Query 004910
Match_columns 724
No_of_seqs 229 out of 1727
Neff 8.7
Searched_HMMs 46136
Date Thu Mar 28 14:54:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004910.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004910hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1131 RNA polymerase II tran 100.0 9E-119 2E-123 922.3 58.0 720 1-722 1-720 (755)
2 TIGR00604 rad3 DNA repair heli 100.0 5E-106 1E-110 936.2 62.5 697 7-715 1-703 (705)
3 KOG1133 Helicase of the DEAD s 100.0 1.2E-90 2.6E-95 738.4 51.3 666 7-722 7-815 (821)
4 KOG1132 Helicase of the DEAD s 100.0 4E-90 8.7E-95 754.3 50.5 642 3-699 8-738 (945)
5 PRK11747 dinG ATP-dependent DN 100.0 2.2E-84 4.8E-89 747.9 53.1 617 14-695 24-690 (697)
6 PRK08074 bifunctional ATP-depe 100.0 2.6E-82 5.6E-87 752.6 53.4 635 14-721 256-928 (928)
7 TIGR01407 dinG_rel DnaQ family 100.0 1.3E-77 2.9E-82 710.5 50.8 592 12-721 242-850 (850)
8 PRK07246 bifunctional ATP-depe 100.0 4.8E-75 1E-79 678.2 50.1 572 13-722 243-820 (820)
9 COG1199 DinG Rad3-related DNA 100.0 1.2E-74 2.6E-79 674.0 44.0 623 7-710 6-644 (654)
10 TIGR03117 cas_csf4 CRISPR-asso 100.0 2.1E-70 4.5E-75 610.9 51.4 563 20-692 1-624 (636)
11 smart00488 DEXDc2 DEAD-like he 100.0 1.1E-45 2.3E-50 384.0 24.4 260 9-270 2-279 (289)
12 smart00489 DEXDc3 DEAD-like he 100.0 1.1E-45 2.3E-50 384.0 24.4 260 9-270 2-279 (289)
13 PF13307 Helicase_C_2: Helicas 100.0 1.2E-40 2.6E-45 318.9 10.7 167 524-700 1-167 (167)
14 smart00491 HELICc2 helicase su 100.0 6.5E-35 1.4E-39 269.3 15.5 140 542-685 1-141 (142)
15 smart00492 HELICc3 helicase su 100.0 1.1E-32 2.3E-37 253.9 15.7 139 542-685 1-140 (141)
16 PF06733 DEAD_2: DEAD_2; Inte 100.0 5.8E-30 1.3E-34 247.6 7.6 173 72-256 1-174 (174)
17 PRK11192 ATP-dependent RNA hel 99.8 1.4E-16 3E-21 177.3 28.6 76 12-91 19-97 (434)
18 PTZ00110 helicase; Provisional 99.8 2.5E-16 5.5E-21 178.7 30.2 75 12-91 148-227 (545)
19 PRK11776 ATP-dependent RNA hel 99.8 3.9E-16 8.5E-21 174.9 29.2 75 12-91 22-96 (460)
20 PRK10590 ATP-dependent RNA hel 99.7 6.6E-16 1.4E-20 172.5 29.5 77 11-91 18-99 (456)
21 PRK04537 ATP-dependent RNA hel 99.7 9.4E-16 2E-20 174.6 30.6 76 11-91 26-108 (572)
22 PRK04837 ATP-dependent RNA hel 99.7 4.7E-16 1E-20 172.3 27.3 76 11-91 25-107 (423)
23 PRK01297 ATP-dependent RNA hel 99.7 1.6E-15 3.5E-20 170.5 29.8 75 12-91 105-186 (475)
24 PLN00206 DEAD-box ATP-dependen 99.7 2.6E-15 5.6E-20 169.9 29.3 75 12-91 139-220 (518)
25 TIGR00614 recQ_fam ATP-depende 99.7 3.5E-15 7.6E-20 167.1 29.8 70 9-89 4-73 (470)
26 PRK11634 ATP-dependent RNA hel 99.7 4.1E-15 8.9E-20 170.4 30.5 77 11-92 23-99 (629)
27 PTZ00424 helicase 45; Provisio 99.7 4.8E-15 1E-19 163.6 29.6 75 11-90 45-119 (401)
28 TIGR03817 DECH_helic helicase/ 99.7 1.7E-14 3.6E-19 168.7 32.3 73 12-90 32-104 (742)
29 PRK13767 ATP-dependent helicas 99.7 2.5E-14 5.5E-19 170.5 30.2 73 13-89 29-106 (876)
30 TIGR01389 recQ ATP-dependent D 99.7 5.5E-14 1.2E-18 162.2 31.8 70 9-89 6-75 (591)
31 PRK11057 ATP-dependent DNA hel 99.6 7E-14 1.5E-18 161.0 30.0 69 10-89 19-87 (607)
32 PF06777 DUF1227: Protein of u 99.6 1.4E-15 3.1E-20 136.6 12.4 141 273-413 6-146 (146)
33 PRK02362 ski2-like helicase; P 99.6 5.4E-14 1.2E-18 165.9 27.3 72 12-90 19-90 (737)
34 PRK01172 ski2-like helicase; P 99.6 8.1E-14 1.7E-18 163.3 26.4 70 12-90 19-88 (674)
35 TIGR00580 mfd transcription-re 99.6 3.7E-13 8.1E-18 159.1 31.5 79 8-91 444-524 (926)
36 PRK00254 ski2-like helicase; P 99.6 3.1E-13 6.8E-18 159.1 27.4 73 12-90 19-91 (720)
37 PLN03137 ATP-dependent DNA hel 99.6 7.7E-13 1.7E-17 154.5 29.0 68 10-88 454-521 (1195)
38 PRK09401 reverse gyrase; Revie 99.5 3.6E-12 7.7E-17 154.4 30.6 72 11-91 76-147 (1176)
39 PHA02558 uvsW UvsW helicase; P 99.5 4.3E-12 9.4E-17 143.1 27.3 108 530-681 342-450 (501)
40 TIGR02621 cas3_GSU0051 CRISPR- 99.5 1.5E-11 3.3E-16 141.6 28.3 74 13-92 13-87 (844)
41 KOG0345 ATP-dependent RNA heli 99.5 2.7E-11 5.8E-16 126.5 25.8 78 11-92 23-104 (567)
42 PRK10689 transcription-repair 99.4 5.2E-11 1.1E-15 144.1 30.5 78 8-90 593-672 (1147)
43 cd00268 DEADc DEAD-box helicas 99.4 1.1E-12 2.3E-17 130.5 12.4 75 12-91 17-93 (203)
44 PRK12898 secA preprotein trans 99.4 2.9E-10 6.4E-15 128.3 32.6 81 13-112 101-181 (656)
45 PRK14701 reverse gyrase; Provi 99.4 8.6E-11 1.9E-15 145.6 29.9 72 11-91 75-146 (1638)
46 TIGR01054 rgy reverse gyrase. 99.4 9.3E-11 2E-15 142.4 28.4 87 524-625 318-409 (1171)
47 TIGR00963 secA preprotein tran 99.4 2.7E-10 5.9E-15 129.4 30.1 140 444-614 333-473 (745)
48 TIGR03714 secA2 accessory Sec 99.4 8.5E-10 1.8E-14 126.1 33.8 68 17-92 69-136 (762)
49 PRK09200 preprotein translocas 99.4 4.5E-10 9.7E-15 129.6 29.7 65 18-92 80-144 (790)
50 PF00270 DEAD: DEAD/DEAH box h 99.4 3.2E-12 6.9E-17 123.0 10.4 68 18-91 1-68 (169)
51 PHA02653 RNA helicase NPH-II; 99.3 2.1E-10 4.5E-15 131.5 26.2 78 13-91 155-246 (675)
52 PF04851 ResIII: Type III rest 99.3 6.7E-12 1.4E-16 122.3 11.6 67 17-90 4-73 (184)
53 TIGR01587 cas3_core CRISPR-ass 99.3 8E-10 1.7E-14 120.0 26.7 51 38-90 2-52 (358)
54 PRK09751 putative ATP-dependen 99.3 5.8E-10 1.3E-14 136.1 27.8 50 40-89 1-59 (1490)
55 PRK10917 ATP-dependent DNA hel 99.2 5E-11 1.1E-15 139.0 12.2 93 7-112 253-347 (681)
56 TIGR00643 recG ATP-dependent D 99.2 1.3E-10 2.9E-15 134.5 13.0 90 10-112 230-321 (630)
57 KOG0350 DEAD-box ATP-dependent 99.2 9.7E-11 2.1E-15 123.2 9.9 148 17-244 160-312 (620)
58 PRK11664 ATP-dependent RNA hel 99.2 5.7E-09 1.2E-13 122.9 25.8 134 519-679 199-334 (812)
59 COG1202 Superfamily II helicas 99.2 3.6E-09 7.8E-14 113.2 21.3 71 13-89 213-283 (830)
60 TIGR01970 DEAH_box_HrpB ATP-de 99.1 1.2E-08 2.6E-13 120.0 26.5 135 518-678 195-330 (819)
61 KOG0343 RNA Helicase [RNA proc 99.1 1.4E-08 3E-13 108.3 21.3 74 14-91 89-165 (758)
62 COG0513 SrmB Superfamily II DN 99.1 9.9E-10 2.1E-14 123.9 13.1 77 12-92 47-124 (513)
63 KOG0331 ATP-dependent RNA heli 99.0 6.9E-10 1.5E-14 120.8 9.6 73 13-90 110-188 (519)
64 smart00487 DEXDc DEAD-like hel 99.0 8.8E-10 1.9E-14 108.2 9.2 73 12-90 4-77 (201)
65 PRK04914 ATP-dependent helicas 99.0 1.1E-07 2.4E-12 112.7 27.8 112 524-678 484-598 (956)
66 PRK13104 secA preprotein trans 99.0 1.9E-07 4E-12 108.1 27.7 137 443-611 371-509 (896)
67 KOG0330 ATP-dependent RNA heli 98.9 2.1E-09 4.4E-14 110.2 6.9 88 13-113 80-167 (476)
68 COG1110 Reverse gyrase [DNA re 98.9 1.2E-06 2.6E-11 100.4 29.3 131 452-624 277-416 (1187)
69 COG1204 Superfamily II helicas 98.9 3.9E-09 8.5E-14 122.7 9.9 140 13-248 28-167 (766)
70 PRK12904 preprotein translocas 98.9 4.1E-07 8.9E-12 105.2 25.5 139 444-613 358-497 (830)
71 KOG0342 ATP-dependent RNA heli 98.9 3.7E-09 8E-14 111.5 8.1 78 12-93 100-180 (543)
72 KOG0335 ATP-dependent RNA heli 98.9 3.7E-09 8E-14 113.3 7.7 75 13-91 93-176 (482)
73 KOG0952 DNA/RNA helicase MER3/ 98.9 5.4E-07 1.2E-11 103.1 25.2 133 520-683 338-490 (1230)
74 COG1201 Lhr Lhr-like helicases 98.8 1.9E-08 4.1E-13 115.8 12.1 74 14-91 20-97 (814)
75 PRK09694 helicase Cas3; Provis 98.8 2.3E-08 5E-13 117.7 13.1 87 16-114 286-372 (878)
76 KOG0338 ATP-dependent RNA heli 98.8 1.5E-08 3.2E-13 107.2 8.6 77 12-92 199-277 (691)
77 COG1205 Distinct helicase fami 98.7 4.8E-08 1E-12 115.4 12.5 71 16-92 70-140 (851)
78 PRK12899 secA preprotein trans 98.7 7E-08 1.5E-12 111.4 12.6 72 13-92 86-160 (970)
79 KOG0348 ATP-dependent RNA heli 98.7 3E-08 6.4E-13 105.5 8.4 80 7-91 150-235 (708)
80 KOG0346 RNA helicase [RNA proc 98.7 1.9E-08 4.2E-13 104.6 6.7 78 12-93 37-119 (569)
81 COG1061 SSL2 DNA or RNA helica 98.7 9.2E-08 2E-12 106.1 12.3 72 10-89 31-102 (442)
82 PRK13766 Hef nuclease; Provisi 98.7 8.8E-08 1.9E-12 114.7 12.9 70 13-91 13-82 (773)
83 cd00046 DEXDc DEAD-like helica 98.7 1.1E-07 2.3E-12 87.6 10.7 53 36-90 1-53 (144)
84 PRK11131 ATP-dependent RNA hel 98.7 2.2E-06 4.7E-11 103.7 24.2 134 515-678 269-405 (1294)
85 PRK11448 hsdR type I restricti 98.7 1.2E-07 2.5E-12 115.0 13.5 73 16-90 413-486 (1123)
86 PRK05580 primosome assembly pr 98.7 1.5E-07 3.2E-12 109.7 13.8 72 13-90 142-213 (679)
87 TIGR00603 rad25 DNA repair hel 98.7 1.1E-07 2.5E-12 108.9 12.1 68 12-90 252-321 (732)
88 KOG0354 DEAD-box like helicase 98.7 8.3E-08 1.8E-12 108.1 10.7 67 16-89 62-128 (746)
89 TIGR01967 DEAH_box_HrpA ATP-de 98.7 1.9E-06 4E-11 104.6 22.6 157 515-704 262-420 (1283)
90 COG1111 MPH1 ERCC4-like helica 98.6 1.2E-07 2.7E-12 101.0 10.5 68 16-91 15-82 (542)
91 PRK12906 secA preprotein trans 98.6 1.9E-05 4.1E-10 91.3 28.9 66 17-92 81-146 (796)
92 TIGR00348 hsdR type I site-spe 98.6 5E-07 1.1E-11 105.3 13.5 72 17-90 239-316 (667)
93 PRK13107 preprotein translocas 98.5 5.8E-05 1.2E-09 87.7 28.4 136 444-611 377-514 (908)
94 TIGR03158 cas3_cyano CRISPR-as 98.5 1E-06 2.2E-11 95.3 12.7 60 21-91 2-63 (357)
95 COG4889 Predicted helicase [Ge 98.4 1.4E-06 3E-11 97.6 12.2 184 6-258 152-340 (1518)
96 KOG0334 RNA helicase [RNA proc 98.4 6.4E-07 1.4E-11 103.2 9.1 78 10-92 381-463 (997)
97 COG0556 UvrB Helicase subunit 98.4 0.00084 1.8E-08 72.7 30.9 76 8-91 5-81 (663)
98 COG0514 RecQ Superfamily II DN 98.4 9.7E-07 2.1E-11 98.4 9.4 71 8-89 9-79 (590)
99 KOG0336 ATP-dependent RNA heli 98.3 5.5E-07 1.2E-11 93.0 5.6 75 12-90 238-317 (629)
100 COG4098 comFA Superfamily II D 98.3 0.0002 4.4E-09 73.2 22.4 57 17-77 98-154 (441)
101 COG4096 HsdR Type I site-speci 98.3 1.6E-06 3.6E-11 97.8 8.1 74 16-91 165-239 (875)
102 cd00079 HELICc Helicase superf 98.2 1.1E-05 2.4E-10 73.4 11.8 115 518-679 15-130 (131)
103 KOG0333 U5 snRNP-like RNA heli 98.2 2.5E-06 5.5E-11 91.0 8.2 74 13-91 264-346 (673)
104 TIGR00595 priA primosomal prot 98.2 3.7E-06 8.1E-11 94.6 10.2 48 39-90 1-48 (505)
105 PRK12326 preprotein translocas 98.2 0.0015 3.2E-08 74.6 29.2 138 443-611 354-492 (764)
106 KOG0344 ATP-dependent RNA heli 98.2 2.5E-06 5.5E-11 92.6 7.0 75 12-90 154-232 (593)
107 KOG0339 ATP-dependent RNA heli 98.2 3.1E-06 6.6E-11 89.9 7.4 139 14-243 243-386 (731)
108 COG1200 RecG RecG-like helicas 98.1 1.6E-05 3.5E-10 88.7 10.4 90 10-112 257-348 (677)
109 KOG0337 ATP-dependent RNA heli 98.1 7.5E-06 1.6E-10 85.3 6.8 74 13-90 40-113 (529)
110 KOG0326 ATP-dependent RNA heli 98.0 3.9E-06 8.4E-11 84.3 2.9 89 12-113 103-191 (459)
111 COG1197 Mfd Transcription-repa 97.9 0.00011 2.3E-09 87.0 14.4 87 9-109 588-677 (1139)
112 PF00176 SNF2_N: SNF2 family N 97.9 5.8E-05 1.2E-09 79.6 11.0 70 20-91 1-81 (299)
113 PF13245 AAA_19: Part of AAA d 97.9 4.8E-05 1E-09 62.2 7.6 59 27-87 2-62 (76)
114 KOG1802 RNA helicase nonsense 97.9 6E-05 1.3E-09 82.8 10.5 84 12-114 406-489 (935)
115 KOG0347 RNA helicase [RNA proc 97.9 2.4E-05 5.3E-10 84.1 7.2 89 12-112 199-300 (731)
116 KOG1803 DNA helicase [Replicat 97.8 5.4E-05 1.2E-09 82.9 8.8 71 10-88 180-250 (649)
117 PLN03142 Probable chromatin-re 97.7 0.00012 2.5E-09 87.9 10.6 73 16-91 169-242 (1033)
118 KOG4284 DEAD box protein [Tran 97.7 2.9E-05 6.4E-10 84.9 3.5 73 13-90 44-116 (980)
119 KOG0340 ATP-dependent RNA heli 97.6 0.00016 3.5E-09 74.1 7.5 85 14-111 27-111 (442)
120 KOG1805 DNA replication helica 97.5 0.0011 2.4E-08 76.4 12.8 138 18-241 671-810 (1100)
121 PRK13103 secA preprotein trans 97.5 0.00046 1E-08 80.4 10.0 138 443-611 376-514 (913)
122 KOG0328 Predicted ATP-dependen 97.4 9.4E-05 2E-09 73.4 3.0 75 11-90 44-118 (400)
123 COG4581 Superfamily II RNA hel 97.4 0.00036 7.7E-09 82.5 7.7 73 9-90 113-185 (1041)
124 PF13086 AAA_11: AAA domain; P 97.3 0.00063 1.4E-08 68.6 7.4 67 18-89 3-75 (236)
125 COG1198 PriA Primosomal protei 97.2 0.0026 5.7E-08 73.5 11.5 70 17-90 199-268 (730)
126 PF07652 Flavi_DEAD: Flaviviru 97.1 0.00032 7E-09 63.9 2.9 54 33-89 2-55 (148)
127 COG1203 CRISPR-associated heli 97.0 0.0015 3.3E-08 77.3 8.3 73 17-90 196-269 (733)
128 KOG0385 Chromatin remodeling c 96.9 0.0042 9.2E-08 70.0 9.4 73 16-91 167-240 (971)
129 KOG0327 Translation initiation 96.8 0.00069 1.5E-08 70.5 2.7 75 11-90 43-117 (397)
130 PF02562 PhoH: PhoH-like prote 96.7 0.0031 6.8E-08 61.9 6.5 56 17-78 5-60 (205)
131 PF13604 AAA_30: AAA domain; P 96.6 0.0073 1.6E-07 59.4 8.3 62 18-86 3-65 (196)
132 COG1061 SSL2 DNA or RNA helica 96.6 0.026 5.7E-07 62.9 13.6 96 531-671 282-377 (442)
133 smart00490 HELICc helicase sup 96.6 0.0088 1.9E-07 49.0 7.3 43 575-625 24-66 (82)
134 KOG0353 ATP-dependent DNA heli 96.5 0.004 8.6E-08 64.3 5.6 69 11-90 89-157 (695)
135 TIGR03158 cas3_cyano CRISPR-as 96.5 0.045 9.7E-07 59.3 14.1 81 517-613 256-337 (357)
136 PF00271 Helicase_C: Helicase 96.4 0.0061 1.3E-07 50.0 5.5 43 575-625 20-62 (78)
137 PRK10917 ATP-dependent DNA hel 96.4 0.11 2.3E-06 61.4 17.7 116 522-681 462-586 (681)
138 TIGR00376 DNA helicase, putati 96.4 0.014 3E-07 67.9 10.1 67 16-89 157-223 (637)
139 KOG0352 ATP-dependent DNA heli 96.4 0.0055 1.2E-07 64.5 6.0 71 10-90 13-84 (641)
140 PRK11448 hsdR type I restricti 96.3 0.044 9.6E-07 67.4 14.2 114 531-682 697-814 (1123)
141 KOG0329 ATP-dependent RNA heli 96.3 0.0067 1.4E-07 59.7 5.3 90 12-113 60-149 (387)
142 PRK15483 type III restriction- 96.2 0.018 3.8E-07 68.4 9.3 74 12-88 3-110 (986)
143 KOG0351 ATP-dependent DNA heli 96.2 0.0038 8.2E-08 74.3 3.7 68 9-87 257-324 (941)
144 PF00580 UvrD-helicase: UvrD/R 96.2 0.015 3.2E-07 61.6 8.0 65 18-90 2-68 (315)
145 TIGR00603 rad25 DNA repair hel 96.1 0.057 1.2E-06 62.9 13.1 79 530-627 494-573 (732)
146 TIGR00643 recG ATP-dependent D 96.0 0.22 4.9E-06 58.2 17.6 107 531-680 447-562 (630)
147 KOG0951 RNA helicase BRR2, DEA 96.0 0.022 4.8E-07 67.7 8.9 92 12-114 305-403 (1674)
148 CHL00122 secA preprotein trans 96.0 0.037 8E-07 64.8 10.5 138 443-611 351-491 (870)
149 TIGR00631 uvrb excinuclease AB 95.9 0.11 2.4E-06 60.5 14.0 74 10-91 4-78 (655)
150 PRK05298 excinuclease ABC subu 95.9 0.12 2.5E-06 60.7 14.1 76 8-91 5-81 (652)
151 KOG0389 SNF2 family DNA-depend 95.8 0.042 9.1E-07 62.5 9.5 70 18-90 401-470 (941)
152 KOG0387 Transcription-coupled 95.7 0.046 1E-06 62.2 9.7 86 14-113 203-290 (923)
153 KOG1123 RNA polymerase II tran 95.7 0.0062 1.3E-07 65.4 2.7 69 12-90 298-368 (776)
154 PRK12902 secA preprotein trans 95.7 0.094 2E-06 61.5 12.1 138 444-611 367-506 (939)
155 PRK13766 Hef nuclease; Provisi 95.7 0.12 2.6E-06 62.2 13.8 92 518-624 350-451 (773)
156 PRK12900 secA preprotein trans 95.3 0.19 4.1E-06 59.8 13.0 153 444-627 526-683 (1025)
157 COG1643 HrpA HrpA-like helicas 95.1 0.06 1.3E-06 63.6 8.3 34 24-59 54-87 (845)
158 TIGR02562 cas3_yersinia CRISPR 95.1 0.099 2.2E-06 62.3 9.9 88 17-113 409-500 (1110)
159 PF12340 DUF3638: Protein of u 95.0 0.055 1.2E-06 53.8 6.5 68 17-89 24-91 (229)
160 PRK10536 hypothetical protein; 95.0 0.076 1.6E-06 53.8 7.5 38 17-58 60-97 (262)
161 PRK09694 helicase Cas3; Provis 95.0 0.61 1.3E-05 56.0 16.3 101 531-672 559-664 (878)
162 KOG0922 DEAH-box RNA helicase 94.7 0.081 1.8E-06 59.4 7.5 28 23-50 54-81 (674)
163 PRK08181 transposase; Validate 94.5 0.098 2.1E-06 54.0 7.3 53 19-75 90-142 (269)
164 TIGR00631 uvrb excinuclease AB 94.5 0.14 3.1E-06 59.6 9.3 88 519-622 430-518 (655)
165 KOG1002 Nucleotide excision re 94.4 0.22 4.8E-06 53.8 9.5 68 18-91 186-254 (791)
166 COG1204 Superfamily II helicas 94.0 0.68 1.5E-05 54.9 13.7 193 452-682 181-406 (766)
167 PRK14873 primosome assembly pr 93.8 0.31 6.7E-06 56.9 10.2 49 38-90 163-211 (665)
168 COG1484 DnaC DNA replication p 93.8 0.16 3.4E-06 52.1 7.0 61 12-76 79-142 (254)
169 PRK06835 DNA replication prote 93.7 0.15 3.3E-06 54.3 6.9 54 18-75 162-219 (329)
170 PF01695 IstB_IS21: IstB-like 93.7 0.099 2.1E-06 50.5 5.0 60 12-75 22-83 (178)
171 TIGR02640 gas_vesic_GvpN gas v 93.6 0.13 2.7E-06 53.2 6.0 36 18-53 4-39 (262)
172 COG1111 MPH1 ERCC4-like helica 93.6 0.86 1.9E-05 49.9 12.3 96 518-627 351-455 (542)
173 PHA02244 ATPase-like protein 93.5 0.17 3.7E-06 54.1 6.6 49 10-60 94-142 (383)
174 PF07517 SecA_DEAD: SecA DEAD- 93.4 0.53 1.2E-05 48.3 10.0 71 12-93 74-144 (266)
175 COG1203 CRISPR-associated heli 93.4 0.83 1.8E-05 54.4 13.1 105 531-679 439-545 (733)
176 KOG1000 Chromatin remodeling p 93.2 0.59 1.3E-05 50.8 10.1 142 528-686 488-642 (689)
177 KOG0341 DEAD-box protein abstr 93.1 0.46 1E-05 49.9 8.9 132 448-612 354-489 (610)
178 PRK13894 conjugal transfer ATP 93.0 0.23 5E-06 52.6 6.9 50 26-77 139-188 (319)
179 KOG0341 DEAD-box protein abstr 92.9 0.039 8.5E-07 57.5 0.9 70 16-90 192-269 (610)
180 COG1205 Distinct helicase fami 92.8 1.1 2.4E-05 53.9 12.9 186 439-673 214-412 (851)
181 PRK05298 excinuclease ABC subu 92.8 0.44 9.5E-06 55.9 9.5 119 519-681 434-555 (652)
182 cd00009 AAA The AAA+ (ATPases 92.7 0.26 5.6E-06 44.9 6.1 32 20-51 2-35 (151)
183 COG0714 MoxR-like ATPases [Gen 92.6 0.24 5.2E-06 53.0 6.5 55 19-78 27-81 (329)
184 KOG0947 Cytoplasmic exosomal R 92.5 0.21 4.6E-06 58.2 6.1 77 5-90 287-363 (1248)
185 PRK13531 regulatory ATPase Rav 92.3 0.12 2.6E-06 57.1 3.8 34 19-52 23-56 (498)
186 KOG4439 RNA polymerase II tran 92.3 0.22 4.7E-06 56.2 5.7 92 522-625 736-828 (901)
187 KOG0926 DEAH-box RNA helicase 92.0 0.46 9.9E-06 54.5 7.8 89 452-555 415-504 (1172)
188 PRK06526 transposase; Provisio 91.8 0.18 3.9E-06 51.7 4.1 43 29-75 92-134 (254)
189 PF00308 Bac_DnaA: Bacterial d 91.7 0.38 8.2E-06 48.2 6.3 63 12-76 5-73 (219)
190 PRK06921 hypothetical protein; 91.6 0.63 1.4E-05 48.1 7.9 38 35-75 117-154 (266)
191 PRK08939 primosomal protein Dn 91.5 0.55 1.2E-05 49.5 7.5 52 19-74 134-191 (306)
192 PRK12377 putative replication 91.4 0.6 1.3E-05 47.6 7.4 54 18-75 80-137 (248)
193 PF09848 DUF2075: Uncharacteri 91.1 0.4 8.7E-06 51.8 6.2 52 36-89 2-53 (352)
194 KOG0333 U5 snRNP-like RNA heli 91.0 2.6 5.7E-05 46.4 11.9 80 523-614 507-587 (673)
195 KOG0388 SNF2 family DNA-depend 91.0 1 2.2E-05 51.0 9.0 70 18-90 569-639 (1185)
196 COG1643 HrpA HrpA-like helicas 91.0 1.3 2.8E-05 52.7 10.6 203 452-704 196-403 (845)
197 PRK12903 secA preprotein trans 91.0 1.3 2.8E-05 52.3 10.3 139 443-612 353-492 (925)
198 COG4096 HsdR Type I site-speci 90.9 3.2 7E-05 48.4 13.1 128 518-684 407-546 (875)
199 PRK10919 ATP-dependent DNA hel 90.9 0.56 1.2E-05 55.3 7.5 67 17-91 3-71 (672)
200 PF01078 Mg_chelatase: Magnesi 90.6 0.27 5.9E-06 48.2 3.8 34 19-52 6-39 (206)
201 PRK07952 DNA replication prote 90.5 0.83 1.8E-05 46.4 7.4 52 19-74 79-134 (244)
202 KOG0331 ATP-dependent RNA heli 90.3 1.7 3.7E-05 48.5 10.1 94 517-625 326-420 (519)
203 PF06309 Torsin: Torsin; Inte 90.3 1.8 3.9E-05 38.9 8.4 31 23-53 36-71 (127)
204 PRK09183 transposase/IS protei 90.3 0.44 9.5E-06 49.0 5.3 40 31-74 98-137 (259)
205 KOG0347 RNA helicase [RNA proc 90.1 0.64 1.4E-05 51.2 6.5 83 527-624 458-541 (731)
206 KOG0332 ATP-dependent RNA heli 89.9 0.39 8.4E-06 50.4 4.4 81 531-627 329-411 (477)
207 PRK11773 uvrD DNA-dependent he 89.8 0.8 1.7E-05 54.6 7.8 68 16-91 9-78 (721)
208 COG1474 CDC6 Cdc6-related prot 89.8 1.3 2.9E-05 47.8 8.7 72 17-89 21-95 (366)
209 PRK13900 type IV secretion sys 89.7 0.7 1.5E-05 49.3 6.4 29 23-51 148-176 (332)
210 KOG0951 RNA helicase BRR2, DEA 89.6 7.2 0.00016 47.5 14.8 126 531-684 545-702 (1674)
211 TIGR02785 addA_Gpos recombinat 89.5 0.81 1.8E-05 57.8 7.8 65 17-88 2-66 (1232)
212 PRK10875 recD exonuclease V su 89.5 1.6 3.4E-05 50.6 9.5 72 11-88 146-220 (615)
213 PF05970 PIF1: PIF1-like helic 89.4 0.76 1.6E-05 49.9 6.6 56 18-77 3-60 (364)
214 TIGR01075 uvrD DNA helicase II 89.3 0.83 1.8E-05 54.4 7.4 68 16-91 4-73 (715)
215 PF06745 KaiC: KaiC; InterPro 89.3 0.82 1.8E-05 45.9 6.4 52 35-90 19-70 (226)
216 TIGR01074 rep ATP-dependent DN 89.3 0.95 2.1E-05 53.5 7.8 67 17-91 2-70 (664)
217 KOG0386 Chromatin remodeling c 89.2 0.84 1.8E-05 53.8 6.9 72 16-90 394-466 (1157)
218 KOG0989 Replication factor C, 89.1 0.6 1.3E-05 48.0 5.0 37 19-55 39-77 (346)
219 PF13872 AAA_34: P-loop contai 89.1 1.6 3.6E-05 45.2 8.2 70 18-90 39-114 (303)
220 PLN03025 replication factor C 89.1 0.48 1E-05 50.5 4.7 34 20-53 17-52 (319)
221 cd01124 KaiC KaiC is a circadi 88.7 0.97 2.1E-05 43.7 6.2 47 38-89 2-48 (187)
222 TIGR00595 priA primosomal prot 88.6 6.2 0.00013 44.8 13.4 74 578-679 302-376 (505)
223 KOG0384 Chromodomain-helicase 88.6 0.65 1.4E-05 55.8 5.6 73 16-91 370-443 (1373)
224 PF02399 Herpes_ori_bp: Origin 88.5 0.74 1.6E-05 53.7 5.8 51 34-89 48-100 (824)
225 TIGR02030 BchI-ChlI magnesium 88.4 0.53 1.2E-05 50.2 4.4 40 12-52 1-42 (337)
226 PRK13407 bchI magnesium chelat 88.4 0.39 8.4E-06 51.2 3.3 40 11-51 4-45 (334)
227 COG1201 Lhr Lhr-like helicases 88.2 17 0.00037 43.3 16.8 173 453-681 185-361 (814)
228 PLN03142 Probable chromatin-re 88.2 4 8.8E-05 49.9 12.1 85 530-626 485-570 (1033)
229 PRK05642 DNA replication initi 87.9 1.1 2.5E-05 45.2 6.3 37 36-76 46-82 (234)
230 TIGR01447 recD exodeoxyribonuc 87.8 2.2 4.8E-05 49.2 9.2 63 19-87 148-213 (586)
231 PRK08116 hypothetical protein; 87.8 1.7 3.7E-05 45.0 7.5 53 18-74 90-149 (268)
232 PRK14952 DNA polymerase III su 87.8 0.49 1.1E-05 54.3 3.8 35 20-54 17-54 (584)
233 TIGR02768 TraA_Ti Ti-type conj 87.7 1.3 2.7E-05 52.9 7.4 60 17-83 353-412 (744)
234 PRK05973 replicative DNA helic 87.6 0.64 1.4E-05 46.9 4.1 57 27-88 56-112 (237)
235 PRK08533 flagellar accessory p 87.6 1.5 3.2E-05 44.3 6.9 53 32-89 21-73 (230)
236 PRK13833 conjugal transfer pro 87.5 1.5 3.3E-05 46.5 7.0 30 19-51 131-160 (323)
237 TIGR02782 TrbB_P P-type conjug 87.4 1.7 3.8E-05 45.7 7.5 28 24-51 121-148 (299)
238 COG3973 Superfamily I DNA and 87.3 1.4 2.9E-05 49.5 6.7 55 34-90 225-283 (747)
239 PRK13889 conjugal transfer rel 87.3 1.5 3.3E-05 53.3 7.8 60 17-83 347-406 (988)
240 PRK14955 DNA polymerase III su 87.2 0.68 1.5E-05 50.9 4.5 35 20-54 20-57 (397)
241 TIGR01448 recD_rel helicase, p 87.2 2.3 5E-05 50.5 9.1 65 12-83 320-384 (720)
242 KOG0948 Nuclear exosomal RNA h 86.9 1.3 2.7E-05 50.8 6.3 70 11-89 125-194 (1041)
243 cd00984 DnaB_C DnaB helicase C 86.9 0.69 1.5E-05 46.9 4.1 46 28-76 6-51 (242)
244 KOG0342 ATP-dependent RNA heli 86.7 3 6.4E-05 45.6 8.7 77 533-624 331-408 (543)
245 PRK08727 hypothetical protein; 86.7 1.4 3E-05 44.6 6.2 36 36-75 42-77 (233)
246 COG0513 SrmB Superfamily II DN 86.5 3.5 7.6E-05 47.0 9.9 89 522-625 262-352 (513)
247 PF02534 T4SS-DNA_transf: Type 86.4 1.4 3.1E-05 49.6 6.7 70 36-121 45-115 (469)
248 COG0610 Type I site-specific r 86.4 2.3 5E-05 52.1 8.7 72 18-91 250-327 (962)
249 PRK12402 replication factor C 86.2 0.87 1.9E-05 48.7 4.6 34 20-53 19-54 (337)
250 KOG0949 Predicted helicase, DE 86.2 1.3 2.9E-05 52.1 6.1 68 14-88 510-577 (1330)
251 COG2804 PulE Type II secretory 86.0 1.5 3.3E-05 48.4 6.3 41 18-62 243-284 (500)
252 PRK06645 DNA polymerase III su 85.8 0.87 1.9E-05 51.4 4.4 35 20-54 25-62 (507)
253 TIGR03877 thermo_KaiC_1 KaiC d 85.8 1.5 3.2E-05 44.6 5.7 53 32-89 18-70 (237)
254 TIGR03420 DnaA_homol_Hda DnaA 85.7 1.8 3.8E-05 43.4 6.3 34 19-52 20-55 (226)
255 COG3587 Restriction endonuclea 85.6 0.57 1.2E-05 54.3 2.8 47 37-85 76-122 (985)
256 PRK11054 helD DNA helicase IV; 85.5 2.1 4.5E-05 50.4 7.6 66 16-89 196-263 (684)
257 KOG0391 SNF2 family DNA-depend 85.4 1.8 3.8E-05 51.9 6.6 72 17-91 616-688 (1958)
258 COG0514 RecQ Superfamily II DN 85.4 7.5 0.00016 44.4 11.5 139 452-625 167-309 (590)
259 PRK14962 DNA polymerase III su 85.4 0.85 1.8E-05 51.2 4.1 34 20-53 18-54 (472)
260 PRK14956 DNA polymerase III su 85.2 0.83 1.8E-05 50.8 3.8 35 20-54 22-59 (484)
261 smart00382 AAA ATPases associa 85.2 0.9 1.9E-05 40.8 3.6 40 35-78 2-41 (148)
262 TIGR00390 hslU ATP-dependent p 84.6 1.1 2.3E-05 48.9 4.2 35 18-52 14-64 (441)
263 TIGR01073 pcrA ATP-dependent D 84.5 2.3 4.9E-05 50.9 7.5 66 17-90 5-72 (726)
264 TIGR00764 lon_rel lon-related 84.4 2.8 6E-05 48.7 7.8 34 19-52 21-54 (608)
265 PF05496 RuvB_N: Holliday junc 84.3 1 2.2E-05 44.7 3.6 33 18-50 26-65 (233)
266 PRK11331 5-methylcytosine-spec 84.2 1.2 2.6E-05 49.0 4.5 31 23-53 182-212 (459)
267 COG2805 PilT Tfp pilus assembl 84.1 1.8 4E-05 44.5 5.4 51 12-63 101-152 (353)
268 COG1419 FlhF Flagellar GTP-bin 84.0 4.1 8.8E-05 44.1 8.2 40 35-76 203-243 (407)
269 PF00158 Sigma54_activat: Sigm 83.8 4.8 0.0001 38.4 7.9 32 20-51 7-38 (168)
270 COG4962 CpaF Flp pilus assembl 83.6 2.3 4.9E-05 44.8 6.0 57 17-81 158-214 (355)
271 TIGR01650 PD_CobS cobaltochela 83.6 1.6 3.5E-05 46.1 5.0 30 23-52 52-81 (327)
272 KOG0392 SNF2 family DNA-depend 83.5 4.7 0.0001 48.9 9.0 80 531-622 1339-1421(1549)
273 COG0606 Predicted ATPase with 83.4 1.1 2.5E-05 49.0 3.8 33 19-51 182-214 (490)
274 PRK14961 DNA polymerase III su 83.4 1.5 3.4E-05 47.5 4.9 34 20-53 20-56 (363)
275 PF12775 AAA_7: P-loop contain 83.3 1.5 3.2E-05 45.5 4.5 36 17-52 15-50 (272)
276 KOG0991 Replication factor C, 83.1 1.9 4.2E-05 42.6 4.8 33 24-56 35-69 (333)
277 TIGR00348 hsdR type I site-spe 83.0 12 0.00025 44.3 12.3 113 532-683 514-648 (667)
278 PRK14960 DNA polymerase III su 83.0 1.2 2.6E-05 51.3 4.0 35 20-54 19-56 (702)
279 cd01130 VirB11-like_ATPase Typ 82.9 1.4 2.9E-05 42.9 3.9 31 18-51 11-41 (186)
280 PRK00440 rfc replication facto 82.9 1.4 3E-05 46.8 4.3 34 20-53 21-56 (319)
281 CHL00081 chlI Mg-protoporyphyr 82.7 0.92 2E-05 48.6 2.8 41 10-51 12-54 (350)
282 TIGR02880 cbbX_cfxQ probable R 82.7 1.7 3.7E-05 45.4 4.8 17 36-52 59-75 (284)
283 PHA02544 44 clamp loader, smal 82.5 1.2 2.5E-05 47.4 3.6 43 10-52 7-60 (316)
284 PRK08084 DNA replication initi 82.4 2.9 6.4E-05 42.3 6.3 61 12-76 19-82 (235)
285 PRK13826 Dtr system oriT relax 82.4 3.9 8.5E-05 50.3 8.2 62 17-85 382-443 (1102)
286 PRK08903 DnaA regulatory inact 82.3 2.5 5.3E-05 42.5 5.7 50 23-76 27-79 (227)
287 COG1875 NYN ribonuclease and A 82.3 2.8 6.1E-05 44.4 6.0 62 12-78 224-287 (436)
288 PRK14087 dnaA chromosomal repl 82.3 5.4 0.00012 44.6 8.8 46 36-85 142-188 (450)
289 PF00448 SRP54: SRP54-type pro 82.2 3.2 7E-05 40.7 6.2 38 36-77 2-40 (196)
290 KOG1807 Helicases [Replication 82.2 3.9 8.4E-05 47.1 7.4 69 35-114 393-463 (1025)
291 PF13191 AAA_16: AAA ATPase do 82.2 0.65 1.4E-05 44.7 1.3 34 18-51 5-40 (185)
292 PRK13851 type IV secretion sys 82.2 1.3 2.8E-05 47.4 3.7 28 24-51 151-178 (344)
293 TIGR00382 clpX endopeptidase C 82.0 1.5 3.3E-05 48.0 4.2 34 19-52 80-133 (413)
294 PRK05201 hslU ATP-dependent pr 81.8 1.8 3.8E-05 47.3 4.5 33 18-50 17-65 (443)
295 COG0593 DnaA ATPase involved i 81.6 4.6 0.0001 44.0 7.6 53 23-77 96-153 (408)
296 PF02456 Adeno_IVa2: Adenoviru 81.3 3.2 7E-05 42.9 5.9 39 37-78 89-128 (369)
297 COG1219 ClpX ATP-dependent pro 80.9 1.9 4E-05 44.8 4.1 35 36-77 98-132 (408)
298 PF13481 AAA_25: AAA domain; P 80.7 4.2 9E-05 39.5 6.5 54 34-89 31-91 (193)
299 PRK12900 secA preprotein trans 80.6 5.8 0.00013 47.7 8.5 59 7-76 130-188 (1025)
300 PRK13897 type IV secretion sys 80.4 3.3 7.2E-05 47.8 6.4 71 35-121 158-230 (606)
301 PF01580 FtsK_SpoIIIE: FtsK/Sp 80.3 2.8 6.1E-05 41.3 5.2 43 34-76 37-79 (205)
302 PRK14722 flhF flagellar biosyn 80.3 1.7 3.6E-05 47.1 3.7 22 33-54 135-156 (374)
303 PRK00411 cdc6 cell division co 80.3 5.2 0.00011 43.9 7.8 37 18-54 35-74 (394)
304 PF02367 UPF0079: Uncharacteri 80.3 1.4 3.1E-05 39.5 2.7 52 22-80 2-53 (123)
305 PRK14950 DNA polymerase III su 80.3 1.5 3.2E-05 50.9 3.6 35 20-54 20-57 (585)
306 KOG0336 ATP-dependent RNA heli 80.3 8.7 0.00019 41.1 8.7 70 531-612 464-533 (629)
307 cd01122 GP4d_helicase GP4d_hel 80.2 2.1 4.6E-05 44.2 4.5 42 30-74 25-66 (271)
308 PF13401 AAA_22: AAA domain; P 80.2 1.1 2.4E-05 40.4 2.0 21 33-53 2-22 (131)
309 TIGR03880 KaiC_arch_3 KaiC dom 80.0 4.4 9.6E-05 40.5 6.6 51 34-89 15-65 (224)
310 PRK12901 secA preprotein trans 80.0 5.6 0.00012 48.0 8.1 137 444-611 556-693 (1112)
311 PF01745 IPT: Isopentenyl tran 80.0 1.6 3.6E-05 42.8 3.2 33 37-76 3-35 (233)
312 PRK04328 hypothetical protein; 79.9 3.3 7.1E-05 42.4 5.6 51 34-89 22-72 (249)
313 PRK05342 clpX ATP-dependent pr 79.9 1.8 3.9E-05 47.6 3.9 34 19-52 74-125 (412)
314 PRK06067 flagellar accessory p 79.7 4 8.6E-05 41.2 6.2 52 33-89 23-74 (234)
315 TIGR02525 plasmid_TraJ plasmid 79.6 4.1 8.8E-05 44.2 6.4 47 13-60 126-173 (372)
316 PHA02533 17 large terminase pr 79.6 8.2 0.00018 44.0 9.2 73 12-91 56-128 (534)
317 cd01126 TraG_VirD4 The TraG/Tr 79.4 1.7 3.8E-05 47.5 3.6 43 37-85 1-43 (384)
318 TIGR02928 orc1/cdc6 family rep 79.3 7 0.00015 42.3 8.4 36 18-53 20-58 (365)
319 PF07728 AAA_5: AAA domain (dy 79.3 3.4 7.5E-05 37.7 5.1 16 37-52 1-16 (139)
320 PF00437 T2SE: Type II/IV secr 79.2 1.4 3E-05 45.7 2.6 27 26-52 118-144 (270)
321 TIGR00609 recB exodeoxyribonuc 79.2 3.4 7.4E-05 51.6 6.4 52 36-88 10-63 (1087)
322 TIGR03015 pepcterm_ATPase puta 79.0 3 6.5E-05 42.9 5.1 36 18-53 25-61 (269)
323 TIGR00635 ruvB Holliday juncti 79.0 3 6.5E-05 43.9 5.2 34 20-53 8-48 (305)
324 PF06862 DUF1253: Protein of u 78.9 11 0.00024 41.6 9.6 86 529-626 297-382 (442)
325 TIGR02524 dot_icm_DotB Dot/Icm 78.8 4.1 8.8E-05 44.0 6.1 39 13-51 111-150 (358)
326 COG0467 RAD55 RecA-superfamily 78.8 2.5 5.4E-05 43.5 4.4 54 31-89 19-72 (260)
327 PRK09111 DNA polymerase III su 78.6 2.3 5.1E-05 49.1 4.4 35 20-54 28-65 (598)
328 COG4889 Predicted helicase [Ge 78.5 1.8 3.9E-05 50.4 3.4 51 596-679 531-583 (1518)
329 PRK10436 hypothetical protein; 78.4 4.3 9.4E-05 45.4 6.4 26 34-60 217-242 (462)
330 PRK12323 DNA polymerase III su 78.4 1.9 4E-05 49.7 3.5 35 20-54 20-57 (700)
331 KOG0950 DNA polymerase theta/e 78.3 13 0.00027 44.3 10.1 68 579-680 538-608 (1008)
332 PRK05896 DNA polymerase III su 78.3 1.8 3.9E-05 49.6 3.4 35 20-54 20-57 (605)
333 KOG0922 DEAH-box RNA helicase 78.3 9.5 0.00021 43.5 8.8 211 444-705 186-407 (674)
