925)
110 KOG0951 RNA helicase BRR2, DEA 97.7 1.5E-05 3.3E-10 90.3 3.0 34 225-258 1143-1177(1674)
111 COG1197 Mfd Transcription-repa 97.7 0.00022 4.7E-09 81.0 11.6 109 216-380 586-727 (1139)
112 TIGR03117 cas_csf4 CRISPR-asso 97.7 0.00013 2.9E-09 79.0 8.8 23 236-258 12-34 (636)
113 KOG0950 DNA polymerase theta/e 97.7 6.3E-05 1.4E-09 83.6 6.1 133 213-381 211-353 (1008)
114 KOG0385 Chromatin remodeling c 97.6 0.00013 2.7E-09 80.0 8.0 105 224-381 166-301 (971)
115 smart00489 DEXDc3 DEAD-like he 97.6 0.00024 5.1E-09 69.7 9.0 71 220-293 4-83 (289)
116 smart00488 DEXDc2 DEAD-like he 97.6 0.00024 5.1E-09 69.7 9.0 71 220-293 4-83 (289)
117 PRK09694 helicase Cas3; Provis 97.6 0.0003 6.5E-09 78.8 10.8 38 221-258 282-319 (878)
118 COG4096 HsdR Type I site-speci 97.6 0.00019 4E-09 79.2 8.5 54 222-276 162-222 (875)
119 PF00176 SNF2_N: SNF2 family N 97.6 0.00025 5.5E-09 66.7 8.3 127 229-381 1-146 (299)
120 PLN03142 Probable chromatin-re 97.5 0.00019 4.1E-09 81.5 8.1 129 225-381 169-303 (1033)
121 KOG1123 RNA polymerase II tran 97.5 0.00013 2.8E-09 77.0 6.1 125 225-381 302-434 (776)
122 KOG0948 Nuclear exosomal RNA h 97.5 0.0002 4.4E-09 78.3 7.6 33 226-258 130-162 (1041)
123 TIGR01407 dinG_rel DnaQ family 97.4 0.00033 7E-09 77.9 8.0 37 221-258 242-282 (850)
124 PRK04914 ATP-dependent helicas 97.4 0.00033 7.1E-09 79.1 7.6 129 225-381 152-284 (956)
125 PRK12900 secA preprotein trans 97.2 0.001 2.2E-08 75.0 9.1 117 213-381 114-270 (1025)
126 TIGR00604 rad3 DNA repair heli 97.2 0.00098 2.1E-08 72.6 8.4 73 219-293 4-82 (705)
127 COG4098 comFA Superfamily II D 97.0 0.0018 3.9E-08 66.0 7.6 52 225-278 97-153 (441)
128 COG1199 DinG Rad3-related DNA 97.0 0.0019 4E-08 69.3 8.0 59 219-277 9-71 (654)
129 PRK15483 type III restriction- 96.7 0.0071 1.5E-07 68.5 10.1 38 241-278 60-98 (986)
130 PRK14873 primosome assembly pr 96.7 0.0041 8.8E-08 68.0 8.1 74 249-379 169-267 (665)
131 PRK12901 secA preprotein trans 96.7 0.0036 7.8E-08 71.0 7.5 35 221-258 166-200 (1112)
132 KOG0949 Predicted helicase, DE 96.7 0.0012 2.6E-08 74.1 3.2 29 228-256 514-542 (1330)
133 KOG0922 DEAH-box RNA helicase 96.6 0.0062 1.3E-07 66.1 8.3 25 231-255 57-81 (674)
134 PF00448 SRP54: SRP54-type pro 96.6 0.0051 1.1E-07 57.2 6.8 16 243-258 4-19 (196)
135 PRK11747 dinG ATP-dependent DN 96.6 0.01 2.2E-07 65.0 9.6 36 222-258 23-67 (697)
136 COG1643 HrpA HrpA-like helicas 96.4 0.013 2.7E-07 65.8 9.3 26 232-257 57-82 (845)
137 PF13401 AAA_22: AAA domain; P 96.3 0.0015 3.2E-08 54.5 1.2 19 240-258 4-22 (131)
138 PF13604 AAA_30: AAA domain; P 96.3 0.018 4E-07 53.1 8.2 52 225-277 1-54 (196)
139 KOG0384 Chromodomain-helicase 96.3 0.0071 1.5E-07 69.3 6.3 111 224-381 369-509 (1373)
140 PF07652 Flavi_DEAD: Flaviviru 96.2 0.049 1.1E-06 49.5 10.4 50 240-292 4-54 (148)
141 cd01120 RecA-like_NTPases RecA 96.1 0.056 1.2E-06 45.5 9.9 39 243-282 2-40 (165)
142 TIGR01448 recD_rel helicase, p 96.0 0.041 8.8E-07 60.7 10.6 37 220-257 319-355 (720)
143 PRK14722 flhF flagellar biosyn 96.0 0.04 8.8E-07 56.6 9.7 40 240-279 137-177 (374)
144 PF09848 DUF2075: Uncharacteri 96.0 0.0084 1.8E-07 59.9 4.6 37 243-280 4-42 (352)
145 COG4889 Predicted helicase [Ge 95.9 0.043 9.4E-07 61.8 10.0 37 222-258 158-198 (1518)
146 COG1203 CRISPR-associated heli 95.9 0.018 4E-07 63.4 7.2 32 227-258 197-232 (733)
147 KOG0952 DNA/RNA helicase MER3/ 95.8 0.0043 9.4E-08 70.2 2.2 53 225-277 927-981 (1230)
148 cd00009 AAA The AAA+ (ATPases 95.8 0.093 2E-06 42.6 9.5 37 240-277 19-55 (151)
149 PRK14723 flhF flagellar biosyn 95.8 0.039 8.4E-07 61.4 9.2 39 241-279 186-225 (767)
150 KOG0389 SNF2 family DNA-depend 95.7 0.045 9.8E-07 60.8 9.3 107 226-381 400-536 (941)
151 PF01695 IstB_IS21: IstB-like 95.7 0.056 1.2E-06 49.4 8.6 37 239-276 46-82 (178)
152 COG0653 SecA Preprotein transl 95.6 0.051 1.1E-06 60.8 9.3 117 213-381 69-212 (822)
153 PRK12723 flagellar biosynthesi 95.5 0.082 1.8E-06 54.5 9.8 41 240-280 174-217 (388)
154 TIGR01425 SRP54_euk signal rec 95.5 0.099 2.1E-06 54.7 10.3 38 242-280 102-139 (429)
155 KOG0926 DEAH-box RNA helicase 95.4 0.035 7.7E-07 61.9 7.1 24 232-255 263-286 (1172)
156 cd01124 KaiC KaiC is a circadi 95.4 0.18 3.9E-06 44.6 10.5 45 243-288 2-46 (187)
157 PF13086 AAA_11: AAA domain; P 95.4 0.045 9.8E-07 49.0 6.7 66 226-293 2-75 (236)
158 TIGR03015 pepcterm_ATPase puta 95.4 0.078 1.7E-06 49.9 8.4 31 228-258 26-61 (269)
159 PRK10867 signal recognition pa 95.3 0.12 2.7E-06 54.0 10.6 41 242-282 102-142 (433)
160 TIGR00767 rho transcription te 95.3 0.056 1.2E-06 56.3 7.9 53 239-291 167-220 (415)
161 TIGR02928 orc1/cdc6 family rep 95.3 0.051 1.1E-06 53.6 7.3 18 241-258 41-58 (365)
162 TIGR00959 ffh signal recogniti 95.3 0.13 2.9E-06 53.6 10.5 40 242-281 101-140 (428)
163 PRK00411 cdc6 cell division co 95.2 0.075 1.6E-06 53.1 8.4 38 241-278 56-94 (394)
164 PRK14974 cell division protein 95.2 0.15 3.2E-06 51.6 10.4 39 242-281 142-180 (336)
165 TIGR00064 ftsY signal recognit 95.1 0.18 3.9E-06 49.3 10.4 38 241-279 73-110 (272)
166 PRK11889 flhF flagellar biosyn 95.1 0.088 1.9E-06 55.1 8.4 39 241-280 242-280 (436)
167 PTZ00112 origin recognition co 95.0 0.76 1.6E-05 52.6 16.0 53 226-278 759-825 (1164)
168 PRK06526 transposase; Provisio 95.0 0.048 1E-06 52.8 6.1 35 239-274 97-131 (254)
169 PRK10416 signal recognition pa 95.0 0.21 4.6E-06 50.0 10.8 39 240-279 114-152 (318)
170 PRK08727 hypothetical protein; 95.0 0.06 1.3E-06 51.0 6.6 15 242-256 43-57 (233)
171 PRK00771 signal recognition pa 95.0 0.17 3.7E-06 53.0 10.5 39 241-280 96-134 (437)
172 smart00382 AAA ATPases associa 95.0 0.057 1.2E-06 43.1 5.4 19 240-258 2-20 (148)
173 PF00004 AAA: ATPase family as 94.9 0.057 1.2E-06 44.5 5.4 32 243-278 1-32 (132)
174 PRK04296 thymidine kinase; Pro 94.7 0.13 2.7E-06 47.3 7.7 34 243-277 5-38 (190)
175 PRK10875 recD exonuclease V su 94.7 0.29 6.3E-06 53.4 11.6 42 217-258 143-185 (615)
176 PRK08181 transposase; Validate 94.7 0.18 3.8E-06 49.5 9.1 48 228-276 90-141 (269)
177 COG1474 CDC6 Cdc6-related prot 94.7 0.13 2.8E-06 52.5 8.4 26 241-266 43-68 (366)
178 cd01122 GP4d_helicase GP4d_hel 94.6 0.2 4.4E-06 47.5 9.2 52 237-288 27-78 (271)
179 COG0552 FtsY Signal recognitio 94.6 0.28 6E-06 50.0 10.5 79 243-345 142-247 (340)
180 cd00984 DnaB_C DnaB helicase C 94.6 0.3 6.5E-06 45.3 10.1 50 239-288 12-61 (242)
181 COG1484 DnaC DNA replication p 94.6 0.22 4.7E-06 48.3 9.3 50 227-277 85-141 (254)
182 PRK07952 DNA replication prote 94.6 0.22 4.8E-06 48.2 9.3 48 228-276 79-134 (244)
183 KOG1002 Nucleotide excision re 94.5 0.16 3.4E-06 54.5 8.8 31 227-257 186-221 (791)
184 KOG0924 mRNA splicing factor A 94.4 0.18 3.9E-06 55.7 9.0 26 231-256 362-387 (1042)
185 KOG0920 ATP-dependent RNA heli 94.3 0.15 3.3E-06 57.8 8.4 28 228-255 176-203 (924)
186 PRK05703 flhF flagellar biosyn 94.1 0.28 6.1E-06 51.0 9.5 40 240-279 221-261 (424)
187 KOG0386 Chromatin remodeling c 94.1 0.11 2.3E-06 59.1 6.7 106 222-381 391-527 (1157)
188 TIGR02768 TraA_Ti Ti-type conj 94.0 0.16 3.4E-06 56.4 7.8 51 225-276 352-403 (744)
189 PRK13889 conjugal transfer rel 93.9 0.25 5.5E-06 56.6 9.3 50 225-275 346-396 (988)
190 TIGR03420 DnaA_homol_Hda DnaA 93.8 0.12 2.5E-06 47.4 5.4 36 240-276 38-73 (226)
191 TIGR03499 FlhF flagellar biosy 93.6 0.26 5.6E-06 48.2 7.8 40 240-279 194-234 (282)
192 PF12340 DUF3638: Protein of u 93.6 0.46 1E-05 46.0 9.3 34 225-258 23-59 (229)
193 TIGR02237 recomb_radB DNA repa 93.2 0.7 1.5E-05 42.1 9.6 40 239-279 11-50 (209)
194 COG1419 FlhF Flagellar GTP-bin 93.0 0.44 9.5E-06 49.7 8.7 51 239-292 202-280 (407)
195 PF02562 PhoH: PhoH-like prote 93.0 0.24 5.3E-06 46.9 6.2 34 225-258 4-37 (205)
196 PRK08084 DNA replication initi 92.9 0.26 5.7E-06 46.7 6.5 36 240-276 45-80 (235)
197 TIGR01447 recD exodeoxyribonuc 92.9 0.66 1.4E-05 50.3 10.2 31 228-258 148-178 (586)
198 PRK12377 putative replication 92.8 0.75 1.6E-05 44.6 9.5 35 241-276 102-136 (248)
199 COG2804 PulE Type II secretory 92.8 1.2 2.5E-05 47.7 11.5 32 226-257 242-275 (500)
200 PF05970 PIF1: PIF1-like helic 92.8 0.26 5.7E-06 49.8 6.6 32 226-257 2-39 (364)
201 COG1219 ClpX ATP-dependent pro 92.6 0.1 2.3E-06 53.2 3.5 33 238-274 95-127 (408)
202 PRK06921 hypothetical protein; 92.6 1.1 2.4E-05 43.6 10.4 37 240-276 117-153 (266)
203 PRK14721 flhF flagellar biosyn 92.5 0.63 1.4E-05 48.6 9.1 20 239-258 190-209 (420)
204 PRK12727 flagellar biosynthesi 92.5 0.61 1.3E-05 50.4 9.1 39 240-278 350-389 (559)
205 PRK06995 flhF flagellar biosyn 92.3 0.4 8.7E-06 51.0 7.5 40 240-279 256-296 (484)
206 TIGR00635 ruvB Holliday juncti 92.2 0.58 1.3E-05 45.2 7.9 17 241-257 31-47 (305)
207 PF06745 KaiC: KaiC; InterPro 92.2 0.51 1.1E-05 43.7 7.2 50 239-288 18-67 (226)
208 PRK06067 flagellar accessory p 92.2 1.4 2.9E-05 41.3 10.1 49 239-288 24-72 (234)
209 TIGR02881 spore_V_K stage V sp 92.1 0.38 8.2E-06 46.0 6.5 17 241-257 43-59 (261)
210 PRK06893 DNA replication initi 92.0 0.31 6.8E-06 45.9 5.6 34 242-276 41-74 (229)
211 TIGR00665 DnaB replicative DNA 91.9 1.1 2.5E-05 45.9 10.1 49 240-288 195-243 (434)
212 PRK00080 ruvB Holliday junctio 91.9 0.52 1.1E-05 46.6 7.4 18 241-258 52-69 (328)
213 PRK10865 protein disaggregatio 91.8 0.43 9.4E-06 53.8 7.4 17 241-257 200-216 (857)
214 PRK12726 flagellar biosynthesi 91.7 0.76 1.7E-05 47.9 8.6 40 239-279 205-244 (407)
215 TIGR02655 circ_KaiC circadian 91.7 0.8 1.7E-05 48.2 8.8 51 239-290 262-312 (484)
216 cd01394 radB RadB. The archaea 91.3 0.97 2.1E-05 41.5 8.1 40 240-280 19-58 (218)
217 TIGR01241 FtsH_fam ATP-depende 91.3 0.8 1.7E-05 48.1 8.4 70 200-276 50-120 (495)
218 PRK06835 DNA replication prote 91.3 2 4.4E-05 43.3 10.9 37 240-277 183-219 (329)
219 TIGR02688 conserved hypothetic 91.2 0.3 6.5E-06 51.4 5.1 46 213-258 175-227 (449)
220 PF00580 UvrD-helicase: UvrD/R 91.2 0.25 5.5E-06 46.5 4.2 49 226-276 1-52 (315)
221 PRK09376 rho transcription ter 91.1 1.1 2.4E-05 46.9 8.9 64 228-291 154-221 (416)
222 PRK06731 flhF flagellar biosyn 91.1 1 2.2E-05 44.4 8.3 39 239-278 74-112 (270)
223 PRK12724 flagellar biosynthesi 91.0 1.9 4.1E-05 45.5 10.6 38 242-279 225-262 (432)
224 TIGR03345 VI_ClpV1 type VI sec 91.0 0.96 2.1E-05 51.1 9.0 28 230-257 192-225 (852)
225 KOG1802 RNA helicase nonsense 90.8 0.44 9.6E-06 52.6 5.9 57 221-277 406-486 (935)
226 PRK12608 transcription termina 90.8 0.68 1.5E-05 47.9 7.0 63 228-291 118-185 (380)
227 PF13245 AAA_19: Part of AAA d 90.8 0.95 2.1E-05 36.1 6.5 45 232-276 1-49 (76)
228 PRK14958 DNA polymerase III su 90.7 0.99 2.1E-05 48.1 8.5 15 243-257 41-55 (509)
229 KOG1805 DNA replication helica 90.7 0.92 2E-05 51.8 8.4 34 225-258 669-703 (1100)
230 PF12846 AAA_10: AAA-like doma 90.6 0.47 1E-05 44.4 5.4 19 240-258 1-19 (304)
231 PRK13826 Dtr system oriT relax 90.6 1.1 2.4E-05 52.0 9.3 50 225-275 381-431 (1102)
232 PRK00149 dnaA chromosomal repl 90.6 0.67 1.5E-05 48.0 7.0 17 241-257 149-165 (450)
233 PHA02244 ATPase-like protein 90.6 0.94 2E-05 47.0 7.9 38 236-277 115-152 (383)
234 TIGR00376 DNA helicase, putati 90.6 1.1 2.4E-05 49.1 8.8 51 224-275 156-207 (637)
235 TIGR02639 ClpA ATP-dependent C 90.6 0.75 1.6E-05 50.8 7.6 17 241-257 204-220 (731)
236 PRK09361 radB DNA repair and r 90.5 2.1 4.5E-05 39.6 9.5 38 240-278 23-60 (225)
237 PRK14956 DNA polymerase III su 90.5 0.65 1.4E-05 49.4 6.9 16 243-258 43-58 (484)
238 PRK13833 conjugal transfer pro 90.3 0.32 6.9E-06 49.1 4.1 31 226-256 129-160 (323)
239 TIGR02640 gas_vesic_GvpN gas v 90.1 0.6 1.3E-05 45.0 5.8 44 231-278 12-55 (262)
240 PRK05973 replicative DNA helic 90.1 1.2 2.6E-05 43.2 7.7 53 237-290 61-113 (237)
241 TIGR03877 thermo_KaiC_1 KaiC d 90.0 2 4.3E-05 40.6 9.0 50 239-289 20-69 (237)
242 cd01131 PilT Pilus retraction 90.0 1.6 3.6E-05 40.2 8.3 16 243-258 4-19 (198)
243 TIGR03346 chaperone_ClpB ATP-d 89.9 0.82 1.8E-05 51.5 7.4 17 241-257 195-211 (852)
244 COG0610 Type I site-specific r 89.9 0.44 9.6E-06 54.5 5.3 36 241-276 274-309 (962)
245 TIGR02533 type_II_gspE general 89.8 2.1 4.5E-05 45.4 9.9 32 226-257 226-259 (486)
246 cd01393 recA_like RecA is a b 89.8 4.2 9.1E-05 37.3 10.9 39 240-279 19-63 (226)
247 PRK04195 replication factor C 89.8 1.3 2.9E-05 46.3 8.5 35 240-278 39-73 (482)
248 cd00983 recA RecA is a bacter 89.8 1.5 3.2E-05 44.5 8.4 42 240-282 55-96 (325)
249 PRK08939 primosomal protein Dn 89.8 1 2.2E-05 44.9 7.2 37 240-277 156-192 (306)
250 CHL00095 clpC Clp protease ATP 89.8 0.91 2E-05 50.9 7.6 32 227-258 184-218 (821)
251 TIGR02880 cbbX_cfxQ probable R 89.7 0.72 1.6E-05 45.2 6.0 18 240-257 58-75 (284)
252 KOG0923 mRNA splicing factor A 89.6 0.65 1.4E-05 51.4 6.0 29 228-256 268-296 (902)
253 TIGR02012 tigrfam_recA protein 89.6 1.3 2.7E-05 44.9 7.7 42 239-281 54-95 (321)
254 cd03115 SRP The signal recogni 89.5 3.9 8.4E-05 36.2 10.1 37 243-280 3-39 (173)
255 KOG4439 RNA polymerase II tran 89.5 0.46 9.9E-06 52.7 4.8 33 226-258 326-363 (901)
256 PRK10536 hypothetical protein; 89.5 0.39 8.4E-06 47.4 3.9 38 221-258 55-92 (262)
257 cd01128 rho_factor Transcripti 89.4 0.84 1.8E-05 44.3 6.1 21 237-257 13-33 (249)
258 cd01121 Sms Sms (bacterial rad 89.4 1.7 3.7E-05 44.6 8.6 44 239-283 81-124 (372)
259 PRK10436 hypothetical protein; 89.3 2.1 4.5E-05 45.3 9.4 32 226-257 202-235 (462)
260 CHL00176 ftsH cell division pr 89.3 1 2.2E-05 49.4 7.3 71 200-277 178-249 (638)
261 cd01130 VirB11-like_ATPase Typ 89.3 0.51 1.1E-05 42.9 4.3 35 223-257 7-42 (186)
262 TIGR02782 TrbB_P P-type conjug 89.3 0.43 9.3E-06 47.3 4.1 33 225-257 116-149 (299)
263 PRK08760 replicative DNA helic 89.2 2.6 5.6E-05 44.5 10.1 47 242-288 231-277 (476)
264 PRK09354 recA recombinase A; P 89.2 2.2 4.7E-05 43.7 9.1 42 240-282 60-101 (349)
265 TIGR01243 CDC48 AAA family ATP 89.1 1.2 2.5E-05 49.2 7.7 73 200-277 173-245 (733)
266 cd01129 PulE-GspE PulE/GspE Th 89.0 3 6.5E-05 40.6 9.7 32 226-257 64-97 (264)
267 PRK11034 clpA ATP-dependent Cl 89.0 1.1 2.4E-05 50.0 7.5 19 240-258 207-225 (758)
268 PRK08116 hypothetical protein; 89.0 2.5 5.5E-05 41.2 9.1 34 242-276 116-149 (268)
269 PRK07003 DNA polymerase III su 89.0 1.4 3E-05 49.6 8.1 15 243-257 41-55 (830)
270 TIGR02538 type_IV_pilB type IV 88.9 2.1 4.5E-05 46.2 9.2 31 227-257 301-333 (564)
271 PRK13894 conjugal transfer ATP 88.9 0.46 1E-05 47.7 4.0 31 226-256 133-164 (319)
272 TIGR00362 DnaA chromosomal rep 88.7 1.3 2.8E-05 45.2 7.2 37 241-277 137-174 (405)
273 PRK11823 DNA repair protein Ra 88.7 1.9 4.1E-05 45.2 8.6 44 239-283 79-122 (446)
274 CHL00181 cbbX CbbX; Provisiona 88.7 0.99 2.1E-05 44.4 6.2 19 240-258 59-77 (287)
275 PHA02542 41 41 helicase; Provi 88.7 2.8 6.1E-05 44.4 9.9 45 243-288 193-237 (473)
276 PRK14087 dnaA chromosomal repl 88.7 0.73 1.6E-05 48.2 5.5 16 241-256 142-157 (450)
277 PRK09183 transposase/IS protei 88.5 1.2 2.7E-05 43.0 6.6 39 237-276 99-137 (259)
278 PRK14950 DNA polymerase III su 88.4 0.61 1.3E-05 50.3 4.9 16 243-258 41-56 (585)
279 PF03796 DnaB_C: DnaB-like hel 88.4 3.7 8E-05 39.0 9.7 48 243-290 22-69 (259)
280 PRK08533 flagellar accessory p 88.4 4.3 9.4E-05 38.5 10.1 50 238-288 22-71 (230)
281 KOG0390 DNA repair protein, SN 88.3 2.5 5.5E-05 47.4 9.6 34 225-258 238-281 (776)
282 TIGR03878 thermo_KaiC_2 KaiC d 88.2 3.7 8E-05 39.6 9.6 42 239-281 35-76 (259)
283 PRK09165 replicative DNA helic 88.1 3.2 6.9E-05 44.1 9.9 50 241-290 218-281 (497)
284 PTZ00454 26S protease regulato 88.1 2.3 4.9E-05 44.0 8.6 71 199-276 139-211 (398)
285 KOG0745 Putative ATP-dependent 88.0 0.75 1.6E-05 48.8 5.0 34 239-276 225-258 (564)
286 TIGR01242 26Sp45 26S proteasom 88.0 1.5 3.2E-05 44.1 7.0 57 200-257 117-173 (364)
287 KOG1803 DNA helicase [Replicat 87.9 1.8 3.9E-05 47.3 7.9 50 225-275 185-235 (649)
288 PF13481 AAA_25: AAA domain; P 87.9 2.7 5.9E-05 37.4 8.0 54 239-292 31-93 (193)
289 PRK09111 DNA polymerase III su 87.9 1.2 2.5E-05 48.6 6.6 17 242-258 48-64 (598)
290 KOG1131 RNA polymerase II tran 87.8 2.3 5E-05 46.2 8.5 43 219-261 10-56 (755)
291 KOG1132 Helicase of the DEAD s 87.8 1.2 2.6E-05 50.4 6.7 37 221-258 18-58 (945)
292 PRK04328 hypothetical protein; 87.7 5.2 0.00011 38.3 10.2 50 239-289 22-71 (249)
293 PRK08691 DNA polymerase III su 87.7 2 4.4E-05 47.8 8.3 17 242-258 40-56 (709)
294 TIGR03743 SXT_TraD conjugative 87.6 2.1 4.5E-05 47.0 8.4 50 240-290 176-225 (634)
295 PF05496 RuvB_N: Holliday junc 87.6 1.7 3.6E-05 42.4 6.8 32 242-277 52-83 (233)
296 KOG0331 ATP-dependent RNA heli 87.6 0.55 1.2E-05 50.4 3.8 45 250-294 340-390 (519)
297 COG0470 HolB ATPase involved i 87.4 2.4 5.1E-05 40.7 7.8 20 239-258 22-42 (325)
298 PF05621 TniB: Bacterial TniB 87.4 1.3 2.7E-05 44.7 6.1 17 241-257 62-78 (302)
299 PRK05595 replicative DNA helic 87.4 3.8 8.3E-05 42.6 9.8 46 243-288 204-249 (444)
300 PLN03025 replication factor C 87.3 3.4 7.5E-05 40.7 9.0 17 241-257 35-51 (319)
301 PF02534 T4SS-DNA_transf: Type 87.2 1 2.3E-05 46.3 5.5 18 241-258 45-62 (469)
302 TIGR01420 pilT_fam pilus retra 87.2 2.1 4.5E-05 43.0 7.5 19 239-257 121-139 (343)
303 KOG0391 SNF2 family DNA-depend 87.0 1.2 2.7E-05 52.0 6.2 30 226-255 616-649 (1958)
304 PRK03992 proteasome-activating 87.0 2.3 5E-05 43.5 7.9 70 200-276 126-197 (389)
305 PRK08903 DnaA regulatory inact 87.0 1.6 3.6E-05 40.4 6.2 37 240-277 42-78 (227)
306 PRK05563 DNA polymerase III su 87.0 0.97 2.1E-05 48.7 5.3 16 242-257 40-55 (559)
307 PF01935 DUF87: Domain of unkn 86.9 0.96 2.1E-05 41.9 4.7 39 239-277 22-60 (229)
308 PRK00440 rfc replication facto 86.9 5.3 0.00012 38.3 9.9 17 242-258 40-56 (319)
309 PRK14964 DNA polymerase III su 86.8 2.3 5.1E-05 45.3 7.9 16 242-257 37-52 (491)
310 PRK14961 DNA polymerase III su 86.7 1.4 3E-05 44.5 6.0 16 243-258 41-56 (363)
311 COG4962 CpaF Flp pilus assembl 86.7 0.67 1.5E-05 47.5 3.7 35 221-255 153-188 (355)
312 TIGR02562 cas3_yersinia CRISPR 86.7 2.4 5.3E-05 49.1 8.4 31 228-258 411-449 (1110)
313 COG0541 Ffh Signal recognition 86.7 4.8 0.0001 42.6 10.0 78 243-345 103-208 (451)
314 PRK07994 DNA polymerase III su 86.6 2.4 5.2E-05 46.8 8.1 16 243-258 41-56 (647)
315 KOG0742 AAA+-type ATPase [Post 86.5 1.2 2.6E-05 47.1 5.5 34 241-278 385-418 (630)
316 PRK12323 DNA polymerase III su 86.5 1.3 2.7E-05 49.2 5.9 16 243-258 41-56 (700)
317 PRK14960 DNA polymerase III su 86.3 1.4 3E-05 48.9 6.1 17 242-258 39-55 (702)
318 COG2805 PilT Tfp pilus assembl 86.3 0.82 1.8E-05 46.5 4.0 31 242-272 127-157 (353)
319 PLN00020 ribulose bisphosphate 86.2 1 2.2E-05 47.0 4.8 34 241-278 149-182 (413)
320 TIGR03880 KaiC_arch_3 KaiC dom 86.2 5.7 0.00012 36.7 9.4 49 239-288 15-63 (224)
321 PRK05642 DNA replication initi 86.1 1.7 3.6E-05 41.3 5.9 35 241-276 46-80 (234)
322 PRK13342 recombination factor 86.1 2.6 5.6E-05 43.3 7.7 32 242-277 38-69 (413)
323 PRK07004 replicative DNA helic 86.0 4.9 0.00011 42.3 9.8 49 240-288 213-261 (460)
324 TIGR03689 pup_AAA proteasome A 85.9 2.5 5.3E-05 45.4 7.6 55 200-257 177-233 (512)
325 KOG1000 Chromatin remodeling p 85.9 4.1 8.8E-05 44.1 9.0 64 225-290 198-262 (689)
326 PRK06645 DNA polymerase III su 85.8 2.7 5.8E-05 45.0 7.8 17 242-258 45-61 (507)
327 PRK08769 DNA polymerase III su 85.8 3.1 6.6E-05 42.0 7.8 36 223-258 2-44 (319)
328 TIGR01243 CDC48 AAA family ATP 85.8 3 6.4E-05 46.1 8.4 33 241-277 488-520 (733)
329 KOG0925 mRNA splicing factor A 85.7 2.4 5.1E-05 45.8 7.2 27 230-256 52-78 (699)
330 PRK06321 replicative DNA helic 85.4 5 0.00011 42.5 9.5 50 241-290 226-276 (472)
331 PRK05636 replicative DNA helic 85.2 5.5 0.00012 42.6 9.8 47 241-287 265-312 (505)
332 TIGR02655 circ_KaiC circadian 85.1 3.9 8.4E-05 43.1 8.5 50 239-290 20-71 (484)
333 COG0630 VirB11 Type IV secreto 84.9 1.8 4E-05 43.2 5.7 35 222-256 124-159 (312)
334 PRK14949 DNA polymerase III su 84.8 1.4 3E-05 50.4 5.3 16 242-257 39-55 (944)
335 TIGR00176 mobB molybdopterin-g 84.8 4.4 9.6E-05 36.3 7.6 34 243-277 2-35 (155)
336 PHA02544 44 clamp loader, smal 84.6 2.9 6.4E-05 40.5 7.0 33 242-278 44-77 (316)
337 TIGR03754 conj_TOL_TraD conjug 84.6 3.8 8.1E-05 45.3 8.4 50 240-290 180-229 (643)
338 KOG4150 Predicted ATP-dependen 84.4 0.47 1E-05 51.7 1.4 37 222-258 283-319 (1034)
339 PRK09302 circadian clock prote 84.3 5.1 0.00011 42.2 9.1 45 239-284 272-316 (509)
340 TIGR03600 phage_DnaB phage rep 84.2 8.4 0.00018 39.5 10.4 49 240-288 194-242 (421)
341 PRK07773 replicative DNA helic 84.1 6.1 0.00013 44.9 10.1 47 243-289 220-266 (886)
342 PF00308 Bac_DnaA: Bacterial d 84.0 2.6 5.7E-05 39.6 6.2 14 243-256 37-50 (219)
343 PRK08506 replicative DNA helic 84.0 6.9 0.00015 41.3 9.9 47 241-288 193-239 (472)
344 PRK05748 replicative DNA helic 84.0 8 0.00017 40.2 10.2 49 240-288 203-251 (448)
345 PRK14088 dnaA chromosomal repl 83.8 3.5 7.6E-05 43.0 7.5 37 241-277 131-168 (440)
346 PF12775 AAA_7: P-loop contain 83.7 0.65 1.4E-05 45.4 2.0 25 239-263 32-56 (272)
347 cd01126 TraG_VirD4 The TraG/Tr 83.7 0.89 1.9E-05 45.9 3.0 17 242-258 1-17 (384)
348 PRK14955 DNA polymerase III su 83.6 2.5 5.4E-05 43.3 6.3 16 243-258 41-56 (397)
349 PF05872 DUF853: Bacterial pro 83.6 0.98 2.1E-05 48.1 3.3 45 230-275 9-53 (502)
350 KOG1133 Helicase of the DEAD s 83.5 1.4 3E-05 49.0 4.5 38 221-258 10-52 (821)
351 PRK13851 type IV secretion sys 83.3 0.69 1.5E-05 47.0 2.1 25 232-256 153-178 (344)
352 cd01127 TrwB Bacterial conjuga 83.3 1.2 2.6E-05 45.8 3.8 24 234-257 36-59 (410)
353 PRK10733 hflB ATP-dependent me 83.2 3.1 6.6E-05 45.6 7.0 33 241-277 186-218 (644)
354 KOG0989 Replication factor C, 83.1 2.3 5E-05 43.3 5.6 30 229-258 40-75 (346)
355 PF14617 CMS1: U3-containing 9 83.1 1.4 3.1E-05 43.2 4.0 35 320-379 177-211 (252)
356 PF12774 AAA_6: Hydrolytic ATP 83.1 7.9 0.00017 37.2 9.0 36 240-279 32-67 (231)
357 PRK14969 DNA polymerase III su 83.0 2.5 5.5E-05 45.2 6.2 16 243-258 41-56 (527)
358 PRK13900 type IV secretion sys 82.3 0.89 1.9E-05 45.9 2.4 18 238-255 158-175 (332)
359 PRK14948 DNA polymerase III su 82.1 3.1 6.7E-05 45.5 6.6 18 241-258 39-56 (620)
360 PRK12422 chromosomal replicati 82.1 2 4.4E-05 45.0 5.0 35 241-276 142-176 (445)
361 PF00154 RecA: recA bacterial 82.1 9.2 0.0002 38.8 9.5 87 240-377 53-139 (322)
362 PF13207 AAA_17: AAA domain; P 82.1 1.6 3.4E-05 35.9 3.4 29 243-275 2-30 (121)
363 PF13671 AAA_33: AAA domain; P 82.0 4.7 0.0001 33.9 6.4 15 243-257 2-16 (143)
364 PF07728 AAA_5: AAA domain (dy 81.8 1.6 3.4E-05 37.1 3.4 32 242-277 1-32 (139)
365 KOG0346 RNA helicase [RNA proc 81.5 0.61 1.3E-05 49.4 0.9 54 252-330 269-328 (569)
366 PF10662 PduV-EutP: Ethanolami 81.5 0.91 2E-05 40.9 1.9 23 323-345 39-61 (143)
367 PF13173 AAA_14: AAA domain 81.5 4.7 0.0001 34.2 6.2 18 240-257 2-19 (128)
368 PHA00350 putative assembly pro 81.4 2.5 5.4E-05 44.1 5.3 16 243-258 4-19 (399)
369 PRK13850 type IV secretion sys 81.4 2.8 6.1E-05 46.4 5.9 18 241-258 140-157 (670)
370 PF02399 Herpes_ori_bp: Origin 81.2 3.3 7.1E-05 46.8 6.4 37 240-276 48-85 (824)
371 PRK14962 DNA polymerase III su 81.2 5 0.00011 42.5 7.5 15 243-257 39-53 (472)
372 PRK14952 DNA polymerase III su 81.1 5.1 0.00011 43.7 7.7 16 243-258 38-53 (584)
373 KOG0387 Transcription-coupled 81.1 3.5 7.6E-05 46.5 6.5 60 226-288 206-274 (923)
374 TIGR01073 pcrA ATP-dependent D 80.9 2.2 4.8E-05 46.9 5.0 45 224-270 3-47 (726)
375 PRK14951 DNA polymerase III su 80.8 4.6 0.0001 44.3 7.3 16 243-258 41-56 (618)
376 PRK05707 DNA polymerase III su 80.6 5.6 0.00012 40.1 7.4 33 226-258 4-40 (328)
377 PRK09302 circadian clock prote 80.6 10 0.00022 40.0 9.6 52 239-290 30-81 (509)
378 PRK14957 DNA polymerase III su 80.5 6.2 0.00013 42.7 8.0 16 243-258 41-56 (546)
379 PF00437 T2SE: Type II/IV secr 80.3 1.1 2.4E-05 42.7 2.1 30 228-257 114-144 (270)
380 PRK13341 recombination factor 80.2 5.6 0.00012 44.4 7.8 16 242-257 54-69 (725)
381 PRK14086 dnaA chromosomal repl 80.0 21 0.00045 39.5 11.8 36 242-277 316-352 (617)
382 PRK10919 ATP-dependent DNA hel 80.0 2.6 5.6E-05 46.3 5.1 39 225-265 2-40 (672)
383 TIGR00763 lon ATP-dependent pr 80.0 3.4 7.4E-05 46.1 6.1 33 240-276 347-379 (775)
384 cd01363 Motor_domain Myosin an 79.8 1.6 3.4E-05 39.9 2.9 29 228-257 11-41 (186)
385 TIGR01074 rep ATP-dependent DN 79.8 2.7 5.8E-05 45.5 5.1 38 226-265 2-39 (664)
386 PRK09112 DNA polymerase III su 79.7 7.4 0.00016 39.6 7.9 16 242-257 47-62 (351)
387 TIGR02238 recomb_DMC1 meiotic 79.7 7.3 0.00016 39.0 7.8 23 233-255 84-111 (313)
388 TIGR02785 addA_Gpos recombinat 79.6 3.4 7.5E-05 48.5 6.2 37 225-263 1-37 (1232)
389 PF01745 IPT: Isopentenyl tran 79.5 2.1 4.5E-05 41.7 3.7 31 243-277 4-34 (233)
390 PF13177 DNA_pol3_delta2: DNA 79.3 7.1 0.00015 35.0 6.9 17 242-258 21-37 (162)
391 COG0378 HypB Ni2+-binding GTPa 78.9 13 0.00028 35.6 8.7 40 242-283 15-54 (202)
392 PRK07764 DNA polymerase III su 78.8 5.4 0.00012 45.2 7.2 16 243-258 40-55 (824)
393 PF13191 AAA_16: AAA ATPase do 78.7 1.5 3.2E-05 38.3 2.2 39 227-265 5-49 (185)
394 TIGR01075 uvrD DNA helicase II 78.5 2.7 5.9E-05 46.2 4.7 33 224-258 3-35 (715)
395 TIGR02639 ClpA ATP-dependent C 78.4 3.7 8.1E-05 45.5 5.8 30 243-276 487-516 (731)
396 COG5008 PilU Tfp pilus assembl 78.3 5.7 0.00012 40.3 6.4 17 242-258 129-145 (375)
397 PRK07940 DNA polymerase III su 78.2 9.1 0.0002 39.6 8.2 16 242-257 38-53 (394)
398 PRK13897 type IV secretion sys 78.1 3 6.5E-05 45.6 4.8 18 241-258 159-176 (606)
399 PRK14530 adenylate kinase; Pro 78.0 2.3 5E-05 39.3 3.5 31 239-273 2-32 (215)
400 PHA00729 NTP-binding motif con 77.9 3.2 6.9E-05 40.1 4.4 17 241-257 18-34 (226)
401 PLN03187 meiotic recombination 77.6 11 0.00024 38.4 8.5 16 240-255 126-141 (344)
402 cd00561 CobA_CobO_BtuR ATP:cor 77.5 19 0.00041 32.9 9.1 35 243-278 5-42 (159)
403 PRK10463 hydrogenase nickel in 77.4 81 0.0017 31.7 14.2 51 230-282 91-144 (290)
404 TIGR02746 TraC-F-type type-IV 77.2 4.9 0.00011 44.4 6.3 18 241-258 431-448 (797)
405 TIGR02760 TraI_TIGR conjugativ 77.1 3.1 6.7E-05 51.2 5.0 52 224-275 1018-1074(1960)
406 COG3598 RepA RecA-family ATPas 77.1 15 0.00033 38.0 9.1 66 227-292 75-150 (402)
407 TIGR02397 dnaX_nterm DNA polym 77.1 6.3 0.00014 38.6 6.4 16 242-257 38-53 (355)
408 TIGR01650 PD_CobS cobaltochela 77.0 4.2 9.2E-05 41.3 5.2 36 236-275 60-95 (327)
409 COG1222 RPT1 ATP-dependent 26S 77.0 29 0.00062 36.4 11.1 59 197-258 143-203 (406)
410 PF10412 TrwB_AAD_bind: Type I 76.9 1.8 3.9E-05 44.2 2.7 40 236-276 11-50 (386)
411 TIGR00382 clpX endopeptidase C 76.8 4.1 9E-05 42.6 5.2 17 241-257 117-133 (413)
412 KOG0738 AAA+-type ATPase [Post 76.7 23 0.0005 37.6 10.5 17 241-257 246-262 (491)
413 COG3421 Uncharacterized protei 76.7 6.5 0.00014 43.5 6.7 26 245-271 2-27 (812)
414 COG2256 MGS1 ATPase related to 76.6 9.5 0.00021 40.2 7.7 34 241-278 49-82 (436)
415 PF01637 Arch_ATPase: Archaeal 76.5 6.8 0.00015 35.0 6.0 18 240-257 20-37 (234)
416 TIGR03744 traC_PFL_4706 conjug 76.4 5.5 0.00012 45.3 6.5 45 240-284 475-519 (893)
417 COG3587 Restriction endonuclea 76.2 2.3 4.9E-05 48.3 3.3 36 242-277 76-112 (985)
418 TIGR02858 spore_III_AA stage I 76.2 25 0.00054 34.6 10.3 18 241-258 112-129 (270)
419 TIGR00416 sms DNA repair prote 76.2 11 0.00023 39.8 8.1 44 239-283 93-136 (454)
420 PF06733 DEAD_2: DEAD_2; Inte 76.1 1.6 3.5E-05 39.1 1.8 39 320-381 119-157 (174)
421 KOG0734 AAA+-type ATPase conta 76.0 4.7 0.0001 44.1 5.4 66 202-277 301-370 (752)
422 PF08423 Rad51: Rad51; InterP 76.0 4.4 9.4E-05 39.3 4.9 27 232-258 25-57 (256)
423 TIGR03881 KaiC_arch_4 KaiC dom 75.3 9.4 0.0002 35.3 6.7 44 239-283 19-62 (229)
424 PRK11773 uvrD DNA-dependent he 75.2 3.1 6.7E-05 46.0 4.0 39 224-264 8-46 (721)
425 COG1224 TIP49 DNA helicase TIP 75.0 3.1 6.6E-05 43.5 3.6 37 239-277 64-100 (450)
426 PF01078 Mg_chelatase: Magnesi 74.8 2.6 5.6E-05 40.2 2.9 20 239-258 21-40 (206)
427 PF00271 Helicase_C: Helicase 74.8 8.3 0.00018 29.3 5.3 28 267-294 5-32 (78)
428 PRK14963 DNA polymerase III su 74.8 7.5 0.00016 41.5 6.6 16 243-258 39-54 (504)
429 TIGR02788 VirB11 P-type DNA tr 74.6 1.9 4.1E-05 42.7 2.0 25 233-257 136-161 (308)
430 PF13555 AAA_29: P-loop contai 74.6 2.2 4.8E-05 33.3 2.0 19 239-257 22-40 (62)
431 CHL00195 ycf46 Ycf46; Provisio 74.5 16 0.00035 39.0 9.0 68 200-276 223-291 (489)
432 PRK11192 ATP-dependent RNA hel 74.4 5.1 0.00011 40.9 5.1 44 251-294 245-294 (434)
433 TIGR02759 TraD_Ftype type IV c 74.3 4.2 9.1E-05 44.0 4.7 20 239-258 175-194 (566)
434 TIGR03819 heli_sec_ATPase heli 74.1 4.2 9.1E-05 41.2 4.4 32 226-257 163-195 (340)
435 PRK14959 DNA polymerase III su 74.0 15 0.00032 40.6 8.8 17 242-258 40-56 (624)
436 PRK09519 recA DNA recombinatio 73.9 15 0.00032 41.7 8.9 42 240-282 60-101 (790)
437 PRK06904 replicative DNA helic 73.8 25 0.00054 37.3 10.1 51 238-288 218-269 (472)
438 PRK14965 DNA polymerase III su 73.8 6.2 0.00013 42.7 5.8 15 243-257 41-55 (576)
439 PRK06964 DNA polymerase III su 73.5 8.5 0.00019 39.2 6.4 32 227-258 3-39 (342)
440 TIGR02760 TraI_TIGR conjugativ 73.3 17 0.00037 45.1 9.9 52 225-277 429-482 (1960)
441 PRK08840 replicative DNA helic 73.1 26 0.00056 37.1 10.0 48 241-288 218-265 (464)
442 KOG0991 Replication factor C, 72.9 10 0.00022 37.9 6.4 18 241-258 49-66 (333)
443 COG0513 SrmB Superfamily II DN 72.9 5.1 0.00011 42.6 4.8 29 266-294 294-322 (513)
444 PF06068 TIP49: TIP49 C-termin 72.9 4.7 0.0001 42.0 4.4 53 239-293 49-105 (398)
445 COG0324 MiaA tRNA delta(2)-iso 72.8 4 8.6E-05 41.3 3.8 16 243-258 6-21 (308)
446 PRK05896 DNA polymerase III su 72.4 7.8 0.00017 42.6 6.1 17 242-258 40-56 (605)
447 PF10440 WIYLD: Ubiquitin-bind 72.3 3.9 8.5E-05 32.5 2.9 33 15-50 16-48 (65)
448 PRK13880 conjugal transfer cou 72.2 4.1 8.8E-05 44.7 4.0 18 241-258 176-193 (636)
449 PRK13876 conjugal transfer cou 72.1 3.3 7.2E-05 45.8 3.3 18 241-258 145-162 (663)
450 PRK05342 clpX ATP-dependent pr 72.0 5.4 0.00012 41.6 4.6 19 240-258 108-126 (412)
451 COG0714 MoxR-like ATPases [Gen 71.8 9.1 0.0002 37.9 6.1 45 234-282 37-83 (329)
452 PRK04841 transcriptional regul 71.7 15 0.00032 40.6 8.2 20 239-258 31-50 (903)
453 PTZ00110 helicase; Provisional 71.4 6.1 0.00013 42.3 5.0 43 251-294 377-426 (545)
454 PRK04837 ATP-dependent RNA hel 71.3 5.6 0.00012 40.6 4.6 28 267-294 277-304 (423)
455 COG0553 HepA Superfamily II DN 71.1 5.6 0.00012 43.3 4.8 35 223-257 336-375 (866)
456 cd01370 KISc_KIP3_like Kinesin 71.1 3.7 8E-05 41.2 3.1 29 230-258 76-106 (338)
457 PRK04537 ATP-dependent RNA hel 70.6 6.6 0.00014 42.4 5.1 28 267-294 279-306 (572)
458 PRK04301 radA DNA repair and r 70.6 19 0.0004 35.7 7.9 18 240-257 102-119 (317)
459 PRK11034 clpA ATP-dependent Cl 70.5 4.6 9.9E-05 45.3 4.0 31 242-276 490-520 (758)
460 cd01123 Rad51_DMC1_radA Rad51_ 70.5 22 0.00049 32.7 8.0 19 240-258 19-37 (235)
461 PRK07993 DNA polymerase III su 70.1 9.1 0.0002 38.7 5.7 33 226-258 3-42 (334)
462 TIGR02524 dot_icm_DotB Dot/Icm 70.0 3.6 7.8E-05 42.0 2.8 19 239-257 133-151 (358)
463 PF09439 SRPRB: Signal recogni 69.9 2.6 5.7E-05 39.3 1.7 19 240-258 3-21 (181)
464 TIGR00614 recQ_fam ATP-depende 69.4 7 0.00015 40.7 4.9 28 267-294 248-275 (470)
465 PRK01297 ATP-dependent RNA hel 68.9 8.3 0.00018 40.1 5.3 44 251-294 335-384 (475)
466 PRK13873 conjugal transfer ATP 68.1 9.3 0.0002 42.9 5.8 16 242-257 443-458 (811)
467 CHL00095 clpC Clp protease ATP 68.1 13 0.00028 41.9 6.9 29 229-257 513-556 (821)
468 PRK14729 miaA tRNA delta(2)-is 68.1 3.2 6.9E-05 41.6 1.9 16 243-258 7-22 (300)
469 TIGR00390 hslU ATP-dependent p 68.0 9.1 0.0002 40.6 5.3 17 241-257 48-64 (441)
470 COG0563 Adk Adenylate kinase a 67.8 6.3 0.00014 36.3 3.7 27 242-272 2-28 (178)
471 COG0606 Predicted ATPase with 67.7 4.6 9.9E-05 43.2 3.1 29 230-258 184-216 (490)
472 COG0467 RAD55 RecA-superfamily 67.5 17 0.00036 34.6 6.7 50 239-289 22-71 (260)
473 PRK08006 replicative DNA helic 67.4 36 0.00077 36.2 9.6 48 241-288 224-272 (471)
474 TIGR00174 miaA tRNA isopenteny 67.3 6.8 0.00015 39.1 4.0 16 243-258 2-17 (287)
475 PRK13822 conjugal transfer cou 67.1 8 0.00017 42.6 4.9 18 241-258 225-242 (641)
476 KOG1806 DEAD box containing he 67.1 12 0.00026 43.6 6.2 37 222-258 735-771 (1320)
477 COG0556 UvrB Helicase subunit 67.0 8.3 0.00018 42.1 4.8 61 226-292 13-78 (663)
478 PRK00091 miaA tRNA delta(2)-is 67.0 5.9 0.00013 39.7 3.6 17 242-258 6-22 (307)
479 PRK10787 DNA-binding ATP-depen 66.9 10 0.00022 42.7 5.8 33 239-275 348-380 (784)
480 PLN00206 DEAD-box ATP-dependen 66.8 8.1 0.00018 41.0 4.8 28 267-294 390-417 (518)
481 TIGR00678 holB DNA polymerase 66.8 16 0.00034 32.9 6.0 16 242-257 16-31 (188)
482 cd01367 KISc_KIF2_like Kinesin 66.5 4.9 0.00011 40.0 2.9 28 231-258 74-103 (322)
483 PRK13531 regulatory ATPase Rav 66.4 4.7 0.0001 43.3 2.9 25 233-257 32-56 (498)
484 COG1435 Tdk Thymidine kinase [ 66.2 11 0.00025 36.0 5.1 38 243-281 7-44 (201)
485 TIGR03345 VI_ClpV1 type VI sec 66.2 19 0.00041 41.0 7.7 15 243-257 599-613 (852)
486 PRK11776 ATP-dependent RNA hel 66.2 9.1 0.0002 39.5 4.9 28 267-294 264-291 (460)
487 KOG0744 AAA+-type ATPase [Post 66.0 8.4 0.00018 39.9 4.5 28 240-271 177-204 (423)
488 TIGR00708 cobA cob(I)alamin ad 65.9 48 0.001 30.8 9.1 35 243-278 8-45 (173)
489 cd01369 KISc_KHC_KIF5 Kinesin 65.9 5 0.00011 39.8 2.8 28 230-257 65-94 (325)
490 PF03215 Rad17: Rad17 cell cyc 65.9 12 0.00025 40.4 5.7 33 243-279 48-80 (519)
491 KOG1808 AAA ATPase containing 65.8 20 0.00044 44.1 8.2 29 230-258 429-458 (1856)
492 PRK10590 ATP-dependent RNA hel 65.8 12 0.00026 38.8 5.7 28 267-294 267-294 (456)
493 PF00225 Kinesin: Kinesin moto 65.8 5.1 0.00011 39.5 2.9 27 232-258 65-93 (335)
494 cd01368 KISc_KIF23_like Kinesi 65.8 5.5 0.00012 40.2 3.1 27 232-258 79-107 (345)
495 PRK11331 5-methylcytosine-spec 65.7 7.1 0.00015 41.5 4.0 32 227-258 181-212 (459)
496 PRK14954 DNA polymerase III su 65.6 20 0.00043 39.5 7.5 17 242-258 40-56 (620)
497 TIGR02767 TraG-Ti Ti-type conj 65.4 9.6 0.00021 42.0 5.1 18 241-258 212-229 (623)
498 PF13238 AAA_18: AAA domain; P 65.4 3.3 7.2E-05 33.8 1.2 16 243-258 1-16 (129)
499 PHA02533 17 large terminase pr 65.2 67 0.0015 34.8 11.3 64 226-292 60-125 (534)
500 cd01365 KISc_KIF1A_KIF1B Kines 65.2 5.6 0.00012 40.1 3.1 26 232-257 79-106 (356)
No 1
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.89 E-value=1.5e-23 Score=220.52 Aligned_cols=117 Identities=42% Similarity=0.723 Sum_probs=107.7
Q ss_pred HHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------HHHHHHHhhcCCcE
Q 042872 214 EFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------DQIITLNLKFGIPA 272 (381)
Q Consensus 214 ~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------dQv~~L~~~~gI~a 272 (381)
...+..+|||..|||.|+++|..+++|+|+|++||||+|||+||| ||+.+|. ..||+|
T Consensus 6 ~~~L~~~fGy~~FR~gQ~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~~G~TLVVSPLiSLM~DQV~~l~-~~Gi~A 84 (590)
T COG0514 6 QQVLKQVFGYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLLEGLTLVVSPLISLMKDQVDQLE-AAGIRA 84 (590)
T ss_pred HHHHHHHhCccccCCCHHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhcCCCEEEECchHHHHHHHHHHHH-HcCcee
Confidence 355778899999999999999999999999999999999999999 9999998 689999
Q ss_pred EEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccc
Q 042872 273 TFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRL 352 (381)
Q Consensus 273 ~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l 352 (381)
..+++..+.+++..++..+.+| .+++||.+||+|. ++.|++.|.. .
T Consensus 85 ~~lnS~l~~~e~~~v~~~l~~g-------------------------~~klLyisPErl~-~~~f~~~L~~----~---- 130 (590)
T COG0514 85 AYLNSTLSREERQQVLNQLKSG-------------------------QLKLLYISPERLM-SPRFLELLKR----L---- 130 (590)
T ss_pred ehhhcccCHHHHHHHHHHHhcC-------------------------ceeEEEECchhhc-ChHHHHHHHh----C----
Confidence 9999999999999999999876 6899999999998 5788887763 2
Q ss_pred cccccccccccccccCCccEEEEeccccC
Q 042872 353 KVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 353 ~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+|.+|||||||||
T Consensus 131 ----------------~i~l~vIDEAHCi 143 (590)
T COG0514 131 ----------------PISLVAIDEAHCI 143 (590)
T ss_pred ----------------CCceEEechHHHH
Confidence 8999999999997
No 2
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.89 E-value=4e-23 Score=226.84 Aligned_cols=126 Identities=52% Similarity=0.889 Sum_probs=115.4
Q ss_pred HHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------HHHHHHHhhcCC
Q 042872 212 DMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------DQIITLNLKFGI 270 (381)
Q Consensus 212 ~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------dQv~~L~~~~gI 270 (381)
+....+...||++.|||.|++||.++|.|+|++|+||||+|||+||| ||+.+|. ..+|
T Consensus 251 ~~~~~l~~~Fg~~~FR~~Q~eaI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~~gitvVISPL~SLm~DQv~~L~-~~~I 329 (941)
T KOG0351|consen 251 ELELLLKEVFGHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQLPALLLGGVTVVISPLISLMQDQVTHLS-KKGI 329 (941)
T ss_pred HHHHHHHHHhccccCChhHHHHHHHHHcCCceEEEeecCCceeeEeeccccccCCceEEeccHHHHHHHHHHhhh-hcCc
Confidence 35666777899999999999999999999999999999999999999 9999996 6899
Q ss_pred cEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCc
Q 042872 271 PATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSI 350 (381)
Q Consensus 271 ~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~ 350 (381)
++..|.++++..++..+++.+.+| .+.++|+|+|||.+.....+...+..|+.++
T Consensus 330 ~a~~L~s~q~~~~~~~i~q~l~~~-----------------------~~~ikilYvtPE~v~~~~~l~~~~~~L~~~~-- 384 (941)
T KOG0351|consen 330 PACFLSSIQTAAERLAILQKLANG-----------------------NPIIKILYVTPEKVVASEGLLESLADLYARG-- 384 (941)
T ss_pred ceeeccccccHHHHHHHHHHHhCC-----------------------CCeEEEEEeCHHHhhcccchhhHHHhccCCC--
Confidence 999999999999999999998844 4679999999999999889988888888776
Q ss_pred cccccccccccccccccCCccEEEEeccccC
Q 042872 351 RLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 351 ~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.|.++||||||||
T Consensus 385 ------------------~lal~vIDEAHCV 397 (941)
T KOG0351|consen 385 ------------------LLALFVIDEAHCV 397 (941)
T ss_pred ------------------eeEEEEecHHHHh
Confidence 7999999999997
No 3
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.88 E-value=1.4e-22 Score=224.64 Aligned_cols=126 Identities=46% Similarity=0.745 Sum_probs=108.3
Q ss_pred HHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------HHHHHHHhhcCC
Q 042872 212 DMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------DQIITLNLKFGI 270 (381)
Q Consensus 212 ~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------dQv~~L~~~~gI 270 (381)
.+...++++|||..|||+|.++|+++|.|+|+|++||||+|||+||+ ||+..|. ..||
T Consensus 447 ~L~~~lk~~FG~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~~~GiTLVISPLiSLmqDQV~~L~-~~GI 525 (1195)
T PLN03137 447 KLEVNNKKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALICPGITLVISPLVSLIQDQIMNLL-QANI 525 (1195)
T ss_pred HHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHHcCCcEEEEeCHHHHHHHHHHHHH-hCCC
Confidence 35566778899999999999999999999999999999999999998 7898888 5899
Q ss_pred cEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCc
Q 042872 271 PATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSI 350 (381)
Q Consensus 271 ~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~ 350 (381)
++..++++....++..+++.+.. ..+.++|||+|||+|.....+...+..+...+
T Consensus 526 ~Aa~L~s~~s~~eq~~ilr~l~s-----------------------~~g~~~ILyvTPERL~~~d~ll~~L~~L~~~~-- 580 (1195)
T PLN03137 526 PAASLSAGMEWAEQLEILQELSS-----------------------EYSKYKLLYVTPEKVAKSDSLLRHLENLNSRG-- 580 (1195)
T ss_pred eEEEEECCCCHHHHHHHHHHHHh-----------------------cCCCCCEEEEChHHhhcchHHHHHHHhhhhcc--
Confidence 99999999999988888887652 22378999999999986555666676665554
Q ss_pred cccccccccccccccccCCccEEEEeccccC
Q 042872 351 RLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 351 ~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.|.+|||||||||
T Consensus 581 ------------------~LslIVIDEAHcV 593 (1195)
T PLN03137 581 ------------------LLARFVIDEAHCV 593 (1195)
T ss_pred ------------------ccceeccCcchhh
Confidence 7999999999997
No 4
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.86 E-value=1.3e-21 Score=200.26 Aligned_cols=116 Identities=47% Similarity=0.840 Sum_probs=98.5
Q ss_pred HHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------HHHHHHHhhcCCcEEEE
Q 042872 217 NVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------DQIITLNLKFGIPATFL 275 (381)
Q Consensus 217 ~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------dQv~~L~~~~gI~a~~l 275 (381)
+++.|||+.|||+|.+||+++++|+|++++||||+|||+||+ +|+..|. .+|+++..+
T Consensus 3 l~~~~g~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~~~~~~lVi~P~~~L~~dq~~~l~-~~gi~~~~l 81 (470)
T TIGR00614 3 LKTVFGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALCSDGITLVISPLISLMEDQVLQLK-ASGIPATFL 81 (470)
T ss_pred hHhhcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHHcCCcEEEEecHHHHHHHHHHHHH-HcCCcEEEE
Confidence 567799999999999999999999999999999999999997 6788887 689999999
Q ss_pred eCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCcccccc
Q 042872 276 NSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVL 355 (381)
Q Consensus 276 ~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~ 355 (381)
++.....++..++..++.| .++|||+|||++..+..+...+. ..+
T Consensus 82 ~~~~~~~~~~~i~~~~~~~-------------------------~~~il~~TPe~l~~~~~~~~~l~---~~~------- 126 (470)
T TIGR00614 82 NSSQSKEQQKNVLTDLKDG-------------------------KIKLLYVTPEKCSASNRLLQTLE---ERK------- 126 (470)
T ss_pred eCCCCHHHHHHHHHHHhcC-------------------------CCCEEEECHHHHcCchhHHHHHH---hcC-------
Confidence 9999888888888777644 68999999999985444544432 222
Q ss_pred ccccccccccccCCccEEEEeccccC
Q 042872 356 TTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 356 ~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
++.+|||||||||
T Consensus 127 -------------~i~~iViDEaH~i 139 (470)
T TIGR00614 127 -------------GITLIAVDEAHCI 139 (470)
T ss_pred -------------CcCEEEEeCCccc
Confidence 8999999999996
No 5
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.86 E-value=8.2e-22 Score=199.67 Aligned_cols=124 Identities=41% Similarity=0.702 Sum_probs=115.6
Q ss_pred HHHHHHHHhCCCCCc-HHHHHHHHHHHcC-CCEEEECCCCCCchhhHH---------------------HHHHHHHhhcC
Q 042872 213 MEFANVVIFGNRAFR-PLQHQACKASVAK-QDCFVLLPTGGGKSLCYQ---------------------DQIITLNLKFG 269 (381)
Q Consensus 213 l~~~~~~~fG~~~fR-piQ~eAI~aiL~G-rDvLviaPTGsGKTLaF~---------------------dQv~~L~~~~g 269 (381)
+..+++++||++.|+ +.|..|+.++..+ +||+|.||||+||||||| ||+..|. ++.