334 PF13177 DNA_pol3_delta2: DNA 78.0 4 8.6E-05 38.7 5.2 34 20-53 1-37 (162)
335 TIGR00150 HI0065_YjeE ATPase, 78.0 2 4.3E-05 39.2 3.0 52 23-81 10-61 (133)
336 COG0553 HepA Superfamily II DN 78.0 6.6 0.00014 47.9 8.5 74 15-90 337-412 (866)
337 TIGR03878 thermo_KaiC_2 KaiC d 77.9 3.2 6.9E-05 42.7 4.8 38 33-74 34-71 (259)
338 PTZ00112 origin recognition co 77.7 2.7 5.8E-05 49.9 4.5 46 6-54 751-800 (1164)
339 CHL00181 cbbX CbbX; Provisiona 77.6 3.1 6.7E-05 43.5 4.7 19 36-54 60-78 (287)
340 TIGR02655 circ_KaiC circadian 77.5 3.9 8.4E-05 46.3 5.8 51 35-90 263-313 (484)
341 PF14532 Sigma54_activ_2: Sigm 77.3 3.6 7.7E-05 37.7 4.5 31 21-51 7-37 (138)
342 PRK07133 DNA polymerase III su 77.2 2.1 4.5E-05 50.1 3.5 35 20-54 22-59 (725)
343 KOG0335 ATP-dependent RNA heli 77.1 17 0.00037 40.3 10.2 122 534-699 339-469 (482)
344 PF07726 AAA_3: ATPase family 77.0 1.7 3.7E-05 39.2 2.2 17 37-53 1-17 (131)
345 PRK12723 flagellar biosynthesi 76.9 8.4 0.00018 42.0 7.9 18 36-53 175-192 (388)
346 KOG0744 AAA+-type ATPase [Post 76.9 3.5 7.6E-05 42.9 4.6 50 36-88 178-231 (423)
347 PRK05703 flhF flagellar biosyn 76.8 3.4 7.4E-05 45.7 5.0 39 35-75 221-259 (424)
348 TIGR03499 FlhF flagellar biosy 76.8 3.4 7.4E-05 43.1 4.7 37 36-74 195-231 (282)
349 TIGR02688 conserved hypothetic 76.8 3.3 7.2E-05 45.2 4.7 35 19-53 193-227 (449)
350 KOG4150 Predicted ATP-dependen 76.8 42 0.00092 37.6 12.9 173 452-679 452-636 (1034)
351 PRK13822 conjugal transfer cou 76.7 3.7 8.1E-05 47.8 5.4 70 35-121 224-293 (641)
352 PRK06893 DNA replication initi 76.7 6.8 0.00015 39.4 6.8 51 22-76 24-76 (229)
353 COG0630 VirB11 Type IV secreto 76.7 5.4 0.00012 42.2 6.2 48 26-78 134-181 (312)
354 PF03796 DnaB_C: DnaB-like hel 76.6 3.5 7.5E-05 42.4 4.7 48 26-76 10-57 (259)
355 TIGR03881 KaiC_arch_4 KaiC dom 76.5 5.4 0.00012 40.0 6.0 53 31-88 16-68 (229)
356 PRK13765 ATP-dependent proteas 76.4 4.9 0.00011 46.7 6.3 63 19-86 34-98 (637)
357 PRK14958 DNA polymerase III su 76.2 3.2 6.9E-05 47.1 4.6 35 20-54 20-57 (509)
358 PRK00080 ruvB Holliday junctio 76.0 3.6 7.8E-05 44.0 4.8 34 20-53 29-69 (328)
359 PRK08769 DNA polymerase III su 76.0 4.6 9.9E-05 42.8 5.4 41 14-54 2-45 (319)
360 COG1223 Predicted ATPase (AAA+ 75.9 5.3 0.00012 40.3 5.4 16 36-51 152-167 (368)
361 KOG0344 ATP-dependent RNA heli 75.8 17 0.00037 40.9 9.8 81 531-624 386-466 (593)
362 KOG0745 Putative ATP-dependent 75.7 3.4 7.4E-05 44.6 4.3 38 36-80 227-264 (564)
363 PRK04296 thymidine kinase; Pro 75.4 4.4 9.5E-05 39.5 4.8 37 35-75 2-38 (190)
364 cd01125 repA Hexameric Replica 75.3 4.5 9.8E-05 41.0 5.1 25 36-60 2-26 (239)
365 PRK12422 chromosomal replicati 75.3 8.9 0.00019 42.8 7.7 37 36-76 142-178 (445)
366 PRK14951 DNA polymerase III su 75.1 2.5 5.5E-05 48.9 3.5 35 20-54 20-57 (618)
367 PRK12899 secA preprotein trans 75.1 38 0.00082 40.9 13.0 138 444-612 496-634 (970)
368 COG1126 GlnQ ABC-type polar am 74.9 0.78 1.7E-05 45.0 -0.6 61 2-73 2-62 (240)
369 PRK11608 pspF phage shock prot 74.9 11 0.00024 40.2 8.2 34 18-51 12-45 (326)
370 PRK14954 DNA polymerase III su 74.8 3.8 8.2E-05 47.5 4.8 35 20-54 20-57 (620)
371 PF03237 Terminase_6: Terminas 74.7 4.6 0.0001 43.4 5.4 45 39-85 1-45 (384)
372 PRK14948 DNA polymerase III su 74.5 3 6.6E-05 48.4 4.0 35 20-54 20-57 (620)
373 PRK11034 clpA ATP-dependent Cl 74.4 2.9 6.3E-05 49.7 3.8 34 19-52 461-505 (758)
374 PRK07764 DNA polymerase III su 74.4 2.9 6.3E-05 50.1 3.8 36 20-55 19-57 (824)
375 PRK05563 DNA polymerase III su 74.3 2.7 5.8E-05 48.4 3.4 35 20-54 20-57 (559)
376 PRK00149 dnaA chromosomal repl 74.0 12 0.00026 41.9 8.5 60 23-86 131-196 (450)
377 TIGR03743 SXT_TraD conjugative 73.9 13 0.00029 43.4 9.0 75 35-121 176-253 (634)
378 KOG0354 DEAD-box like helicase 73.8 45 0.00097 39.1 12.9 124 517-683 397-530 (746)
379 PRK09361 radB DNA repair and r 73.8 4.2 9E-05 40.7 4.4 38 33-74 21-58 (225)
380 KOG0350 DEAD-box ATP-dependent 73.5 21 0.00045 39.4 9.5 111 531-684 428-541 (620)
381 PRK14969 DNA polymerase III su 73.5 4.3 9.3E-05 46.4 4.8 35 20-54 20-57 (527)
382 TIGR02902 spore_lonB ATP-depen 73.5 3.4 7.3E-05 47.3 4.0 33 20-52 69-103 (531)
383 PF12846 AAA_10: AAA-like doma 73.4 4.4 9.6E-05 42.2 4.7 37 35-75 1-37 (304)
384 PRK14949 DNA polymerase III su 73.4 4.2 9E-05 48.6 4.7 35 20-54 20-57 (944)
385 cd01131 PilT Pilus retraction 73.3 5.5 0.00012 39.1 5.0 17 36-52 2-18 (198)
386 TIGR00362 DnaA chromosomal rep 73.0 13 0.00029 40.9 8.5 39 36-76 137-175 (405)
387 PRK14965 DNA polymerase III su 72.8 3.3 7.2E-05 47.8 3.7 35 20-54 20-57 (576)
388 PRK14957 DNA polymerase III su 72.8 4.9 0.00011 45.9 5.0 35 20-54 20-57 (546)
389 KOG0924 mRNA splicing factor A 72.6 16 0.00034 41.9 8.5 179 452-675 501-690 (1042)
390 COG1074 RecB ATP-dependent exo 72.6 5.2 0.00011 50.2 5.6 53 32-85 13-67 (1139)
391 PHA00729 NTP-binding motif con 72.6 5.4 0.00012 39.9 4.7 28 24-51 4-33 (226)
392 COG2256 MGS1 ATPase related to 72.6 8.1 0.00018 41.6 6.1 65 19-90 27-99 (436)
393 COG0542 clpA ATP-binding subun 72.4 4.2 9.1E-05 47.8 4.4 35 19-53 494-539 (786)
394 COG3598 RepA RecA-family ATPas 72.4 7 0.00015 40.7 5.4 46 30-76 84-136 (402)
395 TIGR02538 type_IV_pilB type IV 72.2 7.8 0.00017 44.7 6.6 38 19-60 302-340 (564)
396 TIGR02639 ClpA ATP-dependent C 72.2 3.6 7.8E-05 49.1 4.0 33 20-52 458-501 (731)
397 COG0210 UvrD Superfamily I DNA 72.1 7.8 0.00017 45.8 6.8 67 17-91 3-71 (655)
398 cd01120 RecA-like_NTPases RecA 72.1 8.1 0.00018 35.8 5.7 38 37-78 1-38 (165)
399 PRK13342 recombination factor 72.1 3 6.5E-05 46.2 3.1 34 20-53 16-54 (413)
400 TIGR00665 DnaB replicative DNA 72.0 4 8.7E-05 45.5 4.1 47 27-76 187-233 (434)
401 TIGR03346 chaperone_ClpB ATP-d 71.9 3.4 7.4E-05 50.2 3.7 36 18-53 567-613 (852)
402 PRK14964 DNA polymerase III su 71.7 4.9 0.00011 45.2 4.6 35 20-54 17-54 (491)
403 PRK14963 DNA polymerase III su 71.7 4.9 0.00011 45.5 4.7 35 20-54 18-55 (504)
404 TIGR02788 VirB11 P-type DNA tr 71.7 3.8 8.2E-05 43.4 3.6 24 28-51 137-160 (308)
405 PF00931 NB-ARC: NB-ARC domain 71.5 9.2 0.0002 39.7 6.5 65 22-87 2-70 (287)
406 PRK07471 DNA polymerase III su 71.4 6 0.00013 42.9 5.1 34 20-53 23-59 (365)
407 TIGR03600 phage_DnaB phage rep 71.2 4.9 0.00011 44.6 4.6 44 28-74 187-230 (421)
408 TIGR02759 TraD_Ftype type IV c 71.1 5.4 0.00012 45.9 4.9 38 35-76 176-213 (566)
409 TIGR03744 traC_PFL_4706 conjug 71.0 15 0.00033 44.9 9.0 73 35-121 475-547 (893)
410 PRK14088 dnaA chromosomal repl 70.8 11 0.00025 41.9 7.3 37 36-75 131-168 (440)
411 TIGR02784 addA_alphas double-s 70.8 8.5 0.00018 48.6 7.0 54 31-85 6-59 (1141)
412 PRK09112 DNA polymerase III su 70.3 6.1 0.00013 42.6 4.8 34 20-53 27-63 (351)
413 TIGR02237 recomb_radB DNA repa 70.2 10 0.00023 37.3 6.2 38 35-76 12-49 (209)
414 PF07724 AAA_2: AAA domain (Cd 70.0 4.2 9E-05 38.9 3.2 15 36-50 4-18 (171)
415 TIGR01420 pilT_fam pilus retra 69.9 7.2 0.00016 41.9 5.3 19 34-52 121-139 (343)
416 TIGR02881 spore_V_K stage V sp 69.8 6 0.00013 40.7 4.5 18 36-53 43-60 (261)
417 PRK14712 conjugal transfer nic 69.8 12 0.00025 48.1 7.6 65 16-84 835-901 (1623)
418 PRK13850 type IV secretion sys 69.8 1.8 3.9E-05 50.5 0.7 42 35-82 139-180 (670)
419 TIGR01817 nifA Nif-specific re 69.7 13 0.00028 42.6 7.7 29 23-51 207-235 (534)
420 PF02702 KdpD: Osmosensitive K 69.6 8.4 0.00018 37.5 5.0 50 37-90 7-59 (211)
421 PRK10865 protein disaggregatio 69.6 3.8 8.3E-05 49.7 3.5 35 19-53 571-616 (857)
422 TIGR02655 circ_KaiC circadian 69.5 9 0.0002 43.3 6.2 53 33-89 19-71 (484)
423 KOG0738 AAA+-type ATPase [Post 69.3 5.3 0.00011 42.7 3.9 42 36-85 246-287 (491)
424 PRK12903 secA preprotein trans 69.1 39 0.00083 40.5 11.1 62 18-89 80-141 (925)
425 TIGR02760 TraI_TIGR conjugativ 68.8 14 0.00031 49.0 8.5 63 17-86 430-493 (1960)
426 TIGR02442 Cob-chelat-sub cobal 68.8 5.3 0.00011 46.8 4.3 40 12-52 1-42 (633)
427 PF00004 AAA: ATPase family as 68.7 3.6 7.9E-05 36.8 2.4 16 38-53 1-16 (132)
428 cd01127 TrwB Bacterial conjuga 68.5 6.7 0.00015 43.3 4.8 41 35-79 42-82 (410)
429 PRK13764 ATPase; Provisional 68.1 12 0.00026 43.1 6.8 41 11-51 232-273 (602)
430 cd01129 PulE-GspE PulE/GspE Th 68.1 5.3 0.00012 41.2 3.7 31 19-52 66-97 (264)
431 PF10236 DAP3: Mitochondrial r 68.1 14 0.00031 39.0 7.1 54 18-76 4-59 (309)
432 PRK13880 conjugal transfer cou 68.1 1.7 3.8E-05 50.6 0.1 38 36-79 176-213 (636)
433 PRK05986 cob(I)alamin adenolsy 68.0 17 0.00036 35.4 6.8 37 33-73 20-56 (191)
434 COG1702 PhoH Phosphate starvat 67.9 7.9 0.00017 40.8 4.8 53 17-76 129-181 (348)
435 PRK11823 DNA repair protein Ra 67.8 9.8 0.00021 42.5 6.0 52 33-89 78-129 (446)
436 cd01394 radB RadB. The archaea 67.8 7.1 0.00015 38.8 4.5 38 33-74 17-54 (218)
437 TIGR02974 phageshock_pspF psp 67.7 13 0.00028 39.8 6.6 30 22-51 9-38 (329)
438 PRK06647 DNA polymerase III su 67.7 4.6 9.9E-05 46.4 3.4 35 20-54 20-57 (563)
439 PRK07003 DNA polymerase III su 67.5 6.8 0.00015 46.0 4.7 35 20-54 20-57 (830)
440 PRK15429 formate hydrogenlyase 67.4 12 0.00026 44.4 7.0 32 19-50 383-414 (686)
441 KOG1001 Helicase-like transcri 67.3 16 0.00036 42.7 7.8 43 199-247 232-274 (674)
442 KOG0923 mRNA splicing factor A 67.2 20 0.00044 40.9 8.0 185 451-676 410-600 (902)
443 PRK14729 miaA tRNA delta(2)-is 67.2 3.8 8.1E-05 43.0 2.4 42 34-88 3-44 (300)
444 CHL00095 clpC Clp protease ATP 67.1 6.1 0.00013 47.9 4.5 34 19-52 512-556 (821)
445 KOG0920 ATP-dependent RNA heli 67.0 5.4 0.00012 47.7 3.9 98 453-553 321-434 (924)
446 PRK08760 replicative DNA helic 66.9 6.5 0.00014 44.3 4.3 42 30-74 224-265 (476)
447 PF13555 AAA_29: P-loop contai 66.9 7.6 0.00016 30.2 3.4 26 35-62 23-48 (62)
448 PRK13876 conjugal transfer cou 66.7 2.1 4.6E-05 50.0 0.4 47 35-88 144-190 (663)
449 PRK09302 circadian clock prote 66.6 9.7 0.00021 43.4 5.8 50 35-89 273-322 (509)
450 PRK14086 dnaA chromosomal repl 66.6 14 0.0003 42.6 6.9 39 36-76 315-353 (617)
451 PRK05748 replicative DNA helic 66.6 6.1 0.00013 44.2 4.1 41 31-74 199-239 (448)
452 KOG0734 AAA+-type ATPase conta 66.5 11 0.00023 42.1 5.6 48 22-76 313-371 (752)
453 PF05729 NACHT: NACHT domain 66.4 9.4 0.0002 35.5 4.8 25 36-60 1-25 (166)
454 PRK06871 DNA polymerase III su 66.4 9 0.0002 40.7 5.1 38 17-54 3-43 (325)
455 TIGR00064 ftsY signal recognit 66.2 13 0.00029 38.4 6.2 35 36-74 73-107 (272)
456 PRK10416 signal recognition pa 66.1 14 0.00031 39.2 6.5 35 36-74 115-149 (318)
457 PRK07994 DNA polymerase III su 66.1 7.7 0.00017 45.1 4.8 35 20-54 20-57 (647)
458 PRK08691 DNA polymerase III su 65.9 7.8 0.00017 45.2 4.8 35 20-54 20-57 (709)
459 KOG0952 DNA/RNA helicase MER3/ 65.8 5.9 0.00013 47.4 3.8 52 36-89 944-995 (1230)
460 COG1220 HslU ATP-dependent pro 65.6 5.5 0.00012 41.8 3.1 32 20-51 19-66 (444)
461 PRK05595 replicative DNA helic 65.6 7.2 0.00016 43.6 4.4 47 26-75 192-238 (444)
462 smart00763 AAA_PrkA PrkA AAA d 65.5 20 0.00043 38.5 7.4 42 10-51 44-94 (361)
463 PF05673 DUF815: Protein of un 65.5 31 0.00067 34.9 8.3 55 18-76 32-89 (249)
464 PF06068 TIP49: TIP49 C-termin 65.4 18 0.00038 38.9 6.8 34 19-52 30-67 (398)
465 cd03115 SRP The signal recogni 65.3 10 0.00022 36.1 4.8 34 37-74 2-35 (173)
466 TIGR02397 dnaX_nterm DNA polym 65.2 7.8 0.00017 41.7 4.5 35 19-53 17-54 (355)
467 TIGR03819 heli_sec_ATPase heli 65.1 6.8 0.00015 42.0 3.9 26 26-51 169-194 (340)
468 KOG0923 mRNA splicing factor A 64.8 4.7 0.0001 45.8 2.6 24 27-50 272-295 (902)
469 COG1222 RPT1 ATP-dependent 26S 64.5 10 0.00022 40.2 4.8 47 36-90 186-232 (406)
470 PRK08451 DNA polymerase III su 64.5 6.3 0.00014 44.8 3.6 35 20-54 18-55 (535)
471 TIGR02760 TraI_TIGR conjugativ 64.5 16 0.00034 48.6 7.6 63 17-84 1020-1085(1960)
472 COG4650 RtcR Sigma54-dependent 64.3 8.4 0.00018 39.4 4.0 33 18-50 190-223 (531)
473 KOG0339 ATP-dependent RNA heli 64.3 21 0.00046 39.5 7.2 87 519-620 454-542 (731)
474 PRK14953 DNA polymerase III su 64.3 8.9 0.00019 43.3 4.8 35 20-54 20-57 (486)
475 PRK07940 DNA polymerase III su 64.0 9.9 0.00021 41.6 5.0 35 19-53 8-54 (394)
476 PRK06305 DNA polymerase III su 64.0 9.5 0.00021 42.7 4.9 35 20-54 21-58 (451)
477 PRK12727 flagellar biosynthesi 63.9 17 0.00036 41.2 6.7 22 32-53 347-368 (559)
478 PRK05580 primosome assembly pr 63.9 30 0.00065 41.0 9.3 77 576-680 468-545 (679)
479 PRK09165 replicative DNA helic 63.8 7.8 0.00017 44.0 4.2 31 31-61 213-243 (497)
480 KOG0351 ATP-dependent DNA heli 63.7 1.2E+02 0.0026 37.2 14.2 141 452-625 421-564 (941)
481 KOG1806 DEAD box containing he 63.6 12 0.00026 44.7 5.7 73 12-88 728-804 (1320)
482 PRK06620 hypothetical protein; 63.5 7.1 0.00015 38.9 3.5 16 36-51 45-60 (214)
483 PTZ00361 26 proteosome regulat 63.5 8.7 0.00019 42.6 4.4 17 36-52 218-234 (438)
484 PRK04195 replication factor C 63.4 8.9 0.00019 43.4 4.6 33 20-52 18-56 (482)
485 PRK13709 conjugal transfer nic 63.3 19 0.00042 46.7 7.9 62 17-83 968-1032(1747)
486 PRK14970 DNA polymerase III su 63.2 9.6 0.00021 41.4 4.7 34 20-53 21-57 (367)
487 KOG0729 26S proteasome regulat 63.0 6.9 0.00015 39.5 3.1 60 19-86 183-254 (435)
488 COG3638 ABC-type phosphate/pho 62.8 1.6 3.5E-05 43.4 -1.3 51 1-59 2-52 (258)
489 PRK09302 circadian clock prote 62.6 8.7 0.00019 43.8 4.4 55 31-89 27-81 (509)
490 cd01121 Sms Sms (bacterial rad 62.5 16 0.00034 39.8 6.1 49 32-85 79-127 (372)
491 PRK12724 flagellar biosynthesi 62.3 12 0.00026 41.1 5.1 37 36-75 224-260 (432)
492 TIGR01547 phage_term_2 phage t 62.2 20 0.00043 39.4 7.0 53 37-90 3-56 (396)
493 PRK06995 flhF flagellar biosyn 62.0 16 0.00035 40.9 6.2 38 35-74 256-293 (484)
494 COG0470 HolB ATPase involved i 62.0 11 0.00024 39.8 4.9 37 19-55 5-44 (325)
495 TIGR02767 TraG-Ti Ti-type conj 61.8 3.2 6.9E-05 48.1 0.7 46 36-88 212-257 (623)
496 TIGR03345 VI_ClpV1 type VI sec 61.4 7.7 0.00017 47.0 3.9 34 19-52 569-613 (852)
497 PRK14269 phosphate ABC transpo 61.1 1.5 3.2E-05 44.8 -2.0 43 1-50 1-43 (246)
498 PF05872 DUF853: Bacterial pro 61.1 6.9 0.00015 42.9 3.0 35 35-73 19-53 (502)
499 PRK11388 DNA-binding transcrip 61.1 23 0.00051 41.6 7.8 29 23-51 336-364 (638)
500 cd03296 ABC_CysA_sulfate_impor 61.0 1.7 3.7E-05 44.1 -1.6 43 1-50 1-43 (239)
No 1
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=9.1e-119 Score=922.30 Aligned_cols=720 Identities=64% Similarity=1.082 Sum_probs=687.0
Q ss_pred CeEEEcceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhH
Q 004910 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (724)
Q Consensus 1 ~~~~i~~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~ 80 (724)
|+|.|+++.|+|||...||.|.++|.++.++|+.++|.++|.|+|||||.+.|.-.++|....+....|+|||+||.+.+
T Consensus 1 Mk~~id~l~v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEi 80 (755)
T KOG1131|consen 1 MKFYIDDLLVYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEI 80 (755)
T ss_pred CeeeecCeeEecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHH
Confidence 99999999999999999999999999999999999999999999999999999999999998874434999999999999
Q ss_pred HHHHHHHHhhhhhcccCCCCCCceEEEEecCccccccchHhhhccCchhHHHHHHHhhhhHHHhhhhcCCCCCCCcCccc
Q 004910 81 EKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFEN 160 (724)
Q Consensus 81 ~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~~C~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~d~~~c~~~~~ 160 (724)
+..+.||+++..+..+++|.+.++....|.||.|+|+|+.+....++..++..|+.+...|+.++...|++...|.||++
T Consensus 81 eK~l~El~~l~~y~~k~~g~~~~flglglssRKNlCi~~~v~~~r~g~~VD~~Cr~ltas~vr~~~~ed~~~~~C~f~en 160 (755)
T KOG1131|consen 81 EKALEELKRLMDYREKHLGYPEPFLGLGLSSRKNLCIHPEVLKERNGNVVDAACRKLTASYVRAKLAEDPNVELCDFFEN 160 (755)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCceeeeeeccccccccCHHHHHHhcCCchhHHHHHHhHHHHHHHHhcCCCcchhhHHhh
Confidence 99999999999999998887888999999999999999999988888899999999999999999988888889999999
Q ss_pred chhhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCch
Q 004910 161 YEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNID 240 (724)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~ 240 (724)
+.. .+..+|.++|+.+++.+.|...+.||||.+|..+..|+|||-+|+||+||.+.+.+..++.+.+++|||||||+.
T Consensus 161 ~~~--~~~~lp~gvy~~~dL~~~g~~k~~CPYflaR~~I~~~nvivYsYhYllDPkIa~~VSkels~~svVvFDEAHNID 238 (755)
T KOG1131|consen 161 LED--KESLLPVGVYTLEDLKEYGEKKGWCPYFLARRMIPFANVIVYSYHYLLDPKIAELVSKELSKESVVVFDEAHNID 238 (755)
T ss_pred hhc--ccccCCcccccHHHHHHhhhcCCcChHHHHHHhhhcccEEEEehhhhcChHHHHHHHHhhCcCcEEEeccccccc
Confidence 875 233678999999999999999999999999999999999999999999999998888889999999999999999
Q ss_pred HHhhhhcceeecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHhcCCCccccccccCCCCCchhhhhccC
Q 004910 241 NVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVP 320 (724)
Q Consensus 241 ~~~~~~~s~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 320 (724)
+.|.+.+|..++...++++.+.++.+.+.+.+++..+..+|++++++++++|+........+.|+.+|.+|++++.+.+|
T Consensus 239 nvCIeslSv~i~r~~l~ra~~~l~~l~~~v~r~k~~d~~kl~~eY~klvegL~~~~~~~~~d~~lanPvLP~dvl~EavP 318 (755)
T KOG1131|consen 239 NVCIESLSVDITRRTLERASRNLNSLEQLVNRVKETDSQKLQDEYEKLVEGLKDASAERDEDQFLANPVLPDDVLKEAVP 318 (755)
T ss_pred chhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhhhcchhHHHHHHHHHHHHhhccccccCccchhcCCCCchhhhhhhCC
Confidence 99999999999999999999999999888888888888899999999999998766555668899999999999999999
Q ss_pred cchhchHHHHHHHHHHHHHHHhhhccccccccChhHHHHHHHhhhcccchhhhhhHHHHHHHHHHhhhcCCCccchhHHH
Q 004910 321 GNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTI 400 (724)
Q Consensus 321 ~~i~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~l~~l 400 (724)
|+|++.++|+.+|++++++++.+++...+..|+|.+|++.+.+...|..+++++|.+||.+++.+|++...+++.+++.+
T Consensus 319 GniR~aeHFv~fLkR~~ey~ktrl~~~hv~~Esp~sFl~~i~~~~~IerKplrFCaeRL~~L~~tLeitd~~df~~l~~v 398 (755)
T KOG1131|consen 319 GNIRRAEHFVSFLKRLLEYLKTRLKVHHVIQESPASFLKSIKSLTFIERKPLRFCAERLSSLVRTLEITDVEDFGALKTV 398 (755)
T ss_pred cchhhHHHHHHHHHHHHHHHHHhhhheeeeccCcHHHHHHHHHhhhhhccchHHHHHHHHHHHHHhccCchhhhhHHHHH
Confidence 99999999999999999999999998888899999999999999999999999999999999999999988899999999
Q ss_pred HHHHHHhcccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCeEEEecCCCCCccchhhhhCCCCccccc
Q 004910 401 CDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRS 480 (724)
Q Consensus 401 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~l~~l~~~~~s~Il~SaTL~~~~~~~~~lg~~~~~~~~ 480 (724)
.+|.+++++|.++|.++++|.+...++..++.++++|+|.|..++++|++++|||.|||||+|.+.+-+.+++.+....+
T Consensus 399 ~~faTlVstY~kGF~iIiEPfd~~~~tv~npil~~sClDaSiAikPVf~RFqsViITSGTlspldmyPk~lnf~pv~~~s 478 (755)
T KOG1131|consen 399 ADFATLVSTYSKGFSIIIEPFDDRNPTVPNPILRFSCLDASIAIKPVFERFQSVIITSGTLSPLDMYPKILNFGPVVGAS 478 (755)
T ss_pred HHHHHHHHHHhcCcEEEEcccccCCCCCCCCeeEEeecccchhhhHHHHhhheEEEecCcccccccCchhhccCcccchh
Confidence 99999999999999999999998888888999999999999999999999999999999999999999999999888788
Q ss_pred cceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHH
Q 004910 481 FKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKE 560 (724)
Q Consensus 481 ~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~ 560 (724)
+...+.++++.|+++++|.++..+++.|+-|+++...+++++.+.+..+.+|+|+++|||||-.|+.+...|...|+..+
T Consensus 479 ~~mtLaR~c~~PmiitrG~Dqv~iss~fe~r~d~~VvrnyG~llve~sk~vpdG~v~ff~sylYmesiv~~w~~~gil~e 558 (755)
T KOG1131|consen 479 FTMTLARNCLLPLIITRGNDQVAISSKFEARGDPSVVRNYGNLLVEMSKIVPDGIVCFFPSYLYMESIVSRWYEQGILDE 558 (755)
T ss_pred hheecccccccceeeecCCcchhhhhhhhhccChHHHhhcCcceeeecccCCCceEEEEehHHHHHHHHHHHHHHhHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHH
Q 004910 561 IMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYL 640 (724)
Q Consensus 561 ~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l 640 (724)
++++|.+|+|.+|..+.+..+++|+++|++|+|+||++|+||+.+|||||.+++.|+||+.|+||.....-.+++|.+||
T Consensus 559 i~k~KL~fIetpD~~ETs~al~ny~~aC~~gRGavl~sVargkVsEgidF~hhyGR~ViM~gIP~qytesriLkarle~L 638 (755)
T KOG1131|consen 559 IMKYKLLFIETPDFRETSLALANYRYACDNGRGAVLLSVARGKVSEGIDFDHHYGREVIMEGIPYQYTESRILKARLEYL 638 (755)
T ss_pred HhhCceEEEeCCchhhhHHHHHHHHHHhcCCCCceEEEEecCccccCcccccccCceEEEEeccchhhHHHHHHHHHHHH
Confidence 99999999999998888899999999999999999999999999999999999999999999999999899999999999
Q ss_pred HHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEecccCCCcccCCCchHHHhhcccccCCCCHHHHHHHHHHh
Q 004910 641 RDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALHIAREV 720 (724)
Q Consensus 641 ~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~a~~~~~~f 720 (724)
.++++...++|...+|+|...|++||++|+++|||..|+.|+||.....+..||+|++.++...+.++|+|+|....|.|
T Consensus 639 rd~~~irE~dflTFDAmRhaAQC~GrvLr~K~dYg~mI~aDkRf~R~dKR~klp~wi~~~l~~~~~nlstd~a~~varrf 718 (755)
T KOG1131|consen 639 RDQFQIRENDFLTFDAMRHAAQCLGRVLRGKTDYGLMIFADKRFSRGDKRSKLPKWIRNHLFDAKLNLSTDMANQVARRF 718 (755)
T ss_pred HHHhcccccceechHhHHHHHHHHHHHHhccccceeeEeeehhhccccchhhhhHHHHhhhhhhccCCCcchhHHHHHHH
Confidence 99999999999999999999999999999999999999999999998899999999999999999999999999999999
Q ss_pred cc
Q 004910 721 GN 722 (724)
Q Consensus 721 ~~ 722 (724)
+.
T Consensus 719 lR 720 (755)
T KOG1131|consen 719 LR 720 (755)
T ss_pred HH
Confidence 84
No 2
>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=100.00 E-value=5.2e-106 Score=936.22 Aligned_cols=697 Identities=46% Similarity=0.819 Sum_probs=522.9
Q ss_pred ceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHH
Q 004910 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 7 ~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
+++|+|||+++||+|+++|++|.+++++++++++|||||||||++.|+|+|+|+...+... ||+|+||||+|+.|+++|
T Consensus 1 ~~~v~FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~-kIiy~sRThsQl~q~i~E 79 (705)
T TIGR00604 1 ELLVYFPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVR-KIIYASRTHSQLEQATEE 79 (705)
T ss_pred CCceecCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccc-cEEEEcccchHHHHHHHH
Confidence 4689999998899999999999999999999999999999999999999999988665445 999999999999999999
Q ss_pred HHhhhhhcccCCCCCCceEEEEecCccccccchHhhhccCchhHHHHHHHhhhhHHHhhhhcCCCCCCCcCcccchhh-h
Q 004910 87 LKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKA-A 165 (724)
Q Consensus 87 l~~l~~~~~~~~~~~~~~~~~~l~gr~~~C~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~d~~~c~~~~~~~~~-~ 165 (724)
|+++.....+..+...+++++.|+||+++|+|+.+........+++.|..+...|..+......+...|+||++.... .
T Consensus 80 lk~~~~~~~~~~~~~~~i~~v~L~SR~~lCin~~v~~~~~~~~~~~~C~~l~~~~~~~~~~~~~~~~~C~yy~~~~~~~~ 159 (705)
T TIGR00604 80 LRKLMSYRTPRIGEESPVSGLSLASRKNLCLHPEVSKERQGKVVNGKCIKLTVSKIKEQRTEKPNVESCEFYENFDELRE 159 (705)
T ss_pred HHhhhhccccccccCCceeEEEechHhhcccChHHHhhcchhhHHHHHHHHHhhhhcccccccCCCCCCCCCchhhhhhh
Confidence 999753221111122468999999999999999887665555677899987655544322222234679999886543 1
Q ss_pred hcCCCCCCCCCHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCchHHhhh
Q 004910 166 SAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIE 245 (724)
Q Consensus 166 ~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~~~~~~ 245 (724)
....+..+++|+|++++.|..++.||||.+|+.++.|||||+||+||||+.++..+...+ ++.+|||||||||+++|++
T Consensus 160 ~~~~~~~~~~diEdL~~~g~~~~~CPY~~sr~~~~~advIi~pYnyl~dp~~r~~~~~~l-~~~ivI~DEAHNL~d~~~~ 238 (705)
T TIGR00604 160 VEDLLLSEIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSIEL-KDSIVIFDEAHNLDNVCIS 238 (705)
T ss_pred hhhhcccCCCCHHHHHHhcccCCCCccHHHHHhhhcCCEEEechHHhcCHHHHHHhhccc-ccCEEEEECccchHHHHHH
Confidence 112344679999999999999999999999999999999999999999999987765554 7899999999999999999
Q ss_pred hcceeecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHhcCCCccccccccCCCCCchhhhhccCcchhc
Q 004910 246 ALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRR 325 (724)
Q Consensus 246 ~~s~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~ 325 (724)
++|.+|+..+|..+.+++.++..........+...+.+.+.+++..+.+.........+..++..+..+....+++.++.
T Consensus 239 ~~S~~ls~~~l~~a~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 318 (705)
T TIGR00604 239 SLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKLLDELQKLVEGLKQEDLLTDEDIFLANPVLPKEVLPEAVPGNIRI 318 (705)
T ss_pred HHhcccCHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcccchhhhcCcCchhhccHHHhcccCCc
Confidence 99999999999999999887654332111111222334444555554331100000011111111222211222222222
Q ss_pred hHHHHHHHHHHHHHHHhhhccccccccChhHHHHHHHhhhcccchhhhhhHHHHHHHHHHhhhcCCCccch---hHHHHH
Q 004910 326 AEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLH---IQTICD 402 (724)
Q Consensus 326 ~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~---l~~l~~ 402 (724)
...+...+.++++......+......+....+...+.+...++. .++++.+++...+..+.......+.. +..+..
T Consensus 319 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 397 (705)
T TIGR00604 319 AEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLEHLKEKTFIDR-PLRFCSERLSNLLRELEITHPEDFSALVLLFTFAT 397 (705)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhcccch-hhhHHHHHHHHHHhhhccccccccccchHHHHHHH
Confidence 22333333333322111000000011111223333333322322 44555566666665554333233332 233333
Q ss_pred HHHHhc-ccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCeEEEecCCCCCccchhhhhCCCCcccccc
Q 004910 403 FATLVG-TYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRSF 481 (724)
Q Consensus 403 f~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~l~~l~~~~~s~Il~SaTL~~~~~~~~~lg~~~~~~~~~ 481 (724)
|+.... .+...+..+.. . ...+..|+++|+||+..|+.++++++++|||||||+|.++|.+.||++.....+.
T Consensus 398 ~~~~~~~~~~~~~~~~~~-~-----~~~~~~l~~~~l~ps~~~~~i~~~~~svil~SgTL~p~~~~~~~Lg~~~~~~~~~ 471 (705)
T TIGR00604 398 LVLTYTNGFLEGIEPYEN-K-----TVPNPILKFMCLDPSIALKPLFERVRSVILASGTLSPLDAFPRNLGFNPVSQDSP 471 (705)
T ss_pred HHHHhccccccceeEeec-C-----CCCCceEEEEecChHHHHHHHHHhcCEEEEecccCCcHHHHHHHhCCCCccceec
Confidence 443331 12223322221 1 1235789999999999999999999999999999999999999999976555566
Q ss_pred ceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHH
Q 004910 482 KMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEI 561 (724)
Q Consensus 482 ~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~ 561 (724)
++++++++++++++++++++..+.++|..|+++++.+.+++.|.++++.+|||+|||||||..|+++++.|.+.+.+..+
T Consensus 472 ~~~~~~~~~~~~i~~~~~~~~~l~~~~~~r~~~~~~~~l~~~i~~~~~~~pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i 551 (705)
T TIGR00604 472 THILKRENLLTLIVTRGSDQVPLSSTFEIRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENI 551 (705)
T ss_pred CcccchHHeEEEEEeeCCCCCeeeeehhccCCHHHHHHHHHHHHHHhhcCCCcEEEEccCHHHHHHHHHHHHhcCHHHHH
Confidence 78888889898999999999999999999999999999999999999999999999999999999999999998887777
Q ss_pred hcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHH
Q 004910 562 MQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLR 641 (724)
Q Consensus 562 ~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~ 641 (724)
...++||+|+++..+.+.++++|++.++.++|+|||||+||+|||||||+|+.||+|||+|||||+|.||.++++.+|++
T Consensus 552 ~~~k~i~~E~~~~~~~~~~l~~f~~~~~~~~gavL~av~gGk~sEGIDf~~~~~r~ViivGlPf~~~~~~~~~~~~~~~~ 631 (705)
T TIGR00604 552 EKKKLIFVETKDAQETSDALERYKQAVSEGRGAVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESRILLARLEFLR 631 (705)
T ss_pred hcCCCEEEeCCCcchHHHHHHHHHHHHhcCCceEEEEecCCcccCccccCCCCCcEEEEEccCCCCCCCHHHHHHHHHHH
Confidence 66788999998766788999999988777889999999999999999999999999999999999999999999999999
Q ss_pred HhcCCCCC-cccHHHHHHHHHHhhcccccCCCCeEEEEEEecccCCCcccCCCchHHHhhcccccCCCCHHHHHH
Q 004910 642 DTFQIKEG-DFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALH 715 (724)
Q Consensus 642 ~~~~~~~~-~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~a~~ 715 (724)
++++..++ .||..+|+++|+||+||+|||++|||+|+|+|+||.+..+++.||+|+++++.+.+ +.++|+.
T Consensus 632 ~~~~~~~~~~~y~~~a~~~v~QaiGR~IR~~~D~G~iillD~R~~~~~~~~~lp~W~~~~~~~~~---~~~~~i~ 703 (705)
T TIGR00604 632 DQYPIRENQDFYEFDAMRAVNQAIGRVIRHKDDYGSIVLLDKRYARSNKRKKLPKWIQDTIQSSD---LNGMAIS 703 (705)
T ss_pred hhcCCCccHHHHHHHHHHHHHHHhCccccCcCceEEEEEEehhcCCcchhhhcCHHHHhhccccC---CCcchhc
Confidence 88654556 89999999999999999999999999999999999998899999999999999965 4556553
No 3
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=1.2e-90 Score=738.40 Aligned_cols=666 Identities=26% Similarity=0.435 Sum_probs=511.4
Q ss_pred ceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC-----------------------
Q 004910 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK----------------------- 63 (724)
Q Consensus 7 ~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~----------------------- 63 (724)
..+++|||. ||..|.++|+++++.|+.|+++++|+||||||||+.+|+|+.|...+
T Consensus 7 ~~~F~fPy~-PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~eek~~t~~~~~l~~v~~~~~d~k 85 (821)
T KOG1133|consen 7 AIEFPFPYT-PYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDFEEKKRTEEARLLETVTGPLHDEK 85 (821)
T ss_pred ccccCCCCC-chhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHhHHhhhhHHHhhhccCCCcccccc
Confidence 356789998 59999999999999999999999999999999999999999996532
Q ss_pred ---------------------------------------------------------C----------------------
Q 004910 64 ---------------------------------------------------------P---------------------- 64 (724)
Q Consensus 64 ---------------------------------------------------------~---------------------- 64 (724)
.
T Consensus 86 de~d~~s~wl~~~~~~~~er~~~~r~l~~~qa~~~~re~r~q~~~~~~e~~k~ak~~~~e~~~reyl~~~e~~~pg~~eq 165 (821)
T KOG1133|consen 86 DESDSSSAWLTQFVQKKEERDLVDRNLKAEQARFKQREERLQQLQHRVQGKKGAKRLRQEEEEREYLLSREMLEPGRLEQ 165 (821)
T ss_pred ccccchhHHHHHHHHHHHhhccchHHHHHhhchHHHHHHHHHhhhhHHhhhhhhhccccccccchhcchhhccCccchhh
Confidence 0
Q ss_pred -----------------------CCCceEEEEccchhhHHHHHHHHHhhhhhcccCCCCCCceEEEEecCccccccchHh
Q 004910 65 -----------------------ENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRV 121 (724)
Q Consensus 65 -----------------------~~~~~vvi~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~~C~~~~~ 121 (724)
+++.||+||+|||+|+.|++.||++. . .+.+++++.|+||.++|+|+.+
T Consensus 166 ~e~~~~~e~s~D~e~~~~~~~~e~~p~KI~ycSRTHSQL~Qfv~ELrKt-~-------f~~~vr~vsL~SRk~LCiNe~V 237 (821)
T KOG1133|consen 166 LESGEEAESSSDEEKKVASRVDEDAPVKIYYCSRTHSQLAQFVAELKKT-P-------FGKKVRSVSLGSRKNLCINEDV 237 (821)
T ss_pred hhcccccccccchhhccccCccccCCeeEEEecccchHHHHHHHHHhhc-c-------cccCceEEeecchhhcccCHHh
Confidence 01158999999999999999999984 1 3678999999999999999999
Q ss_pred hhccCchhHHHHHHHhhhhHHHhhhhcC------CCCCCCcCcccc--hhhhhcCCCCCCCCCHHHHHHhcccCCCCchH
Q 004910 122 LAAENRDSVDAACRKRTASWVRALAAEN------PNIETCEFFENY--EKAASAAVLPPGVYTLQDLRAFGKQQGWCPYF 193 (724)
Q Consensus 122 ~~~~~~~~~~~~c~~l~~~w~~~~~~~~------~d~~~c~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy~ 193 (724)
..++....+|+.|..+...-..+..... .....||||+.- ....+. .+ .++.|+|+++..|+..+.||||
T Consensus 238 ~Klk~~~~iNE~Cldlq~s~~~~~~~~~~~~~~~~~~~~Cpf~~~~q~~~~rd~-~l-~e~~DiEdLv~lGk~~~~CPYY 315 (821)
T KOG1133|consen 238 KKLKSVDAINERCLDLQKSKHSLKPSKKMRMTRTKATARCPFYNHTQMEDLRDE-AL-SEVLDIEDLVALGKELRGCPYY 315 (821)
T ss_pred ccccchhHHHHHHHHHHhccCcccccccchhcccccccCCCccchhHHHHHHHH-Hh-hhhccHHHHHHhhhhcCCCCch
Confidence 9998888999999876532221100000 013469999542 222222 22 3889999999999999999999
Q ss_pred HHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCchHHhhhhcceeecHHHHHHHHHHHHHHHHHHH-H
Q 004910 194 LARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIE-R 272 (724)
Q Consensus 194 ~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~~~~~~~~s~~ls~~~l~~~~~~l~~~~~~~~-~ 272 (724)
.+|+.+..|++|+.+|.+||+...|++++..| +++++||||||||.|.+.++.|.+||..+|.++...+..+..... +
T Consensus 316 ~SR~avp~aqlV~LPYQ~LL~~stR~slgI~L-kdsIvIiDEAHNlidti~smhsa~Is~~ql~~a~~~i~~Y~~rf~~r 394 (821)
T KOG1133|consen 316 ASRRAVPQAQLVTLPYQLLLHESTRKSLGISL-KDSIVIIDEAHNLIDTICSMHSAEISFSQLCRAHKQIQQYFERFGKR 394 (821)
T ss_pred hhhhccccccEEeccHHHHHhHHHHHhcCccc-cccEEEEechhHHHHHHHHhhhhheeHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999888776 799999999999999999999999999999999998887754432 2
Q ss_pred hhhcchhHHHHHHHHHHHHHHhcCCCccccccccCCCCCchhhhhccCcc--hhchHHHHHHHHHHHHHHHhhhcccccc
Q 004910 273 FKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGN--IRRAEHFLHVLRRLVQYLRGRLETENVE 350 (724)
Q Consensus 273 ~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--i~~~~~~~~~l~~l~~~l~~~~~~~~~~ 350 (724)
+...+.-.+. .+..++..+..... .... ...+ .+.+..+ +....-..-.|.++.++++...-..+
T Consensus 395 l~~~N~~~l~-ql~~l~~~ll~fl~-----~~~~---~~~~--~~~~~~~dfl~~~~id~iNL~kl~~Yi~~S~i~rK-- 461 (821)
T KOG1133|consen 395 LKAKNLMYLK-QLLSLLRRLLKFLD-----SNCE---LNGN--GESLMRNDFLFSSGIDNINLFKLLDYIEKSKIARK-- 461 (821)
T ss_pred hCccchhHHH-HHHHHHHHHHHHHH-----hhhh---hCCc--ccccchhhhhhhcCccceeHHHHHHHHHHhhHHHH--
Confidence 2222221121 22223332222110 0000 0000 0001111 00000001234455555542100000
Q ss_pred ccChhHHHHHHHhhhcccchhhhhhHHHHHHHHHHhhhcCCCcc--chhHHHHHHHHHhcccCCCeEEEEecCCCCCCCC
Q 004910 351 KEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEF--LHIQTICDFATLVGTYTRGFSIIIEPFDERMPHI 428 (724)
Q Consensus 351 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~--~~l~~l~~f~~~~~~~~~~~~~~~~~~~~~~~~~ 428 (724)
...|...+.+. ..++++. |.. +..+....+.. +.+..+..|+..+.....+-.+++++..
T Consensus 462 ---v~G~~~r~~~~---~s~plq~----l~~--~~~~~~ee~~~~ps~l~~l~~FL~~LTn~~~dGri~~~k~~------ 523 (821)
T KOG1133|consen 462 ---VDGFGERLSEV---FSQPLQS----LQK--KRVEAEEESQLKPSPLFELSSFLGALTNNNEDGRIFYSKQG------ 523 (821)
T ss_pred ---hcchhhcchhh---ccchhhH----hhh--ccccchhcccCCCchhHHHHHHHHHHhCCCCCCcEEEeccC------
Confidence 01122222211 1122211 111 00000001112 3588888998877555544466666553
Q ss_pred CCCeEEEEecCccccchHHhhccCeEEEecCCCCCccchhhhhCC--C-CccccccceeecCCceeeEEeecCCCCccee
Q 004910 429 PDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNF--H-PVVSRSFKMSLTRDCICPMVLTRGSDQLPVS 505 (724)
Q Consensus 429 ~~~~l~~~~l~~s~~l~~l~~~~~s~Il~SaTL~~~~~~~~~lg~--~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 505 (724)
..+|++..++|+..|..+...++.+|+.+|||.|.+.|...|+= . .....++.|.++++++.++++..||.+.++.
T Consensus 524 -s~~lky~lL~pA~~f~evv~earavvLAGGTMeP~~e~~e~L~~~~~~~i~~fsc~Hvip~e~il~~vv~~gpsg~p~e 602 (821)
T KOG1133|consen 524 -SGTLKYMLLNPAKHFAEVVLEARAVVLAGGTMEPVDELREQLFPGCPERISPFSCSHVIPPENILPLVVSSGPSGQPLE 602 (821)
T ss_pred -CceEEEEecCcHHHHHHHHHHhheeeecCCccccHHHHHHHhcccchhhccceecccccChhheeeeeeccCCCCCceE
Confidence 36899999999999999999999999999999999998888742 2 2334577889999999999999999999999
Q ss_pred ecccCCCChHHHHHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHH
Q 004910 506 TKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYR 585 (724)
Q Consensus 506 s~f~~~~~~~~~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~ 585 (724)
.+|..|..+++++.++..+..++..+|||++||||||++|.++.+.|.+.|+++.+.+.|+||.|+++. .+.+++.|+
T Consensus 603 ftf~~R~s~~~l~~l~~~~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~--~~dvl~~Ya 680 (821)
T KOG1133|consen 603 FTFETRESPEMIKDLGSSISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT--VEDVLEGYA 680 (821)
T ss_pred EEeeccCChHHHHHHHHHHHHHHhhCCCcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc--HHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999874 678999999
Q ss_pred HhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCC--CCCcccHHHHHHHHHHh
Q 004910 586 KACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQI--KEGDFLTFDALRQAAQC 663 (724)
Q Consensus 586 ~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~--~~~~~~~~~a~~~v~Q~ 663 (724)
.+...|.|++||+|.||+++|||+|.|+.||+||++|||||++.|+.++.|+.|++.+... .+++||..-+|++|||+
T Consensus 681 ~a~~~g~GaiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyPN~~s~EL~er~k~l~~k~~~~gagke~yEnlCMkAVNQs 760 (821)
T KOG1133|consen 681 EAAERGRGAILLAVVGGKLSEGINFSDDLGRAVVVVGLPYPNIQSVELQERMKHLDGKLPTPGAGKELYENLCMKAVNQS 760 (821)
T ss_pred HHhhcCCCeEEEEEeccccccccccccccccEEEEeecCCCCCCCHHHHHHHHHhhhccCCCCchHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999998764 36889999999999999
Q ss_pred hcccccCCCCeEEEEEEecccCCCcccCCCchHHHhhcccccCCCCHHHHHHHHHHhcc
Q 004910 664 VGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALHIAREVGN 722 (724)
Q Consensus 664 ~GR~iR~~~D~g~vvllD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~a~~~~~~f~~ 722 (724)
+||.|||.+||++|+|||.||..+..+ .||+|+++.+.. ..++++++...|+|..
T Consensus 761 IGRAIRH~~DYA~i~LlD~RY~~p~~R-KLp~WI~~~v~s---~~~~G~~ir~~~~ff~ 815 (821)
T KOG1133|consen 761 IGRAIRHRKDYASIYLLDKRYARPLSR-KLPKWIRKRVHS---KAGFGPAIRATRKFFR 815 (821)
T ss_pred HHHHHhhhccceeEEEehhhhcCchhh-hccHHHHhHhcc---ccCccHHHHHHHHHHH
Confidence 999999999999999999999965555 899999887776 5589999999999964
No 4
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=4e-90 Score=754.30 Aligned_cols=642 Identities=27% Similarity=0.487 Sum_probs=465.9
Q ss_pred EEEc-ceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-----------------
Q 004910 3 FKLE-DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----------------- 64 (724)
Q Consensus 3 ~~i~-~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~----------------- 64 (724)
..|+ |++|+|||++ ||.|..||..|.++|+.+.++++|+||||||||+.||++++|.+...
T Consensus 8 ~~i~~Gv~V~fP~qp-Y~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~p 86 (945)
T KOG1132|consen 8 IVINIGVPVEFPFQP-YPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFIP 86 (945)
T ss_pred eEeccCceeeccCCc-chHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccccC
Confidence 5677 9999999996 99999999999999999999999999999999999999999976431
Q ss_pred ---------------------CCCceEEEEccchhhHHHHHHHHHhhhhhcccCCCCCCceEEEEecCccccccchHhhh
Q 004910 65 ---------------------ENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLA 123 (724)
Q Consensus 65 ---------------------~~~~~vvi~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~~C~~~~~~~ 123 (724)
.+.++|+|+||||+|+.|+++|+++. +..++.++|++|.++|+|+.++.
T Consensus 87 ~~~s~~~g~~s~e~~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT----------~Y~vkmtVLgSReq~Cinpev~k 156 (945)
T KOG1132|consen 87 TQPSDSGGEKSEEAGEPIACYTGIPKIYYASRTHSQLTQVVRELRRT----------GYRVKMTVLGSREQLCINPEVKK 156 (945)
T ss_pred CCCccCCCCchhhhcCccccccCCceEEEecchHHHHHHHHHHHhhc----------CCCCceEEeecchhhccCHHHhh
Confidence 01248999999999999999999985 44588999999999999999887
Q ss_pred ccCchhHHHHHHHhhhhHHHhhhhcCCCCCCCcCcccchhhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhhhccCc
Q 004910 124 AENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFAN 203 (724)
Q Consensus 124 ~~~~~~~~~~c~~l~~~w~~~~~~~~~d~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~ad 203 (724)
.......+..|++++. ...|.|+...........+..+++|+|++++.++....||||.+|+..++||
T Consensus 157 ~~~~~~~~~~C~k~~~------------~~~C~f~~~~~~~sl~~~l~~~i~DIEDLVk~Gk~~~~CPYfaSR~l~edAd 224 (945)
T KOG1132|consen 157 LEGNALQNHVCKKLVK------------SRSCHFYKIVEEKSLQPRLHDEIFDIEDLVKIGKKSRGCPYFASRELKEDAD 224 (945)
T ss_pred hhcchhhhhHHHhhcc------------cccccccccccccccccccCCCcccHHHHHHhCccCcCCcchhhhhhcccCc
Confidence 7655556788987652 2579988655443333345567999999999999999999999999999999
Q ss_pred EEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCchHHhhhhcceeecHHHHHHH---HHHHHHHHHHHHHhhhcchhH
Q 004910 204 VVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGA---TRNLSRINQEIERFKATDAGR 280 (724)
Q Consensus 204 ivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~~~~~~~~s~~ls~~~l~~~---~~~l~~~~~~~~~~~~~~~~~ 280 (724)
||+|+|+||+|+.+|.+...+| +++|||||||||+|+.|++..|+++++.+|... .+++.... .+-... -..
T Consensus 225 IIF~PYnYLiDp~iR~~~~v~L-knsIVIfDEAHNiEdic~esaS~~lts~~l~~~~~l~~e~~~~~---~~~~~~-~~p 299 (945)
T KOG1132|consen 225 IIFCPYNYLIDPKIRRSHKVDL-KNSIVIFDEAHNIEDICRESASFDLTSSDLASGLELINELEQAV---TKAAAI-YEP 299 (945)
T ss_pred EEEechhhhcCHhhhccccccc-cccEEEEeccccHHHHHhhcccccccHHHHHHHHHHHHHHHHHH---hhhhhh-cCc
Confidence 9999999999999998766666 799999999999999999999999998766642 23322211 100000 000
Q ss_pred HHHHHHHHHHHHHhcCCCccccccccCCCCCchhhhhccCcchhchHHHHHHHHHHHHHHHhhhccccccccChhHHHHH
Q 004910 281 LRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVAS 360 (724)
Q Consensus 281 l~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~ 360 (724)
+.+.-..++. |+. +..+. +......+..+...++.+..-.+...+....+. .+.+
T Consensus 300 l~ev~~~l~s-------------~l~---~~~e~--------La~l~~~~~~~~~~~d~~~~~~~~~giT~~~~~-~l~e 354 (945)
T KOG1132|consen 300 LREVSLDLIS-------------WLE---LELED--------LAKLKEILLFLEEAIDKVLLPLDDSGITRPGSP-ILYE 354 (945)
T ss_pred hhhhhhccch-------------hhh---cchHH--------HHHHHHHHHHhhhhcchhccccccccccCCCcH-HHHH
Confidence 0000000000 000 00000 000000000000000000000000000000000 0000
Q ss_pred HHhhhcccchhhhhhHHHHHHHHHHhhhcC----CCccchhHHHHHHHHHhcc-------c--------CCCe-------
Q 004910 361 ITAHAGIDQKTLRFCYERLHSLMLTLEITD----TDEFLHIQTICDFATLVGT-------Y--------TRGF------- 414 (724)
Q Consensus 361 l~~~~~~~~~~~~~~~~~l~~l~~~l~~~~----~~~~~~l~~l~~f~~~~~~-------~--------~~~~------- 414 (724)
......++..........+...+..|+... ........-+.+++..+.. . +.++
T Consensus 355 ~~~~a~~t~e~~~~i~~~~~~~v~~le~~~q~~~t~~~s~~~~~~dlld~~fs~~~~~g~~~~~~~~~~e~s~~~~~~~d 434 (945)
T KOG1132|consen 355 EFAKALITSETAEKIVDSLDIAVQHLEGEKQGTATNTGSLWCIFADLLDISFSVILQNGSFSSDASFSVEQSYSFGNHLD 434 (945)
T ss_pred HHHHhccCccccccchhhHHHHHHHhhcccccchhcccchHHHHHHHHHHHhhccccCCccccchhhhhhhhhcccccCC
Confidence 000000110000000011111111111100 0000000000011110000 0 0000
Q ss_pred ----------EEEEecCCCCCCCCCCCeEEEEecCccccchHHhhc-cCeEEEecCCCCCccchhhhhCCCCccccccce
Q 004910 415 ----------SIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDR-FQSVVITSGTLSPIDLYPRLLNFHPVVSRSFKM 483 (724)
Q Consensus 415 ----------~~~~~~~~~~~~~~~~~~l~~~~l~~s~~l~~l~~~-~~s~Il~SaTL~~~~~~~~~lg~~~~~~~~~~~ 483 (724)
-+|...... .....+.+++||++|+..|++++.+ .++||||||||+|++.|..+||++......-||
T Consensus 435 ~~~~~~~~~~~v~~~~~s~--~~~~~~vi~~wcf~p~~sf~d~~~k~vrsIiLtSGTLsP~~s~~~El~~~f~~~lEn~h 512 (945)
T KOG1132|consen 435 APHVINANLGDVWKGKSSR--KLGNYPVINFWCFSPGYSFRDLLGKGVRSIILTSGTLSPMDSFASELGLEFKIQLENPH 512 (945)
T ss_pred ccccccccccccccccccc--ccCcccceeeeecCcchhHHHHhcccceeEEEecccccCchhHHHHhCCccceeeecch
Confidence 111111110 0112356899999999999999988 999999999999999999999999877777888
Q ss_pred eecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhc
Q 004910 484 SLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQ 563 (724)
Q Consensus 484 ~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~ 563 (724)
.+.+.++++.+++.||++..+.+.|.++..++|..++++.|..+++.+|.|+|||||||.+|+++.++|+..+.|+.+.+
T Consensus 513 ii~~~qv~~~vv~~Gp~~~ql~sty~nr~~~ey~~~lg~~i~~v~rvVp~G~L~FfPSY~vmdk~~tfw~~~~~we~~~~ 592 (945)
T KOG1132|consen 513 IINKSQVWVGVVPKGPDGAQLDSTYGNRFTPEYLSELGEAILNVARVVPYGLLIFFPSYPVMDKLITFWQNRGLWERMEK 592 (945)
T ss_pred hccccceEEEeeccCCCccccccccccccCHHHHHHHHHHHHHHHhhcccceEEeccchHHHHHHHHHHHcchHHHHhhc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred CcceEEeCCCchhHHHHHHHHHHhcc--CCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHH
Q 004910 564 HKLVFIETQDVVETTLALDNYRKACD--CGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLR 641 (724)
Q Consensus 564 ~~~i~~e~~~~~~~~~~~~~f~~~~~--~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~ 641 (724)
.+++++|++...+..++++.|...+. ...|+++++||||+.+||+||.|+..|+||++|||||+..||.|.+|++|++
T Consensus 593 vk~l~vEPr~k~~f~e~m~~y~~~i~~pes~ga~~~aVcRGKVSEGlDFsD~~~RaVI~tGlPyP~~~D~~V~lK~~y~D 672 (945)
T KOG1132|consen 593 VKKLVVEPRSKSEFTEVMSRYYNAIADPESSGAVFFAVCRGKVSEGLDFSDDNGRAVIITGLPYPPVMDPRVKLKKQYLD 672 (945)
T ss_pred ccCceeccCCccchHHHHHHHHHHhhCccccceEEEEEecccccCCCCccccCCceeEEecCCCCCCCCHHHHHHHHhhh
Confidence 88999999987788899999988765 5567899999999999999999999999999999999999999999999999
Q ss_pred HhcCC--------CCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEecccCCCcccCCCchHHHh
Q 004910 642 DTFQI--------KEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILS 699 (724)
Q Consensus 642 ~~~~~--------~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~~~~~~~~lp~w~~~ 699 (724)
.+.+. .+.+||..+|.|+||||+||+|||.+|||+++|+|.||....-...+|+|++.
T Consensus 673 ~~~~~~g~~s~~lsg~eWY~~qA~RAvNQAiGRviRHR~D~Gav~l~D~Rfe~~~~~~~lskw~r~ 738 (945)
T KOG1132|consen 673 ENSSLKGAKSQLLSGQEWYSQQAYRAVNQAIGRVIRHRNDYGAVILCDDRFENADARSQLSKWIRS 738 (945)
T ss_pred hhccccccccccccchHHHHhhHHHHHHHHHHHHHhhhcccceeeEeechhhcCccccccchhhhc
Confidence 87542 37899999999999999999999999999999999999987666669999998
No 5
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=100.00 E-value=2.2e-84 Score=747.89 Aligned_cols=617 Identities=18% Similarity=0.169 Sum_probs=410.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHh-----CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH-HH
Q 004910 14 YDNIYPEQYSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-EL 87 (724)
Q Consensus 14 ~~~~r~~Q~e~~~~v~~~l~~-----~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~-el 87 (724)
|+ +||+|.+||.+|.++|.+ +++++||||||||||+|||+||+.||... ++ ||||||+|++||+|+++ |+
T Consensus 24 ~e-~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~--~k-~vVIST~T~~LQeQL~~kDl 99 (697)
T PRK11747 24 FI-PRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAE--KK-KLVISTATVALQEQLVSKDL 99 (697)
T ss_pred CC-cCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHc--CC-eEEEEcCCHHHHHHHHhhhh
Confidence 77 599999999999999998 48999999999999999999999999865 57 99999999999999987 89
Q ss_pred HhhhhhcccCCCCCCceEEEEecCccc-cccchHhhhccC----chh-----------HHHHH--H-HhhhhHHHhhhhc
Q 004910 88 KLLHNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAEN----RDS-----------VDAAC--R-KRTASWVRALAAE 148 (724)
Q Consensus 88 ~~l~~~~~~~~~~~~~~~~~~l~gr~~-~C~~~~~~~~~~----~~~-----------~~~~c--~-~l~~~w~~~~~~~ 148 (724)
+.+.++ .+.+++++++|||+| +|++++...... .+. ..... . .+...|..+|++|
T Consensus 100 P~l~~~------l~~~~~~~llKGr~nYlCl~r~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~t~tG 173 (697)
T PRK11747 100 PLLLKI------SGLDFKFTLAKGRGRYVCPRKLAALASDEGTQQDLLLFLDDELTPPDEEEQKLLARLAKALATGKWDG 173 (697)
T ss_pred hHHHHH------cCCCceEEEEcCccccccHHHHHHHhccccccchhhhhccccccCCCHHHHHHHHHHHHHHhcCCCcC
Confidence 988765 367899999999999 999998764321 110 01111 1 2222355568889
Q ss_pred CCCCCCCcCcccchhhhhcCCCCCCCCCHH-HHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCC-
Q 004910 149 NPNIETCEFFENYEKAASAAVLPPGVYTLQ-DLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQ- 226 (724)
Q Consensus 149 ~~d~~~c~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~- 226 (724)
|.+ .++.-. -...|. ...++.+ |+...|++++.|||+.+|+.+++|||||+||+||+.+...+ ....+|
T Consensus 174 D~d--el~~~~-~~~~w~-----~v~~~~~~C~~~~Cp~~~~Cf~~~ar~~a~~AdivVtNH~LLladl~~~-~~~iLp~ 244 (697)
T PRK11747 174 DRD--HWPEPI-DDSLWQ-----RITTDKHSCLGRNCPYFRECPFFKARREIDEADVVVANHDLVLADLELG-GGVVLPD 244 (697)
T ss_pred cHh--hCcCCC-cHHHHH-----HhhcCccccCCCCCCCCccChHHHHHHHHhhCCEEEECcHHHHhhhhcc-CCcccCC
Confidence 764 332211 011111 1122333 33567999999999999999999999999999999765321 122455
Q ss_pred -CCcEEEEeCCCCchHHhhhhcceeecHHHHHHHHHHHHHHHHHHHH-hh-----h-cchhHHHHHHHHHHHHHHhcCCC
Q 004910 227 -KESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIER-FK-----A-TDAGRLRAEYNRLVEGLALRGNL 298 (724)
Q Consensus 227 -~~~~lIiDEAHnL~~~~~~~~s~~ls~~~l~~~~~~l~~~~~~~~~-~~-----~-~~~~~l~~~~~~l~~~l~~~~~~ 298 (724)
+++++||||||||+++|.++++.++|...+..+++.+.+....+.. +. . .....+...+..++..+......
T Consensus 245 ~~~~~lViDEAH~L~d~A~~~~~~~~s~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 324 (697)
T PRK11747 245 PENLLYVLDEGHHLPDVARDHFAASAELKGTADWLEKLLKLLTKLVALIMEPPLALPERLNAHCEELRELLASLNQILNL 324 (697)
T ss_pred CCCCEEEEECccchHHHHHHHhhhhccHHHHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4889999999999999999999999998887776666442111110 00 0 00011111122222222110000
Q ss_pred ccccccccCCCCCchhhhhccCcchh-chHHHHHHHHHHHHHHH---hhhccccccccChhHHHHHHHhhhcccchhhhh
Q 004910 299 PIADAWLSNPALPSDILKEAVPGNIR-RAEHFLHVLRRLVQYLR---GRLETENVEKEGPVSFVASITAHAGIDQKTLRF 374 (724)
Q Consensus 299 ~~~~~~~~~~~l~~~~~~~~~~~~i~-~~~~~~~~l~~l~~~l~---~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 374 (724)
.... ........ +....++..+. ....+...+..+...+. +.+.......+....-...+ ...+..
T Consensus 325 ~~~~-~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~~l~~~~~~~~~~~~~~~~~-------~~~l~~ 394 (697)
T PRK11747 325 FLPA-GGEEARYR--FEMGELPEELLELAERLAKLTEKLLGLLEKLLNDLSEAMKTGKIDIVRLERL-------LLELGR 394 (697)
T ss_pred hccc-cccccccc--ccCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccchhhHHHH-------HHHHHH
Confidence 0000 00000000 00000000000 01112222222211111 10000000000000000000 001111
Q ss_pred hHHHHHHHHHHhhhcCCCccchhHHHHHHHHHhcccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccc-hHHhhccCe
Q 004910 375 CYERLHSLMLTLEITDTDEFLHIQTICDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFDRFQS 453 (724)
Q Consensus 375 ~~~~l~~l~~~l~~~~~~~~~~l~~l~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~l-~~l~~~~~s 453 (724)
+..++..+.+.+. .|..........++.|++.... .......++..|+|++..+ +.+|++.++
T Consensus 395 ~~~~l~~~~~~l~--------------~~~~~~~~~~~~~v~Wie~~~~--~~~~~~~l~~~Pl~~~~~l~~~l~~~~~~ 458 (697)
T PRK11747 395 ALGRLEALSKLWR--------------LAAKEDQESGAPMARWITREER--DGQGDYLFHASPIRVGDQLERLLWSRAPG 458 (697)
T ss_pred HHHHHHHHHHHHH--------------HHhcccccCCCCceEEEEeccC--CCCceEEEEEecCCHHHHHHHHHHhhCCE
Confidence 2223322222221 1111000011145788876531 1123567999999999999 789999999
Q ss_pred EEEecCCCCCcc---chhhhhCCCC---ccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHH
Q 004910 454 VVITSGTLSPID---LYPRLLNFHP---VVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEM 527 (724)
Q Consensus 454 ~Il~SaTL~~~~---~~~~~lg~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~ 527 (724)
+|||||||++.+ +|.+.+|+++ .....++.+|+.++...+++++. . ++.+++++|.+.+++.|.++
T Consensus 459 vIltSATL~~~~~f~~~~~~lGL~~~~~~~~~~~~SpF~~~~q~~l~vp~~-----~---~~p~~~~~~~~~~~~~i~~l 530 (697)
T PRK11747 459 AVLTSATLRSLNSFDRFQEQSGLPEKDGDRFLALPSPFDYPNQGKLVIPKM-----R---AEPDNEEAHTAEMAEFLPEL 530 (697)
T ss_pred EEEEeeeCCCCCchHHHHHHcCCCCCCCceEEEcCCCCCHHHccEEEeCCC-----C---CCCCCcHHHHHHHHHHHHHH
Confidence 999999999874 6778899974 33455666676544333455431 1 12246778999999999999
Q ss_pred hcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccc
Q 004910 528 VSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEG 607 (724)
Q Consensus 528 ~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EG 607 (724)
+. .+||+|||||||+.|+++++.|... ...+|++|+.+ +...++++|++.++.++++||||+ |+||||
T Consensus 531 ~~-~~gg~LVlFtSy~~l~~v~~~l~~~-------~~~~ll~Q~~~--~~~~ll~~f~~~~~~~~~~VL~g~--~sf~EG 598 (697)
T PRK11747 531 LE-KHKGSLVLFASRRQMQKVADLLPRD-------LRLMLLVQGDQ--PRQRLLEKHKKRVDEGEGSVLFGL--QSFAEG 598 (697)
T ss_pred Hh-cCCCEEEEeCcHHHHHHHHHHHHHh-------cCCcEEEeCCc--hHHHHHHHHHHHhccCCCeEEEEe--cccccc
Confidence 99 8999999999999999999998742 12468998753 568899999998877889999998 899999
Q ss_pred ccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEecccCCC
Q 004910 608 IDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRH 687 (724)
Q Consensus 608 iD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~~~ 687 (724)
|||||+.|++|||+|||||+|+||.++++.+|++++++++|.++++|+|+++++||+||+||+++|+|+|+|+|+|+.++
T Consensus 599 VD~pGd~l~~vII~kLPF~~p~dp~~~ar~~~~~~~g~~~F~~~~lP~A~~kl~Qg~GRlIRs~~D~G~i~ilD~R~~~~ 678 (697)
T PRK11747 599 LDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLKSRGGNPFMEISVPDASFKLIQAVGRLIRSEQDRGRVTILDRRLLTK 678 (697)
T ss_pred ccCCCCceEEEEEEcCCCCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHhccccccCCceEEEEEEcccccch
Confidence 99999999999999999999999999999999999988888888999999999999999999999999999999999998
Q ss_pred ccc----CCCch
Q 004910 688 DKR----SKLPG 695 (724)
Q Consensus 688 ~~~----~~lp~ 695 (724)
.|+ ++||+
T Consensus 679 ~Yg~~~l~sLP~ 690 (697)
T PRK11747 679 RYGKRLLDALPP 690 (697)
T ss_pred hHHHHHHHhCCC
Confidence 875 78886
No 6
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=2.6e-82 Score=752.61 Aligned_cols=635 Identities=15% Similarity=0.165 Sum_probs=420.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH-HHHhhhh
Q 004910 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-ELKLLHN 92 (724)
Q Consensus 14 ~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~-el~~l~~ 92 (724)
|+ +||+|.+||..|.++|.+++++++|||||||||+|||+|++.||... ++ ||||||+|++||+|+++ |++.|.+
T Consensus 256 ~e-~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~--~~-~vvIsT~T~~LQ~Ql~~kDiP~L~~ 331 (928)
T PRK08074 256 YE-KREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKK--EE-PVVISTYTIQLQQQLLEKDIPLLQK 331 (928)
T ss_pred Cc-CCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhcc--CC-eEEEEcCCHHHHHHHHHhhHHHHHH
Confidence 66 59999999999999999999999999999999999999999988654 57 99999999999999988 7888765
Q ss_pred hcccCCCCCCceEEEEecCccc-cccchHhhhccCc--hhHHHHHHHhhhhHHHhhhhcCCC-CC----CCcCcccchhh
Q 004910 93 YQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENR--DSVDAACRKRTASWVRALAAENPN-IE----TCEFFENYEKA 164 (724)
Q Consensus 93 ~~~~~~~~~~~~~~~~l~gr~~-~C~~~~~~~~~~~--~~~~~~c~~l~~~w~~~~~~~~~d-~~----~c~~~~~~~~~ 164 (724)
+ .+.+++++++|||+| +|++++....... ......++..+..|+.+|++||++ ++ ...+|+.+
T Consensus 332 ~------~~~~~~~~~lKGr~nYlcl~k~~~~l~~~~~~~~~~~~~~~ll~Wl~~T~tGD~dEl~~~~~~~~~w~~i--- 402 (928)
T PRK08074 332 I------FPFPVEAALLKGRSHYLCLRKFEQALQEEDDNYDVALTKAQLLVWLTETETGDLDELNLPSGGKLLWNRI--- 402 (928)
T ss_pred H------cCCCceEEEEEcccccccHHHHHHHHhccCCCHHHHHHHHHHHHHHccCCCCCHHHccCCCCCcchHHHh---
Confidence 4 367899999999999 9999987644211 111112333456799999999865 11 12223222
Q ss_pred hhcCCCCCCCCCHH-HHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCchHHh
Q 004910 165 ASAAVLPPGVYTLQ-DLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVC 243 (724)
Q Consensus 165 ~~~~~~~~~~~~~~-~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~~~~ 243 (724)
.++.+ |+...|++++.|||+++|+.+++||||||||+||+++...+ ...+|+++++||||||||+++|
T Consensus 403 ---------~~~~~~c~~~~cp~~~~Cf~~~ar~~a~~AdivItNHalLl~dl~~~--~~ilp~~~~lViDEAH~l~d~A 471 (928)
T PRK08074 403 ---------ASDGESDGGKQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDLTSE--EPLLPSYEHIIIDEAHHFEEAA 471 (928)
T ss_pred ---------hccCcccCCCCCCcccccHHHHHHHHHhcCCEEEECHHHHHHHHhhh--cccCCCCCeEEEECCchHHHHH
Confidence 12222 34567999999999999999999999999999999765332 1347899999999999999999
Q ss_pred hhhcceeecHHHHHHHHHHHHHHH-----HHHHHhh-hc-------------chhHHHHHHHHHHHHHHhcCCCcccccc
Q 004910 244 IEALSVSVRRQTLEGATRNLSRIN-----QEIERFK-AT-------------DAGRLRAEYNRLVEGLALRGNLPIADAW 304 (724)
Q Consensus 244 ~~~~s~~ls~~~l~~~~~~l~~~~-----~~~~~~~-~~-------------~~~~l~~~~~~l~~~l~~~~~~~~~~~~ 304 (724)
.++++.++|...+..+++.+.... ..+.... .. ....+......++..+........
T Consensus 472 ~~~~~~~~s~~~~~~~l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~---- 547 (928)
T PRK08074 472 SRHLGEQFSYMSFQLLLSRLGTLEEDGLLSKLAKLFKKSDQASRSSFRDLDESLKELKFEADELFQMLRSFVLKRK---- 547 (928)
T ss_pred HHHhcceecHHHHHHHHHHHhhhccccHHHHHHHHHhhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc----
Confidence 999999999998888776654211 0010000 00 000111111111111110000000
Q ss_pred ccCCCCCchhhhhccCcc---hhchHHHHHHHHHHHHHHHhhhccccccccChhHHHHHHHhhhcccchhhhhhHHHHHH
Q 004910 305 LSNPALPSDILKEAVPGN---IRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHS 381 (724)
Q Consensus 305 ~~~~~l~~~~~~~~~~~~---i~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~ 381 (724)
-.+.... .. ..+... -.........+.++...+....... ......+.+. ...........+ .
T Consensus 548 ~~~~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l-------~~~~~~l~~~---~~~~~~~~~~~~-~ 613 (928)
T PRK08074 548 KQEQNGR--LI-YRYNTESEKGKLWDAITELANRLCYDLRDLLTLL-------EAQKKELQEK---MESESAFLTGEY-A 613 (928)
T ss_pred ccccccc--ce-eecccccccchhhHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhhh---hhhhhhhHHHHH-H
Confidence 0000000 00 000000 0000011111111111111000000 0000000000 000000000000 1
Q ss_pred HHHHhhhcCCCccchhHHHHHHHHHhcccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccc-hHHhhccCeEEEecCC
Q 004910 382 LMLTLEITDTDEFLHIQTICDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFDRFQSVVITSGT 460 (724)
Q Consensus 382 l~~~l~~~~~~~~~~l~~l~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~l-~~l~~~~~s~Il~SaT 460 (724)
.+..+. .....+..++....++++.|++..... ......++..|+|++..+ +.+|++++++||||||
T Consensus 614 ~~~~l~----------~~~~~l~~~~~~~~~~~v~w~e~~~~~--~~~~~~l~~~pld~~~~l~~~l~~~~~~~iltSAT 681 (928)
T PRK08074 614 HLIDLL----------EKMAQLLQLLFEEDPDYVTWIEIDAKG--AINATRLYAQPVEVAERLADEFFAKKKSVILTSAT 681 (928)
T ss_pred HHHHHH----------HHHHHHHHHHhcCCCCeEEEEEecCCC--CCceEEEEEeeccHHHHHHHHHHhcCCcEEEEeee
Confidence 111110 000111122223345678898765311 122456899999999999 6788999999999999
Q ss_pred CCCcc---chhhhhCCCCc--cccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcccCCcE
Q 004910 461 LSPID---LYPRLLNFHPV--VSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGI 535 (724)
Q Consensus 461 L~~~~---~~~~~lg~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~~~g~~ 535 (724)
|++.+ +|.+.+|++.. ....++++|+..+...+++++ +++. ..+++++.|.+.+++.|.+++..++|++
T Consensus 682 L~~~~~f~~~~~~lGl~~~~~~~~~~~SpF~~~~q~~l~vp~-----d~p~-~~~~~~~~~~~~la~~i~~l~~~~~g~~ 755 (928)
T PRK08074 682 LTVNGSFDYIIERLGLEDFYPRTLQIPSPFSYEEQAKLMIPT-----DMPP-IKDVPIEEYIEEVAAYIAKIAKATKGRM 755 (928)
T ss_pred cccCCCcHHHHHhcCCCCCCccEEEeCCCCCHHHhcEEEeec-----CCCC-CCCCChHHHHHHHHHHHHHHHHhCCCCE
Confidence 99754 67789999753 234455555532222233432 2221 2345567899999999999999999999
Q ss_pred EEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCc
Q 004910 536 VCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYG 615 (724)
Q Consensus 536 Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~ 615 (724)
|||||||+.|++|++.|.+... .....++.|+.+..+...++++|++ ++++||||+ |+|||||||||+.|
T Consensus 756 LVLFtSy~~l~~v~~~l~~~~~----~~~~~ll~Qg~~~~~r~~l~~~F~~----~~~~iLlG~--~sFwEGVD~pg~~l 825 (928)
T PRK08074 756 LVLFTSYEMLKKTYYNLKNEEE----LEGYVLLAQGVSSGSRARLTKQFQQ----FDKAILLGT--SSFWEGIDIPGDEL 825 (928)
T ss_pred EEEECCHHHHHHHHHHHhhccc----ccCceEEecCCCCCCHHHHHHHHHh----cCCeEEEec--CcccCccccCCCce
Confidence 9999999999999999976421 1123577776433467889999986 578999997 89999999999999
Q ss_pred eEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEecccCCCcccCCCch
Q 004910 616 RLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPG 695 (724)
Q Consensus 616 r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~~~~~~~~lp~ 695 (724)
++|||+|||||+|+||.++++.+|++++++++|.+|.+|+|+++++||+||+||+++|+|+|+|+|+|+.++.|++.++.
T Consensus 826 ~~viI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~v~ilD~R~~~k~Yg~~~l~ 905 (928)
T PRK08074 826 SCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRGTVFVLDRRLTTTSYGKYFLE 905 (928)
T ss_pred EEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceEEEEEecCccccchHHHHHHH
Confidence 99999999999999999999999999999888999999999999999999999999999999999999999989755544
Q ss_pred HHHhhcccccCCCCHHHHHHHHHHhc
Q 004910 696 WILSHLRDAHLNLSTDMALHIAREVG 721 (724)
Q Consensus 696 w~~~~~~~~~~~~~~~~a~~~~~~f~ 721 (724)
.+.. .... ..+.++....+.+|+
T Consensus 906 sLP~-~~~~--~~~~~~~~~~~~~~~ 928 (928)
T PRK08074 906 SLPT-VPVY--EGTLEELLEEVEEFL 928 (928)
T ss_pred hCCC-CCcc--cCCHHHHHHHHHhhC
Confidence 4433 2232 357888888888875
No 7
>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=100.00 E-value=1.3e-77 Score=710.50 Aligned_cols=592 Identities=17% Similarity=0.213 Sum_probs=417.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH-HHHhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-ELKLL 90 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~-el~~l 90 (724)
.+|+ +||+|.+||.+|.+++.+++++++|||||||||+|||+|++.++. . ++ +|||+|+|++||+|++. +++.+
T Consensus 242 ~~~~-~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~--~~-~vvi~t~t~~Lq~Ql~~~~~~~l 316 (850)
T TIGR01407 242 LGLE-YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-T--EK-PVVISTNTKVLQSQLLEKDIPLL 316 (850)
T ss_pred cCCc-cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-C--CC-eEEEEeCcHHHHHHHHHHHHHHH
Confidence 4577 599999999999999999999999999999999999999999886 2 46 99999999999999987 78887
Q ss_pred hhhcccCCCCCCceEEEEecCccc-cccchHhhhccCch-h-HHHHHHHhhhhHHHhhhhcCCCCCCCc-------Cccc
Q 004910 91 HNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRD-S-VDAACRKRTASWVRALAAENPNIETCE-------FFEN 160 (724)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~l~gr~~-~C~~~~~~~~~~~~-~-~~~~c~~l~~~w~~~~~~~~~d~~~c~-------~~~~ 160 (724)
.+. .+.++++++++||+| +|+.+......... . .....+..+..|+.+|++||++ +++ +|+.
T Consensus 317 ~~~------~~~~~~~~~~kG~~~ylcl~k~~~~l~~~~~~~~~~~~~~~~~~wl~~T~tGD~~--el~~~~~~~~~~~~ 388 (850)
T TIGR01407 317 NEI------LNFKINAALIKGKSNYLSLGKFSQILKDNTDNYEFNIFKMQVLVWLTETETGDLD--ELNLKGGNKMFFAQ 388 (850)
T ss_pred HHH------cCCCceEEEEEcchhhccHHHHHHHHhcCCCcHHHHHHHHHHHHHhccCCccCHh--hccCCCcchhhHHH
Confidence 654 255789999999999 89888765432211 1 1111222346799999999864 222 2222
Q ss_pred chhhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCch
Q 004910 161 YEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNID 240 (724)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~ 240 (724)
+. .+. ++.+.|++++.|||+.+|+.+++||||||||+||+++.... ...+|++.++||||||||+
T Consensus 389 i~------------~~~-~l~~~c~~~~~Cf~~~ar~~a~~AdivItNHa~L~~~~~~~--~~ilp~~~~lIiDEAH~L~ 453 (850)
T TIGR01407 389 VR------------HDG-NLSKKDLFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDN--PELFPSFRDLIIDEAHHLP 453 (850)
T ss_pred hh------------cCC-CCCCCCCCccccHHHHHHHHHhcCCEEEecHHHHHHHhhcc--cccCCCCCEEEEECcchHH
Confidence 11 111 44567999999999999999999999999999999876433 2236888999999999999
Q ss_pred HHhhhhcceeecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHhcCCCccccccccCCCCCchhhhhccC
Q 004910 241 NVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVP 320 (724)
Q Consensus 241 ~~~~~~~s~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 320 (724)
++|+++++.+++...+..+++.+..... ..+...+..+++...... ...+. . .
T Consensus 454 d~a~~~~~~~ls~~~~~~~l~~l~~~~~----------~~l~~~l~~~~~~~~~~~-----~~~~~---~---------~ 506 (850)
T TIGR01407 454 DIAENQLQEELDYADIKYQIDLIGKGEN----------EQLLKRIQQLEKQEILEK-----LFDFE---T---------K 506 (850)
T ss_pred HHHHHHhcceeCHHHHHHHHHHHHhhhh----------HHHHHHHHHHHHHHHHHH-----Hhhhh---h---------h
Confidence 9999999999999999888766532110 011111111111110000 00000 0 0
Q ss_pred cchhchHHHHHHHHHHHHHHHhhhccccccccChhHHHHHHHhhhcccchhhhhhHHHHHHHHHHhhhcCCCccchhHHH
Q 004910 321 GNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTI 400 (724)
Q Consensus 321 ~~i~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~l~~l 400 (724)
..+.........+..++..+.. +.+ .. ...+......+. ..+..+
T Consensus 507 ~~~~~l~~~~~~l~~~l~~~~~------------------~~~------~~----~~~l~~~~~~~~-------~~~~~l 551 (850)
T TIGR01407 507 DILKDLQAILDKLNKLLQIFSE------------------LSH------KT----VDQLRKFDLALK-------DDFKNI 551 (850)
T ss_pred hHHHHHHHHHHHHHHHHHHHHh------------------hhh------hh----HHHHHHHHHHHH-------HHHHHH
Confidence 0000011111111111100000 000 00 001111111110 001112
Q ss_pred HHHHHHhcccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccc-hHHhhccCeEEEecCCCC---CccchhhhhCCCCc
Q 004910 401 CDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFDRFQSVVITSGTLS---PIDLYPRLLNFHPV 476 (724)
Q Consensus 401 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~l-~~l~~~~~s~Il~SaTL~---~~~~~~~~lg~~~~ 476 (724)
.+++ .+....|++..... ......+++.|+|++..+ +.+|++.+++|||||||+ +.++|.+.+|++..
T Consensus 552 ~~~~------~~~~~~wi~~~~~~--~~~~~~l~~~pl~~~~~l~~~~~~~~~~~il~SATL~~~~~~~~~~~~lGl~~~ 623 (850)
T TIGR01407 552 EQSL------KEGHTSWISIENLQ--QKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTSATLKFSHSFESFPQLLGLTDV 623 (850)
T ss_pred HHHh------ccCCeEEEEecCCC--CCceEEEEeeeCcHHHHHHHHHhccCCeEEEEecccccCCChHHHHHhcCCCcc
Confidence 2222 12346677654311 112346899999999888 789999999999999999 55689999999765
Q ss_pred ccccc-ceeec-CCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhh
Q 004910 477 VSRSF-KMSLT-RDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWND 554 (724)
Q Consensus 477 ~~~~~-~~~~~-~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~ 554 (724)
....+ +++++ +++.. ++++. +++. +.+++.++|.+.+++.|.+++...+|++|||||||+.|+.+++.+..