T Consensus 7 VreaLKK~FGh~kFKs~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~~~gITIV~SPLiALIkDQiDHL~-~LK 85 (641)
T KOG0352|consen 7 VREALKKLFGHKKFKSRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALVHGGITIVISPLIALIKDQIDHLK-RLK 85 (641)
T ss_pred HHHHHHHHhCchhhcChHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHHhCCeEEEehHHHHHHHHHHHHHH-hcC
Confidence 667889999999997 9999999999987 599999999999999999 9999998 789
Q ss_pred CcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCC
Q 042872 270 IPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGS 349 (381)
Q Consensus 270 I~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~ 349 (381)
+++-.|++..+..++.+++..|. ..+|..++||+|||... +..|+.+|+.|+.+.
T Consensus 86 Vp~~SLNSKlSt~ER~ri~~DL~-----------------------~ekp~~K~LYITPE~AA-t~~FQ~lLn~L~~r~- 140 (641)
T KOG0352|consen 86 VPCESLNSKLSTVERSRIMGDLA-----------------------KEKPTIKMLYITPEGAA-TDGFQKLLNGLANRD- 140 (641)
T ss_pred CchhHhcchhhHHHHHHHHHHHH-----------------------hcCCceeEEEEchhhhh-hhhHHHHHHHHhhhc-
Confidence 99999999999999999999987 66778999999999998 689999999999887
Q ss_pred ccccccccccccccccccCCccEEEEeccccC
Q 042872 350 IRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 350 ~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.|.|||+||||||
T Consensus 141 -------------------~L~Y~vVDEAHCV 153 (641)
T KOG0352|consen 141 -------------------VLRYIVVDEAHCV 153 (641)
T ss_pred -------------------eeeeEEechhhhH
Confidence 8999999999997
No 6
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=99.86 E-value=2.7e-21 Score=203.00 Aligned_cols=116 Identities=41% Similarity=0.660 Sum_probs=99.6
Q ss_pred HHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------HHHHHHHhhcCCcEE
Q 042872 215 FANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------DQIITLNLKFGIPAT 273 (381)
Q Consensus 215 ~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------dQv~~L~~~~gI~a~ 273 (381)
..+++.|||++|||+|.+||++++.|+|++++||||+|||+||+ +|+..|. .+|+++.
T Consensus 3 ~~l~~~fg~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~~~g~~lVisPl~sL~~dq~~~l~-~~gi~~~ 81 (591)
T TIGR01389 3 QVLKRTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLLKGLTVVISPLISLMKDQVDQLR-AAGVAAA 81 (591)
T ss_pred HHHHHhcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHHcCCcEEEEcCCHHHHHHHHHHHH-HcCCcEE
Confidence 35667899999999999999999999999999999999999998 7888888 5899999
Q ss_pred EEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCcccc
Q 042872 274 FLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLK 353 (381)
Q Consensus 274 ~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~ 353 (381)
.+++..+..++..++..+..| .++|||+|||++. +..|...+. ..
T Consensus 82 ~~~s~~~~~~~~~~~~~l~~~-------------------------~~~il~~tpe~l~-~~~~~~~l~----~~----- 126 (591)
T TIGR01389 82 YLNSTLSAKEQQDIEKALVNG-------------------------ELKLLYVAPERLE-QDYFLNMLQ----RI----- 126 (591)
T ss_pred EEeCCCCHHHHHHHHHHHhCC-------------------------CCCEEEEChhHhc-ChHHHHHHh----cC-----
Confidence 999999988888888777644 6899999999998 455554432 11
Q ss_pred ccccccccccccccCCccEEEEeccccC
Q 042872 354 VLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 354 ~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
++++|||||||||
T Consensus 127 ---------------~l~~iViDEaH~i 139 (591)
T TIGR01389 127 ---------------PIALVAVDEAHCV 139 (591)
T ss_pred ---------------CCCEEEEeCCccc
Confidence 7999999999996
No 7
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.84 E-value=1.3e-21 Score=196.10 Aligned_cols=131 Identities=24% Similarity=0.295 Sum_probs=114.7
Q ss_pred CCCCCCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH------------------
Q 042872 197 NEHGTLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ------------------ 258 (381)
Q Consensus 197 ~~~~~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~------------------ 258 (381)
..+...+|..|+..+++..++++ .||+.||++|.+|||.+|.|+|||+.|.||||||++|+
T Consensus 56 ~~e~~~sf~dLgv~~~L~~ac~~-l~~~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lV 134 (476)
T KOG0330|consen 56 TDESFKSFADLGVHPELLEACQE-LGWKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALV 134 (476)
T ss_pred hhhhhcchhhcCcCHHHHHHHHH-hCcCCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEE
Confidence 34556789999999999999977 79999999999999999999999999999999999998
Q ss_pred ------------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEE
Q 042872 259 ------------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYV 326 (381)
Q Consensus 259 ------------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~a 326 (381)
+|++.|+...|+++.++.||+++..+...+.+ ++||||+
T Consensus 135 LtPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~q~~~L~k-----------------------------kPhilVa 185 (476)
T KOG0330|consen 135 LTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQLSK-----------------------------KPHILVA 185 (476)
T ss_pred ecCcHHHHHHHHHHHHHhccccCeEEEEEecCchHHHHHHHhhc-----------------------------CCCEEEe
Confidence 67888887889999999999998877655543 7899999
Q ss_pred CccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 327 TPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 327 TPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
|||+|. .++.+.+.++|. +|+++|+|||+.+
T Consensus 186 TPGrL~---------dhl~~Tkgf~le---------------~lk~LVlDEADrl 216 (476)
T KOG0330|consen 186 TPGRLW---------DHLENTKGFSLE---------------QLKFLVLDEADRL 216 (476)
T ss_pred CcHHHH---------HHHHhccCccHH---------------HhHHHhhchHHhh
Confidence 999997 456667778888 9999999999874
No 8
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.83 E-value=4.1e-20 Score=195.47 Aligned_cols=116 Identities=45% Similarity=0.689 Sum_probs=96.7
Q ss_pred HHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------HHHHHHHhhcCCcEE
Q 042872 215 FANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------DQIITLNLKFGIPAT 273 (381)
Q Consensus 215 ~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------dQv~~L~~~~gI~a~ 273 (381)
..++++|||+.|||+|.++|+++++|+|++++||||+|||+||+ +|+..+. .+|+.+.
T Consensus 15 ~~l~~~fG~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~~g~tlVisPl~sL~~dqv~~l~-~~gi~~~ 93 (607)
T PRK11057 15 QVLQETFGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVLDGLTLVVSPLISLMKDQVDQLL-ANGVAAA 93 (607)
T ss_pred HHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHcCCCEEEEecHHHHHHHHHHHHH-HcCCcEE
Confidence 34556799999999999999999999999999999999999997 6777777 5799999
Q ss_pred EEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCcccc
Q 042872 274 FLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLK 353 (381)
Q Consensus 274 ~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~ 353 (381)
.+++..+..++..++..++.| .++++|+|||++.. ..|.+.+.. .
T Consensus 94 ~~~s~~~~~~~~~~~~~~~~g-------------------------~~~il~~tPe~l~~-~~~~~~l~~----~----- 138 (607)
T PRK11057 94 CLNSTQTREQQLEVMAGCRTG-------------------------QIKLLYIAPERLMM-DNFLEHLAH----W----- 138 (607)
T ss_pred EEcCCCCHHHHHHHHHHHhCC-------------------------CCcEEEEChHHhcC-hHHHHHHhh----C-----
Confidence 999988888777777776644 68999999999983 455443321 1
Q ss_pred ccccccccccccccCCccEEEEeccccC
Q 042872 354 VLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 354 ~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
++.+|||||||||
T Consensus 139 ---------------~l~~iVIDEaH~i 151 (607)
T PRK11057 139 ---------------NPALLAVDEAHCI 151 (607)
T ss_pred ---------------CCCEEEEeCcccc
Confidence 7999999999996
No 9
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.82 E-value=4e-20 Score=186.11 Aligned_cols=57 Identities=21% Similarity=0.215 Sum_probs=49.8
Q ss_pred CCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 201 TLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 201 ~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
..+|+.+..-+++..++.. +||..|+|+|.+|||.++.|+|++++||||+|||+||+
T Consensus 7 ~~~f~~~~l~~~l~~~l~~-~g~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~l 63 (423)
T PRK04837 7 EQKFSDFALHPQVVEALEK-KGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFL 63 (423)
T ss_pred CCCHhhCCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHH
Confidence 3567777766666666655 89999999999999999999999999999999999997
No 10
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.81 E-value=1.5e-19 Score=182.10 Aligned_cols=55 Identities=24% Similarity=0.273 Sum_probs=48.0
Q ss_pred CHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 203 SFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 203 ~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
+|+.+...+.+..++.. +||..|+++|.+||++++.|+|+|+++|||+|||+||+
T Consensus 2 ~f~~l~l~~~l~~~l~~-~g~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~ 56 (434)
T PRK11192 2 TFSELELDESLLEALQD-KGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFL 56 (434)
T ss_pred CHhhcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHH
Confidence 46666666666666655 89999999999999999999999999999999999997
No 11
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.80 E-value=1.7e-19 Score=184.04 Aligned_cols=55 Identities=31% Similarity=0.352 Sum_probs=48.6
Q ss_pred CHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 203 SFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 203 ~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
+|+.|...+++..++.+ +||..|||+|.+||+.++.|+|+|+.+|||+|||+||+
T Consensus 2 ~f~~l~l~~~l~~~l~~-~g~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~ 56 (456)
T PRK10590 2 SFDSLGLSPDILRAVAE-QGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFT 56 (456)
T ss_pred CHHHcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHH
Confidence 56777666666666655 89999999999999999999999999999999999997
No 12
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.79 E-value=4.6e-19 Score=186.69 Aligned_cols=56 Identities=20% Similarity=0.223 Sum_probs=49.5
Q ss_pred CCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 202 LSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 202 ~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
++|+.+.+.+.+..++.+ +||..|+|+|.++||.++.|+|+++++|||+|||+||+
T Consensus 9 ~~f~~l~l~~~l~~~L~~-~g~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafl 64 (572)
T PRK04537 9 LTFSSFDLHPALLAGLES-AGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFL 64 (572)
T ss_pred CChhhcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHH
Confidence 457777766666666655 89999999999999999999999999999999999997
No 13
>PTZ00110 helicase; Provisional
Probab=99.79 E-value=5.6e-19 Score=184.86 Aligned_cols=56 Identities=25% Similarity=0.260 Sum_probs=48.1
Q ss_pred CCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 202 LSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 202 ~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
.+|+.+..-+.+..++.+ +||++|+|+|.+|||.+++|+|+|+++|||+|||++|+
T Consensus 130 ~~f~~~~l~~~l~~~l~~-~g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlayl 185 (545)
T PTZ00110 130 VSFEYTSFPDYILKSLKN-AGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFL 185 (545)
T ss_pred CCHhhcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHH
Confidence 467776655556666654 89999999999999999999999999999999999997
No 14
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.79 E-value=2.4e-18 Score=176.12 Aligned_cols=57 Identities=21% Similarity=0.267 Sum_probs=50.2
Q ss_pred CCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 201 TLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 201 ~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
...|..+..-+.+..++.+ +||..|+|+|.+||+.+++|+|+++.+|||+|||+||+
T Consensus 86 ~~~f~~~~l~~~l~~~l~~-~g~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~ 142 (475)
T PRK01297 86 KTRFHDFNLAPELMHAIHD-LGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFL 142 (475)
T ss_pred CCCHhHCCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHH
Confidence 4467777766667667665 89999999999999999999999999999999999997
No 15
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.78 E-value=6.6e-19 Score=182.96 Aligned_cols=57 Identities=25% Similarity=0.272 Sum_probs=48.9
Q ss_pred CCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 201 TLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 201 ~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
-.+|+.+..-+.+...+.+ .||..|||+|.+|||.++.|+|+++++|||+|||++|+
T Consensus 120 i~~f~~~~l~~~l~~~L~~-~g~~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayl 176 (518)
T PLN00206 120 ILSFSSCGLPPKLLLNLET-AGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFL 176 (518)
T ss_pred hcCHHhCCCCHHHHHHHHH-cCCCCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHH
Confidence 3467777655556666644 89999999999999999999999999999999999997
No 16
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.78 E-value=8.8e-19 Score=178.17 Aligned_cols=56 Identities=23% Similarity=0.303 Sum_probs=48.0
Q ss_pred CCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 202 LSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 202 ~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
.+|+.+...+.+..++.+ +||..|+|+|.+|||.++.|+|+++++|||+|||++|.
T Consensus 4 ~~f~~l~l~~~l~~~l~~-~g~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~ 59 (460)
T PRK11776 4 TAFSTLPLPPALLANLNE-LGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFG 59 (460)
T ss_pred CChhhcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHH
Confidence 356666655666666644 89999999999999999999999999999999999997
No 17
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.77 E-value=2.5e-18 Score=179.05 Aligned_cols=125 Identities=21% Similarity=0.349 Sum_probs=94.5
Q ss_pred CCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH-----------------------
Q 042872 202 LSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ----------------------- 258 (381)
Q Consensus 202 ~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~----------------------- 258 (381)
..|+.+....++..++.+ .||..|+|+|.++||.+|.|+|+++.++||+|||++|.
T Consensus 29 ~~F~~l~l~~~ll~~l~~-~gf~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~P 107 (513)
T COG0513 29 PEFASLGLSPELLQALKD-LGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAP 107 (513)
T ss_pred CCHhhcCCCHHHHHHHHH-cCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECC
Confidence 457777766777777766 89999999999999999999999999999999999998
Q ss_pred ---------HHHHHHHhhc-CCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECc
Q 042872 259 ---------DQIITLNLKF-GIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTP 328 (381)
Q Consensus 259 ---------dQv~~L~~~~-gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTP 328 (381)
+.+..+.... +++++.++||.+...+. ..+++ +++|||+||
T Consensus 108 TRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~---~~l~~--------------------------~~~ivVaTP 158 (513)
T COG0513 108 TRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQI---EALKR--------------------------GVDIVVATP 158 (513)
T ss_pred CHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHH---HHHhc--------------------------CCCEEEECc
Confidence 1223333333 45566666666655443 22221 489999999
Q ss_pred cccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 329 ERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 329 ErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+||++ +..++.++++ ++.++|+|||+.+
T Consensus 159 GRllD----------~i~~~~l~l~---------------~v~~lVlDEADrm 186 (513)
T COG0513 159 GRLLD----------LIKRGKLDLS---------------GVETLVLDEADRM 186 (513)
T ss_pred cHHHH----------HHHcCCcchh---------------hcCEEEeccHhhh
Confidence 99972 3455678888 9999999999864
No 18
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.77 E-value=8.3e-19 Score=174.65 Aligned_cols=130 Identities=20% Similarity=0.280 Sum_probs=102.7
Q ss_pred CCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH----------------------
Q 042872 201 TLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------- 258 (381)
Q Consensus 201 ~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------- 258 (381)
.-+|+.|.+-+++...++. +|+++|||+|..|||+||.|+|||++|.||||||++|.
T Consensus 6 ~~~F~~LGl~~Wlve~l~~-l~i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPT 84 (442)
T KOG0340|consen 6 AKPFSILGLSPWLVEQLKA-LGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPT 84 (442)
T ss_pred cCchhhcCccHHHHHHHHH-hcCCCCCchHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecch
Confidence 3569999988888888866 89999999999999999999999999999999999998
Q ss_pred --------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccc
Q 042872 259 --------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPER 330 (381)
Q Consensus 259 --------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPEr 330 (381)
+|+..+++.+++++.++.|++++-.+...+.. ++|+|++||||
T Consensus 85 rELA~QiaEQF~alGk~l~lK~~vivGG~d~i~qa~~L~~-----------------------------rPHvVvatPGR 135 (442)
T KOG0340|consen 85 RELALQIAEQFIALGKLLNLKVSVIVGGTDMIMQAAILSD-----------------------------RPHVVVATPGR 135 (442)
T ss_pred HHHHHHHHHHHHHhcccccceEEEEEccHHHhhhhhhccc-----------------------------CCCeEecCccc
Confidence 78888888889999999999776555444433 78999999999
Q ss_pred cccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 331 IVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 331 L~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+... . ...+. ..+-+| .++.|+|||||+.|
T Consensus 136 lad~--l-------~sn~~-------~~~~~~-----~rlkflVlDEADrv 165 (442)
T KOG0340|consen 136 LADH--L-------SSNLG-------VCSWIF-----QRLKFLVLDEADRV 165 (442)
T ss_pred cccc--c-------ccCCc-------cchhhh-----hceeeEEecchhhh
Confidence 9831 1 00100 000111 18999999999864
No 19
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.75 E-value=4.2e-18 Score=177.11 Aligned_cols=124 Identities=23% Similarity=0.346 Sum_probs=97.4
Q ss_pred CHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH------------------------
Q 042872 203 SFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ------------------------ 258 (381)
Q Consensus 203 ~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~------------------------ 258 (381)
.|..+....++..+++ ..||+.|+|||.++||.+|.|||+++++.|||||||+|+
T Consensus 92 ~f~~~~ls~~~~~~lk-~~g~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLV 170 (519)
T KOG0331|consen 92 AFQELGLSEELMKALK-EQGFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLV 170 (519)
T ss_pred hhhcccccHHHHHHHH-hcCCCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEE
Confidence 5666665554444443 489999999999999999999999999999999999998
Q ss_pred --------HH----HHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEE
Q 042872 259 --------DQ----IITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYV 326 (381)
Q Consensus 259 --------dQ----v~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~a 326 (381)
.| +..+....+++.++++|+.+...|. ..+++ +++|+|+
T Consensus 171 L~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~~Q~---~~l~~--------------------------gvdivia 221 (519)
T KOG0331|consen 171 LAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQL---RDLER--------------------------GVDVVIA 221 (519)
T ss_pred EcCcHHHHHHHHHHHHHHcCCCCccEEEEeCCCCccHHH---HHHhc--------------------------CCcEEEe
Confidence 33 3344445567788888888877663 44443 4899999
Q ss_pred CccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 327 TPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 327 TPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
||+||.. +.+.++++|+ ++.|+|+|||+.+
T Consensus 222 TPGRl~d----------~le~g~~~l~---------------~v~ylVLDEADrM 251 (519)
T KOG0331|consen 222 TPGRLID----------LLEEGSLNLS---------------RVTYLVLDEADRM 251 (519)
T ss_pred CChHHHH----------HHHcCCcccc---------------ceeEEEeccHHhh
Confidence 9999962 4567888888 9999999999864
No 20
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=99.75 E-value=2.2e-18 Score=173.16 Aligned_cols=123 Identities=40% Similarity=0.649 Sum_probs=109.4
Q ss_pred HHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------HHHHHHHhhcCCcEE
Q 042872 215 FANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------DQIITLNLKFGIPAT 273 (381)
Q Consensus 215 ~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------dQv~~L~~~~gI~a~ 273 (381)
..++..|.+++|||.|.++|++.++|+|+++++|||+||||||| ||+..|. .+||.+.
T Consensus 84 ~ilk~~f~lekfrplq~~ain~~ma~ed~~lil~tgggkslcyqlpal~adg~alvi~plislmedqil~lk-qlgi~as 162 (695)
T KOG0353|consen 84 DILKEQFHLEKFRPLQLAAINATMAGEDAFLILPTGGGKSLCYQLPALCADGFALVICPLISLMEDQILQLK-QLGIDAS 162 (695)
T ss_pred HHHHHHhhHHhcChhHHHHhhhhhccCceEEEEeCCCccchhhhhhHHhcCCceEeechhHHHHHHHHHHHH-HhCcchh
Confidence 34456699999999999999999999999999999999999999 8999998 6999999
Q ss_pred EEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCcccc
Q 042872 274 FLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLK 353 (381)
Q Consensus 274 ~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~ 353 (381)
.++...+.++.+.+-.++. .++..+++||+|||.+..++.|...|......|
T Consensus 163 ~lnansske~~k~v~~~i~-----------------------nkdse~kliyvtpekiaksk~~mnkleka~~~~----- 214 (695)
T KOG0353|consen 163 MLNANSSKEEAKRVEAAIT-----------------------NKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAG----- 214 (695)
T ss_pred hccCcccHHHHHHHHHHHc-----------------------CCCceeEEEEecHHHHHHHHHHHHHHHHHhhcc-----
Confidence 9999999888877777765 456689999999999999899988888777666
Q ss_pred ccccccccccccccCCccEEEEeccccC
Q 042872 354 VLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 354 ~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.+.++.|||+||.
T Consensus 215 ---------------~~~~iaidevhcc 227 (695)
T KOG0353|consen 215 ---------------FFKLIAIDEVHCC 227 (695)
T ss_pred ---------------eeEEEeecceeeh
Confidence 8999999999994
No 21
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.75 E-value=4.8e-18 Score=181.00 Aligned_cols=56 Identities=20% Similarity=0.263 Sum_probs=49.0
Q ss_pred CCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 202 LSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 202 ~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
.+|..|.+.+++..++.+ +||.+|+|+|.++||.++.|+|+|+.||||+|||+||+
T Consensus 6 ~~f~~l~L~~~ll~al~~-~G~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~ 61 (629)
T PRK11634 6 TTFADLGLKAPILEALND-LGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFS 61 (629)
T ss_pred CCHhhcCCCHHHHHHHHH-CCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHH
Confidence 357777666666666655 89999999999999999999999999999999999996
No 22
>PTZ00424 helicase 45; Provisional
Probab=99.74 E-value=1.8e-17 Score=163.89 Aligned_cols=56 Identities=20% Similarity=0.246 Sum_probs=48.8
Q ss_pred CCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 202 LSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 202 ~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
.+|+.+...+.+..++.+ +||..|+|+|.+||+.+++|+|+++.+|||+|||++|+
T Consensus 28 ~~~~~l~l~~~~~~~l~~-~~~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~ 83 (401)
T PTZ00424 28 DSFDALKLNEDLLRGIYS-YGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFV 83 (401)
T ss_pred CCHhhCCCCHHHHHHHHH-cCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHH
Confidence 457777766666666644 89999999999999999999999999999999999997
No 23
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.72 E-value=8.2e-18 Score=173.45 Aligned_cols=126 Identities=21% Similarity=0.270 Sum_probs=106.1
Q ss_pred CCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH-----------------------
Q 042872 202 LSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ----------------------- 258 (381)
Q Consensus 202 ~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~----------------------- 258 (381)
.+|..+.+-.+++.++.. +||..|||||..+||.+|.|||+.++|.||+|||.+|+
T Consensus 181 ~sF~~mNLSRPlLka~~~-lGy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~ 259 (691)
T KOG0338|consen 181 ESFQSMNLSRPLLKACST-LGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLV 259 (691)
T ss_pred hhHHhcccchHHHHHHHh-cCCCCCCchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEe
Confidence 478888888888777755 99999999999999999999999999999999999998
Q ss_pred ------HH----HHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECc
Q 042872 259 ------DQ----IITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTP 328 (381)
Q Consensus 259 ------dQ----v~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTP 328 (381)
-| ...|..-..|.+..+.||.+...|...|+. .++|||+||
T Consensus 260 PTRELaiQv~sV~~qlaqFt~I~~~L~vGGL~lk~QE~~LRs-----------------------------~PDIVIATP 310 (691)
T KOG0338|consen 260 PTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLRS-----------------------------RPDIVIATP 310 (691)
T ss_pred ccHHHHHHHHHHHHHHHhhccceeeeeecCccHHHHHHHHhh-----------------------------CCCEEEecc
Confidence 22 233443346888888888888887777755 699999999
Q ss_pred cccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 329 ERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 329 ErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
|||. .||++.-+++|+ .|..+|+|||+++
T Consensus 311 GRlI---------DHlrNs~sf~ld---------------siEVLvlDEADRM 339 (691)
T KOG0338|consen 311 GRLI---------DHLRNSPSFNLD---------------SIEVLVLDEADRM 339 (691)
T ss_pred hhHH---------HHhccCCCcccc---------------ceeEEEechHHHH
Confidence 9996 567888889999 9999999999863
No 24
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.69 E-value=8.6e-17 Score=166.66 Aligned_cols=149 Identities=23% Similarity=0.255 Sum_probs=100.4
Q ss_pred CCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH-HHHHHHHh-------hcCCcEE
Q 042872 202 LSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ-DQIITLNL-------KFGIPAT 273 (381)
Q Consensus 202 ~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~-dQv~~L~~-------~~gI~a~ 273 (381)
-.|..|++-..+...+...++++.+|-+|.+|||.+|.|||+||-++|||||||+|+ .-+..|.. .-|+-|+
T Consensus 136 ~~f~~LGL~~~lv~~L~~~m~i~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~AL 215 (708)
T KOG0348|consen 136 AAFASLGLHPHLVSHLNTKMKISAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYAL 215 (708)
T ss_pred ccchhcCCCHHHHHHHHHHhccCccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEE
Confidence 357777777777788888899999999999999999999999999999999999998 22222221 2255566
Q ss_pred EEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccC-------CCCCccEEEECccccccCcchHHHHHHHHh
Q 042872 274 FLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRK-------DKPSCKLLYVTPERIVGNQSFSEVLKCLHR 346 (381)
Q Consensus 274 ~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~IL~aTPErL~~~~~f~~~L~~L~~ 346 (381)
++... ++-..++..-+. -+++. +||.|-.+.+.+++ -.++++|||+|||||+ .+|..
T Consensus 216 VivPT--REL~~Q~y~~~q-KLl~~----~hWIVPg~lmGGEkkKSEKARLRKGiNILIgTPGRLv---------DHLkn 279 (708)
T KOG0348|consen 216 VIVPT--RELALQIYETVQ-KLLKP----FHWIVPGVLMGGEKKKSEKARLRKGINILIGTPGRLV---------DHLKN 279 (708)
T ss_pred EEech--HHHHHHHHHHHH-HHhcC----ceEEeeceeecccccccHHHHHhcCceEEEcCchHHH---------HHHhc
Confidence 65432 222111221111 11111 34544444443322 2347999999999997 34555
Q ss_pred cCCccccccccccccccccccCCccEEEEeccccC
Q 042872 347 KGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 347 ~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
..+|.++ +|.+||+|||+.|
T Consensus 280 T~~i~~s---------------~LRwlVlDEaDrl 299 (708)
T KOG0348|consen 280 TKSIKFS---------------RLRWLVLDEADRL 299 (708)
T ss_pred cchheee---------------eeeEEEecchhHH
Confidence 5556666 8999999999875
No 25
>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=99.68 E-value=2.4e-16 Score=170.77 Aligned_cols=38 Identities=32% Similarity=0.286 Sum_probs=37.4
Q ss_pred hCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 221 FGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 221 fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
.||+.|+++|.+||+.+++|+|+++.+|||||||+||+
T Consensus 32 ~g~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~ 69 (742)
T TIGR03817 32 AGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQ 69 (742)
T ss_pred cCCCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHH
Confidence 89999999999999999999999999999999999998
No 26
>PRK14701 reverse gyrase; Provisional
Probab=99.65 E-value=8.5e-16 Score=177.45 Aligned_cols=122 Identities=19% Similarity=0.259 Sum_probs=93.6
Q ss_pred HhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH------------------------HH--
Q 042872 207 LQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ------------------------DQ-- 260 (381)
Q Consensus 207 L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~------------------------dQ-- 260 (381)
.+.+.++...+++.+|| +|+++|.++|+.+++|+|++++||||+|||++++ ++
T Consensus 62 ~~~~~~~~~~f~~~~G~-~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~ 140 (1638)
T PRK14701 62 WNEVEEFEEFFEKITGF-EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLALKGKKCYIILPTTLLVKQTVE 140 (1638)
T ss_pred HHHHHHHHHHHHHhhCC-CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHH
Confidence 34566677788888999 6999999999999999999999999999999765 22
Q ss_pred -HHHHHhhc--CCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcch
Q 042872 261 -IITLNLKF--GIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSF 337 (381)
Q Consensus 261 -v~~L~~~~--gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f 337 (381)
+..+...+ ++++..++|+.+..++...++.+++| .++|||+||++|.. .+
T Consensus 141 ~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g-------------------------~~dILV~TPgrL~~--~~ 193 (1638)
T PRK14701 141 KIESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENG-------------------------DFDILVTTAQFLAR--NF 193 (1638)
T ss_pred HHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcC-------------------------CCCEEEECCchhHH--hH
Confidence 23333222 46677788888888877777777654 68999999999862 23
Q ss_pred HHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 338 SEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 338 ~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.. +.. . ++++|||||||||
T Consensus 194 ~~----l~~-~--------------------~i~~iVVDEAD~m 212 (1638)
T PRK14701 194 PE----MKH-L--------------------KFDFIFVDDVDAF 212 (1638)
T ss_pred HH----Hhh-C--------------------CCCEEEEECceec
Confidence 22 111 2 7999999999996
No 27
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.65 E-value=1.1e-16 Score=166.17 Aligned_cols=128 Identities=23% Similarity=0.259 Sum_probs=97.1
Q ss_pred CCCCCCCCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcC-CCEEEECCCCCCchhhHH---------------
Q 042872 195 SDNEHGTLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAK-QDCFVLLPTGGGKSLCYQ--------------- 258 (381)
Q Consensus 195 ~~~~~~~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~G-rDvLviaPTGsGKTLaF~--------------- 258 (381)
+.|....++.+.|++|.. +||.+|||||.-+||++..| .|+|+.|.|||||||||.
T Consensus 181 sAW~~l~lp~~iL~aL~~--------~gFs~Pt~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~ 252 (731)
T KOG0347|consen 181 SAWKNLFLPMEILRALSN--------LGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQ 252 (731)
T ss_pred HHHhcCCCCHHHHHHHHh--------cCCCCCccchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhccchHh
Confidence 444455666666666654 89999999999999999999 699999999999999997
Q ss_pred ----------------------------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhh
Q 042872 259 ----------------------------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVL 310 (381)
Q Consensus 259 ----------------------------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~ 310 (381)
+.+..+....+|++..++||.....|.++++.
T Consensus 253 e~~~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~-------------------- 312 (731)
T KOG0347|consen 253 ELSNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQRLLNQ-------------------- 312 (731)
T ss_pred hhhhHHhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHHHHHHHHhc--------------------
Confidence 22344445668999999999988888777765
Q ss_pred hhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 311 TCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 311 ~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.++|||+|||||.. .+.+.-.++.+- + .|.++|||||+++
T Consensus 313 ---------~p~IVVATPGRlwe--li~e~n~~l~~~-----k---------------~vkcLVlDEaDRm 352 (731)
T KOG0347|consen 313 ---------RPDIVVATPGRLWE--LIEEDNTHLGNF-----K---------------KVKCLVLDEADRM 352 (731)
T ss_pred ---------CCCEEEecchHHHH--HHHhhhhhhhhh-----h---------------hceEEEEccHHHH
Confidence 68999999999972 211111112111 1 8999999999864
No 28
>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=99.64 E-value=9.9e-16 Score=137.68 Aligned_cols=65 Identities=20% Similarity=0.197 Sum_probs=48.5
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHH-HHHHHHhh---cCCcEEEEeCC
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQD-QIITLNLK---FGIPATFLNSQ 278 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~d-Qv~~L~~~---~gI~a~~l~g~ 278 (381)
+...+.+ +|++.|+++|.+|++.+++|+|+++.+|||+|||++|+- -+..+... .+.+++++.+.
T Consensus 10 i~~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~ 78 (203)
T cd00268 10 LLRGIYA-LGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPT 78 (203)
T ss_pred HHHHHHH-cCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCC
Confidence 3334444 899999999999999999999999999999999999862 23333322 24456666543
No 29
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.62 E-value=9.2e-16 Score=166.85 Aligned_cols=103 Identities=25% Similarity=0.373 Sum_probs=76.0
Q ss_pred CCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH--------------------------------HHHHHH---Hhh
Q 042872 223 NRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ--------------------------------DQIITL---NLK 267 (381)
Q Consensus 223 ~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~--------------------------------dQv~~L---~~~ 267 (381)
|.+|||.|.+|||.+.+|+++|++||||||||++.. |...+| ...
T Consensus 20 ~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~~~~ 99 (814)
T COG1201 20 FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEPLRE 99 (814)
T ss_pred cCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999998765 222222 224
Q ss_pred cCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccc---cCcchHHHHHHH
Q 042872 268 FGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIV---GNQSFSEVLKCL 344 (381)
Q Consensus 268 ~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~---~~~~f~~~L~~L 344 (381)
+|+++.+.+|+++..++..+. ...+|||++|||.|. +++.+++.|.
T Consensus 100 ~G~~v~vRhGDT~~~er~r~~-----------------------------~~PPdILiTTPEsL~lll~~~~~r~~l~-- 148 (814)
T COG1201 100 LGIEVAVRHGDTPQSEKQKML-----------------------------KNPPHILITTPESLAILLNSPKFRELLR-- 148 (814)
T ss_pred cCCccceecCCCChHHhhhcc-----------------------------CCCCcEEEeChhHHHHHhcCHHHHHHhc--
Confidence 455555555555554443332 226999999999986 4455555543
Q ss_pred HhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 345 HRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 345 ~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
++.++||||.|-
T Consensus 149 ------------------------~vr~VIVDEiHe 160 (814)
T COG1201 149 ------------------------DVRYVIVDEIHA 160 (814)
T ss_pred ------------------------CCcEEEeehhhh
Confidence 899999999995
No 30
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.62 E-value=2.3e-15 Score=165.70 Aligned_cols=51 Identities=24% Similarity=0.190 Sum_probs=41.2
Q ss_pred HhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 207 LQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 207 L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
+..++.....+.+ -+|..|||+|.+||+.+++|+|++++||||+|||+||+
T Consensus 15 ~~~l~~~v~~~~~-~~~~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~ 65 (876)
T PRK13767 15 LDLLRPYVREWFK-EKFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAF 65 (876)
T ss_pred HhhcCHHHHHHHH-HccCCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHH
Confidence 3334444333333 27889999999999999999999999999999999987
No 31
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.61 E-value=2.2e-15 Score=154.50 Aligned_cols=49 Identities=33% Similarity=0.399 Sum_probs=42.9
Q ss_pred CCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 202 LSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 202 ~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
++...+++++. +||+.+||+|..+||.++.++||.|-++||||||+||+
T Consensus 13 L~~~l~~~l~~--------~GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFl 61 (567)
T KOG0345|consen 13 LSPWLLEALDE--------SGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFL 61 (567)
T ss_pred ccHHHHHHHHh--------cCCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHH
Confidence 44555555444 89999999999999999999999999999999999998
No 32
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.61 E-value=1.1e-15 Score=158.12 Aligned_cols=126 Identities=22% Similarity=0.342 Sum_probs=97.9
Q ss_pred CCCCCCCCCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------
Q 042872 194 ISDNEHGTLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ--------------- 258 (381)
Q Consensus 194 ~~~~~~~~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~--------------- 258 (381)
...+.+..++.+.|.++.. .||+.|+|+|++|||..++.+|+|+++.||||||++|.
T Consensus 244 lrnwEE~~~P~e~l~~I~~--------~~y~eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~ 315 (673)
T KOG0333|consen 244 LRNWEESGFPLELLSVIKK--------PGYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMAR 315 (673)
T ss_pred ccChhhcCCCHHHHHHHHh--------cCCCCCchHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCcch
Confidence 3445555677777665544 79999999999999999999999999999999999998
Q ss_pred ------------------------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcc
Q 042872 259 ------------------------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCAS 314 (381)
Q Consensus 259 ------------------------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~ 314 (381)
+....|...+|++++.+.|+.+.+++.-.+..
T Consensus 316 ~en~~~gpyaiilaptReLaqqIeeEt~kf~~~lg~r~vsvigg~s~EEq~fqls~------------------------ 371 (673)
T KOG0333|consen 316 LENNIEGPYAIILAPTRELAQQIEEETNKFGKPLGIRTVSVIGGLSFEEQGFQLSM------------------------ 371 (673)
T ss_pred hhhcccCceeeeechHHHHHHHHHHHHHHhcccccceEEEEecccchhhhhhhhhc------------------------
Confidence 22345555678999999999999987666654
Q ss_pred cCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 315 RKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 315 ~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+++|+++||++|.. .+-+.+. |+. ++.+||+|||+.+
T Consensus 372 -----gceiviatPgrLid--~Lenr~l------------------vl~-----qctyvvldeadrm 408 (673)
T KOG0333|consen 372 -----GCEIVIATPGRLID--SLENRYL------------------VLN-----QCTYVVLDEADRM 408 (673)
T ss_pred -----cceeeecCchHHHH--HHHHHHH------------------Hhc-----cCceEeccchhhh
Confidence 68999999999973 2222111 111 8999999999853
No 33
>PRK02362 ski2-like helicase; Provisional
Probab=99.61 E-value=2.5e-15 Score=162.18 Aligned_cols=142 Identities=20% Similarity=0.239 Sum_probs=83.7
Q ss_pred HHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHH-HHcCCCEEEECCCCCCchhhHHHH-HHHHHhhcCCcEEEEeCCCCH
Q 042872 204 FEELQALDDMEFANVVIFGNRAFRPLQHQACKA-SVAKQDCFVLLPTGGGKSLCYQDQ-IITLNLKFGIPATFLNSQQTV 281 (381)
Q Consensus 204 fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~a-iL~GrDvLviaPTGsGKTLaF~dQ-v~~L~~~~gI~a~~l~g~~~~ 281 (381)
|+.+..-+.+..++.+ .||.+|+|+|.+|++. ++.|+|+++.+|||+|||++|.-. +..+. .+.+++++..- .
T Consensus 3 ~~~l~lp~~~~~~l~~-~g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~--~~~kal~i~P~--r 77 (737)
T PRK02362 3 IAELPLPEGVIEFYEA-EGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIA--RGGKALYIVPL--R 77 (737)
T ss_pred hhhcCCCHHHHHHHHh-CCCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHh--cCCcEEEEeCh--H
Confidence 4455544445555544 7999999999999998 678999999999999999999622 23332 35567666543 2
Q ss_pred HHHHHHHHHHHhchhhhhhhhhhhhhhhhh---hcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccc
Q 042872 282 SQAAAVLQELRQGLVLSQHYFLHQLIFVLT---CASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTD 358 (381)
Q Consensus 282 ~e~~~il~~lr~g~~~~~~~~~~~~~~~~~---~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~ 358 (381)
+-..+..+.+++ +.+ +...+..++ .........++|+|+|||++.. ++ +.+...++
T Consensus 78 aLa~q~~~~~~~--~~~----~g~~v~~~tGd~~~~~~~l~~~~IiV~Tpek~~~------ll----r~~~~~l~----- 136 (737)
T PRK02362 78 ALASEKFEEFER--FEE----LGVRVGISTGDYDSRDEWLGDNDIIVATSEKVDS------LL----RNGAPWLD----- 136 (737)
T ss_pred HHHHHHHHHHHH--hhc----CCCEEEEEeCCcCccccccCCCCEEEECHHHHHH------HH----hcChhhhh-----
Confidence 222222333221 000 000000000 0001112357999999999852 11 11111222
Q ss_pred cccccccccCCccEEEEeccccC
Q 042872 359 VVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 359 ~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
++++|||||||+|
T Consensus 137 ----------~v~lvViDE~H~l 149 (737)
T PRK02362 137 ----------DITCVVVDEVHLI 149 (737)
T ss_pred ----------hcCEEEEECcccc
Confidence 8999999999986
No 34
>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=99.59 E-value=3.7e-15 Score=128.93 Aligned_cols=32 Identities=38% Similarity=0.703 Sum_probs=30.3
Q ss_pred cHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 227 RPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 227 RpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
||+|.++++.+++|+++++.+|||+|||++|+
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~ 32 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYI 32 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHH
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHH
Confidence 68999999999999999999999999999997
No 35
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.59 E-value=1.9e-15 Score=153.24 Aligned_cols=120 Identities=22% Similarity=0.269 Sum_probs=91.7
Q ss_pred HhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH----------------------------
Q 042872 207 LQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------- 258 (381)
Q Consensus 207 L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------- 258 (381)
++..+++.....+ .||.+|+|+|.+|+|.+|+|.|++++++||+||||+|+
T Consensus 225 Fq~~pevmenIkK-~GFqKPtPIqSQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~pt 303 (629)
T KOG0336|consen 225 FQCYPEVMENIKK-TGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPT 303 (629)
T ss_pred HhhhHHHHHHHHh-ccCCCCCcchhcccceeecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEecc
Confidence 4445555555544 89999999999999999999999999999999999998
Q ss_pred ----HHHHHHH---hhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECcccc
Q 042872 259 ----DQIITLN---LKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERI 331 (381)
Q Consensus 259 ----dQv~~L~---~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL 331 (381)
-|++--. ..-|.+.++++|+-.+.++ ++.+++ +..|+++||+||
T Consensus 304 reLalqie~e~~kysyng~ksvc~ygggnR~eq---ie~lkr--------------------------gveiiiatPgrl 354 (629)
T KOG0336|consen 304 RELALQIEGEVKKYSYNGLKSVCVYGGGNRNEQ---IEDLKR--------------------------GVEIIIATPGRL 354 (629)
T ss_pred HHHHHHHHhHHhHhhhcCcceEEEecCCCchhH---HHHHhc--------------------------CceEEeeCCchH
Confidence 2221111 1347888888888776665 555554 479999999999
Q ss_pred ccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 332 VGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 332 ~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.. |...+.++|. .|.|||||||+.+
T Consensus 355 nd----------L~~~n~i~l~---------------siTYlVlDEADrM 379 (629)
T KOG0336|consen 355 ND----------LQMDNVINLA---------------SITYLVLDEADRM 379 (629)
T ss_pred hh----------hhhcCeeeee---------------eeEEEEecchhhh
Confidence 52 4445667777 8999999999863
No 36
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.57 E-value=5.1e-15 Score=153.04 Aligned_cols=126 Identities=20% Similarity=0.310 Sum_probs=99.4
Q ss_pred CCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH----------------------
Q 042872 201 TLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------- 258 (381)
Q Consensus 201 ~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------- 258 (381)
..+|+...- ++.+....+..-|..|||+|-+++|.+|.||||+.+|.||||||.+|+
T Consensus 222 vtsfeh~gf-DkqLm~airk~Ey~kptpiq~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~v 300 (731)
T KOG0339|consen 222 VTSFEHFGF-DKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGV 300 (731)
T ss_pred cchhhhcCc-hHHHHHHHhhhhcccCCcccccccccccccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEE
Confidence 345666643 333444444478899999999999999999999999999999999998
Q ss_pred ---------HH----HHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEE
Q 042872 259 ---------DQ----IITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLY 325 (381)
Q Consensus 259 ---------dQ----v~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~ 325 (381)
-| ..+|++.+||++++++||.+..+|...|+. ++.|||
T Consensus 301 ilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~k~Lk~-----------------------------g~EivV 351 (731)
T KOG0339|consen 301 ILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELKE-----------------------------GAEIVV 351 (731)
T ss_pred EEeccHHHHHHHHHHHHHhhhhccceEEEeecCCcHHHHHHhhhc-----------------------------CCeEEE
Confidence 33 356666789999999999998887665553 689999
Q ss_pred ECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 326 VTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 326 aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+|||||.. +...+..++. ++.|||||||+.+
T Consensus 352 aTPgRlid----------~VkmKatn~~---------------rvS~LV~DEadrm 382 (731)
T KOG0339|consen 352 ATPGRLID----------MVKMKATNLS---------------RVSYLVLDEADRM 382 (731)
T ss_pred echHHHHH----------HHHhhcccce---------------eeeEEEEechhhh
Confidence 99999972 3344566666 9999999999864
No 37
>PRK00254 ski2-like helicase; Provisional
Probab=99.57 E-value=7.9e-15 Score=157.97 Aligned_cols=144 Identities=22% Similarity=0.231 Sum_probs=85.3
Q ss_pred CHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHH-HHcCCCEEEECCCCCCchhhHHHH-HHHHHhhcCCcEEEEeCCCC
Q 042872 203 SFEELQALDDMEFANVVIFGNRAFRPLQHQACKA-SVAKQDCFVLLPTGGGKSLCYQDQ-IITLNLKFGIPATFLNSQQT 280 (381)
Q Consensus 203 ~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~a-iL~GrDvLviaPTGsGKTLaF~dQ-v~~L~~~~gI~a~~l~g~~~ 280 (381)
.|+.+..-+.+...+.+ .||++|+|+|.+||+. ++.|+|+++.+|||+|||++|.-. +..+. ..+-+++++.+.
T Consensus 2 ~~~~l~l~~~~~~~l~~-~g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~-~~~~~~l~l~P~-- 77 (720)
T PRK00254 2 KVDELRVDERIKRVLKE-RGIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLL-REGGKAVYLVPL-- 77 (720)
T ss_pred cHHHcCCCHHHHHHHHh-CCCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHH-hcCCeEEEEeCh--
Confidence 34555544555555555 8999999999999997 789999999999999999999622 23332 235567666543
Q ss_pred HHHHHHHHHHHHhchhhhhhhhhhhhhhhhhh---cccCCCCCccEEEECccccccCcchHHHHHHHHhcCCcccccccc
Q 042872 281 VSQAAAVLQELRQGLVLSQHYFLHQLIFVLTC---ASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTT 357 (381)
Q Consensus 281 ~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~---~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~ 357 (381)
..-..++.+.++. +. .+...+..++- ........++|+|+|||++.. +.+.+...++
T Consensus 78 ~aLa~q~~~~~~~--~~----~~g~~v~~~~Gd~~~~~~~~~~~~IiV~Tpe~~~~----------ll~~~~~~l~---- 137 (720)
T PRK00254 78 KALAEEKYREFKD--WE----KLGLRVAMTTGDYDSTDEWLGKYDIIIATAEKFDS----------LLRHGSSWIK---- 137 (720)
T ss_pred HHHHHHHHHHHHH--Hh----hcCCEEEEEeCCCCCchhhhccCCEEEEcHHHHHH----------HHhCCchhhh----
Confidence 2222223333221 00 00000000000 011112357999999999852 1112212223
Q ss_pred ccccccccccCCccEEEEeccccC
Q 042872 358 DVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 358 ~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
++++|||||+|++
T Consensus 138 -----------~l~lvViDE~H~l 150 (720)
T PRK00254 138 -----------DVKLVVADEIHLI 150 (720)
T ss_pred -----------cCCEEEEcCcCcc
Confidence 8999999999985
No 38
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.57 E-value=4e-15 Score=153.01 Aligned_cols=147 Identities=22% Similarity=0.350 Sum_probs=87.2
Q ss_pred CCCCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH----HHHHHHH--hhcCCcE
Q 042872 199 HGTLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ----DQIITLN--LKFGIPA 272 (381)
Q Consensus 199 ~~~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~----dQv~~L~--~~~gI~a 272 (381)
...++...+.++.+ +||.+.|++|..+|+.+|.|+|+++.|.||+|||++|+ +.+..+. .+.++.+
T Consensus 86 ~~~LS~~t~kAi~~--------~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~v 157 (543)
T KOG0342|consen 86 EGSLSPLTLKAIKE--------MGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGV 157 (543)
T ss_pred ccccCHHHHHHHHh--------cCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeE
Confidence 34455555555444 89999999999999999999999999999999999998 1121111 1235566
Q ss_pred EEEeCCCCHHHHHHHHHHHHhchhhhhh-hhhhhhhhhhhh---cccCCCCCccEEEECccccccCcchHHHHHHHHhcC
Q 042872 273 TFLNSQQTVSQAAAVLQELRQGLVLSQH-YFLHQLIFVLTC---ASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKG 348 (381)
Q Consensus 273 ~~l~g~~~~~e~~~il~~lr~g~~~~~~-~~~~~~~~~~~~---~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g 348 (381)
++++.. ++-.-++...++ .++..| -+..+.+++.+. ...+....++|||+|||||.. ||.+.+
T Consensus 158 lIi~PT--RELA~Q~~~eak--~Ll~~h~~~~v~~viGG~~~~~e~~kl~k~~niliATPGRLlD---------HlqNt~ 224 (543)
T KOG0342|consen 158 LIICPT--RELAMQIFAEAK--ELLKYHESITVGIVIGGNNFSVEADKLVKGCNILIATPGRLLD---------HLQNTS 224 (543)
T ss_pred EEeccc--HHHHHHHHHHHH--HHHhhCCCcceEEEeCCccchHHHHHhhccccEEEeCCchHHh---------HhhcCC
Confidence 666542 222212222222 112222 112222222111 112222379999999999973 333322
Q ss_pred CccccccccccccccccccCCccEEEEeccccC
Q 042872 349 SIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 349 ~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.+- .+.+.++|||||++|
T Consensus 225 ~f~---------------~r~~k~lvlDEADrl 242 (543)
T KOG0342|consen 225 GFL---------------FRNLKCLVLDEADRL 242 (543)
T ss_pred cch---------------hhccceeEeecchhh
Confidence 111 126789999999975
No 39
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.56 E-value=2.1e-15 Score=156.96 Aligned_cols=133 Identities=20% Similarity=0.229 Sum_probs=94.4
Q ss_pred hCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH-HHHHHHHh-----hcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 221 FGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ-DQIITLNL-----KFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 221 fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~-dQv~~L~~-----~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
-+|..+|.+|+.+||.+|.|+|||+.|.|||||||+|+ .-+.+|-. .-|+-|+++.. +++-.-+++.-|.
T Consensus 87 ~~fv~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISP--TRELA~QtFevL~-- 162 (758)
T KOG0343|consen 87 AKFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISP--TRELALQTFEVLN-- 162 (758)
T ss_pred cCCccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecc--hHHHHHHHHHHHH--
Confidence 79999999999999999999999999999999999998 22333321 12566666643 4554445555554
Q ss_pred hhhhhhhhhhhhhhhhhhc--ccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccE
Q 042872 295 LVLSQHYFLHQLIFVLTCA--SRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAG 372 (381)
Q Consensus 295 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~ 372 (381)
++..+|.+.-.++++.... ....-..++|||+|||||+ +||.+.-.++.+ ++.+
T Consensus 163 kvgk~h~fSaGLiiGG~~~k~E~eRi~~mNILVCTPGRLL---------QHmde~~~f~t~---------------~lQm 218 (758)
T KOG0343|consen 163 KVGKHHDFSAGLIIGGKDVKFELERISQMNILVCTPGRLL---------QHMDENPNFSTS---------------NLQM 218 (758)
T ss_pred HHhhccccccceeecCchhHHHHHhhhcCCeEEechHHHH---------HHhhhcCCCCCC---------------cceE
Confidence 4567777776666543221 1112236899999999996 556555555555 8999
Q ss_pred EEEeccccC
Q 042872 373 FVVDEAHCV 381 (381)
Q Consensus 373 lVIDEAHcI 381 (381)
+|+|||++|
T Consensus 219 LvLDEADR~ 227 (758)
T KOG0343|consen 219 LVLDEADRM 227 (758)
T ss_pred EEeccHHHH
Confidence 999999864
No 40
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.56 E-value=1.8e-15 Score=155.95 Aligned_cols=143 Identities=24% Similarity=0.173 Sum_probs=85.6
Q ss_pred HHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHH-HHHHHHhh---------c--CCcEEEEeCCC
Q 042872 212 DMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQD-QIITLNLK---------F--GIPATFLNSQQ 279 (381)
Q Consensus 212 ~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~d-Qv~~L~~~---------~--gI~a~~l~g~~ 279 (381)
+....+.+.-||..|+|+|+-+||.+..|+|++++||||+|||.+|+- -+..+... . ...++++..
T Consensus 83 ~~l~~ni~~~~~~~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlap-- 160 (482)
T KOG0335|consen 83 EALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAP-- 160 (482)
T ss_pred HHHhhccccccccCCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeC--
Confidence 344444556899999999999999999999999999999999999981 11111100 0 112222221
Q ss_pred CHHHHHHHHHHHHhchhhhhhhhhhhhh-hhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccc
Q 042872 280 TVSQAAAVLQELRQGLVLSQHYFLHQLI-FVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTD 358 (381)
Q Consensus 280 ~~~e~~~il~~lr~g~~~~~~~~~~~~~-~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~ 358 (381)
+++-..++....+...+.+.+..-..+- ..+...-.....+++|+++||+||.+ +..++.|.|+
T Consensus 161 TReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~~~q~~~~~~gcdIlvaTpGrL~d----------~~e~g~i~l~----- 225 (482)
T KOG0335|consen 161 TRELVDQIYNEARKFSYLSGMKSVVVYGGTDLGAQLRFIKRGCDILVATPGRLKD----------LIERGKISLD----- 225 (482)
T ss_pred cHHHhhHHHHHHHhhcccccceeeeeeCCcchhhhhhhhccCccEEEecCchhhh----------hhhcceeehh-----
Confidence 2333333333333222222111000000 00000011122369999999999963 5578888888
Q ss_pred cccccccccCCccEEEEeccccC
Q 042872 359 VVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 359 ~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.+++||||||+.+
T Consensus 226 ----------~~k~~vLDEADrM 238 (482)
T KOG0335|consen 226 ----------NCKFLVLDEADRM 238 (482)
T ss_pred ----------hCcEEEecchHHh
Confidence 9999999999863
No 41
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=99.55 E-value=6.5e-15 Score=150.22 Aligned_cols=148 Identities=22% Similarity=0.218 Sum_probs=92.0
Q ss_pred CCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH-HHHHHH-------HhhcCCcE
Q 042872 201 TLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ-DQIITL-------NLKFGIPA 272 (381)
Q Consensus 201 ~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~-dQv~~L-------~~~~gI~a 272 (381)
..+|+.+.+-..+..+..+ +||+.||-+|..|||.+|.|+|+++-|.||||||++|+ .-+..| ....|+.+
T Consensus 18 ~ktFe~~gLD~RllkAi~~-lG~ekpTlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa 96 (569)
T KOG0346|consen 18 EKTFEEFGLDSRLLKAITK-LGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSA 96 (569)
T ss_pred hccHHHhCCCHHHHHHHHH-hCcCCcchhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhccccccccee
Confidence 3679998866555555544 89999999999999999999999999999999999998 112222 12346777
Q ss_pred EEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhc--------ccCCCCCccEEEECccccccCcchHHHHHHH
Q 042872 273 TFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCA--------SRKDKPSCKLLYVTPERIVGNQSFSEVLKCL 344 (381)
Q Consensus 273 ~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L 344 (381)
+++... .+..++...+-..++ .+.-+.+...+.+ +..--..++|||+||.+++. ++
T Consensus 97 ~iLvPT---kEL~qQvy~viekL~----~~c~k~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~---------~~ 160 (569)
T KOG0346|consen 97 VILVPT---KELAQQVYKVIEKLV----EYCSKDLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLR---------HL 160 (569)
T ss_pred EEEech---HHHHHHHHHHHHHHH----HHHHHhhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHH---------HH
Confidence 777653 222222222111111 1111111111111 11122368999999999972 11
Q ss_pred HhcCC-ccccccccccccccccccCCccEEEEeccccC
Q 042872 345 HRKGS-IRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 345 ~~~g~-~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
..|. ..++ .+.++|||||+.+
T Consensus 161 -~~~~~~~~~---------------~l~~LVvDEADLl 182 (569)
T KOG0346|consen 161 -AAGVLEYLD---------------SLSFLVVDEADLL 182 (569)
T ss_pred -hhccchhhh---------------heeeEEechhhhh
Confidence 1221 1122 8999999999864
No 42
>PRK09401 reverse gyrase; Reviewed
Probab=99.55 E-value=3.1e-14 Score=160.88 Aligned_cols=51 Identities=20% Similarity=0.120 Sum_probs=43.8
Q ss_pred HhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 207 LQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 207 L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
.+.+.++...+.+.+|+ .|+++|.++|+.++.|+|++++||||+|||+.++
T Consensus 63 ~~~~~~~~~~f~~~~G~-~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~f~l 113 (1176)
T PRK09401 63 EEEYKEFEKFFKKKTGS-KPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFGL 113 (1176)
T ss_pred HHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHHHHH
Confidence 34456677777788899 7999999999999999999999999999997544
No 43
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.54 E-value=1.2e-14 Score=149.96 Aligned_cols=119 Identities=29% Similarity=0.362 Sum_probs=84.9
Q ss_pred HHHHHHHhCCCCCcHHHHHHHHHHH---------cCCCEEEECCCCCCchhhHH--------------------------
Q 042872 214 EFANVVIFGNRAFRPLQHQACKASV---------AKQDCFVLLPTGGGKSLCYQ-------------------------- 258 (381)
Q Consensus 214 ~~~~~~~fG~~~fRpiQ~eAI~aiL---------~GrDvLviaPTGsGKTLaF~-------------------------- 258 (381)
.+.+++ .++++.-|+|..++|.+| .++|+.|.|||||||||||.
T Consensus 149 ~q~l~k-~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L 227 (620)
T KOG0350|consen 149 DQLLVK-MAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTREL 227 (620)
T ss_pred HHHHHH-hhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHH
Confidence 334444 799999999999999997 37899999999999999998
Q ss_pred -----HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECcccccc
Q 042872 259 -----DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVG 333 (381)
Q Consensus 259 -----dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~ 333 (381)
+.+.++....|+.+..+.|+.+.+.-...+.. ....+..+|||+||+||+
T Consensus 228 ~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~qL~~------------------------~~~~~~~DIlVaTPGRLV- 282 (620)
T KOG0350|consen 228 ALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLAS------------------------DPPECRIDILVATPGRLV- 282 (620)
T ss_pred HHHHHHHHHHhccCCceEEEecccccchHHHHHHHhc------------------------CCCccccceEEcCchHHH-
Confidence 22333333345555555555544332222221 122236799999999998
Q ss_pred CcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 334 NQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 334 ~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+||....+++|+ .|.|+|||||+++
T Consensus 283 --------DHl~~~k~f~Lk---------------~LrfLVIDEADRl 307 (620)
T KOG0350|consen 283 --------DHLNNTKSFDLK---------------HLRFLVIDEADRL 307 (620)
T ss_pred --------HhccCCCCcchh---------------hceEEEechHHHH
Confidence 456667788888 9999999999864
No 44
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=99.52 E-value=2.9e-14 Score=156.19 Aligned_cols=125 Identities=24% Similarity=0.370 Sum_probs=93.0
Q ss_pred HHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH-------------------------
Q 042872 204 FEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ------------------------- 258 (381)
Q Consensus 204 fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~------------------------- 258 (381)
+........+...+ +.+||..+||||.+|||+|+.|||||+++.||+|||++|.
T Consensus 367 W~q~gl~~~il~tl-kkl~y~k~~~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~a 445 (997)
T KOG0334|consen 367 WTQCGLSSKILETL-KKLGYEKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILA 445 (997)
T ss_pred HhhCCchHHHHHHH-HHhcCCCCcchhhhhcchhccCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEc
Confidence 33333334455555 4499999999999999999999999999999999999995
Q ss_pred ------HH----HHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECc
Q 042872 259 ------DQ----IITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTP 328 (381)
Q Consensus 259 ------dQ----v~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTP 328 (381)
-| +..|.+..+|++++++|+....++ +..+++| ..|+|+||
T Consensus 446 Ptrela~QI~r~~~kf~k~l~ir~v~vygg~~~~~q---iaelkRg--------------------------~eIvV~tp 496 (997)
T KOG0334|consen 446 PTRELAMQIHREVRKFLKLLGIRVVCVYGGSGISQQ---IAELKRG--------------------------AEIVVCTP 496 (997)
T ss_pred CCHHHHHHHHHHHHHHHhhcCceEEEecCCccHHHH---HHHHhcC--------------------------CceEEecc
Confidence 23 455666689999999999887665 5566654 68999999
Q ss_pred cccccCcchHHHHHHHHhcCC-ccccccccccccccccccCCccEEEEeccccC
Q 042872 329 ERIVGNQSFSEVLKCLHRKGS-IRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 329 ErL~~~~~f~~~L~~L~~~g~-~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+|+.. .+ ..+.|. .+|. ++.++|+|||+.+
T Consensus 497 GRmiD------~l--~~n~grvtnlr---------------R~t~lv~deaDrm 527 (997)
T KOG0334|consen 497 GRMID------IL--CANSGRVTNLR---------------RVTYLVLDEADRM 527 (997)
T ss_pred chhhh------hH--hhcCCcccccc---------------ccceeeechhhhh
Confidence 99973 11 112221 1222 7889999999863
No 45
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.51 E-value=7.4e-14 Score=150.09 Aligned_cols=111 Identities=16% Similarity=0.238 Sum_probs=88.3
Q ss_pred HHHHHHhCCCCCcHHHHHHHHHHHcC------CCEEEECCCCCCchhhHH-----------------------HH----H
Q 042872 215 FANVVIFGNRAFRPLQHQACKASVAK------QDCFVLLPTGGGKSLCYQ-----------------------DQ----I 261 (381)
Q Consensus 215 ~~~~~~fG~~~fRpiQ~eAI~aiL~G------rDvLviaPTGsGKTLaF~-----------------------dQ----v 261 (381)
..+...++| ++|++|.+||+.++++ .++|+++|||||||++|+ .| +
T Consensus 252 ~~~~~~l~f-~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l 330 (681)
T PRK10917 252 KKFLASLPF-ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENL 330 (681)
T ss_pred HHHHHhCCC-CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHH
Confidence 444556788 5999999999999986 489999999999999997 22 3
Q ss_pred HHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHH
Q 042872 262 ITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVL 341 (381)
Q Consensus 262 ~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L 341 (381)
..+...+|+++..++|+.+..++..++..+..| .++|||+||+++...
T Consensus 331 ~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g-------------------------~~~IvVgT~~ll~~~------- 378 (681)
T PRK10917 331 KKLLEPLGIRVALLTGSLKGKERREILEAIASG-------------------------EADIVIGTHALIQDD------- 378 (681)
T ss_pred HHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCC-------------------------CCCEEEchHHHhccc-------
Confidence 344445689999999999988888888887755 689999999988521
Q ss_pred HHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 342 KCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 342 ~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+.+. +++++||||+|+.