T Consensus 624 ~~~~~~~spf~~~~~~~-l~v~~-----d~~~-~~~~~~~~~~~~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~ 696 (850)
T TIGR01407 624 HFNTIEPTPLNYAENQR-VLIPT-----DAPA-IQNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHMVYDMLNE 696 (850)
T ss_pred ccceecCCCCCHHHcCE-EEecC-----CCCC-CCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhh
Confidence 43333 45554 23333 33332 2222 23445678889999999999999999999999999999999999875
Q ss_pred cccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHH
Q 004910 555 SGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILL 634 (724)
Q Consensus 555 ~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~ 634 (724)
... ....+++.|+.+ .++..++++|++ ++++||||+ |+|||||||+|+.+++|||+|||||+|+||.++
T Consensus 697 ~~~----~~~~~~l~q~~~-~~r~~ll~~F~~----~~~~iLlgt--~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~ 765 (850)
T TIGR01407 697 LPE----FEGYEVLAQGIN-GSRAKIKKRFNN----GEKAILLGT--SSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTK 765 (850)
T ss_pred hcc----ccCceEEecCCC-ccHHHHHHHHHh----CCCeEEEEc--ceeecccccCCCceEEEEEeCCCCCCCCCHHHH
Confidence 311 112457887765 467888999986 678999997 899999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEecccCCCcccCCCchHHHhhcccccCCCCHHHHH
Q 004910 635 ARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMAL 714 (724)
Q Consensus 635 ~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~a~ 714 (724)
++.++++++++++|.+|.+|+|+++++||+||+||+++|+|+|+|+|+|+.++.|++.++.++.+..... ..+.++.+
T Consensus 766 a~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G~v~ilD~R~~~~~Yg~~~~~sLp~~~~~~--~~~~~~~~ 843 (850)
T TIGR01407 766 KYWQKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYGKRFEKSLPEYLQVK--GDILGELL 843 (850)
T ss_pred HHHHHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceEEEEEEccccccchHHHHHHHhCCCccccc--cCCHHHHH
Confidence 9999999888888888899999999999999999999999999999999999999877777776654442 34688888
Q ss_pred HHHHHhc
Q 004910 715 HIAREVG 721 (724)
Q Consensus 715 ~~~~~f~ 721 (724)
..+..|+
T Consensus 844 ~~~~~~~ 850 (850)
T TIGR01407 844 EAIKEFL 850 (850)
T ss_pred HHHHhhC
Confidence 8888875
No 8
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=4.8e-75 Score=678.15 Aligned_cols=572 Identities=15% Similarity=0.151 Sum_probs=398.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHH-HHHHhhh
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL-AELKLLH 91 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~-~el~~l~ 91 (724)
+|+ +||+|.+||.+|.++|.+++++++|||||||||+|||+|++.++ .+. +|||+|+|++||+|++ ++++.+.
T Consensus 243 ~~e-~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~----~~~-~vvI~t~T~~Lq~Ql~~~~i~~l~ 316 (820)
T PRK07246 243 GLE-ERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS----DQR-QIIVSVPTKILQDQIMAEEVKAIQ 316 (820)
T ss_pred CCc-cCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc----CCC-cEEEEeCcHHHHHHHHHHHHHHHH
Confidence 477 59999999999999999999999999999999999999988754 245 8999999999999997 5788876
Q ss_pred hhcccCCCCCCceEEEEecCccc-cccchHhhhccCc--hhHHHHHHHhhhhHHHhhhhcCCCCCCCcCcccchhhhhcC
Q 004910 92 NYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENR--DSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAA 168 (724)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~gr~~-~C~~~~~~~~~~~--~~~~~~c~~l~~~w~~~~~~~~~d~~~c~~~~~~~~~~~~~ 168 (724)
++ .++++..++|+.| +|++++....... ..........+..|+.+|+|||++ +++........|...
T Consensus 317 ~~--------~~~~~~~~kg~~~ylcl~k~~~~l~~~~~~~~~~~~~~~il~Wl~~T~tGD~~--El~~~~~~~~~w~~i 386 (820)
T PRK07246 317 EV--------FHIDCHSLKGPQNYLKLDAFYDSLQQNDDNRLVNRYKMQLLVWLTETETGDLD--EIKQKQRYAAYFDQL 386 (820)
T ss_pred Hh--------cCCcEEEEECCcccccHHHHHHHhhccCcchHHHHHHHHHHHHHhcCCCCCHh--hccCCccccHHHHHh
Confidence 53 3456789999999 9999987643211 111122233455799999999864 443321111111110
Q ss_pred CCCCCCCCHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCchHHhhhhcc
Q 004910 169 VLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALS 248 (724)
Q Consensus 169 ~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~~~~~~~~s 248 (724)
.++ .++...|++++.|+|+++|+.+++||||||||+||+++...+ ..+|+++++||||||||++++.+..+
T Consensus 387 -----~~~-~~~~~~cp~~~~cf~~~ar~~a~~AdivItNHall~~~~~~~---~~~p~~~~lIiDEAH~l~~~~~~~~~ 457 (820)
T PRK07246 387 -----KHD-GNLSQSSLFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDD---KDFARNKVLVFDEAQKLMLQLEQLSR 457 (820)
T ss_pred -----hcc-CCCCCCCCcchhhHHHHHHHHHHhCCEEEEchHHHHHHHhhc---cCCCCCCEEEEECcchhHHHHHHHhc
Confidence 011 112346999999999999999999999999999999765333 23789999999999999999887777
Q ss_pred eeecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHhcCCCccccccccCCCCCchhhhhccCcchhchHH
Q 004910 249 VSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEH 328 (724)
Q Consensus 249 ~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~ 328 (724)
..++...+...+..+.. ... ..+.. ..++.+.
T Consensus 458 ~~~~~~~~~~~l~~~~~---~~~-------~~~~~---~~~~~~~----------------------------------- 489 (820)
T PRK07246 458 HQLNITSFLQTIQKALS---GPL-------PLLQK---RLLESIS----------------------------------- 489 (820)
T ss_pred ceecHHHHHHHHHHHHH---HHH-------HHHhh---hhHHHHH-----------------------------------
Confidence 77887766644321110 000 00000 0000000
Q ss_pred HHHHHHHHHHHHHhhhccccccccChhHHHHHHHhhhcccchhhhhhHHHHHHHHHHhhhcCCCccchhHHHHHHHHHhc
Q 004910 329 FLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVG 408 (724)
Q Consensus 329 ~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~l~~l~~f~~~~~ 408 (724)
..+.++.+.+..... ... +.+ ...++...++.+.. .....+.. ++.
T Consensus 490 --~~~~~~~~~~~~~~~--------~~~----~~~-----------~l~~l~~~l~~l~~------~~~~~~~~---~~~ 535 (820)
T PRK07246 490 --FELLQLSEQFYQGKE--------RQL----IHD-----------SLSRLHQYFSELEV------AGFQELQA---FFA 535 (820)
T ss_pred --HHHHHHHHHHHhhhh--------hHH----HHH-----------HHHHHHHHHHHHHH------HHHHHHHH---HHh
Confidence 000000000000000 000 000 00111111111110 00011111 111
Q ss_pred ccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCeEEEecCCCCCc--cchhhhhCCCCccccccceeec
Q 004910 409 TYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPI--DLYPRLLNFHPVVSRSFKMSLT 486 (724)
Q Consensus 409 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~l~~l~~~~~s~Il~SaTL~~~--~~~~~~lg~~~~~~~~~~~~~~ 486 (724)
. .+ .++|++..... ......++..|++++. ++.+|++.+++|||||||+.. -+|.+.+|++.....+.+++++
T Consensus 536 ~-~~-~~~W~e~~~~~--~~~~~~l~~~pl~v~~-~~~~~~~~~~~i~tSATL~v~~~f~~~~~lGl~~~~~~~~~~~~~ 610 (820)
T PRK07246 536 T-AE-GDYWLESEKQS--EKRVTYLNSASKAFTH-FSQLLPETCKTYFVSATLQISPRVSLADLLGFEEYLFHKIEKDKK 610 (820)
T ss_pred C-CC-CeEEEEecCCC--CcceeEEEeeeCcHHH-HHHHHhcCCeEEEEecccccCCCCcHHHHcCCCccceecCCCChH
Confidence 1 11 25788765311 1112368999999975 599999999999999999743 3688899997554444554444
Q ss_pred CCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcc
Q 004910 487 RDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKL 566 (724)
Q Consensus 487 ~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~ 566 (724)
++.. ++++. +++.+ ...++++|.+.+++.|.+++ .++|++|||||||+.|+.|++.+... ..+
T Consensus 611 ~~~~--~~i~~-----~~p~~-~~~~~~~~~~~~~~~i~~~~-~~~g~~LVLFtS~~~l~~v~~~l~~~--------~~~ 673 (820)
T PRK07246 611 QDQL--VVVDQ-----DMPLV-TETSDEVYAEEIAKRLEELK-QLQQPILVLFNSKKHLLAVSDLLDQW--------QVS 673 (820)
T ss_pred HccE--EEeCC-----CCCCC-CCCChHHHHHHHHHHHHHHH-hcCCCEEEEECcHHHHHHHHHHHhhc--------CCc
Confidence 3332 23332 22222 22346788899999998888 78999999999999999999988642 245
Q ss_pred eEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCC
Q 004910 567 VFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQI 646 (724)
Q Consensus 567 i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~ 646 (724)
+++|+.+. +...++++|++ ++++||||+ ||||||||+||+.+.+|||+|||||+|+||.++++.+++++++++
T Consensus 674 ~l~Qg~~~-~~~~l~~~F~~----~~~~vLlG~--~sFwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g~~ 746 (820)
T PRK07246 674 HLAQEKNG-TAYNIKKRFDR----GEQQILLGL--GSFWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQEGKN 746 (820)
T ss_pred EEEeCCCc-cHHHHHHHHHc----CCCeEEEec--chhhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHhCCC
Confidence 78988653 45668899986 578999999 899999999998888899999999999999999999999999888
Q ss_pred CCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEecccCCCcccCCCchHHHhhcccccCCCCHHHHHHHHHHhcc
Q 004910 647 KEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALHIAREVGN 722 (724)
Q Consensus 647 ~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~a~~~~~~f~~ 722 (724)
+|.+|.+|+|+++++||+|||||+++|+|+|+|+|+|+.++.|++.+..++.+.+... ..+.++-.+.+..|..
T Consensus 747 ~F~~~~lP~A~iklkQg~GRLIRs~~D~Gvv~ilD~R~~~k~Yg~~~l~sLP~~~~~~--~~~~~~~~~~~~~f~~ 820 (820)
T PRK07246 747 PFYDYFLPMTILRLKQAIGRTMRREDQKSAVLILDRRILTKSYGKQILASLAEEFLIS--QQNFSDVLVEIDRFLI 820 (820)
T ss_pred chhheeHHHHHHHHHHHhcccccCCCCcEEEEEECCcccccHHHHHHHHhCCCCCccc--cCCHHHHHHHHHHhhC
Confidence 8999999999999999999999999999999999999999999877777777655553 3688999999999863
No 9
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=1.2e-74 Score=673.98 Aligned_cols=623 Identities=25% Similarity=0.292 Sum_probs=408.2
Q ss_pred ceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHH
Q 004910 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 7 ~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
.....||+..+||.|.+||.+|.+++.+++++++|||||||||++||+||+.|+... ++ +|+|+|+|+++|+|++++
T Consensus 6 ~~~~~~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~--~~-~viist~t~~lq~q~~~~ 82 (654)
T COG1199 6 YLAVAFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREE--GK-KVIISTRTKALQEQLLEE 82 (654)
T ss_pred hHHhhCCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHc--CC-cEEEECCCHHHHHHHHHh
Confidence 355778988899999999999999999999999999999999999999999999876 36 999999999999999998
Q ss_pred HHhhhhhcccCCCCCCceEEEEecCccc-cccchHhhhccCchhHHHHHHH-------hhhhHHHhhhhcCCCCCC-CcC
Q 004910 87 LKLLHNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAACRK-------RTASWVRALAAENPNIET-CEF 157 (724)
Q Consensus 87 l~~l~~~~~~~~~~~~~~~~~~l~gr~~-~C~~~~~~~~~~~~~~~~~c~~-------l~~~w~~~~~~~~~d~~~-c~~ 157 (724)
...+..... ....++..++||.| +|+.+.......+......|.. .+..|+.++.+++.+... +..
T Consensus 83 ~~~~~~~~~-----~~~~~~~~~kgr~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (654)
T COG1199 83 DLPIHKLLK-----KLGGKFALLKGRSNYLCLSRLERLAQLGGDDDDYLQSLALKALADLLVWLTETKTGDLRELTPKAL 157 (654)
T ss_pred hcchhhhhh-----hhhhHHHHHhccccccchHHHHHHHHccCcchhHHhhhhHHHHHHHHHHhhcCCCCChhhcccccc
Confidence 666533221 12224688999999 6666655322222222222322 145688888877643111 111
Q ss_pred cccchhhhhcCCCCCCCCCH-HHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCC
Q 004910 158 FENYEKAASAAVLPPGVYTL-QDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEA 236 (724)
Q Consensus 158 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEA 236 (724)
...... ....+. .+....|+.+..|+|+.+|+.++.||++|+||++++.....+.....+|+..++|||||
T Consensus 158 ~~~~~~--------~~~~~~~~~~~~~cp~~~~c~~~~~~~~~~~ad~vv~nh~~~~~~~~~~~~~~~~p~~~v~v~DEA 229 (654)
T COG1199 158 DDPLWT--------LVTDDKDSCLGEDCPYYTECFYFPARKEAENADLVVTNHALLLADVALEESRILLPENDVVVFDEA 229 (654)
T ss_pred ccchhh--------hhhcccccccccCCcchhhhHHHHHHHHHhhCCEEEEccHHHHhHHHhhhhhccCCcccEEEEecc
Confidence 111110 011111 12225699999999999999999999999999999987654432211578999999999
Q ss_pred CCchHHhhhhcceeecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHhcCCCccccccccCCCCCchhhh
Q 004910 237 HNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILK 316 (724)
Q Consensus 237 HnL~~~~~~~~s~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~~~~ 316 (724)
|||++.|++++|..++...|..+..++......... ...........+....+....... ..........
T Consensus 230 H~l~d~a~~~~s~~l~~~~L~~~~~~~~~~~~~~~~-~~~~~~~~~~~L~~~~~~~~~~~~--------~~~~~~~~~~- 299 (654)
T COG1199 230 HNLPDIARSALSIRLSERTLERLLKEIQALGETLEK-DLKRLEDLADRLEKALEDLRELLI--------FDVDELGNLR- 299 (654)
T ss_pred ccchHHHHHHHHHHhhHHHHHHHHHHHHHhhhhhhh-hHHHHHhhHHHHHHHHHHHHHHHh--------cchhhhhhHH-
Confidence 999999999999999999999998877765421000 000000011111111211111000 0000000000
Q ss_pred hccCcchhchHHHHHHHHHHHHHHHhhhccccccccChhHHHHHHHhhhcccchhhhhhHHHHHHHHHHhhhcCCCccch
Q 004910 317 EAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLH 396 (724)
Q Consensus 317 ~~~~~~i~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~ 396 (724)
+...... ........+..+.+.+...++. ...+...... ..+ ......+++...+
T Consensus 300 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~--~~d--~~~~~~~~~~~~~------------- 354 (654)
T COG1199 300 ERLREQL-SSEEAKEALGKLEEALLEKLKN-------LSELLGLSQN--ELD--RPTSILERLKEEL------------- 354 (654)
T ss_pred Hhccccc-hhhHHHHHHHHHHHHHHHHHHH-------HHHHHHhhhh--hcc--chhHHHHHHHHHH-------------
Confidence 0000000 0000000000000000000000 0000000000 000 0000011111111
Q ss_pred hHHHHHHHH--HhcccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCeEEEecCCCCCccchhhhhCCC
Q 004910 397 IQTICDFAT--LVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFH 474 (724)
Q Consensus 397 l~~l~~f~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~l~~l~~~~~s~Il~SaTL~~~~~~~~~lg~~ 474 (724)
..+.. .......++..|++..... ....+...|.+++...+++|++.+++|||||||+|.++|...+|+.
T Consensus 355 ----~~~~~~~~~~~~~~~~~~w~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~vl~SaTL~~~~~f~~~~~~~ 426 (654)
T COG1199 355 ----DRLLSRELLLSDDPDYSYWLEIEERE----GVLLLVLPLLVPSKLLEELFSKVASVVLTSATLSPLDSFSSLLGLL 426 (654)
T ss_pred ----HHHHhhcccccCCCCceEEEEecccc----cceeEEeecccHHHHHHHHHhhcCcEEEeeeeccCCCcHHHHHHHc
Confidence 01110 0111234678888876521 1112344555566666899999999999999999999998887765
Q ss_pred Cccccc----cceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcccCCcEEEEecChHHHHHHHH
Q 004910 475 PVVSRS----FKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIA 550 (724)
Q Consensus 475 ~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~ 550 (724)
+..... .+.+++..... ...+++.+..++++++.+.++..|.++++..+||+|||||||+.|+.+++
T Consensus 427 ~~~~~~~~~~~~spf~~~~~~---------~~~v~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~lvlF~Sy~~l~~~~~ 497 (654)
T COG1199 427 GLEEKLRFLSLPSPFNYEEQG---------QLYVPTDLPEPREPELLAKLAAYLREILKASPGGVLVLFPSYEYLKRVAE 497 (654)
T ss_pred CCccccceeccCCCCChhhcc---------eEeccccCCCCCChHHHHHHHHHHHHHHhhcCCCEEEEeccHHHHHHHHH
Confidence 432221 12222211111 12455666666667889999999999999999999999999999999999
Q ss_pred HHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCcc
Q 004910 551 TWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLS 630 (724)
Q Consensus 551 ~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~d 630 (724)
.|...... ..++.|+. .+.+.++++|++. +++ +++|++|+|||||||+|+.|++|||+|||||+|+|
T Consensus 498 ~~~~~~~~------~~v~~q~~--~~~~~~l~~f~~~---~~~--~~lv~~gsf~EGVD~~g~~l~~vvI~~lPfp~p~d 564 (654)
T COG1199 498 RLKDERST------LPVLTQGE--DEREELLEKFKAS---GEG--LILVGGGSFWEGVDFPGDALRLVVIVGLPFPNPDD 564 (654)
T ss_pred HHhhcCcc------ceeeecCC--CcHHHHHHHHHHh---cCC--eEEEeeccccCcccCCCCCeeEEEEEecCCCCCCC
Confidence 99864211 23555544 4567899999985 333 44556799999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEecccCCCcccCCCchHHHhhcccccCCCCH
Q 004910 631 KILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLST 710 (724)
Q Consensus 631 p~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~ 710 (724)
|.+++|.++.++.++++|.+|++|+|+++++||+||+||+++|+|+|+|||+|+.++.|++.||.|+...++..+.+.+.
T Consensus 565 p~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~ivllD~R~~~~~y~~~l~~~l~~~~~~~~~~~~~ 644 (654)
T COG1199 565 PLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIVLLDKRYATKRYGKLLLDSLPPFPKSKDLNPSA 644 (654)
T ss_pred HHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEEEecccchhhhHHHHHHHhCCCCcccccchhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999998887644333
No 10
>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=100.00 E-value=2.1e-70 Score=610.87 Aligned_cols=563 Identities=14% Similarity=0.115 Sum_probs=378.6
Q ss_pred HHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh-hhcccCC
Q 004910 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH-NYQTRHL 98 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~-~~~~~~~ 98 (724)
.|.+||..|.+++.+++++++|||||||||+|||+|++.|+.... ++ +|+|+|+|++||+|++++++.+. +.
T Consensus 1 ~Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~-~~-rvlIstpT~~Lq~Ql~~~l~~l~~~~----- 73 (636)
T TIGR03117 1 EQALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERP-DQ-KIAIAVPTLALMGQLWSELERLTAEG----- 73 (636)
T ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhcc-Cc-eEEEECCcHHHHHHHHHHHHHHHHhh-----
Confidence 499999999999999999999999999999999999999986432 46 99999999999999999999886 33
Q ss_pred CCCCceEEEEecCccc-cccchHhhhccCchhHHHHHHHhhhhHHHhhh----------------------hcCCCCCCC
Q 004910 99 GPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAACRKRTASWVRALA----------------------AENPNIETC 155 (724)
Q Consensus 99 ~~~~~~~~~~l~gr~~-~C~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~----------------------~~~~d~~~c 155 (724)
.+.+++++++|||+| +|.++........+. +. ...+..|+.+|+ +||.+ ..|
T Consensus 74 -l~~~i~~~~lkGr~nYlCl~rl~~~l~~~~~-~~--~~~i~~W~~~T~~~~~~~~~~~~~~~~~~~~~~~tGD~~-el~ 148 (636)
T TIGR03117 74 -LAGPVQAGFFPGSQEFVSPGALQELLDQSGY-DK--DPAVQLWIGQGGPLIHEAALIRCMSDAPTKMHWMTHDLK-AVA 148 (636)
T ss_pred -cCCCeeEEEEECCcccccHHHHHHHhcccch-hH--HHHHHHHHhcCCccccccchhccccchhhccCCCCCCHh-hcc
Confidence 245789999999999 899887664432211 11 233457999984 44322 112
Q ss_pred cCcccchhhhhcCCCCCCCCCHH-HHHHhcccCCCCchHHHHhh---hccCcEEEEcCccccCHHHHhHhhhcCCCCcEE
Q 004910 156 EFFENYEKAASAAVLPPGVYTLQ-DLRAFGKQQGWCPYFLARHM---VQFANVVVYSYQYLLDPKVAGIISKEMQKESVV 231 (724)
Q Consensus 156 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~Cpy~~~r~~---~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~l 231 (724)
...+. ... ++...|+. ..|+|+.+|+. ++.|||||+||++|+.. .+... ..+|+++++
T Consensus 149 ~~~~~---------------~~~~~~~~~~~~-~~~~~~~aR~~~~~a~~AdivItNHalL~~~-~~~~~-~iLP~~~~l 210 (636)
T TIGR03117 149 TLLNR---------------QDDVTLAIREDD-EDKRLVESREYEAEARRCRILFCTHAMLGLA-FRDKW-GLLPQPDIL 210 (636)
T ss_pred CCcCc---------------chhhhccccCCC-cccHHHHHHHHhhccccCCEEEECHHHHHHH-hhhhc-CCCCCCCEE
Confidence 11110 001 11223444 45899999999 99999999999999964 33322 357899999
Q ss_pred EEeCCCCchHHhhhhcceeecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHhcCCCccccccccCCCCC
Q 004910 232 VFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALP 311 (724)
Q Consensus 232 IiDEAHnL~~~~~~~~s~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~ 311 (724)
||||||||+++|.++++.++|...+...++.+....... ....+..++...++.+.... .+..+.
T Consensus 211 IiDEAH~L~d~A~~~~g~~ls~~~l~~~l~~l~~~~~~~------~~~~~~~~~~~~~~~l~~~~-------~~~~~~-- 275 (636)
T TIGR03117 211 IVDEAHLFEQNISRVYSNALSLRRLHLYVEKRHTGAGKG------IVSAAVAAVSHCIQRLRALD-------VFGDGQ-- 275 (636)
T ss_pred EEeCCcchHHHHHHHhccEECHHHHHHHHHHHhhcccch------hHHHHHHHHHHHHHHHHhhh-------cccccc--
Confidence 999999999999999999999998888776442110000 00011122233333332200 000000
Q ss_pred chhhhhccCcch-hchHHHHHHHHHHHHHHHhhhccccccccChhHHHHHHHhhhcccchhhhhhHHHHHHHHHHhhhcC
Q 004910 312 SDILKEAVPGNI-RRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITD 390 (724)
Q Consensus 312 ~~~~~~~~~~~i-~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~l~~~l~~~~ 390 (724)
.. .+ ... ....++...+..+.+.+.. . +. ......+..|+..+.+.+..
T Consensus 276 --~~--~~-~~~~~~l~~l~~~L~~l~~~l~~----~----~~---------------~~~~~~~~~rl~~~~~~~~~-- 325 (636)
T TIGR03117 276 --TL--CL-DAGNKELETLFADLDAALDACSV----G----RN---------------RDENKKALSVVKDVKKARFI-- 325 (636)
T ss_pred --cc--cH-HHHHHHHHHHHHHHHHHHHHHhh----c----cc---------------chHHHHHHHHHHHHHHHHHH--
Confidence 00 00 000 0011111111222211110 0 00 00111234455444433221
Q ss_pred CCccchhHHHHHHHHHhcc--cCCCeEEEEecCCCCCCCCCCCeEEEEecCccccchH-HhhccCeEEEecCCCCCc---
Q 004910 391 TDEFLHIQTICDFATLVGT--YTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKP-VFDRFQSVVITSGTLSPI--- 464 (724)
Q Consensus 391 ~~~~~~l~~l~~f~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~l~~-l~~~~~s~Il~SaTL~~~--- 464 (724)
|...... ....+++|+++.. ....++..|++++..|+. ++++.+++|||||||+..
T Consensus 326 ------------~~~~~~~~~~~~~~~~~~~~~~------~~~~L~~~Pl~va~~l~~~~~~~~~~~I~TSATL~v~~~~ 387 (636)
T TIGR03117 326 ------------LDNAITAIQGKASAVLQFSPDR------RFPSLIVGREDLGKVMGGLWKDVTHGAIIVSATLYLPDRF 387 (636)
T ss_pred ------------HhhhccccccccceEEEEecCC------CceEEEEecccHHHHHHHHHhcCCCeEEEEccccccCCcC
Confidence 1110001 1125788887643 134799999999999955 556677999999999983
Q ss_pred -----cchhhhhCCCCccccccceeec----CCceeeEEeecC-CCCcceeecccCCC------ChHHHHHHHHHHHHHh
Q 004910 465 -----DLYPRLLNFHPVVSRSFKMSLT----RDCICPMVLTRG-SDQLPVSTKFDMRS------DPGVARNYGKLLVEMV 528 (724)
Q Consensus 465 -----~~~~~~lg~~~~~~~~~~~~~~----~~~~~~~~~~~~-~~~~~l~s~f~~~~------~~~~~~~~~~~i~~~~ 528 (724)
++|++.+|++.. ....+.+|. ++....++++.. +...+-+......+ .+.|.+.+++.|.+++
T Consensus 388 ~~~~F~~f~~~lGL~~~-~l~~~SPFd~~y~~qa~~~LyvP~~~~~~lP~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 466 (636)
T TIGR03117 388 GQMSCDYLKRVLSLPLS-RLDTPSPIVAPWVRNAIPHLHVPNAKARFLRPVGKDEQGDANLQEAERTWLENVSLSTAAIL 466 (636)
T ss_pred CCcCcHHHHHhcCCCcc-ceeCCCCCCchhHhcCceEEEEcCccccCCCCCCCCcccchhhhcchhhHHHHHHHHHHHHH
Confidence 578999999743 334444444 555333455531 11111111111111 1557788999999999
Q ss_pred cccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004910 529 SIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (724)
Q Consensus 529 ~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGi 608 (724)
....||+|||||||+.|+.+++.+... + ..++++|+.+ .....++++|++.++.+.++||||+ ++|||||
T Consensus 467 ~~~~G~~lvLfTS~~~~~~~~~~l~~~-----l--~~~~l~qg~~-~~~~~l~~~f~~~~~~~~~~vL~gt--~sfweGv 536 (636)
T TIGR03117 467 RKAQGGTLVLTTAFSHISAIGQLVELG-----I--PAEIVIQSEK-NRLASAEQQFLALYANGIQPVLIAA--GGAWTGI 536 (636)
T ss_pred HHcCCCEEEEechHHHHHHHHHHHHhh-----c--CCCEEEeCCC-ccHHHHHHHHHHhhcCCCCcEEEeC--Ccccccc
Confidence 999999999999999999999998653 2 2469998854 3557799999987666778999998 7999999
Q ss_pred cC--------CCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCC--eEEEE
Q 004910 609 DF--------DRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKAD--YGMMI 678 (724)
Q Consensus 609 D~--------~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D--~g~vv 678 (724)
|+ ||+.|++|||++||||+ +||. ++.++++++++++|. ..|+|+.+++||+|||||+++| +|+|+
T Consensus 537 Dv~~~~~~p~~G~~Ls~ViI~kLPF~~-~dp~--a~~~~~~~~g~~~f~--~~p~a~i~lkQg~GRLIR~~~D~~~G~i~ 611 (636)
T TIGR03117 537 DLTHKPVSPDKDNLLTDLIITCAPFGL-NRSL--SMLKRIRKTSVRPWE--IINESLMMLRQGLGRLVRHPDMPQNRRIH 611 (636)
T ss_pred ccCCccCCCCCCCcccEEEEEeCCCCc-CChH--HHHHHHHhcCCChHh--hhHHHHHHHHHhcCceeecCCCcCceEEE
Confidence 99 79999999999999995 6887 888899888775544 4799999999999999999999 99999
Q ss_pred EEecccCCCcccCC
Q 004910 679 FADKRYSRHDKRSK 692 (724)
Q Consensus 679 llD~R~~~~~~~~~ 692 (724)
|||+| .++.|+..
T Consensus 612 ilD~R-~~~~yg~~ 624 (636)
T TIGR03117 612 MLDGR-IHWPYMES 624 (636)
T ss_pred EEeCC-CCchhHHH
Confidence 99999 55556643
No 11
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=100.00 E-value=1.1e-45 Score=383.96 Aligned_cols=260 Identities=48% Similarity=0.785 Sum_probs=207.9
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCC--CceEEEEccchhhHHHHHHH
Q 004910 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 9 ~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~--~~~vvi~T~T~~l~~Q~~~e 86 (724)
++.|||++ ||+|.+||++|.+++.+++++++|||||||||++||+|++.|+...+.. +.+|+|+|+|+++++|.+.+
T Consensus 2 ~~~FPy~~-r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~ 80 (289)
T smart00488 2 LFYFPYEP-YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEE 80 (289)
T ss_pred cccCCCCC-CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHH
Confidence 68899996 9999999999999999999999999999999999999999998865431 12799999999999999999
Q ss_pred HHhhhhh---------------cccCCCCCCceEEEEecCccccccchHhhhccCch-hHHHHHHHhhhhHHHhhhhcCC
Q 004910 87 LKLLHNY---------------QTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRD-SVDAACRKRTASWVRALAAENP 150 (724)
Q Consensus 87 l~~l~~~---------------~~~~~~~~~~~~~~~l~gr~~~C~~~~~~~~~~~~-~~~~~c~~l~~~w~~~~~~~~~ 150 (724)
++++... ..+....+.++++++|+||+++|+++.+....... ..++.|..+...|...+...+.
T Consensus 81 l~~~~~~~~~~~~~t~sq~~q~~~el~~~~~~~~~~~l~sR~~lCin~~v~~~~~~~~~~~~~C~~l~~~~~~~~~~~~~ 160 (289)
T smart00488 81 LRKLMQKVEYESDEESEKQAQLLHELGREKPKVLGLSLTSRKNLCLNPEVRTLKQNGLVVDEVCRSLTASKARKYRYENP 160 (289)
T ss_pred HHhcccccceecccchhHHHHHHHHHhccCCCcceeEeechhhcCCChHHhhcccccchHHHHHHHHHhhcccccccccc
Confidence 9876310 00000014578899999999999999887543222 2346799887767665421112
Q ss_pred CCCCCcCcccchhhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcE
Q 004910 151 NIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (724)
Q Consensus 151 d~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~ 230 (724)
+...|+|+++............+++|++++.+.|..++.|||+.+|+.+++|||||+||+|||++.++..++..+ +..+
T Consensus 161 ~~~~c~~~~~~~~~~~~~~~~~~~~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l-~~~~ 239 (289)
T smart00488 161 KVERCPFYENTEFLLVRDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIEL-KDSI 239 (289)
T ss_pred CCCCCCccchhhhhhhhhhcccCCCCHHHHHHhcccCCCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhcccc-cccE
Confidence 457899998764322212234578999999999999999999999999999999999999999998776554444 6899
Q ss_pred EEEeCCCCchHHhhhhcceeecHHHHHHHHHHHHHHHHHH
Q 004910 231 VVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEI 270 (724)
Q Consensus 231 lIiDEAHnL~~~~~~~~s~~ls~~~l~~~~~~l~~~~~~~ 270 (724)
|||||||||+++|++++|.+++...|..+.+++.++...+
T Consensus 240 lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~ 279 (289)
T smart00488 240 VIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERI 279 (289)
T ss_pred EEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999888875443
No 12
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=100.00 E-value=1.1e-45 Score=383.96 Aligned_cols=260 Identities=48% Similarity=0.785 Sum_probs=207.9
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCC--CceEEEEccchhhHHHHHHH
Q 004910 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 9 ~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~--~~~vvi~T~T~~l~~Q~~~e 86 (724)
++.|||++ ||+|.+||++|.+++.+++++++|||||||||++||+|++.|+...+.. +.+|+|+|+|+++++|.+.+
T Consensus 2 ~~~FPy~~-r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~ 80 (289)
T smart00489 2 LFYFPYEP-YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEE 80 (289)
T ss_pred cccCCCCC-CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHH
Confidence 68899996 9999999999999999999999999999999999999999998865431 12799999999999999999
Q ss_pred HHhhhhh---------------cccCCCCCCceEEEEecCccccccchHhhhccCch-hHHHHHHHhhhhHHHhhhhcCC
Q 004910 87 LKLLHNY---------------QTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRD-SVDAACRKRTASWVRALAAENP 150 (724)
Q Consensus 87 l~~l~~~---------------~~~~~~~~~~~~~~~l~gr~~~C~~~~~~~~~~~~-~~~~~c~~l~~~w~~~~~~~~~ 150 (724)
++++... ..+....+.++++++|+||+++|+++.+....... ..++.|..+...|...+...+.
T Consensus 81 l~~~~~~~~~~~~~t~sq~~q~~~el~~~~~~~~~~~l~sR~~lCin~~v~~~~~~~~~~~~~C~~l~~~~~~~~~~~~~ 160 (289)
T smart00489 81 LRKLMQKVEYESDEESEKQAQLLHELGREKPKVLGLSLTSRKNLCLNPEVRTLKQNGLVVDEVCRSLTASKARKYRYENP 160 (289)
T ss_pred HHhcccccceecccchhHHHHHHHHHhccCCCcceeEeechhhcCCChHHhhcccccchHHHHHHHHHhhcccccccccc
Confidence 9876310 00000014578899999999999999887543222 2346799887767665421112
Q ss_pred CCCCCcCcccchhhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcE
Q 004910 151 NIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (724)
Q Consensus 151 d~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~ 230 (724)
+...|+|+++............+++|++++.+.|..++.|||+.+|+.+++|||||+||+|||++.++..++..+ +..+
T Consensus 161 ~~~~c~~~~~~~~~~~~~~~~~~~~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l-~~~~ 239 (289)
T smart00489 161 KVERCPFYENTEFLLVRDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIEL-KDSI 239 (289)
T ss_pred CCCCCCccchhhhhhhhhhcccCCCCHHHHHHhcccCCCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhcccc-cccE
Confidence 457899998764322212234578999999999999999999999999999999999999999998776554444 6899
Q ss_pred EEEeCCCCchHHhhhhcceeecHHHHHHHHHHHHHHHHHH
Q 004910 231 VVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEI 270 (724)
Q Consensus 231 lIiDEAHnL~~~~~~~~s~~ls~~~l~~~~~~l~~~~~~~ 270 (724)
|||||||||+++|++++|.+++...|..+.+++.++...+
T Consensus 240 lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~ 279 (289)
T smart00489 240 VIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERI 279 (289)
T ss_pred EEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999888875443
No 13
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=100.00 E-value=1.2e-40 Score=318.91 Aligned_cols=167 Identities=31% Similarity=0.566 Sum_probs=135.2
Q ss_pred HHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCc
Q 004910 524 LVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGK 603 (724)
Q Consensus 524 i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~ 603 (724)
|.++++.+|||+|||||||+.|+.+.+.|++... ....++|.|+. .+...++++|++ ++++||+||+||+
T Consensus 1 i~~l~~~~~g~~lv~f~Sy~~l~~~~~~~~~~~~----~~~~~v~~q~~--~~~~~~l~~~~~----~~~~il~~v~~g~ 70 (167)
T PF13307_consen 1 ILELISAVPGGVLVFFPSYRRLEKVYERLKERLE----EKGIPVFVQGS--KSRDELLEEFKR----GEGAILLAVAGGS 70 (167)
T ss_dssp HHHHHHCCSSEEEEEESSHHHHHHHHTT-TSS-E-----ETSCEEESTC--CHHHHHHHHHCC----SSSEEEEEETTSC
T ss_pred ChHHHhcCCCCEEEEeCCHHHHHHHHHHHHhhcc----cccceeeecCc--chHHHHHHHHHh----ccCeEEEEEeccc
Confidence 5678889999999999999999999999987632 12357898853 467888999986 6889999999999
Q ss_pred ccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEecc
Q 004910 604 VAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKR 683 (724)
Q Consensus 604 ~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R 683 (724)
|||||||+|+.||+|||+|||||+|+||.++++++|++++++.++.+||.++|+++++||+||+|||++|+|+|+|+|+|
T Consensus 71 ~~EGiD~~~~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~llD~R 150 (167)
T PF13307_consen 71 FSEGIDFPGDLLRAVIIVGLPFPPPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKLKQAIGRLIRSEDDYGVIILLDSR 150 (167)
T ss_dssp CGSSS--ECESEEEEEEES-----TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHHHHHHHCC--STT-EEEEEEESGG
T ss_pred EEEeecCCCchhheeeecCCCCCCCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHHhhhcCcceeccCCcEEEEEEcCc
Confidence 99999999999999999999999999999999999999999888899999999999999999999999999999999999
Q ss_pred cCCCcccCCCchHHHhh
Q 004910 684 YSRHDKRSKLPGWILSH 700 (724)
Q Consensus 684 ~~~~~~~~~lp~w~~~~ 700 (724)
|.++.|++.||+|++++
T Consensus 151 ~~~~~y~~~l~~~l~~~ 167 (167)
T PF13307_consen 151 FLSKRYGKYLPKWLPPY 167 (167)
T ss_dssp GGGHHHHHH-T------
T ss_pred cccchhhhcCccccccC
Confidence 99988999999999863
No 14
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=100.00 E-value=6.5e-35 Score=269.26 Aligned_cols=140 Identities=46% Similarity=0.805 Sum_probs=126.1
Q ss_pred hHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEE
Q 004910 542 YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMF 621 (724)
Q Consensus 542 y~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~ 621 (724)
|+.|+++++.|++.+.+ ...++||+|+++..+...++++|++..+.+ ++|||||+||+|||||||+|+.||+|||+
T Consensus 1 y~~m~~v~~~~~~~~~~---~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~-g~iL~~v~~G~~~EGiD~~g~~~r~vii~ 76 (142)
T smart00491 1 YRYLEQVVEYWKENGIL---EINKPVFIEGKDSGETEELLEKYSAACEAR-GALLLAVARGKVSEGIDFPDDLGRAVIIV 76 (142)
T ss_pred ChHHHHHHHHHHhcCcc---ccCceEEEECCCCchHHHHHHHHHHhcCCC-CEEEEEEeCCeeecceecCCCccEEEEEE
Confidence 68899999999976543 224679999988666678999999865444 79999999999999999999999999999
Q ss_pred ccCCCCCccHHHHHHHHHHHHhc-CCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEecccC
Q 004910 622 GVPFQYTLSKILLARLEYLRDTF-QIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYS 685 (724)
Q Consensus 622 glPfp~~~dp~~~~~~~~l~~~~-~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~ 685 (724)
|||||+|+||.++++.+|+++.+ +.++.+||.++|+++++||+||+|||++|||+|+|+|+||.
T Consensus 77 glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~Qa~GR~iR~~~D~g~i~l~D~R~~ 141 (142)
T smart00491 77 GIPFPNPDSPILRARLEYLDEKGGIRPFDEVYLFDAMRALAQAIGRAIRHKNDYGVVVLLDKRYA 141 (142)
T ss_pred ecCCCCCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHhCccccCccceEEEEEEecccc
Confidence 99999999999999999999887 56778899999999999999999999999999999999986
No 15
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=100.00 E-value=1.1e-32 Score=253.93 Aligned_cols=139 Identities=41% Similarity=0.684 Sum_probs=125.7
Q ss_pred hHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEE
Q 004910 542 YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMF 621 (724)
Q Consensus 542 y~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~ 621 (724)
|+.|+++++.|.+.+.+.++.++++||+|+.+..+...++++|++. .+++|||||+ +|||||||+|+.||+|||+
T Consensus 1 y~~m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~---~~~~iL~~~~--~~~EGiD~~g~~~r~vii~ 75 (141)
T smart00492 1 YQYMESFVQYWKENGILENINKNLLLLVQGEDGKETGKLLEKYVEA---CENAILLATA--RFSEGVDFPGDYLRAVIID 75 (141)
T ss_pred CHHHHHHHHHHHHcCchhhHhcCCeEEEeCCChhHHHHHHHHHHHc---CCCEEEEEcc--ceecceecCCCCeeEEEEE
Confidence 6889999999999988888888899999998766678899999974 3358999996 4999999999999999999
Q ss_pred ccCCCCCccHHHHHHHHHHHHhc-CCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEecccC
Q 004910 622 GVPFQYTLSKILLARLEYLRDTF-QIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYS 685 (724)
Q Consensus 622 glPfp~~~dp~~~~~~~~l~~~~-~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~ 685 (724)
|||||+|+||.++++.+|+++.+ +.++..++.|+|+++++||+||+|||++|+|+|+|+|+|+.
T Consensus 76 glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~l~D~R~~ 140 (141)
T smart00492 76 GLPFPYPDSPILKARLELLRDKGQIRPFDFVSLPDAMRTLAQCVGRLIRGANDYGVVVIADKRFA 140 (141)
T ss_pred ecCCCCCCCHHHHHHHHHHHHhCCCCchhHHHHHHHHHHHHHHhCccccCcCceEEEEEEecccc
Confidence 99999999999999999999887 45566667899999999999999999999999999999986
No 16
>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=99.96 E-value=5.8e-30 Score=247.58 Aligned_cols=173 Identities=31% Similarity=0.663 Sum_probs=129.3
Q ss_pred EEccchhhHHHHHHHHHhhhhhcccCCCCCCceEEEEecCccccccchHhhhccCchhHHHHHHHhhhhHHHhhhhcCCC
Q 004910 72 YCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPN 151 (724)
Q Consensus 72 i~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~~C~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~d 151 (724)
|+||||+|++|+++||+++..+.+. +.++++++|+||+++|+++.+.....+..+++.|..+...|...