T Consensus 379 --------v~~~---------------~l~lvVIDE~Hrf 395 (681)
T PRK10917 379 --------VEFH---------------NLGLVIIDEQHRF 395 (681)
T ss_pred --------chhc---------------ccceEEEechhhh
Confidence 1112 8999999999973
No 46
>PRK01172 ski2-like helicase; Provisional
Probab=99.51 E-value=5.7e-14 Score=149.98 Aligned_cols=140 Identities=17% Similarity=0.150 Sum_probs=80.3
Q ss_pred HHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHH-HHHHhhcCCcEEEEeCCCCHHH
Q 042872 205 EELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQI-ITLNLKFGIPATFLNSQQTVSQ 283 (381)
Q Consensus 205 e~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv-~~L~~~~gI~a~~l~g~~~~~e 283 (381)
+.+..-+.+...+.+ .||+ ++|+|.+|++.++.|+++++++|||+|||++|.-.+ ..+. .+.+++++.+- ..-
T Consensus 4 ~~~~l~~~~~~~~~~-~~~~-l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~--~~~k~v~i~P~--raL 77 (674)
T PRK01172 4 SDLGYDDEFLNLFTG-NDFE-LYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFL--AGLKSIYIVPL--RSL 77 (674)
T ss_pred hhcCCCHHHHHHHhh-CCCC-CCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHH--hCCcEEEEech--HHH
Confidence 333333334444433 5776 999999999999999999999999999999986222 2232 25677777642 222
Q ss_pred HHHHHHHHHhchhhhhhhhhhhhhhhhhh---cccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccc
Q 042872 284 AAAVLQELRQGLVLSQHYFLHQLIFVLTC---ASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVV 360 (381)
Q Consensus 284 ~~~il~~lr~g~~~~~~~~~~~~~~~~~~---~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v 360 (381)
..++.+.+++ +. .+...+..++- ........++|+|+|||++.. .+ ++....+.
T Consensus 78 a~q~~~~~~~--l~----~~g~~v~~~~G~~~~~~~~~~~~dIiv~Tpek~~~------l~----~~~~~~l~------- 134 (674)
T PRK01172 78 AMEKYEELSR--LR----SLGMRVKISIGDYDDPPDFIKRYDVVILTSEKADS------LI----HHDPYIIN------- 134 (674)
T ss_pred HHHHHHHHHH--Hh----hcCCeEEEEeCCCCCChhhhccCCEEEECHHHHHH------HH----hCChhHHh-------
Confidence 2223333321 00 00000000000 001112357999999999752 11 11111122
Q ss_pred cccccccCCccEEEEeccccC
Q 042872 361 VLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 361 ~~~~~~~~~L~~lVIDEAHcI 381 (381)
++++|||||||++
T Consensus 135 --------~v~lvViDEaH~l 147 (674)
T PRK01172 135 --------DVGLIVADEIHII 147 (674)
T ss_pred --------hcCEEEEecchhc
Confidence 8999999999985
No 47
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.49 E-value=1.1e-13 Score=147.34 Aligned_cols=108 Identities=20% Similarity=0.276 Sum_probs=85.5
Q ss_pred HHHHhCCCCCcHHHHHHHHHHHcC------CCEEEECCCCCCchhhHH-----------------------HH----HHH
Q 042872 217 NVVIFGNRAFRPLQHQACKASVAK------QDCFVLLPTGGGKSLCYQ-----------------------DQ----IIT 263 (381)
Q Consensus 217 ~~~~fG~~~fRpiQ~eAI~aiL~G------rDvLviaPTGsGKTLaF~-----------------------dQ----v~~ 263 (381)
+...++| ++|++|.+||+.++.+ .+.|+++|||+|||++|+ .| +..
T Consensus 228 ~~~~lpf-~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~ 306 (630)
T TIGR00643 228 FLASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRN 306 (630)
T ss_pred HHHhCCC-CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHH
Confidence 4445899 6999999999999976 258999999999999986 22 333
Q ss_pred HHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHH
Q 042872 264 LNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKC 343 (381)
Q Consensus 264 L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~ 343 (381)
+...+|+++.+++|+.+..++..+++.+..| .++|||+||+++...
T Consensus 307 l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g-------------------------~~~IiVgT~~ll~~~--------- 352 (630)
T TIGR00643 307 LLAPLGIEVALLTGSLKGKRRKELLETIASG-------------------------QIHLVVGTHALIQEK--------- 352 (630)
T ss_pred HhcccCcEEEEEecCCCHHHHHHHHHHHhCC-------------------------CCCEEEecHHHHhcc---------
Confidence 3334589999999999988888888887755 689999999988521
Q ss_pred HHhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 344 LHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 344 L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
+.+. ++++|||||||+
T Consensus 353 ------~~~~---------------~l~lvVIDEaH~ 368 (630)
T TIGR00643 353 ------VEFK---------------RLALVIIDEQHR 368 (630)
T ss_pred ------cccc---------------ccceEEEechhh
Confidence 1112 899999999997
No 48
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.47 E-value=2.4e-13 Score=149.62 Aligned_cols=106 Identities=21% Similarity=0.250 Sum_probs=84.5
Q ss_pred HhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH--------------------------HHHHHHHh---hcC-
Q 042872 220 IFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ--------------------------DQIITLNL---KFG- 269 (381)
Q Consensus 220 ~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~--------------------------dQv~~L~~---~~g- 269 (381)
..|+..++.+|.+|+..+.+||||+|..|||||||+||+ ||..+|.+ .++
T Consensus 65 ~~g~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~ 144 (851)
T COG1205 65 KAGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLPG 144 (851)
T ss_pred HhccccccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHhCCC
Confidence 378888999999999999999999999999999999998 88776653 344
Q ss_pred -CcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECcccccc-----CcchHHHHHH
Q 042872 270 -IPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVG-----NQSFSEVLKC 343 (381)
Q Consensus 270 -I~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~-----~~~f~~~L~~ 343 (381)
+.+..++|++...++..++.. .++||+++|.+|.- .+.|+..+
T Consensus 145 ~v~~~~y~Gdt~~~~r~~~~~~-----------------------------pp~IllTNpdMLh~~llr~~~~~~~~~-- 193 (851)
T COG1205 145 KVTFGRYTGDTPPEERRAIIRN-----------------------------PPDILLTNPDMLHYLLLRNHDAWLWLL-- 193 (851)
T ss_pred cceeeeecCCCChHHHHHHHhC-----------------------------CCCEEEeCHHHHHHHhccCcchHHHHH--
Confidence 778888999888876544433 68999999999862 12222211
Q ss_pred HHhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 344 LHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 344 L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
+++++|||||+|-
T Consensus 194 ------------------------~~Lk~lVvDElHt 206 (851)
T COG1205 194 ------------------------RNLKYLVVDELHT 206 (851)
T ss_pred ------------------------hcCcEEEEeccee
Confidence 1799999999994
No 49
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.46 E-value=7.7e-14 Score=136.51 Aligned_cols=125 Identities=17% Similarity=0.268 Sum_probs=96.4
Q ss_pred CCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH----------------------
Q 042872 201 TLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------- 258 (381)
Q Consensus 201 ~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------- 258 (381)
..+|+.+..-++++... -.+||++|..+|..||+.++.||||++.++.|+|||.+|.
T Consensus 26 ~~~F~~Mgl~edlLrgi-Y~yGfekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPT 104 (400)
T KOG0328|consen 26 IPTFDDMGLKEDLLRGI-YAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPT 104 (400)
T ss_pred ccchhhcCchHHHHHHH-HHhccCCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecCh
Confidence 34677776655554443 3389999999999999999999999999999999999996
Q ss_pred --------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccc
Q 042872 259 --------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPER 330 (381)
Q Consensus 259 --------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPEr 330 (381)
.-+..|+..++|.+..+.||.+..+-.+.++ -+.++|..||+|
T Consensus 105 RELa~Qi~~vi~alg~~mnvq~hacigg~n~gedikkld-----------------------------~G~hvVsGtPGr 155 (400)
T KOG0328|consen 105 RELAVQIQKVILALGDYMNVQCHACIGGKNLGEDIKKLD-----------------------------YGQHVVSGTPGR 155 (400)
T ss_pred HHHHHHHHHHHHHhcccccceEEEEecCCccchhhhhhc-----------------------------ccceEeeCCCch
Confidence 2245666677888888888877554322222 268999999999
Q ss_pred cccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 331 IVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 331 L~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
++. |.++++++-. .++++|+|||+-
T Consensus 156 v~d----------mikr~~L~tr---------------~vkmlVLDEaDe 180 (400)
T KOG0328|consen 156 VLD----------MIKRRSLRTR---------------AVKMLVLDEADE 180 (400)
T ss_pred HHH----------HHHhcccccc---------------ceeEEEeccHHH
Confidence 973 5566766666 999999999973
No 50
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=99.46 E-value=2.6e-13 Score=150.43 Aligned_cols=113 Identities=21% Similarity=0.240 Sum_probs=86.1
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcC------CCEEEECCCCCCchhhHH-----------------------HH-HH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAK------QDCFVLLPTGGGKSLCYQ-----------------------DQ-II 262 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~G------rDvLviaPTGsGKTLaF~-----------------------dQ-v~ 262 (381)
+...+...|+|+ +||+|.+||+.++++ +|+|+++|||+|||++|+ .| ..
T Consensus 440 ~~~~~~~~~~f~-~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~ 518 (926)
T TIGR00580 440 WQQEFEDSFPFE-ETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFE 518 (926)
T ss_pred HHHHHHHhCCCC-CCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHH
Confidence 344556678995 999999999999975 799999999999999986 33 22
Q ss_pred HHH---hhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHH
Q 042872 263 TLN---LKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSE 339 (381)
Q Consensus 263 ~L~---~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~ 339 (381)
.+. ..+++++..+++..+..++..+++.++.| .++|||+||..+. .
T Consensus 519 ~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g-------------------------~~dIVIGTp~ll~--~---- 567 (926)
T TIGR00580 519 TFKERFANFPVTIELLSRFRSAKEQNEILKELASG-------------------------KIDILIGTHKLLQ--K---- 567 (926)
T ss_pred HHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcC-------------------------CceEEEchHHHhh--C----
Confidence 222 24578888888888888888888887755 6899999995432 1
Q ss_pred HHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 340 VLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 340 ~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.+.++ +|++|||||+|+.
T Consensus 568 ---------~v~f~---------------~L~llVIDEahrf 585 (926)
T TIGR00580 568 ---------DVKFK---------------DLGLLIIDEEQRF 585 (926)
T ss_pred ---------CCCcc---------------cCCEEEeeccccc
Confidence 12222 8999999999973
No 51
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=99.46 E-value=9e-15 Score=147.63 Aligned_cols=123 Identities=22% Similarity=0.298 Sum_probs=91.0
Q ss_pred CHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH------------------------
Q 042872 203 SFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ------------------------ 258 (381)
Q Consensus 203 ~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~------------------------ 258 (381)
+|..++--..+...+++ -|+..|||+|.+-||.+|+|||.|++|-||||||++|.
T Consensus 171 sF~eMKFP~~~L~~lk~-KGI~~PTpIQvQGlPvvLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~g 249 (610)
T KOG0341|consen 171 SFKEMKFPKPLLRGLKK-KGIVHPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYG 249 (610)
T ss_pred hhhhccCCHHHHHHHHh-cCCCCCCceeecCcceEeecCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCee
Confidence 45565555555555655 79999999999999999999999999999999999996
Q ss_pred -----------------HH-HHHHHhhcC---CcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCC
Q 042872 259 -----------------DQ-IITLNLKFG---IPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKD 317 (381)
Q Consensus 259 -----------------dQ-v~~L~~~~g---I~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~ 317 (381)
.| +..|. .-| +++..+.|+.+..++...+ ++
T Consensus 250 LiicPSRELArQt~~iie~~~~~L~-e~g~P~lRs~LciGG~~v~eql~~v---~~------------------------ 301 (610)
T KOG0341|consen 250 LIICPSRELARQTHDIIEQYVAALQ-EAGYPELRSLLCIGGVPVREQLDVV---RR------------------------ 301 (610)
T ss_pred EEEcCcHHHHHHHHHHHHHHHHHHH-hcCChhhhhhhhhcCccHHHHHHHH---hc------------------------
Confidence 11 22222 223 4667777888877664443 33
Q ss_pred CCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 318 KPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 318 ~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+.||+|+||+||.+ +..+..++|+ -+.|+++|||+++
T Consensus 302 --GvHivVATPGRL~D----------mL~KK~~sLd---------------~CRyL~lDEADRm 338 (610)
T KOG0341|consen 302 --GVHIVVATPGRLMD----------MLAKKIMSLD---------------ACRYLTLDEADRM 338 (610)
T ss_pred --CeeEEEcCcchHHH----------HHHHhhccHH---------------HHHHhhhhhHHHH
Confidence 58999999999972 2233446666 8999999999863
No 52
>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=99.44 E-value=4.6e-13 Score=151.47 Aligned_cols=119 Identities=18% Similarity=0.201 Sum_probs=81.5
Q ss_pred hchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH-----------------------H----HH
Q 042872 209 ALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ-----------------------D----QI 261 (381)
Q Consensus 209 ~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~-----------------------d----Qv 261 (381)
.+.++...+.+..|+ .|+|+|+++|+.++.|+|++++||||+|||+.++ . .+
T Consensus 63 ~~~~f~~~f~~~~g~-~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l 141 (1171)
T TIGR01054 63 ELKEFEEFFKKAVGS-EPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKI 141 (1171)
T ss_pred HHHHHHHHHHHhcCC-CCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHH
Confidence 344556666666676 6999999999999999999999999999997433 1 22
Q ss_pred HHHHhhcCCcEE---EEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchH
Q 042872 262 ITLNLKFGIPAT---FLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFS 338 (381)
Q Consensus 262 ~~L~~~~gI~a~---~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~ 338 (381)
..+....|+... .++|+.+..++...++.+++| .++|||+||++|.. .
T Consensus 142 ~~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~-------------------------~~dIlV~Tp~rL~~--~-- 192 (1171)
T TIGR01054 142 SSLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENG-------------------------DFDILITTTMFLSK--N-- 192 (1171)
T ss_pred HHHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcC-------------------------CCCEEEECHHHHHH--H--
Confidence 333333344432 345666666555555555433 68999999999862 1
Q ss_pred HHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 339 EVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 339 ~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+..+. . ++.+|||||||++
T Consensus 193 --~~~l~--~--------------------~~~~iVvDEaD~~ 211 (1171)
T TIGR01054 193 --YDELG--P--------------------KFDFIFVDDVDAL 211 (1171)
T ss_pred --HHHhc--C--------------------CCCEEEEeChHhh
Confidence 22111 1 6889999999985
No 53
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.44 E-value=4.8e-13 Score=147.05 Aligned_cols=129 Identities=18% Similarity=0.217 Sum_probs=89.5
Q ss_pred HHHHhhchHHHHHHHH----HhCCCCC---cHHHHHHHHHHHcCCCEEEECCCCCCchhhHH------------------
Q 042872 204 FEELQALDDMEFANVV----IFGNRAF---RPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ------------------ 258 (381)
Q Consensus 204 fe~L~~l~~l~~~~~~----~fG~~~f---RpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~------------------ 258 (381)
++.+....++..+... ..||..| ||+|.++|+.++.++|+++.|+||+|||++|.
T Consensus 64 ~eafal~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g~~v~IVTp 143 (970)
T PRK12899 64 PEAYGVVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTGKPVHLVTV 143 (970)
T ss_pred HHHhCCCHHHHHHHhccccccccccCCCCCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhcCCeEEEeC
Confidence 5555555555554432 3578888 99999999999999999999999999999998
Q ss_pred ---------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECcc
Q 042872 259 ---------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPE 329 (381)
Q Consensus 259 ---------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPE 329 (381)
+++..+.+.+|+++.++.|+.+..++...+ .++|+|+||+
T Consensus 144 TrELA~Qdae~m~~L~k~lGLsV~~i~GG~~~~eq~~~y-------------------------------~~DIVygTPg 192 (970)
T PRK12899 144 NDYLAQRDCEWVGSVLRWLGLTTGVLVSGSPLEKRKEIY-------------------------------QCDVVYGTAS 192 (970)
T ss_pred CHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHHc-------------------------------CCCEEEECCC
Confidence 334455545567777777776665542111 4799999999
Q ss_pred cc-ccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 330 RI-VGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 330 rL-~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+| ++ .| +.+.+.++.. ...|+.+.++|||||+.|
T Consensus 193 RLgfD------yL----rd~~~~~~~~--------~~vqr~~~~~IIDEADsm 227 (970)
T PRK12899 193 EFGFD------YL----RDNSIATRKE--------EQVGRGFYFAIIDEVDSI 227 (970)
T ss_pred hhHHH------Hh----hCCCCCcCHH--------HhhcccccEEEEechhhh
Confidence 99 42 11 2222222210 124568899999999865
No 54
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.43 E-value=2.4e-13 Score=143.80 Aligned_cols=125 Identities=22% Similarity=0.261 Sum_probs=98.7
Q ss_pred CCCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------
Q 042872 200 GTLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ--------------------- 258 (381)
Q Consensus 200 ~~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~--------------------- 258 (381)
.+..|+.|.+..++..-++. -+|..|+++|..|||+++.+-|+||.+..|+|||++|.
T Consensus 23 ~~~~fe~l~l~r~vl~glrr-n~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~P 101 (980)
T KOG4284|consen 23 CTPGFEQLALWREVLLGLRR-NAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTP 101 (980)
T ss_pred CCCCHHHHHHHHHHHHHHHh-hcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEec
Confidence 45679999988888777755 79999999999999999999999999999999999996
Q ss_pred ---------HHHHHHHhh-cCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECc
Q 042872 259 ---------DQIITLNLK-FGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTP 328 (381)
Q Consensus 259 ---------dQv~~L~~~-~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTP 328 (381)
+.+.+++.. .|.++-+++||+....-.. .++ .++|+|+||
T Consensus 102 TREiaVQI~~tv~~v~~sf~g~~csvfIGGT~~~~d~~---rlk---------------------------~~rIvIGtP 151 (980)
T KOG4284|consen 102 TREIAVQIKETVRKVAPSFTGARCSVFIGGTAHKLDLI---RLK---------------------------QTRIVIGTP 151 (980)
T ss_pred chhhhhHHHHHHHHhcccccCcceEEEecCchhhhhhh---hhh---------------------------hceEEecCc
Confidence 334444422 3678888888876543222 222 578999999
Q ss_pred cccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 329 ERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 329 ErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
|||. +|++.+.++.+ .|.+||+|||+-
T Consensus 152 GRi~----------qL~el~~~n~s---------------~vrlfVLDEADk 178 (980)
T KOG4284|consen 152 GRIA----------QLVELGAMNMS---------------HVRLFVLDEADK 178 (980)
T ss_pred hHHH----------HHHHhcCCCcc---------------ceeEEEeccHHh
Confidence 9996 35666666666 899999999974
No 55
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.42 E-value=7.7e-13 Score=149.40 Aligned_cols=113 Identities=21% Similarity=0.207 Sum_probs=84.7
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcC------CCEEEECCCCCCchhhHH-----------------------HH-HH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAK------QDCFVLLPTGGGKSLCYQ-----------------------DQ-II 262 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~G------rDvLviaPTGsGKTLaF~-----------------------dQ-v~ 262 (381)
+...+...|+| .+|++|.+||+.++.+ +|+|+++|||+|||++|+ .| ..
T Consensus 589 ~~~~~~~~~~~-~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~ 667 (1147)
T PRK10689 589 QYQLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYD 667 (1147)
T ss_pred HHHHHHHhCCC-CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHH
Confidence 33445566899 6999999999999987 899999999999997665 22 23
Q ss_pred HHHh---hcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHH
Q 042872 263 TLNL---KFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSE 339 (381)
Q Consensus 263 ~L~~---~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~ 339 (381)
.+.. .+++++.++++..+..++..+++.+++| .++|||+||+.+.. .
T Consensus 668 ~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g-------------------------~~dIVVgTp~lL~~--~--- 717 (1147)
T PRK10689 668 NFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEG-------------------------KIDILIGTHKLLQS--D--- 717 (1147)
T ss_pred HHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhC-------------------------CCCEEEECHHHHhC--C---
Confidence 3332 3457777888888888887777777654 68999999975531 1
Q ss_pred HHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 340 VLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 340 ~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+.++ ++++|||||+|++
T Consensus 718 ----------v~~~---------------~L~lLVIDEahrf 734 (1147)
T PRK10689 718 ----------VKWK---------------DLGLLIVDEEHRF 734 (1147)
T ss_pred ----------CCHh---------------hCCEEEEechhhc
Confidence 1112 7999999999984
No 56
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.40 E-value=7.1e-14 Score=138.52 Aligned_cols=125 Identities=22% Similarity=0.308 Sum_probs=96.5
Q ss_pred CCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH----------------------
Q 042872 201 TLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------- 258 (381)
Q Consensus 201 ~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------- 258 (381)
...||.+-+-.++....-. .||+.|.|+|.++||.+|.|||+|+-|..|+|||.+|.
T Consensus 84 G~efEd~~Lkr~LLmgIfe-~G~ekPSPiQeesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPt 162 (459)
T KOG0326|consen 84 GNEFEDYCLKRELLMGIFE-KGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPT 162 (459)
T ss_pred CccHHHhhhhHHHHHHHHH-hccCCCCCccccccceeecchhhhhhccCCCCCccceechhhhhcCccccceeEEEEeec
Confidence 4567777655555444433 69999999999999999999999999999999999997
Q ss_pred -------HH-HHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccc
Q 042872 259 -------DQ-IITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPER 330 (381)
Q Consensus 259 -------dQ-v~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPEr 330 (381)
.| +..+.+.+|+++.+.+||++..+- ++ .-+..+|++|+||+|
T Consensus 163 relALQtSqvc~~lskh~~i~vmvttGGT~lrDD--I~---------------------------Rl~~~VH~~vgTPGR 213 (459)
T KOG0326|consen 163 RELALQTSQVCKELSKHLGIKVMVTTGGTSLRDD--IM---------------------------RLNQTVHLVVGTPGR 213 (459)
T ss_pred chhhHHHHHHHHHHhcccCeEEEEecCCcccccc--ee---------------------------eecCceEEEEcCChh
Confidence 23 456777788888888888775432 22 122368999999999
Q ss_pred cccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 331 IVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 331 L~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
+++ |..+|...++ .+..+|+|||+-
T Consensus 214 IlD----------L~~KgVa~ls---------------~c~~lV~DEADK 238 (459)
T KOG0326|consen 214 ILD----------LAKKGVADLS---------------DCVILVMDEADK 238 (459)
T ss_pred HHH----------HHhcccccch---------------hceEEEechhhh
Confidence 983 5566655566 899999999984
No 57
>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=99.40 E-value=6.3e-13 Score=145.52 Aligned_cols=45 Identities=24% Similarity=0.101 Sum_probs=37.7
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcCC-CEEEECCCCCCchhhHH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAKQ-DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~Gr-DvLviaPTGsGKTLaF~ 258 (381)
+...+....||+ |+|+|.++|+.++.|+ ++++.+|||+|||++|.
T Consensus 4 f~~ff~~~~G~~-PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~a 49 (844)
T TIGR02621 4 FDEWYQGLHGYS-PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIA 49 (844)
T ss_pred HHHHHHHHhCCC-CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHH
Confidence 344555668998 9999999999999998 67778999999999554
No 58
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.36 E-value=3.3e-13 Score=137.33 Aligned_cols=148 Identities=20% Similarity=0.245 Sum_probs=90.0
Q ss_pred CCCCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH-HHHHHHHh--hcCCcEEEE
Q 042872 199 HGTLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ-DQIITLNL--KFGIPATFL 275 (381)
Q Consensus 199 ~~~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~-dQv~~L~~--~~gI~a~~l 275 (381)
.-.+....++++. .-||..|+|+|+..||.+|.|+|++..+-||||||.||. ..+++|.. ..|+++.++
T Consensus 25 smgL~~~v~raI~--------kkg~~~ptpiqRKTipliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~Ralil 96 (529)
T KOG0337|consen 25 SMGLDYKVLRAIH--------KKGFNTPTPIQRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALIL 96 (529)
T ss_pred ccCCCHHHHHHHH--------HhhcCCCCchhcccccceeeccccceeeecCCcchhhHHHHHHHHHhhccccccceeec
Confidence 3345555554433 379999999999999999999999999999999999998 44555543 346777776
Q ss_pred eCCCCHHHH-HHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccc
Q 042872 276 NSQQTVSQA-AAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKV 354 (381)
Q Consensus 276 ~g~~~~~e~-~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~ 354 (381)
.+..-...| -.+++.+-+|.-+-+.-.+++.-. -......+..++||++||++++.. . -.-.++|+
T Consensus 97 sptreLa~qtlkvvkdlgrgt~lr~s~~~ggD~~--eeqf~~l~~npDii~ATpgr~~h~-~---------vem~l~l~- 163 (529)
T KOG0337|consen 97 SPTRELALQTLKVVKDLGRGTKLRQSLLVGGDSI--EEQFILLNENPDIIIATPGRLLHL-G---------VEMTLTLS- 163 (529)
T ss_pred cCcHHHHHHHHHHHHHhccccchhhhhhcccchH--HHHHHHhccCCCEEEecCceeeee-e---------hheecccc-
Confidence 653222111 122233333321111111110000 000112344689999999999831 1 11124555
Q ss_pred cccccccccccccCCccEEEEeccccC
Q 042872 355 LTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 355 ~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.+.|||+|||+.|
T Consensus 164 --------------sveyVVfdEadrl 176 (529)
T KOG0337|consen 164 --------------SVEYVVFDEADRL 176 (529)
T ss_pred --------------ceeeeeehhhhHH
Confidence 8999999999864
No 59
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.30 E-value=2.5e-12 Score=124.69 Aligned_cols=121 Identities=20% Similarity=0.294 Sum_probs=87.6
Q ss_pred HHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH-------------------------
Q 042872 204 FEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ------------------------- 258 (381)
Q Consensus 204 fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~------------------------- 258 (381)
|..+-+-+++..+.. .-||+.|.++|.+|||.+.-|.|+++.|..|-|||.+|.
T Consensus 44 frdfllkpellraiv-dcgfehpsevqhecipqailgmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrel 122 (387)
T KOG0329|consen 44 FRDFLLKPELLRAIV-DCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTREL 122 (387)
T ss_pred hhhhhcCHHHHHHHH-hccCCCchHhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHH
Confidence 444433333333333 389999999999999999999999999999999999997
Q ss_pred -----HHHHHHHhhc-CCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccc
Q 042872 259 -----DQIITLNLKF-GIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIV 332 (381)
Q Consensus 259 -----dQv~~L~~~~-gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~ 332 (381)
....++.+.+ ++++.++.||.....-...++. .+||+++||+|++
T Consensus 123 afqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~-----------------------------~PhivVgTPGril 173 (387)
T KOG0329|consen 123 AFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKN-----------------------------CPHIVVGTPGRIL 173 (387)
T ss_pred HHHHHHHHHHHHhhCCCceEEEEEcceeccccHHHHhC-----------------------------CCeEEEcCcHHHH
Confidence 1223333222 5677777777654433333322 5899999999997
Q ss_pred cCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccc
Q 042872 333 GNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAH 379 (381)
Q Consensus 333 ~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAH 379 (381)
. |.+.++++|+ +++.+||||++
T Consensus 174 A----------Lvr~k~l~lk---------------~vkhFvlDEcd 195 (387)
T KOG0329|consen 174 A----------LVRNRSLNLK---------------NVKHFVLDECD 195 (387)
T ss_pred H----------HHHhccCchh---------------hcceeehhhHH
Confidence 2 5667788888 99999999986
No 60
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.26 E-value=2.7e-11 Score=130.52 Aligned_cols=100 Identities=23% Similarity=0.317 Sum_probs=82.0
Q ss_pred CCcHHHHHHHHHHHcC---CCEEEECCCCCCchhhHH------------------------HHHHHHHhhcCCcEEEEeC
Q 042872 225 AFRPLQHQACKASVAK---QDCFVLLPTGGGKSLCYQ------------------------DQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~G---rDvLviaPTGsGKTLaF~------------------------dQv~~L~~~~gI~a~~l~g 277 (381)
.+++.|.+|++.++.+ +++++.+|||+|||.+|+ ++...|.+.+|+++..++|
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s 223 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVAVLHS 223 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEEC
Confidence 5889999999999984 789999999999999996 3456676667888889999
Q ss_pred CCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCcccccccc
Q 042872 278 QQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTT 357 (381)
Q Consensus 278 ~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~ 357 (381)
+.+..++...+.++..| .++|||+||..+.. + ++
T Consensus 224 ~~s~~~r~~~~~~~~~g-------------------------~~~IVVgTrsal~~-p----------------~~---- 257 (679)
T PRK05580 224 GLSDGERLDEWRKAKRG-------------------------EAKVVIGARSALFL-P----------------FK---- 257 (679)
T ss_pred CCCHHHHHHHHHHHHcC-------------------------CCCEEEeccHHhcc-c----------------cc----
Confidence 98888887777777654 68999999988751 0 11
Q ss_pred ccccccccccCCccEEEEeccccC
Q 042872 358 DVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 358 ~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
++++|||||+|+.
T Consensus 258 -----------~l~liVvDEeh~~ 270 (679)
T PRK05580 258 -----------NLGLIIVDEEHDS 270 (679)
T ss_pred -----------CCCEEEEECCCcc
Confidence 8999999999963
No 61
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.21 E-value=2.5e-11 Score=132.52 Aligned_cols=104 Identities=20% Similarity=0.316 Sum_probs=71.2
Q ss_pred hCCCCCcHHHHHHHHHHHc-CCCEEEECCCCCCchhhHH-------------------------HHHHHHH--hhcCCcE
Q 042872 221 FGNRAFRPLQHQACKASVA-KQDCFVLLPTGGGKSLCYQ-------------------------DQIITLN--LKFGIPA 272 (381)
Q Consensus 221 fG~~~fRpiQ~eAI~aiL~-GrDvLviaPTGsGKTLaF~-------------------------dQv~~L~--~~~gI~a 272 (381)
.|+.+..|.|++++...+. ++|+|+++|||+|||+++. +.+.++. +.+|+++
T Consensus 27 ~~~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV 106 (766)
T COG1204 27 DGIDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRV 106 (766)
T ss_pred CChHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEE
Confidence 5676777888888888765 5999999999999999886 2223333 2566666
Q ss_pred EEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccc
Q 042872 273 TFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRL 352 (381)
Q Consensus 273 ~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l 352 (381)
...+|+..... ..-.+++|||+|||++-+ +.++...
T Consensus 107 ~~~TgD~~~~~--------------------------------~~l~~~~ViVtT~EK~Ds----------l~R~~~~-- 142 (766)
T COG1204 107 GISTGDYDLDD--------------------------------ERLARYDVIVTTPEKLDS----------LTRKRPS-- 142 (766)
T ss_pred EEecCCcccch--------------------------------hhhccCCEEEEchHHhhH----------hhhcCcc--
Confidence 66666654221 111268999999999952 1111111
Q ss_pred cccccccccccccccCCccEEEEeccccC
Q 042872 353 KVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 353 ~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+.+.+++|||||+|.|
T Consensus 143 -------------~~~~V~lvViDEiH~l 158 (766)
T COG1204 143 -------------WIEEVDLVVIDEIHLL 158 (766)
T ss_pred -------------hhhcccEEEEeeeeec
Confidence 2238999999999975
No 62
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=99.21 E-value=1.7e-11 Score=123.39 Aligned_cols=124 Identities=18% Similarity=0.274 Sum_probs=89.8
Q ss_pred CHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH------------------------
Q 042872 203 SFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ------------------------ 258 (381)
Q Consensus 203 ~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~------------------------ 258 (381)
+|+.+++-++++.-. -.+||++|+.+|+.||..+..|.|+++.+++|+|||.+|.
T Consensus 27 sfddm~L~e~LLrgi-y~yGFekPSaIQqraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtre 105 (397)
T KOG0327|consen 27 SFDDMNLKESLLRGI-YAYGFEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRE 105 (397)
T ss_pred hhhhcCCCHHHHhHH-HhhccCCchHHHhccccccccCCceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHH
Confidence 677776555444433 3489999999999999999999999999999999999997
Q ss_pred ------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccc
Q 042872 259 ------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIV 332 (381)
Q Consensus 259 ------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~ 332 (381)
..++.++...++++..+.|+.........+... .++|++.||+|+.
T Consensus 106 La~qi~~v~~~lg~~~~~~v~~~igg~~~~~~~~~i~~~----------------------------~~hivvGTpgrV~ 157 (397)
T KOG0327|consen 106 LAQQIQKVVRALGDHMDVSVHACIGGTNVRREDQALLKD----------------------------KPHIVVGTPGRVF 157 (397)
T ss_pred HHHHHHHHHHhhhcccceeeeeecCcccchhhhhhhhcc----------------------------CceeecCCchhHH
Confidence 112344444567777777776655443333331 4799999999997
Q ss_pred cCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 333 GNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 333 ~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
. +..++++..+ .++++|+|||+-
T Consensus 158 d----------ml~~~~l~~~---------------~iKmfvlDEaDE 180 (397)
T KOG0327|consen 158 D----------MLNRGSLSTD---------------GIKMFVLDEADE 180 (397)
T ss_pred H----------hhcccccccc---------------ceeEEeecchHh
Confidence 3 2233344444 799999999974
No 63
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.16 E-value=1.7e-10 Score=126.17 Aligned_cols=120 Identities=18% Similarity=0.179 Sum_probs=85.5
Q ss_pred chHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHH
Q 042872 210 LDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQII 262 (381)
Q Consensus 210 l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~ 262 (381)
+.-+..++.+.+|+ .|+++|..+++.++.|+ |+.|+||+|||++|. +.+.
T Consensus 64 fA~vrea~~R~~g~-~p~~vQl~~~~~l~~G~--Iaem~TGeGKTL~a~lp~~l~al~G~~v~VvTpt~~LA~qd~e~~~ 140 (790)
T PRK09200 64 FAVVREAAKRVLGM-RPYDVQLIGALVLHEGN--IAEMQTGEGKTLTATMPLYLNALEGKGVHLITVNDYLAKRDAEEMG 140 (790)
T ss_pred HHHHHHHHHHHhCC-CCchHHHHhHHHHcCCc--eeeecCCCcchHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHH
Confidence 33355677788999 79999999999999887 999999999999997 3455
Q ss_pred HHHhhcCCcEEEEeCCCC-HHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHH
Q 042872 263 TLNLKFGIPATFLNSQQT-VSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVL 341 (381)
Q Consensus 263 ~L~~~~gI~a~~l~g~~~-~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L 341 (381)
.+...+|+++.++.|+.+ ..+++.. . .++|+|+||+++.- ..++..+
T Consensus 141 ~l~~~lGl~v~~i~g~~~~~~~r~~~----y---------------------------~~dIvygT~~~l~f-DyLrd~~ 188 (790)
T PRK09200 141 QVYEFLGLTVGLNFSDIDDASEKKAI----Y---------------------------EADIIYTTNSELGF-DYLRDNL 188 (790)
T ss_pred HHHhhcCCeEEEEeCCCCcHHHHHHh----c---------------------------CCCEEEECCccccc-hhHHhcc
Confidence 666677899998888887 4443211 1 57999999999941 1111111
Q ss_pred HHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 342 KCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 342 ~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.. .. ...+++.+.++||||||.|
T Consensus 189 ~~--~~---------------~~~~~r~~~~~IvDEaDsi 211 (790)
T PRK09200 189 AD--SK---------------EDKVQRPLNYAIIDEIDSI 211 (790)
T ss_pred cc--ch---------------hhhcccccceEEEeccccc
Confidence 00 00 0123348999999999986
No 64
>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=99.15 E-value=1.3e-10 Score=126.50 Aligned_cols=43 Identities=28% Similarity=0.295 Sum_probs=31.0
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
+..+..+.+|+ +|+|.+++..+..++..++.|+||+|||+||.
T Consensus 59 vrEa~~R~lgl---rpydVQlig~l~l~~G~Iaem~TGeGKTLta~ 101 (762)
T TIGR03714 59 VREADKRVLGM---FPYDVQVLGAIVLHQGNIAEMKTGEGKTLTAT 101 (762)
T ss_pred HHHHHHhhcCC---CccHHHHHHHHHhcCCceeEecCCcchHHHHH
Confidence 45566677887 34455555555545557999999999999998
No 65
>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=99.15 E-value=1.7e-10 Score=125.23 Aligned_cols=121 Identities=16% Similarity=0.160 Sum_probs=84.3
Q ss_pred hchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHH
Q 042872 209 ALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQI 261 (381)
Q Consensus 209 ~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv 261 (381)
++.-+..+..+.+|+ .|+++|..+.+.++.|+ |+.|+||+|||++|. +++
T Consensus 41 afA~vrEa~~R~lg~-~p~~vQlig~~~l~~G~--Iaem~TGeGKTLva~lpa~l~aL~G~~V~VvTpt~~LA~qdae~~ 117 (745)
T TIGR00963 41 AFAVVREASKRVLGM-RPFDVQLIGGIALHKGK--IAEMKTGEGKTLTATLPAYLNALTGKGVHVVTVNDYLAQRDAEWM 117 (745)
T ss_pred HHHHHHHHHHHHhCC-CccchHHhhhhhhcCCc--eeeecCCCccHHHHHHHHHHHHHhCCCEEEEcCCHHHHHHHHHHH
Confidence 344466678888999 58899999999998887 999999999999987 445
Q ss_pred HHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHH
Q 042872 262 ITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVL 341 (381)
Q Consensus 262 ~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L 341 (381)
..+...+|+++.+++|+.+..++.... .++|+|+||.+|.- ..++..+
T Consensus 118 ~~l~~~LGLsv~~i~g~~~~~~r~~~y-------------------------------~~dIvyGT~~rlgf-DyLrd~~ 165 (745)
T TIGR00963 118 GQVYRFLGLSVGLILSGMSPEERREAY-------------------------------ACDITYGTNNELGF-DYLRDNM 165 (745)
T ss_pred HHHhccCCCeEEEEeCCCCHHHHHHhc-------------------------------CCCEEEECCCchhh-HHHhccc
Confidence 566656788888888887765432221 47899999999930 1111110
Q ss_pred HHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 342 KCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 342 ~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
. + . .+.+ .++.+.++||||||.|
T Consensus 166 ~---------~--~-~~~~-----~~r~l~~aIIDEaDs~ 188 (745)
T TIGR00963 166 A---------H--S-KEEK-----VQRPFHFAIIDEVDSI 188 (745)
T ss_pred c---------c--c-hhhh-----hccccceeEeecHHHH
Confidence 0 0 0 0011 2238999999999975
No 66
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.14 E-value=2e-10 Score=119.33 Aligned_cols=122 Identities=15% Similarity=0.114 Sum_probs=73.6
Q ss_pred CCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhh
Q 042872 224 RAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFL 303 (381)
Q Consensus 224 ~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~ 303 (381)
-.||++|.+|++.++.+++.++.+|||+|||+++..-...+......+++++... .+-..+..+.++.=.+..
T Consensus 113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt--~eL~~Q~~~~l~~~~~~~----- 185 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPT--TSLVTQMIDDFVDYRLFP----- 185 (501)
T ss_pred CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECc--HHHHHHHHHHHHHhcccc-----
Confidence 4799999999999999999999999999999987532222222334477777653 222222333332100000
Q ss_pred hhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 304 HQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 304 ~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
...+ ..-..+.......+|+|+||+++...+ .. .++ .+++|||||||++
T Consensus 186 ~~~~-~~i~~g~~~~~~~~I~VaT~qsl~~~~--~~-----------~~~---------------~~~~iIvDEaH~~ 234 (501)
T PHA02558 186 REAM-HKIYSGTAKDTDAPIVVSTWQSAVKQP--KE-----------WFD---------------QFGMVIVDECHLF 234 (501)
T ss_pred ccce-eEEecCcccCCCCCEEEeeHHHHhhch--hh-----------hcc---------------ccCEEEEEchhcc
Confidence 0000 000112223345789999999986321 00 011 7899999999975
No 67
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.14 E-value=2.4e-10 Score=98.19 Aligned_cols=38 Identities=37% Similarity=0.622 Sum_probs=35.6
Q ss_pred hCCCCCcHHHHHHHHHHHcC-CCEEEECCCCCCchhhHH
Q 042872 221 FGNRAFRPLQHQACKASVAK-QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 221 fG~~~fRpiQ~eAI~aiL~G-rDvLviaPTGsGKTLaF~ 258 (381)
+++..++++|.+++..++.+ +.+++.+|||+|||.++.
T Consensus 4 ~~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~ 42 (201)
T smart00487 4 FGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAAL 42 (201)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHH
Confidence 67889999999999999999 999999999999999776
No 68
>PRK13766 Hef nuclease; Provisional
Probab=99.12 E-value=2.5e-10 Score=123.53 Aligned_cols=52 Identities=27% Similarity=0.218 Sum_probs=37.8
Q ss_pred CCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 225 AFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
++|++|.+++..++.+ |+|+++|||+|||++|+--+..+....+-+++++..
T Consensus 15 ~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~P 66 (773)
T PRK13766 15 EARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAP 66 (773)
T ss_pred CccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeC
Confidence 6899999999999887 999999999999998862222221123445555554
No 69
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.08 E-value=6.6e-10 Score=119.51 Aligned_cols=136 Identities=21% Similarity=0.207 Sum_probs=86.5
Q ss_pred hHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHHH
Q 042872 211 DDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQIIT 263 (381)
Q Consensus 211 ~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~~ 263 (381)
.-+..+..+.+|.. |+|+|..+++.++.|+ |+.|+||+|||++|. +.+..
T Consensus 90 A~~rEa~~R~lg~~-p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~G~~v~VvTptreLA~qdae~~~~ 166 (656)
T PRK12898 90 ALVREASGRVLGQR-HFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALAGLPVHVITVNDYLAERDAELMRP 166 (656)
T ss_pred HHHHHHHHHHhCCC-CChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhcCCeEEEEcCcHHHHHHHHHHHHH
Confidence 33555677789994 7799999999999999 999999999999998 44566
Q ss_pred HHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHH
Q 042872 264 LNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKC 343 (381)
Q Consensus 264 L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~ 343 (381)
+...+|+++.+++|+++..+++.. ..++|+|+|...+.- ..++..+..
T Consensus 167 l~~~lGlsv~~i~gg~~~~~r~~~-------------------------------y~~dIvygT~~e~~F-DyLrd~~~~ 214 (656)
T PRK12898 167 LYEALGLTVGCVVEDQSPDERRAA-------------------------------YGADITYCTNKELVF-DYLRDRLAL 214 (656)
T ss_pred HHhhcCCEEEEEeCCCCHHHHHHH-------------------------------cCCCEEEECCCchhh-hhccccccc
Confidence 665679999999988765432211 157999999888741 111211110
Q ss_pred HHhcCC--ccccccccccccccccccCCccEEEEeccccC
Q 042872 344 LHRKGS--IRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 344 L~~~g~--~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
-...+. ..+..|.+..--.....++.+.+.|||||+.|
T Consensus 215 ~~~~~~~~~~~~~l~~~~~~~~~~v~r~~~~aIvDEvDSi 254 (656)
T PRK12898 215 GQRASDARLALESLHGRSSRSTQLLLRGLHFAIVDEADSV 254 (656)
T ss_pred cccccchhhhhhhhccccCchhhhcccccceeEeecccce
Confidence 000000 00001111000112234568999999999975
No 70
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.08 E-value=1.5e-10 Score=127.51 Aligned_cols=40 Identities=20% Similarity=0.406 Sum_probs=36.4
Q ss_pred HHhCCCCCcHHHHHHHHHHHc-CCCEEEECCCCCCchhhHH
Q 042872 219 VIFGNRAFRPLQHQACKASVA-KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 219 ~~fG~~~fRpiQ~eAI~aiL~-GrDvLviaPTGsGKTLaF~ 258 (381)
..|+|++|..+|.++.|.+.. +.+.|++||||+|||.+|.
T Consensus 104 ~~f~f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~ 144 (1230)
T KOG0952|consen 104 GFFSFEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAE 144 (1230)
T ss_pred hcccHHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHH
Confidence 458999999999999999985 5799999999999998887
No 71
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.01 E-value=4.4e-10 Score=118.06 Aligned_cols=128 Identities=32% Similarity=0.405 Sum_probs=82.0
Q ss_pred HHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH-HHHHHHHh------hcCCcEEEEeCCCCHHHHHHHHHHH
Q 042872 219 VIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ-DQIITLNL------KFGIPATFLNSQQTVSQAAAVLQEL 291 (381)
Q Consensus 219 ~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~-dQv~~L~~------~~gI~a~~l~g~~~~~e~~~il~~l 291 (381)
...||..|+|+|.+|||.++.++|+|+++|||+|||++|. .-+..|.. +-|+.++++.. ...-..++.+..
T Consensus 152 ~~~~F~~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~p--treLa~Qi~re~ 229 (593)
T KOG0344|consen 152 QELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSP--TRELAAQIYREM 229 (593)
T ss_pred hhCCCCCCCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecc--hHHHHHHHHHHH
Confidence 3489999999999999999999999999999999999998 22333332 34677777654 344333444433
Q ss_pred Hhchhhhhhhhhhhhhhhhhhc------------ccCCCCCccEEEECccccccCcchHHHHHHHHhcCC--cccccccc
Q 042872 292 RQGLVLSQHYFLHQLIFVLTCA------------SRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGS--IRLKVLTT 357 (381)
Q Consensus 292 r~g~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~--~~l~~~~~ 357 (381)
+ .+.+........+ .......+++++.||-++.. +...++ +.|.
T Consensus 230 ~--------k~~~~~~t~~~a~~~~~~~~~~qk~a~~~~~k~dili~TP~ri~~----------~~~~~~~~idl~---- 287 (593)
T KOG0344|consen 230 R--------KYSIDEGTSLRAAQFSKPAYPSQKPAFLSDEKYDILISTPMRIVG----------LLGLGKLNIDLS---- 287 (593)
T ss_pred H--------hcCCCCCCchhhhhcccccchhhccchhHHHHHHHHhcCHHHHHH----------HhcCCCccchhh----
Confidence 2 1111111110000 01122368999999999762 222333 3444
Q ss_pred ccccccccccCCccEEEEeccccC
Q 042872 358 DVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 358 ~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.|.++|+|||+.+
T Consensus 288 -----------~V~~lV~dEaD~l 300 (593)
T KOG0344|consen 288 -----------KVEWLVVDEADLL 300 (593)
T ss_pred -----------eeeeEeechHHhh
Confidence 8999999999864
No 72
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.98 E-value=1.9e-09 Score=118.80 Aligned_cols=116 Identities=16% Similarity=0.223 Sum_probs=83.3
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHHHHH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQIITLN 265 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~~L~ 265 (381)
+..+..+.+|.. +.++|.-.--++..|+ |+.|+||+|||++|. +++..+.
T Consensus 71 vrEa~~R~lg~~-~ydvQliGg~~Lh~G~--Iaem~TGeGKTL~a~Lpa~~~al~G~~V~VvTpn~yLA~qd~e~m~~l~ 147 (896)
T PRK13104 71 VREVSLRTLGLR-HFDVQLIGGMVLHEGN--IAEMRTGEGKTLVATLPAYLNAISGRGVHIVTVNDYLAKRDSQWMKPIY 147 (896)
T ss_pred HHHHHHHHcCCC-cchHHHhhhhhhccCc--cccccCCCCchHHHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHHh
Confidence 555677789985 6699988887777776 999999999999997 4556666
Q ss_pred hhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECcccc-ccCcchHHHHHHH
Q 042872 266 LKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERI-VGNQSFSEVLKCL 344 (381)
Q Consensus 266 ~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL-~~~~~f~~~L~~L 344 (381)
..+|+++.++.|+.+..++.... .++|+|+||++| ++ .|+
T Consensus 148 ~~lGLtv~~i~gg~~~~~r~~~y-------------------------------~~dIvygT~grlgfD------yLr-- 188 (896)
T PRK13104 148 EFLGLTVGVIYPDMSHKEKQEAY-------------------------------KADIVYGTNNEYGFD------YLR-- 188 (896)
T ss_pred cccCceEEEEeCCCCHHHHHHHh-------------------------------CCCEEEECChhhhHH------HHh--
Confidence 66788888888887766542222 479999999998 31 111
Q ss_pred HhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 345 HRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 345 ~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.+ +.+ .+...+|+.+.++||||||.|
T Consensus 189 --d~-~~~--------~~~~~v~r~l~~~IvDEaDsi 214 (896)
T PRK13104 189 --DN-MAF--------SLTDKVQRELNFAIVDEVDSI 214 (896)
T ss_pred --cC-Ccc--------chHhhhccccceEEeccHhhh
Confidence 11 000 122335668999999999975
No 73
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.95 E-value=1.5e-09 Score=112.78 Aligned_cols=103 Identities=24% Similarity=0.334 Sum_probs=81.3
Q ss_pred CCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH-------------------------HHHHHHHhhcCCc---EE
Q 042872 222 GNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ-------------------------DQIITLNLKFGIP---AT 273 (381)
Q Consensus 222 G~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~-------------------------dQv~~L~~~~gI~---a~ 273 (381)
+.-++|.+|......++.+ ++|+++|||-|||++.+ .+...+.+-+|++ ++
T Consensus 12 ~~ie~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~ 90 (542)
T COG1111 12 NTIEPRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIA 90 (542)
T ss_pred ccccHHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhhee
Confidence 4447999999999999886 99999999999998866 4566666666774 56
Q ss_pred EEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCcccc
Q 042872 274 FLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLK 353 (381)
Q Consensus 274 ~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~ 353 (381)
.++|....++|...+.. -+|+|+||..+.+ + | ..|-++++
T Consensus 91 ~ltGev~p~~R~~~w~~------------------------------~kVfvaTPQvveN--D-------l-~~Grid~~ 130 (542)
T COG1111 91 ALTGEVRPEEREELWAK------------------------------KKVFVATPQVVEN--D-------L-KAGRIDLD 130 (542)
T ss_pred eecCCCChHHHHHHHhh------------------------------CCEEEeccHHHHh--H-------H-hcCccChH
Confidence 88888888887776654 4699999999974 1 1 24556666
Q ss_pred ccccccccccccccCCccEEEEecccc
Q 042872 354 VLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 354 ~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
.+.++|+||||+
T Consensus 131 ---------------dv~~lifDEAHR 142 (542)
T COG1111 131 ---------------DVSLLIFDEAHR 142 (542)
T ss_pred ---------------HceEEEechhhh
Confidence 899999999996
No 74
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=98.94 E-value=1.2e-09 Score=118.03 Aligned_cols=55 Identities=18% Similarity=0.291 Sum_probs=41.3
Q ss_pred CCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHH-HHHHHhhcCCcEEEEeCCCC
Q 042872 225 AFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQ-IITLNLKFGIPATFLNSQQT 280 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQ-v~~L~~~~gI~a~~l~g~~~ 280 (381)
.+|++|.+.+..+| |+++|+++|||+|||.+.+-- ...|...-.-+++++....+
T Consensus 62 ~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~p 117 (746)
T KOG0354|consen 62 ELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRP 117 (746)
T ss_pred cccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCch
Confidence 68999999999999 999999999999999887622 23333223456666665544
No 75
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=98.94 E-value=4.2e-09 Score=105.24 Aligned_cols=30 Identities=33% Similarity=0.446 Sum_probs=27.3
Q ss_pred HHHHHHHHHHcCCC--EEEECCCCCCchhhHH
Q 042872 229 LQHQACKASVAKQD--CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 229 iQ~eAI~aiL~GrD--vLviaPTGsGKTLaF~ 258 (381)
+|.++++++.++++ +++.+|||+|||+||+
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~ 32 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWL 32 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHH
Confidence 49999999999875 7889999999999996
No 76
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=98.88 E-value=8.2e-10 Score=113.44 Aligned_cols=55 Identities=22% Similarity=0.273 Sum_probs=49.0
Q ss_pred CHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 203 SFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 203 ~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
.|+++..++++..+-.+ +.+.-||.+|.|+||.||.|-|||..|.||||||-+|.
T Consensus 3 af~e~gv~pel~~a~~e-~dw~lptdvqaeaiplilgggdvlmaaetgsgktgaf~ 57 (725)
T KOG0349|consen 3 AFEEFGVLPELGMATDE-LDWTLPTDVQAEAIPLILGGGDVLMAAETGSGKTGAFC 57 (725)
T ss_pred chHhhCcchHhhhhhhh-hccccccccccccccEEecCCcEEEEeccCCCCcccee
Confidence 47888888887777655 78889999999999999999999999999999998885
No 77
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=98.88 E-value=1.8e-09 Score=124.46 Aligned_cols=38 Identities=26% Similarity=0.451 Sum_probs=26.1
Q ss_pred CccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 320 SCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 320 ~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.++|||+|||+|.. +|. .+....|+ +|.+|||||+|++
T Consensus 99 ppdILVTTPEsL~~------LLt---sk~r~~L~---------------~Vr~VIVDE~H~L 136 (1490)
T PRK09751 99 PPDILITTPESLYL------MLT---SRARETLR---------------GVETVIIDEVHAV 136 (1490)
T ss_pred CCCEEEecHHHHHH------HHh---hhhhhhhc---------------cCCEEEEecHHHh
Confidence 58999999999962 111 11111223 8999999999975
No 78
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.86 E-value=7.6e-09 Score=115.46 Aligned_cols=125 Identities=21% Similarity=0.259 Sum_probs=82.7
Q ss_pred HhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhh
Q 042872 220 IFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQ 299 (381)
Q Consensus 220 ~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~ 299 (381)
.+||+ +-++|++||-.+..|..|||+||||+|||++. +-...+...-|-+++...+ ++++.++++...
T Consensus 115 ~~~F~-LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVa-eyAi~~al~~~qrviYTsP----------IKALsNQKyrdl 182 (1041)
T COG4581 115 EYPFE-LDPFQQEAIAILERGESVLVCAPTSSGKTVVA-EYAIALALRDGQRVIYTSP----------IKALSNQKYRDL 182 (1041)
T ss_pred hCCCC-cCHHHHHHHHHHhCCCcEEEEccCCCCcchHH-HHHHHHHHHcCCceEeccc----------hhhhhhhHHHHH
Confidence 37884 66999999999999999999999999999886 2333333344556444333 444444443333
Q ss_pred hhhhh--hhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEec
Q 042872 300 HYFLH--QLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDE 377 (381)
Q Consensus 300 ~~~~~--~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDE 377 (381)
...+. ....++-.....-+++..++|+|.|.|.+ |.-+|+..+ +.+.+||+||
T Consensus 183 ~~~fgdv~~~vGL~TGDv~IN~~A~clvMTTEILRn----------Mlyrg~~~~---------------~~i~~ViFDE 237 (1041)
T COG4581 183 LAKFGDVADMVGLMTGDVSINPDAPCLVMTTEILRN----------MLYRGSESL---------------RDIEWVVFDE 237 (1041)
T ss_pred HHHhhhhhhhccceecceeeCCCCceEEeeHHHHHH----------HhccCcccc---------------cccceEEEEe
Confidence 22222 22234444566778889999999888762 222332232 3899999999
Q ss_pred cccC
Q 042872 378 AHCV 381 (381)
Q Consensus 378 AHcI 381 (381)
+|||
T Consensus 238 vHyi 241 (1041)
T COG4581 238 VHYI 241 (1041)
T ss_pred eeec
Confidence 9997
No 79
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.86 E-value=9.8e-09 Score=112.83 Aligned_cols=117 Identities=18% Similarity=0.171 Sum_probs=84.9
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHHHHH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQIITLN 265 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~~L~ 265 (381)
+..+..+.+|+ .|+++|.-..-++..|+ |+.|+||+|||++|. +++..+.
T Consensus 70 vrEa~~R~lg~-~~~dvQlig~l~L~~G~--Iaem~TGeGKTLva~lpa~l~aL~G~~V~IvTpn~yLA~rd~e~~~~l~ 146 (830)
T PRK12904 70 VREASKRVLGM-RHFDVQLIGGMVLHEGK--IAEMKTGEGKTLVATLPAYLNALTGKGVHVVTVNDYLAKRDAEWMGPLY 146 (830)
T ss_pred HHHHHHHHhCC-CCCccHHHhhHHhcCCc--hhhhhcCCCcHHHHHHHHHHHHHcCCCEEEEecCHHHHHHHHHHHHHHH
Confidence 55677788999 57799999988888886 999999999999987 4566666
Q ss_pred hhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHH
Q 042872 266 LKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLH 345 (381)
Q Consensus 266 ~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~ 345 (381)
..+|+++.+++|+++..++.... .++|+|+||.+|.- . .|+.
T Consensus 147 ~~LGlsv~~i~~~~~~~er~~~y-------------------------------~~dI~ygT~~elgf-D----yLrd-- 188 (830)
T PRK12904 147 EFLGLSVGVILSGMSPEERREAY-------------------------------AADITYGTNNEFGF-D----YLRD-- 188 (830)
T ss_pred hhcCCeEEEEcCCCCHHHHHHhc-------------------------------CCCeEEECCcchhh-h----hhhc--
Confidence 67799999999888877654443 47899999999931 1 1111
Q ss_pred hcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 346 RKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 346 ~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+ +.. -.....++.+.++|||||+.|
T Consensus 189 --~-~~~--------~~~~~~~r~~~~aIvDEaDsi 213 (830)
T PRK12904 189 --N-MVF--------SLEERVQRGLNYAIVDEVDSI 213 (830)
T ss_pred --c-ccc--------chhhhcccccceEEEechhhh
Confidence 0 000 011123458999999999975
No 80
>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=98.82 E-value=8.1e-09 Score=89.64 Aligned_cols=50 Identities=22% Similarity=0.383 Sum_probs=39.6
Q ss_pred CCcHHHHHHHHHHHc-------CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 225 AFRPLQHQACKASVA-------KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~-------GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
++||+|.+|+..++. .+.+++.+|||+|||.++..-+..+.. +++++...
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~----~~l~~~p~ 59 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR----KVLIVAPN 59 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC----EEEEEESS
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc----ceeEecCH
Confidence 578999999999984 689999999999999998754555542 77777654
No 81
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.80 E-value=1e-08 Score=108.32 Aligned_cols=39 Identities=26% Similarity=0.313 Sum_probs=35.7
Q ss_pred HhCCCCCcHHHHHHHHHH-HcCCCEEEECCCCCCchhhHH
Q 042872 220 IFGNRAFRPLQHQACKAS-VAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 220 ~fG~~~fRpiQ~eAI~ai-L~GrDvLviaPTGsGKTLaF~ 258 (381)
..|++.++|+|.-|+.+- |.|+|.||+.+|+|||||+--
T Consensus 211 ~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgE 250 (830)
T COG1202 211 REGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGE 250 (830)
T ss_pred hcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHH
Confidence 379999999999999995 689999999999999999864
No 82
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.77 E-value=1.5e-08 Score=106.20 Aligned_cols=81 Identities=22% Similarity=0.339 Sum_probs=64.1
Q ss_pred EEECCCCCCchhhHH------------------------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhh
Q 042872 244 FVLLPTGGGKSLCYQ------------------------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQ 299 (381)
Q Consensus 244 LviaPTGsGKTLaF~------------------------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~ 299 (381)
|+.+|||+|||.+|+ ++...|.+.++.++.+++|+.+..++...+..+.+|
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g----- 75 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNG----- 75 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcC-----
Confidence 467899999999987 345677767888888999998888888888777655
Q ss_pred hhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccc
Q 042872 300 HYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAH 379 (381)
Q Consensus 300 ~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAH 379 (381)
.++|||+|+..+.. + + .++++|||||+|
T Consensus 76 --------------------~~~IVVGTrsalf~-p----------------~---------------~~l~lIIVDEeh 103 (505)
T TIGR00595 76 --------------------EILVVIGTRSALFL-P----------------F---------------KNLGLIIVDEEH 103 (505)
T ss_pred --------------------CCCEEECChHHHcC-c----------------c---------------cCCCEEEEECCC
Confidence 67899999887651 0 1 189999999999
Q ss_pred cC
Q 042872 380 CV 381 (381)
Q Consensus 380 cI 381 (381)
+.
T Consensus 104 ~~ 105 (505)
T TIGR00595 104 DS 105 (505)
T ss_pred cc
Confidence 73
No 83
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.73 E-value=2.1e-08 Score=103.31 Aligned_cols=49 Identities=31% Similarity=0.485 Sum_probs=39.8
Q ss_pred CCcHHHHHHHHHHHc----CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 225 AFRPLQHQACKASVA----KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~----GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
.+||+|++|+.++.. ++..++++|||+|||++++.-+..+. -++.++..
T Consensus 36 ~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~----~~~Lvlv~ 88 (442)
T COG1061 36 ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK----RSTLVLVP 88 (442)
T ss_pred CCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc----CCEEEEEC
Confidence 689999999999998 89999999999999999974444443 34666654
No 84
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.72 E-value=1.1e-08 Score=103.52 Aligned_cols=56 Identities=21% Similarity=0.214 Sum_probs=48.9
Q ss_pred CCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcC--CCEEEECCCCCCchhhHH
Q 042872 202 LSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAK--QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 202 ~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~G--rDvLviaPTGsGKTLaF~ 258 (381)
-+|++|++-+++...+-. ++|..|+.+|..|+|.+|.. ++.|+.+..|+|||.||.
T Consensus 90 ksFeeL~LkPellkgly~-M~F~kPskIQe~aLPlll~~Pp~nlIaQsqsGtGKTaaFv 147 (477)
T KOG0332|consen 90 KSFEELRLKPELLKGLYA-MKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFV 147 (477)
T ss_pred ccHHhhCCCHHHHhHHHH-hccCCcchHHHhhcchhhcCCchhhhhhhcCCCchhHHHH
Confidence 368888877777666644 89999999999999999986 899999999999999997
No 85
>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=98.67 E-value=7.9e-08 Score=77.80 Aligned_cols=37 Identities=30% Similarity=0.343 Sum_probs=23.9
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhh-cCCcEEEEeC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLK-FGIPATFLNS 277 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~-~gI~a~~l~g 277 (381)
+.+++.+|||+|||.++...+..+... ..-+++++..
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p 38 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAP 38 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcC
Confidence 468999999999998887444443321 2235555544
No 86
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.66 E-value=7.1e-08 Score=106.61 Aligned_cols=117 Identities=17% Similarity=0.139 Sum_probs=79.5
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHHHHH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQIITLN 265 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~~L~ 265 (381)
+..++.+.+|+. ++++|.-.--.+..|+ |+.|+||.|||++|. +++..+.