T Consensus 1 y~~RThsQl~q~i~El~~~~~~~~~----~~~~~~~~l~gR~~~C~~~~v~~~~~~~~~~~~C~~l~~~~~~~------- 69 (174)
T PF06733_consen 1 YASRTHSQLSQVIRELKKINKYRPK----GESIKAVILKGRQNLCINSKVKRLANNEDINEFCRELRKSGKRK------- 69 (174)
T ss_dssp EEESSHHHHHHHHHHHCCHCCCS-----------EEEE--CCCC-TTCHHHTT-SHHHHHHHHHHHHHHHHCT-------
T ss_pred CCCcCHHHHHHHHHHHHHHHhhccc----ccceeeeEeccccccccCchhhhhhhhhhHHHHHHHhhcccccc-------
Confidence 7999999999999999998654321 45789999999999999998887666677888998876544321
Q ss_pred CCCCcCcccchhhhh-cCCCCCCCCCHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcE
Q 004910 152 IETCEFFENYEKAAS-AAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (724)
Q Consensus 152 ~~~c~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~ 230 (724)
..|+|+.+...... .......++|++++.+.|+..+.||||.+|+.+.+|||||+||+|||++.++..+....++..+
T Consensus 70 -~~C~~~~~~~~~~~~~~~~~~~~~d~~~l~~~~~~~~~CPY~~~r~~~~~adivi~~y~yl~~~~~~~~~~~~~~~~~i 148 (174)
T PF06733_consen 70 -ESCPYYNNFDEIEELSDLSNEEVWDIEELVEIGKKHGVCPYYLARELAKNADIVICNYNYLFDPSIRKSLFGIDLKDNI 148 (174)
T ss_dssp -CCSTTTTGGGG-HHHHHHHCHCHHHHHHHHHHHHHCT--HHHHHHHCGGG-SEEEEETHHHHSHHHHHHHCT--CCCEE
T ss_pred -cccchhHHHHhHHHhhhhcccccccHHHHHHhcCCCCCChhHHHHHhcccCCEEEeCHHHHhhHHHHhhhccccccCcE
Confidence 47999977532111 1123457889999999999999999999999999999999999999999887665423358899
Q ss_pred EEEeCCCCchHHhhhhcceeecHHHH
Q 004910 231 VVFDEAHNIDNVCIEALSVSVRRQTL 256 (724)
Q Consensus 231 lIiDEAHnL~~~~~~~~s~~ls~~~l 256 (724)
|||||||||+++|++++|.+|+..+|
T Consensus 149 vI~DEAHNL~~~~~~~~s~~is~~~L 174 (174)
T PF06733_consen 149 VIFDEAHNLEDAARDSFSFSISESQL 174 (174)
T ss_dssp EEETTGGGCGGGCHCCC-EEEEHHHH
T ss_pred EEEecccchHHHHHHHhcceechhhC
Confidence 99999999999999999999998765
No 17
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.77 E-value=1.4e-16 Score=177.33 Aligned_cols=76 Identities=24% Similarity=0.189 Sum_probs=63.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC---CCCceEEEEccchhhHHHHHHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---ENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~---~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
.+|..|+|.|.+.+..+. +++.+++.||||+|||++|++|++.+....+ .+..+++|.+||.+|..|+.+.+.
T Consensus 19 ~g~~~p~~iQ~~ai~~~~----~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~ 94 (434)
T PRK11192 19 KGYTRPTAIQAEAIPPAL----DGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQAR 94 (434)
T ss_pred CCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHH
Confidence 688989999999887766 5788999999999999999999997754321 112389999999999999999888
Q ss_pred hhh
Q 004910 89 LLH 91 (724)
Q Consensus 89 ~l~ 91 (724)
.+.
T Consensus 95 ~l~ 97 (434)
T PRK11192 95 ELA 97 (434)
T ss_pred HHH
Confidence 764
No 18
>PTZ00110 helicase; Provisional
Probab=99.76 E-value=2.5e-16 Score=178.65 Aligned_cols=75 Identities=17% Similarity=0.130 Sum_probs=62.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-----CCCceEEEEccchhhHHHHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~-----~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
.+|+.|+|.|.+.+..+. +++.+++.||||+|||++|++|++......+ .+. .++|.+||++|..|+.++
T Consensus 148 ~g~~~pt~iQ~~aip~~l----~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp-~~LIL~PTreLa~Qi~~~ 222 (545)
T PTZ00110 148 AGFTEPTPIQVQGWPIAL----SGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGP-IVLVLAPTRELAEQIREQ 222 (545)
T ss_pred CCCCCCCHHHHHHHHHHh----cCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCc-EEEEECChHHHHHHHHHH
Confidence 478889999999876654 6889999999999999999999987654321 234 799999999999999998
Q ss_pred HHhhh
Q 004910 87 LKLLH 91 (724)
Q Consensus 87 l~~l~ 91 (724)
++.+.
T Consensus 223 ~~~~~ 227 (545)
T PTZ00110 223 CNKFG 227 (545)
T ss_pred HHHHh
Confidence 88763
No 19
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.75 E-value=3.9e-16 Score=174.91 Aligned_cols=75 Identities=19% Similarity=0.159 Sum_probs=64.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
.+|+.|+|.|.+.+..+. +++++++.||||+|||++|++|++.......... +++|.+||.+|..|+.++++.+.
T Consensus 22 ~g~~~~t~iQ~~ai~~~l----~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~-~~lil~PtreLa~Q~~~~~~~~~ 96 (460)
T PRK11776 22 LGYTEMTPIQAQSLPAIL----AGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRV-QALVLCPTRELADQVAKEIRRLA 96 (460)
T ss_pred CCCCCCCHHHHHHHHHHh----cCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCc-eEEEEeCCHHHHHHHHHHHHHHH
Confidence 578889999999887665 6889999999999999999999988764433233 79999999999999999988874
No 20
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.75 E-value=6.6e-16 Score=172.47 Aligned_cols=77 Identities=17% Similarity=0.158 Sum_probs=63.6
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCC-----CCceEEEEccchhhHHHHHH
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-----NPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~-----~~~~vvi~T~T~~l~~Q~~~ 85 (724)
.++|..|+|.|.+.+..+. +++.+++.||||+|||++|++|++........ ...+++|.+||++|..|+.+
T Consensus 18 ~~g~~~pt~iQ~~ai~~il----~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~ 93 (456)
T PRK10590 18 EQGYREPTPIQQQAIPAVL----EGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGE 93 (456)
T ss_pred HCCCCCCCHHHHHHHHHHh----CCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHH
Confidence 3678889999999887665 57899999999999999999999877543211 11379999999999999999
Q ss_pred HHHhhh
Q 004910 86 ELKLLH 91 (724)
Q Consensus 86 el~~l~ 91 (724)
+++.+.
T Consensus 94 ~~~~~~ 99 (456)
T PRK10590 94 NVRDYS 99 (456)
T ss_pred HHHHHh
Confidence 988764
No 21
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.74 E-value=9.4e-16 Score=174.61 Aligned_cols=76 Identities=22% Similarity=0.240 Sum_probs=63.5
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-------CCCceEEEEccchhhHHHH
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-------ENPVKLIYCTRTVHEMEKT 83 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~-------~~~~~vvi~T~T~~l~~Q~ 83 (724)
.++|..|+|.|.+.+..+. +++.+++.||||+|||++|++|++......+ ... +++|.+||++|..|+
T Consensus 26 ~~g~~~ptpiQ~~~ip~~l----~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~-raLIl~PTreLa~Qi 100 (572)
T PRK04537 26 SAGFTRCTPIQALTLPVAL----PGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDP-RALILAPTRELAIQI 100 (572)
T ss_pred HCCCCCCCHHHHHHHHHHh----CCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCc-eEEEEeCcHHHHHHH
Confidence 3689989999999887655 7899999999999999999999987653211 124 899999999999999
Q ss_pred HHHHHhhh
Q 004910 84 LAELKLLH 91 (724)
Q Consensus 84 ~~el~~l~ 91 (724)
.+++..+.
T Consensus 101 ~~~~~~l~ 108 (572)
T PRK04537 101 HKDAVKFG 108 (572)
T ss_pred HHHHHHHh
Confidence 99988764
No 22
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.74 E-value=4.7e-16 Score=172.32 Aligned_cols=76 Identities=26% Similarity=0.260 Sum_probs=63.5
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-------CCCceEEEEccchhhHHHH
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-------ENPVKLIYCTRTVHEMEKT 83 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~-------~~~~~vvi~T~T~~l~~Q~ 83 (724)
.++|..|+|.|.+.+..+. +|+.+++.||||+|||++|++|++......+ .+. +++|.+||++|..|+
T Consensus 25 ~~g~~~pt~iQ~~aip~il----~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~-~~lil~PtreLa~Qi 99 (423)
T PRK04837 25 KKGFHNCTPIQALALPLTL----AGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQP-RALIMAPTRELAVQI 99 (423)
T ss_pred HCCCCCCCHHHHHHHHHHh----CCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCc-eEEEECCcHHHHHHH
Confidence 3688889999999887654 7899999999999999999999987654321 124 899999999999999
Q ss_pred HHHHHhhh
Q 004910 84 LAELKLLH 91 (724)
Q Consensus 84 ~~el~~l~ 91 (724)
.+++..+.
T Consensus 100 ~~~~~~l~ 107 (423)
T PRK04837 100 HADAEPLA 107 (423)
T ss_pred HHHHHHHh
Confidence 99888774
No 23
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.73 E-value=1.6e-15 Score=170.49 Aligned_cols=75 Identities=23% Similarity=0.227 Sum_probs=63.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCC-------CCceEEEEccchhhHHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-------NPVKLIYCTRTVHEMEKTL 84 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~-------~~~~vvi~T~T~~l~~Q~~ 84 (724)
++|..++|.|.+.+..+. +|+++++.||||+|||++|++|++......+. .. +++|.+||++|..|+.
T Consensus 105 ~g~~~~~~iQ~~ai~~~~----~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~-~aLil~PtreLa~Q~~ 179 (475)
T PRK01297 105 LGFPYCTPIQAQVLGYTL----AGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEP-RALIIAPTRELVVQIA 179 (475)
T ss_pred CCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCc-eEEEEeCcHHHHHHHH
Confidence 788889999999887654 78999999999999999999999876544321 23 8999999999999999
Q ss_pred HHHHhhh
Q 004910 85 AELKLLH 91 (724)
Q Consensus 85 ~el~~l~ 91 (724)
++++.+.
T Consensus 180 ~~~~~l~ 186 (475)
T PRK01297 180 KDAAALT 186 (475)
T ss_pred HHHHHhh
Confidence 9888764
No 24
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.72 E-value=2.6e-15 Score=169.86 Aligned_cols=75 Identities=24% Similarity=0.190 Sum_probs=62.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC-------CCCCceEEEEccchhhHHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-------PENPVKLIYCTRTVHEMEKTL 84 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~-------~~~~~~vvi~T~T~~l~~Q~~ 84 (724)
.+|..|+|.|.+.+..+. +|+++++.||||+|||++|++|++...... ..+. +++|.+||++|..|+.
T Consensus 139 ~g~~~ptpiQ~~aip~il----~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~-~aLIL~PTreLa~Qi~ 213 (518)
T PLN00206 139 AGYEFPTPIQMQAIPAAL----SGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNP-LAMVLTPTRELCVQVE 213 (518)
T ss_pred cCCCCCCHHHHHHHHHHh----cCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCc-eEEEEeCCHHHHHHHH
Confidence 578889999999887665 689999999999999999999998765321 1234 8999999999999998
Q ss_pred HHHHhhh
Q 004910 85 AELKLLH 91 (724)
Q Consensus 85 ~el~~l~ 91 (724)
++++.+.
T Consensus 214 ~~~~~l~ 220 (518)
T PLN00206 214 DQAKVLG 220 (518)
T ss_pred HHHHHHh
Confidence 8887763
No 25
>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=99.72 E-value=3.5e-15 Score=167.15 Aligned_cols=70 Identities=20% Similarity=0.291 Sum_probs=60.3
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 9 ~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
.-.|+|..+||.|.+.+..+. +++.+++.||||+|||++|++|++.. ++ .++|.+||++|..|.++.++
T Consensus 4 ~~~~g~~~~r~~Q~~ai~~~l----~g~dvlv~apTGsGKTl~y~lp~l~~------~~-~~lVi~P~~~L~~dq~~~l~ 72 (470)
T TIGR00614 4 KTVFGLSSFRPVQLEVINAVL----LGRDCFVVMPTGGGKSLCYQLPALCS------DG-ITLVISPLISLMEDQVLQLK 72 (470)
T ss_pred HhhcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCCcHhHHHHHHHHHc------CC-cEEEEecHHHHHHHHHHHHH
Confidence 457999999999999887765 57899999999999999999998752 35 78999999999999888776
Q ss_pred h
Q 004910 89 L 89 (724)
Q Consensus 89 ~ 89 (724)
.
T Consensus 73 ~ 73 (470)
T TIGR00614 73 A 73 (470)
T ss_pred H
Confidence 4
No 26
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.71 E-value=4.1e-15 Score=170.44 Aligned_cols=77 Identities=17% Similarity=0.148 Sum_probs=64.2
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
..+|+.|+|.|.+.+..+. +++.+++.||||||||++|++|++.......... +++|.+||++|..|+.+++..+
T Consensus 23 ~~G~~~ptpiQ~~ai~~ll----~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~-~~LIL~PTreLa~Qv~~~l~~~ 97 (629)
T PRK11634 23 DLGYEKPSPIQAECIPHLL----NGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAP-QILVLAPTRELAVQVAEAMTDF 97 (629)
T ss_pred HCCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 3689989999999876654 6789999999999999999999887654333344 8999999999999999998876
Q ss_pred hh
Q 004910 91 HN 92 (724)
Q Consensus 91 ~~ 92 (724)
.+
T Consensus 98 ~~ 99 (629)
T PRK11634 98 SK 99 (629)
T ss_pred Hh
Confidence 43
No 27
>PTZ00424 helicase 45; Provisional
Probab=99.71 E-value=4.8e-15 Score=163.56 Aligned_cols=75 Identities=11% Similarity=0.038 Sum_probs=63.0
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.|+|+.|+|.|.+.+..+. +++..++.||||+|||++|++|++........+. +++|.+||++|..|+.+.+..+
T Consensus 45 ~~~~~~~~~~Q~~ai~~i~----~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~-~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 45 SYGFEKPSAIQQRGIKPIL----DGYDTIGQAQSGTGKTATFVIAALQLIDYDLNAC-QALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred HcCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCc-eEEEECCCHHHHHHHHHHHHHH
Confidence 3688889999999887765 6788999999999999999999988765333345 8999999999999988877665
No 28
>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=99.69 E-value=1.7e-14 Score=168.66 Aligned_cols=73 Identities=18% Similarity=0.171 Sum_probs=63.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.+|+.|||.|.+.+..+. +|+++++.||||+|||++|++|++......+ +. +++|.+||++|..|+.+.++.+
T Consensus 32 ~g~~~p~~~Q~~ai~~il----~G~nvvv~apTGSGKTla~~LPiL~~l~~~~-~~-~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 32 AGIHRPWQHQARAAELAH----AGRHVVVATGTASGKSLAYQLPVLSALADDP-RA-TALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred cCCCcCCHHHHHHHHHHH----CCCCEEEECCCCCcHHHHHHHHHHHHHhhCC-Cc-EEEEEcChHHHHHHHHHHHHHh
Confidence 468888999999877654 7899999999999999999999998775443 34 8999999999999999988876
No 29
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.67 E-value=2.5e-14 Score=170.45 Aligned_cols=73 Identities=21% Similarity=0.259 Sum_probs=58.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-----CCCceEEEEccchhhHHHHHHHH
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~-----~~~~~vvi~T~T~~l~~Q~~~el 87 (724)
.|..|+|.|.+.+..+ .+|+++++.||||+|||++|++|++....... ..+.+++|.+||++|..|+.+.+
T Consensus 29 ~~~~~tpiQ~~Ai~~i----l~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L 104 (876)
T PRK13767 29 KFGTFTPPQRYAIPLI----HEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNL 104 (876)
T ss_pred ccCCCCHHHHHHHHHH----HcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHH
Confidence 3566899999988765 46889999999999999999999987654311 11237999999999999998865
Q ss_pred Hh
Q 004910 88 KL 89 (724)
Q Consensus 88 ~~ 89 (724)
..
T Consensus 105 ~~ 106 (876)
T PRK13767 105 EE 106 (876)
T ss_pred HH
Confidence 54
No 30
>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=99.66 E-value=5.5e-14 Score=162.17 Aligned_cols=70 Identities=20% Similarity=0.289 Sum_probs=60.1
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 9 ~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
.-.|+|..+||.|.+.+..+. +|+.+++.||||+|||++|++|++.. ++ .++|.+||++++.|.++.++
T Consensus 6 ~~~fg~~~fr~~Q~~~i~~il----~g~dvlv~~PTG~GKTl~y~lpal~~------~g-~~lVisPl~sL~~dq~~~l~ 74 (591)
T TIGR01389 6 KRTFGYDDFRPGQEEIISHVL----DGRDVLVVMPTGGGKSLCYQVPALLL------KG-LTVVISPLISLMKDQVDQLR 74 (591)
T ss_pred HHhcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCccHhHHHHHHHHHc------CC-cEEEEcCCHHHHHHHHHHHH
Confidence 346999999999999888776 67899999999999999999998852 34 67888999999999888776
Q ss_pred h
Q 004910 89 L 89 (724)
Q Consensus 89 ~ 89 (724)
.
T Consensus 75 ~ 75 (591)
T TIGR01389 75 A 75 (591)
T ss_pred H
Confidence 5
No 31
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.65 E-value=7e-14 Score=160.98 Aligned_cols=69 Identities=20% Similarity=0.313 Sum_probs=60.0
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 10 ~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
-.|+|..+||.|.+.+..+. +++.+++.||||+|||++|++|++.. ++ .++|.+||++|..|.++.++.
T Consensus 19 ~~fG~~~~r~~Q~~ai~~il----~g~dvlv~apTGsGKTl~y~lpal~~------~g-~tlVisPl~sL~~dqv~~l~~ 87 (607)
T PRK11057 19 ETFGYQQFRPGQQEIIDAVL----SGRDCLVVMPTGGGKSLCYQIPALVL------DG-LTLVVSPLISLMKDQVDQLLA 87 (607)
T ss_pred HHcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCchHHHHHHHHHHHc------CC-CEEEEecHHHHHHHHHHHHHH
Confidence 46999999999999888765 68899999999999999999998852 34 789999999999998887765
No 32
>PF06777 DUF1227: Protein of unknown function (DUF1227); InterPro: IPR010643 This domain represents a conserved region within a number of eukaryotic DNA repair helicases.; GO: 0005634 nucleus
Probab=99.65 E-value=1.4e-15 Score=136.65 Aligned_cols=141 Identities=56% Similarity=0.873 Sum_probs=128.9
Q ss_pred hhhcchhHHHHHHHHHHHHHHhcCCCccccccccCCCCCchhhhhccCcchhchHHHHHHHHHHHHHHHhhhcccccccc
Q 004910 273 FKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKE 352 (724)
Q Consensus 273 ~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~l~~~l~~~~~~~~~~~~ 352 (724)
++..+..+|++++.+|+++|+..+.....+.++.+|.+|++++.+.+||+|+.+++|+.++++++++++.+++...+..+
T Consensus 6 ~k~~d~~rLq~EY~rLV~GL~~~~~~~~~d~~~~npvLp~dil~eaVPGnIR~AeHFv~flkR~veylk~rlrv~~v~~e 85 (146)
T PF06777_consen 6 IKETDAQRLQDEYDRLVEGLREAEIARETDEILANPVLPDDILKEAVPGNIRRAEHFVAFLKRFVEYLKTRLRVQHVISE 85 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccccchhhcCCCCchhhhhhcCCchHHhHHHHHHHHHHHHHHHHHHhhhcceeec
Confidence 34456788999999999999987765556788899999999999999999999999999999999999999988888899
Q ss_pred ChhHHHHHHHhhhcccchhhhhhHHHHHHHHHHhhhcCCCccchhHHHHHHHHHhcccCCC
Q 004910 353 GPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVGTYTRG 413 (724)
Q Consensus 353 ~~~~~~~~l~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~l~~l~~f~~~~~~~~~~ 413 (724)
+|.+|++.+.+...++.+++++|.+||.+++.+|++.+.++|+++..+++|.+.+++|.+|
T Consensus 86 ~P~sFL~~~~~~~~id~k~LrFc~eRL~sLl~TLei~d~~df~~L~~Va~FaTLv~tY~~G 146 (146)
T PF06777_consen 86 SPLSFLQHLKDETFIDRKPLRFCSERLSSLLRTLEITDIDDFSALQLVADFATLVSTYSKG 146 (146)
T ss_pred CHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHCCCcHhhhhHHHHHHHHHHHHHHhcCC
Confidence 9999999999999999999999999999999999999889999999999999998887653
No 33
>PRK02362 ski2-like helicase; Provisional
Probab=99.63 E-value=5.4e-14 Score=165.94 Aligned_cols=72 Identities=18% Similarity=0.223 Sum_probs=61.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.+|..+||.|.+.+.. .+.+++++++.||||+|||++|++|++.... .++ +++|.+||++|..|..++++++
T Consensus 19 ~g~~~l~p~Q~~ai~~---~~~~g~nvlv~APTGSGKTlia~lail~~l~---~~~-kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 19 EGIEELYPPQAEAVEA---GLLDGKNLLAAIPTASGKTLIAELAMLKAIA---RGG-KALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred CCCCcCCHHHHHHHHH---HHhCCCcEEEECCCcchHHHHHHHHHHHHHh---cCC-cEEEEeChHHHHHHHHHHHHHh
Confidence 4678889999998754 3567899999999999999999999876553 246 8999999999999999998865
No 34
>PRK01172 ski2-like helicase; Provisional
Probab=99.61 E-value=8.1e-14 Score=163.28 Aligned_cols=70 Identities=24% Similarity=0.305 Sum_probs=59.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.+|+ +||.|.+.+..+ .+++++++.||||+|||++++.+++..... ++ +++|.+||+++..|..+++.++
T Consensus 19 ~~~~-l~~~Q~~ai~~l----~~~~nvlv~apTGSGKTl~a~lail~~l~~---~~-k~v~i~P~raLa~q~~~~~~~l 88 (674)
T PRK01172 19 NDFE-LYDHQRMAIEQL----RKGENVIVSVPTAAGKTLIAYSAIYETFLA---GL-KSIYIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred CCCC-CCHHHHHHHHHH----hcCCcEEEECCCCchHHHHHHHHHHHHHHh---CC-cEEEEechHHHHHHHHHHHHHH
Confidence 4777 699999988764 578899999999999999999887765432 45 8999999999999999998865
No 35
>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=99.61 E-value=3.7e-13 Score=159.05 Aligned_cols=79 Identities=19% Similarity=0.211 Sum_probs=67.8
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH
Q 004910 8 VTVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 8 ~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
+...|||+ ++|.|.+.+..|.+.+.++ ...++.||||+|||.+|+.|++..+.. ++ +++|.+||..|..|..+
T Consensus 444 ~~~~~~f~-~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~---g~-qvlvLvPT~~LA~Q~~~ 518 (926)
T TIGR00580 444 FEDSFPFE-ETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD---GK-QVAVLVPTTLLAQQHFE 518 (926)
T ss_pred HHHhCCCC-CCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHh---CC-eEEEEeCcHHHHHHHHH
Confidence 34569998 5999999999999988776 478999999999999999998765532 46 99999999999999999
Q ss_pred HHHhhh
Q 004910 86 ELKLLH 91 (724)
Q Consensus 86 el~~l~ 91 (724)
.++.+.
T Consensus 519 ~f~~~~ 524 (926)
T TIGR00580 519 TFKERF 524 (926)
T ss_pred HHHHHh
Confidence 988754
No 36
>PRK00254 ski2-like helicase; Provisional
Probab=99.58 E-value=3.1e-13 Score=159.10 Aligned_cols=73 Identities=21% Similarity=0.281 Sum_probs=61.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.+|..++|.|.+.+.. .+.+++++++.||||+|||++|++|++...... ++ +++|.+||++|..|..++++.+
T Consensus 19 ~g~~~l~~~Q~~ai~~---~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~--~~-~~l~l~P~~aLa~q~~~~~~~~ 91 (720)
T PRK00254 19 RGIEELYPPQAEALKS---GVLEGKNLVLAIPTASGKTLVAEIVMVNKLLRE--GG-KAVYLVPLKALAEEKYREFKDW 91 (720)
T ss_pred CCCCCCCHHHHHHHHH---HHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhc--CC-eEEEEeChHHHHHHHHHHHHHH
Confidence 5788899999997754 456789999999999999999999988765432 45 8999999999999999987764
No 37
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.58 E-value=7.7e-13 Score=154.50 Aligned_cols=68 Identities=16% Similarity=0.164 Sum_probs=56.9
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 10 ~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
..|+|..+||.|.+.+..+. .|+.+++.||||+|||++|++|++.. ++ .+||.+||++|+.+.+..+.
T Consensus 454 ~~FG~~sFRp~Q~eaI~aiL----~GrDVLVimPTGSGKSLcYQLPAL~~------~G-iTLVISPLiSLmqDQV~~L~ 521 (1195)
T PLN03137 454 KVFGNHSFRPNQREIINATM----SGYDVFVLMPTGGGKSLTYQLPALIC------PG-ITLVISPLVSLIQDQIMNLL 521 (1195)
T ss_pred HHcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCccHHHHHHHHHHHc------CC-cEEEEeCHHHHHHHHHHHHH
Confidence 46899999999999887664 78999999999999999999999852 35 79999999999875455444
No 38
>PRK09401 reverse gyrase; Reviewed
Probab=99.53 E-value=3.6e-12 Score=154.41 Aligned_cols=72 Identities=19% Similarity=0.166 Sum_probs=57.2
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.++++ |+|.|.+.+..+. .|+.+++.||||+|||..++ +.+.+... .+. +++|.+||++|..|+.+.++.+
T Consensus 76 ~~G~~-pt~iQ~~~i~~il----~g~dv~i~ApTGsGKT~f~l-~~~~~l~~--~g~-~alIL~PTreLa~Qi~~~l~~l 146 (1176)
T PRK09401 76 KTGSK-PWSLQRTWAKRLL----LGESFAIIAPTGVGKTTFGL-VMSLYLAK--KGK-KSYIIFPTRLLVEQVVEKLEKF 146 (1176)
T ss_pred hcCCC-CcHHHHHHHHHHH----CCCcEEEEcCCCCCHHHHHH-HHHHHHHh--cCC-eEEEEeccHHHHHHHHHHHHHH
Confidence 36785 6999998776654 78899999999999997544 44444433 245 9999999999999999999887
Q ss_pred h
Q 004910 91 H 91 (724)
Q Consensus 91 ~ 91 (724)
.
T Consensus 147 ~ 147 (1176)
T PRK09401 147 G 147 (1176)
T ss_pred h
Confidence 4
No 39
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.51 E-value=4.3e-12 Score=143.12 Aligned_cols=108 Identities=15% Similarity=0.154 Sum_probs=74.6
Q ss_pred ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCc-hhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004910 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (724)
Q Consensus 530 ~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~-~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGi 608 (724)
..+++++|||.+-+..+.+++.+.+.+. +...+.+... .++..+++.|+. ++..||+++. +-++||+
T Consensus 342 ~~~~~~lV~~~~~~h~~~L~~~L~~~g~-------~v~~i~G~~~~~eR~~i~~~~~~----~~~~vLvaT~-~~l~eG~ 409 (501)
T PHA02558 342 KKGENTFVMFKYVEHGKPLYEMLKKVYD-------KVYYVSGEVDTEDRNEMKKIAEG----GKGIIIVASY-GVFSTGI 409 (501)
T ss_pred hcCCCEEEEEEEHHHHHHHHHHHHHcCC-------CEEEEeCCCCHHHHHHHHHHHhC----CCCeEEEEEc-ceecccc
Confidence 3567999999999999999999887532 3344555332 344555666653 5666888753 5899999
Q ss_pred cCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEe
Q 004910 609 DFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFAD 681 (724)
Q Consensus 609 D~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD 681 (724)
|+|+ +.+||+.. |-.+ ...+.|.+||+.|-..+...+.++|
T Consensus 410 Dip~--ld~vIl~~-p~~s-----------------------------~~~~~QriGR~~R~~~~K~~~~i~D 450 (501)
T PHA02558 410 SIKN--LHHVIFAH-PSKS-----------------------------KIIVLQSIGRVLRKHGSKSIATVWD 450 (501)
T ss_pred cccc--ccEEEEec-CCcc-----------------------------hhhhhhhhhccccCCCCCceEEEEE
Confidence 9997 66777654 2111 1445699999999887776666664
No 40
>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=99.48 E-value=1.5e-11 Score=141.64 Aligned_cols=74 Identities=19% Similarity=0.244 Sum_probs=56.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCC-cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~-~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
+|+ |+|.|.+.+..+. +|+ ..++.||||||||.++.++.+.......... ++||+++|+++.+|+.+++.++.
T Consensus 13 G~~-PtpiQ~~~i~~il----~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~-rLv~~vPtReLa~Qi~~~~~~~~ 86 (844)
T TIGR02621 13 GYS-PFPWQLSLAERFV----AGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPR-RLVYVVNRRTVVDQVTEEAEKIG 86 (844)
T ss_pred CCC-CCHHHHHHHHHHH----cCCCcceEecCCCCcccHHHHHhhccccccccccc-eEEEeCchHHHHHHHHHHHHHHH
Confidence 677 7999999998765 555 7888999999999976544443322222234 78889999999999999999875
Q ss_pred h
Q 004910 92 N 92 (724)
Q Consensus 92 ~ 92 (724)
+
T Consensus 87 k 87 (844)
T TIGR02621 87 E 87 (844)
T ss_pred H
Confidence 4
No 41
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.46 E-value=2.7e-11 Score=126.53 Aligned_cols=78 Identities=17% Similarity=0.186 Sum_probs=61.7
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC--C--CCceEEEEccchhhHHHHHHH
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--E--NPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~--~--~~~~vvi~T~T~~l~~Q~~~e 86 (724)
.++|+.++|.|...+..+. +++.+++|||||+|||+|||+|.+....... . +.+-.+|.|||+.|..|+.+-
T Consensus 23 ~~GF~~mTpVQa~tIPlll----~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V 98 (567)
T KOG0345|consen 23 ESGFEKMTPVQAATIPLLL----KNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREV 98 (567)
T ss_pred hcCCcccCHHHHhhhHHHh----cCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHH
Confidence 3678888999998776554 7899999999999999999999998873221 1 113579999999999999986
Q ss_pred HHhhhh
Q 004910 87 LKLLHN 92 (724)
Q Consensus 87 l~~l~~ 92 (724)
+..+..
T Consensus 99 ~~~F~~ 104 (567)
T KOG0345|consen 99 AQPFLE 104 (567)
T ss_pred HHHHHH
Confidence 665543
No 42
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.44 E-value=5.2e-11 Score=144.08 Aligned_cols=78 Identities=14% Similarity=0.094 Sum_probs=65.8
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH
Q 004910 8 VTVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 8 ~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
....|||+ ++|.|.+.+..|...+.+. ...++.||||+|||.+|+.++..... .++ +|+|.+||..|..|+.+
T Consensus 593 ~~~~~~~~-~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~---~g~-qvlvLvPT~eLA~Q~~~ 667 (1147)
T PRK10689 593 FCDSFPFE-TTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE---NHK-QVAVLVPTTLLAQQHYD 667 (1147)
T ss_pred HHHhCCCC-CCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH---cCC-eEEEEeCcHHHHHHHHH
Confidence 34579997 5999999999999988765 57999999999999999887765432 256 99999999999999999
Q ss_pred HHHhh
Q 004910 86 ELKLL 90 (724)
Q Consensus 86 el~~l 90 (724)
.++..
T Consensus 668 ~f~~~ 672 (1147)
T PRK10689 668 NFRDR 672 (1147)
T ss_pred HHHHh
Confidence 88764
No 43
>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=99.42 E-value=1.1e-12 Score=130.53 Aligned_cols=75 Identities=19% Similarity=0.166 Sum_probs=64.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC--CCCCceEEEEccchhhHHHHHHHHHh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~--~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
+++..+++.|.+.+..+.+ +++++++||||+|||++|++|++...... ..+. +++|.+||+++..|+.+.++.
T Consensus 17 ~~~~~~~~~Q~~~~~~~~~----~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~-~viii~p~~~L~~q~~~~~~~ 91 (203)
T cd00268 17 LGFEKPTPIQARAIPPLLS----GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGP-QALILAPTRELALQIAEVARK 91 (203)
T ss_pred cCCCCCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCc-eEEEEcCCHHHHHHHHHHHHH
Confidence 6788889999999877764 88999999999999999999998877654 2345 899999999999999998887
Q ss_pred hh
Q 004910 90 LH 91 (724)
Q Consensus 90 l~ 91 (724)
+.
T Consensus 92 ~~ 93 (203)
T cd00268 92 LG 93 (203)
T ss_pred Hh
Confidence 64
No 44
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.42 E-value=2.9e-10 Score=128.33 Aligned_cols=81 Identities=19% Similarity=0.052 Sum_probs=62.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhh
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~ 92 (724)
+.. |+|.|..-+-.+. .|+ +.||.||+|||+++++|++..+. .++ .|.|.|+|..|..|..+++..+..
T Consensus 101 g~~-p~~VQ~~~~~~ll----~G~--Iae~~TGeGKTla~~lp~~~~al---~G~-~v~VvTptreLA~qdae~~~~l~~ 169 (656)
T PRK12898 101 GQR-HFDVQLMGGLALL----SGR--LAEMQTGEGKTLTATLPAGTAAL---AGL-PVHVITVNDYLAERDAELMRPLYE 169 (656)
T ss_pred CCC-CChHHHHHHHHHh----CCC--eeeeeCCCCcHHHHHHHHHHHhh---cCC-eEEEEcCcHHHHHHHHHHHHHHHh
Confidence 444 4788988665554 455 99999999999999999987654 256 999999999999999999888754
Q ss_pred hcccCCCCCCceEEEEecCc
Q 004910 93 YQTRHLGPAAKILAIGLSSR 112 (724)
Q Consensus 93 ~~~~~~~~~~~~~~~~l~gr 112 (724)
. ..+++..+.|.
T Consensus 170 ~--------lGlsv~~i~gg 181 (656)
T PRK12898 170 A--------LGLTVGCVVED 181 (656)
T ss_pred h--------cCCEEEEEeCC
Confidence 2 34555555443
No 45
>PRK14701 reverse gyrase; Provisional
Probab=99.40 E-value=8.6e-11 Score=145.64 Aligned_cols=72 Identities=14% Similarity=0.146 Sum_probs=60.7
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.++|+ |+|.|.+.+..+. +|+.+++.||||+|||+.++.+++..+. .+. +++|.+||++|..|+.+.++.+
T Consensus 75 ~~G~~-pt~iQ~~~i~~il----~G~d~li~APTGsGKTl~~~~~al~~~~---~g~-~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 75 ITGFE-FWSIQKTWAKRIL----RGKSFSIVAPTGMGKSTFGAFIALFLAL---KGK-KCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred hhCCC-CCHHHHHHHHHHH----cCCCEEEEEcCCCCHHHHHHHHHHHHHh---cCC-eEEEEECHHHHHHHHHHHHHHH
Confidence 47895 7999999887776 5789999999999999977777765542 245 8999999999999999999886
Q ss_pred h
Q 004910 91 H 91 (724)
Q Consensus 91 ~ 91 (724)
.
T Consensus 146 ~ 146 (1638)
T PRK14701 146 C 146 (1638)
T ss_pred H
Confidence 4
No 46
>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=99.39 E-value=9.3e-11 Score=142.43 Aligned_cols=87 Identities=23% Similarity=0.382 Sum_probs=63.8
Q ss_pred HHHHhcccCCcEEEEecCh---HHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee
Q 004910 524 LVEMVSIVPDGIVCFFVSY---SYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 600 (724)
Q Consensus 524 i~~~~~~~~g~~Lvlf~Sy---~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~ 600 (724)
+.++++..++|+|||+++. +..+.++..+.+.|+ +...+.+. .. ...+++|++ |+--||+|+.
T Consensus 318 L~~ll~~l~~~~IVFv~t~~~~~~a~~l~~~L~~~g~-------~a~~lhg~-~~--~~~l~~Fr~----G~~~vLVata 383 (1171)
T TIGR01054 318 LLEIVKKLGTGGIVYVSIDYGKEKAEEIAEFLENHGV-------KAVAYHAT-KP--KEDYEKFAE----GEIDVLIGVA 383 (1171)
T ss_pred HHHHHHHcCCCEEEEEeccccHHHHHHHHHHHHhCCc-------eEEEEeCC-CC--HHHHHHHHc----CCCCEEEEec
Confidence 3444444567999999998 999999999887643 22333332 21 467899986 6777999963
Q ss_pred --cCcccccccCCCCCceEEEEEccCC
Q 004910 601 --RGKVAEGIDFDRHYGRLVIMFGVPF 625 (724)
Q Consensus 601 --~g~~~EGiD~~~~~~r~vii~glPf 625 (724)
.|.+..|||+|+ ..|.||-.|+|-
T Consensus 384 ~~tdv~aRGIDip~-~V~~vI~~~~P~ 409 (1171)
T TIGR01054 384 SYYGTLVRGLDLPE-RVRYAVFLGVPK 409 (1171)
T ss_pred cccCcccccCCCCc-cccEEEEECCCC
Confidence 467999999997 458899999994
No 47
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.39 E-value=2.7e-10 Score=129.35 Aligned_cols=140 Identities=12% Similarity=0.094 Sum_probs=85.3
Q ss_pred chHHhhccCeEEEecCCCCCc-cchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHH
Q 004910 444 VKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGK 522 (724)
Q Consensus 444 l~~l~~~~~s~Il~SaTL~~~-~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~ 522 (724)
++.+|...+.+--|+||.... +.|.+..|++-.. +|-.-|... .+.+... +....+-+..+.+
T Consensus 333 ~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY~l~vv~---IPtnkp~~R------------~d~~d~i-~~t~~~k~~ai~~ 396 (745)
T TIGR00963 333 YQNFFRLYEKLSGMTGTAKTEEEEFEKIYNLEVVV---VPTNRPVIR------------KDLSDLV-YKTEEEKWKAVVD 396 (745)
T ss_pred HHHHHhhCchhhccCCCcHHHHHHHHHHhCCCEEE---eCCCCCeee------------eeCCCeE-EcCHHHHHHHHHH
Confidence 467888888899999999764 3666666765321 111101000 0111110 1122233345555
Q ss_pred HHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecC
Q 004910 523 LLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARG 602 (724)
Q Consensus 523 ~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g 602 (724)
.+.+.. ..+..+|||+.|...-+.+.+.+.+.++ +-....+. ....+..+..|. .+.+.|++|+ .
T Consensus 397 ~i~~~~-~~grpvLV~t~si~~se~ls~~L~~~gi-------~~~~Lna~-q~~rEa~ii~~a----g~~g~VtIAT--n 461 (745)
T TIGR00963 397 EIKERH-AKGQPVLVGTTSVEKSELLSNLLKERGI-------PHNVLNAK-NHEREAEIIAQA----GRKGAVTIAT--N 461 (745)
T ss_pred HHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHcCC-------CeEEeeCC-hHHHHHHHHHhc----CCCceEEEEe--c
Confidence 555554 3577999999999999999999987653 11222232 234455566554 4688999987 5
Q ss_pred cccccccCCCCC
Q 004910 603 KVAEGIDFDRHY 614 (724)
Q Consensus 603 ~~~EGiD~~~~~ 614 (724)
-...|+|++.+.
T Consensus 462 mAgRGtDI~l~~ 473 (745)
T TIGR00963 462 MAGRGTDIKLEE 473 (745)
T ss_pred cccCCcCCCccc
Confidence 789999999843
No 48
>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=99.38 E-value=8.5e-10 Score=126.14 Aligned_cols=68 Identities=18% Similarity=0.205 Sum_probs=54.0
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhh
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~ 92 (724)
.||.|.|++..+. +.+| .++|++||+|||++|++|++..+. .++ .|+|+|+|..|..|..+.+..+.+
T Consensus 69 lrpydVQlig~l~--l~~G--~Iaem~TGeGKTLta~Lpa~l~aL---~g~-~V~VVTpn~yLA~Rdae~m~~l~~ 136 (762)
T TIGR03714 69 MFPYDVQVLGAIV--LHQG--NIAEMKTGEGKTLTATMPLYLNAL---TGK-GAMLVTTNDYLAKRDAEEMGPVYE 136 (762)
T ss_pred CCccHHHHHHHHH--hcCC--ceeEecCCcchHHHHHHHHHHHhh---cCC-ceEEeCCCHHHHHHHHHHHHHHHh
Confidence 3677777776653 3344 699999999999999999876654 245 899999999999999998877653
No 49
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.35 E-value=4.5e-10 Score=129.58 Aligned_cols=65 Identities=22% Similarity=0.206 Sum_probs=50.6
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhh
Q 004910 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~ 92 (724)
|+.| ++..+ ++..|+ ++|+.||+|||+++++|++..+.. ++ +|.|.|+|..|..|..+.+..+.+
T Consensus 80 ~~vQ--l~~~~--~l~~G~--Iaem~TGeGKTL~a~lp~~l~al~---G~-~v~VvTpt~~LA~qd~e~~~~l~~ 144 (790)
T PRK09200 80 YDVQ--LIGAL--VLHEGN--IAEMQTGEGKTLTATMPLYLNALE---GK-GVHLITVNDYLAKRDAEEMGQVYE 144 (790)
T ss_pred chHH--HHhHH--HHcCCc--eeeecCCCcchHHHHHHHHHHHHc---CC-CeEEEeCCHHHHHHHHHHHHHHHh
Confidence 4555 44433 333444 999999999999999998866642 56 899999999999999998888754
No 50
>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=99.35 E-value=3.2e-12 Score=122.97 Aligned_cols=68 Identities=19% Similarity=0.284 Sum_probs=58.2
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
+|.|.+.+..+. +++++++.||||+|||++|+.|++...... ... +++|.+||.++.+|..++++.+.
T Consensus 1 t~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~~-~~~-~~lii~P~~~l~~q~~~~~~~~~ 68 (169)
T PF00270_consen 1 TPLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQEG-KDA-RVLIIVPTRALAEQQFERLRKFF 68 (169)
T ss_dssp -HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHTT-SSS-EEEEEESSHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhccC-CCc-eEEEEeecccccccccccccccc
Confidence 478999887776 678999999999999999999998876654 345 89999999999999999888764
No 51
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.35 E-value=2.1e-10 Score=131.51 Aligned_cols=78 Identities=17% Similarity=0.044 Sum_probs=63.7
Q ss_pred CCC--CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHH---------HHHHHHHHHhh---CCCCCceEEEEccchh
Q 004910 13 PYD--NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA---------LLSLITSYVLS---KPENPVKLIYCTRTVH 78 (724)
Q Consensus 13 p~~--~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla---------~L~~al~~~~~---~~~~~~~vvi~T~T~~ 78 (724)
||. +.++.|.++-.++...+.+++.+++.|+||+|||.+ ||.|.+..... ....+ +|++++||++
T Consensus 155 ~~~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~-~ilvt~Prre 233 (675)
T PHA02653 155 PFSKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIER-PIVLSLPRVA 233 (675)
T ss_pred ccccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCc-EEEEECcHHH
Confidence 665 579999999999999999999999999999999987 66666665432 11235 8999999999
Q ss_pred hHHHHHHHHHhhh
Q 004910 79 EMEKTLAELKLLH 91 (724)
Q Consensus 79 l~~Q~~~el~~l~ 91 (724)
+..|+..++....
T Consensus 234 La~qi~~~i~~~v 246 (675)
T PHA02653 234 LVRLHSITLLKSL 246 (675)
T ss_pred HHHHHHHHHHHHh
Confidence 9999888776543
No 52
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=99.34 E-value=6.7e-12 Score=122.29 Aligned_cols=67 Identities=28% Similarity=0.426 Sum_probs=57.7
Q ss_pred CCHHHHHHHHHHHHHHHhC---CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 17 IYPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~---~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
+||.|.+.+..+.+.+... +++++.||||+|||+.++..+.... . +++|.+||.++.+|+.+++..+
T Consensus 4 lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~------~-~~l~~~p~~~l~~Q~~~~~~~~ 73 (184)
T PF04851_consen 4 LRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA------R-KVLIVAPNISLLEQWYDEFDDF 73 (184)
T ss_dssp E-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH------C-EEEEEESSHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc------c-ceeEecCHHHHHHHHHHHHHHh
Confidence 5999999999999999876 8999999999999999886544433 3 8999999999999999998665
No 53
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=99.30 E-value=8e-10 Score=120.01 Aligned_cols=51 Identities=27% Similarity=0.293 Sum_probs=43.9
Q ss_pred EEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 38 ~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
+++.||||+|||++++.|++...... .+. +++|+.||+++..|+.+.+..+
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~-~~~-~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQ-KAD-RVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhC-CCC-eEEEEeehHHHHHHHHHHHHHH
Confidence 68999999999999999988765433 345 9999999999999999988875
No 54
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.30 E-value=5.8e-10 Score=136.07 Aligned_cols=50 Identities=18% Similarity=0.311 Sum_probs=40.8
Q ss_pred EEcCCCcchHHHHHHHHHHHHhhCC---------CCCceEEEEccchhhHHHHHHHHHh
Q 004910 40 LEMPTGTGKTIALLSLITSYVLSKP---------ENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 40 iEApTGtGKTla~L~~al~~~~~~~---------~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
|.||||+|||++|++|+|......+ .++.+++|.|||++|..|+.+.++.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 4699999999999999987654321 1124899999999999999998875
No 55
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.22 E-value=5e-11 Score=139.01 Aligned_cols=93 Identities=18% Similarity=0.153 Sum_probs=76.6
Q ss_pred ceeeeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHH
Q 004910 7 DVTVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (724)
Q Consensus 7 ~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~ 84 (724)
.+...|||+ +++.|.+.+.+|...+..+ .+.++.||||+|||++|++|++.... .+. +++|.+||..|..|..
T Consensus 253 ~~~~~l~f~-lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~---~g~-q~lilaPT~~LA~Q~~ 327 (681)
T PRK10917 253 KFLASLPFE-LTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE---AGY-QAALMAPTEILAEQHY 327 (681)
T ss_pred HHHHhCCCC-CCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH---cCC-eEEEEeccHHHHHHHH
Confidence 344578998 5999999999999988765 47899999999999999999887653 245 9999999999999999
Q ss_pred HHHHhhhhhcccCCCCCCceEEEEecCc
Q 004910 85 AELKLLHNYQTRHLGPAAKILAIGLSSR 112 (724)
Q Consensus 85 ~el~~l~~~~~~~~~~~~~~~~~~l~gr 112 (724)
+.++++.+ ..++++.++.|.
T Consensus 328 ~~l~~l~~--------~~~i~v~ll~G~ 347 (681)
T PRK10917 328 ENLKKLLE--------PLGIRVALLTGS 347 (681)
T ss_pred HHHHHHHh--------hcCcEEEEEcCC
Confidence 99998753 234667777665
No 56
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.17 E-value=1.3e-10 Score=134.49 Aligned_cols=90 Identities=18% Similarity=0.174 Sum_probs=73.5
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCC--cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHH
Q 004910 10 VYFPYDNIYPEQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 10 ~~Fp~~~~r~~Q~e~~~~v~~~l~~~~--~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el 87 (724)
..+||+ +++.|.+.+.+|...+.... +.++.||||+|||++|+.|++.... .+. +++|.+||..|..|..+.+
T Consensus 230 ~~lpf~-lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~---~g~-qvlilaPT~~LA~Q~~~~~ 304 (630)
T TIGR00643 230 ASLPFK-LTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE---AGY-QVALMAPTEILAEQHYNSL 304 (630)
T ss_pred HhCCCC-CCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH---cCC-cEEEECCHHHHHHHHHHHH
Confidence 468997 69999999999998886653 6899999999999999998876543 245 8999999999999999999
Q ss_pred HhhhhhcccCCCCCCceEEEEecCc
Q 004910 88 KLLHNYQTRHLGPAAKILAIGLSSR 112 (724)
Q Consensus 88 ~~l~~~~~~~~~~~~~~~~~~l~gr 112 (724)
+++.+ +.++++..+.|.
T Consensus 305 ~~l~~--------~~gi~v~lltg~ 321 (630)
T TIGR00643 305 RNLLA--------PLGIEVALLTGS 321 (630)
T ss_pred HHHhc--------ccCcEEEEEecC
Confidence 88753 235666666664
No 57
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.16 E-value=9.7e-11 Score=123.15 Aligned_cols=148 Identities=20% Similarity=0.295 Sum_probs=107.4
Q ss_pred CCHHHHHHHHHHHHHHHh-----CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 17 IYPEQYSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~-----~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
..|.|...+.-+...+.. .+.+++.||||+|||++|-+|.+......+-..+|.+|.+||..|..|+.+.+.++.
T Consensus 160 ~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~ 239 (620)
T KOG0350|consen 160 LFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLN 239 (620)
T ss_pred ccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhc
Confidence 357888888888888773 367999999999999999999998776655445699999999999999999999985
Q ss_pred hhcccCCCCCCceEEEEecCccccccchHhhhccCchhHHHHHHHhhhhHHHhhhhcCCCCCCCcCcccchhhhhcCCCC
Q 004910 92 NYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLP 171 (724)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~gr~~~C~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~d~~~c~~~~~~~~~~~~~~~~ 171 (724)
.+..+.++.+.|... + ....++|.
T Consensus 240 --------~~tgL~V~~~sgq~s-----l----------~~E~~qL~--------------------------------- 263 (620)
T KOG0350|consen 240 --------SGTGLAVCSLSGQNS-----L----------EDEARQLA--------------------------------- 263 (620)
T ss_pred --------cCCceEEEecccccc-----h----------HHHHHHHh---------------------------------
Confidence 356666666655432 1 11112221
Q ss_pred CCCCCHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCchHHhh
Q 004910 172 PGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCI 244 (724)
Q Consensus 172 ~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~~~~~ 244 (724)
.....| .+||+|++-.-|.|+.-.. -...|..-..+|||||+.|.+...
T Consensus 264 -------------~~~~~~----------~~DIlVaTPGRLVDHl~~~-k~f~Lk~LrfLVIDEADRll~qsf 312 (620)
T KOG0350|consen 264 -------------SDPPEC----------RIDILVATPGRLVDHLNNT-KSFDLKHLRFLVIDEADRLLDQSF 312 (620)
T ss_pred -------------cCCCcc----------ccceEEcCchHHHHhccCC-CCcchhhceEEEechHHHHHHHHH
Confidence 111223 6899999999999876321 122345667899999999999864
No 58
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.16 E-value=5.7e-09 Score=122.88 Aligned_cols=134 Identities=13% Similarity=0.136 Sum_probs=81.2
Q ss_pred HHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceE-EeCC-CchhHHHHHHHHHHhccCCCCeEE
Q 004910 519 NYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVF-IETQ-DVVETTLALDNYRKACDCGRGAVF 596 (724)
Q Consensus 519 ~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~-~e~~-~~~~~~~~~~~f~~~~~~~~~~vL 596 (724)
.+...|..++...+|.+|||+|+...++.+++.+.+.. ...-.++ ..+. ...+....++.|+ .|+..|+
T Consensus 199 ~v~~~l~~~l~~~~g~iLVFlpg~~ei~~l~~~L~~~~-----~~~~~v~~Lhg~l~~~eq~~~~~~~~----~G~rkVl 269 (812)
T PRK11664 199 AVARATAELLRQESGSLLLFLPGVGEIQRVQEQLASRV-----ASDVLLCPLYGALSLAEQQKAILPAP----AGRRKVV 269 (812)
T ss_pred HHHHHHHHHHHhCCCCEEEEcCCHHHHHHHHHHHHHhc-----cCCceEEEeeCCCCHHHHHHHhcccc----CCCeEEE
Confidence 44455666666667999999999999999999997520 0011122 2222 1123344555554 3677899
Q ss_pred EEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEE
Q 004910 597 FSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGM 676 (724)
Q Consensus 597 ~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~ 676 (724)
+++ .....|||++| ++.||=.|+|--...||.... ..| -..|.. --...|..||.=|.. -|.
T Consensus 270 vAT--nIAErsLtIp~--V~~VID~Gl~r~~~yd~~~g~--~~L-------~~~~iS---kasa~QR~GRaGR~~--~G~ 331 (812)
T PRK11664 270 LAT--NIAETSLTIEG--IRLVVDSGLERVARFDPKTGL--TRL-------VTQRIS---QASMTQRAGRAGRLE--PGI 331 (812)
T ss_pred Eec--chHHhcccccC--ceEEEECCCcccccccccCCc--cee-------EEEeec---hhhhhhhccccCCCC--CcE
Confidence 987 57888999998 678999999854322332100 000 011111 234579999998874 565
Q ss_pred EEE
Q 004910 677 MIF 679 (724)
Q Consensus 677 vvl 679 (724)
.+-
T Consensus 332 cyr 334 (812)
T PRK11664 332 CLH 334 (812)
T ss_pred EEE
Confidence 553
No 59
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.16 E-value=3.6e-09 Score=113.19 Aligned_cols=71 Identities=18% Similarity=0.181 Sum_probs=60.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
+++...|.|.- +|...|-+|.++++-++|+||||+..=++.+.-+... ++ |.+|.+|-.+|.+|=.++++.
T Consensus 213 G~~eLlPVQ~l---aVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~--g~-KmlfLvPLVALANQKy~dF~~ 283 (830)
T COG1202 213 GIEELLPVQVL---AVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSG--GK-KMLFLVPLVALANQKYEDFKE 283 (830)
T ss_pred Ccceecchhhh---hhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhC--CC-eEEEEehhHHhhcchHHHHHH
Confidence 57777899976 6778889999999999999999998877777766543 57 999999999999999998775
No 60
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=99.13 E-value=1.2e-08 Score=119.96 Aligned_cols=135 Identities=13% Similarity=0.107 Sum_probs=82.4
Q ss_pred HHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCC-CchhHHHHHHHHHHhccCCCCeEE
Q 004910 518 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVF 596 (724)
Q Consensus 518 ~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~-~~~~~~~~~~~f~~~~~~~~~~vL 596 (724)
..+...|..++...+|.+|||+|+....+.+++.+.+... .+...+...+. ...+....++.|+. |+..|+
T Consensus 195 ~~v~~~l~~~l~~~~g~iLVFlpg~~eI~~l~~~L~~~~~----~~~~v~pLHg~L~~~eq~~~~~~~~~----G~rkVl 266 (819)
T TIGR01970 195 DAVSRAVEHALASETGSILVFLPGQAEIRRVQEQLAERLD----SDVLICPLYGELSLAAQDRAIKPDPQ----GRRKVV 266 (819)
T ss_pred HHHHHHHHHHHHhcCCcEEEEECCHHHHHHHHHHHHhhcC----CCcEEEEecCCCCHHHHHHHHhhccc----CCeEEE
Confidence 3344556666666679999999999999999998875200 01111222222 12234556666653 566799
Q ss_pred EEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEE
Q 004910 597 FSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGM 676 (724)
Q Consensus 597 ~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~ 676 (724)
+++ .....|||++| ++.||=.|+|--...||.... ..| ...|.. --...|..||.=|.. .|.
T Consensus 267 VAT--nIAErgItIp~--V~~VID~Gl~r~~~yd~~~g~--~~L-------~~~~iS---kasa~QR~GRAGR~~--~G~ 328 (819)
T TIGR01970 267 LAT--NIAETSLTIEG--IRVVIDSGLARVARFDPKTGI--TRL-------ETVRIS---QASATQRAGRAGRLE--PGV 328 (819)
T ss_pred Eec--chHhhcccccC--ceEEEEcCcccccccccccCC--cee-------eEEEEC---HHHHHhhhhhcCCCC--CCE
Confidence 987 58999999998 788999999965444442100 000 011222 123568999988873 354
Q ss_pred EE
Q 004910 677 MI 678 (724)
Q Consensus 677 vv 678 (724)
.+
T Consensus 329 cy 330 (819)
T TIGR01970 329 CY 330 (819)
T ss_pred EE
Confidence 43
No 61
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.07 E-value=1.4e-08 Score=108.32 Aligned_cols=74 Identities=20% Similarity=0.189 Sum_probs=57.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC---CCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK---PENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 14 ~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~---~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
|-.++..|.+.|.- +| .|..++--|-||+|||||+|+|+|...... +..++-++|.+||+.|.-|+++-|.++
T Consensus 89 fv~~teiQ~~~Ip~---aL-~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kv 164 (758)
T KOG0343|consen 89 FVKMTEIQRDTIPM---AL-QGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKV 164 (758)
T ss_pred CccHHHHHHhhcch---hc-cCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHH
Confidence 55556777775433 33 467888899999999999999999876543 222347899999999999999999887
Q ss_pred h
Q 004910 91 H 91 (724)
Q Consensus 91 ~ 91 (724)
-
T Consensus 165 g 165 (758)
T KOG0343|consen 165 G 165 (758)
T ss_pred h
Confidence 4
No 62
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.06 E-value=9.9e-10 Score=123.88 Aligned_cols=77 Identities=23% Similarity=0.213 Sum_probs=63.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCce-EEEEccchhhHHHHHHHHHhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVK-LIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~-vvi~T~T~~l~~Q~~~el~~l 90 (724)
-+|+.|.|.|.+.+..+. .|+.++..|+||||||+||++|.+............ ++|.+||+.|..|+.++++.+
T Consensus 47 ~gf~~pt~IQ~~~IP~~l----~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~ 122 (513)
T COG0513 47 LGFEEPTPIQLAAIPLIL----AGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKL 122 (513)
T ss_pred cCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHH
Confidence 368888999999888776 569999999999999999999999986521112212 899999999999999999987
Q ss_pred hh
Q 004910 91 HN 92 (724)
Q Consensus 91 ~~ 92 (724)
..
T Consensus 123 ~~ 124 (513)
T COG0513 123 GK 124 (513)
T ss_pred Hh
Confidence 54
No 63
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.03 E-value=6.9e-10 Score=120.79 Aligned_cols=73 Identities=18% Similarity=0.103 Sum_probs=63.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhh------CCCCCceEEEEccchhhHHHHHHH
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS------KPENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~------~~~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
.|+.|.|.|.+...-+. .|+.++.-|-||+||||||++|++.+... .+.++ +|+|.+||+.|..|+-.+
T Consensus 110 g~~~PtpIQaq~wp~~l----~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P-~vLVL~PTRELA~QV~~~ 184 (519)
T KOG0331|consen 110 GFEKPTPIQAQGWPIAL----SGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGP-IVLVLAPTRELAVQVQAE 184 (519)
T ss_pred CCCCCchhhhcccceec----cCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCC-eEEEEcCcHHHHHHHHHH
Confidence 57778999999876665 68999999999999999999999999876 22345 899999999999999998
Q ss_pred HHhh
Q 004910 87 LKLL 90 (724)
Q Consensus 87 l~~l 90 (724)
+..+
T Consensus 185 ~~~~ 188 (519)
T KOG0331|consen 185 AREF 188 (519)
T ss_pred HHHH
Confidence 8876
No 64
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.02 E-value=8.8e-10 Score=108.16 Aligned_cols=73 Identities=26% Similarity=0.302 Sum_probs=59.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC-CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~-~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
+++..++|.|.+++..+. +. +++++.+|||+|||.+++.+++......+ .+ +++|+++|.++..|+.+++...
T Consensus 4 ~~~~~~~~~Q~~~~~~~~----~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~-~~-~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 4 FGFEPLRPYQKEAIEALL----SGLRDVILAAPTGSGKTLAALLPALEALKRGK-GK-RVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred cCCCCCCHHHHHHHHHHH----cCCCcEEEECCCCCchhHHHHHHHHHHhcccC-CC-cEEEEeCCHHHHHHHHHHHHHH
Confidence 455667999999887766 44 89999999999999998888776554332 35 8999999999999999887765
No 65
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.01 E-value=1.1e-07 Score=112.69 Aligned_cols=112 Identities=18% Similarity=0.308 Sum_probs=76.4
Q ss_pred HHHHhcc-cCCcEEEEecChHHHHHHHHHHhh-cccHHHHhcCcc-eEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee
Q 004910 524 LVEMVSI-VPDGIVCFFVSYSYMDEIIATWND-SGILKEIMQHKL-VFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 600 (724)
Q Consensus 524 i~~~~~~-~~g~~Lvlf~Sy~~l~~v~~~~~~-~~~~~~~~~~~~-i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~ 600 (724)
+.++++. .+..+|||+.+...+..+.+.++. .|+ +. +|..+.....+...++.|+.. .+...||+++
T Consensus 484 L~~~L~~~~~~KvLVF~~~~~t~~~L~~~L~~~~Gi-------~~~~ihG~~s~~eR~~~~~~F~~~--~~~~~VLIsT- 553 (956)
T PRK04914 484 LIDFLKSHRSEKVLVICAKAATALQLEQALREREGI-------RAAVFHEGMSIIERDRAAAYFADE--EDGAQVLLCS- 553 (956)
T ss_pred HHHHHHhcCCCeEEEEeCcHHHHHHHHHHHhhccCe-------eEEEEECCCCHHHHHHHHHHHhcC--CCCccEEEec-
Confidence 3344443 367999999999999999999853 332 22 343333345677889999852 1234577765
Q ss_pred cCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEE
Q 004910 601 RGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMI 678 (724)
Q Consensus 601 ~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vv 678 (724)
...+||+||+. ++.||...+|.-+ ....|++||+=|-.....+.|
T Consensus 554 -dvgseGlNlq~--a~~VInfDlP~nP------------------------------~~~eQRIGR~~RiGQ~~~V~i 598 (956)
T PRK04914 554 -EIGSEGRNFQF--ASHLVLFDLPFNP------------------------------DLLEQRIGRLDRIGQKHDIQI 598 (956)
T ss_pred -hhhccCCCccc--ccEEEEecCCCCH------------------------------HHHHHHhcccccCCCCceEEE
Confidence 57899999976 5679999998642 124589999999777655433
No 66
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.99 E-value=1.9e-07 Score=108.13 Aligned_cols=137 Identities=15% Similarity=0.145 Sum_probs=80.8
Q ss_pred cchHHhhccCeEEEecCCCCCc-cchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHH
Q 004910 443 AVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 521 (724)
Q Consensus 443 ~l~~l~~~~~s~Il~SaTL~~~-~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~ 521 (724)
.++.+|...+..--|+||.... +.|.+..|++-+. +|-.-| .+-.+.|+. -| ....+-+..+.
T Consensus 371 T~Qn~Fr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~---IPtnkp------~~R~d~~d~-----v~--~t~~~k~~av~ 434 (896)
T PRK13104 371 TFQNFFRMYNKLSGMTGTADTEAYEFQQIYNLEVVV---IPTNRS------MIRKDEADL-----VY--LTQADKFQAII 434 (896)
T ss_pred hHHHHHHhcchhccCCCCChhHHHHHHHHhCCCEEE---CCCCCC------cceecCCCe-----EE--cCHHHHHHHHH
Confidence 3477888888888999998765 3666666665321 111000 000011111 11 12233345565
Q ss_pred HHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCC-chhHHHHHHHHHHhccCCCCeEEEEee
Q 004910 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFSVA 600 (724)
Q Consensus 522 ~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~-~~~~~~~~~~f~~~~~~~~~~vL~~v~ 600 (724)
+.+.+.. ..+..+||+++|...-+.+...+++.++- ..++ .++. ..+...+.+.++ +|+|++|+
T Consensus 435 ~~i~~~~-~~g~PVLVgt~Sie~sE~ls~~L~~~gi~------h~vL-nak~~q~Ea~iia~Ag~------~G~VtIAT- 499 (896)
T PRK13104 435 EDVRECG-VRKQPVLVGTVSIEASEFLSQLLKKENIK------HQVL-NAKFHEKEAQIIAEAGR------PGAVTIAT- 499 (896)
T ss_pred HHHHHHH-hCCCCEEEEeCcHHHHHHHHHHHHHcCCC------eEee-cCCCChHHHHHHHhCCC------CCcEEEec-
Confidence 6665544 46779999999999999999999887541 1122 2222 223344445443 45799987
Q ss_pred cCcccccccCC
Q 004910 601 RGKVAEGIDFD 611 (724)
Q Consensus 601 ~g~~~EGiD~~ 611 (724)
.-...|+|+.
T Consensus 500 -NmAGRGtDI~ 509 (896)
T PRK13104 500 -NMAGRGTDIV 509 (896)
T ss_pred -cCccCCccee
Confidence 5899999996
No 67
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.90 E-value=2.1e-09 Score=110.21 Aligned_cols=88 Identities=17% Similarity=0.069 Sum_probs=74.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhh
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~ 92 (724)
.+..|.+.|.+.|..+. +|++++.-|.||+|||.||++|.+......+... .++|.|||+.|..|+-+....+
T Consensus 80 ~~~~PT~IQ~~aiP~~L----~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~-~~lVLtPtRELA~QI~e~fe~L-- 152 (476)
T KOG0330|consen 80 GWKKPTKIQSEAIPVAL----GGRDVIGLAETGSGKTGAFALPILQRLLQEPKLF-FALVLTPTRELAQQIAEQFEAL-- 152 (476)
T ss_pred CcCCCchhhhhhcchhh----CCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCc-eEEEecCcHHHHHHHHHHHHHh--
Confidence 36678999999888776 7899999999999999999999999888776554 9999999999999999887776
Q ss_pred hcccCCCCCCceEEEEecCcc
Q 004910 93 YQTRHLGPAAKILAIGLSSRK 113 (724)
Q Consensus 93 ~~~~~~~~~~~~~~~~l~gr~ 113 (724)
|.+..++++++-|..
T Consensus 153 ------g~~iglr~~~lvGG~ 167 (476)
T KOG0330|consen 153 ------GSGIGLRVAVLVGGM 167 (476)
T ss_pred ------ccccCeEEEEEecCc
Confidence 246778877776653
No 68
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.90 E-value=1.2e-06 Score=100.40 Aligned_cols=131 Identities=26% Similarity=0.381 Sum_probs=88.8
Q ss_pred CeEEEecCCCCCcc----chhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHH
Q 004910 452 QSVVITSGTLSPID----LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEM 527 (724)
Q Consensus 452 ~s~Il~SaTL~~~~----~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~ 527 (724)
...|++|||..|-+ .|...|||+.-.-. ..-+ |+ --.|... ...+.+.++
T Consensus 277 g~LvvsSATg~~rg~R~~LfReLlgFevG~~~----~~LR-NI--------------vD~y~~~-------~~~e~~~el 330 (1187)
T COG1110 277 GILVVSSATGKPRGSRLKLFRELLGFEVGSGG----EGLR-NI--------------VDIYVES-------ESLEKVVEL 330 (1187)
T ss_pred ceEEEeeccCCCCCchHHHHHHHhCCccCccc----hhhh-he--------------eeeeccC-------ccHHHHHHH
Confidence 46799999999986 67788898753210 0000 10 0111111 123445666
Q ss_pred hcccCCcEEEEecC---hHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeec--C
Q 004910 528 VSIVPDGIVCFFVS---YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR--G 602 (724)
Q Consensus 528 ~~~~~g~~Lvlf~S---y~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~--g 602 (724)
++..+.|.|||.|. .+..+.+++.++..|+.. . .+ .. ...+.++.|.+ |+=.+|+||+. |
T Consensus 331 vk~lG~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a-----~-~~-~a----~~~~~le~F~~----GeidvLVGvAsyYG 395 (1187)
T COG1110 331 VKKLGDGGLIFVPIDYGREKAEELAEYLRSHGINA-----E-LI-HA----EKEEALEDFEE----GEVDVLVGVASYYG 395 (1187)
T ss_pred HHHhCCCeEEEEEcHHhHHHHHHHHHHHHhcCceE-----E-Ee-ec----cchhhhhhhcc----CceeEEEEeccccc
Confidence 77778899999999 899999999998876521 1 22 12 12556888876 77788988863 5
Q ss_pred cccccccCCCCCceEEEEEccC
Q 004910 603 KVAEGIDFDRHYGRLVIMFGVP 624 (724)
Q Consensus 603 ~~~EGiD~~~~~~r~vii~glP 624 (724)
.+-.|+|+| +..|.+|-.|+|
T Consensus 396 ~lVRGlDLP-~rirYaIF~GvP 416 (1187)
T COG1110 396 VLVRGLDLP-HRIRYAVFYGVP 416 (1187)
T ss_pred ceeecCCch-hheeEEEEecCC
Confidence 688999999 467999999999
No 69
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.90 E-value=3.9e-09 Score=122.73 Aligned_cols=140 Identities=21% Similarity=0.187 Sum_probs=99.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhh
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~ 92 (724)
++...+|.|++...+. +.++++++|.||||+|||+..+++++.-.... +. |+||.+|+++|.++.++++.++.
T Consensus 28 ~~~el~~~qq~av~~~---~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~--~~-k~vYivPlkALa~Ek~~~~~~~~- 100 (766)
T COG1204 28 GIDELFNPQQEAVEKG---LLSDENVLISAPTGSGKTLIALLAILSTLLEG--GG-KVVYIVPLKALAEEKYEEFSRLE- 100 (766)
T ss_pred ChHHhhHHHHHHhhcc---ccCCCcEEEEcCCCCchHHHHHHHHHHHHHhc--CC-cEEEEeChHHHHHHHHHHhhhHH-
Confidence 3333588999855544 44489999999999999999999888776544 45 89999999999999999999653
Q ss_pred hcccCCCCCCceEEEEecCccccccchHhhhccCchhHHHHHHHhhhhHHHhhhhcCCCCCCCcCcccchhhhhcCCCCC
Q 004910 93 YQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPP 172 (724)
Q Consensus 93 ~~~~~~~~~~~~~~~~l~gr~~~C~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~d~~~c~~~~~~~~~~~~~~~~~ 172 (724)
...+|+....|-...|
T Consensus 101 --------~~GirV~~~TgD~~~~-------------------------------------------------------- 116 (766)
T COG1204 101 --------ELGIRVGISTGDYDLD-------------------------------------------------------- 116 (766)
T ss_pred --------hcCCEEEEecCCcccc--------------------------------------------------------
Confidence 2345665554422111
Q ss_pred CCCCHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCchHHhhhhcc
Q 004910 173 GVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALS 248 (724)
Q Consensus 173 ~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~~~~~~~~s 248 (724)
.+.+..+||||+++-=+.+ ..++... ...+.+.+||||+|-+-|.-|...-
T Consensus 117 -----------------------~~~l~~~~ViVtT~EK~Ds-l~R~~~~-~~~~V~lvViDEiH~l~d~~RG~~l 167 (766)
T COG1204 117 -----------------------DERLARYDVIVTTPEKLDS-LTRKRPS-WIEEVDLVVIDEIHLLGDRTRGPVL 167 (766)
T ss_pred -----------------------hhhhccCCEEEEchHHhhH-hhhcCcc-hhhcccEEEEeeeeecCCcccCcee
Confidence 1234567999999886643 2343221 2347889999999999998666553
No 70
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.88 E-value=4.1e-07 Score=105.18 Aligned_cols=139 Identities=14% Similarity=0.127 Sum_probs=83.3
Q ss_pred chHHhhccCeEEEecCCCCCc-cchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHH
Q 004910 444 VKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGK 522 (724)
Q Consensus 444 l~~l~~~~~s~Il~SaTL~~~-~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~ 522 (724)
++.+|...+.+--|+||.... +.|....|++-.. +|-.-| ..-.+.|+. -| ....+-...+.+
T Consensus 358 ~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY~l~vv~---IPtnkp------~~r~d~~d~-----i~--~t~~~K~~aI~~ 421 (830)
T PRK12904 358 FQNYFRMYEKLAGMTGTADTEAEEFREIYNLDVVV---IPTNRP------MIRIDHPDL-----IY--KTEKEKFDAVVE 421 (830)
T ss_pred HHHHHHhcchhcccCCCcHHHHHHHHHHhCCCEEE---cCCCCC------eeeeeCCCe-----EE--ECHHHHHHHHHH
Confidence 467888888899999999754 3566666665321 111000 000011111 11 122223445555
Q ss_pred HHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecC
Q 004910 523 LLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARG 602 (724)
Q Consensus 523 ~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g 602 (724)
.|.+.. ..+..+|||+.|...-+.+...+.+.++- -....++ ....+..+..|. .++++|++|+ .
T Consensus 422 ~I~~~~-~~grpVLIft~Si~~se~Ls~~L~~~gi~-------~~vLnak-q~eREa~Iia~A----g~~g~VtIAT--N 486 (830)
T PRK12904 422 DIKERH-KKGQPVLVGTVSIEKSELLSKLLKKAGIP-------HNVLNAK-NHEREAEIIAQA----GRPGAVTIAT--N 486 (830)
T ss_pred HHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCCc-------eEeccCc-hHHHHHHHHHhc----CCCceEEEec--c
Confidence 554443 35668999999999999999999876531 1112222 234555666665 3688999987 5
Q ss_pred cccccccCCCC
Q 004910 603 KVAEGIDFDRH 613 (724)
Q Consensus 603 ~~~EGiD~~~~ 613 (724)
-...|+|++=.
T Consensus 487 mAGRGtDI~Lg 497 (830)
T PRK12904 487 MAGRGTDIKLG 497 (830)
T ss_pred cccCCcCccCC
Confidence 89999999654
No 71
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=98.88 E-value=3.7e-09 Score=111.54 Aligned_cols=78 Identities=24% Similarity=0.253 Sum_probs=66.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC---CCCceEEEEccchhhHHHHHHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---ENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~---~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
.+|+.+++.|...+..+. .|+.+++-|-||||||+|+|+||+.+....+ ..++.|+|++||+.|.-|+..|++
T Consensus 100 ~GF~~MT~VQ~~ti~pll----~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak 175 (543)
T KOG0342|consen 100 MGFETMTPVQQKTIPPLL----EGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAK 175 (543)
T ss_pred cCccchhHHHHhhcCccC----CCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHH
Confidence 478888999998777665 6789999999999999999999999876432 223489999999999999999999
Q ss_pred hhhhh
Q 004910 89 LLHNY 93 (724)
Q Consensus 89 ~l~~~ 93 (724)
.|..+
T Consensus 176 ~Ll~~ 180 (543)
T KOG0342|consen 176 ELLKY 180 (543)
T ss_pred HHHhh
Confidence 98765
No 72
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.87 E-value=3.7e-09 Score=113.26 Aligned_cols=75 Identities=21% Similarity=0.227 Sum_probs=63.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCC-------C--CceEEEEccchhhHHHH
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-------N--PVKLIYCTRTVHEMEKT 83 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~-------~--~~~vvi~T~T~~l~~Q~ 83 (724)
.|..|+|.|+--+..|. +|+.++++||||+|||.|+|+|++.++..... + -++.+|.+||++|.+|+
T Consensus 93 ~~~~ptpvQk~sip~i~----~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi 168 (482)
T KOG0335|consen 93 GYTKPTPVQKYSIPIIS----GGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQI 168 (482)
T ss_pred cccCCCcceeeccceee----cCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHH
Confidence 56778899988776554 78899999999999999999999999886521 1 13899999999999999
Q ss_pred HHHHHhhh
Q 004910 84 LAELKLLH 91 (724)
Q Consensus 84 ~~el~~l~ 91 (724)
.+|.+++.
T Consensus 169 ~nea~k~~ 176 (482)
T KOG0335|consen 169 YNEARKFS 176 (482)
T ss_pred HHHHHhhc
Confidence 99999863
No 73
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=98.87 E-value=5.4e-07 Score=103.14 Aligned_cols=133 Identities=16% Similarity=0.146 Sum_probs=82.7
Q ss_pred HHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCC------------------Cch-hHHHH
Q 004910 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ------------------DVV-ETTLA 580 (724)
Q Consensus 520 ~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~------------------~~~-~~~~~ 580 (724)
..+.+.+.+. .+..++||.+|...--..+..+.+... ..+.+..|+-++ |+. +...+
T Consensus 338 ~~~kv~e~~~-~g~qVlvFvhsR~~Ti~tA~~l~~~a~---~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l 413 (1230)
T KOG0952|consen 338 CYDKVVEFLQ-EGHQVLVFVHSRNETIRTAKKLRERAE---TNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQL 413 (1230)
T ss_pred HHHHHHHHHH-cCCeEEEEEecChHHHHHHHHHHHHHH---hcCcccccCCChhhHHHHHHHHhhhhhcccccchhhHHH
Confidence 3344445443 567999999999988888887765421 112223333221 110 11112
Q ss_pred HHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHH
Q 004910 581 LDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQA 660 (724)
Q Consensus 581 ~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v 660 (724)
+++. +..|.-.||+++ ..+.=||++|. -+|||=|-|+-.++ ++ .|.++ ...-|
T Consensus 414 ~E~~---F~~G~i~vL~cT--aTLAwGVNLPA---~aViIKGT~~ydss-------------kg--~f~dl----gilDV 466 (1230)
T KOG0952|consen 414 VEKE---FKEGHIKVLCCT--ATLAWGVNLPA---YAVIIKGTQVYDSS-------------KG--SFVDL----GILDV 466 (1230)
T ss_pred HHHH---HhcCCceEEEec--ceeeeccCCcc---eEEEecCCcccccc-------------cC--ceeee----hHHHH
Confidence 2222 223666789877 58999999998 56899997765331 21 22333 56788
Q ss_pred HHhhcccccCC-CCeEEEEEEecc
Q 004910 661 AQCVGRVIRSK-ADYGMMIFADKR 683 (724)
Q Consensus 661 ~Q~~GR~iR~~-~D~g~vvllD~R 683 (724)
.|-+||.=|-. ++.|+.+|+-.|
T Consensus 467 lQifGRAGRPqFd~~G~giIiTt~ 490 (1230)
T KOG0952|consen 467 LQIFGRAGRPQFDSSGEGIIITTR 490 (1230)
T ss_pred HHHHhccCCCCCCCCceEEEEecc
Confidence 99999998876 678998888776
No 74
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=98.83 E-value=1.9e-08 Score=115.83 Aligned_cols=74 Identities=22% Similarity=0.251 Sum_probs=62.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC----CCCceEEEEccchhhHHHHHHHHHh
Q 004910 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 14 ~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~----~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
|..|+|.|.+++..|. +|++++|-||||+|||+|+++|++.-..... .+++.++|.||=++|-.-+.+.|+.
T Consensus 20 ~~~~t~~Q~~a~~~i~----~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~ 95 (814)
T COG1201 20 FTSLTPPQRYAIPEIH----SGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEE 95 (814)
T ss_pred cCCCCHHHHHHHHHHh----CCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 7788999999998877 8999999999999999999999998776652 2346899999999998887776666
Q ss_pred hh
Q 004910 90 LH 91 (724)
Q Consensus 90 l~ 91 (724)
..
T Consensus 96 ~~ 97 (814)
T COG1201 96 PL 97 (814)
T ss_pred HH
Confidence 53
No 75
>PRK09694 helicase Cas3; Provisional
Probab=98.83 E-value=2.3e-08 Score=117.68 Aligned_cols=87 Identities=20% Similarity=0.087 Sum_probs=62.2
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhhhcc
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQT 95 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~~~~ 95 (724)
.|||.|..+.... .+++.++||||||+|||.++|..|...+... ... +|+|+.||.+..+|+.+.+....+..
T Consensus 286 ~p~p~Q~~~~~~~----~~pgl~ileApTGsGKTEAAL~~A~~l~~~~-~~~-gi~~aLPT~Atan~m~~Rl~~~~~~~- 358 (878)
T PRK09694 286 QPRQLQTLVDALP----LQPGLTIIEAPTGSGKTEAALAYAWRLIDQG-LAD-SIIFALPTQATANAMLSRLEALASKL- 358 (878)
T ss_pred CChHHHHHHHhhc----cCCCeEEEEeCCCCCHHHHHHHHHHHHHHhC-CCC-eEEEECcHHHHHHHHHHHHHHHHHHh-
Confidence 4799999874321 2567899999999999999998876554332 235 89999999999999999887643211
Q ss_pred cCCCCCCceEEEEecCccc
Q 004910 96 RHLGPAAKILAIGLSSRKN 114 (724)
Q Consensus 96 ~~~~~~~~~~~~~l~gr~~ 114 (724)
.+ +..+.++.|+..
T Consensus 359 ----f~-~~~v~L~Hg~a~ 372 (878)
T PRK09694 359 ----FP-SPNLILAHGNSR 372 (878)
T ss_pred ----cC-CCceEeecCcch
Confidence 01 234566666653
No 76
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.79 E-value=1.5e-08 Score=107.16 Aligned_cols=77 Identities=19% Similarity=0.147 Sum_probs=64.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCC--ceEEEEccchhhHHHHHHHHHh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENP--VKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~--~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.+|..|+|.|...|.-.. -|+.++..|.||||||.||.+|.|.-..+.|.+. .||+|.+||+.|.-|+..-.++
T Consensus 199 lGy~~PTpIQ~a~IPval----lgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~q 274 (691)
T KOG0338|consen 199 LGYKKPTPIQVATIPVAL----LGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQ 274 (691)
T ss_pred cCCCCCCchhhhcccHHh----hcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHH
Confidence 588989999999875433 5789999999999999999999999988876431 2899999999999999887777
Q ss_pred hhh
Q 004910 90 LHN 92 (724)
Q Consensus 90 l~~ 92 (724)
|..
T Consensus 275 laq 277 (691)
T KOG0338|consen 275 LAQ 277 (691)
T ss_pred HHh
Confidence 643
No 77
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=98.75 E-value=4.8e-08 Score=115.35 Aligned_cols=71 Identities=20% Similarity=0.271 Sum_probs=60.0
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhh
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~ 92 (724)
.+|++|.+.+..+. +|+++||.+|||+|||.+|++|++..+...+ .. +.+|..||++|.+--.+.++++..
T Consensus 70 ~lY~HQ~~A~~~~~----~G~~vvVtTgTgSGKTe~FllPIld~~l~~~-~a-~AL~lYPtnALa~DQ~~rl~~~~~ 140 (851)
T COG1205 70 RLYSHQVDALRLIR----EGRNVVVTTGTGSGKTESFLLPILDHLLRDP-SA-RALLLYPTNALANDQAERLRELIS 140 (851)
T ss_pred cccHHHHHHHHHHH----CCCCEEEECCCCCchhHHHHHHHHHHHhhCc-Cc-cEEEEechhhhHhhHHHHHHHHHH
Confidence 37999999876655 7899999999999999999999998887664 34 789999999998877777777643
No 78
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.73 E-value=7e-08 Score=111.41 Aligned_cols=72 Identities=15% Similarity=0.133 Sum_probs=59.1
Q ss_pred CCCCC---CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 13 PYDNI---YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 13 p~~~~---r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
+|..| +|.|.+.+..+. .++..+.||+||+|||++|++|++..+.. ++ .+.|.|+|..|..|..+.+..
T Consensus 86 G~~~p~~~tp~qvQ~I~~i~----l~~gvIAeaqTGeGKTLAf~LP~l~~aL~---g~-~v~IVTpTrELA~Qdae~m~~ 157 (970)
T PRK12899 86 GYHQQWDMVPYDVQILGAIA----MHKGFITEMQTGEGKTLTAVMPLYLNALT---GK-PVHLVTVNDYLAQRDCEWVGS 157 (970)
T ss_pred cccCCCCCChHHHHHhhhhh----cCCCeEEEeCCCCChHHHHHHHHHHHHhh---cC-CeEEEeCCHHHHHHHHHHHHH
Confidence 44444 999999887766 45679999999999999999999876642 34 688999999999999998888
Q ss_pred hhh
Q 004910 90 LHN 92 (724)
Q Consensus 90 l~~ 92 (724)
+.+
T Consensus 158 L~k 160 (970)
T PRK12899 158 VLR 160 (970)
T ss_pred HHh
Confidence 753
No 79
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.72 E-value=3e-08 Score=105.52 Aligned_cols=80 Identities=18% Similarity=0.140 Sum_probs=66.5
Q ss_pred ceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC------CCCceEEEEccchhhH
Q 004910 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP------ENPVKLIYCTRTVHEM 80 (724)
Q Consensus 7 ~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~------~~~~~vvi~T~T~~l~ 80 (724)
.+.....+..|+-.|.+.+..+. +|+.++|+|+||+|||+|||+|.+....... .|. =.+|.+||+.|.
T Consensus 150 ~L~~~m~i~~pTsVQkq~IP~lL----~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~-~ALVivPTREL~ 224 (708)
T KOG0348|consen 150 HLNTKMKISAPTSVQKQAIPVLL----EGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGP-YALVIVPTRELA 224 (708)
T ss_pred HHHHHhccCccchHhhcchhhhh----cCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCc-eEEEEechHHHH
Confidence 34444567778999999998887 4899999999999999999999998876553 233 578999999999
Q ss_pred HHHHHHHHhhh
Q 004910 81 EKTLAELKLLH 91 (724)
Q Consensus 81 ~Q~~~el~~l~ 91 (724)
.|+.+-+.+|+
T Consensus 225 ~Q~y~~~qKLl 235 (708)
T KOG0348|consen 225 LQIYETVQKLL 235 (708)
T ss_pred HHHHHHHHHHh
Confidence 99999988875
No 80
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=98.71 E-value=1.9e-08 Score=104.56 Aligned_cols=78 Identities=18% Similarity=0.145 Sum_probs=60.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-----CCCceEEEEccchhhHHHHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~-----~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
-+|+.|+-.|...|.-+. +|+.++..|-||+|||.|||+|.+.-..... ...+..+|.+||+.|.+|+.+.
T Consensus 37 lG~ekpTlIQs~aIplaL----EgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~v 112 (569)
T KOG0346|consen 37 LGWEKPTLIQSSAIPLAL----EGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKV 112 (569)
T ss_pred hCcCCcchhhhcccchhh----cCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHH
Confidence 367777778877655443 5789999999999999999999887644321 1123789999999999999999
Q ss_pred HHhhhhh
Q 004910 87 LKLLHNY 93 (724)
Q Consensus 87 l~~l~~~ 93 (724)
+.+|..+
T Consensus 113 iekL~~~ 119 (569)
T KOG0346|consen 113 IEKLVEY 119 (569)
T ss_pred HHHHHHH
Confidence 9888654
No 81
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.70 E-value=9.2e-08 Score=106.07 Aligned_cols=72 Identities=21% Similarity=0.292 Sum_probs=57.7
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 10 ~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
+.+.++ +||.|.+.++++...+..++.+++.+|||+|||+..+-.+ ... +. +++|++||+.+++|+.+.+..
T Consensus 31 ~~~~~~-lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~-~~~-----~~-~~Lvlv~~~~L~~Qw~~~~~~ 102 (442)
T COG1061 31 VAFEFE-LRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAI-AEL-----KR-STLVLVPTKELLDQWAEALKK 102 (442)
T ss_pred cccCCC-CcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHH-HHh-----cC-CEEEEECcHHHHHHHHHHHHH
Confidence 344454 6999999999999888878899999999999999876432 221 24 699999999999999876655
No 82
>PRK13766 Hef nuclease; Provisional
Probab=98.70 E-value=8.8e-08 Score=114.67 Aligned_cols=70 Identities=20% Similarity=0.172 Sum_probs=55.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
+++ +|+.|.++...+. . +++++.+|||+|||+.+++++..... . .++ +++|.+||.++..|+.+.++...
T Consensus 13 ~~~-~r~yQ~~~~~~~l---~--~n~lv~~ptG~GKT~~a~~~i~~~l~-~-~~~-~vLvl~Pt~~L~~Q~~~~~~~~~ 82 (773)
T PRK13766 13 TIE-ARLYQQLLAATAL---K--KNTLVVLPTGLGKTAIALLVIAERLH-K-KGG-KVLILAPTKPLVEQHAEFFRKFL 82 (773)
T ss_pred cCC-ccHHHHHHHHHHh---c--CCeEEEcCCCccHHHHHHHHHHHHHH-h-CCC-eEEEEeCcHHHHHHHHHHHHHHh
Confidence 344 5999999876553 3 38999999999999998887665553 2 246 89999999999999999888753
No 83
>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=98.70 E-value=1.1e-07 Score=87.57 Aligned_cols=53 Identities=30% Similarity=0.330 Sum_probs=43.1
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
+++++.+|||+|||..++..+....... ..+ +++|++|+..+.+|+.+.+...
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~-~~~-~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSL-KGG-QVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcc-cCC-CEEEEcCcHHHHHHHHHHHHHH
Confidence 4689999999999999988766655432 346 8999999999999998877764
No 84
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.69 E-value=2.2e-06 Score=103.68 Aligned_cols=134 Identities=14% Similarity=0.113 Sum_probs=79.5
Q ss_pred HHHHHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceE-EeCC-CchhHHHHHHHHHHhccCCC
Q 004910 515 GVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVF-IETQ-DVVETTLALDNYRKACDCGR 592 (724)
Q Consensus 515 ~~~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~-~e~~-~~~~~~~~~~~f~~~~~~~~ 592 (724)
++...+...+.++....+|.+|||+|+...++.+++.+.+.++ ....|+ ..+. ...+...+ |+. .+.
T Consensus 269 d~l~~ll~~V~~l~~~~~GdILVFLpg~~EIe~lae~L~~~~~-----~~~~VlpLhg~Ls~~eQ~~V---f~~---~g~ 337 (1294)
T PRK11131 269 DQLQAIFDAVDELGREGPGDILIFMSGEREIRDTADALNKLNL-----RHTEILPLYARLSNSEQNRV---FQS---HSG 337 (1294)
T ss_pred HHHHHHHHHHHHHhcCCCCCEEEEcCCHHHHHHHHHHHHhcCC-----CcceEeecccCCCHHHHHHH---hcc---cCC
Confidence 4455666666666666678999999999999999999986532 001111 1121 11122223 322 245
Q ss_pred CeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHHhhcccccCC
Q 004910 593 GAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDF-LTFDALRQAAQCVGRVIRSK 671 (724)
Q Consensus 593 ~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~-~~~~a~~~v~Q~~GR~iR~~ 671 (724)
.-|++++ .-...|||+|| ++.||=.|+.--...||.. +.... ..+-..-...|..||.=|..