T Consensus 71 vrEaa~R~lgm~-~ydVQliGgl~L~~G~--IaEm~TGEGKTL~a~lp~~l~al~g~~VhIvT~ndyLA~RD~e~m~~l~ 147 (908)
T PRK13107 71 VREASKRVFEMR-HFDVQLLGGMVLDSNR--IAEMRTGEGKTLTATLPAYLNALTGKGVHVITVNDYLARRDAENNRPLF 147 (908)
T ss_pred HHHHHHHHhCCC-cCchHHhcchHhcCCc--cccccCCCCchHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHHH
Confidence 556777889994 7799998877777776 999999999999997 4455565
Q ss_pred hhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHH
Q 042872 266 LKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLH 345 (381)
Q Consensus 266 ~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~ 345 (381)
..+|+++.++.++++..++.. .-.++|+|+||.+|.- . .|+.
T Consensus 148 ~~lGlsv~~i~~~~~~~~r~~-------------------------------~Y~~dI~YgT~~e~gf-D----yLrd-- 189 (908)
T PRK13107 148 EFLGLTVGINVAGLGQQEKKA-------------------------------AYNADITYGTNNEFGF-D----YLRD-- 189 (908)
T ss_pred HhcCCeEEEecCCCCHHHHHh-------------------------------cCCCCeEEeCCCcccc-h----hhhc--
Confidence 567787777777766433211 1157999999999930 1 1211
Q ss_pred hcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 346 RKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 346 ~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+ +.++ .....|+.+.++|||||+.|
T Consensus 190 --n-m~~~--------~~~~vqr~~~~aIvDEvDsi 214 (908)
T PRK13107 190 --N-MAFS--------PQERVQRPLHYALIDEVDSI 214 (908)
T ss_pred --c-Cccc--------hhhhhccccceeeecchhhh
Confidence 0 0000 11234568999999999865
No 87
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=98.63 E-value=8.1e-08 Score=94.32 Aligned_cols=36 Identities=14% Similarity=-0.038 Sum_probs=23.5
Q ss_pred CEEEECCCCCCchhhHHHHH-HHHHhhcCCcEEEEeC
Q 042872 242 DCFVLLPTGGGKSLCYQDQI-ITLNLKFGIPATFLNS 277 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv-~~L~~~~gI~a~~l~g 277 (381)
|+++.+|||+|||++|+-.+ ..+....+-+++++.+
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P 37 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALP 37 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEee
Confidence 68999999999999997332 2222223345655544
No 88
>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=98.56 E-value=2.3e-07 Score=101.28 Aligned_cols=50 Identities=24% Similarity=0.339 Sum_probs=37.9
Q ss_pred CCcHHHHHHHHHHHc-C--CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 225 AFRPLQHQACKASVA-K--QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~-G--rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
.+||+|.+|+..++. | +..++++|||+|||++.+.-+.. .+-++++++..
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~----l~k~tLILvps 307 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACT----VKKSCLVLCTS 307 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHH----hCCCEEEEeCc
Confidence 589999999999884 4 47899999999999998633332 34567676653
No 89
>PHA02653 RNA helicase NPH-II; Provisional
Probab=98.51 E-value=2e-07 Score=101.10 Aligned_cols=30 Identities=20% Similarity=0.179 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHcCCCEEEECCCCCCchhhH
Q 042872 228 PLQHQACKASVAKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 228 piQ~eAI~aiL~GrDvLviaPTGsGKTLaF 257 (381)
.+|.++++.++.|+|+++.|+||+|||.++
T Consensus 167 ~iQ~qil~~i~~gkdvIv~A~TGSGKTtqv 196 (675)
T PHA02653 167 DVQLKIFEAWISRKPVVLTGGTGVGKTSQV 196 (675)
T ss_pred HHHHHHHHHHHhCCCEEEECCCCCCchhHH
Confidence 589999999999999999999999999873
No 90
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=98.44 E-value=9.6e-07 Score=97.61 Aligned_cols=123 Identities=19% Similarity=0.194 Sum_probs=80.3
Q ss_pred HhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhh
Q 042872 220 IFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQ 299 (381)
Q Consensus 220 ~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~ 299 (381)
.|+| ++-++|++||-++..|..|+|.|+|.+|||++. +-...|..+.+.+++.... +++|.+.++.++
T Consensus 293 ~~pF-elD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVA-EYAialaq~h~TR~iYTSP----------IKALSNQKfRDF 360 (1248)
T KOG0947|consen 293 IYPF-ELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVA-EYAIALAQKHMTRTIYTSP----------IKALSNQKFRDF 360 (1248)
T ss_pred hCCC-CccHHHHHHHHHHHcCCeEEEEecCCCCcchHH-HHHHHHHHhhccceEecch----------hhhhccchHHHH
Confidence 4666 466789999999999999999999999999997 5555666555666654332 445544433332
Q ss_pred hhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccc
Q 042872 300 HYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAH 379 (381)
Q Consensus 300 ~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAH 379 (381)
...+.- .++-...-.-+|....||+|.|+|.+ -|++.. - ..+.+.+||+||+|
T Consensus 361 k~tF~D--vgLlTGDvqinPeAsCLIMTTEILRs---------MLYrga-d---------------liRDvE~VIFDEVH 413 (1248)
T KOG0947|consen 361 KETFGD--VGLLTGDVQINPEASCLIMTTEILRS---------MLYRGA-D---------------LIRDVEFVIFDEVH 413 (1248)
T ss_pred HHhccc--cceeecceeeCCCcceEeehHHHHHH---------HHhccc-c---------------hhhccceEEEeeee
Confidence 111100 01222233467788999999999863 123222 1 11279999999999
Q ss_pred cC
Q 042872 380 CV 381 (381)
Q Consensus 380 cI 381 (381)
-|
T Consensus 414 Yi 415 (1248)
T KOG0947|consen 414 YI 415 (1248)
T ss_pred ec
Confidence 75
No 91
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.44 E-value=5.9e-07 Score=99.24 Aligned_cols=115 Identities=20% Similarity=0.167 Sum_probs=60.4
Q ss_pred HHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhh
Q 042872 232 QACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLT 311 (381)
Q Consensus 232 eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~ 311 (381)
+.+.++.+++++++.+|||+|||.+|.-.+..-. ..+.+++++.. .+.-..++.+.+..- ........ .++.
T Consensus 12 ~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~-~~~~~ilvlqP--rR~aA~qia~rva~~----l~~~~g~~-VGy~ 83 (812)
T PRK11664 12 ELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHG-GINGKIIMLEP--RRLAARNVAQRLAEQ----LGEKPGET-VGYR 83 (812)
T ss_pred HHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcC-CcCCeEEEECC--hHHHHHHHHHHHHHH----hCcccCce-EEEE
Confidence 4455556789999999999999999952221111 12235555432 232222222222100 00000111 1111
Q ss_pred hcc-cCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 312 CAS-RKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 312 ~~~-~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
... .......+|+|+|||+|.. .+ .. ...|+ ++++|||||||-
T Consensus 84 vr~~~~~~~~t~I~v~T~G~Llr------~l---~~--d~~L~---------------~v~~IIlDEaHE 127 (812)
T PRK11664 84 MRAESKVGPNTRLEVVTEGILTR------MI---QR--DPELS---------------GVGLVILDEFHE 127 (812)
T ss_pred ecCccccCCCCcEEEEChhHHHH------HH---hh--CCCcC---------------cCcEEEEcCCCc
Confidence 111 1223356899999999862 11 11 23344 899999999994
No 92
>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=98.42 E-value=7.8e-07 Score=86.77 Aligned_cols=117 Identities=16% Similarity=0.156 Sum_probs=77.6
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHHHHH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQIITLN 265 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~~L~ 265 (381)
+..++.+.+|+ .|++.|.-++-++..|+ |+.+.||=|||++-. +++..+-
T Consensus 66 ~rea~~r~~g~-~p~~vQll~~l~L~~G~--laEm~TGEGKTli~~l~a~~~AL~G~~V~vvT~NdyLA~RD~~~~~~~y 142 (266)
T PF07517_consen 66 VREAARRTLGL-RPYDVQLLGALALHKGR--LAEMKTGEGKTLIAALPAALNALQGKGVHVVTSNDYLAKRDAEEMRPFY 142 (266)
T ss_dssp HHHHHHHHTS-----HHHHHHHHHHHTTS--EEEESTTSHHHHHHHHHHHHHHTTSS-EEEEESSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCC-cccHHHHhhhhhcccce--eEEecCCCCcHHHHHHHHHHHHHhcCCcEEEeccHHHhhccHHHHHHHH
Confidence 55566677888 58899999998888887 999999999998765 4566666
Q ss_pred hhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHH
Q 042872 266 LKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLH 345 (381)
Q Consensus 266 ~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~ 345 (381)
..+|+.+..+.++.+..+++... .++|+|+|...+.- ..|+.-.
T Consensus 143 ~~LGlsv~~~~~~~~~~~r~~~Y-------------------------------~~dI~Y~t~~~~~f-----D~Lrd~~ 186 (266)
T PF07517_consen 143 EFLGLSVGIITSDMSSEERREAY-------------------------------AADIVYGTNSEFGF-----DYLRDNL 186 (266)
T ss_dssp HHTT--EEEEETTTEHHHHHHHH-------------------------------HSSEEEEEHHHHHH-----HHHHHTT
T ss_pred HHhhhccccCccccCHHHHHHHH-------------------------------hCcccccccchhhH-----HHHHHHH
Confidence 67899998888887766554433 35799999888851 2232211
Q ss_pred hcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 346 RKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 346 ~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
..+. ....++.+.++|||||+.|
T Consensus 187 ~~~~-------------~~~~~r~~~~~ivDEvDs~ 209 (266)
T PF07517_consen 187 ALSK-------------NEQVQRGFDFAIVDEVDSI 209 (266)
T ss_dssp -SSG-------------GG--SSSSSEEEECTHHHH
T ss_pred hhcc-------------chhccCCCCEEEEeccceE
Confidence 1110 0112458999999999853
No 93
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.39 E-value=1.3e-06 Score=96.99 Aligned_cols=116 Identities=19% Similarity=0.197 Sum_probs=81.2
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHHHHH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQIITLN 265 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~~L~ 265 (381)
+..+..+.+|. .+.++|.-.--++..|+ |+-|.||.|||++.. +.+..+-
T Consensus 71 vrEa~~R~lGm-~~ydVQliGg~~Lh~G~--iaEM~TGEGKTLvA~l~a~l~al~G~~VhvvT~ndyLA~RD~e~m~~l~ 147 (913)
T PRK13103 71 AREAGKRVMGM-RHFDVQLIGGMTLHEGK--IAEMRTGEGKTLVGTLAVYLNALSGKGVHVVTVNDYLARRDANWMRPLY 147 (913)
T ss_pred HHHHHHHHhCC-CcchhHHHhhhHhccCc--cccccCCCCChHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHHHh
Confidence 55567778997 56799998877776665 899999999998865 3455555
Q ss_pred hhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHH
Q 042872 266 LKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLH 345 (381)
Q Consensus 266 ~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~ 345 (381)
..+|+++.++++.++..+++... .++|+|+|.--+.- ..|+
T Consensus 148 ~~lGl~v~~i~~~~~~~err~~Y-------------------------------~~dI~YGT~~e~gF-----DYLr--- 188 (913)
T PRK13103 148 EFLGLSVGIVTPFQPPEEKRAAY-------------------------------AADITYGTNNEFGF-----DYLR--- 188 (913)
T ss_pred cccCCEEEEECCCCCHHHHHHHh-------------------------------cCCEEEEccccccc-----chhh---
Confidence 56789998888888777665444 47899999777620 1111
Q ss_pred hcCCccccccccccc-cccccccCCccEEEEeccccC
Q 042872 346 RKGSIRLKVLTTDVV-VLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 346 ~~g~~~l~~~~~~~v-~~~~~~~~~L~~lVIDEAHcI 381 (381)
.+++ .....+|+.+.+.||||+|.|
T Consensus 189 -----------D~~~~~~~~~vqr~l~~aIVDEvDsi 214 (913)
T PRK13103 189 -----------DNMAFSLDDKFQRELNFAVIDEVDSI 214 (913)
T ss_pred -----------ccceechhhhcccccceeEechhhhe
Confidence 0111 022345668999999999986
No 94
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=98.37 E-value=1.4e-06 Score=95.77 Aligned_cols=120 Identities=16% Similarity=0.148 Sum_probs=85.5
Q ss_pred chHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHH
Q 042872 210 LDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQII 262 (381)
Q Consensus 210 l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~ 262 (381)
+.-+..++.+.+|+ .|+++|.-+.-++..|+ |+.|.||.|||++.. +++.
T Consensus 66 fA~vrEa~~R~~g~-~~~dvQlig~l~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~G~~v~vvT~neyLA~Rd~e~~~ 142 (796)
T PRK12906 66 FAVAREGAKRVLGL-RPFDVQIIGGIVLHEGN--IAEMKTGEGKTLTATLPVYLNALTGKGVHVVTVNEYLSSRDATEMG 142 (796)
T ss_pred HHHHHHHHHHHhCC-CCchhHHHHHHHHhcCC--cccccCCCCCcHHHHHHHHHHHHcCCCeEEEeccHHHHHhhHHHHH
Confidence 33356677888998 58899999988888887 999999999998865 4456
Q ss_pred HHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHH
Q 042872 263 TLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLK 342 (381)
Q Consensus 263 ~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~ 342 (381)
.+-..+|+++.++.++++..+++... .++|+|+|.--+.- ..++..+.
T Consensus 143 ~~~~~LGl~vg~i~~~~~~~~r~~~y-------------------------------~~dI~Y~t~~e~gf-DyLRD~m~ 190 (796)
T PRK12906 143 ELYRWLGLTVGLNLNSMSPDEKRAAY-------------------------------NCDITYSTNSELGF-DYLRDNMV 190 (796)
T ss_pred HHHHhcCCeEEEeCCCCCHHHHHHHh-------------------------------cCCCeecCCccccc-cchhhccc
Confidence 66667899999998888777664443 57899999877751 12221110
Q ss_pred HHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 343 CLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 343 ~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
++ .....++.+.+.|||||+.|
T Consensus 191 ---------~~--------~~~~v~r~~~~aIvDEvDSi 212 (796)
T PRK12906 191 ---------VY--------KEQMVQRPLNYAIVDEVDSI 212 (796)
T ss_pred ---------cc--------hhhhhccCcceeeeccchhe
Confidence 00 01224557899999999875
No 95
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=98.36 E-value=1.2e-06 Score=96.93 Aligned_cols=114 Identities=18% Similarity=0.174 Sum_probs=60.6
Q ss_pred HHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhh
Q 042872 232 QACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLT 311 (381)
Q Consensus 232 eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~ 311 (381)
+.+.++..++++++.+|||+|||.+|.--+.... ..+.+++++.. .+.-..++.+.+..- ........+ ++.
T Consensus 9 ~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~-~~~~~ilvlqP--rR~aA~qiA~rva~~----~~~~~g~~V-Gy~ 80 (819)
T TIGR01970 9 ALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAP-GIGGKIIMLEP--RRLAARSAAQRLASQ----LGEAVGQTV-GYR 80 (819)
T ss_pred HHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhh-ccCCeEEEEeC--cHHHHHHHHHHHHHH----hCCCcCcEE-EEE
Confidence 4445555778999999999999999962222111 12345555543 232222222222100 000000111 111
Q ss_pred hc-ccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccc
Q 042872 312 CA-SRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAH 379 (381)
Q Consensus 312 ~~-~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAH 379 (381)
.. ........+|+|+||++|+. . +.. ...|+ ++++|||||||
T Consensus 81 vr~~~~~s~~t~I~v~T~G~Llr------~---l~~--d~~L~---------------~v~~VIiDEaH 123 (819)
T TIGR01970 81 VRGENKVSRRTRLEVVTEGILTR------M---IQD--DPELD---------------GVGALIFDEFH 123 (819)
T ss_pred EccccccCCCCcEEEECCcHHHH------H---Hhh--Ccccc---------------cCCEEEEeccc
Confidence 11 11223357899999999962 1 211 22344 89999999999
No 96
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.36 E-value=1.9e-06 Score=98.09 Aligned_cols=53 Identities=21% Similarity=0.181 Sum_probs=37.2
Q ss_pred CCcHHHHHHHHHHH----cC-CCEEEECCCCCCchhhHHHHHHHHHhhcC-CcEEEEeC
Q 042872 225 AFRPLQHQACKASV----AK-QDCFVLLPTGGGKSLCYQDQIITLNLKFG-IPATFLNS 277 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL----~G-rDvLviaPTGsGKTLaF~dQv~~L~~~~g-I~a~~l~g 277 (381)
.+|++|.+||.++. .| +.+|++||||+|||++..--+..|..... -+++++.-
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvD 471 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVD 471 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEec
Confidence 58999999999886 34 68999999999999876533444432222 35656543
No 97
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.31 E-value=2.8e-06 Score=92.58 Aligned_cols=117 Identities=18% Similarity=0.201 Sum_probs=84.3
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHHHHH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQIITLN 265 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~~L~ 265 (381)
+..+..+.+|+ .++++|.-+.-.++.|+ ++.|.||.|||++.. +.+..+-
T Consensus 67 vREa~~R~lg~-r~ydvQlig~l~Ll~G~--VaEM~TGEGKTLvA~l~a~l~AL~G~~VhvvT~NdyLA~RDae~m~~ly 143 (764)
T PRK12326 67 AREAAERTLGL-RPFDVQLLGALRLLAGD--VIEMATGEGKTLAGAIAAAGYALQGRRVHVITVNDYLARRDAEWMGPLY 143 (764)
T ss_pred HHHHHHHHcCC-CcchHHHHHHHHHhCCC--cccccCCCCHHHHHHHHHHHHHHcCCCeEEEcCCHHHHHHHHHHHHHHH
Confidence 55567778999 47799999999999885 789999999998765 4455555
Q ss_pred hhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHH
Q 042872 266 LKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLH 345 (381)
Q Consensus 266 ~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~ 345 (381)
..+|+++.++.+..+..+++... .++|+|+|..-+.- ..++..+..
T Consensus 144 ~~LGLsvg~i~~~~~~~err~aY-------------------------------~~DItYgTn~e~gF-DyLRDnm~~-- 189 (764)
T PRK12326 144 EALGLTVGWITEESTPEERRAAY-------------------------------ACDVTYASVNEIGF-DVLRDQLVT-- 189 (764)
T ss_pred HhcCCEEEEECCCCCHHHHHHHH-------------------------------cCCCEEcCCccccc-ccchhhhcc--
Confidence 57899999888888777655444 47899999877651 222222110
Q ss_pred hcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 346 RKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 346 ~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
-....+++.+.+.|||||+.|
T Consensus 190 ---------------~~~~~v~R~~~faIVDEvDSi 210 (764)
T PRK12326 190 ---------------DVADLVSPNPDVAIIDEADSV 210 (764)
T ss_pred ---------------ChHhhcCCccceeeecchhhh
Confidence 012235568999999999975
No 98
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=98.21 E-value=7.7e-06 Score=90.78 Aligned_cols=117 Identities=16% Similarity=0.231 Sum_probs=82.1
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHHHHH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQIITLN 265 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~~L~ 265 (381)
+..+..+.+|.. +.++|.-.--++..|+ |+-|.||-||||++. +++..+-
T Consensus 74 vREa~~R~lG~r-~ydVQliGgl~Lh~G~--IAEM~TGEGKTL~atlpaylnAL~GkgVhVVTvNdYLA~RDae~m~~vy 150 (939)
T PRK12902 74 VREASKRVLGMR-HFDVQLIGGMVLHEGQ--IAEMKTGEGKTLVATLPSYLNALTGKGVHVVTVNDYLARRDAEWMGQVH 150 (939)
T ss_pred HHHHHHHHhCCC-cchhHHHhhhhhcCCc--eeeecCCCChhHHHHHHHHHHhhcCCCeEEEeCCHHHHHhHHHHHHHHH
Confidence 556777889994 6699998887777665 899999999999875 4455555
Q ss_pred hhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHH
Q 042872 266 LKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLH 345 (381)
Q Consensus 266 ~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~ 345 (381)
..+|+.+.++.++++..+++... .++|+|+|+..+.- ..++..+..
T Consensus 151 ~~LGLtvg~i~~~~~~~err~aY-------------------------------~~DItYgTn~e~gF-DYLRDnm~~-- 196 (939)
T PRK12902 151 RFLGLSVGLIQQDMSPEERKKNY-------------------------------ACDITYATNSELGF-DYLRDNMAT-- 196 (939)
T ss_pred HHhCCeEEEECCCCChHHHHHhc-------------------------------CCCeEEecCCcccc-cchhhhhcc--
Confidence 56788887777776665543322 57999999988851 222222210
Q ss_pred hcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 346 RKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 346 ~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.....+++.+.+.|||||+.|
T Consensus 197 ---------------~~~~~vqR~~~faIVDEvDSI 217 (939)
T PRK12902 197 ---------------DISEVVQRPFNYCVIDEVDSI 217 (939)
T ss_pred ---------------cccccccCccceEEEecccce
Confidence 012235668999999999976
No 99
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=98.15 E-value=1.8e-06 Score=97.59 Aligned_cols=40 Identities=23% Similarity=0.467 Sum_probs=36.0
Q ss_pred HHhCCCCCcHHHHHHHHHHHcC-CCEEEECCCCCCchhhHH
Q 042872 219 VIFGNRAFRPLQHQACKASVAK-QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 219 ~~fG~~~fRpiQ~eAI~aiL~G-rDvLviaPTGsGKTLaF~ 258 (381)
..+|+..|.++|....++++.+ .+++++||||+|||-+.+
T Consensus 303 aF~g~~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAv 343 (1674)
T KOG0951|consen 303 AFFGKQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAV 343 (1674)
T ss_pred hcccchhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHH
Confidence 3479999999999999999988 589999999999998776
No 100
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.09 E-value=1.4e-05 Score=91.86 Aligned_cols=31 Identities=26% Similarity=0.276 Sum_probs=20.0
Q ss_pred HHHHHHHHHc-CCCEEEECCCCCCchhhHHHHH
Q 042872 230 QHQACKASVA-KQDCFVLLPTGGGKSLCYQDQI 261 (381)
Q Consensus 230 Q~eAI~aiL~-GrDvLviaPTGsGKTLaF~dQv 261 (381)
.++.|...+. ++.++++++||||||... .|+
T Consensus 78 ~r~~Il~ai~~~~VviI~GeTGSGKTTql-Pq~ 109 (1294)
T PRK11131 78 KKQDILEAIRDHQVVIVAGETGSGKTTQL-PKI 109 (1294)
T ss_pred HHHHHHHHHHhCCeEEEECCCCCCHHHHH-HHH
Confidence 3444555554 455677799999999843 443
No 101
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=98.08 E-value=1.5e-05 Score=85.96 Aligned_cols=108 Identities=18% Similarity=0.247 Sum_probs=82.9
Q ss_pred HHHHhCCCCCcHHHHHHHHHHHcC------CCEEEECCCCCCchhhHH-----------------------HH----HHH
Q 042872 217 NVVIFGNRAFRPLQHQACKASVAK------QDCFVLLPTGGGKSLCYQ-----------------------DQ----IIT 263 (381)
Q Consensus 217 ~~~~fG~~~fRpiQ~eAI~aiL~G------rDvLviaPTGsGKTLaF~-----------------------dQ----v~~ 263 (381)
+...+.| ++|..|+.+|..|... .+-|+++--|||||++.+ .| +..
T Consensus 255 ~~~~LPF-~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~ 333 (677)
T COG1200 255 FLAALPF-KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRK 333 (677)
T ss_pred HHHhCCC-CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHH
Confidence 3344677 5889999999999842 356899999999998876 22 344
Q ss_pred HHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHH
Q 042872 264 LNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKC 343 (381)
Q Consensus 264 L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~ 343 (381)
+-..+||++..++|......++.++..+.+| ..+|||.|==-+- +
T Consensus 334 ~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G-------------------------~~~ivVGTHALiQ------d---- 378 (677)
T COG1200 334 WLEPLGIRVALLTGSLKGKARKEILEQLASG-------------------------EIDIVVGTHALIQ------D---- 378 (677)
T ss_pred HhhhcCCeEEEeecccchhHHHHHHHHHhCC-------------------------CCCEEEEcchhhh------c----
Confidence 4446799999999999999999999999877 7899999933222 1
Q ss_pred HHhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 344 LHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 344 L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
++... ++.++||||=|+
T Consensus 379 -----~V~F~---------------~LgLVIiDEQHR 395 (677)
T COG1200 379 -----KVEFH---------------NLGLVIIDEQHR 395 (677)
T ss_pred -----ceeec---------------ceeEEEEecccc
Confidence 12222 899999999996
No 102
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.06 E-value=1.3e-05 Score=87.70 Aligned_cols=98 Identities=23% Similarity=0.338 Sum_probs=81.3
Q ss_pred CCcHHHHHHHHHHHcC----CCEEEECCCCCCchhhHH-----------------------HH-HHHHHhhcCCcEEEEe
Q 042872 225 AFRPLQHQACKASVAK----QDCFVLLPTGGGKSLCYQ-----------------------DQ-IITLNLKFGIPATFLN 276 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~G----rDvLviaPTGsGKTLaF~-----------------------dQ-v~~L~~~~gI~a~~l~ 276 (381)
.+.+.|..|+..++.. +-.|+-+-||||||-+|+ .| +.+|...||.++.+++
T Consensus 198 ~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlH 277 (730)
T COG1198 198 ALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLH 277 (730)
T ss_pred ccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhc
Confidence 4668899999999765 678999999999999998 44 5778888999999999
Q ss_pred CCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccc
Q 042872 277 SQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLT 356 (381)
Q Consensus 277 g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~ 356 (381)
++.+..++...+.++++| ..+||++|==.|+ ...
T Consensus 278 S~Ls~~er~~~W~~~~~G-------------------------~~~vVIGtRSAlF-----~Pf---------------- 311 (730)
T COG1198 278 SGLSPGERYRVWRRARRG-------------------------EARVVIGTRSALF-----LPF---------------- 311 (730)
T ss_pred ccCChHHHHHHHHHHhcC-------------------------CceEEEEechhhc-----Cch----------------
Confidence 999999999999998877 7899999844433 110
Q ss_pred cccccccccccCCccEEEEeccc
Q 042872 357 TDVVVLPHTCQRQLAGFVVDEAH 379 (381)
Q Consensus 357 ~~~v~~~~~~~~~L~~lVIDEAH 379 (381)
.+|++|||||=|
T Consensus 312 -----------~~LGLIIvDEEH 323 (730)
T COG1198 312 -----------KNLGLIIVDEEH 323 (730)
T ss_pred -----------hhccEEEEeccc
Confidence 189999999988
No 103
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=98.03 E-value=1.6e-05 Score=88.16 Aligned_cols=118 Identities=16% Similarity=0.164 Sum_probs=77.9
Q ss_pred HHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHHHH
Q 042872 212 DMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQIITL 264 (381)
Q Consensus 212 ~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~~L 264 (381)
-+..++.+.+|+. ++++|.-+.-++.. .-|+-|.||-||||++. ++...+
T Consensus 64 vvrEa~~R~lG~r-~ydvQlig~l~L~~--G~IaEm~TGEGKTL~a~l~ayl~aL~G~~VhVvT~NdyLA~RD~e~m~pv 140 (870)
T CHL00122 64 LTREASFRTLGLR-HFDVQLIGGLVLND--GKIAEMKTGEGKTLVATLPAYLNALTGKGVHIVTVNDYLAKRDQEWMGQI 140 (870)
T ss_pred HHHHHHHHHhCCC-CCchHhhhhHhhcC--CccccccCCCCchHHHHHHHHHHHhcCCceEEEeCCHHHHHHHHHHHHHH
Confidence 3556777889995 77999887665554 46999999999999876 344555
Q ss_pred HhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHH
Q 042872 265 NLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCL 344 (381)
Q Consensus 265 ~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L 344 (381)
-+.+|+.+.++.++++..+++... .++|+|+|.--+.- ..++..+.
T Consensus 141 y~~LGLsvg~i~~~~~~~err~aY-------------------------------~~DItYgTn~e~gF-DyLRDnm~-- 186 (870)
T CHL00122 141 YRFLGLTVGLIQEGMSSEERKKNY-------------------------------LKDITYVTNSELGF-DYLRDNMA-- 186 (870)
T ss_pred HHHcCCceeeeCCCCChHHHHHhc-------------------------------CCCCEecCCccccc-cchhhccC--
Confidence 556677777776666665543333 46899999876641 11211110
Q ss_pred HhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 345 HRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 345 ~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
++ .....++.+.+.|||||+.|
T Consensus 187 -------~~--------~~~~v~r~~~faIVDEvDSi 208 (870)
T CHL00122 187 -------LS--------LSDVVQRPFNYCIIDEVDSI 208 (870)
T ss_pred -------cC--------hHHhhccccceeeeecchhh
Confidence 00 11224558999999999975
No 104
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.93 E-value=5.9e-05 Score=83.71 Aligned_cols=60 Identities=28% Similarity=0.335 Sum_probs=42.7
Q ss_pred hCCCCCcHHHHH---HHHHHH-cCCCEEEECCCCCCchhhHH----------------------HHH-----HHHHhhcC
Q 042872 221 FGNRAFRPLQHQ---ACKASV-AKQDCFVLLPTGGGKSLCYQ----------------------DQI-----ITLNLKFG 269 (381)
Q Consensus 221 fG~~~fRpiQ~e---AI~aiL-~GrDvLviaPTGsGKTLaF~----------------------dQv-----~~L~~~~g 269 (381)
-|| ++||.|.+ +|...+ .++.+++.|+||+|||++|+ +|+ ..|.+.++
T Consensus 242 ~~~-e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~~~~~vvI~t~T~~Lq~Ql~~~~i~~l~~~~~ 320 (820)
T PRK07246 242 LGL-EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQSDQRQIIVSVPTKILQDQIMAEEVKAIQEVFH 320 (820)
T ss_pred CCC-ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhcCCCcEEEEeCcHHHHHHHHHHHHHHHHHhcC
Confidence 356 69999999 444444 46789999999999999998 333 33444566
Q ss_pred CcEEEEeCCCCH
Q 042872 270 IPATFLNSQQTV 281 (381)
Q Consensus 270 I~a~~l~g~~~~ 281 (381)
+++.++.|+...
T Consensus 321 ~~~~~~kg~~~y 332 (820)
T PRK07246 321 IDCHSLKGPQNY 332 (820)
T ss_pred CcEEEEECCccc
Confidence 777667766554
No 105
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=97.90 E-value=2.9e-05 Score=84.15 Aligned_cols=52 Identities=19% Similarity=0.128 Sum_probs=36.1
Q ss_pred CcHHHHHHHHHHHc----------CCCEEEECCCCCCchhhHHHHHHHHHhhcCC-cEEEEeC
Q 042872 226 FRPLQHQACKASVA----------KQDCFVLLPTGGGKSLCYQDQIITLNLKFGI-PATFLNS 277 (381)
Q Consensus 226 fRpiQ~eAI~aiL~----------GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI-~a~~l~g 277 (381)
+|+.|.+||..++. .+..++.+|||||||++..--+..|....+. ++++++-
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvd 301 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVD 301 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEEC
Confidence 68899999998752 2578999999999998876444444333333 4555543
No 106
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.82 E-value=0.00013 Score=81.90 Aligned_cols=36 Identities=28% Similarity=0.322 Sum_probs=29.6
Q ss_pred CCCCCcHHHHHHHHHH---H-cCCCEEEECCCCCCchhhHH
Q 042872 222 GNRAFRPLQHQACKAS---V-AKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 222 G~~~fRpiQ~eAI~ai---L-~GrDvLviaPTGsGKTLaF~ 258 (381)
|| ++||.|.+-+..+ + .++.+++-||||+|||++|+
T Consensus 255 ~~-e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYL 294 (928)
T PRK08074 255 KY-EKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYL 294 (928)
T ss_pred CC-cCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHH
Confidence 44 7999999955444 3 56789999999999999998
No 107
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.80 E-value=0.00016 Score=81.20 Aligned_cols=122 Identities=19% Similarity=0.218 Sum_probs=86.8
Q ss_pred HHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhh------HH-----------------HHH-
Q 042872 206 ELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLC------YQ-----------------DQI- 261 (381)
Q Consensus 206 ~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLa------F~-----------------dQv- 261 (381)
.+..+.++...+.+..|+ .|.-.|+-+..-++.|+..-++||||.|||-- |. .|+
T Consensus 64 ~~~e~e~~~~fF~k~~G~-~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~ 142 (1187)
T COG1110 64 YLWEYEEFEEFFKKATGF-RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVY 142 (1187)
T ss_pred HHHHHHHHHHHHHHhhCC-CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHH
Confidence 344456677777788898 68889999999999999999999999999921 11 332
Q ss_pred ---HHHHhhcC-CcEEE-EeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcc
Q 042872 262 ---ITLNLKFG-IPATF-LNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQS 336 (381)
Q Consensus 262 ---~~L~~~~g-I~a~~-l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~ 336 (381)
..+....| ..+.+ .++..+..++++.++++.+| +++|+|+|-.-|. +.
T Consensus 143 ~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~g-------------------------dfdIlitTs~FL~--k~ 195 (1187)
T COG1110 143 ERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESG-------------------------DFDILITTSQFLS--KR 195 (1187)
T ss_pred HHHHHHHhhcCCcceeeeeccccchHHHHHHHHHHhcC-------------------------CccEEEEeHHHHH--hh
Confidence 23332223 33322 67777888888999998876 8999999977765 33
Q ss_pred hHHHHHHHHhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 337 FSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 337 f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
|- .|.+ - +..++++|.++-
T Consensus 196 ~e----~L~~-~--------------------kFdfifVDDVDA 214 (1187)
T COG1110 196 FE----ELSK-L--------------------KFDFIFVDDVDA 214 (1187)
T ss_pred HH----Hhcc-c--------------------CCCEEEEccHHH
Confidence 32 2221 1 688999998764
No 108
>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=97.75 E-value=0.00012 Score=84.60 Aligned_cols=127 Identities=17% Similarity=0.122 Sum_probs=60.8
Q ss_pred hCCCCCcHHHH--HHHHHHHc-CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhh
Q 042872 221 FGNRAFRPLQH--QACKASVA-KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVL 297 (381)
Q Consensus 221 fG~~~fRpiQ~--eAI~aiL~-GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~ 297 (381)
..|..--|+.. +.|...+. ++-+++.++||||||--. .|+.. ....+....+++.+.-+-....+-..+..-
T Consensus 60 ~~~~~~LPi~~~~~~Il~~l~~~~vvii~g~TGSGKTTql-Pq~ll-e~~~~~~~~I~~tQPRRlAA~svA~RvA~e--- 134 (1283)
T TIGR01967 60 IRYPDNLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQL-PKICL-ELGRGSHGLIGHTQPRRLAARTVAQRIAEE--- 134 (1283)
T ss_pred ccCCCCCCHHHHHHHHHHHHHhCceEEEeCCCCCCcHHHH-HHHHH-HcCCCCCceEecCCccHHHHHHHHHHHHHH---
Confidence 34443335543 45555554 456678889999999632 44321 112344444444332222222222222100
Q ss_pred hhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEec
Q 042872 298 SQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDE 377 (381)
Q Consensus 298 ~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDE 377 (381)
......+.+.+..-......+..+|+|+|||+|+. .+.... .|+ ++.+|||||
T Consensus 135 -lg~~lG~~VGY~vR~~~~~s~~T~I~~~TdGiLLr---------~l~~d~--~L~---------------~~~~IIIDE 187 (1283)
T TIGR01967 135 -LGTPLGEKVGYKVRFHDQVSSNTLVKLMTDGILLA---------ETQQDR--FLS---------------RYDTIIIDE 187 (1283)
T ss_pred -hCCCcceEEeeEEcCCcccCCCceeeeccccHHHH---------HhhhCc--ccc---------------cCcEEEEcC
Confidence 00111111111011112233467899999999972 111111 122 899999999
Q ss_pred cc
Q 042872 378 AH 379 (381)
Q Consensus 378 AH 379 (381)
||
T Consensus 188 aH 189 (1283)
T TIGR01967 188 AH 189 (1283)
T ss_pred cc
Confidence 99
No 109
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=97.75 E-value=0.00018 Score=79.93 Aligned_cols=119 Identities=14% Similarity=0.139 Sum_probs=78.7
Q ss_pred hHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHHH
Q 042872 211 DDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQIIT 263 (381)
Q Consensus 211 ~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~~ 263 (381)
.-+..+..+.+|+ .++++|.-..-.+..|+ |+-|.||=||||+.. ++...
T Consensus 65 AvvREA~~R~lG~-r~ydVQliGglvLh~G~--IAEMkTGEGKTLvAtLpayLnAL~GkgVhVVTvNdYLA~RDae~mg~ 141 (925)
T PRK12903 65 AVAREATKRVLGK-RPYDVQIIGGIILDLGS--VAEMKTGEGKTITSIAPVYLNALTGKGVIVSTVNEYLAERDAEEMGK 141 (925)
T ss_pred HHHHHHHHHHhCC-CcCchHHHHHHHHhcCC--eeeecCCCCccHHHHHHHHHHHhcCCceEEEecchhhhhhhHHHHHH
Confidence 3355677788999 57799999888887775 899999999998764 33444
Q ss_pred HHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHH
Q 042872 264 LNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKC 343 (381)
Q Consensus 264 L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~ 343 (381)
+-..+|+.+.++..+++..+++... .++|+|+|.--|. | ..|+.
T Consensus 142 vy~fLGLsvG~i~~~~~~~~rr~aY-------------------------------~~DItYgTn~E~g----F-DYLRD 185 (925)
T PRK12903 142 VFNFLGLSVGINKANMDPNLKREAY-------------------------------ACDITYSVHSELG----F-DYLRD 185 (925)
T ss_pred HHHHhCCceeeeCCCCChHHHHHhc-------------------------------cCCCeeecCcccc----h-hhhhh
Confidence 4445566666666555554433222 5789999976664 1 12221
Q ss_pred HHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 344 LHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 344 L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
-. . .......|+.+.|.|||||+.|
T Consensus 186 nm-----~--------~~~~~~vqR~~~faIVDEVDSI 210 (925)
T PRK12903 186 NM-----V--------SSKEEKVQRGLNFCLIDEVDSI 210 (925)
T ss_pred cc-----c--------ccHHHhcCcccceeeeccchhe
Confidence 10 0 1133456678999999999875
No 110
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=97.74 E-value=1.5e-05 Score=90.28 Aligned_cols=34 Identities=29% Similarity=0.576 Sum_probs=29.2
Q ss_pred CCcHHHHHHHHHHHcC-CCEEEECCCCCCchhhHH
Q 042872 225 AFRPLQHQACKASVAK-QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~G-rDvLviaPTGsGKTLaF~ 258 (381)
.|.|+|.++.+.+.+. +++||.+|+|+|||+|..
T Consensus 1143 ~~n~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae 1177 (1674)
T KOG0951|consen 1143 DFNPIQTQVFTSLYNTNDNVLVGAPNGSGKTACAE 1177 (1674)
T ss_pred ccCCceEEEEeeeecccceEEEecCCCCchhHHHH
Confidence 3478999999998765 578999999999999976
No 111
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.72 E-value=0.00022 Score=81.02 Aligned_cols=109 Identities=18% Similarity=0.209 Sum_probs=83.8
Q ss_pred HHHHHhCCCCCcHHHHHHHHHHHc----C--CCEEEECCCCCCchhhHH-----------------------HH-HHHHH
Q 042872 216 ANVVIFGNRAFRPLQHQACKASVA----K--QDCFVLLPTGGGKSLCYQ-----------------------DQ-IITLN 265 (381)
Q Consensus 216 ~~~~~fG~~~fRpiQ~eAI~aiL~----G--rDvLviaPTGsGKTLaF~-----------------------dQ-v~~L~ 265 (381)
.+...|+| .-||=|..||..++. + .|-|+|+--|.|||-+.+ +| ...++
T Consensus 586 ~F~~~FPy-eET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~GKQVAvLVPTTlLA~QHy~tFk 664 (1139)
T COG1197 586 EFEASFPY-EETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDGKQVAVLVPTTLLAQQHYETFK 664 (1139)
T ss_pred HHHhcCCC-cCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCCCeEEEEcccHHhHHHHHHHHH
Confidence 34455777 468899999999973 4 499999999999996655 33 55555
Q ss_pred h---hcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHH
Q 042872 266 L---KFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLK 342 (381)
Q Consensus 266 ~---~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~ 342 (381)
. .+.|++..+.-=.+..+++.+++.++.| ..+|||+|=--|..
T Consensus 665 eRF~~fPV~I~~LSRF~s~kE~~~il~~la~G-------------------------~vDIvIGTHrLL~k--------- 710 (1139)
T COG1197 665 ERFAGFPVRIEVLSRFRSAKEQKEILKGLAEG-------------------------KVDIVIGTHRLLSK--------- 710 (1139)
T ss_pred HHhcCCCeeEEEecccCCHHHHHHHHHHHhcC-------------------------CccEEEechHhhCC---------
Confidence 4 4578888898888899999999999987 78999999544432
Q ss_pred HHHhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 343 CLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 343 ~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
++..+ +|+++||||=|+
T Consensus 711 ------dv~Fk---------------dLGLlIIDEEqR 727 (1139)
T COG1197 711 ------DVKFK---------------DLGLLIIDEEQR 727 (1139)
T ss_pred ------CcEEe---------------cCCeEEEechhh
Confidence 12222 899999999885
No 112
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=97.67 E-value=0.00013 Score=78.98 Aligned_cols=23 Identities=26% Similarity=0.219 Sum_probs=19.9
Q ss_pred HHHcCCCEEEECCCCCCchhhHH
Q 042872 236 ASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 236 aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
++..++.+++.||||+|||++|+
T Consensus 12 al~~~~~lliEA~TGtGKTlAYL 34 (636)
T TIGR03117 12 SLRQKRIGMLEASTGVGKTLAMI 34 (636)
T ss_pred HHhcCCeEEEEcCCCCcHHHHHH
Confidence 34467889999999999999998
No 113
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=97.66 E-value=6.3e-05 Score=83.58 Aligned_cols=133 Identities=20% Similarity=0.162 Sum_probs=77.2
Q ss_pred HHHHHHHHhCCCCCcHHHHHHH--HHHHcCCCEEEECCCCCCchhhHHH-H-HHHHHh----hcCCcEEEEeCCCCHHHH
Q 042872 213 MEFANVVIFGNRAFRPLQHQAC--KASVAKQDCFVLLPTGGGKSLCYQD-Q-IITLNL----KFGIPATFLNSQQTVSQA 284 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI--~aiL~GrDvLviaPTGsGKTLaF~d-Q-v~~L~~----~~gI~a~~l~g~~~~~e~ 284 (381)
....-.+..|...+..+|.+|+ +.++.+++++..+||++|||++.-- . ...|.. -++++.+.+ ..+.
T Consensus 211 ~~~~~~~~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~rr~~llilp~vsi-----v~Ek 285 (1008)
T KOG0950|consen 211 VSHLYAKDKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCRRRNVLLILPYVSI-----VQEK 285 (1008)
T ss_pred HHHHHHHhhhHHHHHHHHHHHhcchhhhcccceEEeCCCccchHHHHHHHHHHHHHHHhhceeEecceeeh-----hHHH
Confidence 3333445678889999999997 5678899999999999999999740 0 111111 122222221 2222
Q ss_pred HHHHHHHHhchhhhhhhhhhhhhhh--hhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccc
Q 042872 285 AAVLQELRQGLVLSQHYFLHQLIFV--LTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVL 362 (381)
Q Consensus 285 ~~il~~lr~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~ 362 (381)
..-+..+. ..+...+.. ..+...+..+.-++-++|-|+..+ .+..|...| +++
T Consensus 286 ~~~l~~~~--------~~~G~~ve~y~g~~~p~~~~k~~sv~i~tiEkans------lin~lie~g--~~~--------- 340 (1008)
T KOG0950|consen 286 ISALSPFS--------IDLGFPVEEYAGRFPPEKRRKRESVAIATIEKANS------LINSLIEQG--RLD--------- 340 (1008)
T ss_pred Hhhhhhhc--------cccCCcchhhcccCCCCCcccceeeeeeehHhhHh------HHHHHHhcC--Ccc---------
Confidence 22222211 111111111 111122333457899999999852 456666777 333
Q ss_pred cccccCCccEEEEeccccC
Q 042872 363 PHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 363 ~~~~~~~L~~lVIDEAHcI 381 (381)
.++.|||||-|+|
T Consensus 341 ------~~g~vvVdElhmi 353 (1008)
T KOG0950|consen 341 ------FLGMVVVDELHMI 353 (1008)
T ss_pred ------ccCcEEEeeeeee
Confidence 7999999999986
No 114
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=97.64 E-value=0.00013 Score=79.97 Aligned_cols=105 Identities=18% Similarity=0.207 Sum_probs=74.5
Q ss_pred CCCcHHHHHHHHHHH----cCCCEEEECCCCCCchh------hHH--------------------HHHHHHHh-hcCCcE
Q 042872 224 RAFRPLQHQACKASV----AKQDCFVLLPTGGGKSL------CYQ--------------------DQIITLNL-KFGIPA 272 (381)
Q Consensus 224 ~~fRpiQ~eAI~aiL----~GrDvLviaPTGsGKTL------aF~--------------------dQv~~L~~-~~gI~a 272 (381)
-.+|++|.+-++-+. +|-++|+.=.-|-|||+ +|+ ..+..+.. .-++++
T Consensus 166 g~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~NW~~Ef~rf~P~l~~ 245 (971)
T KOG0385|consen 166 GELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLDNWMNEFKRFTPSLNV 245 (971)
T ss_pred CccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhhHHHHHHHHHHhCCCcce
Confidence 368999999887765 57889999999999994 233 23333332 137889
Q ss_pred EEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccc
Q 042872 273 TFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRL 352 (381)
Q Consensus 273 ~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l 352 (381)
+++.|+ ..++....+.+. ..+.++|+++|-|+++....+ |.+.
T Consensus 246 ~~~~Gd--k~eR~~~~r~~~------------------------~~~~fdV~iTsYEi~i~dk~~---lk~~-------- 288 (971)
T KOG0385|consen 246 VVYHGD--KEERAALRRDIM------------------------LPGRFDVCITSYEIAIKDKSF---LKKF-------- 288 (971)
T ss_pred EEEeCC--HHHHHHHHHHhh------------------------ccCCCceEeehHHHHHhhHHH---HhcC--------
Confidence 999886 466666665542 223799999999999854443 3332
Q ss_pred cccccccccccccccCCccEEEEeccccC
Q 042872 353 KVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 353 ~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.-.|+||||||+|
T Consensus 289 ----------------~W~ylvIDEaHRi 301 (971)
T KOG0385|consen 289 ----------------NWRYLVIDEAHRI 301 (971)
T ss_pred ----------------CceEEEechhhhh
Confidence 5679999999986
No 115
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.63 E-value=0.00024 Score=69.67 Aligned_cols=71 Identities=25% Similarity=0.253 Sum_probs=45.2
Q ss_pred HhCCCCCcHHHHH----HHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCC-----cEEEEeCCCCHHHHHHHHHH
Q 042872 220 IFGNRAFRPLQHQ----ACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGI-----PATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 220 ~fG~~~fRpiQ~e----AI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI-----~a~~l~g~~~~~e~~~il~~ 290 (381)
.|.|+ |||.|.+ ++..+..|+++++.+|||+|||++|+--+..+....+. ++++.+.. ..+..+.+..
T Consensus 4 ~FPy~-~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T--~~~~~q~i~~ 80 (289)
T smart00489 4 YFPYE-PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRT--VSEIEKRLEE 80 (289)
T ss_pred cCCCC-CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEecc--HHHHHHHHHH
Confidence 37775 6999999 45555578999999999999999998222111112222 55555543 3344445555
Q ss_pred HHh
Q 042872 291 LRQ 293 (381)
Q Consensus 291 lr~ 293 (381)
+++
T Consensus 81 l~~ 83 (289)
T smart00489 81 LRK 83 (289)
T ss_pred HHh
Confidence 553
No 116
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.63 E-value=0.00024 Score=69.67 Aligned_cols=71 Identities=25% Similarity=0.253 Sum_probs=45.2
Q ss_pred HhCCCCCcHHHHH----HHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCC-----cEEEEeCCCCHHHHHHHHHH
Q 042872 220 IFGNRAFRPLQHQ----ACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGI-----PATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 220 ~fG~~~fRpiQ~e----AI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI-----~a~~l~g~~~~~e~~~il~~ 290 (381)
.|.|+ |||.|.+ ++..+..|+++++.+|||+|||++|+--+..+....+. ++++.+.. ..+..+.+..
T Consensus 4 ~FPy~-~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T--~~~~~q~i~~ 80 (289)
T smart00488 4 YFPYE-PYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRT--VSEIEKRLEE 80 (289)
T ss_pred cCCCC-CCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEecc--HHHHHHHHHH
Confidence 37775 6999999 45555578999999999999999998222111112222 55555543 3344445555
Q ss_pred HHh
Q 042872 291 LRQ 293 (381)
Q Consensus 291 lr~ 293 (381)
+++
T Consensus 81 l~~ 83 (289)
T smart00488 81 LRK 83 (289)
T ss_pred HHh
Confidence 553
No 117
>PRK09694 helicase Cas3; Provisional
Probab=97.62 E-value=0.0003 Score=78.78 Aligned_cols=38 Identities=21% Similarity=0.120 Sum_probs=30.0
Q ss_pred hCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 221 FGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 221 fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
|+...|||+|..+......+.-+++.+|||+|||.+.+
T Consensus 282 ~~~~~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL 319 (878)
T PRK09694 282 DNGYQPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAAL 319 (878)
T ss_pred cCCCCChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHH
Confidence 54558999999886544445668999999999998876
No 118
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.60 E-value=0.00019 Score=79.17 Aligned_cols=54 Identities=22% Similarity=0.206 Sum_probs=37.6
Q ss_pred CCCCCcHHHHHHHHHHH----cC-CCEEEECCCCCCchhhHHHHHHHHHhhcC-C-cEEEEe
Q 042872 222 GNRAFRPLQHQACKASV----AK-QDCFVLLPTGGGKSLCYQDQIITLNLKFG-I-PATFLN 276 (381)
Q Consensus 222 G~~~fRpiQ~eAI~aiL----~G-rDvLviaPTGsGKTLaF~dQv~~L~~~~g-I-~a~~l~ 276 (381)
+-..+|.+|..||..+. .| +.+|++|.||+|||.+...-+..|.+ .| + ++.+|.
T Consensus 162 s~i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r-~~~~KRVLFLa 222 (875)
T COG4096 162 SAIGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIK-SGWVKRVLFLA 222 (875)
T ss_pred ccccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHh-cchhheeeEEe
Confidence 44468999999999876 34 35999999999999776533444442 22 2 455554
No 119
>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=97.59 E-value=0.00025 Score=66.68 Aligned_cols=127 Identities=18% Similarity=0.110 Sum_probs=65.0
Q ss_pred HHHHHHHHHH-------------cCCCEEEECCCCCCchhhHHHHHHHHHhhcCC----cEEEEeCCCCHHHHHHHHHHH
Q 042872 229 LQHQACKASV-------------AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGI----PATFLNSQQTVSQAAAVLQEL 291 (381)
Q Consensus 229 iQ~eAI~aiL-------------~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI----~a~~l~g~~~~~e~~~il~~l 291 (381)
+|.+++.-++ ..+.+|+.-.+|.|||+..+--+..+...... ++.++.+......+...+...
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~~l~~~W~~E~~~~ 80 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPSSLLSQWKEEIEKW 80 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-TTTHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeeccchhhhhhhhhccc
Confidence 4777776653 23577888899999998876333334322222 377777776666665555553
Q ss_pred HhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccc--cCcchHHHHHHHHhcCCccccccccccccccccccCC
Q 042872 292 RQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIV--GNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQ 369 (381)
Q Consensus 292 r~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~--~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~ 369 (381)
..+.....+++.... ............++++++|.+.+. ..+.....+.. . +
T Consensus 81 ~~~~~~~v~~~~~~~--~~~~~~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~----~--------------------~ 134 (299)
T PF00176_consen 81 FDPDSLRVIIYDGDS--ERRRLSKNQLPKYDVVITTYETLRKARKKKDKEDLKQ----I--------------------K 134 (299)
T ss_dssp SGT-TS-EEEESSSC--HHHHTTSSSCCCSSEEEEEHHHHH--TSTHTTHHHHT----S--------------------E
T ss_pred ccccccccccccccc--ccccccccccccceeeecccccccccccccccccccc----c--------------------c
Confidence 211000000000000 000012334557899999999987 11222222221 1 5
Q ss_pred ccEEEEeccccC
Q 042872 370 LAGFVVDEAHCV 381 (381)
Q Consensus 370 L~~lVIDEAHcI 381 (381)
..+|||||||.+
T Consensus 135 ~~~vIvDEaH~~ 146 (299)
T PF00176_consen 135 WDRVIVDEAHRL 146 (299)
T ss_dssp EEEEEETTGGGG
T ss_pred ceeEEEeccccc
Confidence 889999999974
No 120
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=97.55 E-value=0.00019 Score=81.46 Aligned_cols=129 Identities=14% Similarity=0.059 Sum_probs=70.1
Q ss_pred CCcHHHHHHHHHHH----cCCCEEEECCCCCCchhhHHHHHHHHHhhcCC--cEEEEeCCCCHHHHHHHHHHHHhchhhh
Q 042872 225 AFRPLQHQACKASV----AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGI--PATFLNSQQTVSQAAAVLQELRQGLVLS 298 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL----~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI--~a~~l~g~~~~~e~~~il~~lr~g~~~~ 298 (381)
.+||+|.+++.-++ .|...|+.-..|-|||+.-+--+..+....++ +++++.+......+..-+...-.. ..-
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~SlL~nW~~Ei~kw~p~-l~v 247 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKSTLGNWMNEIRRFCPV-LRA 247 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHHHHHHHHHHHHHCCC-Cce
Confidence 68999999998765 57889999999999997543223333322233 456666655555544444332100 000
Q ss_pred hhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEecc
Q 042872 299 QHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEA 378 (381)
Q Consensus 299 ~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEA 378 (381)
..+.-.+.............+.++|||+|.+.+.... ..|.. - .-.+||||||
T Consensus 248 ~~~~G~~~eR~~~~~~~~~~~~~dVvITSYe~l~~e~---~~L~k----~--------------------~W~~VIvDEA 300 (1033)
T PLN03142 248 VKFHGNPEERAHQREELLVAGKFDVCVTSFEMAIKEK---TALKR----F--------------------SWRYIIIDEA 300 (1033)
T ss_pred EEEeCCHHHHHHHHHHHhcccCCCcceecHHHHHHHH---HHhcc----C--------------------CCCEEEEcCc
Confidence 0000000000000000012236899999999886321 11111 0 5679999999
Q ss_pred ccC
Q 042872 379 HCV 381 (381)
Q Consensus 379 HcI 381 (381)
|+|
T Consensus 301 HrI 303 (1033)
T PLN03142 301 HRI 303 (1033)
T ss_pred ccc
Confidence 986
No 121
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=97.53 E-value=0.00013 Score=77.01 Aligned_cols=125 Identities=18% Similarity=0.217 Sum_probs=78.4
Q ss_pred CCcHHHHHHHHHHHc-C--CCEEEECCCCCCchhhHHHHHHHHHhhcCCcE-EEEeCCCCHHHHHHHHHHHHhchhhhhh
Q 042872 225 AFRPLQHQACKASVA-K--QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPA-TFLNSQQTVSQAAAVLQELRQGLVLSQH 300 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~-G--rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a-~~l~g~~~~~e~~~il~~lr~g~~~~~~ 300 (381)
.+||+|..++..... | |.-++++|-|+||||+-.--+.. ..-++ +.+++.++.++++.+..... -
T Consensus 302 ~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~t----ikK~clvLcts~VSVeQWkqQfk~ws-------t 370 (776)
T KOG1123|consen 302 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAACT----IKKSCLVLCTSAVSVEQWKQQFKQWS-------T 370 (776)
T ss_pred ccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeeee----ecccEEEEecCccCHHHHHHHHHhhc-------c
Confidence 468999999999873 3 68999999999999886311111 12234 34578888888877776642 1
Q ss_pred hhhhhhhhhhhhcccCCCCCccEEEECccccccCc--c--hHHHHHHHHhcCCccccccccccccccccccCCccEEEEe
Q 042872 301 YFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQ--S--FSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVD 376 (381)
Q Consensus 301 ~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~--~--f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVID 376 (381)
+...+....+..+......++.|+|.|--++..+. . -...+..|..+ .-+++|+|
T Consensus 371 i~d~~i~rFTsd~Ke~~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~---------------------EWGllllD 429 (776)
T KOG1123|consen 371 IQDDQICRFTSDAKERFPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGR---------------------EWGLLLLD 429 (776)
T ss_pred cCccceEEeeccccccCCCCCcEEEEeeehhhhcccccHHHHHHHHHHhcC---------------------eeeeEEee
Confidence 11222222233333444456889999988887431 1 12233333211 68899999
Q ss_pred ccccC
Q 042872 377 EAHCV 381 (381)
Q Consensus 377 EAHcI 381 (381)
|+|.|
T Consensus 430 EVHvv 434 (776)
T KOG1123|consen 430 EVHVV 434 (776)
T ss_pred hhccc
Confidence 99976
No 122
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=97.53 E-value=0.0002 Score=78.28 Aligned_cols=33 Identities=24% Similarity=0.321 Sum_probs=30.1
Q ss_pred CcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 226 FRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 226 fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
+-|+|..||.++-.+..|||.|-|.+|||++.-
T Consensus 130 LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAe 162 (1041)
T KOG0948|consen 130 LDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAE 162 (1041)
T ss_pred cCchHhhhhhhhcCCceEEEEeecCCCcchHHH
Confidence 348899999999999999999999999998874
No 123
>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=97.43 E-value=0.00033 Score=77.93 Aligned_cols=37 Identities=30% Similarity=0.531 Sum_probs=31.8
Q ss_pred hCCCCCcHHHHHHHH----HHHcCCCEEEECCCCCCchhhHH
Q 042872 221 FGNRAFRPLQHQACK----ASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 221 fG~~~fRpiQ~eAI~----aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
.||+ +||.|.+.+. ++..|+++++.||||+|||++|+
T Consensus 242 ~~~~-~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayL 282 (850)
T TIGR01407 242 LGLE-YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYL 282 (850)
T ss_pred cCCc-cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHH
Confidence 6885 9999998666 44468999999999999999997
No 124
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=97.41 E-value=0.00033 Score=79.11 Aligned_cols=129 Identities=16% Similarity=0.051 Sum_probs=69.8
Q ss_pred CCcHHHHHHHHHHHcC--CCEEEECCCCCCchhhHHHHHHHHHhhcC--CcEEEEeCCCCHHHHHHHHHHHHhchhhhhh
Q 042872 225 AFRPLQHQACKASVAK--QDCFVLLPTGGGKSLCYQDQIITLNLKFG--IPATFLNSQQTVSQAAAVLQELRQGLVLSQH 300 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~G--rDvLviaPTGsGKTLaF~dQv~~L~~~~g--I~a~~l~g~~~~~e~~~il~~lr~g~~~~~~ 300 (381)
.+.|+|.+++..++.. ..+|+.-..|-|||+-..--+..+. ..| -++.+++...-..++..-+.. -+-....
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~-~~g~~~rvLIVvP~sL~~QW~~El~~---kF~l~~~ 227 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQL-LTGRAERVLILVPETLQHQWLVEMLR---RFNLRFS 227 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHH-HcCCCCcEEEEcCHHHHHHHHHHHHH---HhCCCeE
Confidence 4779999999887654 4789999999999976642233332 123 367777765333333222211 0000111
Q ss_pred hhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEecccc
Q 042872 301 YFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHC 380 (381)
Q Consensus 301 ~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHc 380 (381)
.+...............-...+++|+|-+.+..++.+.+.+.. . ...+|||||||+
T Consensus 228 i~~~~~~~~~~~~~~~pf~~~~~vI~S~~~l~~~~~~~~~l~~----~--------------------~wdlvIvDEAH~ 283 (956)
T PRK04914 228 LFDEERYAEAQHDADNPFETEQLVICSLDFLRRNKQRLEQALA----A--------------------EWDLLVVDEAHH 283 (956)
T ss_pred EEcCcchhhhcccccCccccCcEEEEEHHHhhhCHHHHHHHhh----c--------------------CCCEEEEechhh
Confidence 1111100000000011112467999999888754444333321 1 688999999998
Q ss_pred C
Q 042872 381 V 381 (381)
Q Consensus 381 I 381 (381)
+
T Consensus 284 l 284 (956)
T PRK04914 284 L 284 (956)
T ss_pred h
Confidence 5
No 125
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=97.25 E-value=0.001 Score=75.01 Aligned_cols=117 Identities=15% Similarity=0.103 Sum_probs=75.4
Q ss_pred HHHHHHHHhC-------------CCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------
Q 042872 213 MEFANVVIFG-------------NRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ--------------------- 258 (381)
Q Consensus 213 l~~~~~~~fG-------------~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~--------------------- 258 (381)
+..++.+.+| + .+.++|.-.--++..|+ |+-|.||=||||+..