T Consensus 338 rkIIVAT--NIAEtSITIpg--I~yVID~Gl~k~~~Yd~~~-------------~~~~Lp~~~iSkasa~QRaGRAGR~~ 400 (1294)
T PRK11131 338 RRIVLAT--NVAETSLTVPG--IKYVIDPGTARISRYSYRT-------------KVQRLPIEPISQASANQRKGRCGRVS 400 (1294)
T ss_pred eeEEEec--cHHhhccccCc--ceEEEECCCcccccccccc-------------CcccCCeeecCHhhHhhhccccCCCC
Confidence 5688877 57999999998 7788888865332222211 00111 11122245689999998874
Q ss_pred CCeEEEE
Q 004910 672 ADYGMMI 678 (724)
Q Consensus 672 ~D~g~vv 678 (724)
-|..+
T Consensus 401 --~G~c~ 405 (1294)
T PRK11131 401 --EGICI 405 (1294)
T ss_pred --CcEEE
Confidence 36544
No 85
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.69 E-value=1.2e-07 Score=115.03 Aligned_cols=73 Identities=19% Similarity=0.204 Sum_probs=58.3
Q ss_pred CCCHHHHHHHHHHHHHHHhC-CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 16 NIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~-~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.+||.|.+.+.++.+++.++ +.+++.+|||||||+.++..+....+. ...+ ||+|.|++.+|.+|+.+++...
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~-~~~~-rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKA-KRFR-RILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhc-CccC-eEEEEecHHHHHHHHHHHHHhc
Confidence 36999999999999999876 578999999999998865433333322 2246 9999999999999999987763
No 86
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.68 E-value=1.5e-07 Score=109.70 Aligned_cols=72 Identities=22% Similarity=0.272 Sum_probs=58.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
|++ +++.|.+.++.+.+.+ .++..++.||||+|||.+|+.++..... .++ +++|.+||+++..|+.+.++..
T Consensus 142 ~~~-Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~---~g~-~vLvLvPt~~L~~Q~~~~l~~~ 213 (679)
T PRK05580 142 PPT-LNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLA---QGK-QALVLVPEIALTPQMLARFRAR 213 (679)
T ss_pred CCC-CCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHH---cCC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 444 6999999998887655 4578999999999999999987655442 256 8999999999999999988763
No 87
>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=98.67 E-value=1.1e-07 Score=108.89 Aligned_cols=68 Identities=13% Similarity=0.211 Sum_probs=53.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
+.++ +||.|.+.+.+. +.++ +.++|.+|||+|||+..+..+... ++ +++|.++|..+.+|+.+++.+
T Consensus 252 ~~~~-LRpYQ~eAl~~~---~~~gr~r~GIIvLPtGaGKTlvai~aa~~l------~k-~tLILvps~~Lv~QW~~ef~~ 320 (732)
T TIGR00603 252 PTTQ-IRPYQEKSLSKM---FGNGRARSGIIVLPCGAGKSLVGVTAACTV------KK-SCLVLCTSAVSVEQWKQQFKM 320 (732)
T ss_pred cCCC-cCHHHHHHHHHH---HhcCCCCCcEEEeCCCCChHHHHHHHHHHh------CC-CEEEEeCcHHHHHHHHHHHHH
Confidence 3454 699999966544 5555 479999999999999988654321 35 799999999999999999887
Q ss_pred h
Q 004910 90 L 90 (724)
Q Consensus 90 l 90 (724)
+
T Consensus 321 ~ 321 (732)
T TIGR00603 321 W 321 (732)
T ss_pred h
Confidence 5
No 88
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=98.67 E-value=8.3e-08 Score=108.08 Aligned_cols=67 Identities=19% Similarity=0.342 Sum_probs=56.5
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.+|..|.++. ..|| +++.+|.+|||.|||+.+..-+..|.+..+. . |||+.+||+.+..|-......
T Consensus 62 ~lR~YQ~eiv---q~AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-~-KiVF~aP~~pLv~QQ~a~~~~ 128 (746)
T KOG0354|consen 62 ELRNYQEELV---QPAL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK-G-KVVFLAPTRPLVNQQIACFSI 128 (746)
T ss_pred cccHHHHHHh---HHhh--cCCeEEEeecCCCccchHHHHHHHHHhcCCc-c-eEEEeeCCchHHHHHHHHHhh
Confidence 4699999965 5566 8999999999999999988888888887764 4 899999999999998855443
No 89
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=98.66 E-value=1.9e-06 Score=104.56 Aligned_cols=157 Identities=11% Similarity=0.093 Sum_probs=90.7
Q ss_pred HHHHHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceE-EeCCCchhHHHHHHHHHHhccCCCC
Q 004910 515 GVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVF-IETQDVVETTLALDNYRKACDCGRG 593 (724)
Q Consensus 515 ~~~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~-~e~~~~~~~~~~~~~f~~~~~~~~~ 593 (724)
.+...+...|.+++...+|.+|||+|+...++.+.+.+.+.+. ....|+ ..+ +.. ...-.+-|+. .+..
T Consensus 262 ~~~~~i~~~I~~l~~~~~GdILVFLpg~~EI~~l~~~L~~~~~-----~~~~VlpLhg-~Ls-~~eQ~~vf~~---~~~r 331 (1283)
T TIGR01967 262 DQLEAILDAVDELFAEGPGDILIFLPGEREIRDAAEILRKRNL-----RHTEILPLYA-RLS-NKEQQRVFQP---HSGR 331 (1283)
T ss_pred hHHHHHHHHHHHHHhhCCCCEEEeCCCHHHHHHHHHHHHhcCC-----CCcEEEeccC-CCC-HHHHHHHhCC---CCCc
Confidence 3456667777777766789999999999999999999876431 111122 112 211 1111122432 1234
Q ss_pred eEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHHhhcccccCCC
Q 004910 594 AVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDF-LTFDALRQAAQCVGRVIRSKA 672 (724)
Q Consensus 594 ~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~-~~~~a~~~v~Q~~GR~iR~~~ 672 (724)
.|++++ .-...|||++| ++.||=.|+|-..-.||.... ... ..+-.--...|..||.=|..
T Consensus 332 kIVLAT--NIAEtSLTIpg--V~yVIDsGl~r~~~yd~~~~~-------------~~L~~~~ISkasa~QRaGRAGR~~- 393 (1283)
T TIGR01967 332 RIVLAT--NVAETSLTVPG--IHYVIDTGTARISRYSYRTKV-------------QRLPIEPISQASANQRKGRCGRVA- 393 (1283)
T ss_pred eEEEec--cHHHhccccCC--eeEEEeCCCccccccccccCc-------------cccCCccCCHHHHHHHhhhhCCCC-
Confidence 688877 57889999998 788998898854433332110 011 01112245689999998876
Q ss_pred CeEEEEEEecccCCCcccCCCchHHHhhcccc
Q 004910 673 DYGMMIFADKRYSRHDKRSKLPGWILSHLRDA 704 (724)
Q Consensus 673 D~g~vvllD~R~~~~~~~~~lp~w~~~~~~~~ 704 (724)
-|..+ |+.+......+|.+..+.|...
T Consensus 394 -~G~cy----RLyte~~~~~~~~~~~PEIlR~ 420 (1283)
T TIGR01967 394 -PGICI----RLYSEEDFNSRPEFTDPEILRT 420 (1283)
T ss_pred -CceEE----EecCHHHHHhhhhccCcccccc
Confidence 56655 3332221123455555555443
No 90
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.64 E-value=1.2e-07 Score=101.00 Aligned_cols=68 Identities=16% Similarity=0.086 Sum_probs=54.0
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
.+|..|..++.+.. . ++.++..|||-|||+.+.+-+..+.... ++ ++++..||+.|..|=.+-++++.
T Consensus 15 e~R~YQ~~i~a~al---~--~NtLvvlPTGLGKT~IA~~V~~~~l~~~--~~-kvlfLAPTKPLV~Qh~~~~~~v~ 82 (542)
T COG1111 15 EPRLYQLNIAAKAL---F--KNTLVVLPTGLGKTFIAAMVIANRLRWF--GG-KVLFLAPTKPLVLQHAEFCRKVT 82 (542)
T ss_pred cHHHHHHHHHHHHh---h--cCeEEEecCCccHHHHHHHHHHHHHHhc--CC-eEEEecCCchHHHHHHHHHHHHh
Confidence 36899998876554 3 4899999999999987776555565544 46 89999999999999888777764
No 91
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=98.64 E-value=1.9e-05 Score=91.35 Aligned_cols=66 Identities=20% Similarity=0.147 Sum_probs=51.0
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhh
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~ 92 (724)
||+.|.-- .+ +|..|+ +.|..||.|||++..+|++..+.. |+ .|-+.|+|--|..|=.+.+..+.+
T Consensus 81 ~~dvQlig--~l--~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~---G~-~v~vvT~neyLA~Rd~e~~~~~~~ 146 (796)
T PRK12906 81 PFDVQIIG--GI--VLHEGN--IAEMKTGEGKTLTATLPVYLNALT---GK-GVHVVTVNEYLSSRDATEMGELYR 146 (796)
T ss_pred CchhHHHH--HH--HHhcCC--cccccCCCCCcHHHHHHHHHHHHc---CC-CeEEEeccHHHHHhhHHHHHHHHH
Confidence 36666543 33 344554 899999999999999998877643 56 899999999999998888777754
No 92
>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=98.56 E-value=5e-07 Score=105.29 Aligned_cols=72 Identities=18% Similarity=0.214 Sum_probs=59.3
Q ss_pred CCHHHHHHHHHHHHHHHh------CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 17 IYPEQYSYMLELKRALDA------KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~------~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
+|+.|.+.+.++.+.+.+ ++.++|..|||||||+..+..+....... ..+ +|++.|++..|.+|+.+++..+
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~-~~~-~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELL-KNP-KVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhc-CCC-eEEEEECcHHHHHHHHHHHHhh
Confidence 589999999999999876 35799999999999998876654433222 245 8999999999999999988764
No 93
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.52 E-value=5.8e-05 Score=87.71 Aligned_cols=136 Identities=13% Similarity=0.072 Sum_probs=78.6
Q ss_pred chHHhhccCeEEEecCCCCCcc-chhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHH
Q 004910 444 VKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGK 522 (724)
Q Consensus 444 l~~l~~~~~s~Il~SaTL~~~~-~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~ 522 (724)
++.+|...+..--|+||..... .|.+..|++-+. +|-..|... .+.+.. -++...+-+..+.+
T Consensus 377 ~QnfFr~Y~kL~GMTGTa~te~~Ef~~iY~l~Vv~---IPTnkp~~R------------~d~~d~-iy~t~~~K~~Aii~ 440 (908)
T PRK13107 377 FQNYFRQYEKLAGMTGTADTEAFEFQHIYGLDTVV---VPTNRPMVR------------KDMADL-VYLTADEKYQAIIK 440 (908)
T ss_pred HHHHHHhhhHhhcccCCChHHHHHHHHHhCCCEEE---CCCCCCccc------------eeCCCc-EEeCHHHHHHHHHH
Confidence 4677888888888999987653 566666765321 111100000 011100 01122333456666
Q ss_pred HHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCC-chhHHHHHHHHHHhccCCCCeEEEEeec
Q 004910 523 LLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFSVAR 601 (724)
Q Consensus 523 ~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~-~~~~~~~~~~f~~~~~~~~~~vL~~v~~ 601 (724)
.|.++.+ .+..+||++.|-..-+.+...+...++- ..++ .++. ..+...+.+.++ .|+|++|+
T Consensus 441 ei~~~~~-~GrpVLV~t~sv~~se~ls~~L~~~gi~------~~vL-nak~~~~Ea~ii~~Ag~------~G~VtIAT-- 504 (908)
T PRK13107 441 DIKDCRE-RGQPVLVGTVSIEQSELLARLMVKEKIP------HEVL-NAKFHEREAEIVAQAGR------TGAVTIAT-- 504 (908)
T ss_pred HHHHHHH-cCCCEEEEeCcHHHHHHHHHHHHHCCCC------eEec-cCcccHHHHHHHHhCCC------CCcEEEec--
Confidence 6766654 5679999999999999999988876531 1122 1221 123333334332 46799877
Q ss_pred CcccccccCC
Q 004910 602 GKVAEGIDFD 611 (724)
Q Consensus 602 g~~~EGiD~~ 611 (724)
.-...|.|+.
T Consensus 505 nmAGRGTDIk 514 (908)
T PRK13107 505 NMAGRGTDIV 514 (908)
T ss_pred CCcCCCccee
Confidence 5789999996
No 94
>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=98.49 E-value=1e-06 Score=95.28 Aligned_cols=60 Identities=25% Similarity=0.239 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHhCC--cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 21 QYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 21 Q~e~~~~v~~~l~~~~--~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
|.+...+ +.+++ ++++.||||+|||.++++|++. . +. +++|.+||+++.+|..+.++...
T Consensus 2 Q~~~~~~----~~~~~~~~~~i~apTGsGKT~~~~~~~l~-----~-~~-~~~~~~P~~aL~~~~~~~~~~~~ 63 (357)
T TIGR03158 2 QVATFEA----LQSKDADIIFNTAPTGAGKTLAWLTPLLH-----G-EN-DTIALYPTNALIEDQTEAIKEFV 63 (357)
T ss_pred HHHHHHH----HHcCCCCEEEEECCCCCCHHHHHHHHHHH-----c-CC-CEEEEeChHHHHHHHHHHHHHHH
Confidence 5554444 44554 5889999999999999998773 1 24 78999999999999999887764
No 95
>COG4889 Predicted helicase [General function prediction only]
Probab=98.44 E-value=1.4e-06 Score=97.63 Aligned_cols=184 Identities=18% Similarity=0.254 Sum_probs=114.3
Q ss_pred cceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH
Q 004910 6 EDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 6 ~~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
+++++.-|++ |||.|.+.++++.+.|..+..+=+-..+|||||+..|--+-+.+ .. +|++.+|+++|+.|-++
T Consensus 152 ~nl~l~~~kk-~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala-----~~-~iL~LvPSIsLLsQTlr 224 (1518)
T COG4889 152 DNLPLKKPKK-PRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALA-----AA-RILFLVPSISLLSQTLR 224 (1518)
T ss_pred cccccCCCCC-CChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHh-----hh-heEeecchHHHHHHHHH
Confidence 4567777887 59999999999999998887777778899999999885333322 24 89999999999999999
Q ss_pred HHHhhhhhcccCCCCCCceEEEEecCccccccchHhhhccCchhHHHHHHHhhhhHHHhhhhcCCCCCCCcCcccchhhh
Q 004910 86 ELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAA 165 (724)
Q Consensus 86 el~~l~~~~~~~~~~~~~~~~~~l~gr~~~C~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~d~~~c~~~~~~~~~~ 165 (724)
|...= ...+++...+ |-...+... . .|......+
T Consensus 225 ew~~~---------~~l~~~a~aV------cSD~kvsrs--~--------------------eDik~sdl~--------- 258 (1518)
T COG4889 225 EWTAQ---------KELDFRASAV------CSDDKVSRS--A--------------------EDIKASDLP--------- 258 (1518)
T ss_pred HHhhc---------cCccceeEEE------ecCcccccc--c--------------------cccccccCC---------
Confidence 86542 1335554433 444332211 0 000000000
Q ss_pred hcCCCCCCCCCHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCchHHh--
Q 004910 166 SAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVC-- 243 (724)
Q Consensus 166 ~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~~~~-- 243 (724)
+ +..-+.+.+.+.- ..|+++..--||+++|+-+.. +.......+++++++|.||||.--.+-
T Consensus 259 ----~-p~sT~~~~il~~~---------~~~~k~~~~~vvFsTYQSl~~--i~eAQe~G~~~fDliicDEAHRTtGa~~a 322 (1518)
T COG4889 259 ----I-PVSTDLEDILSEM---------EHRQKANGLTVVFSTYQSLPR--IKEAQEAGLDEFDLIICDEAHRTTGATLA 322 (1518)
T ss_pred ----C-CCcccHHHHHHHH---------HHhhccCCcEEEEEcccchHH--HHHHHHcCCCCccEEEecchhccccceec
Confidence 1 1122334443221 224456677899999998753 223333347899999999999865432
Q ss_pred ---hhhcceeecHHHHHH
Q 004910 244 ---IEALSVSVRRQTLEG 258 (724)
Q Consensus 244 ---~~~~s~~ls~~~l~~ 258 (724)
.++|+..=+...+..
T Consensus 323 ~dd~saFt~vHs~~niKa 340 (1518)
T COG4889 323 GDDKSAFTRVHSDQNIKA 340 (1518)
T ss_pred ccCcccceeecCcchhHH
Confidence 234444444444443
No 96
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=98.41 E-value=6.4e-07 Score=103.21 Aligned_cols=78 Identities=17% Similarity=0.184 Sum_probs=66.9
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-----CCCceEEEEccchhhHHHHH
Q 004910 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTL 84 (724)
Q Consensus 10 ~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~-----~~~~~vvi~T~T~~l~~Q~~ 84 (724)
-.++|++|+|.|.+++-+|. .|+.+|-.|-||+|||++|++|.+......+ +|+ -.+|.+||..|..|+-
T Consensus 381 kkl~y~k~~~IQ~qAiP~Im----sGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGP-i~li~aPtrela~QI~ 455 (997)
T KOG0334|consen 381 KKLGYEKPTPIQAQAIPAIM----SGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGP-IALILAPTRELAMQIH 455 (997)
T ss_pred HHhcCCCCcchhhhhcchhc----cCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCc-eEEEEcCCHHHHHHHH
Confidence 35789999999999998886 7899999999999999999999987654332 344 6799999999999999
Q ss_pred HHHHhhhh
Q 004910 85 AELKLLHN 92 (724)
Q Consensus 85 ~el~~l~~ 92 (724)
++++++..
T Consensus 456 r~~~kf~k 463 (997)
T KOG0334|consen 456 REVRKFLK 463 (997)
T ss_pred HHHHHHHh
Confidence 99999864
No 97
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.39 E-value=0.00084 Score=72.66 Aligned_cols=76 Identities=17% Similarity=0.200 Sum_probs=61.6
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhC-CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHH
Q 004910 8 VTVYFPYDNIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 8 ~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~-~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
....=||+| -.-|-+.+.++.+.+.+| ++-++-+-||||||+..-- +++ + .++ +.+|..+.++|..|+..|
T Consensus 5 F~l~s~f~P-aGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~An-VI~--~---~~r-PtLV~AhNKTLAaQLy~E 76 (663)
T COG0556 5 FKLHSPFKP-AGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMAN-VIA--K---VQR-PTLVLAHNKTLAAQLYSE 76 (663)
T ss_pred eEeccCCCC-CCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHH-HHH--H---hCC-CeEEEecchhHHHHHHHH
Confidence 445568885 799999999999999998 5889999999999987421 222 2 135 899999999999999999
Q ss_pred HHhhh
Q 004910 87 LKLLH 91 (724)
Q Consensus 87 l~~l~ 91 (724)
++.+-
T Consensus 77 fk~fF 81 (663)
T COG0556 77 FKEFF 81 (663)
T ss_pred HHHhC
Confidence 99874
No 98
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.38 E-value=9.7e-07 Score=98.36 Aligned_cols=71 Identities=20% Similarity=0.272 Sum_probs=59.5
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHH
Q 004910 8 VTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 8 ~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el 87 (724)
+.-.|+|+..||+|.+.++.+. +++++++-.|||.|||++|-+||+.. .+ -++|.+|=.+|++--++.+
T Consensus 9 L~~~fGy~~FR~gQ~evI~~~l----~g~d~lvvmPTGgGKSlCyQiPAll~------~G-~TLVVSPLiSLM~DQV~~l 77 (590)
T COG0514 9 LKQVFGYASFRPGQQEIIDALL----SGKDTLVVMPTGGGKSLCYQIPALLL------EG-LTLVVSPLISLMKDQVDQL 77 (590)
T ss_pred HHHHhCccccCCCHHHHHHHHH----cCCcEEEEccCCCCcchHhhhHHHhc------CC-CEEEECchHHHHHHHHHHH
Confidence 3457999999999998776655 77999999999999999999999874 24 6899999999988777766
Q ss_pred Hh
Q 004910 88 KL 89 (724)
Q Consensus 88 ~~ 89 (724)
+.
T Consensus 78 ~~ 79 (590)
T COG0514 78 EA 79 (590)
T ss_pred HH
Confidence 65
No 99
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.34 E-value=5.5e-07 Score=92.95 Aligned_cols=75 Identities=23% Similarity=0.087 Sum_probs=58.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-----CCCceEEEEccchhhHHHHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~-----~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
-+|++|.|.|-++=.-++ +|..++-.|.||||||++||+|.+....+.+ ...+.+++.|+|+.|.-|+--|
T Consensus 238 ~GFqKPtPIqSQaWPI~L----QG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e 313 (629)
T KOG0336|consen 238 TGFQKPTPIQSQAWPILL----QGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGE 313 (629)
T ss_pred ccCCCCCcchhcccceee----cCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhH
Confidence 378888899988765544 6788999999999999999999887654432 1223899999999999888777
Q ss_pred HHhh
Q 004910 87 LKLL 90 (724)
Q Consensus 87 l~~l 90 (724)
..+.
T Consensus 314 ~~ky 317 (629)
T KOG0336|consen 314 VKKY 317 (629)
T ss_pred HhHh
Confidence 6653
No 100
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.29 E-value=0.0002 Score=73.17 Aligned_cols=57 Identities=21% Similarity=0.190 Sum_probs=49.5
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccch
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~ 77 (724)
..|+|+.....+...+++.+..++-|-||.|||-- +.+++..+... |. +|.++||..
T Consensus 98 Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEM-if~~i~~al~~--G~-~vciASPRv 154 (441)
T COG4098 98 LSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEM-IFQGIEQALNQ--GG-RVCIASPRV 154 (441)
T ss_pred cChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhh-hHHHHHHHHhc--CC-eEEEecCcc
Confidence 57999999999999999999999999999999975 45678887655 56 999999874
No 101
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.28 E-value=1.6e-06 Score=97.78 Aligned_cols=74 Identities=16% Similarity=0.171 Sum_probs=60.1
Q ss_pred CCCHHHHHHHHHHHHHHHhCC-cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 16 NIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~-~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
.+|+.|...+..|.+++.+|+ .+++.+.||||||..+.. .+--......-| ||++.+-+++|.+|......+..
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAia-ii~rL~r~~~~K-RVLFLaDR~~Lv~QA~~af~~~~ 239 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIA-IIDRLIKSGWVK-RVLFLADRNALVDQAYGAFEDFL 239 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHH-HHHHHHhcchhh-eeeEEechHHHHHHHHHHHHHhC
Confidence 479999999999999999884 699999999999988763 222233334457 99999999999999998877653
No 102
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=98.25 E-value=1.1e-05 Score=73.43 Aligned_cols=115 Identities=23% Similarity=0.348 Sum_probs=80.0
Q ss_pred HHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCC-chhHHHHHHHHHHhccCCCCeEE
Q 004910 518 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVF 596 (724)
Q Consensus 518 ~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~-~~~~~~~~~~f~~~~~~~~~~vL 596 (724)
..+.+.+.+..+ ..+.+|||+++...++.+++.+.+.+ ....++.+.. ......+++.|++ +...+|
T Consensus 15 ~~i~~~i~~~~~-~~~~~lvf~~~~~~~~~~~~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~f~~----~~~~il 82 (131)
T cd00079 15 EALLELLKEHLK-KGGKVLIFCPSKKMLDELAELLRKPG-------IKVAALHGDGSQEEREEVLKDFRE----GEIVVL 82 (131)
T ss_pred HHHHHHHHhccc-CCCcEEEEeCcHHHHHHHHHHHHhcC-------CcEEEEECCCCHHHHHHHHHHHHc----CCCcEE
Confidence 344454544432 46899999999999999999987531 1333444432 2345567777765 456788
Q ss_pred EEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEE
Q 004910 597 FSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGM 676 (724)
Q Consensus 597 ~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~ 676 (724)
+++ ..++||+|+++ +..||+.+.|+. ...+.|++||+.|..+ .|.
T Consensus 83 i~t--~~~~~G~d~~~--~~~vi~~~~~~~------------------------------~~~~~Q~~GR~~R~~~-~~~ 127 (131)
T cd00079 83 VAT--DVIARGIDLPN--VSVVINYDLPWS------------------------------PSSYLQRIGRAGRAGQ-KGT 127 (131)
T ss_pred EEc--ChhhcCcChhh--CCEEEEeCCCCC------------------------------HHHheecccccccCCC-Cce
Confidence 876 68999999986 778888887543 2445799999999886 565
Q ss_pred EEE
Q 004910 677 MIF 679 (724)
Q Consensus 677 vvl 679 (724)
+++
T Consensus 128 ~~~ 130 (131)
T cd00079 128 AIL 130 (131)
T ss_pred EEe
Confidence 544
No 103
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=98.25 E-value=2.5e-06 Score=91.03 Aligned_cols=74 Identities=23% Similarity=0.162 Sum_probs=62.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC---------CCCceEEEEccchhhHHHH
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---------ENPVKLIYCTRTVHEMEKT 83 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~---------~~~~~vvi~T~T~~l~~Q~ 83 (724)
.|..|.|.|++.+--+ .+.+..+.-|-||+|||+|+++|.+.|....| .++ ..+|..||+.+.+|+
T Consensus 264 ~y~eptpIqR~aipl~----lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gp-yaiilaptReLaqqI 338 (673)
T KOG0333|consen 264 GYKEPTPIQRQAIPLG----LQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGP-YAIILAPTRELAQQI 338 (673)
T ss_pred CCCCCchHHHhhccch----hccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCc-eeeeechHHHHHHHH
Confidence 5777889999877633 35678899999999999999999999987654 345 899999999999999
Q ss_pred HHHHHhhh
Q 004910 84 LAELKLLH 91 (724)
Q Consensus 84 ~~el~~l~ 91 (724)
.+|-.++.
T Consensus 339 eeEt~kf~ 346 (673)
T KOG0333|consen 339 EEETNKFG 346 (673)
T ss_pred HHHHHHhc
Confidence 99988764
No 104
>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=98.25 E-value=3.7e-06 Score=94.63 Aligned_cols=48 Identities=23% Similarity=0.225 Sum_probs=38.6
Q ss_pred EEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 39 LLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 39 ~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
++.||||+|||.+|+.. +..+... ++ +++|.+||.++..|+.+.++..
T Consensus 1 LL~g~TGsGKT~v~l~~-i~~~l~~--g~-~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQA-IEKVLAL--GK-SVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHH-HHHHHHc--CC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 47899999999999865 3333332 57 8999999999999999988763
No 105
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.20 E-value=0.0015 Score=74.59 Aligned_cols=138 Identities=14% Similarity=0.179 Sum_probs=81.2
Q ss_pred cchHHhhccCeEEEecCCCCCc-cchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHH
Q 004910 443 AVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 521 (724)
Q Consensus 443 ~l~~l~~~~~s~Il~SaTL~~~-~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~ 521 (724)
.++.+|...+.+--|+||.... +.|.+..|++-.. +|...| ..-.+.++. -| ....+.+..+.
T Consensus 354 T~QnfFr~Y~kLsGMTGTa~t~~~Ef~~iY~l~Vv~---IPtnkp------~~R~d~~d~-----iy--~t~~~k~~Aii 417 (764)
T PRK12326 354 TVQALIGRYPTVCGMTGTAVAAGEQLRQFYDLGVSV---IPPNKP------NIREDEADR-----VY--ATAAEKNDAIV 417 (764)
T ss_pred hHHHHHHhcchheeecCCChhHHHHHHHHhCCcEEE---CCCCCC------ceeecCCCc-----eE--eCHHHHHHHHH
Confidence 3477888888899999999765 3677777765321 111111 000011111 11 12334456666
Q ss_pred HHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004910 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (724)
Q Consensus 522 ~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~ 601 (724)
+.|.+..+ .+..+||.++|-+.-+.+...+.+.++- ..++- .++...-..++. ++ ...|+|-+++
T Consensus 418 ~ei~~~~~-~GrPVLVgt~sI~~SE~ls~~L~~~gI~------h~vLN-Ak~~~~EA~IIa---~A--G~~gaVTIAT-- 482 (764)
T PRK12326 418 EHIAEVHE-TGQPVLVGTHDVAESEELAERLRAAGVP------AVVLN-AKNDAEEARIIA---EA--GKYGAVTVST-- 482 (764)
T ss_pred HHHHHHHH-cCCCEEEEeCCHHHHHHHHHHHHhCCCc------ceeec-cCchHhHHHHHH---hc--CCCCcEEEEe--
Confidence 66666653 6779999999999999999999876541 12332 121111112232 22 3467899988
Q ss_pred CcccccccCC
Q 004910 602 GKVAEGIDFD 611 (724)
Q Consensus 602 g~~~EGiD~~ 611 (724)
.-...|.|+.
T Consensus 483 NMAGRGTDIk 492 (764)
T PRK12326 483 QMAGRGTDIR 492 (764)
T ss_pred cCCCCccCee
Confidence 4788999985
No 106
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.19 E-value=2.5e-06 Score=92.57 Aligned_cols=75 Identities=20% Similarity=0.207 Sum_probs=62.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC----CCCceEEEEccchhhHHHHHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~----~~~~~vvi~T~T~~l~~Q~~~el 87 (724)
-+|..|.|.|.+.+. .|-+++.++.+||||+|||+||++|.+..++... ..+++++|+.+|++|..|+..|.
T Consensus 154 ~~F~~Pt~iq~~aip----vfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~ 229 (593)
T KOG0344|consen 154 LGFDEPTPIQKQAIP----VFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREM 229 (593)
T ss_pred CCCCCCCcccchhhh----hhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHH
Confidence 367778999997554 4457899999999999999999999998877553 23469999999999999999998
Q ss_pred Hhh
Q 004910 88 KLL 90 (724)
Q Consensus 88 ~~l 90 (724)
..+
T Consensus 230 ~k~ 232 (593)
T KOG0344|consen 230 RKY 232 (593)
T ss_pred Hhc
Confidence 876
No 107
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.19 E-value=3.1e-06 Score=89.89 Aligned_cols=139 Identities=19% Similarity=0.238 Sum_probs=95.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-----CCCceEEEEccchhhHHHHHHHHH
Q 004910 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 14 ~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~-----~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
|+.|+|.|-+.+.... .++.++=-|-||+|||-||+.|.+......+ +++ =.+|++||+++..|+..|.+
T Consensus 243 y~kptpiq~qalptal----sgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gP-i~vilvPTrela~Qi~~eaK 317 (731)
T KOG0339|consen 243 YEKPTPIQCQALPTAL----SGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGP-IGVILVPTRELASQIFSEAK 317 (731)
T ss_pred cccCCccccccccccc----ccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCC-eEEEEeccHHHHHHHHHHHH
Confidence 5666777776554433 4677788899999999999999988765432 233 57999999999999999999
Q ss_pred hhhhhcccCCCCCCceEEEEecCccccccchHhhhccCchhHHHHHHHhhhhHHHhhhhcCCCCCCCcCcccchhhhhcC
Q 004910 89 LLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAA 168 (724)
Q Consensus 89 ~l~~~~~~~~~~~~~~~~~~l~gr~~~C~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~d~~~c~~~~~~~~~~~~~ 168 (724)
++-+ ..+++++.+.|... .|
T Consensus 318 kf~K--------~ygl~~v~~ygGgs-------------------------k~--------------------------- 337 (731)
T KOG0339|consen 318 KFGK--------AYGLRVVAVYGGGS-------------------------KW--------------------------- 337 (731)
T ss_pred Hhhh--------hccceEEEeecCCc-------------------------HH---------------------------
Confidence 8743 33455554433221 01
Q ss_pred CCCCCCCCHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCchHHh
Q 004910 169 VLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVC 243 (724)
Q Consensus 169 ~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~~~~ 243 (724)
..+++.-..|.|||++---|++....... .+...++||||||..+-+-.
T Consensus 338 ------------------------eQ~k~Lk~g~EivVaTPgRlid~VkmKat--n~~rvS~LV~DEadrmfdmG 386 (731)
T KOG0339|consen 338 ------------------------EQSKELKEGAEIVVATPGRLIDMVKMKAT--NLSRVSYLVLDEADRMFDMG 386 (731)
T ss_pred ------------------------HHHHhhhcCCeEEEechHHHHHHHHhhcc--cceeeeEEEEechhhhhccc
Confidence 01112224689999999988886543322 35678899999999876643
No 108
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=98.07 E-value=1.6e-05 Score=88.70 Aligned_cols=90 Identities=18% Similarity=0.173 Sum_probs=75.4
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCC--cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHH
Q 004910 10 VYFPYDNIYPEQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 10 ~~Fp~~~~r~~Q~e~~~~v~~~l~~~~--~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el 87 (724)
..-||+ ++..|...+.+|..-+.+.. +=++.+-.|+|||++++++++... ..|. ++....||--|.+|-.+.+
T Consensus 257 ~~LPF~-LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai---~~G~-Q~ALMAPTEILA~QH~~~~ 331 (677)
T COG1200 257 AALPFK-LTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAI---EAGY-QAALMAPTEILAEQHYESL 331 (677)
T ss_pred HhCCCC-ccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHH---HcCC-eeEEeccHHHHHHHHHHHH
Confidence 456998 59999999999999998885 568999999999999998876544 2356 9999999999999999999
Q ss_pred HhhhhhcccCCCCCCceEEEEecCc
Q 004910 88 KLLHNYQTRHLGPAAKILAIGLSSR 112 (724)
Q Consensus 88 ~~l~~~~~~~~~~~~~~~~~~l~gr 112 (724)
.++.+ +.++++..|.|+
T Consensus 332 ~~~l~--------~~~i~V~lLtG~ 348 (677)
T COG1200 332 RKWLE--------PLGIRVALLTGS 348 (677)
T ss_pred HHHhh--------hcCCeEEEeecc
Confidence 88864 345788888876
No 109
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.05 E-value=7.5e-06 Score=85.32 Aligned_cols=74 Identities=20% Similarity=0.162 Sum_probs=63.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
+|..|.|.|+..|.-|. +++.++--|-||+|||.|+++|++..++.......|.++.+||+.|..|.++-++.+
T Consensus 40 g~~~ptpiqRKTipliL----e~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~qtlkvvkdl 113 (529)
T KOG0337|consen 40 GFNTPTPIQRKTIPLIL----EGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQTLKVVKDL 113 (529)
T ss_pred hcCCCCchhccccccee----eccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHHHHHHHHHh
Confidence 57778999999887776 678889999999999999999999988766444459999999999999999877765
No 110
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.97 E-value=3.9e-06 Score=84.28 Aligned_cols=89 Identities=19% Similarity=0.070 Sum_probs=64.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
-+|+.|.|.|.+-+.-+. .|+.++.-|-.|||||-||.+|.+.-..... ..++.+|.+||+.+.-|.-.-.+.+.
T Consensus 103 ~G~ekPSPiQeesIPiaL----tGrdiLaRaKNGTGKT~a~~IP~Lekid~~~-~~IQ~~ilVPtrelALQtSqvc~~ls 177 (459)
T KOG0326|consen 103 KGFEKPSPIQEESIPIAL----TGRDILARAKNGTGKTAAYCIPVLEKIDPKK-NVIQAIILVPTRELALQTSQVCKELS 177 (459)
T ss_pred hccCCCCCccccccceee----cchhhhhhccCCCCCccceechhhhhcCccc-cceeEEEEeecchhhHHHHHHHHHHh
Confidence 478888999999776554 6789999999999999999999998654332 34588999999987666555444443
Q ss_pred hhcccCCCCCCceEEEEecCcc
Q 004910 92 NYQTRHLGPAAKILAIGLSSRK 113 (724)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~gr~ 113 (724)
+ ..++++.+..|..
T Consensus 178 k--------h~~i~vmvttGGT 191 (459)
T KOG0326|consen 178 K--------HLGIKVMVTTGGT 191 (459)
T ss_pred c--------ccCeEEEEecCCc
Confidence 2 3456666555543
No 111
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.94 E-value=0.00011 Score=86.97 Aligned_cols=87 Identities=20% Similarity=0.226 Sum_probs=71.9
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCc--EEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHH
Q 004910 9 TVYFPYDNIYPEQYSYMLELKRALDAKGH--CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 9 ~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~--~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
...|||+. +|-|...+++|.+-+.+++. =+|++-.|-|||-+++=+|.... .+|+ +|.+.+||.-|.+|=.+.
T Consensus 588 ~~~FPyeE-T~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV---~~GK-QVAvLVPTTlLA~QHy~t 662 (1139)
T COG1197 588 EASFPYEE-TPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAV---MDGK-QVAVLVPTTLLAQQHYET 662 (1139)
T ss_pred HhcCCCcC-CHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHh---cCCC-eEEEEcccHHhHHHHHHH
Confidence 46799997 99999999999999999985 59999999999999887766543 3478 999999999999998887
Q ss_pred HHh-hhhhcccCCCCCCceEEEEe
Q 004910 87 LKL-LHNYQTRHLGPAAKILAIGL 109 (724)
Q Consensus 87 l~~-l~~~~~~~~~~~~~~~~~~l 109 (724)
++. + .+.++++..|
T Consensus 663 FkeRF---------~~fPV~I~~L 677 (1139)
T COG1197 663 FKERF---------AGFPVRIEVL 677 (1139)
T ss_pred HHHHh---------cCCCeeEEEe
Confidence 663 2 2566766554
No 112
>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=97.92 E-value=5.8e-05 Score=79.55 Aligned_cols=70 Identities=19% Similarity=0.156 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHH---------HhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCC--CCceEEEEccchhhHHHHHHHHH
Q 004910 20 EQYSYMLELKRAL---------DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE--NPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 20 ~Q~e~~~~v~~~l---------~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~--~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
.|.+.+.-+.+.. ...+.+++--.+|+|||+..+..+.......+. .+ +++|.+|+ +++.|+.+|+.
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~-~~LIv~P~-~l~~~W~~E~~ 78 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEK-KTLIVVPS-SLLSQWKEEIE 78 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S--EEEEE-T-TTHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhcccccccc-ceeEeecc-chhhhhhhhhc
Confidence 3777777777766 445678888899999999887654322222211 12 49999999 88899999999
Q ss_pred hhh
Q 004910 89 LLH 91 (724)
Q Consensus 89 ~l~ 91 (724)
+..
T Consensus 79 ~~~ 81 (299)
T PF00176_consen 79 KWF 81 (299)
T ss_dssp HHS
T ss_pred ccc
Confidence 874
No 113
>PF13245 AAA_19: Part of AAA domain
Probab=97.90 E-value=4.8e-05 Score=62.24 Aligned_cols=59 Identities=24% Similarity=0.379 Sum_probs=42.6
Q ss_pred HHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHh--hCCCCCceEEEEccchhhHHHHHHHH
Q 004910 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVL--SKPENPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 27 ~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~--~~~~~~~~vvi~T~T~~l~~Q~~~el 87 (724)
.|..++.++..++|.||+|||||...+-.+..+.. ..+ ++ +|+++|+|+...+.+.+.+
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~-~~-~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADP-GK-RVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCC-CC-eEEEECCCHHHHHHHHHHH
Confidence 45567774567777999999999665544443332 222 56 9999999999998887766
No 114
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=97.90 E-value=6e-05 Score=82.78 Aligned_cols=84 Identities=15% Similarity=0.279 Sum_probs=61.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
|..+..-..|....+.|. ++..-+|++|+|||||.. ++++.|-....... +|++|.|++.-.+|+.+-+.+.
T Consensus 406 ~~lpkLN~SQ~~AV~~VL----~rplsLIQGPPGTGKTvt--sa~IVyhl~~~~~~-~VLvcApSNiAVDqLaeKIh~t- 477 (935)
T KOG1802|consen 406 PNLPKLNASQSNAVKHVL----QRPLSLIQGPPGTGKTVT--SATIVYHLARQHAG-PVLVCAPSNIAVDQLAEKIHKT- 477 (935)
T ss_pred CCchhhchHHHHHHHHHH----cCCceeeecCCCCCceeh--hHHHHHHHHHhcCC-ceEEEcccchhHHHHHHHHHhc-
Confidence 445556678888666555 567899999999999986 44555544333345 8999999999999998877763
Q ss_pred hhcccCCCCCCceEEEEecCccc
Q 004910 92 NYQTRHLGPAAKILAIGLSSRKN 114 (724)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~gr~~ 114 (724)
.++++.+.+|++
T Consensus 478 -----------gLKVvRl~aksR 489 (935)
T KOG1802|consen 478 -----------GLKVVRLCAKSR 489 (935)
T ss_pred -----------CceEeeeehhhh
Confidence 367777766654
No 115
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=97.88 E-value=2.4e-05 Score=84.12 Aligned_cols=89 Identities=20% Similarity=0.176 Sum_probs=63.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC-----------CCCCce--EEEEccchh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-----------PENPVK--LIYCTRTVH 78 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~-----------~~~~~~--vvi~T~T~~ 78 (724)
-+|..|.|.|.-.+.. |+..+..++=-|-||+||||||=+|.+.-.... .... + .+|.|||+.
T Consensus 199 ~gFs~Pt~IQsl~lp~---ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~-k~~~LV~tPTRE 274 (731)
T KOG0347|consen 199 LGFSRPTEIQSLVLPA---AIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYV-KPIALVVTPTRE 274 (731)
T ss_pred cCCCCCccchhhcccH---hhccchhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccC-cceeEEecChHH
Confidence 4787778888765443 344446788899999999999999988722111 0112 4 799999999
Q ss_pred hHHHHHHHHHhhhhhcccCCCCCCceEEEEecCc
Q 004910 79 EMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSR 112 (724)
Q Consensus 79 l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr 112 (724)
|..|+..-+..+.+ ...++++.+.|.
T Consensus 275 La~QV~~Hl~ai~~--------~t~i~v~si~GG 300 (731)
T KOG0347|consen 275 LAHQVKQHLKAIAE--------KTQIRVASITGG 300 (731)
T ss_pred HHHHHHHHHHHhcc--------ccCeEEEEeech
Confidence 99999998877643 345676666553
No 116
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.83 E-value=5.4e-05 Score=82.94 Aligned_cols=71 Identities=21% Similarity=0.431 Sum_probs=51.4
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 10 ~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
..||.. .-+.|++ +|.-++..+...+|.+|+|||||....- .+.-+.. .++ +|++|.||+.-.+.+++.|-
T Consensus 180 ~~~~~~-ln~SQk~---Av~~~~~~k~l~~I~GPPGTGKT~TlvE-iI~qlvk--~~k-~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 180 TFFNKN-LNSSQKA---AVSFAINNKDLLIIHGPPGTGKTRTLVE-IISQLVK--QKK-RVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred ccCCcc-ccHHHHH---HHHHHhccCCceEeeCCCCCCceeeHHH-HHHHHHH--cCC-eEEEEcCchHHHHHHHHHhc
Confidence 456665 3678887 4555666668999999999999976432 2333332 357 99999999999999988644
No 117
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=97.74 E-value=0.00012 Score=87.88 Aligned_cols=73 Identities=15% Similarity=0.146 Sum_probs=57.0
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC-CCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~-~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
..||.|.+-+.-+.....++..+|+--..|.|||+-.+. ++.+.... ...+ +++|++|. +++.|+.+|+.++.