T Consensus 114 vrEaarR~~G~~~~~~g~~~~wdm-~~ydVQLiGgivLh~G~--IAEM~TGEGKTLvatlp~yLnAL~G~gVHvVTvNDY 190 (1025)
T PRK12900 114 VKETCRRLKGHTYQVMGREMTWDM-VPYDVQLIGGIVLHSGK--ISEMATGEGKTLVSTLPTFLNALTGRGVHVVTVNDY 190 (1025)
T ss_pred HHHHHHHHhCCcccccccccccCc-cccchHHhhhHHhhcCC--ccccCCCCCcchHhHHHHHHHHHcCCCcEEEeechH
Confidence 4446666677 3 46688888877777776 889999999998864
Q ss_pred ------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccc
Q 042872 259 ------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIV 332 (381)
Q Consensus 259 ------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~ 332 (381)
++...+-..+|+.+.++..+++..+++... .++|.|+|.--+-
T Consensus 191 LA~RDaewm~p~y~flGLtVg~i~~~~~~~~Rr~aY-------------------------------~~DItYgTn~EfG 239 (1025)
T PRK12900 191 LAQRDKEWMNPVFEFHGLSVGVILNTMRPEERREQY-------------------------------LCDITYGTNNEFG 239 (1025)
T ss_pred hhhhhHHHHHHHHHHhCCeeeeeCCCCCHHHHHHhC-------------------------------CCcceecCCCccc
Confidence 344555545677766666655555443222 5799999976664
Q ss_pred cCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 333 GNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 333 ~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
- ..++..+.. ......|+.+.|.|||||+.|
T Consensus 240 F-DYLRDnma~-----------------~~~~~vqR~~~faIVDEvDSv 270 (1025)
T PRK12900 240 F-DYLRDNMAG-----------------TPEEMVQRDFYFAIVDEVDSV 270 (1025)
T ss_pred c-ccchhcccc-----------------chhhhhccCCceEEEechhhh
Confidence 1 222211110 011235668999999999865
No 126
>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=97.21 E-value=0.00098 Score=72.65 Aligned_cols=73 Identities=21% Similarity=0.291 Sum_probs=48.4
Q ss_pred HHhCCCCCcHHHHHHHHHHH----cCCCEEEECCCCCCchhhHHHHHHHHHhhcC--CcEEEEeCCCCHHHHHHHHHHHH
Q 042872 219 VIFGNRAFRPLQHQACKASV----AKQDCFVLLPTGGGKSLCYQDQIITLNLKFG--IPATFLNSQQTVSQAAAVLQELR 292 (381)
Q Consensus 219 ~~fG~~~fRpiQ~eAI~aiL----~GrDvLviaPTGsGKTLaF~dQv~~L~~~~g--I~a~~l~g~~~~~e~~~il~~lr 292 (381)
..|.|+.+||.|.+.+..+. .|+.+|+-+|||+|||++-+--..+.....+ .+++.+ ..+..+..+++++++
T Consensus 4 v~FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~--sRThsQl~q~i~Elk 81 (705)
T TIGR00604 4 VYFPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYA--SRTHSQLEQATEELR 81 (705)
T ss_pred eecCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEE--cccchHHHHHHHHHH
Confidence 45899989999999887765 5789999999999999887622211111122 233333 334555666676666
Q ss_pred h
Q 042872 293 Q 293 (381)
Q Consensus 293 ~ 293 (381)
+
T Consensus 82 ~ 82 (705)
T TIGR00604 82 K 82 (705)
T ss_pred h
Confidence 4
No 127
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.03 E-value=0.0018 Score=66.01 Aligned_cols=52 Identities=29% Similarity=0.395 Sum_probs=35.7
Q ss_pred CCcHHHHHHHHHHH----cCCCEEEECCCCCCch-hhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 225 AFRPLQHQACKASV----AKQDCFVLLPTGGGKS-LCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL----~GrDvLviaPTGsGKT-LaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
+++|.|+.|-..++ +.+|.|+-|=||+||| ..|+ -+.. ....|-++.+...-
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~-~i~~-al~~G~~vciASPR 153 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQ-GIEQ-ALNQGGRVCIASPR 153 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHH-HHHH-HHhcCCeEEEecCc
Confidence 68899998887776 4689999999999999 4554 2221 11345555554443
No 128
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=97.00 E-value=0.0019 Score=69.30 Aligned_cols=59 Identities=24% Similarity=0.299 Sum_probs=42.0
Q ss_pred HHhCCCCCcHHHHHHHHHHH----cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 219 VIFGNRAFRPLQHQACKASV----AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 219 ~~fG~~~fRpiQ~eAI~aiL----~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
..|.+.++|+.|.+.+..+. .|+-+++-||||+|||++|+--........+.++++.++
T Consensus 9 ~~~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~ 71 (654)
T COG1199 9 VAFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTR 71 (654)
T ss_pred hhCCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECC
Confidence 34777789999999987654 345699999999999999984333333334455555544
No 129
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.75 E-value=0.0071 Score=68.50 Aligned_cols=38 Identities=21% Similarity=0.371 Sum_probs=28.6
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCc-EEEEeCC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIP-ATFLNSQ 278 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~-a~~l~g~ 278 (381)
.++.+.|+||+|||.+|+..+..|...+|.. .+++.+.
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~~~~~fii~vp~ 98 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKYGLFKFIIVVPT 98 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHcCCcEEEEEeCC
Confidence 3789999999999999987677777667765 3444443
No 130
>PRK14873 primosome assembly protein PriA; Provisional
Probab=96.75 E-value=0.0041 Score=68.00 Aligned_cols=74 Identities=11% Similarity=0.076 Sum_probs=59.2
Q ss_pred CCCCchhhHH-----------------------HH-HHHHHhhcC-CcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhh
Q 042872 249 TGGGKSLCYQ-----------------------DQ-IITLNLKFG-IPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFL 303 (381)
Q Consensus 249 TGsGKTLaF~-----------------------dQ-v~~L~~~~g-I~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~ 303 (381)
+|||||-+|+ .| +..|...+| -.+++++++.+..++...+.++++|
T Consensus 169 ~GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G--------- 239 (665)
T PRK14873 169 PGEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRG--------- 239 (665)
T ss_pred CCCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCC---------
Confidence 5999999998 34 466777787 7788999999999998888888766
Q ss_pred hhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccc
Q 042872 304 HQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAH 379 (381)
Q Consensus 304 ~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAH 379 (381)
..+|||+|---++. | -.++++|||||=|
T Consensus 240 ----------------~~~IViGtRSAvFa-P-------------------------------~~~LgLIIvdEEh 267 (665)
T PRK14873 240 ----------------QARVVVGTRSAVFA-P-------------------------------VEDLGLVAIWDDG 267 (665)
T ss_pred ----------------CCcEEEEcceeEEe-c-------------------------------cCCCCEEEEEcCC
Confidence 68899999666651 1 1289999999987
No 131
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=96.72 E-value=0.0036 Score=71.03 Aligned_cols=35 Identities=17% Similarity=0.150 Sum_probs=27.2
Q ss_pred hCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 221 FGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 221 fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
||. .+.++|.-.--++..|+ |+-|.||=||||+..
T Consensus 166 W~m-~~yDVQliGgivLh~G~--IAEM~TGEGKTLvAt 200 (1112)
T PRK12901 166 WDM-VHYDVQLIGGVVLHQGK--IAEMATGEGKTLVAT 200 (1112)
T ss_pred CCC-cccchHHhhhhhhcCCc--eeeecCCCCchhHHH
Confidence 565 35588887777776665 899999999998864
No 132
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=96.65 E-value=0.0012 Score=74.09 Aligned_cols=29 Identities=17% Similarity=0.331 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHcCCCEEEECCCCCCchhh
Q 042872 228 PLQHQACKASVAKQDCFVLLPTGGGKSLC 256 (381)
Q Consensus 228 piQ~eAI~aiL~GrDvLviaPTGsGKTLa 256 (381)
.+|++-...+=.++.++++|||-+|||.+
T Consensus 514 ~WQ~elLDsvDr~eSavIVAPTSaGKTfi 542 (1330)
T KOG0949|consen 514 EWQRELLDSVDRNESAVIVAPTSAGKTFI 542 (1330)
T ss_pred HHHHHHhhhhhcccceEEEeeccCCceec
Confidence 57999998888899999999999999954
No 133
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=96.63 E-value=0.0062 Score=66.06 Aligned_cols=25 Identities=36% Similarity=0.262 Sum_probs=19.1
Q ss_pred HHHHHHHHcCCCEEEECCCCCCchh
Q 042872 231 HQACKASVAKQDCFVLLPTGGGKSL 255 (381)
Q Consensus 231 ~eAI~aiL~GrDvLviaPTGsGKTL 255 (381)
.+.+.++-.++=+++++.||+|||-
T Consensus 57 ~~il~~ve~nqvlIviGeTGsGKST 81 (674)
T KOG0922|consen 57 DQILYAVEDNQVLIVIGETGSGKST 81 (674)
T ss_pred HHHHHHHHHCCEEEEEcCCCCCccc
Confidence 3455555667778999999999993
No 134
>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=96.62 E-value=0.0051 Score=57.20 Aligned_cols=16 Identities=31% Similarity=0.372 Sum_probs=13.4
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
+++++|||+|||-+-.
T Consensus 4 i~lvGptGvGKTTt~a 19 (196)
T PF00448_consen 4 IALVGPTGVGKTTTIA 19 (196)
T ss_dssp EEEEESTTSSHHHHHH
T ss_pred EEEECCCCCchHhHHH
Confidence 5789999999996654
No 135
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=96.56 E-value=0.01 Score=65.00 Aligned_cols=36 Identities=31% Similarity=0.248 Sum_probs=28.8
Q ss_pred CCCCCcHHHHHHHHHH---HcC------CCEEEECCCCCCchhhHH
Q 042872 222 GNRAFRPLQHQACKAS---VAK------QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 222 G~~~fRpiQ~eAI~ai---L~G------rDvLviaPTGsGKTLaF~ 258 (381)
|| ++|+.|.+-+..+ +.+ +.+++-||||+|||++|+
T Consensus 23 ~~-e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYL 67 (697)
T PRK11747 23 GF-IPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYL 67 (697)
T ss_pred CC-CcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHH
Confidence 45 7999999955444 444 568899999999999998
No 136
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=96.42 E-value=0.013 Score=65.77 Aligned_cols=26 Identities=27% Similarity=0.256 Sum_probs=18.1
Q ss_pred HHHHHHHcCCCEEEECCCCCCchhhH
Q 042872 232 QACKASVAKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 232 eAI~aiL~GrDvLviaPTGsGKTLaF 257 (381)
+.+.++-...=+++.+|||+|||--.
T Consensus 57 ~i~~ai~~~~vvii~getGsGKTTql 82 (845)
T COG1643 57 EILKAIEQNQVVIIVGETGSGKTTQL 82 (845)
T ss_pred HHHHHHHhCCEEEEeCCCCCChHHHH
Confidence 34444445566788899999999543
No 137
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=96.33 E-value=0.0015 Score=54.45 Aligned_cols=19 Identities=21% Similarity=0.324 Sum_probs=13.3
Q ss_pred CCCEEEECCCCCCchhhHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~ 258 (381)
++-+++.+|+|+|||.+..
T Consensus 4 ~~~~~i~G~~G~GKT~~~~ 22 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIK 22 (131)
T ss_dssp ---EEEEE-TTSSHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHH
Confidence 4568999999999998764
No 138
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.27 E-value=0.018 Score=53.12 Aligned_cols=52 Identities=19% Similarity=0.198 Sum_probs=34.0
Q ss_pred CCcHHHHHHHHHHHcCC-C-EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 225 AFRPLQHQACKASVAKQ-D-CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~Gr-D-vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
++++-|++|+..++... . +++.+|.|+|||.+...-...+. ..|.+++.+..
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~-~~g~~v~~~ap 54 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALE-AAGKRVIGLAP 54 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHH-HTT--EEEEES
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHH-hCCCeEEEECC
Confidence 36789999999998654 3 56669999999976543333344 45777766654
No 139
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=96.26 E-value=0.0071 Score=69.32 Aligned_cols=111 Identities=17% Similarity=0.242 Sum_probs=69.2
Q ss_pred CCCcHHHHHHHHHHH----cCCCEEEECCCCCCch---hhHH-----------------------HHHHHHHhhcCCcEE
Q 042872 224 RAFRPLQHQACKASV----AKQDCFVLLPTGGGKS---LCYQ-----------------------DQIITLNLKFGIPAT 273 (381)
Q Consensus 224 ~~fRpiQ~eAI~aiL----~GrDvLviaPTGsGKT---LaF~-----------------------dQv~~L~~~~gI~a~ 273 (381)
-++|.+|.+-++-++ .+.++|+.=.-|-||| ++|+ .....+..+..+.++
T Consensus 369 ~~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~fl~~l~~~~~~~gpflvvvplst~~~W~~ef~~w~~mn~i 448 (1373)
T KOG0384|consen 369 NELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTITFLSYLFHSLQIHGPFLVVVPLSTITAWEREFETWTDMNVI 448 (1373)
T ss_pred chhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHHHHHHHHHhhhccCCeEEEeehhhhHHHHHHHHHHhhhcee
Confidence 579999999998766 6889999999999999 4565 112233333455566
Q ss_pred EEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCcccc
Q 042872 274 FLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLK 353 (381)
Q Consensus 274 ~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~ 353 (381)
++.|.....+ +++.-. +++ .+....=++++|++|-|.++....++..+
T Consensus 449 ~y~g~~~sr~---~i~~ye---------~~~--------~~~~~~lkf~~lltTye~~LkDk~~L~~i------------ 496 (1373)
T KOG0384|consen 449 VYHGNLESRQ---LIRQYE---------FYH--------SSNTKKLKFNALLTTYEIVLKDKAELSKI------------ 496 (1373)
T ss_pred eeecchhHHH---HHHHHH---------hee--------cCCccccccceeehhhHHHhccHhhhccC------------
Confidence 6655433222 122110 000 11112226899999999998655443221
Q ss_pred ccccccccccccccCCccEEEEeccccC
Q 042872 354 VLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 354 ~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
.-.+++|||||++
T Consensus 497 ---------------~w~~~~vDeahrL 509 (1373)
T KOG0384|consen 497 ---------------PWRYLLVDEAHRL 509 (1373)
T ss_pred ---------------CcceeeecHHhhc
Confidence 4678999999975
No 140
>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=96.23 E-value=0.049 Score=49.46 Aligned_cols=50 Identities=16% Similarity=0.120 Sum_probs=30.0
Q ss_pred CCCEEEECCCCCCchhhHHHH-HHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQ-IITLNLKFGIPATFLNSQQTVSQAAAVLQELR 292 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQ-v~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr 292 (381)
|+=.++-+.+|+|||--.+.+ +.+.. ..+.++++|... +-..+++-++++
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i-~~~~rvLvL~PT--Rvva~em~~aL~ 54 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAI-KRRLRVLVLAPT--RVVAEEMYEALK 54 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHH-HTT--EEEEESS--HHHHHHHHHHTT
T ss_pred CceeEEecCCCCCCcccccHHHHHHHH-HccCeEEEeccc--HHHHHHHHHHHh
Confidence 445688899999999877643 33333 568899999863 444455555554
No 141
>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=96.15 E-value=0.056 Score=45.53 Aligned_cols=39 Identities=18% Similarity=0.346 Sum_probs=26.1
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHH
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVS 282 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~ 282 (381)
+++.+|+|+|||.........+. ..+.+++++.......
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~-~~~~~v~~~~~e~~~~ 40 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIA-TKGGKVVYVDIEEEIE 40 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHH-hcCCEEEEEECCcchH
Confidence 57899999999977643333333 3577777776654443
No 142
>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=96.01 E-value=0.041 Score=60.71 Aligned_cols=37 Identities=16% Similarity=0.164 Sum_probs=32.2
Q ss_pred HhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhH
Q 042872 220 IFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 220 ~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF 257 (381)
.+++ .+++.|++||..++..+-+++.++.|+|||-+-
T Consensus 319 ~~~~-~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l 355 (720)
T TIGR01448 319 KLRK-GLSEEQKQALDTAIQHKVVILTGGPGTGKTTIT 355 (720)
T ss_pred hcCC-CCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHH
Confidence 3555 689999999999998888999999999999765
No 143
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.98 E-value=0.04 Score=56.55 Aligned_cols=40 Identities=20% Similarity=0.275 Sum_probs=25.9
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcC-CcEEEEeCCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFG-IPATFLNSQQ 279 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~g-I~a~~l~g~~ 279 (381)
|+-+++++|||+|||.+...-...+....| .++.+++.+.
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~ 177 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDS 177 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEeccc
Confidence 678899999999999887633333332344 3555555443
No 144
>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=95.95 E-value=0.0084 Score=59.91 Aligned_cols=37 Identities=16% Similarity=0.207 Sum_probs=26.5
Q ss_pred EEEECCCCCCchhhHHHHHHHH--HhhcCCcEEEEeCCCC
Q 042872 243 CFVLLPTGGGKSLCYQDQIITL--NLKFGIPATFLNSQQT 280 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L--~~~~gI~a~~l~g~~~ 280 (381)
+||.+..|+|||++....+..+ . ..+..+..+++...
T Consensus 4 ~~I~G~aGTGKTvla~~l~~~l~~~-~~~~~~~~l~~n~~ 42 (352)
T PF09848_consen 4 ILITGGAGTGKTVLALNLAKELQNS-EEGKKVLYLCGNHP 42 (352)
T ss_pred EEEEecCCcCHHHHHHHHHHHhhcc-ccCCceEEEEecch
Confidence 5788999999999987667666 3 34566666665433
No 145
>COG4889 Predicted helicase [General function prediction only]
Probab=95.89 E-value=0.043 Score=61.81 Aligned_cols=37 Identities=22% Similarity=0.277 Sum_probs=29.8
Q ss_pred CCCCCcHHHHHHHHHHHcC----CCEEEECCCCCCchhhHH
Q 042872 222 GNRAFRPLQHQACKASVAK----QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 222 G~~~fRpiQ~eAI~aiL~G----rDvLviaPTGsGKTLaF~ 258 (381)
.-++|||+|++||.+++.| ..-=++|..|+|||.+-+
T Consensus 158 ~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsL 198 (1518)
T COG4889 158 KPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSL 198 (1518)
T ss_pred CCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHH
Confidence 3457999999999999964 224577888999998877
No 146
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=95.88 E-value=0.018 Score=63.37 Aligned_cols=32 Identities=25% Similarity=0.177 Sum_probs=27.2
Q ss_pred cHHHHHHHHHHHcC---C-CEEEECCCCCCchhhHH
Q 042872 227 RPLQHQACKASVAK---Q-DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 227 RpiQ~eAI~aiL~G---r-DvLviaPTGsGKTLaF~ 258 (381)
++.|..+...++.+ . .+++.||||+|||.+.+
T Consensus 197 ~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl 232 (733)
T COG1203 197 YELQEKALELILRLEKRSLLVVLEAPTGYGKTEASL 232 (733)
T ss_pred hHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHH
Confidence 68899999988853 4 67889999999999987
No 147
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=95.84 E-value=0.0043 Score=70.15 Aligned_cols=53 Identities=21% Similarity=0.309 Sum_probs=34.4
Q ss_pred CCcHHHHHHHHHHHc-CCCEEEECCCCCCchhhHHH-HHHHHHhhcCCcEEEEeC
Q 042872 225 AFRPLQHQACKASVA-KQDCFVLLPTGGGKSLCYQD-QIITLNLKFGIPATFLNS 277 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~-GrDvLviaPTGsGKTLaF~d-Qv~~L~~~~gI~a~~l~g 277 (381)
.|-|+|.+.+..+.. ..+.++.+|||+|||++|.. -+..+...-+-+++.+..
T Consensus 927 ~fn~~q~~if~~~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~p~~kvvyIap 981 (1230)
T KOG0952|consen 927 YFNPIQTQIFHCLYHTDLNFLLGAPTGSGKTVVAELAIFRALSYYPGSKVVYIAP 981 (1230)
T ss_pred ccCCccceEEEEEeecchhhhhcCCccCcchhHHHHHHHHHhccCCCccEEEEcC
Confidence 455677776665543 36789999999999999962 234444333455555543
No 148
>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=95.81 E-value=0.093 Score=42.60 Aligned_cols=37 Identities=24% Similarity=0.359 Sum_probs=23.1
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
++.+++.+|+|+|||.....-...+. ..+.++..+..
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~i~~~~~-~~~~~v~~~~~ 55 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARAIANELF-RPGAPFLYLNA 55 (151)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhh-cCCCCeEEEeh
Confidence 67899999999999966532222222 23555555543
No 149
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.79 E-value=0.039 Score=61.38 Aligned_cols=39 Identities=18% Similarity=0.125 Sum_probs=23.7
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcC-CcEEEEeCCC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFG-IPATFLNSQQ 279 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~g-I~a~~l~g~~ 279 (381)
+=+++++|||+|||-++..-...+....| -++.++..+.
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt 225 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDS 225 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcc
Confidence 34678999999999887633333322334 3555555543
No 150
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=95.73 E-value=0.045 Score=60.78 Aligned_cols=107 Identities=14% Similarity=0.161 Sum_probs=69.8
Q ss_pred CcHHHHHHHHHHH----cCCCEEEECCCCCCch---hhHH----------------------HHHHHHHhh-cCCcEEEE
Q 042872 226 FRPLQHQACKASV----AKQDCFVLLPTGGGKS---LCYQ----------------------DQIITLNLK-FGIPATFL 275 (381)
Q Consensus 226 fRpiQ~eAI~aiL----~GrDvLviaPTGsGKT---LaF~----------------------dQv~~L~~~-~gI~a~~l 275 (381)
+.++|.--|+-+. .+-+.|+.=.-|-||| ++|+ ..++.+.+. -.+++...
T Consensus 400 LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTleNWlrEf~kwCPsl~Ve~Y 479 (941)
T KOG0389|consen 400 LKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTLENWLREFAKWCPSLKVEPY 479 (941)
T ss_pred ccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchhHHHHHHHHHHhCCceEEEec
Confidence 5588988887654 3446677788999999 3444 333444321 13445555
Q ss_pred eCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCcccccc
Q 042872 276 NSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVL 355 (381)
Q Consensus 276 ~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~ 355 (381)
+|.+ .+++.+-..+. +....++||++|--.+.+++.=+..|++.
T Consensus 480 yGSq--~ER~~lR~~i~-----------------------~~~~~ydVllTTY~la~~~kdDRsflk~~----------- 523 (941)
T KOG0389|consen 480 YGSQ--DERRELRERIK-----------------------KNKDDYDVLLTTYNLAASSKDDRSFLKNQ----------- 523 (941)
T ss_pred cCcH--HHHHHHHHHHh-----------------------ccCCCccEEEEEeecccCChHHHHHHHhc-----------
Confidence 5543 44444433333 33448999999999988777666666543
Q ss_pred ccccccccccccCCccEEEEeccccC
Q 042872 356 TTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 356 ~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
++.++|.||+|.+
T Consensus 524 -------------~~n~viyDEgHmL 536 (941)
T KOG0389|consen 524 -------------KFNYVIYDEGHML 536 (941)
T ss_pred -------------cccEEEecchhhh
Confidence 7999999999974
No 151
>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=95.73 E-value=0.056 Score=49.45 Aligned_cols=37 Identities=16% Similarity=0.197 Sum_probs=23.9
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
.++++++.+|||.|||-...--...+. ..|.++.++.
T Consensus 46 ~~~~l~l~G~~G~GKThLa~ai~~~~~-~~g~~v~f~~ 82 (178)
T PF01695_consen 46 NGENLILYGPPGTGKTHLAVAIANEAI-RKGYSVLFIT 82 (178)
T ss_dssp C--EEEEEESTTSSHHHHHHHHHHHHH-HTT--EEEEE
T ss_pred cCeEEEEEhhHhHHHHHHHHHHHHHhc-cCCcceeEee
Confidence 478999999999999966543344444 3678887765
No 152
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=95.63 E-value=0.051 Score=60.76 Aligned_cols=117 Identities=20% Similarity=0.229 Sum_probs=77.4
Q ss_pred HHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH---------------------------HHHHHHH
Q 042872 213 MEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ---------------------------DQIITLN 265 (381)
Q Consensus 213 l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~---------------------------dQv~~L~ 265 (381)
+..+....+|...|. +|.-.- +.-..--++-|.||=||||+.. .+...|-
T Consensus 69 ~REa~~Rvlg~~~~d-VQliG~--i~lh~g~iaEM~TGEGKTL~atlp~ylnaL~gkgVhvVTvNdYLA~RDae~m~~l~ 145 (822)
T COG0653 69 VREASKRVLGMRHFD-VQLLGG--IVLHLGDIAEMRTGEGKTLVATLPAYLNALAGKGVHVVTVNDYLARRDAEWMGPLY 145 (822)
T ss_pred hhHHHHHhcCCChhh-HHHhhh--hhhcCCceeeeecCCchHHHHHHHHHHHhcCCCCcEEeeehHHhhhhCHHHHHHHH
Confidence 445566678886554 555444 3334456889999999998865 5666666
Q ss_pred hhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHH
Q 042872 266 LKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLH 345 (381)
Q Consensus 266 ~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~ 345 (381)
..+|+.+.+...+++..++.... .++|.|.|--.|-- ..++..+.
T Consensus 146 ~~LGlsvG~~~~~m~~~ek~~aY-------------------------------~~DItY~TnnElGF-DYLRDNm~--- 190 (822)
T COG0653 146 EFLGLSVGVILAGMSPEEKRAAY-------------------------------ACDITYGTNNELGF-DYLRDNMV--- 190 (822)
T ss_pred HHcCCceeeccCCCChHHHHHHH-------------------------------hcCceeccccccCc-chhhhhhh---
Confidence 67788888888887777765555 46899999777641 22221111
Q ss_pred hcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 346 RKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 346 ~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
......+|+.+.|-||||++-|
T Consensus 191 --------------~~~ee~vqr~~~faIvDEvDSI 212 (822)
T COG0653 191 --------------TSQEEKVQRGLNFAIVDEVDSI 212 (822)
T ss_pred --------------ccHHHhhhccCCeEEEcchhhe
Confidence 1123456778999999998754
No 153
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.50 E-value=0.082 Score=54.51 Aligned_cols=41 Identities=15% Similarity=0.198 Sum_probs=26.2
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHh---hcCCcEEEEeCCCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNL---KFGIPATFLNSQQT 280 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~---~~gI~a~~l~g~~~ 280 (381)
++-+++++|||+|||-+...-...+.. ..|.++.+++.+.-
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~ 217 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNY 217 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCc
Confidence 356889999999999776533333331 13556766766653
No 154
>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=95.46 E-value=0.099 Score=54.69 Aligned_cols=38 Identities=11% Similarity=0.116 Sum_probs=24.5
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCC
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQT 280 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~ 280 (381)
=+++++|+|+|||-+-..-...+. ..|.++.++..+.-
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~l~-~~G~kV~lV~~D~~ 139 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYYYQ-RKGFKPCLVCADTF 139 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH-HCCCCEEEEcCccc
Confidence 367889999999966543333343 34667777666543
No 155
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=95.42 E-value=0.035 Score=61.87 Aligned_cols=24 Identities=21% Similarity=0.200 Sum_probs=17.0
Q ss_pred HHHHHHHcCCCEEEECCCCCCchh
Q 042872 232 QACKASVAKQDCFVLLPTGGGKSL 255 (381)
Q Consensus 232 eAI~aiL~GrDvLviaPTGsGKTL 255 (381)
+.+.+|-.+-=||+++.||||||-
T Consensus 263 ~IMEaIn~n~vvIIcGeTGsGKTT 286 (1172)
T KOG0926|consen 263 RIMEAINENPVVIICGETGSGKTT 286 (1172)
T ss_pred HHHHHhhcCCeEEEecCCCCCccc
Confidence 344555444456888999999994
No 156
>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=95.42 E-value=0.18 Score=44.61 Aligned_cols=45 Identities=11% Similarity=0.090 Sum_probs=30.0
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
+++.+|+|+|||..-+.-+.... +.|-++..+....+.++....+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~-~~g~~v~~~s~e~~~~~~~~~~ 46 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGL-ARGEPGLYVTLEESPEELIENA 46 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH-HCCCcEEEEECCCCHHHHHHHH
Confidence 68899999999976542233332 4688888887776665543333
No 157
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=95.39 E-value=0.045 Score=49.02 Aligned_cols=66 Identities=17% Similarity=0.299 Sum_probs=40.5
Q ss_pred CcHHHHHHHHHHHcCCC-EEEECCCCCCchhhHHHHHHHH-------HhhcCCcEEEEeCCCCHHHHHHHHHHHHh
Q 042872 226 FRPLQHQACKASVAKQD-CFVLLPTGGGKSLCYQDQIITL-------NLKFGIPATFLNSQQTVSQAAAVLQELRQ 293 (381)
Q Consensus 226 fRpiQ~eAI~aiL~GrD-vLviaPTGsGKTLaF~dQv~~L-------~~~~gI~a~~l~g~~~~~e~~~il~~lr~ 293 (381)
+.+.|.+||..++.... +++.+|.|+|||-+-...+..+ ....+-+++++. .+......++..+..
T Consensus 2 ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~--~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 2 LNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVS--PSNAAVDNILERLKK 75 (236)
T ss_dssp --HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEE--SSHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeec--CCchhHHHHHHHHHh
Confidence 45789999999999999 9999999999995443334444 112333443333 344455556666554
No 158
>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=95.36 E-value=0.078 Score=49.86 Aligned_cols=31 Identities=13% Similarity=0.079 Sum_probs=21.3
Q ss_pred HHHHHHHHHHH----cCC-CEEEECCCCCCchhhHH
Q 042872 228 PLQHQACKASV----AKQ-DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 228 piQ~eAI~aiL----~Gr-DvLviaPTGsGKTLaF~ 258 (381)
+.+.+++..+. .+. -+++.+|+|+|||....
T Consensus 26 ~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~ 61 (269)
T TIGR03015 26 KGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIR 61 (269)
T ss_pred HHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 44555665543 233 57889999999997764
No 159
>PRK10867 signal recognition particle protein; Provisional
Probab=95.34 E-value=0.12 Score=53.97 Aligned_cols=41 Identities=12% Similarity=0.002 Sum_probs=28.0
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHH
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVS 282 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~ 282 (381)
=+++++|+|+|||-+-..-...|....|.++.++..+.-+.
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~ 142 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRP 142 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccch
Confidence 36788999999997665444555533377777777765443
No 160
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=95.34 E-value=0.056 Score=56.29 Aligned_cols=53 Identities=11% Similarity=0.167 Sum_probs=30.8
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhh-cCCcEEEEeCCCCHHHHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLK-FGIPATFLNSQQTVSQAAAVLQEL 291 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~-~gI~a~~l~g~~~~~e~~~il~~l 291 (381)
.|+-+++++|+|+|||.....-...+... +.+.++++..+....+...+++.+
T Consensus 167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER~~EVtDLqrsI 220 (415)
T TIGR00767 167 KGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSV 220 (415)
T ss_pred CCCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCCCccHHHHHHHh
Confidence 68899999999999997654222333222 344444444443333444445444
No 161
>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=95.31 E-value=0.051 Score=53.59 Aligned_cols=18 Identities=28% Similarity=0.468 Sum_probs=15.6
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
..+++.+|+|+|||.+..
T Consensus 41 ~~i~I~G~~GtGKT~l~~ 58 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVTK 58 (365)
T ss_pred CcEEEECCCCCCHHHHHH
Confidence 579999999999997764
No 162
>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=95.27 E-value=0.13 Score=53.65 Aligned_cols=40 Identities=15% Similarity=0.087 Sum_probs=27.1
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCH
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTV 281 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~ 281 (381)
-+++++|+|+|||-+-..-...+....|.++.++..+.-+
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R 140 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYR 140 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccc
Confidence 3688899999999776544444432356777777766543
No 163
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=95.24 E-value=0.075 Score=53.08 Aligned_cols=38 Identities=18% Similarity=0.281 Sum_probs=25.3
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhc-CCcEEEEeCC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKF-GIPATFLNSQ 278 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~-gI~a~~l~g~ 278 (381)
..+++.+|+|+|||.+...-+..+.... ++..+.++..
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~ 94 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQ 94 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECC
Confidence 5799999999999987643334443222 4666666654
No 164
>PRK14974 cell division protein FtsY; Provisional
Probab=95.22 E-value=0.15 Score=51.65 Aligned_cols=39 Identities=15% Similarity=0.101 Sum_probs=26.3
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCH
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTV 281 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~ 281 (381)
=+++++|+|+|||-+-..-...|. ..|.+++++.+++-+
T Consensus 142 vi~~~G~~GvGKTTtiakLA~~l~-~~g~~V~li~~Dt~R 180 (336)
T PRK14974 142 VIVFVGVNGTGKTTTIAKLAYYLK-KNGFSVVIAAGDTFR 180 (336)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEecCCcCc
Confidence 367889999999976543334444 457777777766543
No 165
>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=95.13 E-value=0.18 Score=49.32 Aligned_cols=38 Identities=16% Similarity=0.117 Sum_probs=26.4
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQ 279 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~ 279 (381)
+=+++++|||+|||-+...-...+. ..|-++.++..+.
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~-~~g~~V~li~~D~ 110 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLK-KQGKSVLLAAGDT 110 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHH-hcCCEEEEEeCCC
Confidence 4467789999999977654444454 4567777777664
No 166
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.08 E-value=0.088 Score=55.07 Aligned_cols=39 Identities=18% Similarity=0.251 Sum_probs=25.2
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQT 280 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~ 280 (381)
+.+++++|||+|||-....-...+. ..|.++.++..+.-
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~-~~GkkVglI~aDt~ 280 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFH-GKKKTVGFITTDHS 280 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHH-HcCCcEEEEecCCc
Confidence 5678999999999977653333333 34556666655543
No 167
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=95.04 E-value=0.76 Score=52.64 Aligned_cols=53 Identities=13% Similarity=0.081 Sum_probs=31.5
Q ss_pred CcHHHHHHHHHHHc----C---CCE-EEECCCCCCchhhHHHHHHHHHh---hcC---CcEEEEeCC
Q 042872 226 FRPLQHQACKASVA----K---QDC-FVLLPTGGGKSLCYQDQIITLNL---KFG---IPATFLNSQ 278 (381)
Q Consensus 226 fRpiQ~eAI~aiL~----G---rDv-LviaPTGsGKTLaF~dQv~~L~~---~~g---I~a~~l~g~ 278 (381)
.|.-|.+.|..+|. | ..+ ++.++||+|||++--.-+..|.. ..+ +.++.+++.
T Consensus 759 hREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm 825 (1164)
T PTZ00112 759 CREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGM 825 (1164)
T ss_pred ChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCC
Confidence 35667777666552 2 245 59999999999886522333321 222 445666653
No 168
>PRK06526 transposase; Provisional
Probab=95.03 E-value=0.048 Score=52.81 Aligned_cols=35 Identities=26% Similarity=0.265 Sum_probs=22.9
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEE
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATF 274 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~ 274 (381)
.++++++++|+|+|||-...--...+. ..|.++.+
T Consensus 97 ~~~nlll~Gp~GtGKThLa~al~~~a~-~~g~~v~f 131 (254)
T PRK06526 97 GKENVVFLGPPGTGKTHLAIGLGIRAC-QAGHRVLF 131 (254)
T ss_pred cCceEEEEeCCCCchHHHHHHHHHHHH-HCCCchhh
Confidence 567999999999999966542223333 24555544
No 169
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=95.03 E-value=0.21 Score=50.00 Aligned_cols=39 Identities=13% Similarity=0.034 Sum_probs=25.4
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQ 279 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~ 279 (381)
++=+++++|+|+|||-+...-...+. ..|-++.++..+.
T Consensus 114 ~~vi~lvGpnGsGKTTt~~kLA~~l~-~~g~~V~Li~~D~ 152 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTIGKLAHKYK-AQGKKVLLAAGDT 152 (318)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHH-hcCCeEEEEecCc
Confidence 44567889999999977653333343 3466666666554
No 170
>PRK08727 hypothetical protein; Validated
Probab=95.03 E-value=0.06 Score=50.97 Aligned_cols=15 Identities=27% Similarity=0.341 Sum_probs=12.9
Q ss_pred CEEEECCCCCCchhh
Q 042872 242 DCFVLLPTGGGKSLC 256 (381)
Q Consensus 242 DvLviaPTGsGKTLa 256 (381)
-+++.+|+|+|||-.
T Consensus 43 ~l~l~G~~G~GKThL 57 (233)
T PRK08727 43 WLYLSGPAGTGKTHL 57 (233)
T ss_pred eEEEECCCCCCHHHH
Confidence 489999999999944
No 171
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=95.02 E-value=0.17 Score=53.00 Aligned_cols=39 Identities=15% Similarity=0.191 Sum_probs=26.5
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQT 280 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~ 280 (381)
.-++++++||+|||.+-..-...|. ..|.++.++..+.-
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~~L~-~~g~kV~lV~~D~~ 134 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLARYFK-KKGLKVGLVAADTY 134 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEecCCCC
Confidence 3578899999999977654444454 35667776665543
No 172
>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=94.96 E-value=0.057 Score=43.14 Aligned_cols=19 Identities=21% Similarity=0.380 Sum_probs=16.2
Q ss_pred CCCEEEECCCCCCchhhHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~ 258 (381)
++.+++.+|+|+|||..-.
T Consensus 2 ~~~~~l~G~~G~GKTtl~~ 20 (148)
T smart00382 2 GEVILIVGPPGSGKTTLAR 20 (148)
T ss_pred CCEEEEECCCCCcHHHHHH
Confidence 5678999999999997764
No 173
>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=94.88 E-value=0.057 Score=44.48 Aligned_cols=32 Identities=22% Similarity=0.315 Sum_probs=23.3
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
+++.+|.|+|||... ..+...++.+.+.+.+.
T Consensus 1 ill~G~~G~GKT~l~----~~la~~l~~~~~~i~~~ 32 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLA----RALAQYLGFPFIEIDGS 32 (132)
T ss_dssp EEEESSTTSSHHHHH----HHHHHHTTSEEEEEETT
T ss_pred CEEECcCCCCeeHHH----HHHHhhccccccccccc
Confidence 588999999999764 44555567777666654
No 174
>PRK04296 thymidine kinase; Provisional
Probab=94.72 E-value=0.13 Score=47.31 Aligned_cols=34 Identities=15% Similarity=0.200 Sum_probs=24.9
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
+++.+|.|+|||......+.++. ..|.++.++.+
T Consensus 5 ~litG~~GsGKTT~~l~~~~~~~-~~g~~v~i~k~ 38 (190)
T PRK04296 5 EFIYGAMNSGKSTELLQRAYNYE-ERGMKVLVFKP 38 (190)
T ss_pred EEEECCCCCHHHHHHHHHHHHHH-HcCCeEEEEec
Confidence 57889999999977665565554 35777777755
No 175
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=94.72 E-value=0.29 Score=53.37 Aligned_cols=42 Identities=17% Similarity=0.147 Sum_probs=33.3
Q ss_pred HHHHhCCCC-CcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 217 NVVIFGNRA-FRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 217 ~~~~fG~~~-fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
+...|+... ..+.|++|+-..+..+-+++.++.|+|||-+-.
T Consensus 143 l~~lf~~~~~~~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~ 185 (615)
T PRK10875 143 LDALFGPVTDEVDWQKVAAAVALTRRISVISGGPGTGKTTTVA 185 (615)
T ss_pred HHHhcCcCCCCCHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHH
Confidence 334465542 358999999999999999999999999997653
No 176
>PRK08181 transposase; Validated
Probab=94.71 E-value=0.18 Score=49.50 Aligned_cols=48 Identities=25% Similarity=0.220 Sum_probs=28.3
Q ss_pred HHHHHHHHH----HHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 228 PLQHQACKA----SVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 228 piQ~eAI~a----iL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
+.|..++.. +-.++++++.+|+|+|||-...--...+. ..|.++.++.
T Consensus 90 ~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~-~~g~~v~f~~ 141 (269)
T PRK08181 90 KAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALI-ENGWRVLFTR 141 (269)
T ss_pred HHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHH-HcCCceeeee
Confidence 445544432 23578999999999999943321122223 3466666554
No 177
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=94.69 E-value=0.13 Score=52.54 Aligned_cols=26 Identities=23% Similarity=0.289 Sum_probs=19.4
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHh
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNL 266 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~ 266 (381)
.++++.+|||+|||++-..-+.++..
T Consensus 43 ~n~~iyG~~GTGKT~~~~~v~~~l~~ 68 (366)
T COG1474 43 SNIIIYGPTGTGKTATVKFVMEELEE 68 (366)
T ss_pred ccEEEECCCCCCHhHHHHHHHHHHHh
Confidence 36999999999999987633444443
No 178
>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=94.65 E-value=0.2 Score=47.48 Aligned_cols=52 Identities=17% Similarity=0.191 Sum_probs=33.9
Q ss_pred HHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 237 SVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 237 iL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
+..|.-+++.+|||+|||..-......+....|-+++++.-..+..+....+
T Consensus 27 ~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~~~~~~~r~ 78 (271)
T cd01122 27 LRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEPVVRTARRL 78 (271)
T ss_pred EcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcccCHHHHHHHH
Confidence 3456778999999999996543223333333478888887777665544333
No 179
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=94.64 E-value=0.28 Score=49.97 Aligned_cols=79 Identities=14% Similarity=0.244 Sum_probs=48.2
Q ss_pred EEEECCCCCCchhhHH--------------------------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchh
Q 042872 243 CFVLLPTGGGKSLCYQ--------------------------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLV 296 (381)
Q Consensus 243 vLviaPTGsGKTLaF~--------------------------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~ 296 (381)
+|+++-.|+|||-+.. +|+..+.++.|++++.-..+.+.. .-+.+++..
T Consensus 142 il~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpA--aVafDAi~~--- 216 (340)
T COG0552 142 ILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPA--AVAFDAIQA--- 216 (340)
T ss_pred EEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcH--HHHHHHHHH---
Confidence 5788999999995543 666666666666655432222221 122222221
Q ss_pred hhhhhhhhhhhhhhhhcccCCCCCccEEEE-CccccccCcchHHHHHHHH
Q 042872 297 LSQHYFLHQLIFVLTCASRKDKPSCKLLYV-TPERIVGNQSFSEVLKCLH 345 (381)
Q Consensus 297 ~~~~~~~~~~~~~~~~~~~~~~~~~~IL~a-TPErL~~~~~f~~~L~~L~ 345 (381)
....++++|++ |-|||.+...+.+-|.+..
T Consensus 217 -------------------Akar~~DvvliDTAGRLhnk~nLM~EL~KI~ 247 (340)
T COG0552 217 -------------------AKARGIDVVLIDTAGRLHNKKNLMDELKKIV 247 (340)
T ss_pred -------------------HHHcCCCEEEEeCcccccCchhHHHHHHHHH
Confidence 11225788877 9999998777777776654
No 180
>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=94.62 E-value=0.3 Score=45.35 Aligned_cols=50 Identities=16% Similarity=0.123 Sum_probs=34.7
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
.|+=+++.++||+|||..-+.-+..+....|.+++.+....+..+....+
T Consensus 12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~~~~~r~ 61 (242)
T cd00984 12 PGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKEQLLQRL 61 (242)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHHHHHHHH
Confidence 45567889999999995543334444434488999999888877655444
No 181
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=94.60 E-value=0.22 Score=48.28 Aligned_cols=50 Identities=22% Similarity=0.226 Sum_probs=34.7
Q ss_pred cHHHHHHHHHHH-------cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 227 RPLQHQACKASV-------AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 227 RpiQ~eAI~aiL-------~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
...+..++..+. .++++++.+|+|.|||-...-....+. +.|+++.+++-
T Consensus 85 ~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~sv~f~~~ 141 (254)
T COG1484 85 PGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELL-KAGISVLFITA 141 (254)
T ss_pred cchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEEH
Confidence 344555444443 577999999999999966554455566 56888888763
No 182
>PRK07952 DNA replication protein DnaC; Validated
Probab=94.56 E-value=0.22 Score=48.17 Aligned_cols=48 Identities=15% Similarity=-0.004 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHc-------C-CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 228 PLQHQACKASVA-------K-QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 228 piQ~eAI~aiL~-------G-rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
+.|..|+..+.. + ..+++.+++|+|||-...--...+. ..|.++.++.
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~-~~g~~v~~it 134 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELL-LRGKSVLIIT 134 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEE
Confidence 446556555442 1 4689999999999965543334444 3467776663
No 183
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.55 E-value=0.16 Score=54.45 Aligned_cols=31 Identities=16% Similarity=0.214 Sum_probs=19.5
Q ss_pred cHHHHHHHHHHHcCCC-----EEEECCCCCCchhhH
Q 042872 227 RPLQHQACKASVAKQD-----CFVLLPTGGGKSLCY 257 (381)
Q Consensus 227 RpiQ~eAI~aiL~GrD-----vLviaPTGsGKTLaF 257 (381)
-|+|.|-+.-+-...+ .++.-.-|-|||+--
T Consensus 186 L~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQt 221 (791)
T KOG1002|consen 186 LPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQT 221 (791)
T ss_pred hhhhHHHHHHHHHhhhhhhccceehhhhccchHHHH
Confidence 4788888765544333 344456789998644
No 184
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.39 E-value=0.18 Score=55.72 Aligned_cols=26 Identities=23% Similarity=0.189 Sum_probs=17.8
Q ss_pred HHHHHHHHcCCCEEEECCCCCCchhh
Q 042872 231 HQACKASVAKQDCFVLLPTGGGKSLC 256 (381)
Q Consensus 231 ~eAI~aiL~GrDvLviaPTGsGKTLa 256 (381)
.+-+..+-.++=|++++.||||||--
T Consensus 362 ~~ll~~ir~n~vvvivgETGSGKTTQ 387 (1042)
T KOG0924|consen 362 DQLLSVIRENQVVVIVGETGSGKTTQ 387 (1042)
T ss_pred HHHHHHHhhCcEEEEEecCCCCchhh
Confidence 33344444566678889999999943
No 185
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=94.26 E-value=0.15 Score=57.77 Aligned_cols=28 Identities=21% Similarity=0.179 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHcCCCEEEECCCCCCchh
Q 042872 228 PLQHQACKASVAKQDCFVLLPTGGGKSL 255 (381)
Q Consensus 228 piQ~eAI~aiL~GrDvLviaPTGsGKTL 255 (381)
..+.+.|.++.+..-+++.+.||+|||-
T Consensus 176 ~~r~~Il~~i~~~qVvvIsGeTGcGKTT 203 (924)
T KOG0920|consen 176 KMRDTILDAIEENQVVVISGETGCGKTT 203 (924)
T ss_pred HHHHHHHHHHHhCceEEEeCCCCCCchh
Confidence 4577777777777788888999999994
No 186
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.10 E-value=0.28 Score=50.99 Aligned_cols=40 Identities=15% Similarity=0.078 Sum_probs=26.8
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHH-hhcCCcEEEEeCCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLN-LKFGIPATFLNSQQ 279 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~-~~~gI~a~~l~g~~ 279 (381)
|+-+++++|||+|||-+-..-...+. ...|.++.++..+.
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~ 261 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT 261 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc
Confidence 56788999999999966543333333 23466777777664
No 187
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=94.06 E-value=0.11 Score=59.13 Aligned_cols=106 Identities=17% Similarity=0.227 Sum_probs=65.4
Q ss_pred CCCCCcHHHHHHHHHHHc--CC--CEEEECCCCCCchhh------HH--------------------HHHHHHHhh-cCC
Q 042872 222 GNRAFRPLQHQACKASVA--KQ--DCFVLLPTGGGKSLC------YQ--------------------DQIITLNLK-FGI 270 (381)
Q Consensus 222 G~~~fRpiQ~eAI~aiL~--Gr--DvLviaPTGsGKTLa------F~--------------------dQv~~L~~~-~gI 270 (381)
.-.+++++|..-+.-..+ +. +-|..=.+|-|||+. |+ .....+..+ -.|
T Consensus 391 ~GG~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIsLitYLmE~K~~~GP~LvivPlstL~NW~~Ef~kWaPSv 470 (1157)
T KOG0386|consen 391 QGGELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTISLITYLMEHKQMQGPFLIIVPLSTLVNWSSEFPKWAPSV 470 (1157)
T ss_pred cCCCCchhhhhhhHHHhhccCCCcccccchhcccchHHHHHHHHHHHHHHcccCCCeEEeccccccCCchhhccccccce
Confidence 334788888887766542 33 455666899999953 43 111111100 123
Q ss_pred cEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEEECccccccCcchHHHHHHHHhcCCc
Q 042872 271 PATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLYVTPERIVGNQSFSEVLKCLHRKGSI 350 (381)
Q Consensus 271 ~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~ 350 (381)
..+...| +.++|......++.| +++||++|-|-+...+.+ |...
T Consensus 471 ~~i~YkG--tp~~R~~l~~qir~g-------------------------KFnVLlTtyEyiikdk~l---LsKI------ 514 (1157)
T KOG0386|consen 471 QKIQYKG--TPQQRSGLTKQQRHG-------------------------KFNVLLTTYEYIIKDKAL---LSKI------ 514 (1157)
T ss_pred eeeeeeC--CHHHHhhHHHHHhcc-------------------------cceeeeeeHHHhcCCHHH---Hhcc------
Confidence 3333333 466666677777655 799999999999865444 3322
Q ss_pred cccccccccccccccccCCccEEEEeccccC
Q 042872 351 RLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 351 ~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
+-.++||||.|.|
T Consensus 515 ------------------~W~yMIIDEGHRm 527 (1157)
T KOG0386|consen 515 ------------------SWKYMIIDEGHRM 527 (1157)
T ss_pred ------------------CCcceeecccccc
Confidence 5678999999986
No 188
>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=93.97 E-value=0.16 Score=56.36 Aligned_cols=51 Identities=16% Similarity=0.016 Sum_probs=36.0
Q ss_pred CCcHHHHHHHHHHHcC-CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 225 AFRPLQHQACKASVAK-QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~G-rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
.+++-|++|+..++.+ +=+++.++.|+|||-.. ..+...-...|.++..+.
T Consensus 352 ~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll-~~i~~~~~~~g~~V~~~A 403 (744)
T TIGR02768 352 RLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTML-KAAREAWEAAGYRVIGAA 403 (744)
T ss_pred CCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHH-HHHHHHHHhCCCeEEEEe
Confidence 5789999999999885 45688899999999665 333322224566665553
No 189
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=93.86 E-value=0.25 Score=56.56 Aligned_cols=50 Identities=18% Similarity=-0.001 Sum_probs=36.6
Q ss_pred CCcHHHHHHHHHHHcCCC-EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEE
Q 042872 225 AFRPLQHQACKASVAKQD-CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFL 275 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~GrD-vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l 275 (381)
.+++-|++||..++.+++ +++.++.|+|||-+- ..+..+-...|.+++.+
T Consensus 346 ~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l-~~~~~~~e~~G~~V~~~ 396 (988)
T PRK13889 346 VLSGEQADALAHVTDGRDLGVVVGYAGTGKSAML-GVAREAWEAAGYEVRGA 396 (988)
T ss_pred CCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHH-HHHHHHHHHcCCeEEEe
Confidence 589999999999999876 578899999999763 33333333456665544
No 190
>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=93.81 E-value=0.12 Score=47.42 Aligned_cols=36 Identities=22% Similarity=0.260 Sum_probs=22.7
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
++.+++.+|+|+|||....--...+. ..+.+++.+.
T Consensus 38 ~~~lll~G~~G~GKT~la~~~~~~~~-~~~~~~~~i~ 73 (226)
T TIGR03420 38 DRFLYLWGESGSGKSHLLQAACAAAE-ERGKSAIYLP 73 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH-hcCCcEEEEe
Confidence 46899999999999966532222222 2355555554
No 191
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=93.64 E-value=0.26 Score=48.23 Aligned_cols=40 Identities=18% Similarity=0.233 Sum_probs=26.8
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcC-CcEEEEeCCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFG-IPATFLNSQQ 279 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~g-I~a~~l~g~~ 279 (381)
++-+++++|||+|||-+...-...+....| .++.++..+.
T Consensus 194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~ 234 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT 234 (282)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence 456788999999999776533444443323 6777777664
No 192
>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=93.59 E-value=0.46 Score=45.97 Aligned_cols=34 Identities=21% Similarity=0.389 Sum_probs=30.1
Q ss_pred CCcHHHHHHHHHHHc---CCCEEEECCCCCCchhhHH
Q 042872 225 AFRPLQHQACKASVA---KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~---GrDvLviaPTGsGKTLaF~ 258 (381)
-.||.|.+......+ |++.+..+-.|.|||-+-.
T Consensus 23 liR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsVI~ 59 (229)
T PF12340_consen 23 LIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSVIV 59 (229)
T ss_pred eeeHHHHHHHHHHhCCCCCCCeEeeecccCCccchHH
Confidence 689999999999985 6899999999999996655
No 193
>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=93.25 E-value=0.7 Score=42.10 Aligned_cols=40 Identities=13% Similarity=0.192 Sum_probs=27.1
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCC
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQ 279 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~ 279 (381)
.|+=+++.+|+|+|||..-+.-..... ..|-+++.+....
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~-~~g~~v~yi~~e~ 50 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAVNAA-RQGKKVVYIDTEG 50 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEECCC
Confidence 355678999999999976543233333 3577888887653
No 194
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=93.04 E-value=0.44 Score=49.67 Aligned_cols=51 Identities=27% Similarity=0.385 Sum_probs=38.2
Q ss_pred cCCCEEEECCCCCCchhhHH----------------------------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQ----------------------------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~----------------------------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~ 290 (381)
.++-+.+++|||-|||-+-+ +|+..++..+|++..++... .+-...+..
T Consensus 202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~---~el~~ai~~ 278 (407)
T COG1419 202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSP---KELAEAIEA 278 (407)
T ss_pred cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCH---HHHHHHHHH
Confidence 37788999999999995533 89999998899999888754 344444555
Q ss_pred HH
Q 042872 291 LR 292 (381)
Q Consensus 291 lr 292 (381)
++
T Consensus 279 l~ 280 (407)
T COG1419 279 LR 280 (407)
T ss_pred hh
Confidence 44
No 195
>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=92.96 E-value=0.24 Score=46.93 Aligned_cols=34 Identities=24% Similarity=0.142 Sum_probs=26.4
Q ss_pred CCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 225 AFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
..++.|..++.+++...-+++.+|.|+|||+...
T Consensus 4 p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~ 37 (205)
T PF02562_consen 4 PKNEEQKFALDALLNNDLVIVNGPAGTGKTFLAL 37 (205)
T ss_dssp --SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHH
T ss_pred CCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHH
Confidence 4568899999999987888999999999998876
No 196
>PRK08084 DNA replication initiation factor; Provisional
Probab=92.93 E-value=0.26 Score=46.69 Aligned_cols=36 Identities=14% Similarity=0.232 Sum_probs=21.0
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
+..+++.+|+|+|||-..+-....+. ..|.++..+.
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~~~~~-~~~~~v~y~~ 80 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAACAELS-QRGRAVGYVP 80 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEE
Confidence 35789999999999944321122222 2355555543
No 197
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=92.90 E-value=0.66 Score=50.33 Aligned_cols=31 Identities=16% Similarity=0.126 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 228 PLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 228 piQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
+.|++|+..++.++=+++.++.|+|||-+-.
T Consensus 148 ~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~ 178 (586)
T TIGR01447 148 NWQKVAVALALKSNFSLITGGPGTGKTTTVA 178 (586)
T ss_pred HHHHHHHHHHhhCCeEEEEcCCCCCHHHHHH
Confidence 7899999999999999999999999997754
No 198
>PRK12377 putative replication protein; Provisional
Probab=92.81 E-value=0.75 Score=44.63 Aligned_cols=35 Identities=14% Similarity=-0.006 Sum_probs=22.9
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
..+++.+|+|+|||-...--...+. ..|.++.+++
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l~-~~g~~v~~i~ 136 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRLL-AKGRSVIVVT 136 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHH-HcCCCeEEEE
Confidence 5789999999999944332233444 3467776654
No 199
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=92.79 E-value=1.2 Score=47.74 Aligned_cols=32 Identities=25% Similarity=0.364 Sum_probs=25.4
Q ss_pred CcHHHHHHHHHHHcCCC--EEEECCCCCCchhhH
Q 042872 226 FRPLQHQACKASVAKQD--CFVLLPTGGGKSLCY 257 (381)
Q Consensus 226 fRpiQ~eAI~aiL~GrD--vLviaPTGsGKTLaF 257 (381)
+.+.|.+.+..++.... +||.+|||||||.+-
T Consensus 242 ~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTL 275 (500)
T COG2804 242 MSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTL 275 (500)
T ss_pred CCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHH
Confidence 34778889988887654 678899999999664
No 200
>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=92.78 E-value=0.26 Score=49.78 Aligned_cols=32 Identities=25% Similarity=0.316 Sum_probs=27.3
Q ss_pred CcHHHHHHHHHH------HcCCCEEEECCCCCCchhhH
Q 042872 226 FRPLQHQACKAS------VAKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 226 fRpiQ~eAI~ai------L~GrDvLviaPTGsGKTLaF 257 (381)
+.+-|++++..+ ..+..+++.+|-|+|||..+
T Consensus 2 Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~ 39 (364)
T PF05970_consen 2 LNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLI 39 (364)
T ss_pred CCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHH
Confidence 456788888777 57889999999999999887
No 201
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=92.63 E-value=0.1 Score=53.21 Aligned_cols=33 Identities=33% Similarity=0.560 Sum_probs=23.8
Q ss_pred HcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEE
Q 042872 238 VAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATF 274 (381)
Q Consensus 238 L~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~ 274 (381)
|...++|+++|||||||+..+ .|.+.++++.++
T Consensus 95 L~KSNILLiGPTGsGKTlLAq----TLAk~LnVPFai 127 (408)
T COG1219 95 LSKSNILLIGPTGSGKTLLAQ----TLAKILNVPFAI 127 (408)
T ss_pred eeeccEEEECCCCCcHHHHHH----HHHHHhCCCeee
Confidence 455699999999999999875 344445565443
No 202
>PRK06921 hypothetical protein; Provisional
Probab=92.59 E-value=1.1 Score=43.61 Aligned_cols=37 Identities=24% Similarity=0.315 Sum_probs=23.4
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
+..+++.+|||+|||-...--...+....|..++.+.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~ 153 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP 153 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence 5689999999999994432223333322266666654
No 203
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.48 E-value=0.63 Score=48.63 Aligned_cols=20 Identities=25% Similarity=0.218 Sum_probs=16.0
Q ss_pred cCCCEEEECCCCCCchhhHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~ 258 (381)
.|+-+.+++|||+|||-+..
T Consensus 190 ~g~vi~lvGpnG~GKTTtla 209 (420)
T PRK14721 190 QGGVYALIGPTGVGKTTTTA 209 (420)
T ss_pred CCcEEEEECCCCCCHHHHHH
Confidence 35568889999999997664
No 204
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.46 E-value=0.61 Score=50.40 Aligned_cols=39 Identities=13% Similarity=0.149 Sum_probs=24.2
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhc-CCcEEEEeCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKF-GIPATFLNSQ 278 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~-gI~a~~l~g~ 278 (381)
|+-+.+++|||+|||-+...-...+.... +.++.++..+
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtD 389 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTD 389 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecc
Confidence 56778889999999977643333333222 3456555544
No 205
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.29 E-value=0.4 Score=50.95 Aligned_cols=40 Identities=18% Similarity=0.216 Sum_probs=25.8
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcC-CcEEEEeCCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFG-IPATFLNSQQ 279 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~g-I~a~~l~g~~ 279 (381)
|+=+++++|||+|||-+...-...+....| .++.++..+.
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt 296 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDS 296 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCc
Confidence 344778899999999887644434433344 4666666554
No 206
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=92.21 E-value=0.58 Score=45.15 Aligned_cols=17 Identities=24% Similarity=0.303 Sum_probs=14.5
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
..+++.+|.|+|||...
T Consensus 31 ~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLA 47 (305)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 46899999999999664
No 207
>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=92.16 E-value=0.51 Score=43.71 Aligned_cols=50 Identities=12% Similarity=0.151 Sum_probs=29.6
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
.|.-+++.+|+|+|||.--+.-+.+-....|-+++.+.-..+.++..+.+
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~~~l~~~~ 67 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPPEELIENM 67 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-HHHHHHHH
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCHHHHHHHH
Confidence 46788999999999996543222222212388898888776665543333
No 208
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=92.16 E-value=1.4 Score=41.27 Aligned_cols=49 Identities=16% Similarity=0.087 Sum_probs=31.0
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
.|.=+++.+++|+|||.-....+.... ..|-++..+....+..+....+
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~-~~g~~~~y~~~e~~~~~~~~~~ 72 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGAL-KQGKKVYVITTENTSKSYLKQM 72 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHH-hCCCEEEEEEcCCCHHHHHHHH
Confidence 356788889999999965532222222 3577888887766665543333
No 209
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=92.11 E-value=0.38 Score=46.02 Aligned_cols=17 Identities=18% Similarity=0.100 Sum_probs=14.9
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
.++++.+|+|+|||...
T Consensus 43 ~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVA 59 (261)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 47899999999999765
No 210
>PRK06893 DNA replication initiation factor; Validated
Probab=91.96 E-value=0.31 Score=45.92 Aligned_cols=34 Identities=12% Similarity=-0.019 Sum_probs=19.7
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
-+++.+|+|+|||-.-+--...+. ..+.++.++.
T Consensus 41 ~l~l~G~~G~GKThL~~ai~~~~~-~~~~~~~y~~ 74 (229)
T PRK06893 41 FFYIWGGKSSGKSHLLKAVSNHYL-LNQRTAIYIP 74 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHH-HcCCCeEEee
Confidence 368999999999944331222233 2345555544
No 211
>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=91.93 E-value=1.1 Score=45.88 Aligned_cols=49 Identities=16% Similarity=0.158 Sum_probs=33.0
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
|.=+++.++||.|||.--+.-+.......|.++.++...++..+....+
T Consensus 195 G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~~~~i~~R~ 243 (434)
T TIGR00665 195 SDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSAEQLAMRM 243 (434)
T ss_pred CeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCCHHHHHHHH
Confidence 3446778999999996554334444434578888888888877654333
No 212
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=91.91 E-value=0.52 Score=46.57 Aligned_cols=18 Identities=22% Similarity=0.327 Sum_probs=15.4
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
+.+++.+|+|+|||....
T Consensus 52 ~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred CcEEEECCCCccHHHHHH
Confidence 479999999999997753
No 213
>PRK10865 protein disaggregation chaperone; Provisional
Probab=91.82 E-value=0.43 Score=53.80 Aligned_cols=17 Identities=18% Similarity=0.215 Sum_probs=15.2
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
.++++++|+|.|||..-
T Consensus 200 ~n~lL~G~pGvGKT~l~ 216 (857)
T PRK10865 200 NNPVLIGEPGVGKTAIV 216 (857)
T ss_pred CceEEECCCCCCHHHHH
Confidence 48999999999999775
No 214
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.74 E-value=0.76 Score=47.92 Aligned_cols=40 Identities=18% Similarity=0.101 Sum_probs=25.4
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCC
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQ 279 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~ 279 (381)
.++-+++++|||+|||-+...-...+. ..|.++.++..+.
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~l~-~~g~~V~lItaDt 244 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQLL-KQNRTVGFITTDT 244 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEeCCc
Confidence 366788999999999966652222232 3455666665543
No 215
>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=91.69 E-value=0.8 Score=48.19 Aligned_cols=51 Identities=14% Similarity=0.020 Sum_probs=34.9
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~ 290 (381)
.|.-+++.+|+|+|||..-+.-+.... +.|-+++.+...-+.++.....+.
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f~~~~~-~~ge~~~y~s~eEs~~~i~~~~~~ 312 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKFLENAC-ANKERAILFAYEESRAQLLRNAYS 312 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEEeeCCHHHHHHHHHH
Confidence 467789999999999976542233333 468888888887776665444433
No 216
>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=91.33 E-value=0.97 Score=41.53 Aligned_cols=40 Identities=15% Similarity=0.169 Sum_probs=26.3
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQT 280 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~ 280 (381)
|+=+++.+++|+|||..-+..+..+. ..|-+++.+.....
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~-~~g~~v~yi~~e~~ 58 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETA-GQGKKVAYIDTEGL 58 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEECCCC
Confidence 44578999999999966543333333 35778878766543
No 217
>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=91.32 E-value=0.8 Score=48.10 Aligned_cols=70 Identities=14% Similarity=0.252 Sum_probs=37.9
Q ss_pred CCCCHHHHhhchHHHHHHHHHhC-CCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 200 GTLSFEELQALDDMEFANVVIFG-NRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 200 ~~~~fe~L~~l~~l~~~~~~~fG-~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
...+|+.+..+++....+..... +..+..++..- .-..+.+|+.+|+|+|||... +.+....+++.+.+.
T Consensus 50 ~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g---~~~~~giLL~GppGtGKT~la----~alA~~~~~~~~~i~ 120 (495)
T TIGR01241 50 PKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLG---AKIPKGVLLVGPPGTGKTLLA----KAVAGEAGVPFFSIS 120 (495)
T ss_pred CCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcC---CCCCCcEEEECCCCCCHHHHH----HHHHHHcCCCeeecc
Confidence 35667777666655444433221 11121111110 111357999999999999774 344445667665554
No 218
>PRK06835 DNA replication protein DnaC; Validated
Probab=91.29 E-value=2 Score=43.35 Aligned_cols=37 Identities=16% Similarity=0.161 Sum_probs=23.7
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
++.+++.+|||+|||-...--...+. ..|..++.++.
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~-~~g~~V~y~t~ 219 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELL-DRGKSVIYRTA 219 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHH-HCCCeEEEEEH
Confidence 57899999999999954321223333 34666666543
No 219
>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=91.25 E-value=0.3 Score=51.40 Aligned_cols=46 Identities=22% Similarity=0.190 Sum_probs=29.5
Q ss_pred HHHHHHHHhCCC--CCcHHH----HHHH-HHHHcCCCEEEECCCCCCchhhHH
Q 042872 213 MEFANVVIFGNR--AFRPLQ----HQAC-KASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 213 l~~~~~~~fG~~--~fRpiQ----~eAI-~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
+...+....||. .|+.-| ...+ +-+-.+.|++.++|+|+|||-.|.
T Consensus 175 Wid~LlrSiG~~P~~~~~r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~ 227 (449)
T TIGR02688 175 WIDVLIRSIGYEPEGFEARQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYN 227 (449)
T ss_pred HHHHHHHhcCCCcccCChHHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHH
Confidence 334444557886 344322 2222 444467899999999999998875
No 220
>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=91.23 E-value=0.25 Score=46.54 Aligned_cols=49 Identities=18% Similarity=0.223 Sum_probs=33.6
Q ss_pred CcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCC---cEEEEe
Q 042872 226 FRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGI---PATFLN 276 (381)
Q Consensus 226 fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI---~a~~l~ 276 (381)
+++-|.++|.. ....++|.|+.|||||.+-..-+..|-...++ ++++++
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lT 52 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLT 52 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEE
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecc
Confidence 36789999988 67899999999999999886555554433333 355554
No 221
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=91.12 E-value=1.1 Score=46.93 Aligned_cols=64 Identities=11% Similarity=0.151 Sum_probs=37.0
Q ss_pred HHHHHHHHHHH---cCCCEEEECCCCCCchhhHHHHHHHHHh-hcCCcEEEEeCCCCHHHHHHHHHHH
Q 042872 228 PLQHQACKASV---AKQDCFVLLPTGGGKSLCYQDQIITLNL-KFGIPATFLNSQQTVSQAAAVLQEL 291 (381)
Q Consensus 228 piQ~eAI~aiL---~GrDvLviaPTGsGKTLaF~dQv~~L~~-~~gI~a~~l~g~~~~~e~~~il~~l 291 (381)
+.=..+|..++ .|+..++++|.|.|||.....-...+.. .+.+.+.++..+...++...+.+.+
T Consensus 154 ~~~~rvID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~~EVtdiqrsI 221 (416)
T PRK09376 154 DLSTRIIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSV 221 (416)
T ss_pred ccceeeeeeecccccCceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCchhHHHHHHHHh
Confidence 33444555443 7899999999999999655322233322 3566655444443444544555554
No 222
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=91.11 E-value=1 Score=44.38 Aligned_cols=39 Identities=18% Similarity=0.214 Sum_probs=24.6
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
.+..+++++|+|.|||..+.--...+. ..+.++.++..+
T Consensus 74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~-~~~~~v~~i~~D 112 (270)
T PRK06731 74 EVQTIALIGPTGVGKTTTLAKMAWQFH-GKKKTVGFITTD 112 (270)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEecC
Confidence 346788899999999988752223333 234555555544
No 223
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=90.99 E-value=1.9 Score=45.45 Aligned_cols=38 Identities=21% Similarity=0.357 Sum_probs=25.8
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCC
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQ 279 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~ 279 (381)
=+++++|||+|||-+...-...+....|-++.++..+.
T Consensus 225 vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt 262 (432)
T PRK12724 225 VVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDN 262 (432)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccc
Confidence 37788999999997764333333334567777777665
No 224
>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=90.95 E-value=0.96 Score=51.12 Aligned_cols=28 Identities=11% Similarity=0.194 Sum_probs=20.3
Q ss_pred HHHHHHHHH----c--CCCEEEECCCCCCchhhH
Q 042872 230 QHQACKASV----A--KQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 230 Q~eAI~aiL----~--GrDvLviaPTGsGKTLaF 257 (381)
|.+-|..++ . ..++++++|.|.|||.+-
T Consensus 192 r~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~ 225 (852)
T TIGR03345 192 RDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVV 225 (852)
T ss_pred CHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHH
Confidence 444455544 2 258999999999999775
No 225
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=90.80 E-value=0.44 Score=52.62 Aligned_cols=57 Identities=21% Similarity=0.208 Sum_probs=44.6
Q ss_pred hCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH------------------------HHHHHHHhhcCCcEEEEe
Q 042872 221 FGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ------------------------DQIITLNLKFGIPATFLN 276 (381)
Q Consensus 221 fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~------------------------dQv~~L~~~~gI~a~~l~ 276 (381)
+|+.++..-|..|+.++|...=.|+.+|.|+|||++-. ||+.....+.|++++-+.
T Consensus 406 ~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~tgLKVvRl~ 485 (935)
T KOG1802|consen 406 PNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKTGLKVVRLC 485 (935)
T ss_pred CCchhhchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhcCceEeeee
Confidence 45666667899999999999889999999999996644 665544446788887776
Q ss_pred C
Q 042872 277 S 277 (381)
Q Consensus 277 g 277 (381)
+
T Consensus 486 a 486 (935)
T KOG1802|consen 486 A 486 (935)
T ss_pred h
Confidence 4
No 226
>PRK12608 transcription termination factor Rho; Provisional
Probab=90.77 E-value=0.68 Score=47.92 Aligned_cols=63 Identities=11% Similarity=0.202 Sum_probs=39.6
Q ss_pred HHHHHHHHHHH---cCCCEEEECCCCCCchhhHHHHHHHHHhhc-CCc-EEEEeCCCCHHHHHHHHHHH
Q 042872 228 PLQHQACKASV---AKQDCFVLLPTGGGKSLCYQDQIITLNLKF-GIP-ATFLNSQQTVSQAAAVLQEL 291 (381)
Q Consensus 228 piQ~eAI~aiL---~GrDvLviaPTGsGKTLaF~dQv~~L~~~~-gI~-a~~l~g~~~~~e~~~il~~l 291 (381)
++-..+|..+. .|..+++++|.|+|||..-.+-+..+.... .+. ++++.+.... +....++.+
T Consensus 118 ~~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~-EV~df~~~i 185 (380)
T PRK12608 118 DLSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPE-EVTDMRRSV 185 (380)
T ss_pred chhHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCC-CHHHHHHHH
Confidence 44455787776 688999999999999988755455554322 454 3445555443 334444444
No 227
>PF13245 AAA_19: Part of AAA domain
Probab=90.76 E-value=0.95 Score=36.08 Aligned_cols=45 Identities=27% Similarity=0.308 Sum_probs=27.2
Q ss_pred HHHHHHHcCCCEEE-ECCCCCCchhhHHHHHHHHHhh---cCCcEEEEe
Q 042872 232 QACKASVAKQDCFV-LLPTGGGKSLCYQDQIITLNLK---FGIPATFLN 276 (381)
Q Consensus 232 eAI~aiL~GrDvLv-iaPTGsGKTLaF~dQv~~L~~~---~gI~a~~l~ 276 (381)
+||...+.+..+++ .+|.|+|||-+...-+..+... .+-++.++.
T Consensus 1 ~av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a 49 (76)
T PF13245_consen 1 EAVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLA 49 (76)
T ss_pred CHHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEEC
Confidence 35665555666555 9999999996665444444421 144555554
No 228
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.73 E-value=0.99 Score=48.13 Aligned_cols=15 Identities=20% Similarity=0.138 Sum_probs=13.1
Q ss_pred EEEECCCCCCchhhH
Q 042872 243 CFVLLPTGGGKSLCY 257 (381)
Q Consensus 243 vLviaPTGsGKTLaF 257 (381)
.|+.+|.|.|||.+.
T Consensus 41 ~Lf~Gp~G~GKTt~A 55 (509)
T PRK14958 41 YLFTGTRGVGKTTIS 55 (509)
T ss_pred EEEECCCCCCHHHHH
Confidence 589999999999665
No 229
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=90.70 E-value=0.92 Score=51.84 Aligned_cols=34 Identities=26% Similarity=0.295 Sum_probs=27.6
Q ss_pred CCcHHHHHHHHHHHcCCC-EEEECCCCCCchhhHH
Q 042872 225 AFRPLQHQACKASVAKQD-CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~GrD-vLviaPTGsGKTLaF~ 258 (381)
.+...|++|+-.+|..+| .|+.+-.|+|||-+..
T Consensus 669 ~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~ 703 (1100)
T KOG1805|consen 669 RLNNDQRQALLKALAAEDYALILGMPGTGKTTTIS 703 (1100)
T ss_pred hcCHHHHHHHHHHHhccchheeecCCCCCchhhHH
Confidence 455679999999999887 4777788999996654
No 230
>PF12846 AAA_10: AAA-like domain
Probab=90.65 E-value=0.47 Score=44.41 Aligned_cols=19 Identities=26% Similarity=0.424 Sum_probs=16.2
Q ss_pred CCCEEEECCCCCCchhhHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~ 258 (381)
+++++++++||+|||....
T Consensus 1 n~h~~i~G~tGsGKT~~~~ 19 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLK 19 (304)
T ss_pred CCeEEEECCCCCcHHHHHH
Confidence 3689999999999997765
No 231
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=90.64 E-value=1.1 Score=51.98 Aligned_cols=50 Identities=14% Similarity=-0.015 Sum_probs=35.6
Q ss_pred CCcHHHHHHHHHHHcC-CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEE
Q 042872 225 AFRPLQHQACKASVAK-QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFL 275 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~G-rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l 275 (381)
.+++-|.+||..+..+ +=++++++-|+|||-+.- .+..+-...|.+++.+
T Consensus 381 ~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~-~~~~~~e~~G~~V~g~ 431 (1102)
T PRK13826 381 RLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMK-AAREAWEAAGYRVVGG 431 (1102)
T ss_pred CCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHH-HHHHHHHHcCCeEEEE
Confidence 6889999999988754 446888999999997763 3333333456666544
No 232
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=90.61 E-value=0.67 Score=48.00 Aligned_cols=17 Identities=24% Similarity=0.251 Sum_probs=14.3
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
+.+++.+|+|+|||-..
T Consensus 149 ~~l~l~G~~G~GKThL~ 165 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLL 165 (450)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 45899999999999654
No 233
>PHA02244 ATPase-like protein
Probab=90.59 E-value=0.94 Score=46.96 Aligned_cols=38 Identities=18% Similarity=0.192 Sum_probs=26.8
Q ss_pred HHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 236 ASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 236 aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
.+-.+.++++.+|||+|||... ..+....+.+.+.+++
T Consensus 115 ~l~~~~PVLL~GppGtGKTtLA----~aLA~~lg~pfv~In~ 152 (383)
T PHA02244 115 IVNANIPVFLKGGAGSGKNHIA----EQIAEALDLDFYFMNA 152 (383)
T ss_pred HHhcCCCEEEECCCCCCHHHHH----HHHHHHhCCCEEEEec
Confidence 3446789999999999999664 2333345777766653
No 234
>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=90.59 E-value=1.1 Score=49.07 Aligned_cols=51 Identities=20% Similarity=0.221 Sum_probs=35.3
Q ss_pred CCCcHHHHHHHHHHHcC-CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEE
Q 042872 224 RAFRPLQHQACKASVAK-QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFL 275 (381)
Q Consensus 224 ~~fRpiQ~eAI~aiL~G-rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l 275 (381)
..+.+.|.+||..++.. ..+++.+|+|+|||-+-..-+..+. ..|.++.++
T Consensus 156 ~~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~-~~g~~VLv~ 207 (637)
T TIGR00376 156 PNLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLV-KRGLRVLVT 207 (637)
T ss_pred CCCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHH-HcCCCEEEE
Confidence 35678999999999987 5678999999999965543333333 234444443
No 235
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=90.56 E-value=0.75 Score=50.84 Aligned_cols=17 Identities=18% Similarity=0.212 Sum_probs=15.5
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
.++++++|+|.|||...
T Consensus 204 ~n~lL~G~pG~GKT~l~ 220 (731)
T TIGR02639 204 NNPLLVGEPGVGKTAIA 220 (731)
T ss_pred CceEEECCCCCCHHHHH
Confidence 58999999999999875
No 236
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=90.54 E-value=2.1 Score=39.60 Aligned_cols=38 Identities=16% Similarity=0.241 Sum_probs=25.8
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
|+=+++.+|+|+|||..-+..+.... ..|-+++.+...
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~-~~~~~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAA-KNGKKVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEECC
Confidence 55678999999999855433333333 347788887766
No 237
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.54 E-value=0.65 Score=49.43 Aligned_cols=16 Identities=25% Similarity=0.358 Sum_probs=13.8
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|+.+|.|+|||-+..
T Consensus 43 ~Lf~GP~GtGKTTlAr 58 (484)
T PRK14956 43 YIFFGPRGVGKTTIAR 58 (484)
T ss_pred EEEECCCCCCHHHHHH
Confidence 6999999999997653
No 238
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=90.27 E-value=0.32 Score=49.07 Aligned_cols=31 Identities=16% Similarity=0.258 Sum_probs=25.4
Q ss_pred CcHHHHHHHHHHHc-CCCEEEECCCCCCchhh
Q 042872 226 FRPLQHQACKASVA-KQDCFVLLPTGGGKSLC 256 (381)
Q Consensus 226 fRpiQ~eAI~aiL~-GrDvLviaPTGsGKTLa 256 (381)
+++.|.+.+..++. ++++++.++||||||-.
T Consensus 129 ~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTl 160 (323)
T PRK13833 129 MTEAQASVIRSAIDSRLNIVISGGTGSGKTTL 160 (323)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHH
Confidence 67788888877765 56999999999999944
No 239
>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=90.15 E-value=0.6 Score=44.97 Aligned_cols=44 Identities=18% Similarity=0.186 Sum_probs=31.4
Q ss_pred HHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 231 HQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 231 ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
..++..+..|+.+++.+|+|+|||.+.. .+...+|.+...+++.
T Consensus 12 ~~~l~~l~~g~~vLL~G~~GtGKT~lA~----~la~~lg~~~~~i~~~ 55 (262)
T TIGR02640 12 SRALRYLKSGYPVHLRGPAGTGKTTLAM----HVARKRDRPVMLINGD 55 (262)
T ss_pred HHHHHHHhcCCeEEEEcCCCCCHHHHHH----HHHHHhCCCEEEEeCC
Confidence 4455556689999999999999997753 3333467777666543
No 240
>PRK05973 replicative DNA helicase; Provisional
Probab=90.13 E-value=1.2 Score=43.17 Aligned_cols=53 Identities=17% Similarity=0.128 Sum_probs=34.6
Q ss_pred HHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHH
Q 042872 237 SVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 237 iL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~ 290 (381)
+-.|.=+++.+++|+|||.--+.-+.... ..|-+++++....+..+....+..
T Consensus 61 l~~Gsl~LIaG~PG~GKT~lalqfa~~~a-~~Ge~vlyfSlEes~~~i~~R~~s 113 (237)
T PRK05973 61 LKPGDLVLLGARPGHGKTLLGLELAVEAM-KSGRTGVFFTLEYTEQDVRDRLRA 113 (237)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHH-hcCCeEEEEEEeCCHHHHHHHHHH
Confidence 33566778899999999976543233332 348888888877776554444433
No 241
>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=90.00 E-value=2 Score=40.61 Aligned_cols=50 Identities=16% Similarity=0.204 Sum_probs=33.1
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQ 289 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~ 289 (381)
.|.-+++.+|+|+|||.-.+.-+..-. ..|-+++.+....+..+..+.+.
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~-~~ge~~lyvs~ee~~~~i~~~~~ 69 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPGIYVALEEHPVQVRRNMA 69 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCcEEEEEeeCCHHHHHHHHH
Confidence 367889999999999975432222211 35888988887777665444333
No 242
>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=89.97 E-value=1.6 Score=40.15 Aligned_cols=16 Identities=44% Similarity=0.559 Sum_probs=13.4
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
+++++|||+|||-...
T Consensus 4 ilI~GptGSGKTTll~ 19 (198)
T cd01131 4 VLVTGPTGSGKSTTLA 19 (198)
T ss_pred EEEECCCCCCHHHHHH
Confidence 6789999999996653
No 243
>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=89.94 E-value=0.82 Score=51.46 Aligned_cols=17 Identities=18% Similarity=0.215 Sum_probs=15.3
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
.+.++++|+|.|||...
T Consensus 195 ~n~lL~G~pGvGKT~l~ 211 (852)
T TIGR03346 195 NNPVLIGEPGVGKTAIV 211 (852)
T ss_pred CceEEEcCCCCCHHHHH
Confidence 58999999999999775
No 244
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=89.89 E-value=0.44 Score=54.46 Aligned_cols=36 Identities=17% Similarity=0.151 Sum_probs=22.5
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
+.-++---||||||++-.--...|....+.+.+++.
T Consensus 274 ~~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fv 309 (962)
T COG0610 274 KGGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFV 309 (962)
T ss_pred CceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEE
Confidence 458899999999998865222223323455555444
No 245
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=89.85 E-value=2.1 Score=45.44 Aligned_cols=32 Identities=22% Similarity=0.320 Sum_probs=24.7
Q ss_pred CcHHHHHHHHHHHcCCC--EEEECCCCCCchhhH
Q 042872 226 FRPLQHQACKASVAKQD--CFVLLPTGGGKSLCY 257 (381)
Q Consensus 226 fRpiQ~eAI~aiL~GrD--vLviaPTGsGKTLaF 257 (381)
+.+.|.+.+..++.... +++.+|||||||-+-
T Consensus 226 ~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL 259 (486)
T TIGR02533 226 MSPELLSRFERLIRRPHGIILVTGPTGSGKTTTL 259 (486)
T ss_pred CCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH
Confidence 35778888888776543 678999999999554
No 246
>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=89.85 E-value=4.2 Score=37.30 Aligned_cols=39 Identities=10% Similarity=0.107 Sum_probs=23.4
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcC------CcEEEEeCCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFG------IPATFLNSQQ 279 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~g------I~a~~l~g~~ 279 (381)
|+=+.+.+|+|+|||...+.-+.... ..+ .+++.+.+..
T Consensus 19 g~v~~I~G~~GsGKT~l~~~ia~~~~-~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 19 GRITEIFGEFGSGKTQLCLQLAVEAQ-LPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred CcEEEEeCCCCCChhHHHHHHHHHhh-cccccCCCcceEEEEecCC
Confidence 45578889999999976542222221 223 5666666544
No 247
>PRK04195 replication factor C large subunit; Provisional
Probab=89.79 E-value=1.3 Score=46.31 Aligned_cols=35 Identities=26% Similarity=0.311 Sum_probs=25.5
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
.+-+|+.+|+|+|||... ..+...++..++.++..
T Consensus 39 ~~~lLL~GppG~GKTtla----~ala~el~~~~ielnas 73 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLA----HALANDYGWEVIELNAS 73 (482)
T ss_pred CCeEEEECCCCCCHHHHH----HHHHHHcCCCEEEEccc
Confidence 467999999999999664 34444567777777653
No 248
>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=89.79 E-value=1.5 Score=44.48 Aligned_cols=42 Identities=17% Similarity=0.264 Sum_probs=27.5
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVS 282 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~ 282 (381)
|+=+.+.+|+|+|||...+.-+.... ..|-+++++...-...
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~~~-~~g~~~vyId~E~~~~ 96 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAEAQ-KLGGTVAFIDAEHALD 96 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEECccccHH
Confidence 56678999999999965542233332 4577888776554433
No 249
>PRK08939 primosomal protein DnaI; Reviewed
Probab=89.78 E-value=1 Score=44.91 Aligned_cols=37 Identities=24% Similarity=0.248 Sum_probs=26.0
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
++.+++.+|+|.|||-...--...+. ..|+++.+++-
T Consensus 156 ~~gl~L~G~~G~GKThLa~Aia~~l~-~~g~~v~~~~~ 192 (306)
T PRK08939 156 VKGLYLYGDFGVGKSYLLAAIANELA-KKGVSSTLLHF 192 (306)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEEEH
Confidence 46799999999999955432344444 46888877753
No 250
>CHL00095 clpC Clp protease ATP binding subunit
Probab=89.77 E-value=0.91 Score=50.88 Aligned_cols=32 Identities=13% Similarity=0.169 Sum_probs=23.8
Q ss_pred cHHHHHHHHHHHcC---CCEEEECCCCCCchhhHH
Q 042872 227 RPLQHQACKASVAK---QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 227 RpiQ~eAI~aiL~G---rDvLviaPTGsGKTLaF~ 258 (381)
|.-+.+-+-.+|.. +++++++|+|.|||.+..
T Consensus 184 r~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~ 218 (821)
T CHL00095 184 REKEIERVIQILGRRTKNNPILIGEPGVGKTAIAE 218 (821)
T ss_pred cHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHH
Confidence 45555556666643 589999999999998863
No 251
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=89.75 E-value=0.72 Score=45.20 Aligned_cols=18 Identities=17% Similarity=0.041 Sum_probs=15.6
Q ss_pred CCCEEEECCCCCCchhhH
Q 042872 240 KQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF 257 (381)
+.++++.+|+|+|||.+.
T Consensus 58 ~~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVA 75 (284)
T ss_pred CceEEEEcCCCCCHHHHH
Confidence 458999999999999775
No 252
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.64 E-value=0.65 Score=51.36 Aligned_cols=29 Identities=28% Similarity=0.328 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHcCCCEEEECCCCCCchhh
Q 042872 228 PLQHQACKASVAKQDCFVLLPTGGGKSLC 256 (381)
Q Consensus 228 piQ~eAI~aiL~GrDvLviaPTGsGKTLa 256 (381)
++-.+-+.++-...=+|+.+.||||||--
T Consensus 268 ~ykdell~av~e~QVLiI~GeTGSGKTTQ 296 (902)
T KOG0923|consen 268 PYKDELLKAVKEHQVLIIVGETGSGKTTQ 296 (902)
T ss_pred hhHHHHHHHHHhCcEEEEEcCCCCCcccc
Confidence 34456666666677788889999999953
No 253
>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=89.62 E-value=1.3 Score=44.87 Aligned_cols=42 Identities=19% Similarity=0.240 Sum_probs=27.4
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTV 281 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~ 281 (381)
.|+=+++.+|+|+|||...+.-+.... ..|-+++++...-..
T Consensus 54 ~G~iteI~G~~GsGKTtLaL~~~~~~~-~~g~~v~yId~E~~~ 95 (321)
T TIGR02012 54 RGRIIEIYGPESSGKTTLALHAIAEAQ-KAGGTAAFIDAEHAL 95 (321)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEEcccchh
Confidence 356678999999999966543233333 457778777654433
No 254
>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=89.53 E-value=3.9 Score=36.16 Aligned_cols=37 Identities=16% Similarity=0.166 Sum_probs=25.6
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCC
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQT 280 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~ 280 (381)
+++.+|+|+|||-....-...+. ..|.++.++..+.-
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~-~~g~~v~~i~~D~~ 39 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLK-KKGKKVLLVAADTY 39 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCC
Confidence 46789999999977654444454 34777777766543
No 255
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=89.48 E-value=0.46 Score=52.71 Aligned_cols=33 Identities=21% Similarity=0.150 Sum_probs=23.9
Q ss_pred CcHHHHHHHHHHHc-----CCCEEEECCCCCCchhhHH
Q 042872 226 FRPLQHQACKASVA-----KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 226 fRpiQ~eAI~aiL~-----GrDvLviaPTGsGKTLaF~ 258 (381)
+-|+|..++.-++- +.-.|+.---|-|||++-.
T Consensus 326 LmpHQkaal~Wl~wRE~q~~~GGILaddmGLGKTlsmi 363 (901)
T KOG4439|consen 326 LMPHQKAALRWLLWRESQPPSGGILADDMGLGKTLSMI 363 (901)
T ss_pred cchhhhhhhhhhcccccCCCCCcccccccccccchHHH
Confidence 34899999876652 3345677778999999654
No 256
>PRK10536 hypothetical protein; Provisional
Probab=89.47 E-value=0.39 Score=47.36 Aligned_cols=38 Identities=26% Similarity=0.047 Sum_probs=31.8
Q ss_pred hCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 221 FGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 221 fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
+++..-+..|...+.++..+.-+++.+|+|+|||....
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~ 92 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISA 92 (262)
T ss_pred ccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHH
Confidence 45555668899999999988888999999999997654
No 257
>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=89.38 E-value=0.84 Score=44.29 Aligned_cols=21 Identities=19% Similarity=0.241 Sum_probs=17.7
Q ss_pred HHcCCCEEEECCCCCCchhhH
Q 042872 237 SVAKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 237 iL~GrDvLviaPTGsGKTLaF 257 (381)
+-.|.-+++.+|.|.|||...
T Consensus 13 i~~Gqr~~I~G~~G~GKTTLl 33 (249)
T cd01128 13 IGKGQRGLIVAPPKAGKTTLL 33 (249)
T ss_pred cCCCCEEEEECCCCCCHHHHH
Confidence 347899999999999999654
No 258
>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=89.38 E-value=1.7 Score=44.62 Aligned_cols=44 Identities=18% Similarity=0.128 Sum_probs=29.3
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQ 283 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e 283 (381)
.|.=+++.+++|.|||...+.....+. ..+-+++.+.+..+..+
T Consensus 81 ~GslvLI~G~pG~GKStLllq~a~~~a-~~g~~VlYvs~EEs~~q 124 (372)
T cd01121 81 PGSVILIGGDPGIGKSTLLLQVAARLA-KRGGKVLYVSGEESPEQ 124 (372)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHH-hcCCeEEEEECCcCHHH
Confidence 356678899999999976643333443 34567777777655443
No 259
>PRK10436 hypothetical protein; Provisional
Probab=89.33 E-value=2.1 Score=45.27 Aligned_cols=32 Identities=25% Similarity=0.391 Sum_probs=24.1
Q ss_pred CcHHHHHHHHHHHcC--CCEEEECCCCCCchhhH
Q 042872 226 FRPLQHQACKASVAK--QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 226 fRpiQ~eAI~aiL~G--rDvLviaPTGsGKTLaF 257 (381)
+.+.|.+.+..++.. -=+|+.+|||||||-+.
T Consensus 202 ~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL 235 (462)
T PRK10436 202 MTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTL 235 (462)
T ss_pred cCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHH
Confidence 346688888877653 35889999999999653
No 260
>CHL00176 ftsH cell division protein; Validated
Probab=89.28 E-value=1 Score=49.43 Aligned_cols=71 Identities=11% Similarity=0.203 Sum_probs=37.7
Q ss_pred CCCCHHHHhhchHHHHHHHHHhCC-CCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 200 GTLSFEELQALDDMEFANVVIFGN-RAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 200 ~~~~fe~L~~l~~l~~~~~~~fG~-~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
...+|+.+..+++....+.....+ +.+..+ ..+. ....+.+|+.+|+|+|||... +.+....+++.+.+.+
T Consensus 178 ~~~~f~dv~G~~~~k~~l~eiv~~lk~~~~~--~~~g-~~~p~gVLL~GPpGTGKT~LA----ralA~e~~~p~i~is~ 249 (638)
T CHL00176 178 TGITFRDIAGIEEAKEEFEEVVSFLKKPERF--TAVG-AKIPKGVLLVGPPGTGKTLLA----KAIAGEAEVPFFSISG 249 (638)
T ss_pred CCCCHHhccChHHHHHHHHHHHHHHhCHHHH--hhcc-CCCCceEEEECCCCCCHHHHH----HHHHHHhCCCeeeccH
Confidence 345677766665554444332211 111111 1111 112357999999999999875 3344445677655543
No 261
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=89.26 E-value=0.51 Score=42.89 Aligned_cols=35 Identities=26% Similarity=0.352 Sum_probs=28.5
Q ss_pred CCCCcHHHHHHHHHHHc-CCCEEEECCCCCCchhhH
Q 042872 223 NRAFRPLQHQACKASVA-KQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 223 ~~~fRpiQ~eAI~aiL~-GrDvLviaPTGsGKTLaF 257 (381)
...+.+.|.+.+...+. |+.+++++|||+|||-.+
T Consensus 7 ~g~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll 42 (186)
T cd01130 7 QGTFSPLQAAYLWLAVEARKNILISGGTGSGKTTLL 42 (186)
T ss_pred cCCCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHH
Confidence 34577888888888765 678999999999999665
No 262
>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=89.25 E-value=0.43 Score=47.29 Aligned_cols=33 Identities=21% Similarity=0.313 Sum_probs=25.9
Q ss_pred CCcHHHHHHHHHHHc-CCCEEEECCCCCCchhhH
Q 042872 225 AFRPLQHQACKASVA-KQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~-GrDvLviaPTGsGKTLaF 257 (381)
.+.+.|.+.+..++. ++++++++|||+|||-..
T Consensus 116 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll 149 (299)
T TIGR02782 116 IMTAAQRDVLREAVLARKNILVVGGTGSGKTTLA 149 (299)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH
Confidence 366777777777665 569999999999999553
No 263
>PRK08760 replicative DNA helicase; Provisional
Probab=89.24 E-value=2.6 Score=44.55 Aligned_cols=47 Identities=15% Similarity=0.007 Sum_probs=32.0
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
=+++.++||.|||.-.+..+.......|.+++++...++..+....+
T Consensus 231 LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs~~ql~~Rl 277 (476)
T PRK08760 231 LIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSASQLAMRL 277 (476)
T ss_pred eEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCCHHHHHHHH
Confidence 34667899999997665444444434577888888888876654443
No 264
>PRK09354 recA recombinase A; Provisional
Probab=89.19 E-value=2.2 Score=43.74 Aligned_cols=42 Identities=19% Similarity=0.257 Sum_probs=27.4
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVS 282 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~ 282 (381)
|+=+.+.+|+|+|||..-+.-+.... ..|-+++.+...-+..
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~-~~G~~~~yId~E~s~~ 101 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQ-KAGGTAAFIDAEHALD 101 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEECCccchH
Confidence 56678999999999965532222222 4577888876655444
No 265
>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=89.08 E-value=1.2 Score=49.24 Aligned_cols=73 Identities=14% Similarity=0.145 Sum_probs=40.6
Q ss_pred CCCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 200 GTLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 200 ~~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
...+|+.+..+++....+.....+.-..|...+.+ .+-.++.+++.+|+|+|||... ..+....+.+.+.+++
T Consensus 173 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~-gi~~~~giLL~GppGtGKT~la----raia~~~~~~~i~i~~ 245 (733)
T TIGR01243 173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHL-GIEPPKGVLLYGPPGTGKTLLA----KAVANEAGAYFISING 245 (733)
T ss_pred CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhc-CCCCCceEEEECCCCCChHHHH----HHHHHHhCCeEEEEec
Confidence 45678888877776666555433221111111111 0123578999999999999664 2233334555555543
No 266
>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=89.04 E-value=3 Score=40.56 Aligned_cols=32 Identities=25% Similarity=0.356 Sum_probs=24.0
Q ss_pred CcHHHHHHHHHHHcC--CCEEEECCCCCCchhhH
Q 042872 226 FRPLQHQACKASVAK--QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 226 fRpiQ~eAI~aiL~G--rDvLviaPTGsGKTLaF 257 (381)
+.+.|.+.+..++.. .-+++.+|||+|||-..
T Consensus 64 ~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l 97 (264)
T cd01129 64 LKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTL 97 (264)
T ss_pred CCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHH
Confidence 356788888777653 35789999999999543
No 267
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=89.00 E-value=1.1 Score=50.05 Aligned_cols=19 Identities=21% Similarity=0.300 Sum_probs=16.4
Q ss_pred CCCEEEECCCCCCchhhHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~ 258 (381)
..++|+++|+|+|||....
T Consensus 207 ~~n~LLvGppGvGKT~lae 225 (758)
T PRK11034 207 KNNPLLVGESGVGKTAIAE 225 (758)
T ss_pred CCCeEEECCCCCCHHHHHH
Confidence 3599999999999998863
No 268
>PRK08116 hypothetical protein; Validated
Probab=88.99 E-value=2.5 Score=41.16 Aligned_cols=34 Identities=24% Similarity=0.259 Sum_probs=23.2
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
-+++.+++|+|||....--...+.. .+.++++++
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~-~~~~v~~~~ 149 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIE-KGVPVIFVN 149 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEEE
Confidence 4999999999999655423344442 377776665
No 269
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=88.97 E-value=1.4 Score=49.61 Aligned_cols=15 Identities=20% Similarity=0.129 Sum_probs=12.8
Q ss_pred EEEECCCCCCchhhH
Q 042872 243 CFVLLPTGGGKSLCY 257 (381)
Q Consensus 243 vLviaPTGsGKTLaF 257 (381)
+|+.+|.|.|||.+.
T Consensus 41 yLFtGPpGvGKTTlA 55 (830)
T PRK07003 41 YLFTGTRGVGKTTLS 55 (830)
T ss_pred EEEECCCCCCHHHHH
Confidence 588999999999654
No 270
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=88.89 E-value=2.1 Score=46.15 Aligned_cols=31 Identities=29% Similarity=0.384 Sum_probs=24.2
Q ss_pred cHHHHHHHHHHHcC--CCEEEECCCCCCchhhH
Q 042872 227 RPLQHQACKASVAK--QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 227 RpiQ~eAI~aiL~G--rDvLviaPTGsGKTLaF 257 (381)
.|.|.+.+..++.. --+|+.+|||||||-+.
T Consensus 301 ~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl 333 (564)
T TIGR02538 301 EPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSL 333 (564)
T ss_pred CHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHH
Confidence 47788888877654 35789999999999654
No 271
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=88.86 E-value=0.46 Score=47.68 Aligned_cols=31 Identities=32% Similarity=0.403 Sum_probs=25.4
Q ss_pred CcHHHHHHHHHHH-cCCCEEEECCCCCCchhh
Q 042872 226 FRPLQHQACKASV-AKQDCFVLLPTGGGKSLC 256 (381)
Q Consensus 226 fRpiQ~eAI~aiL-~GrDvLviaPTGsGKTLa 256 (381)
+.+.|.+.+..++ .+++++++++||+|||-.
T Consensus 133 ~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTl 164 (319)
T PRK13894 133 MTAAQREAIIAAVRAHRNILVIGGTGSGKTTL 164 (319)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHH
Confidence 6678888888765 567999999999999943
No 272
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=88.72 E-value=1.3 Score=45.16 Aligned_cols=37 Identities=14% Similarity=0.069 Sum_probs=21.7
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhh-cCCcEEEEeC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLK-FGIPATFLNS 277 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~-~gI~a~~l~g 277 (381)
..+++.+|+|+|||-.-.--...+... .+.+++.+++
T Consensus 137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence 357899999999996543122223221 2455655543
No 273
>PRK11823 DNA repair protein RadA; Provisional
Probab=88.70 E-value=1.9 Score=45.16 Aligned_cols=44 Identities=18% Similarity=0.145 Sum_probs=29.3
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQ 283 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e 283 (381)
.|.=+++.+++|+|||..-+.....+. ..|-+++.+.+..+..+
T Consensus 79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a-~~g~~vlYvs~Ees~~q 122 (446)
T PRK11823 79 PGSVVLIGGDPGIGKSTLLLQVAARLA-AAGGKVLYVSGEESASQ 122 (446)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEEccccHHH
Confidence 356678999999999965532233333 34778888877655543
No 274
>CHL00181 cbbX CbbX; Provisional
Probab=88.69 E-value=0.99 Score=44.45 Aligned_cols=19 Identities=16% Similarity=0.013 Sum_probs=15.8
Q ss_pred CCCEEEECCCCCCchhhHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~ 258 (381)
|-++++.+|+|+|||.+..
T Consensus 59 ~~~ill~G~pGtGKT~lAr 77 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVAL 77 (287)
T ss_pred CceEEEECCCCCCHHHHHH
Confidence 4468999999999997763
No 275
>PHA02542 41 41 helicase; Provisional
Probab=88.67 E-value=2.8 Score=44.42 Aligned_cols=45 Identities=16% Similarity=0.110 Sum_probs=32.5
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
+++.+++|.|||...+....... ..|-+++++...++..+....+
T Consensus 193 iiIaarPgmGKTtfalniA~~~a-~~g~~Vl~fSLEM~~~ql~~Rl 237 (473)
T PHA02542 193 NVLLAGVNVGKSLGLCSLAADYL-QQGYNVLYISMEMAEEVIAKRI 237 (473)
T ss_pred EEEEcCCCccHHHHHHHHHHHHH-hcCCcEEEEeccCCHHHHHHHH
Confidence 56678999999977665554544 4688888888888877654444
No 276
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=88.65 E-value=0.73 Score=48.25 Aligned_cols=16 Identities=25% Similarity=0.339 Sum_probs=13.3
Q ss_pred CCEEEECCCCCCchhh
Q 042872 241 QDCFVLLPTGGGKSLC 256 (381)
Q Consensus 241 rDvLviaPTGsGKTLa 256 (381)
+.+++.+++|+|||-.
T Consensus 142 npl~i~G~~G~GKTHL 157 (450)
T PRK14087 142 NPLFIYGESGMGKTHL 157 (450)
T ss_pred CceEEECCCCCcHHHH
Confidence 4588999999999943
No 277
>PRK09183 transposase/IS protein; Provisional
Probab=88.55 E-value=1.2 Score=43.03 Aligned_cols=39 Identities=21% Similarity=0.198 Sum_probs=24.7
Q ss_pred HHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 237 SVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 237 iL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
+-.|.++++.+|+|+|||-...--...+. ..|.++.++.
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~-~~G~~v~~~~ 137 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLAIALGYEAV-RAGIKVRFTT 137 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHHHHHHHHHH-HcCCeEEEEe
Confidence 34678999999999999955421112222 3466666554
No 278
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.44 E-value=0.61 Score=50.28 Aligned_cols=16 Identities=25% Similarity=0.306 Sum_probs=13.6
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|+.+|.|.|||.+..
T Consensus 41 ~Lf~Gp~G~GKTtlA~ 56 (585)
T PRK14950 41 YLFTGPRGVGKTSTAR 56 (585)
T ss_pred EEEECCCCCCHHHHHH
Confidence 5899999999997653
No 279
>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=88.42 E-value=3.7 Score=39.00 Aligned_cols=48 Identities=19% Similarity=0.226 Sum_probs=33.2
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHH
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~ 290 (381)
+++.++||.|||...+.-+..+....|.++.++...++..+....+-.
T Consensus 22 ~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~~~l~~R~la 69 (259)
T PF03796_consen 22 TVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSEEELAARLLA 69 (259)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-HHHHHHHHHH
T ss_pred EEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCHHHHHHHHHH
Confidence 566789999999776544555553446899999998887765544433
No 280
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=88.38 E-value=4.3 Score=38.48 Aligned_cols=50 Identities=16% Similarity=0.134 Sum_probs=32.5
Q ss_pred HcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 238 VAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 238 L~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
-.|.-+++.+|+|+|||...+.-+..+. +.|.+++.+....+..+....+
T Consensus 22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~~-~~g~~~~yi~~e~~~~~~~~~~ 71 (230)
T PRK08533 22 PAGSLILIEGDESTGKSILSQRLAYGFL-QNGYSVSYVSTQLTTTEFIKQM 71 (230)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEEeCCCCHHHHHHHH
Confidence 3477889999999999976432233333 3577787777666665543333
No 281
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=88.26 E-value=2.5 Score=47.43 Aligned_cols=34 Identities=26% Similarity=0.325 Sum_probs=24.5
Q ss_pred CCcHHHHHHHHHHH---cCC-------CEEEECCCCCCchhhHH
Q 042872 225 AFRPLQHQACKASV---AKQ-------DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL---~Gr-------DvLviaPTGsGKTLaF~ 258 (381)
..||+|+|.+.-+- .|. -+|..=..|+|||+-..
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~I 281 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCI 281 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHH
Confidence 57899999998764 232 35566678999996543
No 282
>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=88.21 E-value=3.7 Score=39.60 Aligned_cols=42 Identities=21% Similarity=0.192 Sum_probs=27.4
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTV 281 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~ 281 (381)
.|.=+++.+|+|+|||..-+.-+.... ..|-+++.+....+.
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a-~~Ge~vlyis~Ee~~ 76 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAVTQA-SRGNPVLFVTVESPA 76 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHH-hCCCcEEEEEecCCc
Confidence 466789999999999965432222222 357888877765443
No 283
>PRK09165 replicative DNA helicase; Provisional
Probab=88.14 E-value=3.2 Score=44.09 Aligned_cols=50 Identities=12% Similarity=0.022 Sum_probs=31.9
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhh--------------cCCcEEEEeCCCCHHHHHHHHHH
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLK--------------FGIPATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~--------------~gI~a~~l~g~~~~~e~~~il~~ 290 (381)
.=+++.++||.|||.-.+......... .|.+++++...++..+....+-.
T Consensus 218 ~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~~ql~~R~la 281 (497)
T PRK09165 218 DLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSAEQLATRILS 281 (497)
T ss_pred ceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCHHHHHHHHHH
Confidence 335778999999996654333333222 25678888888887765544433
No 284
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=88.07 E-value=2.3 Score=44.04 Aligned_cols=71 Identities=8% Similarity=0.039 Sum_probs=39.7
Q ss_pred CCCCCHHHHhhchHHHHHHHHHhC--CCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 199 HGTLSFEELQALDDMEFANVVIFG--NRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 199 ~~~~~fe~L~~l~~l~~~~~~~fG--~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
.+..+|..+..++.....+....- +..+.-++.-- +-..+.+|+.+|+|+|||+.. ..+....+.....+.
T Consensus 139 ~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~G---l~~pkgvLL~GppGTGKT~LA----kalA~~l~~~fi~i~ 211 (398)
T PTZ00454 139 KPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIG---IDPPRGVLLYGPPGTGKTMLA----KAVAHHTTATFIRVV 211 (398)
T ss_pred CCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcC---CCCCceEEEECCCCCCHHHHH----HHHHHhcCCCEEEEe
Confidence 345678888777765555544322 22221111111 113578999999999999875 333334455554443
No 285
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=88.00 E-value=0.75 Score=48.83 Aligned_cols=34 Identities=35% Similarity=0.545 Sum_probs=25.0
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
...++|+++|||+|||+..+ .|.+-++++.+++.
T Consensus 225 eKSNvLllGPtGsGKTllaq----TLAr~ldVPfaIcD 258 (564)
T KOG0745|consen 225 EKSNVLLLGPTGSGKTLLAQ----TLARVLDVPFAICD 258 (564)
T ss_pred ecccEEEECCCCCchhHHHH----HHHHHhCCCeEEec
Confidence 34589999999999999874 34444577766654
No 286
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=87.97 E-value=1.5 Score=44.06 Aligned_cols=57 Identities=16% Similarity=0.169 Sum_probs=31.3
Q ss_pred CCCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhH
Q 042872 200 GTLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 200 ~~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF 257 (381)
....++.+..+++....+...+.+.-..|.-...+. +-..+.+++.+|+|+|||...
T Consensus 117 p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g-~~~p~gvLL~GppGtGKT~la 173 (364)
T TIGR01242 117 PNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVG-IEPPKGVLLYGPPGTGKTLLA 173 (364)
T ss_pred CCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcC-CCCCceEEEECCCCCCHHHHH
Confidence 455677777776655555443322111111111110 112356999999999999775
No 287
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=87.94 E-value=1.8 Score=47.29 Aligned_cols=50 Identities=20% Similarity=0.201 Sum_probs=37.1
Q ss_pred CCcHHHHHHHHHHHcCCCE-EEECCCCCCchhhHHHHHHHHHhhcCCcEEEE
Q 042872 225 AFRPLQHQACKASVAKQDC-FVLLPTGGGKSLCYQDQIITLNLKFGIPATFL 275 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~GrDv-LviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l 275 (381)
.+-+-|.+|+..+++.+++ ++.+|.|+|||.+-.+-+..+- +.+-+++++
T Consensus 185 ~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlv-k~~k~VLVc 235 (649)
T KOG1803|consen 185 NLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLV-KQKKRVLVC 235 (649)
T ss_pred cccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHHH-HcCCeEEEE
Confidence 4568899999999999776 5669999999988765555554 345555544
No 288
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=87.93 E-value=2.7 Score=37.42 Aligned_cols=54 Identities=19% Similarity=0.142 Sum_probs=33.1
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhh---------cCCcEEEEeCCCCHHHHHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLK---------FGIPATFLNSQQTVSQAAAVLQELR 292 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~---------~gI~a~~l~g~~~~~e~~~il~~lr 292 (381)
.|.=+++.+|+|+|||..-++.+..+... .+.+++.+....+..+....+..+.
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~~ 93 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRALL 93 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHHH
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHHh
Confidence 45558899999999997665444444321 3467888888887766666665544
No 289
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=87.87 E-value=1.2 Score=48.63 Aligned_cols=17 Identities=18% Similarity=0.134 Sum_probs=14.4
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
-.|+.+|.|.|||.+..
T Consensus 48 a~L~~Gp~GvGKTt~Ar 64 (598)
T PRK09111 48 AFMLTGVRGVGKTTTAR 64 (598)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 58999999999997653
No 290
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=87.85 E-value=2.3 Score=46.17 Aligned_cols=43 Identities=28% Similarity=0.432 Sum_probs=33.6
Q ss_pred HHhCCCCCcHHHHHHHHHHH----cCCCEEEECCCCCCchhhHHHHH
Q 042872 219 VIFGNRAFRPLQHQACKASV----AKQDCFVLLPTGGGKSLCYQDQI 261 (381)
Q Consensus 219 ~~fG~~~fRpiQ~eAI~aiL----~GrDvLviaPTGsGKTLaF~dQv 261 (381)
.+|.|....|-|.+=+..+- ++-.+|+-||+|+|||++.+..+
T Consensus 10 v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli 56 (755)
T KOG1131|consen 10 VYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLI 56 (755)
T ss_pred EecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHH
Confidence 35889888999988766553 35689999999999998876333
No 291
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=87.79 E-value=1.2 Score=50.39 Aligned_cols=37 Identities=32% Similarity=0.317 Sum_probs=30.0
Q ss_pred hCCCCCcHHHHHHHHHHH----cCCCEEEECCCCCCchhhHH
Q 042872 221 FGNRAFRPLQHQACKASV----AKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 221 fG~~~fRpiQ~eAI~aiL----~GrDvLviaPTGsGKTLaF~ 258 (381)
|-| .|+|.|..-+..++ .+.+.++-.|||+||||+-+
T Consensus 18 fP~-qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLL 58 (945)
T KOG1132|consen 18 FPF-QPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLL 58 (945)
T ss_pred ccC-CcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHH
Confidence 566 46889988877776 45689999999999998866
No 292
>PRK04328 hypothetical protein; Provisional
Probab=87.66 E-value=5.2 Score=38.31 Aligned_cols=50 Identities=18% Similarity=0.298 Sum_probs=31.7
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQ 289 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~ 289 (381)
.|.-+++.+|+|+|||.--+.-+.. ....|-+++.+.-..+..+....++
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~-~~~~ge~~lyis~ee~~~~i~~~~~ 71 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWN-GLQMGEPGVYVALEEHPVQVRRNMR 71 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHH-HHhcCCcEEEEEeeCCHHHHHHHHH
Confidence 4677899999999998543222222 1135888888877666665433333
No 293
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=87.66 E-value=2 Score=47.79 Aligned_cols=17 Identities=18% Similarity=0.173 Sum_probs=14.3
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
-+|+.+|.|.|||.+..
T Consensus 40 a~Lf~GP~GvGKTTlAr 56 (709)
T PRK08691 40 AYLLTGTRGVGKTTIAR 56 (709)
T ss_pred EEEEECCCCCcHHHHHH
Confidence 47999999999997653
No 294
>TIGR03743 SXT_TraD conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains.
Probab=87.63 E-value=2.1 Score=47.00 Aligned_cols=50 Identities=18% Similarity=0.085 Sum_probs=33.0
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~ 290 (381)
.++++++++||+|||..+.--+.... ..|-.++++.+..+.+-...+...
T Consensus 176 ~~H~lv~G~TGsGKT~l~~~l~~q~i-~~g~~viv~DpKgD~~l~~~~~~~ 225 (634)
T TIGR03743 176 VGHTLVLGTTGVGKTRLAELLITQDI-RRGDVVIVIDPKGDADLKRRMRAE 225 (634)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEeCCCchHHHHHHHHH
Confidence 47999999999999988742233333 357778888776654433333333
No 295
>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=87.63 E-value=1.7 Score=42.38 Aligned_cols=32 Identities=16% Similarity=0.258 Sum_probs=20.5
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
++|..+|.|.|||-... -+...++.....+.|
T Consensus 52 h~lf~GPPG~GKTTLA~----IIA~e~~~~~~~~sg 83 (233)
T PF05496_consen 52 HMLFYGPPGLGKTTLAR----IIANELGVNFKITSG 83 (233)
T ss_dssp EEEEESSTTSSHHHHHH----HHHHHCT--EEEEEC
T ss_pred eEEEECCCccchhHHHH----HHHhccCCCeEeccc
Confidence 58999999999995542 123346666666655
No 296
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=87.59 E-value=0.55 Score=50.37 Aligned_cols=45 Identities=24% Similarity=0.401 Sum_probs=35.8
Q ss_pred CCCchhhHH------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 250 GGGKSLCYQ------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 250 GsGKTLaF~------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
-.||+++|. +++...-...++++..++|+.+..+|..+|+.++.|
T Consensus 340 ~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~FreG 390 (519)
T KOG0331|consen 340 SEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREG 390 (519)
T ss_pred CCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhcccC
Confidence 458999998 444433334578999999999999999999998877
No 297
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=87.45 E-value=2.4 Score=40.66 Aligned_cols=20 Identities=20% Similarity=0.192 Sum_probs=16.3
Q ss_pred cCCC-EEEECCCCCCchhhHH
Q 042872 239 AKQD-CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 239 ~GrD-vLviaPTGsGKTLaF~ 258 (381)
.+.. +|+.+|.|.|||.+..
T Consensus 22 ~~~halL~~Gp~G~Gktt~a~ 42 (325)
T COG0470 22 RLPHALLFYGPPGVGKTTAAL 42 (325)
T ss_pred CCCceeeeeCCCCCCHHHHHH
Confidence 3456 8999999999997764
No 298
>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=87.43 E-value=1.3 Score=44.66 Aligned_cols=17 Identities=12% Similarity=0.333 Sum_probs=15.3
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
.+++++++||-|||.+.
T Consensus 62 p~lLivG~snnGKT~Ii 78 (302)
T PF05621_consen 62 PNLLIVGDSNNGKTMII 78 (302)
T ss_pred CceEEecCCCCcHHHHH
Confidence 48999999999999875
No 299
>PRK05595 replicative DNA helicase; Provisional
Probab=87.39 E-value=3.8 Score=42.58 Aligned_cols=46 Identities=15% Similarity=0.085 Sum_probs=32.1
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
+++.|+||.|||...+..+..+....|-++.++...++..+....+
T Consensus 204 iviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlEms~~~l~~R~ 249 (444)
T PRK05595 204 ILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLEMSKEQLAYKL 249 (444)
T ss_pred EEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecCCCHHHHHHHH
Confidence 4567899999997665445444434578888888888876654443
No 300
>PLN03025 replication factor C subunit; Provisional
Probab=87.29 E-value=3.4 Score=40.73 Aligned_cols=17 Identities=24% Similarity=0.382 Sum_probs=14.2
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
..+++.+|.|+|||-..
T Consensus 35 ~~lll~Gp~G~GKTtla 51 (319)
T PLN03025 35 PNLILSGPPGTGKTTSI 51 (319)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 36899999999999554
No 301
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=87.23 E-value=1 Score=46.33 Aligned_cols=18 Identities=33% Similarity=0.648 Sum_probs=16.4
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
.++++++|||||||..|.
T Consensus 45 ~h~lvig~tgSGKt~~~v 62 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFV 62 (469)
T ss_pred eEEEEEeCCCCCccceee
Confidence 479999999999999886
No 302
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=87.21 E-value=2.1 Score=43.03 Aligned_cols=19 Identities=37% Similarity=0.420 Sum_probs=15.8
Q ss_pred cCCCEEEECCCCCCchhhH
Q 042872 239 AKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF 257 (381)
.+.-+++.+|||+|||-..
T Consensus 121 ~~g~ili~G~tGSGKTT~l 139 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTL 139 (343)
T ss_pred cCcEEEEECCCCCCHHHHH
Confidence 3567899999999999665
No 303
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=87.01 E-value=1.2 Score=52.03 Aligned_cols=30 Identities=17% Similarity=0.150 Sum_probs=21.7
Q ss_pred CcHHHHHHHHHHH----cCCCEEEECCCCCCchh
Q 042872 226 FRPLQHQACKASV----AKQDCFVLLPTGGGKSL 255 (381)
Q Consensus 226 fRpiQ~eAI~aiL----~GrDvLviaPTGsGKTL 255 (381)
+|.+|..-+.-+. ++-|-|+.-.-|-|||+
T Consensus 616 LReYQkiGLdWLatLYeknlNGILADEmGLGKTI 649 (1958)
T KOG0391|consen 616 LREYQKIGLDWLATLYEKNLNGILADEMGLGKTI 649 (1958)
T ss_pred HHHHHHhhHHHHHHHHHhcccceehhhhcccchh
Confidence 5678888776653 23366777789999994
No 304
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=87.00 E-value=2.3 Score=43.49 Aligned_cols=70 Identities=10% Similarity=0.095 Sum_probs=36.8
Q ss_pred CCCCHHHHhhchHHHHHHHHHhCC--CCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 200 GTLSFEELQALDDMEFANVVIFGN--RAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 200 ~~~~fe~L~~l~~l~~~~~~~fG~--~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
...+++.+..+++....+....-+ ..+..++.-- +-.-+.+|+.+|+|+|||+.. ..+....+.+.+.+.
T Consensus 126 p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g---~~~p~gvLL~GppGtGKT~lA----kaia~~~~~~~i~v~ 197 (389)
T PRK03992 126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVG---IEPPKGVLLYGPPGTGKTLLA----KAVAHETNATFIRVV 197 (389)
T ss_pred CCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcC---CCCCCceEEECCCCCChHHHH----HHHHHHhCCCEEEee
Confidence 356677777776655444433221 1111111000 011357999999999999775 233334455555443
No 305
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=86.96 E-value=1.6 Score=40.36 Aligned_cols=37 Identities=19% Similarity=0.246 Sum_probs=22.5
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
++.+++.+|+|+|||-...--...+. ..+.++.++..
T Consensus 42 ~~~~~l~G~~G~GKT~La~ai~~~~~-~~~~~~~~i~~ 78 (227)
T PRK08903 42 DRFFYLWGEAGSGRSHLLQALVADAS-YGGRNARYLDA 78 (227)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEEeh
Confidence 35799999999999944321112222 34566666654
No 306
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=86.96 E-value=0.97 Score=48.67 Aligned_cols=16 Identities=25% Similarity=0.318 Sum_probs=13.5
Q ss_pred CEEEECCCCCCchhhH
Q 042872 242 DCFVLLPTGGGKSLCY 257 (381)
Q Consensus 242 DvLviaPTGsGKTLaF 257 (381)
-.|+.+|.|+|||.+.
T Consensus 40 ayLf~Gp~GtGKTt~A 55 (559)
T PRK05563 40 AYLFSGPRGTGKTSAA 55 (559)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3688999999999765
No 307
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=86.93 E-value=0.96 Score=41.88 Aligned_cols=39 Identities=21% Similarity=0.180 Sum_probs=28.4
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
-++.+.|.+.||+|||-+-.-.+..+....+.+++++..
T Consensus 22 ~~~H~~I~G~TGsGKS~~~~~ll~~l~~~~~~~~ii~D~ 60 (229)
T PF01935_consen 22 FNRHIAIFGTTGSGKSNTVKVLLEELLKKKGAKVIIFDP 60 (229)
T ss_pred ccceEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEcC
Confidence 358999999999999977654455554346777777743
No 308
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=86.89 E-value=5.3 Score=38.29 Aligned_cols=17 Identities=24% Similarity=0.301 Sum_probs=14.6
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
.+++.+|+|+|||.+..
T Consensus 40 ~~ll~G~~G~GKt~~~~ 56 (319)
T PRK00440 40 HLLFAGPPGTGKTTAAL 56 (319)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 58999999999997753
No 309
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.75 E-value=2.3 Score=45.33 Aligned_cols=16 Identities=25% Similarity=0.522 Sum_probs=13.9
Q ss_pred CEEEECCCCCCchhhH
Q 042872 242 DCFVLLPTGGGKSLCY 257 (381)
Q Consensus 242 DvLviaPTGsGKTLaF 257 (381)
-.|..+|.|.|||-+.
T Consensus 37 a~Lf~Gp~G~GKTT~A 52 (491)
T PRK14964 37 SILLVGASGVGKTTCA 52 (491)
T ss_pred eEEEECCCCccHHHHH
Confidence 5899999999999654
No 310
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.73 E-value=1.4 Score=44.53 Aligned_cols=16 Identities=19% Similarity=0.162 Sum_probs=13.5
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
+|+.+|.|+|||....
T Consensus 41 ~L~~Gp~G~GKTtla~ 56 (363)
T PRK14961 41 WLLSGTRGVGKTTIAR 56 (363)
T ss_pred EEEecCCCCCHHHHHH
Confidence 5899999999997653
No 311
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=86.73 E-value=0.67 Score=47.51 Aligned_cols=35 Identities=14% Similarity=0.096 Sum_probs=31.2
Q ss_pred hCCCCCcHHHHHHHHHHHcCC-CEEEECCCCCCchh
Q 042872 221 FGNRAFRPLQHQACKASVAKQ-DCFVLLPTGGGKSL 255 (381)
Q Consensus 221 fG~~~fRpiQ~eAI~aiL~Gr-DvLviaPTGsGKTL 255 (381)
..|..+++-|.+.+-.+..++ ++|+.+.||||||-
T Consensus 153 i~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTT 188 (355)
T COG4962 153 IIFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTT 188 (355)
T ss_pred HHcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHH
Confidence 566788999999999999886 99999999999993
No 312
>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=86.70 E-value=2.4 Score=49.12 Aligned_cols=31 Identities=23% Similarity=0.191 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHc--------CCCEEEECCCCCCchhhHH
Q 042872 228 PLQHQACKASVA--------KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 228 piQ~eAI~aiL~--------GrDvLviaPTGsGKTLaF~ 258 (381)
..|-.|...+.. |-=++-.|-||+|||++=.
T Consensus 411 ~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNA 449 (1110)
T TIGR02562 411 RWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANA 449 (1110)
T ss_pred chHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHH
Confidence 468888888764 2235666999999998744
No 313
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=86.66 E-value=4.8 Score=42.61 Aligned_cols=78 Identities=21% Similarity=0.295 Sum_probs=48.7
Q ss_pred EEEECCCCCCchhhHH--------------------------HHHHHHHhhcCCcEEEEeCCCC-HHHHHHHHHHHHhch
Q 042872 243 CFVLLPTGGGKSLCYQ--------------------------DQIITLNLKFGIPATFLNSQQT-VSQAAAVLQELRQGL 295 (381)
Q Consensus 243 vLviaPTGsGKTLaF~--------------------------dQv~~L~~~~gI~a~~l~g~~~-~~e~~~il~~lr~g~ 295 (381)
++.++=-|+|||-+-. +|+..|....++++.....+.+ .+-.++.++..+.
T Consensus 103 ImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ak~-- 180 (451)
T COG0541 103 ILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAKE-- 180 (451)
T ss_pred EEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHHHHH--
Confidence 5667778999995543 7888887777777655533333 3333444444431
Q ss_pred hhhhhhhhhhhhhhhhhcccCCCCCccEEEE-CccccccCcchHHHHHHHH
Q 042872 296 VLSQHYFLHQLIFVLTCASRKDKPSCKLLYV-TPERIVGNQSFSEVLKCLH 345 (381)
Q Consensus 296 ~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~a-TPErL~~~~~f~~~L~~L~ 345 (381)
..+++|++ |-+|+.-...+.+-+..++
T Consensus 181 -----------------------~~~DvvIvDTAGRl~ide~Lm~El~~Ik 208 (451)
T COG0541 181 -----------------------EGYDVVIVDTAGRLHIDEELMDELKEIK 208 (451)
T ss_pred -----------------------cCCCEEEEeCCCcccccHHHHHHHHHHH
Confidence 24677766 9999986666655555444
No 314
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=86.57 E-value=2.4 Score=46.76 Aligned_cols=16 Identities=19% Similarity=0.138 Sum_probs=13.3
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|+.+|.|.|||.+..
T Consensus 41 yLf~Gp~GvGKTTlAr 56 (647)
T PRK07994 41 YLFSGTRGVGKTTIAR 56 (647)
T ss_pred EEEECCCCCCHHHHHH
Confidence 4899999999996653
No 315
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=86.54 E-value=1.2 Score=47.14 Aligned_cols=34 Identities=18% Similarity=0.317 Sum_probs=28.2
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
|++|..+|.|+|||+.. +.|..+.|+...+++||
T Consensus 385 RNilfyGPPGTGKTm~A----relAr~SGlDYA~mTGG 418 (630)
T KOG0742|consen 385 RNILFYGPPGTGKTMFA----RELARHSGLDYAIMTGG 418 (630)
T ss_pred hheeeeCCCCCCchHHH----HHHHhhcCCceehhcCC
Confidence 79999999999999875 45666778888777776
No 316
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.53 E-value=1.3 Score=49.17 Aligned_cols=16 Identities=19% Similarity=0.152 Sum_probs=13.4
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|+.+|.|.|||.+..
T Consensus 41 ~LFtGP~GvGKTTLAr 56 (700)
T PRK12323 41 YLFTGTRGVGKTTLSR 56 (700)
T ss_pred EEEECCCCCCHHHHHH
Confidence 5889999999996653
No 317
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.34 E-value=1.4 Score=48.95 Aligned_cols=17 Identities=18% Similarity=0.139 Sum_probs=13.8
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
-+|+.+|.|.|||-+..
T Consensus 39 AyLF~GPpGvGKTTlAr 55 (702)
T PRK14960 39 AYLFTGTRGVGKTTIAR 55 (702)
T ss_pred EEEEECCCCCCHHHHHH
Confidence 34899999999996653
No 318
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=86.32 E-value=0.82 Score=46.50 Aligned_cols=31 Identities=29% Similarity=0.185 Sum_probs=21.3
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcE
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPA 272 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a 272 (381)
=+||.+|||||||-+-.-.+..+++.....+
T Consensus 127 LILVTGpTGSGKSTTlAamId~iN~~~~~HI 157 (353)
T COG2805 127 LILVTGPTGSGKSTTLAAMIDYINKHKAKHI 157 (353)
T ss_pred eEEEeCCCCCcHHHHHHHHHHHHhccCCcce
Confidence 3788999999999776645665654443333
No 319
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=86.23 E-value=1 Score=46.95 Aligned_cols=34 Identities=21% Similarity=0.122 Sum_probs=25.1
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
+=+++.+|.|+|||+.. +.+...+|+..+.+.++
T Consensus 149 lgllL~GPPGcGKTllA----raiA~elg~~~i~vsa~ 182 (413)
T PLN00020 149 LILGIWGGKGQGKSFQC----ELVFKKMGIEPIVMSAG 182 (413)
T ss_pred eEEEeeCCCCCCHHHHH----HHHHHHcCCCeEEEEHH
Confidence 34677899999999764 45555788888777654
No 320
>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=86.20 E-value=5.7 Score=36.74 Aligned_cols=49 Identities=14% Similarity=0.076 Sum_probs=30.2
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
.|.-+++.+++|+|||..-+.-+.... ..|-++..++-..+..+..+.+
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~-~~g~~~~y~s~e~~~~~l~~~~ 63 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGL-KNGEKAMYISLEEREERILGYA 63 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEECCCCHHHHHHHH
Confidence 356788899999999854322222211 3477888887776665543333
No 321
>PRK05642 DNA replication initiation factor; Validated
Probab=86.14 E-value=1.7 Score=41.28 Aligned_cols=35 Identities=23% Similarity=0.332 Sum_probs=20.2
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
+.+++.+|+|+|||---+--...+. ..|.+++.+.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~-~~~~~v~y~~ 80 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFE-QRGEPAVYLP 80 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEee
Confidence 4578899999999944221122222 2355665554
No 322
>PRK13342 recombination factor protein RarA; Reviewed
Probab=86.13 E-value=2.6 Score=43.30 Aligned_cols=32 Identities=19% Similarity=0.225 Sum_probs=20.8
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
.+++.+|+|+|||.... .+....+.....++.
T Consensus 38 ~ilL~GppGtGKTtLA~----~ia~~~~~~~~~l~a 69 (413)
T PRK13342 38 SMILWGPPGTGKTTLAR----IIAGATDAPFEALSA 69 (413)
T ss_pred eEEEECCCCCCHHHHHH----HHHHHhCCCEEEEec
Confidence 68999999999997653 223234455544443
No 323
>PRK07004 replicative DNA helicase; Provisional
Probab=85.98 E-value=4.9 Score=42.32 Aligned_cols=49 Identities=14% Similarity=0.137 Sum_probs=33.5
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
|.=+++.+.||.|||.-.+..+.......|.+++++.-.++..+....+
T Consensus 213 g~liviaarpg~GKT~~al~ia~~~a~~~~~~v~~fSlEM~~~ql~~R~ 261 (460)
T PRK07004 213 GELIIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSMEMPGTQLAMRM 261 (460)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHH
Confidence 4446777899999997655444444434688888888888876654333
No 324
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=85.89 E-value=2.5 Score=45.43 Aligned_cols=55 Identities=13% Similarity=0.086 Sum_probs=29.9
Q ss_pred CCCCHHHHhhchHHHHHHHHHhC--CCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhH
Q 042872 200 GTLSFEELQALDDMEFANVVIFG--NRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 200 ~~~~fe~L~~l~~l~~~~~~~fG--~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF 257 (381)
...+|+.+..+++....+....- +..+-.++.--+ -..+.+|+.+|+|+|||...
T Consensus 177 p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl---~~p~GILLyGPPGTGKT~LA 233 (512)
T TIGR03689 177 PDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDL---KPPKGVLLYGPPGCGKTLIA 233 (512)
T ss_pred CCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccC---CCCcceEEECCCCCcHHHHH
Confidence 35677777766654444433221 111111111111 12467999999999999875
No 325
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=85.88 E-value=4.1 Score=44.09 Aligned_cols=64 Identities=14% Similarity=0.120 Sum_probs=42.7
Q ss_pred CCcHHHHHHHHHHHc-CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHH
Q 042872 225 AFRPLQHQACKASVA-KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~-GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~ 290 (381)
.+-|+|++-+...|+ |-.+|+.-.-|-|||+-.+- +..+ .....+.++++...-...++..+..
T Consensus 198 ~LlPFQreGv~faL~RgGR~llADeMGLGKTiQAla-IA~y-yraEwplliVcPAsvrftWa~al~r 262 (689)
T KOG1000|consen 198 RLLPFQREGVIFALERGGRILLADEMGLGKTIQALA-IARY-YRAEWPLLIVCPASVRFTWAKALNR 262 (689)
T ss_pred hhCchhhhhHHHHHhcCCeEEEecccccchHHHHHH-HHHH-HhhcCcEEEEecHHHhHHHHHHHHH
Confidence 455889999888774 67888888999999976541 1111 1334567777766555555555554
No 326
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=85.80 E-value=2.7 Score=45.04 Aligned_cols=17 Identities=18% Similarity=0.151 Sum_probs=14.5
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
-.|+.+|.|+|||-+..
T Consensus 45 a~Lf~Gp~G~GKTT~Ar 61 (507)
T PRK06645 45 GYLLTGIRGVGKTTSAR 61 (507)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 58999999999997653
No 327
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=85.78 E-value=3.1 Score=41.98 Aligned_cols=36 Identities=31% Similarity=0.407 Sum_probs=27.8
Q ss_pred CCCCcHHHHHHHHHHH----cCC---CEEEECCCCCCchhhHH
Q 042872 223 NRAFRPLQHQACKASV----AKQ---DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 223 ~~~fRpiQ~eAI~aiL----~Gr---DvLviaPTGsGKTLaF~ 258 (381)
+..+.|.|..++..+. .|| -.|+.+|.|.||+....
T Consensus 2 ~~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~ 44 (319)
T PRK08769 2 TSAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVAL 44 (319)
T ss_pred CccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHH
Confidence 4568889999888876 344 47899999999986653
No 328
>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=85.77 E-value=3 Score=46.10 Aligned_cols=33 Identities=18% Similarity=0.275 Sum_probs=23.0
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
+-+|+.+|+|+|||+.. ..+....+.+.+.+.+
T Consensus 488 ~giLL~GppGtGKT~la----kalA~e~~~~fi~v~~ 520 (733)
T TIGR01243 488 KGVLLFGPPGTGKTLLA----KAVATESGANFIAVRG 520 (733)
T ss_pred ceEEEECCCCCCHHHHH----HHHHHhcCCCEEEEeh
Confidence 56899999999999775 3444445666655543
No 329
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=85.73 E-value=2.4 Score=45.78 Aligned_cols=27 Identities=22% Similarity=0.196 Sum_probs=19.9
Q ss_pred HHHHHHHHHcCCCEEEECCCCCCchhh
Q 042872 230 QHQACKASVAKQDCFVLLPTGGGKSLC 256 (381)
Q Consensus 230 Q~eAI~aiL~GrDvLviaPTGsGKTLa 256 (381)
+.+-+..+++++-+++++.||+|||.-
T Consensus 52 k~~F~~~l~~nQ~~v~vGetgsGKttQ 78 (699)
T KOG0925|consen 52 KEEFLKLLLNNQIIVLVGETGSGKTTQ 78 (699)
T ss_pred HHHHHHHHhcCceEEEEecCCCCcccc
Confidence 444555555667788899999999954
No 330
>PRK06321 replicative DNA helicase; Provisional
Probab=85.41 E-value=5 Score=42.52 Aligned_cols=50 Identities=12% Similarity=0.091 Sum_probs=33.3
Q ss_pred CCE-EEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHH
Q 042872 241 QDC-FVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 241 rDv-LviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~ 290 (381)
.++ ++.+.+|.|||.-.+..........|.++.++.-.++..+....+-.
T Consensus 226 G~LiiiaarPgmGKTafal~ia~~~a~~~g~~v~~fSLEMs~~ql~~Rlla 276 (472)
T PRK06321 226 SNLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSLEMTVDQLIHRIIC 276 (472)
T ss_pred CcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEeccCCHHHHHHHHHH
Confidence 455 66789999999665444444433457888888888887765544433
No 331
>PRK05636 replicative DNA helicase; Provisional
Probab=85.21 E-value=5.5 Score=42.59 Aligned_cols=47 Identities=17% Similarity=0.149 Sum_probs=31.3
Q ss_pred CCE-EEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHH
Q 042872 241 QDC-FVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAV 287 (381)
Q Consensus 241 rDv-LviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~i 287 (381)
.++ ++.+.||.|||.-.+..+.....+.|.+++++...++..+....
T Consensus 265 G~Liiiaarpg~GKT~~al~~a~~~a~~~g~~v~~fSlEMs~~ql~~R 312 (505)
T PRK05636 265 GQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSLEMSKSEIVMR 312 (505)
T ss_pred CceEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEeeCCHHHHHHH
Confidence 455 66789999999655444444433457788888888877665433
No 332
>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=85.08 E-value=3.9 Score=43.11 Aligned_cols=50 Identities=18% Similarity=0.280 Sum_probs=33.5
Q ss_pred cCCCEEEECCCCCCchhhHHHHHH--HHHhhcCCcEEEEeCCCCHHHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQII--TLNLKFGIPATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~--~L~~~~gI~a~~l~g~~~~~e~~~il~~ 290 (381)
.|+-+++.+|+|+|||.-.+ |+. .+. ..|-+++.+....+.++..+.+..
T Consensus 20 ~g~~~Li~G~pGsGKT~la~-qfl~~g~~-~~ge~~lyvs~eE~~~~l~~~~~~ 71 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSI-QFLYNGII-HFDEPGVFVTFEESPQDIIKNARS 71 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHH-HHHHHHHH-hCCCCEEEEEEecCHHHHHHHHHH
Confidence 46789999999999996553 332 222 347788888877666654444443
No 333
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=84.86 E-value=1.8 Score=43.24 Aligned_cols=35 Identities=17% Similarity=0.145 Sum_probs=27.1
Q ss_pred CCCCCcHHHHHHHHHHH-cCCCEEEECCCCCCchhh
Q 042872 222 GNRAFRPLQHQACKASV-AKQDCFVLLPTGGGKSLC 256 (381)
Q Consensus 222 G~~~fRpiQ~eAI~aiL-~GrDvLviaPTGsGKTLa 256 (381)
.+..+.+.|..-+-.++ .+++++++++||+|||-.
T Consensus 124 ~~gt~~~~~~ayL~~~ie~~~siii~G~t~sGKTt~ 159 (312)
T COG0630 124 EYGTISPEQAAYLWLAIEARKSIIICGGTASGKTTL 159 (312)
T ss_pred hcCCCCHHHHHHHHHHHHcCCcEEEECCCCCCHHHH
Confidence 45567777777665554 578999999999999944
No 334
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.80 E-value=1.4 Score=50.38 Aligned_cols=16 Identities=19% Similarity=0.127 Sum_probs=13.5
Q ss_pred CE-EEECCCCCCchhhH
Q 042872 242 DC-FVLLPTGGGKSLCY 257 (381)
Q Consensus 242 Dv-LviaPTGsGKTLaF 257 (381)
.. |+.+|.|.|||.+.
T Consensus 39 HAyLFtGPpGtGKTTLA 55 (944)
T PRK14949 39 HAYLFTGTRGVGKTSLA 55 (944)
T ss_pred eEEEEECCCCCCHHHHH
Confidence 44 89999999999765
No 335
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=84.79 E-value=4.4 Score=36.28 Aligned_cols=34 Identities=15% Similarity=0.219 Sum_probs=24.6
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
+.+++++|+|||.....-+..|. ..|.++.++..
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~-~~G~~V~viK~ 35 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALK-ARGYRVATIKH 35 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEec
Confidence 35789999999976644455565 46888877754
No 336
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=84.65 E-value=2.9 Score=40.50 Aligned_cols=33 Identities=21% Similarity=0.349 Sum_probs=19.2
Q ss_pred CEEE-ECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 242 DCFV-LLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 242 DvLv-iaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
.+++ .+|+|+|||.... .+....+.....+++.
T Consensus 44 ~~lll~G~~G~GKT~la~----~l~~~~~~~~~~i~~~ 77 (316)
T PHA02544 44 NMLLHSPSPGTGKTTVAK----ALCNEVGAEVLFVNGS 77 (316)
T ss_pred eEEEeeCcCCCCHHHHHH----HHHHHhCccceEeccC
Confidence 4555 7999999996532 2222334444555544
No 337
>TIGR03754 conj_TOL_TraD conjugative coupling factor TraD, TOL family. Members of this protein are assigned by homology to the TraD family of conjugative coupling factor. This particular clade serves as a marker for an extended gene region that occurs occasionally on plasmids, including the toluene catabolism TOL plasmid. More commonly, the gene region is chromosomal, flanked by various markers of conjugative transfer and insertion.
Probab=84.60 E-value=3.8 Score=45.27 Aligned_cols=50 Identities=16% Similarity=0.040 Sum_probs=34.3
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~ 290 (381)
..+++|+++||+|||..+..-+.... +.|-.++++....+.+-...+...
T Consensus 180 ~gHtlV~GtTGsGKT~l~~~li~q~i-~~g~~vi~fDpkgD~el~~~~~~~ 229 (643)
T TIGR03754 180 VGHTLVLGTTRVGKTRLAELLITQDI-RRGDVVIVFDPKGDADLLKRMYAE 229 (643)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEeCCCCHHHHHHHHHH
Confidence 57899999999999977642233333 356778888877776555555544
No 338
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=84.40 E-value=0.47 Score=51.75 Aligned_cols=37 Identities=11% Similarity=-0.050 Sum_probs=34.1
Q ss_pred CCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 222 GNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 222 G~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
-.+.+..+|.++|..+-+|+++++.-.|-+||++||+
T Consensus 283 ~~E~~~~~~~~~~~~~~~G~~~~~~~~~~~GK~~~~~ 319 (1034)
T KOG4150|consen 283 TGESGIAISLELLKFASEGRADGGNEARQAGKGTCPT 319 (1034)
T ss_pred cccchhhhhHHHHhhhhhcccccccchhhcCCccCcc
Confidence 4457889999999999999999999999999999998
No 339
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=84.31 E-value=5.1 Score=42.17 Aligned_cols=45 Identities=18% Similarity=0.145 Sum_probs=29.9
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQA 284 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~ 284 (381)
.|.-+++.+|+|+|||.... |+..-....|-+++.+....+.++.
T Consensus 272 ~g~~~li~G~~G~GKT~l~~-~~~~~~~~~g~~~~yis~e~~~~~i 316 (509)
T PRK09302 272 RGSIILVSGATGTGKTLLAS-KFAEAACRRGERCLLFAFEESRAQL 316 (509)
T ss_pred CCcEEEEEcCCCCCHHHHHH-HHHHHHHhCCCcEEEEEecCCHHHH
Confidence 35677889999999996553 3222222467888888776665543
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=84.24 E-value=8.4 Score=39.52 Aligned_cols=49 Identities=16% Similarity=0.137 Sum_probs=33.7
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
|.=+++.++||.|||..-+..+..+....|.++.++...++..+....+
T Consensus 194 g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm~~~~l~~Rl 242 (421)
T TIGR03600 194 GDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEMSAEQLGERL 242 (421)
T ss_pred CceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCCHHHHHHHH
Confidence 4456778999999996665444454434578888888888776654433
No 341
>PRK07773 replicative DNA helicase; Validated
Probab=84.15 E-value=6.1 Score=44.88 Aligned_cols=47 Identities=13% Similarity=0.075 Sum_probs=33.3
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHH
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQ 289 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~ 289 (381)
+++.+++|.|||.-.+..+.......+.++.++.-.++..+....+-
T Consensus 220 ivIagrPg~GKT~fal~ia~~~a~~~~~~V~~fSlEms~~ql~~R~~ 266 (886)
T PRK07773 220 IIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFSLEMSKEQLVMRLL 266 (886)
T ss_pred EEEEeCCCCCcHHHHHHHHHHHHHhcCCeEEEEecCCCHHHHHHHHH
Confidence 57789999999976655555554345788888888888776544443
No 342
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=84.05 E-value=2.6 Score=39.64 Aligned_cols=14 Identities=36% Similarity=0.527 Sum_probs=12.4
Q ss_pred EEEECCCCCCchhh
Q 042872 243 CFVLLPTGGGKSLC 256 (381)
Q Consensus 243 vLviaPTGsGKTLa 256 (381)
+++.+|+|+|||--
T Consensus 37 l~l~G~~G~GKTHL 50 (219)
T PF00308_consen 37 LFLYGPSGLGKTHL 50 (219)
T ss_dssp EEEEESTTSSHHHH
T ss_pred eEEECCCCCCHHHH
Confidence 78999999999953
No 343
>PRK08506 replicative DNA helicase; Provisional
Probab=84.03 E-value=6.9 Score=41.27 Aligned_cols=47 Identities=9% Similarity=0.029 Sum_probs=32.5
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
.=+++.|+||.|||.-.+..+.... ..|.+++++...++..+....+
T Consensus 193 ~LivIaarpg~GKT~fal~ia~~~~-~~g~~V~~fSlEMs~~ql~~Rl 239 (472)
T PRK08506 193 DLIIIAARPSMGKTTLCLNMALKAL-NQDKGVAFFSLEMPAEQLMLRM 239 (472)
T ss_pred ceEEEEcCCCCChHHHHHHHHHHHH-hcCCcEEEEeCcCCHHHHHHHH
Confidence 3456678999999976654444443 3578888888888876655444
No 344
>PRK05748 replicative DNA helicase; Provisional
Probab=83.95 E-value=8 Score=40.18 Aligned_cols=49 Identities=8% Similarity=-0.008 Sum_probs=33.5
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
|.=+++.++||.|||.--+..+.......|.++.++.-.++..+....+
T Consensus 203 G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEms~~~l~~R~ 251 (448)
T PRK05748 203 NDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMGAESLVMRM 251 (448)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCCCHHHHHHHH
Confidence 3446778999999996655444444434588888888888877654443
No 345
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=83.78 E-value=3.5 Score=43.04 Aligned_cols=37 Identities=16% Similarity=0.113 Sum_probs=21.5
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHh-hcCCcEEEEeC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNL-KFGIPATFLNS 277 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~-~~gI~a~~l~g 277 (381)
..+++.+|+|+|||-..+--...+.+ ..+.++..+++
T Consensus 131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 35899999999999654311222221 12455555543
No 346
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=83.71 E-value=0.65 Score=45.43 Aligned_cols=25 Identities=20% Similarity=0.361 Sum_probs=20.3
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIIT 263 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~ 263 (381)
.++.+|+++|||+|||..-.+.+..
T Consensus 32 ~~~pvLl~G~~GtGKT~li~~~l~~ 56 (272)
T PF12775_consen 32 NGRPVLLVGPSGTGKTSLIQNFLSS 56 (272)
T ss_dssp CTEEEEEESSTTSSHHHHHHHHHHC
T ss_pred cCCcEEEECCCCCchhHHHHhhhcc
Confidence 6789999999999999987544433
No 347
>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=83.71 E-value=0.89 Score=45.88 Aligned_cols=17 Identities=29% Similarity=0.583 Sum_probs=15.0
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
++++++|||+|||.+|.
T Consensus 1 H~lv~g~tGsGKt~~~v 17 (384)
T cd01126 1 HVLVFAPTRSGKGVGFV 17 (384)
T ss_pred CeeEecCCCCCCccEEE
Confidence 47999999999998776
No 348
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.64 E-value=2.5 Score=43.27 Aligned_cols=16 Identities=19% Similarity=0.100 Sum_probs=13.6
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|..+|.|.|||.+..
T Consensus 41 ~lf~Gp~G~GKtt~A~ 56 (397)
T PRK14955 41 YIFSGLRGVGKTTAAR 56 (397)
T ss_pred EEEECCCCCCHHHHHH
Confidence 7889999999996653
No 349
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=83.61 E-value=0.98 Score=48.05 Aligned_cols=45 Identities=18% Similarity=0.214 Sum_probs=33.8
Q ss_pred HHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEE
Q 042872 230 QHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFL 275 (381)
Q Consensus 230 Q~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l 275 (381)
+...|+.-+.+|+-|+.+.||+|||.+-+--.+.|. ..|+++.+.
T Consensus 9 ~~v~l~~~~~NRHGLIaGATGTGKTvTLqvlAE~fS-~~GVPVfla 53 (502)
T PF05872_consen 9 APVYLPLKMANRHGLIAGATGTGKTVTLQVLAEQFS-DAGVPVFLA 53 (502)
T ss_pred CceecChhhccccceeeccCCCCceehHHHHHHHhh-hcCCcEEEe
Confidence 445667778899999999999999999874445555 467776543
No 350
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=83.53 E-value=1.4 Score=49.00 Aligned_cols=38 Identities=24% Similarity=0.182 Sum_probs=29.5
Q ss_pred hCCC-CCcHHHHHHHHHHH----cCCCEEEECCCCCCchhhHH
Q 042872 221 FGNR-AFRPLQHQACKASV----AKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 221 fG~~-~fRpiQ~eAI~aiL----~GrDvLviaPTGsGKTLaF~ 258 (381)
|+|. +|+.||.+-+..+. .|+=.|.-.|||+||||.-+
T Consensus 10 F~fPy~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLi 52 (821)
T KOG1133|consen 10 FPFPYTPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLI 52 (821)
T ss_pred cCCCCCchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHH
Confidence 4443 57789998887764 58866888999999998765
No 351
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=83.31 E-value=0.69 Score=47.00 Aligned_cols=25 Identities=28% Similarity=0.365 Sum_probs=18.6
Q ss_pred HHHHHHH-cCCCEEEECCCCCCchhh
Q 042872 232 QACKASV-AKQDCFVLLPTGGGKSLC 256 (381)
Q Consensus 232 eAI~aiL-~GrDvLviaPTGsGKTLa 256 (381)
+.+..+. .++++++.+|||||||-.
T Consensus 153 ~~l~~~v~~~~nilI~G~tGSGKTTl 178 (344)
T PRK13851 153 AFLHACVVGRLTMLLCGPTGSGKTTM 178 (344)
T ss_pred HHHHHHHHcCCeEEEECCCCccHHHH
Confidence 3344433 578999999999999944
No 352
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=83.27 E-value=1.2 Score=45.79 Aligned_cols=24 Identities=17% Similarity=0.249 Sum_probs=19.7
Q ss_pred HHHHHcCCCEEEECCCCCCchhhH
Q 042872 234 CKASVAKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 234 I~aiL~GrDvLviaPTGsGKTLaF 257 (381)
|+.-...++++++++||+|||.+.
T Consensus 36 ~~~~~~~~h~~i~g~tGsGKt~~i 59 (410)
T cd01127 36 FPKDAEEAHTMIIGTTGTGKTTQI 59 (410)
T ss_pred CCcchhhccEEEEcCCCCCHHHHH
Confidence 455556789999999999999865
No 353
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=83.16 E-value=3.1 Score=45.59 Aligned_cols=33 Identities=18% Similarity=0.303 Sum_probs=24.0
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
+.+++.+|+|+|||... ..+....+++.+.+.+
T Consensus 186 ~gill~G~~G~GKt~~~----~~~a~~~~~~f~~is~ 218 (644)
T PRK10733 186 KGVLMVGPPGTGKTLLA----KAIAGEAKVPFFTISG 218 (644)
T ss_pred CcEEEECCCCCCHHHHH----HHHHHHcCCCEEEEeh
Confidence 56999999999999875 3344456777666654
No 354
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=83.12 E-value=2.3 Score=43.34 Aligned_cols=30 Identities=17% Similarity=0.185 Sum_probs=21.3
Q ss_pred HHHHHHHHHH---cCC---CEEEECCCCCCchhhHH
Q 042872 229 LQHQACKASV---AKQ---DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 229 iQ~eAI~aiL---~Gr---DvLviaPTGsGKTLaF~ 258 (381)
.|..++.+++ .++ ..|..+|.|+|||-+..
T Consensus 40 gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStal 75 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTAL 75 (346)
T ss_pred chHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHH
Confidence 4766666654 233 57889999999996653
No 355
>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit
Probab=83.10 E-value=1.4 Score=43.16 Aligned_cols=35 Identities=26% Similarity=0.355 Sum_probs=29.0
Q ss_pred CccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccc
Q 042872 320 SCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAH 379 (381)
Q Consensus 320 ~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAH 379 (381)
..+|.|+||+||. .|...+.+.++ .+.+||||=-|
T Consensus 177 ~~~i~vGTP~Rl~----------kLle~~~L~l~---------------~l~~ivlD~s~ 211 (252)
T PF14617_consen 177 RVHIAVGTPGRLS----------KLLENGALSLS---------------NLKRIVLDWSY 211 (252)
T ss_pred CceEEEeChHHHH----------HHHHcCCCCcc---------------cCeEEEEcCCc
Confidence 5789999999996 24577888888 99999999644
No 356
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=83.08 E-value=7.9 Score=37.21 Aligned_cols=36 Identities=22% Similarity=0.237 Sum_probs=26.2
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQ 279 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~ 279 (381)
..-..+.+|+|+|||-+ +..|...+|..+++++-..
T Consensus 32 ~~~~~~~GpagtGKtet----ik~La~~lG~~~~vfnc~~ 67 (231)
T PF12774_consen 32 NLGGALSGPAGTGKTET----IKDLARALGRFVVVFNCSE 67 (231)
T ss_dssp TTEEEEESSTTSSHHHH----HHHHHHCTT--EEEEETTS
T ss_pred CCCCCCcCCCCCCchhH----HHHHHHHhCCeEEEecccc
Confidence 34567899999999966 5777777888888887543
No 357
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.95 E-value=2.5 Score=45.19 Aligned_cols=16 Identities=19% Similarity=0.146 Sum_probs=13.4
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|+.+|.|.|||.+..
T Consensus 41 ~Lf~Gp~G~GKTt~A~ 56 (527)
T PRK14969 41 YLFTGTRGVGKTTLAR 56 (527)
T ss_pred EEEECCCCCCHHHHHH
Confidence 5899999999997653
No 358
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=82.27 E-value=0.89 Score=45.85 Aligned_cols=18 Identities=22% Similarity=0.331 Sum_probs=15.7
Q ss_pred HcCCCEEEECCCCCCchh
Q 042872 238 VAKQDCFVLLPTGGGKSL 255 (381)
Q Consensus 238 L~GrDvLviaPTGsGKTL 255 (381)
..++++++++|||+|||-
T Consensus 158 ~~~~nili~G~tgSGKTT 175 (332)
T PRK13900 158 ISKKNIIISGGTSTGKTT 175 (332)
T ss_pred HcCCcEEEECCCCCCHHH
Confidence 356899999999999993
No 359
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.13 E-value=3.1 Score=45.53 Aligned_cols=18 Identities=22% Similarity=0.314 Sum_probs=14.5
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
..+|+.+|.|+|||....
T Consensus 39 ~a~Lf~Gp~G~GKttlA~ 56 (620)
T PRK14948 39 PAYLFTGPRGTGKTSSAR 56 (620)
T ss_pred ceEEEECCCCCChHHHHH
Confidence 346899999999997653
No 360
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=82.12 E-value=2 Score=44.99 Aligned_cols=35 Identities=20% Similarity=0.369 Sum_probs=21.0
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
+.+++.+|+|.|||-.-.--...+. ..+.+++.+.
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~-~~~~~v~yi~ 176 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALR-ESGGKILYVR 176 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHH-HcCCCEEEee
Confidence 4589999999999954321122222 2355665554
No 361
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=82.08 E-value=9.2 Score=38.83 Aligned_cols=87 Identities=22% Similarity=0.247 Sum_probs=51.1
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCC
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKP 319 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~ 319 (381)
|+=+-+.+|+|+|||...+.-+..+. +.|-.++.+........ ..+..+ |. .
T Consensus 53 G~ivEi~G~~ssGKttLaL~~ia~~q-~~g~~~a~ID~e~~ld~--~~a~~l--Gv-----------------------d 104 (322)
T PF00154_consen 53 GRIVEIYGPESSGKTTLALHAIAEAQ-KQGGICAFIDAEHALDP--EYAESL--GV-----------------------D 104 (322)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHH-HTT-EEEEEESSS---H--HHHHHT--T-------------------------
T ss_pred CceEEEeCCCCCchhhhHHHHHHhhh-cccceeEEecCcccchh--hHHHhc--Cc-----------------------c
Confidence 55567889999999977765455554 45777888876544322 112221 10 0
Q ss_pred CccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEec
Q 042872 320 SCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDE 377 (381)
Q Consensus 320 ~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDE 377 (381)
--+++|+.|+.-. ...+....|.+.+ .+.+||||=
T Consensus 105 l~rllv~~P~~~E---~al~~~e~lirsg--------------------~~~lVVvDS 139 (322)
T PF00154_consen 105 LDRLLVVQPDTGE---QALWIAEQLIRSG--------------------AVDLVVVDS 139 (322)
T ss_dssp GGGEEEEE-SSHH---HHHHHHHHHHHTT--------------------SESEEEEE-
T ss_pred ccceEEecCCcHH---HHHHHHHHHhhcc--------------------cccEEEEec
Confidence 1368898887642 3345666676676 788899984
No 362
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=82.08 E-value=1.6 Score=35.92 Aligned_cols=29 Identities=28% Similarity=0.418 Sum_probs=20.3
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEE
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFL 275 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l 275 (381)
+++.+|+|+|||-.- ..|.+.+|++.+.+
T Consensus 2 I~I~G~~gsGKST~a----~~La~~~~~~~i~~ 30 (121)
T PF13207_consen 2 IIISGPPGSGKSTLA----KELAERLGFPVISM 30 (121)
T ss_dssp EEEEESTTSSHHHHH----HHHHHHHTCEEEEE
T ss_pred EEEECCCCCCHHHHH----HHHHHHHCCeEEEe
Confidence 578899999999664 34454567765544
No 363
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=82.00 E-value=4.7 Score=33.91 Aligned_cols=15 Identities=33% Similarity=0.390 Sum_probs=12.4
Q ss_pred EEEECCCCCCchhhH
Q 042872 243 CFVLLPTGGGKSLCY 257 (381)
Q Consensus 243 vLviaPTGsGKTLaF 257 (381)
+++++|+|+|||-..
T Consensus 2 ii~~G~pgsGKSt~a 16 (143)
T PF13671_consen 2 IILCGPPGSGKSTLA 16 (143)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 588999999999443
No 364
>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=81.81 E-value=1.6 Score=37.13 Aligned_cols=32 Identities=22% Similarity=0.391 Sum_probs=20.5
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
+||+.+|+|+|||... .++ .+.++.+...+..
T Consensus 1 ~vlL~G~~G~GKt~l~-~~l---a~~~~~~~~~i~~ 32 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLA-REL---AALLGRPVIRINC 32 (139)
T ss_dssp EEEEEESSSSSHHHHH-HHH---HHHHTCEEEEEE-
T ss_pred CEEEECCCCCCHHHHH-HHH---HHHhhcceEEEEe
Confidence 4899999999999775 233 3334555544443
No 365
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=81.53 E-value=0.61 Score=49.40 Aligned_cols=54 Identities=22% Similarity=0.450 Sum_probs=41.5
Q ss_pred CchhhHHHH------HHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhchhhhhhhhhhhhhhhhhhcccCCCCCccEEE
Q 042872 252 GKSLCYQDQ------IITLNLKFGIPATFLNSQQTVSQAAAVLQELRQGLVLSQHYFLHQLIFVLTCASRKDKPSCKLLY 325 (381)
Q Consensus 252 GKTLaF~dQ------v~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~ 325 (381)
|||++|.+. ++-+-+.|||+.++++|..+..-|.-++.+...| -|+|||
T Consensus 269 gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG-------------------------~YdivI 323 (569)
T KOG0346|consen 269 GKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKG-------------------------LYDIVI 323 (569)
T ss_pred CceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCc-------------------------ceeEEE
Confidence 677777622 2222347999999999999988888888887766 689999
Q ss_pred ECccc
Q 042872 326 VTPER 330 (381)
Q Consensus 326 aTPEr 330 (381)
+|-+.
T Consensus 324 AtD~s 328 (569)
T KOG0346|consen 324 ATDDS 328 (569)
T ss_pred EccCc
Confidence 99854
No 366
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=81.52 E-value=0.91 Score=40.95 Aligned_cols=23 Identities=22% Similarity=0.179 Sum_probs=16.9
Q ss_pred EEEECccccccCcchHHHHHHHH
Q 042872 323 LLYVTPERIVGNQSFSEVLKCLH 345 (381)
Q Consensus 323 IL~aTPErL~~~~~f~~~L~~L~ 345 (381)
-+|=||+-...++.|...|....
T Consensus 39 ~~IDTPGEyiE~~~~y~aLi~ta 61 (143)
T PF10662_consen 39 NTIDTPGEYIENPRFYHALIVTA 61 (143)
T ss_pred cEEECChhheeCHHHHHHHHHHH
Confidence 44778888888888877775543
No 367
>PF13173 AAA_14: AAA domain
Probab=81.48 E-value=4.7 Score=34.19 Aligned_cols=18 Identities=22% Similarity=0.290 Sum_probs=14.9
Q ss_pred CCCEEEECCCCCCchhhH
Q 042872 240 KQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF 257 (381)
++=+++.+|.|+|||-.-
T Consensus 2 ~~~~~l~G~R~vGKTtll 19 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLL 19 (128)
T ss_pred CCeEEEECCCCCCHHHHH
Confidence 456789999999999665
No 368
>PHA00350 putative assembly protein
Probab=81.42 E-value=2.5 Score=44.06 Aligned_cols=16 Identities=19% Similarity=-0.027 Sum_probs=13.6
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|+.++.|||||+...
T Consensus 4 ~l~tG~pGSGKT~~aV 19 (399)
T PHA00350 4 YAIVGRPGSYKSYEAV 19 (399)
T ss_pred EEEecCCCCchhHHHH
Confidence 4678999999998876
No 369
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=81.39 E-value=2.8 Score=46.38 Aligned_cols=18 Identities=28% Similarity=0.433 Sum_probs=16.8
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
+++++++|||+|||..|.
T Consensus 140 ~hvlviApTgSGKgvg~V 157 (670)
T PRK13850 140 PHSLVVAPTRAGKGVGVV 157 (670)
T ss_pred ceEEEEecCCCCceeeeh
Confidence 589999999999999996
No 370
>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=81.21 E-value=3.3 Score=46.80 Aligned_cols=37 Identities=16% Similarity=0.124 Sum_probs=22.4
Q ss_pred CCCE-EEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 240 KQDC-FVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 240 GrDv-LviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
.+.+ ++-+|.|+|||-+....+.......+.+++++.
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVS 85 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVS 85 (824)
T ss_pred CCCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEE
Confidence 4554 666999999997765444433112345666653
No 371
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.20 E-value=5 Score=42.52 Aligned_cols=15 Identities=27% Similarity=0.350 Sum_probs=13.1
Q ss_pred EEEECCCCCCchhhH
Q 042872 243 CFVLLPTGGGKSLCY 257 (381)
Q Consensus 243 vLviaPTGsGKTLaF 257 (381)
+|+.+|.|+|||.+.
T Consensus 39 ~Lf~GPpGtGKTTlA 53 (472)
T PRK14962 39 YIFAGPRGTGKTTVA 53 (472)
T ss_pred EEEECCCCCCHHHHH
Confidence 689999999999665
No 372
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.15 E-value=5.1 Score=43.66 Aligned_cols=16 Identities=25% Similarity=0.328 Sum_probs=13.4
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|+.+|.|+|||-+..
T Consensus 38 ~Lf~Gp~G~GKTt~A~ 53 (584)
T PRK14952 38 YLFSGPRGCGKTSSAR 53 (584)
T ss_pred EEEECCCCCCHHHHHH
Confidence 5899999999996653
No 373
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=81.11 E-value=3.5 Score=46.48 Aligned_cols=60 Identities=17% Similarity=0.191 Sum_probs=35.4
Q ss_pred CcHHHHHHHHHHH----cCCCEEEECCCCCCchh---hHHHHHHHHHh--hcCCcEEEEeCCCCHHHHHHHH
Q 042872 226 FRPLQHQACKASV----AKQDCFVLLPTGGGKSL---CYQDQIITLNL--KFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 226 fRpiQ~eAI~aiL----~GrDvLviaPTGsGKTL---aF~dQv~~L~~--~~gI~a~~l~g~~~~~e~~~il 288 (381)
+-|+|++.+.-+. ++.--|+-=.-|-|||+ +|+ ..|-. ++--++++++..+-..++..-+
T Consensus 206 Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFL---aaL~~S~k~~~paLIVCP~Tii~qW~~E~ 274 (923)
T KOG0387|consen 206 LFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFL---AALHHSGKLTKPALIVCPATIIHQWMKEF 274 (923)
T ss_pred hhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHH---HHHhhcccccCceEEEccHHHHHHHHHHH
Confidence 4588999998876 34455666678999994 454 22210 1223566666655444443333
No 374
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=80.86 E-value=2.2 Score=46.95 Aligned_cols=45 Identities=20% Similarity=0.330 Sum_probs=33.4
Q ss_pred CCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCC
Q 042872 224 RAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGI 270 (381)
Q Consensus 224 ~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI 270 (381)
..++|-|++||... ...++|+|..|||||.+....+..|-...|+
T Consensus 3 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i 47 (726)
T TIGR01073 3 AHLNPEQREAVKTT--EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNV 47 (726)
T ss_pred cccCHHHHHHHhCC--CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCC
Confidence 35889999999753 4689999999999998876555555433343
No 375
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=80.82 E-value=4.6 Score=44.32 Aligned_cols=16 Identities=19% Similarity=0.183 Sum_probs=13.4
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|+.+|.|.|||.+..
T Consensus 41 ~Lf~Gp~GvGKTtlAr 56 (618)
T PRK14951 41 YLFTGTRGVGKTTVSR 56 (618)
T ss_pred EEEECCCCCCHHHHHH
Confidence 4899999999997653
No 376
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=80.63 E-value=5.6 Score=40.08 Aligned_cols=33 Identities=18% Similarity=0.258 Sum_probs=25.1
Q ss_pred CcHHHHHHHHHHHcC-C---CEEEECCCCCCchhhHH
Q 042872 226 FRPLQHQACKASVAK-Q---DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 226 fRpiQ~eAI~aiL~G-r---DvLviaPTGsGKTLaF~ 258 (381)
..|+|...+..++.. | -.|+.+|.|.||+....
T Consensus 4 ~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~ 40 (328)
T PRK05707 4 IYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAE 40 (328)
T ss_pred CCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHH
Confidence 357888888888754 2 47889999999996653
No 377
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=80.59 E-value=10 Score=40.00 Aligned_cols=52 Identities=15% Similarity=0.215 Sum_probs=34.9
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQE 290 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~ 290 (381)
.|+=+++.+++|+|||.-.+.-+.......|-+++.+....+.++....+..
T Consensus 30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee~~~~i~~~~~~ 81 (509)
T PRK09302 30 KGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEESPEDIIRNVAS 81 (509)
T ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccCCHHHHHHHHHH
Confidence 4677899999999999654322222222348889888888777765555444
No 378
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=80.48 E-value=6.2 Score=42.73 Aligned_cols=16 Identities=19% Similarity=0.108 Sum_probs=13.5
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|+.+|.|+|||....
T Consensus 41 ~Lf~Gp~GvGKTTlAr 56 (546)
T PRK14957 41 YLFTGTRGVGKTTLGR 56 (546)
T ss_pred EEEECCCCCCHHHHHH
Confidence 6889999999997653
No 379
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=80.31 E-value=1.1 Score=42.70 Aligned_cols=30 Identities=20% Similarity=0.309 Sum_probs=21.1
Q ss_pred HHHHHHHHHHH-cCCCEEEECCCCCCchhhH
Q 042872 228 PLQHQACKASV-AKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 228 piQ~eAI~aiL-~GrDvLviaPTGsGKTLaF 257 (381)
+...+.+...+ .+..+++.+|||||||-..
T Consensus 114 ~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l 144 (270)
T PF00437_consen 114 EEIAEFLRSAVRGRGNILISGPTGSGKTTLL 144 (270)
T ss_dssp HHHHHHHHHCHHTTEEEEEEESTTSSHHHHH
T ss_pred HHHHHHHhhccccceEEEEECCCccccchHH
Confidence 34444555443 4679999999999999554
No 380
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=80.21 E-value=5.6 Score=44.45 Aligned_cols=16 Identities=25% Similarity=0.308 Sum_probs=14.2
Q ss_pred CEEEECCCCCCchhhH
Q 042872 242 DCFVLLPTGGGKSLCY 257 (381)
Q Consensus 242 DvLviaPTGsGKTLaF 257 (381)
.+++.+|+|+|||...
T Consensus 54 slLL~GPpGtGKTTLA 69 (725)
T PRK13341 54 SLILYGPPGVGKTTLA 69 (725)
T ss_pred eEEEECCCCCCHHHHH
Confidence 7899999999999665
No 381
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=79.97 E-value=21 Score=39.46 Aligned_cols=36 Identities=17% Similarity=0.104 Sum_probs=21.0
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHh-hcCCcEEEEeC
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNL-KFGIPATFLNS 277 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~-~~gI~a~~l~g 277 (381)
-+++.+++|+|||-.-.--...+.. ..+.++..+..
T Consensus 316 pL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita 352 (617)
T PRK14086 316 PLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS 352 (617)
T ss_pred cEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence 3888999999999543211222221 13566666654
No 382
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=79.95 E-value=2.6 Score=46.29 Aligned_cols=39 Identities=31% Similarity=0.456 Sum_probs=29.6
Q ss_pred CCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHH
Q 042872 225 AFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLN 265 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~ 265 (381)
.++|-|++||.. ....++|+|..|||||.+-..-+..|-
T Consensus 2 ~Ln~~Q~~av~~--~~g~~lV~AgpGSGKT~vL~~Ria~Li 40 (672)
T PRK10919 2 RLNPGQQQAVEF--VTGPCLVLAGAGSGKTRVITNKIAHLI 40 (672)
T ss_pred CCCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHH
Confidence 367899999976 356899999999999977653344443
No 383
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=79.95 E-value=3.4 Score=46.11 Aligned_cols=33 Identities=12% Similarity=0.066 Sum_probs=22.2
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
|.-+++.+|+|+|||.... .+...++.+...+.
T Consensus 347 ~~~lll~GppG~GKT~lAk----~iA~~l~~~~~~i~ 379 (775)
T TIGR00763 347 GPILCLVGPPGVGKTSLGK----SIAKALNRKFVRFS 379 (775)
T ss_pred CceEEEECCCCCCHHHHHH----HHHHHhcCCeEEEe
Confidence 4568999999999997652 33334555555443
No 384
>cd01363 Motor_domain Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes.
Probab=79.84 E-value=1.6 Score=39.92 Aligned_cols=29 Identities=17% Similarity=0.282 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHcCCCE--EEECCCCCCchhhH
Q 042872 228 PLQHQACKASVAKQDC--FVLLPTGGGKSLCY 257 (381)
Q Consensus 228 piQ~eAI~aiL~GrDv--LviaPTGsGKTLaF 257 (381)
... .++..++.|.|+ |+.++||+|||.+.
T Consensus 11 ~~~-~~v~~~~~G~n~~i~~yG~tGsGKT~Tm 41 (186)
T cd01363 11 DVG-PLLQSALDGYNVCIFAYGQTGSGKTYTM 41 (186)
T ss_pred HHH-HHHHHHhCCcceeEEEECCCCCcceEec
Confidence 445 788888999764 77789999999664
No 385
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=79.80 E-value=2.7 Score=45.54 Aligned_cols=38 Identities=29% Similarity=0.475 Sum_probs=29.6
Q ss_pred CcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHHH
Q 042872 226 FRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITLN 265 (381)
Q Consensus 226 fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~ 265 (381)
++|-|++||.. ....++|+|..|||||.+-..-+..+-
T Consensus 2 Ln~~Q~~av~~--~~~~~~V~Ag~GSGKT~~L~~ri~~ll 39 (664)
T TIGR01074 2 LNPQQQEAVEY--VTGPCLVLAGAGSGKTRVITNKIAYLI 39 (664)
T ss_pred CCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHH
Confidence 67899999875 356899999999999977664444444
No 386
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=79.72 E-value=7.4 Score=39.62 Aligned_cols=16 Identities=25% Similarity=0.181 Sum_probs=13.5
Q ss_pred CEEEECCCCCCchhhH
Q 042872 242 DCFVLLPTGGGKSLCY 257 (381)
Q Consensus 242 DvLviaPTGsGKTLaF 257 (381)
-+|+.+|+|.|||...
T Consensus 47 a~L~~G~~G~GKttlA 62 (351)
T PRK09112 47 ALLFEGPEGIGKATLA 62 (351)
T ss_pred eEeeECCCCCCHHHHH
Confidence 4899999999999554
No 387
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=79.69 E-value=7.3 Score=39.04 Aligned_cols=23 Identities=17% Similarity=-0.026 Sum_probs=16.7
Q ss_pred HHHHHHc-----CCCEEEECCCCCCchh
Q 042872 233 ACKASVA-----KQDCFVLLPTGGGKSL 255 (381)
Q Consensus 233 AI~aiL~-----GrDvLviaPTGsGKTL 255 (381)
.+..+|. |+=+.+.+|.|+|||-
T Consensus 84 ~LD~lLgGGi~~G~iteI~G~~GsGKTq 111 (313)
T TIGR02238 84 ALDGILGGGIESMSITEVFGEFRCGKTQ 111 (313)
T ss_pred HHHHHhCCCCcCCeEEEEECCCCCCcCH
Confidence 3455554 4557799999999994
No 388
>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=79.58 E-value=3.4 Score=48.52 Aligned_cols=37 Identities=27% Similarity=0.337 Sum_probs=30.9
Q ss_pred CCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHH
Q 042872 225 AFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIIT 263 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~ 263 (381)
.||+-|++||.. .|++++|.|.-|||||.+-..-+..
T Consensus 1 ~~t~~Q~~ai~~--~~~~~lv~A~AGsGKT~~lv~r~~~ 37 (1232)
T TIGR02785 1 QWTDEQWQAIYT--RGQNILVSASAGSGKTAVLVERIIK 37 (1232)
T ss_pred CCCHHHHHHHhC--CCCCEEEEecCCCcHHHHHHHHHHH
Confidence 478999999984 6899999999999999887654443
No 389
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=79.49 E-value=2.1 Score=41.67 Aligned_cols=31 Identities=32% Similarity=0.451 Sum_probs=19.7
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
.++.+|||+|||.... .|.+.+|.+++.+.+
T Consensus 4 ~~i~GpT~tGKt~~ai----~lA~~~g~pvI~~Dr 34 (233)
T PF01745_consen 4 YLIVGPTGTGKTALAI----ALAQKTGAPVISLDR 34 (233)
T ss_dssp EEEE-STTSSHHHHHH----HHHHHH--EEEEE-S
T ss_pred EEEECCCCCChhHHHH----HHHHHhCCCEEEecc
Confidence 3678999999996653 455567888887764
No 390
>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=79.28 E-value=7.1 Score=34.98 Aligned_cols=17 Identities=24% Similarity=0.264 Sum_probs=13.5
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
-.|+.+|.|+||+....
T Consensus 21 a~L~~G~~g~gk~~~a~ 37 (162)
T PF13177_consen 21 ALLFHGPSGSGKKTLAL 37 (162)
T ss_dssp EEEEECSTTSSHHHHHH
T ss_pred eEEEECCCCCCHHHHHH
Confidence 36999999999985543
No 391
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=78.92 E-value=13 Score=35.58 Aligned_cols=40 Identities=15% Similarity=0.144 Sum_probs=28.2
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHH
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQ 283 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e 283 (381)
-+-+.+|.|||||..-..-++.|+.. .+..++.++.-..+
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~~--~~~aVI~~Di~t~~ 54 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKDE--YKIAVITGDIYTKE 54 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHhh--CCeEEEeceeechh
Confidence 35566899999998875557777654 66777777765533
No 392
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=78.81 E-value=5.4 Score=45.18 Aligned_cols=16 Identities=25% Similarity=0.328 Sum_probs=13.8
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|+.+|.|.|||.+..
T Consensus 40 ~Lf~Gp~G~GKTt~A~ 55 (824)
T PRK07764 40 YLFSGPRGCGKTSSAR 55 (824)
T ss_pred EEEECCCCCCHHHHHH
Confidence 6899999999997764
No 393
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=78.68 E-value=1.5 Score=38.31 Aligned_cols=39 Identities=13% Similarity=0.183 Sum_probs=21.6
Q ss_pred cHHHHHHHHHHH------cCCCEEEECCCCCCchhhHHHHHHHHH
Q 042872 227 RPLQHQACKASV------AKQDCFVLLPTGGGKSLCYQDQIITLN 265 (381)
Q Consensus 227 RpiQ~eAI~aiL------~GrDvLviaPTGsGKTLaF~dQv~~L~ 265 (381)
|..|.+.+...+ .++.+++.++.|+|||..-..-...+.
T Consensus 5 R~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~ 49 (185)
T PF13191_consen 5 REEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLA 49 (185)
T ss_dssp -HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 455666666666 246899999999999965432233344
No 394
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=78.51 E-value=2.7 Score=46.20 Aligned_cols=33 Identities=24% Similarity=0.323 Sum_probs=27.3
Q ss_pred CCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 224 RAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 224 ~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
..++|-|++|+.. ....++|+|..|||||.+-.
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~L~ 35 (715)
T TIGR01075 3 DGLNDKQREAVAA--PPGNLLVLAGAGSGKTRVLT 35 (715)
T ss_pred cccCHHHHHHHcC--CCCCEEEEecCCCCHHHHHH
Confidence 4588999999975 34689999999999997654
No 395
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=78.44 E-value=3.7 Score=45.47 Aligned_cols=30 Identities=23% Similarity=0.291 Sum_probs=19.4
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
++.++|||+|||.... .|.+.++.+.+.+.
T Consensus 487 ~lf~Gp~GvGKT~lA~----~la~~l~~~~~~~d 516 (731)
T TIGR02639 487 FLFTGPTGVGKTELAK----QLAEALGVHLERFD 516 (731)
T ss_pred EEEECCCCccHHHHHH----HHHHHhcCCeEEEe
Confidence 6899999999997652 33333444444443
No 396
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=78.31 E-value=5.7 Score=40.25 Aligned_cols=17 Identities=29% Similarity=0.337 Sum_probs=14.1
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
=++++++||||||-...
T Consensus 129 LviiVGaTGSGKSTtmA 145 (375)
T COG5008 129 LVIIVGATGSGKSTTMA 145 (375)
T ss_pred eEEEECCCCCCchhhHH
Confidence 46889999999996655
No 397
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=78.17 E-value=9.1 Score=39.65 Aligned_cols=16 Identities=25% Similarity=0.447 Sum_probs=13.6
Q ss_pred CEEEECCCCCCchhhH
Q 042872 242 DCFVLLPTGGGKSLCY 257 (381)
Q Consensus 242 DvLviaPTGsGKTLaF 257 (381)
-.|+.+|.|.|||...
T Consensus 38 a~Lf~Gp~G~GKt~lA 53 (394)
T PRK07940 38 AWLFTGPPGSGRSVAA 53 (394)
T ss_pred EEEEECCCCCcHHHHH
Confidence 4789999999999665
No 398
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=78.15 E-value=3 Score=45.64 Aligned_cols=18 Identities=33% Similarity=0.720 Sum_probs=16.5
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
+.++++||||||||..|.
T Consensus 159 ~hvLviapTgSGKg~g~V 176 (606)
T PRK13897 159 QHALLFAPTGSGKGVGFV 176 (606)
T ss_pred ceEEEEcCCCCCcceEEe
Confidence 579999999999999886
No 399
>PRK14530 adenylate kinase; Provisional
Probab=77.99 E-value=2.3 Score=39.31 Aligned_cols=31 Identities=23% Similarity=0.353 Sum_probs=21.4
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEE
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPAT 273 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~ 273 (381)
.+..+++++|+|+|||-.- ..|.+.+|+..+
T Consensus 2 ~~~~I~i~G~pGsGKsT~~----~~La~~~~~~~i 32 (215)
T PRK14530 2 SQPRILLLGAPGAGKGTQS----SNLAEEFGVEHV 32 (215)
T ss_pred CCCEEEEECCCCCCHHHHH----HHHHHHhCCeEE
Confidence 4667999999999999543 344445565443
No 400
>PHA00729 NTP-binding motif containing protein
Probab=77.93 E-value=3.2 Score=40.13 Aligned_cols=17 Identities=18% Similarity=0.276 Sum_probs=14.4
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
.++++.+++|+|||-..
T Consensus 18 ~nIlItG~pGvGKT~LA 34 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYA 34 (226)
T ss_pred EEEEEECCCCCCHHHHH
Confidence 37999999999999554
No 401
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=77.63 E-value=11 Score=38.45 Aligned_cols=16 Identities=13% Similarity=-0.076 Sum_probs=13.1
Q ss_pred CCCEEEECCCCCCchh
Q 042872 240 KQDCFVLLPTGGGKSL 255 (381)
Q Consensus 240 GrDvLviaPTGsGKTL 255 (381)
|.=+.+.+|.|+|||-
T Consensus 126 G~ItEI~G~~GsGKTq 141 (344)
T PLN03187 126 RCITEAFGEFRSGKTQ 141 (344)
T ss_pred CeEEEEecCCCCChhH
Confidence 4456799999999994
No 402
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=77.47 E-value=19 Score=32.92 Aligned_cols=35 Identities=17% Similarity=0.123 Sum_probs=23.3
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEE---EeCC
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATF---LNSQ 278 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~---l~g~ 278 (381)
+.+..++|.|||-+..-+..+.. ..|.++.+ +.|+
T Consensus 5 i~vy~g~G~Gkt~~a~g~~~ra~-~~g~~v~~vQFlKg~ 42 (159)
T cd00561 5 IQVYTGNGKGKTTAALGLALRAL-GHGYRVGVVQFLKGG 42 (159)
T ss_pred EEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEEEeCCC
Confidence 45668889999977764433333 35888777 6664
No 403
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=77.36 E-value=81 Score=31.71 Aligned_cols=51 Identities=16% Similarity=0.299 Sum_probs=30.6
Q ss_pred HHHHHHHHHcCCCE---EEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHH
Q 042872 230 QHQACKASVAKQDC---FVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVS 282 (381)
Q Consensus 230 Q~eAI~aiL~GrDv---LviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~ 282 (381)
..+.....+..+.+ -+.++.|+|||-....-+..|.. ..+++++.+.....
T Consensus 91 ~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~--~~~~~VI~gD~~t~ 144 (290)
T PRK10463 91 LAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKD--SVPCAVIEGDQQTV 144 (290)
T ss_pred HHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhcc--CCCEEEECCCcCcH
Confidence 45555666655544 34579999999766333344432 24677777765433
No 404
>TIGR02746 TraC-F-type type-IV secretion system protein TraC. The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.
Probab=77.21 E-value=4.9 Score=44.38 Aligned_cols=18 Identities=33% Similarity=0.383 Sum_probs=15.2
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
.+++++++||+|||..-.
T Consensus 431 ~n~~I~G~tGsGKS~~~~ 448 (797)
T TIGR02746 431 YNIAVVGGSGAGKSFFMQ 448 (797)
T ss_pred cceEEEcCCCCCHHHHHH
Confidence 479999999999996654
No 405
>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=77.14 E-value=3.1 Score=51.24 Aligned_cols=52 Identities=17% Similarity=0.093 Sum_probs=35.7
Q ss_pred CCCcHHHHHHHHHHHcCCC--EEEECCCCCCchhhHH---HHHHHHHhhcCCcEEEE
Q 042872 224 RAFRPLQHQACKASVAKQD--CFVLLPTGGGKSLCYQ---DQIITLNLKFGIPATFL 275 (381)
Q Consensus 224 ~~fRpiQ~eAI~aiL~GrD--vLviaPTGsGKTLaF~---dQv~~L~~~~gI~a~~l 275 (381)
..+++.|++||..++.++| +++.++.|+|||-... ..+..+....|.+++.+
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~gl 1074 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGL 1074 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEE
Confidence 3688999999999997754 5667999999997763 22222222346565554
No 406
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=77.09 E-value=15 Score=37.99 Aligned_cols=66 Identities=17% Similarity=0.105 Sum_probs=42.0
Q ss_pred cHHHHHHHHHHH-cCCCEEEECCCCCCchhhHHHHHHHHHh---hcC------CcEEEEeCCCCHHHHHHHHHHHH
Q 042872 227 RPLQHQACKASV-AKQDCFVLLPTGGGKSLCYQDQIITLNL---KFG------IPATFLNSQQTVSQAAAVLQELR 292 (381)
Q Consensus 227 RpiQ~eAI~aiL-~GrDvLviaPTGsGKTLaF~dQv~~L~~---~~g------I~a~~l~g~~~~~e~~~il~~lr 292 (381)
|..|-+.|+-.+ .|--+|+.++.|.|||.+.+.+...+.. .+| -+++.++-...+...-..++.+.
T Consensus 75 rs~~P~lId~~fr~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~ 150 (402)
T COG3598 75 RSNSPQLIDEFFRKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVR 150 (402)
T ss_pred cccChhhhhHHhhcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHH
Confidence 566778888876 4566778899999999887755544432 344 14556666655555444444443
No 407
>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=77.07 E-value=6.3 Score=38.64 Aligned_cols=16 Identities=25% Similarity=0.285 Sum_probs=13.3
Q ss_pred CEEEECCCCCCchhhH
Q 042872 242 DCFVLLPTGGGKSLCY 257 (381)
Q Consensus 242 DvLviaPTGsGKTLaF 257 (381)
-.|+.+|.|+|||...
T Consensus 38 ~~Ll~G~~G~GKt~~a 53 (355)
T TIGR02397 38 AYLFSGPRGTGKTSIA 53 (355)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4688999999999554
No 408
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=77.00 E-value=4.2 Score=41.35 Aligned_cols=36 Identities=17% Similarity=0.147 Sum_probs=24.7
Q ss_pred HHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEE
Q 042872 236 ASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFL 275 (381)
Q Consensus 236 aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l 275 (381)
.+..++.+++.+|+|+|||... ..+...+|.+...+
T Consensus 60 ~l~~~~~ilL~G~pGtGKTtla----~~lA~~l~~~~~rV 95 (327)
T TIGR01650 60 GFAYDRRVMVQGYHGTGKSTHI----EQIAARLNWPCVRV 95 (327)
T ss_pred HHhcCCcEEEEeCCCChHHHHH----HHHHHHHCCCeEEE
Confidence 3446899999999999999775 23333445555444
No 409
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=76.99 E-value=29 Score=36.39 Aligned_cols=59 Identities=15% Similarity=0.259 Sum_probs=33.3
Q ss_pred CCCCCCCHHHHhhchHHHHHHHHH--hCCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 197 NEHGTLSFEELQALDDMEFANVVI--FGNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 197 ~~~~~~~fe~L~~l~~l~~~~~~~--fG~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
...+..+|+....|++-..-++.. +-.+.|--++.--|. --+-||+.+|.|+||||..-
T Consensus 143 ~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~---PPKGVLLYGPPGTGKTLLAk 203 (406)
T COG1222 143 EEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGID---PPKGVLLYGPPGTGKTLLAK 203 (406)
T ss_pred ccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCC---CCCceEeeCCCCCcHHHHHH
Confidence 334567788888777643333322 222222222221111 13789999999999998753
No 410
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=76.93 E-value=1.8 Score=44.22 Aligned_cols=40 Identities=15% Similarity=0.245 Sum_probs=24.2
Q ss_pred HHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 236 ASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 236 aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
.-...+++++++.||+|||.++...+..+. ..|-++++..
T Consensus 11 ~~~e~~~~li~G~~GsGKT~~i~~ll~~~~-~~g~~~iI~D 50 (386)
T PF10412_consen 11 KDSENRHILIIGATGSGKTQAIRHLLDQIR-ARGDRAIIYD 50 (386)
T ss_dssp GGGGGG-EEEEE-TTSSHHHHHHHHHHHHH-HTT-EEEEEE
T ss_pred cchhhCcEEEECCCCCCHHHHHHHHHHHHH-HcCCEEEEEE
Confidence 334568999999999999987653333433 3455555554
No 411
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=76.81 E-value=4.1 Score=42.56 Aligned_cols=17 Identities=35% Similarity=0.632 Sum_probs=15.3
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
.++|+.+|||+|||...
T Consensus 117 ~~iLL~GP~GsGKT~lA 133 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLA 133 (413)
T ss_pred ceEEEECCCCcCHHHHH
Confidence 47999999999999876
No 412
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=76.71 E-value=23 Score=37.58 Aligned_cols=17 Identities=29% Similarity=0.538 Sum_probs=15.5
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
|-+|.++|.|+|||+..
T Consensus 246 kgvLm~GPPGTGKTlLA 262 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTLLA 262 (491)
T ss_pred ceeeeeCCCCCcHHHHH
Confidence 67999999999999876
No 413
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=76.68 E-value=6.5 Score=43.50 Aligned_cols=26 Identities=31% Similarity=0.411 Sum_probs=17.8
Q ss_pred EECCCCCCchhhHHHHHHHHHhhcCCc
Q 042872 245 VLLPTGGGKSLCYQDQIITLNLKFGIP 271 (381)
Q Consensus 245 viaPTGsGKTLaF~dQv~~L~~~~gI~ 271 (381)
.-|.||+|||++.+-.+..+- ..|.+
T Consensus 2 f~matgsgkt~~ma~lil~~y-~kgyr 27 (812)
T COG3421 2 FEMATGSGKTLVMAGLILECY-KKGYR 27 (812)
T ss_pred cccccCCChhhHHHHHHHHHH-Hhchh
Confidence 458999999998874444443 34554
No 414
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=76.63 E-value=9.5 Score=40.22 Aligned_cols=34 Identities=15% Similarity=0.138 Sum_probs=22.4
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCC
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQ 278 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~ 278 (381)
.+.|.-+|.|+|||-... -+...++.....++..
T Consensus 49 ~SmIl~GPPG~GKTTlA~----liA~~~~~~f~~~sAv 82 (436)
T COG2256 49 HSMILWGPPGTGKTTLAR----LIAGTTNAAFEALSAV 82 (436)
T ss_pred ceeEEECCCCCCHHHHHH----HHHHhhCCceEEeccc
Confidence 378999999999997653 2233455555555543
No 415
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=76.51 E-value=6.8 Score=35.00 Aligned_cols=18 Identities=28% Similarity=0.438 Sum_probs=14.8
Q ss_pred CCCEEEECCCCCCchhhH
Q 042872 240 KQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF 257 (381)
++-+++.+|-|+|||-..
T Consensus 20 ~~~~~l~G~rg~GKTsLl 37 (234)
T PF01637_consen 20 SQHILLYGPRGSGKTSLL 37 (234)
T ss_dssp SSEEEEEESTTSSHHHHH
T ss_pred CcEEEEEcCCcCCHHHHH
Confidence 367888899999999754
No 416
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=76.42 E-value=5.5 Score=45.28 Aligned_cols=45 Identities=16% Similarity=0.224 Sum_probs=29.9
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQA 284 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~ 284 (381)
..++++++|||+|||..-...+..+....|-+++++..+.+....
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q~~~~~~~~v~IiD~g~sy~~l 519 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQVMAVHRPRLFIVEAGNSFGLL 519 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEcCCCCHHHH
Confidence 458899999999999776533333332235667777766665543
No 417
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=76.23 E-value=2.3 Score=48.26 Aligned_cols=36 Identities=25% Similarity=0.456 Sum_probs=28.9
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCc-EEEEeC
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIP-ATFLNS 277 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~-a~~l~g 277 (381)
++=|.|.||+|||.||+..+-+|-+++|+. -+++.+
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLhk~YG~~KFIivVP 112 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELHKKYGLFKFIIVVP 112 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHHHHhCceeEEEEec
Confidence 677899999999999998888888889974 344433
No 418
>TIGR02858 spore_III_AA stage III sporulation protein AA. Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.
Probab=76.21 E-value=25 Score=34.59 Aligned_cols=18 Identities=17% Similarity=0.383 Sum_probs=15.8
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
+++++++|||+|||..+.
T Consensus 112 ~~~~i~g~~g~GKttl~~ 129 (270)
T TIGR02858 112 LNTLIISPPQCGKTTLLR 129 (270)
T ss_pred eEEEEEcCCCCCHHHHHH
Confidence 688999999999997764
No 419
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=76.16 E-value=11 Score=39.82 Aligned_cols=44 Identities=16% Similarity=0.142 Sum_probs=30.1
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQ 283 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e 283 (381)
.|.=+++.+++|+|||...+.....+. ..|-+++.+.+..+..+
T Consensus 93 ~GsvilI~G~pGsGKTTL~lq~a~~~a-~~g~kvlYvs~EEs~~q 136 (454)
T TIGR00416 93 PGSLILIGGDPGIGKSTLLLQVACQLA-KNQMKVLYVSGEESLQQ 136 (454)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHH-hcCCcEEEEECcCCHHH
Confidence 456678899999999977643334444 34667888887766543
No 420
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=76.08 E-value=1.6 Score=39.14 Aligned_cols=39 Identities=21% Similarity=0.256 Sum_probs=23.6
Q ss_pred CccEEEECccccccCcchHHHHHHHHhcCCccccccccccccccccccCCccEEEEeccccC
Q 042872 320 SCKLLYVTPERIVGNQSFSEVLKCLHRKGSIRLKVLTTDVVVLPHTCQRQLAGFVVDEAHCV 381 (381)
Q Consensus 320 ~~~IL~aTPErL~~~~~f~~~L~~L~~~g~~~l~~~~~~~v~~~~~~~~~L~~lVIDEAHcI 381 (381)
..+|||++---|++ +..+..+. .+.+ .=..|||||||-|
T Consensus 119 ~adivi~~y~yl~~-~~~~~~~~------~~~~----------------~~~ivI~DEAHNL 157 (174)
T PF06733_consen 119 NADIVICNYNYLFD-PSIRKSLF------GIDL----------------KDNIVIFDEAHNL 157 (174)
T ss_dssp G-SEEEEETHHHHS-HHHHHHHC------T--C----------------CCEEEEETTGGGC
T ss_pred cCCEEEeCHHHHhh-HHHHhhhc------cccc----------------cCcEEEEecccch
Confidence 68999998777773 44433321 0111 3458999999965
No 421
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=76.04 E-value=4.7 Score=44.11 Aligned_cols=66 Identities=17% Similarity=0.315 Sum_probs=37.0
Q ss_pred CCHHHHhhchHHHHHHHHHhCC-CCCcHHHHHHHHHHHcC---CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 202 LSFEELQALDDMEFANVVIFGN-RAFRPLQHQACKASVAK---QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 202 ~~fe~L~~l~~l~~~~~~~fG~-~~fRpiQ~eAI~aiL~G---rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
..|+..+..++-..-++++-.| +.|+.+ ..|-| |-||+++|.|+|||+.. ++..-..|++.....|
T Consensus 301 v~F~dVkG~DEAK~ELeEiVefLkdP~kf------trLGGKLPKGVLLvGPPGTGKTlLA----RAvAGEA~VPFF~~sG 370 (752)
T KOG0734|consen 301 VTFEDVKGVDEAKQELEEIVEFLKDPTKF------TRLGGKLPKGVLLVGPPGTGKTLLA----RAVAGEAGVPFFYASG 370 (752)
T ss_pred cccccccChHHHHHHHHHHHHHhcCcHHh------hhccCcCCCceEEeCCCCCchhHHH----HHhhcccCCCeEeccc
Confidence 4566666666544444443222 122111 22444 58999999999999875 3333345666655443
No 422
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=76.00 E-value=4.4 Score=39.26 Aligned_cols=27 Identities=22% Similarity=0.418 Sum_probs=18.4
Q ss_pred HHHHHHHcC----CC-EEEECCCCCCch-hhHH
Q 042872 232 QACKASVAK----QD-CFVLLPTGGGKS-LCYQ 258 (381)
Q Consensus 232 eAI~aiL~G----rD-vLviaPTGsGKT-LaF~ 258 (381)
..+..+|.| .. +=+.+|.|+||| +|.+
T Consensus 25 ~~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~ 57 (256)
T PF08423_consen 25 KSLDELLGGGIPTGSITEIVGESGSGKTQLCLQ 57 (256)
T ss_dssp HHHHHHTTSSEETTSEEEEEESTTSSHHHHHHH
T ss_pred HHHHHhhCCCCCCCcEEEEEEecccccchHHHH
Confidence 367778765 22 336789999999 4543
No 423
>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=75.26 E-value=9.4 Score=35.28 Aligned_cols=44 Identities=14% Similarity=0.095 Sum_probs=29.3
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQ 283 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e 283 (381)
.|.-+++.+|+|+|||...+.-+.... ..|-+++.+....+.++
T Consensus 19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~-~~g~~~~~is~e~~~~~ 62 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFCLHFAYKGL-RDGDPVIYVTTEESRES 62 (229)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHHHH-hcCCeEEEEEccCCHHH
Confidence 467889999999999865432222222 34677878877766654
No 424
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=75.18 E-value=3.1 Score=45.95 Aligned_cols=39 Identities=26% Similarity=0.307 Sum_probs=29.5
Q ss_pred CCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHHHHHHH
Q 042872 224 RAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQDQIITL 264 (381)
Q Consensus 224 ~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~dQv~~L 264 (381)
..++|-|++|+... ...++|+|..|||||.+-..-+..|
T Consensus 8 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~vl~~Ria~L 46 (721)
T PRK11773 8 DSLNDKQREAVAAP--LGNMLVLAGAGSGKTRVLVHRIAWL 46 (721)
T ss_pred HhcCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHH
Confidence 35889999999753 4689999999999997765333333
No 425
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=75.02 E-value=3.1 Score=43.46 Aligned_cols=37 Identities=19% Similarity=0.259 Sum_probs=26.9
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
.||-+|+.+|+|+|||...+--.+.|+ -+++.+.+.|
T Consensus 64 aGrgiLi~GppgTGKTAlA~gIa~eLG--~dvPF~~isg 100 (450)
T COG1224 64 AGRGILIVGPPGTGKTALAMGIARELG--EDVPFVAISG 100 (450)
T ss_pred cccEEEEECCCCCcHHHHHHHHHHHhC--CCCCceeecc
Confidence 689999999999999988764445555 2456555544
No 426
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=74.76 E-value=2.6 Score=40.24 Aligned_cols=20 Identities=20% Similarity=0.448 Sum_probs=14.8
Q ss_pred cCCCEEEECCCCCCchhhHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~ 258 (381)
.+.++|+.+|.|+|||....
T Consensus 21 G~h~lLl~GppGtGKTmlA~ 40 (206)
T PF01078_consen 21 GGHHLLLIGPPGTGKTMLAR 40 (206)
T ss_dssp CC--EEEES-CCCTHHHHHH
T ss_pred CCCCeEEECCCCCCHHHHHH
Confidence 45799999999999998864
No 427
>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=74.76 E-value=8.3 Score=29.33 Aligned_cols=28 Identities=18% Similarity=0.427 Sum_probs=25.5
Q ss_pred hcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 267 KFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 267 ~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
..|+++..++|+++..++..+++.++.|
T Consensus 5 ~~~~~~~~i~~~~~~~~r~~~~~~f~~~ 32 (78)
T PF00271_consen 5 KKGIKVAIIHGDMSQKERQEILKKFNSG 32 (78)
T ss_dssp HTTSSEEEESTTSHHHHHHHHHHHHHTT
T ss_pred HCCCcEEEEECCCCHHHHHHHHHHhhcc
Confidence 6899999999999999999999998855
No 428
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.75 E-value=7.5 Score=41.55 Aligned_cols=16 Identities=25% Similarity=0.306 Sum_probs=13.4
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
.|+.+|.|+|||.+..
T Consensus 39 ~Lf~GppGtGKTTlA~ 54 (504)
T PRK14963 39 YLFSGPRGVGKTTTAR 54 (504)
T ss_pred EEEECCCCCCHHHHHH
Confidence 3999999999996653
No 429
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=74.65 E-value=1.9 Score=42.68 Aligned_cols=25 Identities=16% Similarity=0.308 Sum_probs=18.9
Q ss_pred HHHHHH-cCCCEEEECCCCCCchhhH
Q 042872 233 ACKASV-AKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 233 AI~aiL-~GrDvLviaPTGsGKTLaF 257 (381)
.+...+ .|+.+++++|||+|||-..
T Consensus 136 ~l~~~v~~~~~ili~G~tGsGKTTll 161 (308)
T TIGR02788 136 FLRLAIASRKNIIISGGTGSGKTTFL 161 (308)
T ss_pred HHHHHhhCCCEEEEECCCCCCHHHHH
Confidence 344433 5789999999999999654
No 430
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=74.56 E-value=2.2 Score=33.32 Aligned_cols=19 Identities=26% Similarity=0.343 Sum_probs=16.2
Q ss_pred cCCCEEEECCCCCCchhhH
Q 042872 239 AKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF 257 (381)
.|..+++.+|+|+|||-.+
T Consensus 22 ~g~~tli~G~nGsGKSTll 40 (62)
T PF13555_consen 22 RGDVTLITGPNGSGKSTLL 40 (62)
T ss_pred CCcEEEEECCCCCCHHHHH
Confidence 4557999999999999776
No 431
>CHL00195 ycf46 Ycf46; Provisional
Probab=74.45 E-value=16 Score=38.99 Aligned_cols=68 Identities=18% Similarity=0.164 Sum_probs=37.8
Q ss_pred CCCCHHHHhhchHHHHHHHHHhCCCCCcHHHHHHHHH-HHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 200 GTLSFEELQALDDMEFANVVIFGNRAFRPLQHQACKA-SVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 200 ~~~~fe~L~~l~~l~~~~~~~fG~~~fRpiQ~eAI~a-iL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
...+|+.+..++.+...+..... .| ...+... +-..+-+|+.+|.|+|||+.. +.+....+++...+.
T Consensus 223 ~~~~~~dvgGl~~lK~~l~~~~~--~~---~~~~~~~gl~~pkGILL~GPpGTGKTllA----kaiA~e~~~~~~~l~ 291 (489)
T CHL00195 223 VNEKISDIGGLDNLKDWLKKRST--SF---SKQASNYGLPTPRGLLLVGIQGTGKSLTA----KAIANDWQLPLLRLD 291 (489)
T ss_pred CCCCHHHhcCHHHHHHHHHHHHH--Hh---hHHHHhcCCCCCceEEEECCCCCcHHHHH----HHHHHHhCCCEEEEE
Confidence 44567777776665554433110 01 1111111 112367999999999999775 444545677766554
No 432
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=74.43 E-value=5.1 Score=40.88 Aligned_cols=44 Identities=16% Similarity=0.320 Sum_probs=33.3
Q ss_pred CCchhhHH------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 251 GGKSLCYQ------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 251 sGKTLaF~------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
.+|+++|. +.+...-...|+++..++|+++..++..+++.+++|
T Consensus 245 ~~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G 294 (434)
T PRK11192 245 VTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDG 294 (434)
T ss_pred CCeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCC
Confidence 36777776 222222225689999999999999999999999877
No 433
>TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD. The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).
Probab=74.26 E-value=4.2 Score=44.02 Aligned_cols=20 Identities=30% Similarity=0.428 Sum_probs=17.0
Q ss_pred cCCCEEEECCCCCCchhhHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~ 258 (381)
..++++++++||+|||.++-
T Consensus 175 e~~h~li~G~tGsGKs~~i~ 194 (566)
T TIGR02759 175 ETQHILIHGTTGSGKSVAIR 194 (566)
T ss_pred cccceEEEcCCCCCHHHHHH
Confidence 46799999999999997653
No 434
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=74.10 E-value=4.2 Score=41.20 Aligned_cols=32 Identities=28% Similarity=0.313 Sum_probs=25.5
Q ss_pred CcHHHHHHHHHHHc-CCCEEEECCCCCCchhhH
Q 042872 226 FRPLQHQACKASVA-KQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 226 fRpiQ~eAI~aiL~-GrDvLviaPTGsGKTLaF 257 (381)
+.+.+.+.+..++. +++++++++||+|||-.+
T Consensus 163 ~~~~~~~~L~~~v~~~~~ili~G~tGsGKTTll 195 (340)
T TIGR03819 163 FPPGVARLLRAIVAARLAFLISGGTGSGKTTLL 195 (340)
T ss_pred CCHHHHHHHHHHHhCCCeEEEECCCCCCHHHHH
Confidence 56677777777665 469999999999999654
No 435
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.01 E-value=15 Score=40.60 Aligned_cols=17 Identities=18% Similarity=0.124 Sum_probs=14.1
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
..|+.+|.|+|||.+..
T Consensus 40 a~Lf~GPpG~GKTtiAr 56 (624)
T PRK14959 40 AYLFSGTRGVGKTTIAR 56 (624)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 46789999999997763
No 436
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=73.95 E-value=15 Score=41.67 Aligned_cols=42 Identities=14% Similarity=0.222 Sum_probs=27.3
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVS 282 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~ 282 (381)
|+=+++.+|+|+|||..-+.-+.... ..|-+++.+...-+..
T Consensus 60 GsiteI~G~~GsGKTtLal~~~~~a~-~~G~~v~yId~E~t~~ 101 (790)
T PRK09519 60 GRVIEIYGPESSGKTTVALHAVANAQ-AAGGVAAFIDAEHALD 101 (790)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEECCccchh
Confidence 56788999999999965532222222 4577787776654443
No 437
>PRK06904 replicative DNA helicase; Validated
Probab=73.79 E-value=25 Score=37.31 Aligned_cols=51 Identities=12% Similarity=0.072 Sum_probs=33.0
Q ss_pred HcCCCE-EEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 238 VAKQDC-FVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 238 L~GrDv-LviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
+...++ ++.|.||.|||.-.++-+.......|.+++++...++..+....+
T Consensus 218 l~~G~LiiIaarPg~GKTafalnia~~~a~~~g~~Vl~fSlEMs~~ql~~Rl 269 (472)
T PRK06904 218 LQPSDLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSLEMPAEQIMMRM 269 (472)
T ss_pred cCCCcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEeccCCHHHHHHHH
Confidence 333454 556899999997544333333333578888888888877654443
No 438
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.78 E-value=6.2 Score=42.71 Aligned_cols=15 Identities=20% Similarity=0.124 Sum_probs=12.9
Q ss_pred EEEECCCCCCchhhH
Q 042872 243 CFVLLPTGGGKSLCY 257 (381)
Q Consensus 243 vLviaPTGsGKTLaF 257 (381)
.|+.+|.|+|||.+.
T Consensus 41 yLf~Gp~G~GKtt~A 55 (576)
T PRK14965 41 FLFTGARGVGKTSTA 55 (576)
T ss_pred EEEECCCCCCHHHHH
Confidence 488999999999765
No 439
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=73.48 E-value=8.5 Score=39.21 Aligned_cols=32 Identities=19% Similarity=0.063 Sum_probs=21.6
Q ss_pred cHHHHHHHHHHH--cCC---CEEEECCCCCCchhhHH
Q 042872 227 RPLQHQACKASV--AKQ---DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 227 RpiQ~eAI~aiL--~Gr---DvLviaPTGsGKTLaF~ 258 (381)
.|.|......+. .|| -.|+.+|.|.||+....
T Consensus 3 yPW~~~~~~~l~~~~~rl~ha~Lf~Gp~G~GK~~lA~ 39 (342)
T PRK06964 3 YPWQTDDWNRLQALRARLPHALLLHGQAGIGKLDFAQ 39 (342)
T ss_pred CcccHHHHHHHHHhcCCcceEEEEECCCCCCHHHHHH
Confidence 355555555554 333 56789999999996654
No 440
>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=73.35 E-value=17 Score=45.09 Aligned_cols=52 Identities=13% Similarity=0.145 Sum_probs=37.7
Q ss_pred CCcHHHHHHHHHHHcCC--CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeC
Q 042872 225 AFRPLQHQACKASVAKQ--DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNS 277 (381)
Q Consensus 225 ~fRpiQ~eAI~aiL~Gr--DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g 277 (381)
.+.+.|++|+..++..+ =+++.++-|+|||-+- ..+..+.+..|.++..+..
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l-~~l~~~~~~~G~~V~~lAP 482 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIA-QLLLHLASEQGYEIQIITA 482 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHH-HHHHHHHHhcCCeEEEEeC
Confidence 46789999999999764 3577799999999775 3344444456777766643
No 441
>PRK08840 replicative DNA helicase; Provisional
Probab=73.11 E-value=26 Score=37.13 Aligned_cols=48 Identities=10% Similarity=0.034 Sum_probs=31.4
Q ss_pred CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 241 QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
.=+++.|.||.|||.-.++-........|.++.++.-.++..+....+
T Consensus 218 ~LiviaarPg~GKTafalnia~~~a~~~~~~v~~fSlEMs~~ql~~Rl 265 (464)
T PRK08840 218 DLIIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLEMPAEQLMMRM 265 (464)
T ss_pred ceEEEEeCCCCchHHHHHHHHHHHHHhCCCeEEEEeccCCHHHHHHHH
Confidence 334667899999997654333333323578888888888876654433
No 442
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=72.93 E-value=10 Score=37.92 Aligned_cols=18 Identities=22% Similarity=0.355 Sum_probs=15.9
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
-++++.+|.|.|||-+.+
T Consensus 49 P~liisGpPG~GKTTsi~ 66 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSIL 66 (333)
T ss_pred CceEeeCCCCCchhhHHH
Confidence 389999999999998875
No 443
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=72.92 E-value=5.1 Score=42.65 Aligned_cols=29 Identities=17% Similarity=0.304 Sum_probs=26.6
Q ss_pred hhcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 266 LKFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 266 ~~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
...|+++..|+|+.+.+++.+.+..+++|
T Consensus 294 ~~~g~~~~~lhG~l~q~~R~~~l~~F~~g 322 (513)
T COG0513 294 RKRGFKVAALHGDLPQEERDRALEKFKDG 322 (513)
T ss_pred HHCCCeEEEecCCCCHHHHHHHHHHHHcC
Confidence 36899999999999999999999999876
No 444
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=72.86 E-value=4.7 Score=42.05 Aligned_cols=53 Identities=21% Similarity=0.290 Sum_probs=30.6
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCC----CHHHHHHHHHHHHh
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQ----TVSQAAAVLQELRQ 293 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~----~~~e~~~il~~lr~ 293 (381)
+||-+|+.+|+|+|||...+--.+.|+ -.++.+.+.|.- ....-...++++|+
T Consensus 49 aGr~iLiaGppGtGKTAlA~~ia~eLG--~~~PF~~isgSEiyS~e~kKTE~L~qa~Rr 105 (398)
T PF06068_consen 49 AGRAILIAGPPGTGKTALAMAIAKELG--EDVPFVSISGSEIYSSEVKKTEALTQAFRR 105 (398)
T ss_dssp TT-EEEEEE-TTSSHHHHHHHHHHHCT--TTS-EEEEEGGGG-BTTC-HHHHHHHHHHC
T ss_pred cCcEEEEeCCCCCCchHHHHHHHHHhC--CCCCeeEcccceeeecccCchHHHHHHHHH
Confidence 589999999999999988753344444 246777766431 12223345566653
No 445
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=72.79 E-value=4 Score=41.25 Aligned_cols=16 Identities=25% Similarity=0.252 Sum_probs=13.1
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
+++++||++|||-...
T Consensus 6 i~I~GPTAsGKT~lai 21 (308)
T COG0324 6 IVIAGPTASGKTALAI 21 (308)
T ss_pred EEEECCCCcCHHHHHH
Confidence 5788999999996654
No 446
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=72.36 E-value=7.8 Score=42.56 Aligned_cols=17 Identities=24% Similarity=0.212 Sum_probs=14.2
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
-.|+.+|.|+|||....
T Consensus 40 A~Lf~GP~GvGKTTlA~ 56 (605)
T PRK05896 40 AYIFSGPRGIGKTSIAK 56 (605)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 47899999999997654
No 447
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=72.27 E-value=3.9 Score=32.50 Aligned_cols=33 Identities=21% Similarity=0.479 Sum_probs=27.4
Q ss_pred HHHHhhCCChHHHHHHHHHHHhhhcCCCCceeEeee
Q 042872 15 SLALEFGFDQDSANKSLNRLISLYGDDGQDFISVEH 50 (381)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 50 (381)
+--..+||.+...+..|.+|+.+||.+ |-.+|-
T Consensus 16 dam~~lG~~~~~v~~vl~~LL~lY~~n---W~lIEe 48 (65)
T PF10440_consen 16 DAMRQLGFSKKQVRPVLKNLLKLYDGN---WELIEE 48 (65)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHHHcCC---chhhhc
Confidence 444679999999999999999999755 777774
No 448
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=72.21 E-value=4.1 Score=44.74 Aligned_cols=18 Identities=22% Similarity=0.388 Sum_probs=16.6
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
+++++++|||||||..|.
T Consensus 176 ~HvlviapTgSGKgvg~V 193 (636)
T PRK13880 176 EHVLTYAPTRSGKGVGLV 193 (636)
T ss_pred ceEEEEecCCCCCceEEE
Confidence 689999999999999886
No 449
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=72.07 E-value=3.3 Score=45.77 Aligned_cols=18 Identities=22% Similarity=0.425 Sum_probs=16.7
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
.+++++||||+|||..|.
T Consensus 145 ~hvLviApTrSGKgvg~V 162 (663)
T PRK13876 145 EHVLCFAPTRSGKGVGLV 162 (663)
T ss_pred ceEEEEecCCCCcceeEe
Confidence 689999999999998886
No 450
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=71.97 E-value=5.4 Score=41.60 Aligned_cols=19 Identities=42% Similarity=0.669 Sum_probs=16.2
Q ss_pred CCCEEEECCCCCCchhhHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~ 258 (381)
..++|+.+|||+|||....
T Consensus 108 ~~~iLl~Gp~GtGKT~lAr 126 (412)
T PRK05342 108 KSNILLIGPTGSGKTLLAQ 126 (412)
T ss_pred CceEEEEcCCCCCHHHHHH
Confidence 3679999999999998763
No 451
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=71.75 E-value=9.1 Score=37.92 Aligned_cols=45 Identities=24% Similarity=0.221 Sum_probs=29.3
Q ss_pred HHHHHcCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEE--EEeCCCCHH
Q 042872 234 CKASVAKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPAT--FLNSQQTVS 282 (381)
Q Consensus 234 I~aiL~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~--~l~g~~~~~ 282 (381)
+-+++.|+.+|+.+|+|.|||... +.+.+.++.+.. -++.+....
T Consensus 37 l~a~~~~~~vll~G~PG~gKT~la----~~lA~~l~~~~~~i~~t~~l~p~ 83 (329)
T COG0714 37 LLALLAGGHVLLEGPPGVGKTLLA----RALARALGLPFVRIQCTPDLLPS 83 (329)
T ss_pred HHHHHcCCCEEEECCCCccHHHHH----HHHHHHhCCCeEEEecCCCCCHH
Confidence 334568999999999999999875 333434455443 334444433
No 452
>PRK04841 transcriptional regulator MalT; Provisional
Probab=71.67 E-value=15 Score=40.62 Aligned_cols=20 Identities=25% Similarity=0.267 Sum_probs=16.3
Q ss_pred cCCCEEEECCCCCCchhhHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~ 258 (381)
..+=++|.+|.|+|||..-.
T Consensus 31 ~~~~~~v~apaG~GKTtl~~ 50 (903)
T PRK04841 31 NYRLVLVTSPAGYGKTTLIS 50 (903)
T ss_pred CCCeEEEECCCCCCHHHHHH
Confidence 34568999999999997763
No 453
>PTZ00110 helicase; Provisional
Probab=71.37 E-value=6.1 Score=42.28 Aligned_cols=43 Identities=28% Similarity=0.423 Sum_probs=32.4
Q ss_pred CCchhhHH------HHH-HHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 251 GGKSLCYQ------DQI-ITLNLKFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 251 sGKTLaF~------dQv-~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
.+|+++|. +.+ ..|. ..|+++..++|+.+..++..+++.++.|
T Consensus 377 ~~k~LIF~~t~~~a~~l~~~L~-~~g~~~~~ihg~~~~~eR~~il~~F~~G 426 (545)
T PTZ00110 377 GDKILIFVETKKGADFLTKELR-LDGWPALCIHGDKKQEERTWVLNEFKTG 426 (545)
T ss_pred CCeEEEEecChHHHHHHHHHHH-HcCCcEEEEECCCcHHHHHHHHHHHhcC
Confidence 35666665 333 2333 4689999999999999999999998866
No 454
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=71.32 E-value=5.6 Score=40.58 Aligned_cols=28 Identities=18% Similarity=0.293 Sum_probs=25.5
Q ss_pred hcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 267 KFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 267 ~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
..|+++..++|+++..++..+++.+++|
T Consensus 277 ~~g~~v~~lhg~~~~~~R~~~l~~F~~g 304 (423)
T PRK04837 277 ADGHRVGLLTGDVAQKKRLRILEEFTRG 304 (423)
T ss_pred hCCCcEEEecCCCChhHHHHHHHHHHcC
Confidence 5689999999999999999999998876
No 455
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=71.11 E-value=5.6 Score=43.32 Aligned_cols=35 Identities=17% Similarity=0.127 Sum_probs=26.7
Q ss_pred CCCCcHHHHHHHHHHH-----cCCCEEEECCCCCCchhhH
Q 042872 223 NRAFRPLQHQACKASV-----AKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 223 ~~~fRpiQ~eAI~aiL-----~GrDvLviaPTGsGKTLaF 257 (381)
...++|+|.+.++-+. .+.+.++.-.-|-|||+--
T Consensus 336 ~~~lr~yq~~g~~wl~~~l~~~~~~~ilaD~mglGKTiq~ 375 (866)
T COG0553 336 SAELRPYQLEGVNWLSELLRSNLLGGILADDMGLGKTVQT 375 (866)
T ss_pred hhhhHHHHHHHHHHHHHHHHhccCCCcccccccchhHHHH
Confidence 3467899999986644 2667888899999999543
No 456
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=71.07 E-value=3.7 Score=41.21 Aligned_cols=29 Identities=17% Similarity=0.229 Sum_probs=22.2
Q ss_pred HHHHHHHHHcCCC--EEEECCCCCCchhhHH
Q 042872 230 QHQACKASVAKQD--CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 230 Q~eAI~aiL~GrD--vLviaPTGsGKTLaF~ 258 (381)
-...|..++.|.+ +|+.++||+|||.+..
T Consensus 76 ~~plv~~~~~G~n~~i~ayGqtGSGKTyTm~ 106 (338)
T cd01370 76 TKPLVDGVLNGYNATVFAYGATGAGKTHTML 106 (338)
T ss_pred HHHHHHHHHCCCCceEEeeCCCCCCCeEEEc
Confidence 3456677788976 5778899999998753
No 457
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=70.59 E-value=6.6 Score=42.38 Aligned_cols=28 Identities=14% Similarity=0.366 Sum_probs=25.6
Q ss_pred hcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 267 KFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 267 ~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
..++.+..++|+++..++..+++.+++|
T Consensus 279 ~~g~~v~~lhg~l~~~eR~~il~~Fr~G 306 (572)
T PRK04537 279 RHGYRVGVLSGDVPQKKRESLLNRFQKG 306 (572)
T ss_pred HcCCCEEEEeCCCCHHHHHHHHHHHHcC
Confidence 5789999999999999999999998876
No 458
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=70.56 E-value=19 Score=35.66 Aligned_cols=18 Identities=17% Similarity=0.032 Sum_probs=14.4
Q ss_pred CCCEEEECCCCCCchhhH
Q 042872 240 KQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF 257 (381)
|.=+.+.+|+|+|||..-
T Consensus 102 g~vtei~G~~GsGKT~l~ 119 (317)
T PRK04301 102 QSITEFYGEFGSGKTQIC 119 (317)
T ss_pred CcEEEEECCCCCCHhHHH
Confidence 566788999999999543
No 459
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=70.51 E-value=4.6 Score=45.35 Aligned_cols=31 Identities=26% Similarity=0.299 Sum_probs=20.7
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEe
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLN 276 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~ 276 (381)
.+|+++|||+|||.... .|.+.++.+.+.+.
T Consensus 490 ~~Lf~GP~GvGKT~lAk----~LA~~l~~~~i~id 520 (758)
T PRK11034 490 SFLFAGPTGVGKTEVTV----QLSKALGIELLRFD 520 (758)
T ss_pred eEEEECCCCCCHHHHHH----HHHHHhCCCcEEee
Confidence 47899999999997752 33334455555554
No 460
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=70.46 E-value=22 Score=32.70 Aligned_cols=19 Identities=16% Similarity=0.086 Sum_probs=15.1
Q ss_pred CCCEEEECCCCCCchhhHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~ 258 (381)
|+=+.+.+|+|+|||...+
T Consensus 19 g~i~~i~G~~GsGKT~l~~ 37 (235)
T cd01123 19 GSITEIFGEFGSGKTQLCH 37 (235)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 4557889999999996653
No 461
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=70.10 E-value=9.1 Score=38.68 Aligned_cols=33 Identities=15% Similarity=0.161 Sum_probs=22.6
Q ss_pred CcHHHHHHHHHHH----cCC---CEEEECCCCCCchhhHH
Q 042872 226 FRPLQHQACKASV----AKQ---DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 226 fRpiQ~eAI~aiL----~Gr---DvLviaPTGsGKTLaF~ 258 (381)
+.|+|..++..+. .|| =.|..+|.|.||+....
T Consensus 3 ~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~ 42 (334)
T PRK07993 3 WYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIY 42 (334)
T ss_pred CCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHH
Confidence 3456666666554 344 46799999999996654
No 462
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=70.02 E-value=3.6 Score=42.02 Aligned_cols=19 Identities=32% Similarity=0.345 Sum_probs=15.9
Q ss_pred cCCCEEEECCCCCCchhhH
Q 042872 239 AKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF 257 (381)
.+.-+++++|||||||-..
T Consensus 133 ~~glilI~GpTGSGKTTtL 151 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLL 151 (358)
T ss_pred cCCEEEEECCCCCCHHHHH
Confidence 4567999999999999654
No 463
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 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 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=69.94 E-value=2.6 Score=39.30 Aligned_cols=19 Identities=21% Similarity=0.592 Sum_probs=14.7
Q ss_pred CCCEEEECCCCCCchhhHH
Q 042872 240 KQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~ 258 (381)
++.+|+++|.|+|||..|.
T Consensus 3 ~~~vlL~Gps~SGKTaLf~ 21 (181)
T PF09439_consen 3 RPTVLLVGPSGSGKTALFS 21 (181)
T ss_dssp --EEEEE-STTSSHHHHHH
T ss_pred CceEEEEcCCCCCHHHHHH
Confidence 4578999999999999986
No 464
>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=69.36 E-value=7 Score=40.74 Aligned_cols=28 Identities=18% Similarity=0.302 Sum_probs=25.4
Q ss_pred hcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 267 KFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 267 ~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
..|+++..++++++..++..+++.+++|
T Consensus 248 ~~g~~~~~~H~~l~~~eR~~i~~~F~~g 275 (470)
T TIGR00614 248 NLGIAAGAYHAGLEISARDDVHHKFQRD 275 (470)
T ss_pred hcCCCeeEeeCCCCHHHHHHHHHHHHcC
Confidence 5799999999999999999999998866
No 465
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=68.89 E-value=8.3 Score=40.07 Aligned_cols=44 Identities=20% Similarity=0.268 Sum_probs=33.1
Q ss_pred CCchhhHH------HHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 251 GGKSLCYQ------DQIITLNLKFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 251 sGKTLaF~------dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
.+|+++|. +.+..+-...|+++..++|+.+..++..+++.+++|
T Consensus 335 ~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G 384 (475)
T PRK01297 335 WERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREG 384 (475)
T ss_pred CCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCC
Confidence 45777776 222222235689999999999999999999999877
No 466
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=68.14 E-value=9.3 Score=42.88 Aligned_cols=16 Identities=44% Similarity=0.671 Sum_probs=14.2
Q ss_pred CEEEECCCCCCchhhH
Q 042872 242 DCFVLLPTGGGKSLCY 257 (381)
Q Consensus 242 DvLviaPTGsGKTLaF 257 (381)
+++|++|||+|||..-
T Consensus 443 n~~I~G~tGsGKS~l~ 458 (811)
T PRK13873 443 HTLVVGPTGAGKSVLL 458 (811)
T ss_pred eEEEECCCCCCHHHHH
Confidence 8999999999999654
No 467
>CHL00095 clpC Clp protease ATP binding subunit
Probab=68.11 E-value=13 Score=41.94 Aligned_cols=29 Identities=28% Similarity=0.200 Sum_probs=21.4
Q ss_pred HHHHHHHHHHc------------CC---CEEEECCCCCCchhhH
Q 042872 229 LQHQACKASVA------------KQ---DCFVLLPTGGGKSLCY 257 (381)
Q Consensus 229 iQ~eAI~aiL~------------Gr---DvLviaPTGsGKTLaF 257 (381)
.|.+||..+.. +| ..|..+|||.|||...
T Consensus 513 GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA 556 (821)
T CHL00095 513 GQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELT 556 (821)
T ss_pred ChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHH
Confidence 58888877642 11 2688999999999665
No 468
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=68.08 E-value=3.2 Score=41.64 Aligned_cols=16 Identities=38% Similarity=0.424 Sum_probs=13.5
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
+++++|||+|||...+
T Consensus 7 i~I~GpTasGKS~LAl 22 (300)
T PRK14729 7 VFIFGPTAVGKSNILF 22 (300)
T ss_pred EEEECCCccCHHHHHH
Confidence 6788999999996654
No 469
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=67.98 E-value=9.1 Score=40.56 Aligned_cols=17 Identities=29% Similarity=0.456 Sum_probs=15.5
Q ss_pred CCEEEECCCCCCchhhH
Q 042872 241 QDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF 257 (381)
+++|+++|||+|||...
T Consensus 48 ~~ILLiGppG~GKT~lA 64 (441)
T TIGR00390 48 KNILMIGPTGVGKTEIA 64 (441)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 68999999999999775
No 470
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=67.80 E-value=6.3 Score=36.29 Aligned_cols=27 Identities=37% Similarity=0.586 Sum_probs=19.1
Q ss_pred CEEEECCCCCCchhhHHHHHHHHHhhcCCcE
Q 042872 242 DCFVLLPTGGGKSLCYQDQIITLNLKFGIPA 272 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~dQv~~L~~~~gI~a 272 (381)
.+++++|+|+|||- |...|.+.+++.-
T Consensus 2 riiilG~pGaGK~T----~A~~La~~~~i~h 28 (178)
T COG0563 2 RILILGPPGAGKST----LAKKLAKKLGLPH 28 (178)
T ss_pred eEEEECCCCCCHHH----HHHHHHHHhCCcE
Confidence 58999999999993 3455555566543
No 471
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=67.72 E-value=4.6 Score=43.20 Aligned_cols=29 Identities=28% Similarity=0.378 Sum_probs=22.8
Q ss_pred HHHHHHHHH----cCCCEEEECCCCCCchhhHH
Q 042872 230 QHQACKASV----AKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 230 Q~eAI~aiL----~GrDvLviaPTGsGKTLaF~ 258 (381)
|.+|-.++. -|+++|+++|.|+|||.+..
T Consensus 184 Q~~AKrAleiAAAGgHnLl~~GpPGtGKTmla~ 216 (490)
T COG0606 184 QEQAKRALEIAAAGGHNLLLVGPPGTGKTMLAS 216 (490)
T ss_pred cHHHHHHHHHHHhcCCcEEEecCCCCchHHhhh
Confidence 555555443 57999999999999998875
No 472
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=67.48 E-value=17 Score=34.64 Aligned_cols=50 Identities=12% Similarity=0.218 Sum_probs=34.5
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHH
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQ 289 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~ 289 (381)
.|+-+++.+++|+|||+--+.-+.... ..|-+++.+.-..+..+....+.
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~-~~ge~vlyvs~~e~~~~l~~~~~ 71 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGA-REGEPVLYVSTEESPEELLENAR 71 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHH-hcCCcEEEEEecCCHHHHHHHHH
Confidence 578899999999999955432233333 45888888887777666544443
No 473
>PRK08006 replicative DNA helicase; Provisional
Probab=67.40 E-value=36 Score=36.16 Aligned_cols=48 Identities=13% Similarity=0.048 Sum_probs=31.5
Q ss_pred CCE-EEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHH
Q 042872 241 QDC-FVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVL 288 (381)
Q Consensus 241 rDv-LviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il 288 (381)
.++ ++.|.+|.|||.-.+..+.......|.+++++.-.++..+....+
T Consensus 224 G~LiiIaarPgmGKTafalnia~~~a~~~g~~V~~fSlEM~~~ql~~Rl 272 (471)
T PRK08006 224 SDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLEMPGEQIMMRM 272 (471)
T ss_pred CcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCeEEEEeccCCHHHHHHHH
Confidence 454 556899999996655444444333577888888888776654333
No 474
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=67.27 E-value=6.8 Score=39.06 Aligned_cols=16 Identities=38% Similarity=0.407 Sum_probs=13.4
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
+++++|||+|||....
T Consensus 2 i~i~G~t~~GKs~la~ 17 (287)
T TIGR00174 2 IFIMGPTAVGKSQLAI 17 (287)
T ss_pred EEEECCCCCCHHHHHH
Confidence 5789999999996654
No 475
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=67.13 E-value=8 Score=42.63 Aligned_cols=18 Identities=22% Similarity=0.250 Sum_probs=16.6
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
.++++++|||+|||..+.
T Consensus 225 ~H~Lv~ApTgsGKt~g~V 242 (641)
T PRK13822 225 THGLVFAGSGGFKTTSVV 242 (641)
T ss_pred ceEEEEeCCCCCccceEe
Confidence 589999999999999886
No 476
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=67.06 E-value=12 Score=43.64 Aligned_cols=37 Identities=24% Similarity=0.267 Sum_probs=32.4
Q ss_pred CCCCCcHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 222 GNRAFRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 222 G~~~fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
.+-.|+|-|.+||..-+.-.+++|++|+|.|||-...
T Consensus 735 n~v~ft~~qveai~sg~qpgltmvvgppgtgktd~av 771 (1320)
T KOG1806|consen 735 NQVKFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAV 771 (1320)
T ss_pred chhccCHHHHHHHHhcCCCCceeeecCCCCCCcchhh
Confidence 3346889999999999999999999999999997764
No 477
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=67.02 E-value=8.3 Score=42.10 Aligned_cols=61 Identities=26% Similarity=0.250 Sum_probs=40.0
Q ss_pred CcHHHHHHHHHHHc----C-CCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCHHHHHHHHHHHH
Q 042872 226 FRPLQHQACKASVA----K-QDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTVSQAAAVLQELR 292 (381)
Q Consensus 226 fRpiQ~eAI~aiL~----G-rDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr 292 (381)
|..=|-+||..+.. | +...+.+-||||||.+-..-+. +.+.++.++....+ -..+....++
T Consensus 13 PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~----~~~rPtLV~AhNKT--LAaQLy~Efk 78 (663)
T COG0556 13 PAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIA----KVQRPTLVLAHNKT--LAAQLYSEFK 78 (663)
T ss_pred CCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHH----HhCCCeEEEecchh--HHHHHHHHHH
Confidence 45568899988874 3 5788999999999998764443 34567766654333 2233444444
No 478
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=66.97 E-value=5.9 Score=39.69 Aligned_cols=17 Identities=24% Similarity=0.239 Sum_probs=14.0
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
=+++++|||+|||....
T Consensus 6 ~i~i~GptgsGKt~la~ 22 (307)
T PRK00091 6 VIVIVGPTASGKTALAI 22 (307)
T ss_pred EEEEECCCCcCHHHHHH
Confidence 36788999999997764
No 479
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=66.86 E-value=10 Score=42.71 Aligned_cols=33 Identities=18% Similarity=0.094 Sum_probs=21.5
Q ss_pred cCCCEEEECCCCCCchhhHHHHHHHHHhhcCCcEEEE
Q 042872 239 AKQDCFVLLPTGGGKSLCYQDQIITLNLKFGIPATFL 275 (381)
Q Consensus 239 ~GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l 275 (381)
.|.-+++++|+|+|||.... .+...++.+...+
T Consensus 348 ~g~~i~l~GppG~GKTtl~~----~ia~~l~~~~~~i 380 (784)
T PRK10787 348 KGPILCLVGPPGVGKTSLGQ----SIAKATGRKYVRM 380 (784)
T ss_pred CCceEEEECCCCCCHHHHHH----HHHHHhCCCEEEE
Confidence 35668999999999996652 2232345555444
No 480
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=66.84 E-value=8.1 Score=40.95 Aligned_cols=28 Identities=14% Similarity=0.326 Sum_probs=25.3
Q ss_pred hcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 267 KFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 267 ~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
..|+++..++|+.+..++..+++.+++|
T Consensus 390 ~~g~~~~~~Hg~~~~~eR~~il~~Fr~G 417 (518)
T PLN00206 390 VTGLKALSIHGEKSMKERREVMKSFLVG 417 (518)
T ss_pred ccCcceEEeeCCCCHHHHHHHHHHHHCC
Confidence 4588999999999999999999999877
No 481
>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=66.80 E-value=16 Score=32.87 Aligned_cols=16 Identities=31% Similarity=0.351 Sum_probs=13.2
Q ss_pred CEEEECCCCCCchhhH
Q 042872 242 DCFVLLPTGGGKSLCY 257 (381)
Q Consensus 242 DvLviaPTGsGKTLaF 257 (381)
-.|+.+|.|.|||-..
T Consensus 16 ~~L~~G~~G~gkt~~a 31 (188)
T TIGR00678 16 AYLFAGPEGVGKELLA 31 (188)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4788999999999554
No 482
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=66.53 E-value=4.9 Score=39.99 Aligned_cols=28 Identities=18% Similarity=0.149 Sum_probs=21.1
Q ss_pred HHHHHHHHcCCCE--EEECCCCCCchhhHH
Q 042872 231 HQACKASVAKQDC--FVLLPTGGGKSLCYQ 258 (381)
Q Consensus 231 ~eAI~aiL~GrDv--LviaPTGsGKTLaF~ 258 (381)
...|..++.|.++ |+.++||+|||-+..
T Consensus 74 ~plv~~~~~G~n~~i~ayGqtGSGKTyTm~ 103 (322)
T cd01367 74 KPLIPHVFEGGVATCFAYGQTGSGKTYTML 103 (322)
T ss_pred HHHHHHHhCCCceEEEeccCCCCCCceEec
Confidence 4567777889764 666899999997654
No 483
>PRK13531 regulatory ATPase RavA; Provisional
Probab=66.35 E-value=4.7 Score=43.28 Aligned_cols=25 Identities=32% Similarity=0.390 Sum_probs=20.6
Q ss_pred HHHHHHcCCCEEEECCCCCCchhhH
Q 042872 233 ACKASVAKQDCFVLLPTGGGKSLCY 257 (381)
Q Consensus 233 AI~aiL~GrDvLviaPTGsGKTLaF 257 (381)
++-+++.|.++|+.+|+|+|||...
T Consensus 32 ll~aalag~hVLL~GpPGTGKT~LA 56 (498)
T PRK13531 32 CLLAALSGESVFLLGPPGIAKSLIA 56 (498)
T ss_pred HHHHHccCCCEEEECCCChhHHHHH
Confidence 3344568999999999999999775
No 484
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=66.21 E-value=11 Score=35.96 Aligned_cols=38 Identities=13% Similarity=0.132 Sum_probs=28.0
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCCCH
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQTV 281 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~~~ 281 (381)
.++.+|-.+|||.--+.-+.++. ..|.++++..+..+.
T Consensus 7 ~~i~gpM~SGKT~eLl~r~~~~~-~~g~~v~vfkp~iD~ 44 (201)
T COG1435 7 EFIYGPMFSGKTEELLRRARRYK-EAGMKVLVFKPAIDT 44 (201)
T ss_pred EEEEccCcCcchHHHHHHHHHHH-HcCCeEEEEeccccc
Confidence 47889999999987654455555 468888888876553
No 485
>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=66.19 E-value=19 Score=41.02 Aligned_cols=15 Identities=27% Similarity=0.414 Sum_probs=13.5
Q ss_pred EEEECCCCCCchhhH
Q 042872 243 CFVLLPTGGGKSLCY 257 (381)
Q Consensus 243 vLviaPTGsGKTLaF 257 (381)
++..+|||+|||...
T Consensus 599 ~lf~Gp~GvGKT~lA 613 (852)
T TIGR03345 599 FLLVGPSGVGKTETA 613 (852)
T ss_pred EEEECCCCCCHHHHH
Confidence 689999999999776
No 486
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=66.19 E-value=9.1 Score=39.48 Aligned_cols=28 Identities=18% Similarity=0.170 Sum_probs=25.6
Q ss_pred hcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 267 KFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 267 ~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
..|+.+..++|+++..++..+++.+++|
T Consensus 264 ~~~~~v~~~hg~~~~~eR~~~l~~F~~g 291 (460)
T PRK11776 264 AQGFSALALHGDLEQRDRDQVLVRFANR 291 (460)
T ss_pred hCCCcEEEEeCCCCHHHHHHHHHHHHcC
Confidence 5789999999999999999999998876
No 487
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=66.04 E-value=8.4 Score=39.92 Aligned_cols=28 Identities=25% Similarity=0.285 Sum_probs=19.8
Q ss_pred CCCEEEECCCCCCchhhHHHHHHHHHhhcCCc
Q 042872 240 KQDCFVLLPTGGGKSLCYQDQIITLNLKFGIP 271 (381)
Q Consensus 240 GrDvLviaPTGsGKTLaF~dQv~~L~~~~gI~ 271 (381)
+|=+|+.+|.|+|||-. ..+|.+++.|+
T Consensus 177 NRliLlhGPPGTGKTSL----CKaLaQkLSIR 204 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSL----CKALAQKLSIR 204 (423)
T ss_pred eeEEEEeCCCCCChhHH----HHHHHHhheee
Confidence 45678899999999922 34566666665
No 488
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=65.93 E-value=48 Score=30.84 Aligned_cols=35 Identities=17% Similarity=0.187 Sum_probs=22.6
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEE---EEeCC
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPAT---FLNSQ 278 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~---~l~g~ 278 (381)
+.+..++|-|||-+.+-...+.. ..|.++. ++.|+
T Consensus 8 i~v~~g~GkGKtt~a~g~a~ra~-~~g~~v~ivQFlKg~ 45 (173)
T TIGR00708 8 IIVHTGNGKGKTTAAFGMALRAL-GHGKKVGVIQFIKGA 45 (173)
T ss_pred EEEECCCCCChHHHHHHHHHHHH-HCCCeEEEEEEecCC
Confidence 56778899999977764433322 3677774 44555
No 489
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=65.88 E-value=5 Score=39.77 Aligned_cols=28 Identities=18% Similarity=0.241 Sum_probs=21.9
Q ss_pred HHHHHHHHHcCCCE--EEECCCCCCchhhH
Q 042872 230 QHQACKASVAKQDC--FVLLPTGGGKSLCY 257 (381)
Q Consensus 230 Q~eAI~aiL~GrDv--LviaPTGsGKTLaF 257 (381)
-...++.++.|.++ |+.++||+|||.+.
T Consensus 65 ~~~~v~~~~~G~n~~i~ayG~tgSGKT~Tm 94 (325)
T cd01369 65 AKPIVDDVLNGYNGTIFAYGQTGSGKTYTM 94 (325)
T ss_pred HHHHHHHHHcCccceEEEeCCCCCCceEEe
Confidence 34567777889764 77789999999875
No 490
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=65.87 E-value=12 Score=40.41 Aligned_cols=33 Identities=18% Similarity=0.208 Sum_probs=23.4
Q ss_pred EEEECCCCCCchhhHHHHHHHHHhhcCCcEEEEeCCC
Q 042872 243 CFVLLPTGGGKSLCYQDQIITLNLKFGIPATFLNSQQ 279 (381)
Q Consensus 243 vLviaPTGsGKTLaF~dQv~~L~~~~gI~a~~l~g~~ 279 (381)
+|+.+|+|+|||.+- .-|.+.+|+.+.-+....
T Consensus 48 LlLtGP~G~GKtttv----~~La~elg~~v~Ew~np~ 80 (519)
T PF03215_consen 48 LLLTGPSGCGKTTTV----KVLAKELGFEVQEWINPV 80 (519)
T ss_pred EEEECCCCCCHHHHH----HHHHHHhCCeeEEecCCC
Confidence 567899999999873 455556777776665433
No 491
>KOG1808 consensus AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=65.84 E-value=20 Score=44.08 Aligned_cols=29 Identities=17% Similarity=0.155 Sum_probs=22.2
Q ss_pred HHHHHHHHHcC-CCEEEECCCCCCchhhHH
Q 042872 230 QHQACKASVAK-QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 230 Q~eAI~aiL~G-rDvLviaPTGsGKTLaF~ 258 (381)
+..-+.++..| .++++++|||+|||-.+.
T Consensus 429 la~~~~a~~~~~~pillqG~tssGKtsii~ 458 (1856)
T KOG1808|consen 429 LADLARAISSGKFPILLQGPTSSGKTSIIK 458 (1856)
T ss_pred HHHHHHHHhcCCCCeEEecCcCcCchhHHH
Confidence 44455555667 499999999999997764
No 492
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=65.82 E-value=12 Score=38.82 Aligned_cols=28 Identities=18% Similarity=0.383 Sum_probs=25.5
Q ss_pred hcCCcEEEEeCCCCHHHHHHHHHHHHhc
Q 042872 267 KFGIPATFLNSQQTVSQAAAVLQELRQG 294 (381)
Q Consensus 267 ~~gI~a~~l~g~~~~~e~~~il~~lr~g 294 (381)
..++.+..++|+.+..++..+++.+++|
T Consensus 267 ~~g~~~~~lhg~~~~~~R~~~l~~F~~g 294 (456)
T PRK10590 267 KDGIRSAAIHGNKSQGARTRALADFKSG 294 (456)
T ss_pred HCCCCEEEEECCCCHHHHHHHHHHHHcC
Confidence 5789999999999999999999998876
No 493
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=65.80 E-value=5.1 Score=39.54 Aligned_cols=27 Identities=19% Similarity=0.256 Sum_probs=19.2
Q ss_pred HHHHHHHcCCCE--EEECCCCCCchhhHH
Q 042872 232 QACKASVAKQDC--FVLLPTGGGKSLCYQ 258 (381)
Q Consensus 232 eAI~aiL~GrDv--LviaPTGsGKTLaF~ 258 (381)
..|..++.|.++ |+.++||+|||.+..
T Consensus 65 ~~v~~~l~G~n~~i~ayG~tgSGKT~Tm~ 93 (335)
T PF00225_consen 65 PLVDSVLDGYNATIFAYGQTGSGKTYTMF 93 (335)
T ss_dssp HHHHHHHTT-EEEEEEEESTTSSHHHHHT
T ss_pred HHHHHhhcCCceEEEeecccccccccccc
Confidence 346677899874 666799999996543
No 494
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=65.79 E-value=5.5 Score=40.15 Aligned_cols=27 Identities=19% Similarity=0.219 Sum_probs=20.5
Q ss_pred HHHHHHHcCCC--EEEECCCCCCchhhHH
Q 042872 232 QACKASVAKQD--CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 232 eAI~aiL~GrD--vLviaPTGsGKTLaF~ 258 (381)
..+..++.|.+ +|+.++||+|||.+..
T Consensus 79 p~v~~~l~G~n~ti~aYGqtGSGKTyTm~ 107 (345)
T cd01368 79 PLVQDLLKGKNSLLFTYGVTNSGKTYTMQ 107 (345)
T ss_pred HHHHHHhCCCceEEEEeCCCCCCCeEEec
Confidence 45667788876 4666899999997643
No 495
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=65.67 E-value=7.1 Score=41.55 Aligned_cols=32 Identities=19% Similarity=0.224 Sum_probs=25.5
Q ss_pred cHHHHHHHHHHHcCCCEEEECCCCCCchhhHH
Q 042872 227 RPLQHQACKASVAKQDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 227 RpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~ 258 (381)
.......+.++..++++++.+|+|+|||....
T Consensus 181 e~~le~l~~~L~~~~~iil~GppGtGKT~lA~ 212 (459)
T PRK11331 181 ETTIETILKRLTIKKNIILQGPPGVGKTFVAR 212 (459)
T ss_pred HHHHHHHHHHHhcCCCEEEECCCCCCHHHHHH
Confidence 34456667777789999999999999997653
No 496
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=65.62 E-value=20 Score=39.54 Aligned_cols=17 Identities=18% Similarity=0.096 Sum_probs=14.2
Q ss_pred CEEEECCCCCCchhhHH
Q 042872 242 DCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 242 DvLviaPTGsGKTLaF~ 258 (381)
-.|..+|.|.|||.+..
T Consensus 40 a~Lf~Gp~GvGKttlA~ 56 (620)
T PRK14954 40 GYIFSGLRGVGKTTAAR 56 (620)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 37899999999997753
No 497
>TIGR02767 TraG-Ti Ti-type conjugative transfer system protien TraG. This protein is found in the Agrobacterium tumefaciens Ti plasmid tra region responsible for conjugative transfer of the entire plasmid among Agrobacterium strains. The protein is distantly related to the F-type conjugation system TraG protein. Both of these systems are examples of type IV secretion systems.
Probab=65.40 E-value=9.6 Score=41.95 Aligned_cols=18 Identities=17% Similarity=0.191 Sum_probs=16.7
Q ss_pred CCEEEECCCCCCchhhHH
Q 042872 241 QDCFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 241 rDvLviaPTGsGKTLaF~ 258 (381)
.++++++|||+|||..+.
T Consensus 212 ~H~lv~ApTgsGKgvg~V 229 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVV 229 (623)
T ss_pred ceEEEEeCCCCCccceee
Confidence 689999999999999886
No 498
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=65.37 E-value=3.3 Score=33.76 Aligned_cols=16 Identities=19% Similarity=0.065 Sum_probs=13.5
Q ss_pred EEEECCCCCCchhhHH
Q 042872 243 CFVLLPTGGGKSLCYQ 258 (381)
Q Consensus 243 vLviaPTGsGKTLaF~ 258 (381)
+++.+++|+|||-+..
T Consensus 1 I~i~G~~GsGKtTia~ 16 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAK 16 (129)
T ss_dssp EEEEESTTSSHHHHHH
T ss_pred CEEECCCCCCHHHHHH
Confidence 5788999999997764
No 499
>PHA02533 17 large terminase protein; Provisional
Probab=65.19 E-value=67 Score=34.76 Aligned_cols=64 Identities=17% Similarity=0.006 Sum_probs=41.6
Q ss_pred CcHHHHHHHHHHHcCCCEEEECCCCCCchhhHHH-HH-HHHHhhcCCcEEEEeCCCCHHHHHHHHHHHH
Q 042872 226 FRPLQHQACKASVAKQDCFVLLPTGGGKSLCYQD-QI-ITLNLKFGIPATFLNSQQTVSQAAAVLQELR 292 (381)
Q Consensus 226 fRpiQ~eAI~aiL~GrDvLviaPTGsGKTLaF~d-Qv-~~L~~~~gI~a~~l~g~~~~~e~~~il~~lr 292 (381)
++|.|.+.+..+..+|-.++..+=..|||.+..- .+ ..+. .-+. .++....+..+...+++.++
T Consensus 60 L~p~Q~~i~~~~~~~R~~ii~~aRq~GKStl~a~~al~~a~~-~~~~--~v~i~A~~~~QA~~vF~~ik 125 (534)
T PHA02533 60 MRDYQKDMLKIMHKNRFNACNLSRQLGKTTVVAIFLLHYVCF-NKDK--NVGILAHKASMAAEVLDRTK 125 (534)
T ss_pred CcHHHHHHHHHHhcCeEEEEEEcCcCChHHHHHHHHHHHHHh-CCCC--EEEEEeCCHHHHHHHHHHHH
Confidence 5689999998877677778889999999976541 11 1111 1233 33344556666667777665
No 500
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=65.15 E-value=5.6 Score=40.07 Aligned_cols=26 Identities=23% Similarity=0.291 Sum_probs=19.7
Q ss_pred HHHHHHHcCCCE--EEECCCCCCchhhH
Q 042872 232 QACKASVAKQDC--FVLLPTGGGKSLCY 257 (381)
Q Consensus 232 eAI~aiL~GrDv--LviaPTGsGKTLaF 257 (381)
..+..++.|.++ |+.++||+|||.+.
T Consensus 79 p~v~~~l~G~n~~i~ayGqtGSGKT~Tm 106 (356)
T cd01365 79 ELLDHAFEGYNVCLFAYGQTGSGKSYTM 106 (356)
T ss_pred HHHHHHhCCCceEEEEecCCCCCCeEEe
Confidence 346667889764 66789999999754
Done!