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIa-lL~~L~~~~~~~g-p~LIVvP~-SlL~nW~~Ei~kw~ 242 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTIS-LLGYLHEYRGITG-PHMVVAPK-STLGNWMNEIRRFC 242 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHH-HHHHHHHhcCCCC-CEEEEeCh-HHHHHHHHHHHHHC
Confidence 469999999988888888888999999999999997654 34444332 2234 78888886 67789999999873
No 118
>KOG4284 consensus DEAD box protein [Transcription]
Probab=97.66 E-value=2.9e-05 Score=84.87 Aligned_cols=73 Identities=15% Similarity=0.130 Sum_probs=53.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.|..|.|.|...|..+. .+-.++|.|-.|||||+.|-+.|+.-...+.... +++|+|||+...-|+-+-+..+
T Consensus 44 ~f~~ptkiQaaAIP~~~----~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~-q~~Iv~PTREiaVQI~~tv~~v 116 (980)
T KOG4284|consen 44 AFALPTKIQAAAIPAIF----SKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHI-QKVIVTPTREIAVQIKETVRKV 116 (980)
T ss_pred cccCCCchhhhhhhhhh----cccceEEEecCCCCceEEEEeeeehhcCcccCcc-eeEEEecchhhhhHHHHHHHHh
Confidence 34555566665554433 3457999999999999999877776544333334 8999999999999988877765
No 119
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.59 E-value=0.00016 Score=74.09 Aligned_cols=85 Identities=16% Similarity=0.099 Sum_probs=68.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhhh
Q 004910 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (724)
Q Consensus 14 ~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~~ 93 (724)
-..|+|.|...+.+|. +|+..+=.|-||+|||.|+-+|.+.-....+.+- =.+|.|||+.+.-|+-+.+.-+-
T Consensus 27 i~~pTpiQ~~cIpkIL----eGrdcig~AkTGsGKT~AFaLPil~rLsedP~gi-FalvlTPTrELA~QiaEQF~alG-- 99 (442)
T KOG0340|consen 27 IKKPTPIQQACIPKIL----EGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGI-FALVLTPTRELALQIAEQFIALG-- 99 (442)
T ss_pred CCCCCchHhhhhHHHh----cccccccccccCCCcchhhhHHHHHhhccCCCcc-eEEEecchHHHHHHHHHHHHHhc--
Confidence 3457999999998887 7889999999999999999999998877776655 78999999999999999877653
Q ss_pred cccCCCCCCceEEEEecC
Q 004910 94 QTRHLGPAAKILAIGLSS 111 (724)
Q Consensus 94 ~~~~~~~~~~~~~~~l~g 111 (724)
....+++.++.|
T Consensus 100 ------k~l~lK~~vivG 111 (442)
T KOG0340|consen 100 ------KLLNLKVSVIVG 111 (442)
T ss_pred ------ccccceEEEEEc
Confidence 234556555444
No 120
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=97.47 E-value=0.0011 Score=76.45 Aligned_cols=138 Identities=22% Similarity=0.231 Sum_probs=91.2
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchH--HHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhhhcc
Q 004910 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKT--IALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQT 95 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKT--la~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~~~~ 95 (724)
-..|++ ++..++......+|.+=+||||| ++.|+-+|.+ .++ +|+.++-||+-.+.++--|+..
T Consensus 671 N~dQr~---A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~-----~gk-kVLLtsyThsAVDNILiKL~~~----- 736 (1100)
T KOG1805|consen 671 NNDQRQ---ALLKALAAEDYALILGMPGTGKTTTISLLIKILVA-----LGK-KVLLTSYTHSAVDNILIKLKGF----- 736 (1100)
T ss_pred CHHHHH---HHHHHHhccchheeecCCCCCchhhHHHHHHHHHH-----cCC-eEEEEehhhHHHHHHHHHHhcc-----
Confidence 457888 45666777889999999999999 4455544432 267 9999999999988887655532
Q ss_pred cCCCCCCceEEEEecCccccccchHhhhccCchhHHHHHHHhhhhHHHhhhhcCCCCCCCcCcccchhhhhcCCCCCCCC
Q 004910 96 RHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPPGVY 175 (724)
Q Consensus 96 ~~~~~~~~~~~~~l~gr~~~C~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~d~~~c~~~~~~~~~~~~~~~~~~~~ 175 (724)
++.++.|++... +++.++ +.|
T Consensus 737 -------~i~~lRLG~~~k--ih~~v~---------e~~----------------------------------------- 757 (1100)
T KOG1805|consen 737 -------GIYILRLGSEEK--IHPDVE---------EFT----------------------------------------- 757 (1100)
T ss_pred -------CcceeecCCccc--cchHHH---------HHh-----------------------------------------
Confidence 333344443332 222211 111
Q ss_pred CHHHHHHhcccCCCCchHHHHhhhccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCchH
Q 004910 176 TLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDN 241 (724)
Q Consensus 176 ~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~~ 241 (724)
. |.....|.|...++....-.||.|+=--+-++.... ..++++|||||-.+..
T Consensus 758 ------~-~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~plf~~------R~FD~cIiDEASQI~l 810 (1100)
T KOG1805|consen 758 ------L-TNETSEKSYADLKKFLDQTSIVACTCLGINHPLFVN------RQFDYCIIDEASQILL 810 (1100)
T ss_pred ------c-ccccchhhHHHHHHHhCCCcEEEEEccCCCchhhhc------cccCEEEEcccccccc
Confidence 0 223445777777888889999999866665665432 3588999999976654
No 121
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=97.47 E-value=0.00046 Score=80.45 Aligned_cols=138 Identities=11% Similarity=0.097 Sum_probs=80.3
Q ss_pred cchHHhhccCeEEEecCCCCCc-cchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHH
Q 004910 443 AVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 521 (724)
Q Consensus 443 ~l~~l~~~~~s~Il~SaTL~~~-~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~ 521 (724)
.++.+|...+..--|+||.... +.|.+..|++-.. +|-.-| ..- .+.+. .-+....+-+..+.
T Consensus 376 T~QnfFr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~---IPTnkP------~~R------~D~~d-~vy~t~~eK~~Ai~ 439 (913)
T PRK13103 376 TFQNYFRLYNKLSGMTGTADTEAFEFRQIYGLDVVV---IPPNKP------LAR------KDFND-LVYLTAEEKYAAII 439 (913)
T ss_pred hHHHHHHhcchhccCCCCCHHHHHHHHHHhCCCEEE---CCCCCC------ccc------ccCCC-eEEcCHHHHHHHHH
Confidence 3467888888889999999664 3566666665321 111100 000 01110 01122333345666
Q ss_pred HHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004910 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (724)
Q Consensus 522 ~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~ 601 (724)
+.|.++.+ .+..|||-++|-+.-+.+...+++.++-..+.+-+ ....+ ..++. ++ ...|+|-+|+
T Consensus 440 ~ei~~~~~-~GrPVLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk------~~~~E-A~IIa---~A--G~~GaVTIAT-- 504 (913)
T PRK13103 440 TDIKECMA-LGRPVLVGTATIETSEHMSNLLKKEGIEHKVLNAK------YHEKE-AEIIA---QA--GRPGALTIAT-- 504 (913)
T ss_pred HHHHHHHh-CCCCEEEEeCCHHHHHHHHHHHHHcCCcHHHhccc------cchhH-HHHHH---cC--CCCCcEEEec--
Confidence 66666553 67799999999999999999998876533322111 11111 12333 21 3368899987
Q ss_pred CcccccccCC
Q 004910 602 GKVAEGIDFD 611 (724)
Q Consensus 602 g~~~EGiD~~ 611 (724)
.-...|-|+.
T Consensus 505 NMAGRGTDIk 514 (913)
T PRK13103 505 NMAGRGTDIL 514 (913)
T ss_pred cCCCCCCCEe
Confidence 5788999995
No 122
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=97.41 E-value=9.4e-05 Score=73.40 Aligned_cols=75 Identities=11% Similarity=0.069 Sum_probs=60.0
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.++|++|...|...+..|. +|+.++++|..|||||.+|-++.+.-..-.. ...+++|.+||+.|..|+-+-+..|
T Consensus 44 ~yGfekPS~IQqrAi~~Il----kGrdViaQaqSGTGKTa~~si~vlq~~d~~~-r~tQ~lilsPTRELa~Qi~~vi~al 118 (400)
T KOG0328|consen 44 AYGFEKPSAIQQRAIPQIL----KGRDVIAQAQSGTGKTATFSISVLQSLDISV-RETQALILSPTRELAVQIQKVILAL 118 (400)
T ss_pred HhccCCchHHHhhhhhhhh----cccceEEEecCCCCceEEEEeeeeeeccccc-ceeeEEEecChHHHHHHHHHHHHHh
Confidence 3789999999998887776 7899999999999999998877654332222 2248999999999999988876665
No 123
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=97.37 E-value=0.00036 Score=82.54 Aligned_cols=73 Identities=19% Similarity=0.267 Sum_probs=59.8
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 9 ~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
...|||+. -|-|++.+. +|+.+..++++||||+|||+..-. |++++... +. |++|.||.++|-+|...|+.
T Consensus 113 ~~~~~F~L-D~fQ~~a~~----~Ler~esVlV~ApTssGKTvVaey-Ai~~al~~--~q-rviYTsPIKALsNQKyrdl~ 183 (1041)
T COG4581 113 AREYPFEL-DPFQQEAIA----ILERGESVLVCAPTSSGKTVVAEY-AIALALRD--GQ-RVIYTSPIKALSNQKYRDLL 183 (1041)
T ss_pred HHhCCCCc-CHHHHHHHH----HHhCCCcEEEEccCCCCcchHHHH-HHHHHHHc--CC-ceEeccchhhhhhhHHHHHH
Confidence 34589985 799998764 456889999999999999998876 46666655 56 89999999999999999876
Q ss_pred hh
Q 004910 89 LL 90 (724)
Q Consensus 89 ~l 90 (724)
..
T Consensus 184 ~~ 185 (1041)
T COG4581 184 AK 185 (1041)
T ss_pred HH
Confidence 53
No 124
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.27 E-value=0.00063 Score=68.62 Aligned_cols=67 Identities=27% Similarity=0.364 Sum_probs=44.4
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHH------hhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV------LSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~------~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
-+.|.+.+ ..++.+....+|.+|+|||||.... .++... .....++ +|+++++|+.-.+++++.+..
T Consensus 3 n~~Q~~Ai---~~~~~~~~~~~i~GpPGTGKT~~l~-~~i~~~~~~~~~~~~~~~~-~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 3 NESQREAI---QSALSSNGITLIQGPPGTGKTTTLA-SIIAQLLQRFKSRSADRGK-KILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp -HHHHHHH---HHHCTSSE-EEEE-STTSSHHHHHH-HHHHHH-------HCCCSS--EEEEESSHHHHHHHHHHHHC
T ss_pred CHHHHHHH---HHHHcCCCCEEEECCCCCChHHHHH-HHHHHhccchhhhhhhccc-cceeecCCchhHHHHHHHHHh
Confidence 46788754 4455554469999999999995433 333333 1123356 999999999999999998776
No 125
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.15 E-value=0.0026 Score=73.55 Aligned_cols=70 Identities=21% Similarity=0.246 Sum_probs=57.6
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.-+.|....+.|...+..-+..++.+.||+|||-.||-.+-... . .|+ .+++.+|-+++..|+++.++..
T Consensus 199 Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L-~--~Gk-qvLvLVPEI~Ltpq~~~rf~~r 268 (730)
T COG1198 199 LNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVL-A--QGK-QVLVLVPEIALTPQLLARFKAR 268 (730)
T ss_pred cCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHH-H--cCC-EEEEEeccccchHHHHHHHHHH
Confidence 46889999988888873346899999999999999997644433 2 367 9999999999999999988864
No 126
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=97.11 E-value=0.00032 Score=63.86 Aligned_cols=54 Identities=20% Similarity=0.232 Sum_probs=36.9
Q ss_pred HhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 33 ~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.+|+.-+|...+|+|||--+|--.+.-+... +. ||+++.||+...+.+.+.|+.
T Consensus 2 ~kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~--~~-rvLvL~PTRvva~em~~aL~~ 55 (148)
T PF07652_consen 2 RKGELTVLDLHPGAGKTRRVLPEIVREAIKR--RL-RVLVLAPTRVVAEEMYEALKG 55 (148)
T ss_dssp STTEEEEEE--TTSSTTTTHHHHHHHHHHHT--T---EEEEESSHHHHHHHHHHTTT
T ss_pred CCCceeEEecCCCCCCcccccHHHHHHHHHc--cC-eEEEecccHHHHHHHHHHHhc
Confidence 4567789999999999988775444433332 45 999999999988877766553
No 127
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=97.02 E-value=0.0015 Score=77.31 Aligned_cols=73 Identities=25% Similarity=0.172 Sum_probs=58.2
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhh-CCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS-KPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~-~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.++.|....+.+......+..++++||||.|||.+.+.++..-... ..... |++++.|+++..+++.+.++..
T Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~-r~i~vlP~~t~ie~~~~r~~~~ 269 (733)
T COG1203 196 GYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKS-RVIYVLPFRTIIEDMYRRAKEI 269 (733)
T ss_pred hhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccc-eEEEEccHHHHHHHHHHHHHhh
Confidence 3788888887766655544489999999999999999888766554 22245 9999999999999999987765
No 128
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=96.86 E-value=0.0042 Score=69.96 Aligned_cols=73 Identities=14% Similarity=0.155 Sum_probs=57.5
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-CCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~-~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
..|+.|.+=++=++.-..+|-++++--..|-|||+--+ +.+.|.+... ..+ +-+|.+|- +-++.+++|++++.
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtI-s~l~yl~~~~~~~G-PfLVi~P~-StL~NW~~Ef~rf~ 240 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTI-SLLGYLKGRKGIPG-PFLVIAPK-STLDNWMNEFKRFT 240 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHH-HHHHHHHHhcCCCC-CeEEEeeH-hhHHHHHHHHHHhC
Confidence 46999999999999999999999999999999998754 3566666532 234 67777774 55678999999974
No 129
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=96.82 E-value=0.00069 Score=70.51 Aligned_cols=75 Identities=16% Similarity=0.145 Sum_probs=58.6
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.|+|++|...|...+--+. .|.++.+.|++|||||.+++++++.... .+.....+++..||+.|..|+.+-...+
T Consensus 43 ~yGFekPSaIQqraI~p~i----~G~dv~~qaqsgTgKt~af~i~iLq~iD-~~~ke~qalilaPtreLa~qi~~v~~~l 117 (397)
T KOG0327|consen 43 AYGFEKPSAIQQRAILPCI----KGHDVIAQAQSGTGKTAAFLISILQQID-MSVKETQALILAPTRELAQQIQKVVRAL 117 (397)
T ss_pred hhccCCchHHHhccccccc----cCCceeEeeeccccchhhhHHHHHhhcC-cchHHHHHHHhcchHHHHHHHHHHHHhh
Confidence 4899999999988665554 6789999999999999999999876531 2222337999999999999998644444
No 130
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=96.73 E-value=0.0031 Score=61.86 Aligned_cols=56 Identities=27% Similarity=0.239 Sum_probs=39.7
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchh
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~ 78 (724)
..+.|..+++.+. +...+++.+|.|||||+..+..|+..... ..-+ |++|+-|+.+
T Consensus 5 ~~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~-g~~~-kiii~Rp~v~ 60 (205)
T PF02562_consen 5 KNEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKE-GEYD-KIIITRPPVE 60 (205)
T ss_dssp -SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHT-TS-S-EEEEEE-S--
T ss_pred CCHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHh-CCCc-EEEEEecCCC
Confidence 4688999988776 67799999999999999999988877655 3334 7888877754
No 131
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.62 E-value=0.0073 Score=59.45 Aligned_cols=62 Identities=19% Similarity=0.198 Sum_probs=43.0
Q ss_pred CHHHHHHHHHHHHHHHhC-CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHH
Q 004910 18 YPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~-~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
.+.|++++..+. .++ +..++.+|.|||||... ..+....... +. +|+++++|+.....+-+.
T Consensus 3 ~~~Q~~a~~~~l---~~~~~~~~l~G~aGtGKT~~l-~~~~~~~~~~--g~-~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 3 NEEQREAVRAIL---TSGDRVSVLQGPAGTGKTTLL-KALAEALEAA--GK-RVIGLAPTNKAAKELREK 65 (196)
T ss_dssp -HHHHHHHHHHH---HCTCSEEEEEESTTSTHHHHH-HHHHHHHHHT--T---EEEEESSHHHHHHHHHH
T ss_pred CHHHHHHHHHHH---hcCCeEEEEEECCCCCHHHHH-HHHHHHHHhC--CC-eEEEECCcHHHHHHHHHh
Confidence 588999887764 344 57899999999999753 3333333333 45 999999999887775544
No 132
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=96.62 E-value=0.026 Score=62.87 Aligned_cols=96 Identities=23% Similarity=0.278 Sum_probs=67.6
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccC
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~ 610 (724)
...+++||..+-.....+...+...++ ...+.- .....++..++++|+. ++--+|+++ .-+.||||+
T Consensus 282 ~~~~~lif~~~~~~a~~i~~~~~~~~~------~~~it~-~t~~~eR~~il~~fr~----g~~~~lv~~--~vl~EGvDi 348 (442)
T COG1061 282 RGDKTLIFASDVEHAYEIAKLFLAPGI------VEAITG-ETPKEEREAILERFRT----GGIKVLVTV--KVLDEGVDI 348 (442)
T ss_pred CCCcEEEEeccHHHHHHHHHHhcCCCc------eEEEEC-CCCHHHHHHHHHHHHc----CCCCEEEEe--eeccceecC
Confidence 356999999999999999888765432 011222 2223567889999986 344577766 479999999
Q ss_pred CCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCC
Q 004910 611 DRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSK 671 (724)
Q Consensus 611 ~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~ 671 (724)
|+ +.++|+++ |..+ .+...|.+||++|..
T Consensus 349 P~--~~~~i~~~-~t~S-----------------------------~~~~~Q~lGR~LR~~ 377 (442)
T COG1061 349 PD--ADVLIILR-PTGS-----------------------------RRLFIQRLGRGLRPA 377 (442)
T ss_pred CC--CcEEEEeC-CCCc-----------------------------HHHHHHHhhhhccCC
Confidence 98 56678777 4322 255679999999943
No 133
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=96.56 E-value=0.0088 Score=49.00 Aligned_cols=43 Identities=23% Similarity=0.499 Sum_probs=33.3
Q ss_pred hhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCC
Q 004910 575 VETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPF 625 (724)
Q Consensus 575 ~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPf 625 (724)
.+....++.|.+ +...||+++ ..+.+|+|+++ ++.||+.+.|+
T Consensus 24 ~~r~~~~~~f~~----~~~~vli~t--~~~~~Gi~~~~--~~~vi~~~~~~ 66 (82)
T smart00490 24 EEREEILEKFNN----GKIKVLVAT--DVAERGLDLPG--VDLVIIYDLPW 66 (82)
T ss_pred HHHHHHHHHHHc----CCCeEEEEC--ChhhCCcChhc--CCEEEEeCCCC
Confidence 345567787875 466788876 58999999987 88999999754
No 134
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=96.50 E-value=0.004 Score=64.29 Aligned_cols=69 Identities=22% Similarity=0.272 Sum_probs=54.5
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.|..+++||-|.+.++.+. .++.+++-.|||-|||++|-+||+. .+ + -.++.+|-+++.+.-+-.|+.|
T Consensus 89 ~f~lekfrplq~~ain~~m----a~ed~~lil~tgggkslcyqlpal~-----ad-g-~alvi~plislmedqil~lkql 157 (695)
T KOG0353|consen 89 QFHLEKFRPLQLAAINATM----AGEDAFLILPTGGGKSLCYQLPALC-----AD-G-FALVICPLISLMEDQILQLKQL 157 (695)
T ss_pred HhhHHhcChhHHHHhhhhh----ccCceEEEEeCCCccchhhhhhHHh-----cC-C-ceEeechhHHHHHHHHHHHHHh
Confidence 4666788999999887665 6889999999999999999999986 22 3 4677788888877655566664
No 135
>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=96.49 E-value=0.045 Score=59.30 Aligned_cols=81 Identities=12% Similarity=0.110 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHhcc-cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeE
Q 004910 517 ARNYGKLLVEMVSI-VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAV 595 (724)
Q Consensus 517 ~~~~~~~i~~~~~~-~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~v 595 (724)
...+++.+.+..+. .++.+|||+++....+.++..+++.+. ...+..-........ +-+ .++..|
T Consensus 256 l~~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l~~~L~~~~~------~~~~~~l~g~~~~~~----R~~----~~~~~i 321 (357)
T TIGR03158 256 LSELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQQGL------GDDIGRITGFAPKKD----RER----AMQFDI 321 (357)
T ss_pred HHHHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHhhhCC------CceEEeeecCCCHHH----HHH----hccCCE
Confidence 44455555555543 446899999999999999999876421 011211111211111 111 135579
Q ss_pred EEEeecCcccccccCCCC
Q 004910 596 FFSVARGKVAEGIDFDRH 613 (724)
Q Consensus 596 L~~v~~g~~~EGiD~~~~ 613 (724)
|+|+ ..+..|||++++
T Consensus 322 LVaT--dv~~rGiDi~~~ 337 (357)
T TIGR03158 322 LLGT--STVDVGVDFKRD 337 (357)
T ss_pred EEEe--cHHhcccCCCCc
Confidence 9887 589999999986
No 136
>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=96.45 E-value=0.0061 Score=49.96 Aligned_cols=43 Identities=26% Similarity=0.470 Sum_probs=34.5
Q ss_pred hhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCC
Q 004910 575 VETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPF 625 (724)
Q Consensus 575 ~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPf 625 (724)
.....++++|+. ++..||+++ ..+.+|||+|+ ++.||..+.|+
T Consensus 20 ~~r~~~~~~f~~----~~~~vli~t--~~~~~Gid~~~--~~~vi~~~~~~ 62 (78)
T PF00271_consen 20 KERQEILKKFNS----GEIRVLIAT--DILGEGIDLPD--ASHVIFYDPPW 62 (78)
T ss_dssp HHHHHHHHHHHT----TSSSEEEES--CGGTTSSTSTT--ESEEEESSSES
T ss_pred HHHHHHHHHhhc----cCceEEEee--ccccccccccc--cccccccccCC
Confidence 345667888876 566899987 68999999995 88899999754
No 137
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=96.42 E-value=0.11 Score=61.41 Aligned_cols=116 Identities=12% Similarity=0.149 Sum_probs=73.3
Q ss_pred HHHHHHhcccCCcEEEEecC--------hHHHHHHHHHHhhcccHHHHhcCcceEEeCC-CchhHHHHHHHHHHhccCCC
Q 004910 522 KLLVEMVSIVPDGIVCFFVS--------YSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGR 592 (724)
Q Consensus 522 ~~i~~~~~~~~g~~Lvlf~S--------y~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~-~~~~~~~~~~~f~~~~~~~~ 592 (724)
+.+.+.+ ...+.++||+|. ....+.+++.|.+. +...+..++.++ ...++..++++|++ |+
T Consensus 462 ~~i~~~~-~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~-----~~~~~v~~lHG~m~~~eR~~i~~~F~~----g~ 531 (681)
T PRK10917 462 ERIREEI-AKGRQAYVVCPLIEESEKLDLQSAEETYEELQEA-----FPELRVGLLHGRMKPAEKDAVMAAFKA----GE 531 (681)
T ss_pred HHHHHHH-HcCCcEEEEEcccccccchhHHHHHHHHHHHHHH-----CCCCcEEEEeCCCCHHHHHHHHHHHHc----CC
Confidence 3444433 345689999984 44455566666542 111123344443 23456778899985 66
Q ss_pred CeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCC
Q 004910 593 GAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA 672 (724)
Q Consensus 593 ~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~ 672 (724)
-.||+++ ..+.+|||+|+ .++||+...|--. +..+.|..||.=|...
T Consensus 532 ~~ILVaT--~vie~GiDip~--v~~VIi~~~~r~g-----------------------------ls~lhQ~~GRvGR~g~ 578 (681)
T PRK10917 532 IDILVAT--TVIEVGVDVPN--ATVMVIENAERFG-----------------------------LAQLHQLRGRVGRGAA 578 (681)
T ss_pred CCEEEEC--cceeeCcccCC--CcEEEEeCCCCCC-----------------------------HHHHHHHhhcccCCCC
Confidence 6899987 58999999998 4668887755210 1345699999999754
Q ss_pred CeEEEEEEe
Q 004910 673 DYGMMIFAD 681 (724)
Q Consensus 673 D~g~vvllD 681 (724)
.|..+++-
T Consensus 579 -~g~~ill~ 586 (681)
T PRK10917 579 -QSYCVLLY 586 (681)
T ss_pred -ceEEEEEE
Confidence 46655554
No 138
>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=96.41 E-value=0.014 Score=67.94 Aligned_cols=67 Identities=24% Similarity=0.342 Sum_probs=49.7
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
..-+.|.+.+ ..++.++...+|.+|+|||||..... ++..+.. .++ +|+++++|+.-.+++++.|..
T Consensus 157 ~ln~~Q~~Av---~~~l~~~~~~lI~GpPGTGKT~t~~~-ii~~~~~--~g~-~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 157 NLNESQKEAV---SFALSSKDLFLIHGPPGTGKTRTLVE-LIRQLVK--RGL-RVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCHHHHHHH---HHHhcCCCeEEEEcCCCCCHHHHHHH-HHHHHHH--cCC-CEEEEcCcHHHHHHHHHHHHh
Confidence 4578898854 45666668999999999999965432 2332222 256 999999999999999987765
No 139
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=96.41 E-value=0.0055 Score=64.53 Aligned_cols=71 Identities=18% Similarity=0.148 Sum_probs=52.1
Q ss_pred eeCCCCC-CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 10 VYFPYDN-IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 10 ~~Fp~~~-~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
-.|+|.+ -.|-|.+.+.. +...+..+.+..|||.||||+|-+|+|.. +. =.||.+|-.+|+.--++-|.
T Consensus 13 K~FGh~kFKs~LQE~A~~c---~VK~k~DVyVsMPTGaGKSLCyQLPaL~~------~g-ITIV~SPLiALIkDQiDHL~ 82 (641)
T KOG0352|consen 13 KLFGHKKFKSRLQEQAINC---IVKRKCDVYVSMPTGAGKSLCYQLPALVH------GG-ITIVISPLIALIKDQIDHLK 82 (641)
T ss_pred HHhCchhhcChHHHHHHHH---HHhccCcEEEeccCCCchhhhhhchHHHh------CC-eEEEehHHHHHHHHHHHHHH
Confidence 3577763 25788885444 44567799999999999999999999862 23 35666788888776677666
Q ss_pred hh
Q 004910 89 LL 90 (724)
Q Consensus 89 ~l 90 (724)
+|
T Consensus 83 ~L 84 (641)
T KOG0352|consen 83 RL 84 (641)
T ss_pred hc
Confidence 65
No 140
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=96.32 E-value=0.044 Score=67.43 Aligned_cols=114 Identities=11% Similarity=0.098 Sum_probs=75.8
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhccc--HHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDSGI--LKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~~~--~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGi 608 (724)
.++.++||+.|....+.+.+.+.+... +..........+.+. ......++++|+.. ....|+++| +-+.+||
T Consensus 697 ~~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~~~~~~v~~itg~-~~~~~~li~~Fk~~---~~p~IlVsv--dmL~TG~ 770 (1123)
T PRK11448 697 GEGKTLIFAATDAHADMVVRLLKEAFKKKYGQVEDDAVIKITGS-IDKPDQLIRRFKNE---RLPNIVVTV--DLLTTGI 770 (1123)
T ss_pred CCCcEEEEEcCHHHHHHHHHHHHHHHHhhcCCcCccceEEEeCC-ccchHHHHHHHhCC---CCCeEEEEe--cccccCC
Confidence 458999999999998888887764200 000000011123232 23456789999851 223578877 6899999
Q ss_pred cCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCC--CeEEEEEEec
Q 004910 609 DFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA--DYGMMIFADK 682 (724)
Q Consensus 609 D~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~--D~g~vvllD~ 682 (724)
|+|. +.+||+.+-|. + .....|.+||..|--. ++-.++|+|-
T Consensus 771 DvP~--v~~vVf~rpvk----S--------------------------~~lf~QmIGRgtR~~~~~~K~~f~I~D~ 814 (1123)
T PRK11448 771 DVPS--ICNLVFLRRVR----S--------------------------RILYEQMLGRATRLCPEIGKTHFRIFDA 814 (1123)
T ss_pred Cccc--ccEEEEecCCC----C--------------------------HHHHHHHHhhhccCCccCCCceEEEEeh
Confidence 9996 78899988441 1 2456799999999766 5777888884
No 141
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.26 E-value=0.0067 Score=59.66 Aligned_cols=90 Identities=11% Similarity=0.065 Sum_probs=70.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
-+|+.|...|.+.+.... -|-.++..|-.|.|||..+.++.+.-..-. .+.+.|++.++|+.+.-|+-+|..++.
T Consensus 60 cgfehpsevqhecipqai----lgmdvlcqaksgmgktavfvl~tlqqiepv-~g~vsvlvmchtrelafqi~~ey~rfs 134 (387)
T KOG0329|consen 60 CGFEHPSEVQHECIPQAI----LGMDVLCQAKSGMGKTAVFVLATLQQIEPV-DGQVSVLVMCHTRELAFQISKEYERFS 134 (387)
T ss_pred ccCCCchHhhhhhhhHHh----hcchhheecccCCCceeeeehhhhhhcCCC-CCeEEEEEEeccHHHHHHHHHHHHHHH
Confidence 478888899999876554 466789999999999999988877543222 345589999999999999999999988
Q ss_pred hhcccCCCCCCceEEEEecCcc
Q 004910 92 NYQTRHLGPAAKILAIGLSSRK 113 (724)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~gr~ 113 (724)
+|.+ .+++++.-|.-
T Consensus 135 kymP-------~vkvaVFfGG~ 149 (387)
T KOG0329|consen 135 KYMP-------SVKVSVFFGGL 149 (387)
T ss_pred hhCC-------CceEEEEEcce
Confidence 7753 45666666653
No 142
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.18 E-value=0.018 Score=68.43 Aligned_cols=74 Identities=22% Similarity=0.165 Sum_probs=57.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC----------------------------------CcEEEEcCCCcchHHHHHHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAK----------------------------------GHCLLEMPTGTGKTIALLSLIT 57 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~----------------------------------~~~~iEApTGtGKTla~L~~al 57 (724)
|-|+. =|+|.+.+.+|..+|..= .++.++.+||||||++||-..+
T Consensus 3 ~~~e~-l~hQ~~av~ai~~~F~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~n~~~~M~TGtGKT~~~~~~i~ 81 (986)
T PRK15483 3 ILLEE-LPHQEQALAAILAAFTGIDIASADPNHYANPLIKLRYENGIPGRSRTRIDDKANIDIKMETGTGKTYVYTRLMY 81 (986)
T ss_pred ccccc-ChhHHHHHHHHHHHhcCCCccCCccccccCcccccchhhccccccccccCccceEEEEeCCCCCHHHHHHHHHH
Confidence 55777 699999999999988531 3689999999999999998766
Q ss_pred HHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 58 SYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 58 ~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
...+..+ -. ++||++|+.+-.+.+.+-+.
T Consensus 82 ~l~~~~~-~~-~fii~vp~~aI~egv~~~l~ 110 (986)
T PRK15483 82 ELHQKYG-LF-KFIIVVPTPAIKEGTRNFIQ 110 (986)
T ss_pred HHHHHcC-Cc-EEEEEeCCHHHHHHHHHHhh
Confidence 6555443 23 89999999888777765433
No 143
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=96.16 E-value=0.0038 Score=74.34 Aligned_cols=68 Identities=19% Similarity=0.255 Sum_probs=53.8
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHH
Q 004910 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 9 ~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el 87 (724)
...|++...||.|.+++. +...|+..++..|||.||+++|-+||+.+ ++ -.+|.+|-.+|++-.+.-|
T Consensus 257 ~~~Fg~~~FR~~Q~eaI~----~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~------~g-itvVISPL~SLm~DQv~~L 324 (941)
T KOG0351|consen 257 KEVFGHKGFRPNQLEAIN----ATLSGKDCFVLMPTGGGKSLCYQLPALLL------GG-VTVVISPLISLMQDQVTHL 324 (941)
T ss_pred HHHhccccCChhHHHHHH----HHHcCCceEEEeecCCceeeEeecccccc------CC-ceEEeccHHHHHHHHHHhh
Confidence 346899999999999876 44589999999999999999999999874 24 4677778888865444433
No 144
>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=96.15 E-value=0.015 Score=61.59 Aligned_cols=65 Identities=25% Similarity=0.328 Sum_probs=45.7
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC--CCCceEEEEccchhhHHHHHHHHHhh
Q 004910 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~--~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.+.|.+++.. .+++++|.|+.|||||.+.+.-++ |+.... ... +|++.|.|+.....+.+.+...
T Consensus 2 ~~eQ~~~i~~------~~~~~lV~a~AGSGKT~~l~~ri~-~ll~~~~~~~~-~Il~lTft~~aa~e~~~ri~~~ 68 (315)
T PF00580_consen 2 TDEQRRIIRS------TEGPLLVNAGAGSGKTTTLLERIA-YLLYEGGVPPE-RILVLTFTNAAAQEMRERIREL 68 (315)
T ss_dssp -HHHHHHHHS-------SSEEEEEE-TTSSHHHHHHHHHH-HHHHTSSSTGG-GEEEEESSHHHHHHHHHHHHHH
T ss_pred CHHHHHHHhC------CCCCEEEEeCCCCCchHHHHHHHH-HhhccccCChH-HheecccCHHHHHHHHHHHHHh
Confidence 4678877653 468999999999999998776543 333322 234 8999999999888777666654
No 145
>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=96.15 E-value=0.057 Score=62.88 Aligned_cols=79 Identities=18% Similarity=0.182 Sum_probs=54.3
Q ss_pred ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCC-chhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004910 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (724)
Q Consensus 530 ~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~-~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGi 608 (724)
..+..+|||+.+-..++.++..+. . -++.+.. ..++..++++|+.. +.-.+|+++ .-..|||
T Consensus 494 ~~g~kiLVF~~~~~~l~~~a~~L~-----------~-~~I~G~ts~~ER~~il~~Fr~~---~~i~vLv~S--kVgdeGI 556 (732)
T TIGR00603 494 QRGDKIIVFSDNVFALKEYAIKLG-----------K-PFIYGPTSQQERMQILQNFQHN---PKVNTIFLS--KVGDTSI 556 (732)
T ss_pred hcCCeEEEEeCCHHHHHHHHHHcC-----------C-ceEECCCCHHHHHHHHHHHHhC---CCccEEEEe--ccccccc
Confidence 345699999999888887776653 1 1333433 34678899999851 233466654 3568999
Q ss_pred cCCCCCceEEEEEccCCCC
Q 004910 609 DFDRHYGRLVIMFGVPFQY 627 (724)
Q Consensus 609 D~~~~~~r~vii~glPfp~ 627 (724)
|+|+ +.+||++..|+.+
T Consensus 557 DlP~--a~vvI~~s~~~gS 573 (732)
T TIGR00603 557 DLPE--ANVLIQISSHYGS 573 (732)
T ss_pred CCCC--CCEEEEeCCCCCC
Confidence 9998 6778888877654
No 146
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=96.03 E-value=0.22 Score=58.21 Aligned_cols=107 Identities=11% Similarity=0.173 Sum_probs=67.6
Q ss_pred cCCcEEEEecChH--------HHHHHHHHHhhcccHHHHhcCcceEEeCCC-chhHHHHHHHHHHhccCCCCeEEEEeec
Q 004910 531 VPDGIVCFFVSYS--------YMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFSVAR 601 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~--------~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~-~~~~~~~~~~f~~~~~~~~~~vL~~v~~ 601 (724)
.++.++|++|..+ ..+.+++.+.+. +.+.+..++.++- ..++..++++|++ |+..||+|+
T Consensus 447 ~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~-----~~~~~v~~lHG~m~~~eR~~i~~~F~~----g~~~ILVaT-- 515 (630)
T TIGR00643 447 KGRQAYVVYPLIEESEKLDLKAAEALYERLKKA-----FPKYNVGLLHGRMKSDEKEAVMEEFRE----GEVDILVAT-- 515 (630)
T ss_pred hCCcEEEEEccccccccchHHHHHHHHHHHHhh-----CCCCcEEEEeCCCCHHHHHHHHHHHHc----CCCCEEEEC--
Confidence 4568999998753 344445555431 1112233444432 2456778999986 677899987
Q ss_pred CcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEE
Q 004910 602 GKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFA 680 (724)
Q Consensus 602 g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvll 680 (724)
..+..|||+|+ .+.||+...|-.. +..+.|..||+=|.... |..+++
T Consensus 516 ~vie~GvDiP~--v~~VIi~~~~r~g-----------------------------ls~lhQ~~GRvGR~g~~-g~~il~ 562 (630)
T TIGR00643 516 TVIEVGVDVPN--ATVMVIEDAERFG-----------------------------LSQLHQLRGRVGRGDHQ-SYCLLV 562 (630)
T ss_pred ceeecCcccCC--CcEEEEeCCCcCC-----------------------------HHHHHHHhhhcccCCCC-cEEEEE
Confidence 58999999998 5667877654210 23567999999887554 544443
No 147
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=96.02 E-value=0.022 Score=67.65 Aligned_cols=92 Identities=20% Similarity=0.215 Sum_probs=64.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCC-------CCceEEEEccchhhHHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-------NPVKLIYCTRTVHEMEKTL 84 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~-------~~~~vvi~T~T~~l~~Q~~ 84 (724)
|+++..-+.|-.+.. .++....+++++||||+|||-..+.-+|.-+..+.. ...+|+|-.|+++|.+-++
T Consensus 305 ~g~~sLNrIQS~v~d---aAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~V 381 (1674)
T KOG0951|consen 305 FGKQSLNRIQSKVYD---AALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMV 381 (1674)
T ss_pred ccchhhhHHHHHHHH---HHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHH
Confidence 344444444444332 245556899999999999999888877766543321 1238999999999999999
Q ss_pred HHHHhhhhhcccCCCCCCceEEEEecCccc
Q 004910 85 AELKLLHNYQTRHLGPAAKILAIGLSSRKN 114 (724)
Q Consensus 85 ~el~~l~~~~~~~~~~~~~~~~~~l~gr~~ 114 (724)
..+-+-. .+.+++++-+.|-++
T Consensus 382 gsfSkRl--------a~~GI~V~ElTgD~~ 403 (1674)
T KOG0951|consen 382 GSFSKRL--------APLGITVLELTGDSQ 403 (1674)
T ss_pred HHHHhhc--------cccCcEEEEeccccc
Confidence 9765532 256788888888765
No 148
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=95.98 E-value=0.037 Score=64.78 Aligned_cols=138 Identities=9% Similarity=0.078 Sum_probs=79.8
Q ss_pred cchHHhhccCeEEEecCCCCCcc-chhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHH
Q 004910 443 AVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 521 (724)
Q Consensus 443 ~l~~l~~~~~s~Il~SaTL~~~~-~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~ 521 (724)
.++.+|...+.+.-|+||..... .|.+..|++-.. +|...|... .+.+. .=+.+..+-+..+.
T Consensus 351 T~QnfFr~Y~kL~GMTGTa~te~~Ef~~iY~l~vv~---IPtnkp~~R------------~d~~d-~v~~t~~~K~~AI~ 414 (870)
T CHL00122 351 TYQNFFLLYPKLSGMTGTAKTEELEFEKIYNLEVVC---IPTHRPMLR------------KDLPD-LIYKDELSKWRAIA 414 (870)
T ss_pred eHHHHHHhCchhcccCCCCHHHHHHHHHHhCCCEEE---CCCCCCccc------------eeCCC-eEEeCHHHHHHHHH
Confidence 34778888889999999997643 666666765321 111111100 01110 00112332335566
Q ss_pred HHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCC--chhHHHHHHHHHHhccCCCCeEEEEe
Q 004910 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD--VVETTLALDNYRKACDCGRGAVFFSV 599 (724)
Q Consensus 522 ~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~--~~~~~~~~~~f~~~~~~~~~~vL~~v 599 (724)
+.+.+.. ..+..+||-+.|-+.=+.+...+.+.++-. .|+- .++ ...-..++.+ + ...|+|-+|+
T Consensus 415 ~ei~~~~-~~grPVLIgT~SIe~SE~ls~~L~~~gi~h------~vLN-Ak~~~~~~EA~IIA~---A--G~~G~VTIAT 481 (870)
T CHL00122 415 DECLQMH-QTGRPILIGTTTIEKSELLSQLLKEYRLPH------QLLN-AKPENVRRESEIVAQ---A--GRKGSITIAT 481 (870)
T ss_pred HHHHHHH-hcCCCEEEeeCCHHHHHHHHHHHHHcCCcc------ceee-CCCccchhHHHHHHh---c--CCCCcEEEec
Confidence 6665544 366799999999999999999998776421 2321 111 1111223332 1 3467899987
Q ss_pred ecCcccccccCC
Q 004910 600 ARGKVAEGIDFD 611 (724)
Q Consensus 600 ~~g~~~EGiD~~ 611 (724)
.-...|.|+.
T Consensus 482 --NMAGRGTDI~ 491 (870)
T CHL00122 482 --NMAGRGTDII 491 (870)
T ss_pred --cccCCCcCee
Confidence 5788999983
No 149
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=95.88 E-value=0.11 Score=60.52 Aligned_cols=74 Identities=19% Similarity=0.166 Sum_probs=59.8
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCC-cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 10 VYFPYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 10 ~~Fp~~~~r~~Q~e~~~~v~~~l~~~~-~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
+.=||.+ .-.|.+.+.++.+++.+++ ..++-+-||+|||+..- .+ ++. .++ +++|.|+++.+..|+.+|++
T Consensus 4 ~~~~~~~-~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a--~~-~~~---~~~-p~Lvi~~n~~~A~ql~~el~ 75 (655)
T TIGR00631 4 LHSPFQP-AGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMA--NV-IAQ---VNR-PTLVIAHNKTLAAQLYNEFK 75 (655)
T ss_pred eccCCCC-ChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHH--HH-HHH---hCC-CEEEEECCHHHHHHHHHHHH
Confidence 4558885 8999999999999998773 67799999999998632 22 222 135 89999999999999999999
Q ss_pred hhh
Q 004910 89 LLH 91 (724)
Q Consensus 89 ~l~ 91 (724)
.+.
T Consensus 76 ~f~ 78 (655)
T TIGR00631 76 EFF 78 (655)
T ss_pred HhC
Confidence 874
No 150
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=95.86 E-value=0.12 Score=60.66 Aligned_cols=76 Identities=20% Similarity=0.178 Sum_probs=60.7
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhCC-cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHH
Q 004910 8 VTVYFPYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 8 ~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~-~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
..+.=||. |++.|...+.++.+++.++. ..++.+.||+|||+.+. .+. ... ++ +++|.|++..+.+|+.++
T Consensus 5 ~~~~~~~~-~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia--~l~--~~~--~r-~vLIVt~~~~~A~~l~~d 76 (652)
T PRK05298 5 FKLVSPYK-PAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMA--NVI--ARL--QR-PTLVLAHNKTLAAQLYSE 76 (652)
T ss_pred cccccCCC-CChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHH--HHH--HHh--CC-CEEEEECCHHHHHHHHHH
Confidence 34566888 59999999999999997763 66799999999998743 222 211 35 899999999999999999
Q ss_pred HHhhh
Q 004910 87 LKLLH 91 (724)
Q Consensus 87 l~~l~ 91 (724)
|+.+.
T Consensus 77 L~~~~ 81 (652)
T PRK05298 77 FKEFF 81 (652)
T ss_pred HHHhc
Confidence 98874
No 151
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=95.79 E-value=0.042 Score=62.49 Aligned_cols=70 Identities=19% Similarity=0.111 Sum_probs=45.0
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
-+.|.-=++=+.-..+++-.+|+-=-.|-|||.-.+ +.++|..+.+..+ +=+|++|. +-++.+++|+.++
T Consensus 401 kdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvI-aFlayLkq~g~~g-pHLVVvPs-STleNWlrEf~kw 470 (941)
T KOG0389|consen 401 KDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVI-AFLAYLKQIGNPG-PHLVVVPS-STLENWLREFAKW 470 (941)
T ss_pred cchhhhhHHHHHHHHHccccceehhhccCcchhHHH-HHHHHHHHcCCCC-CcEEEecc-hhHHHHHHHHHHh
Confidence 355655554444444555578888899999997653 4566766655445 44555554 3467888888886
No 152
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=95.75 E-value=0.046 Score=62.22 Aligned_cols=86 Identities=13% Similarity=0.091 Sum_probs=63.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHH--HHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL--SLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 14 ~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L--~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
|...+|.|++-..=+.+.-.++.-+|+-=-.|-|||+-.+ +++|.+.... -+ +++|.+|+ +++.|+++|+.++.
T Consensus 203 ~~~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~--~~-paLIVCP~-Tii~qW~~E~~~w~ 278 (923)
T KOG0387|consen 203 WSKLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSGKL--TK-PALIVCPA-TIIHQWMKEFQTWW 278 (923)
T ss_pred HHHhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcccc--cC-ceEEEccH-HHHHHHHHHHHHhC
Confidence 3446788999888888888888889999999999995432 3445544211 25 78888876 67899999999983
Q ss_pred hhcccCCCCCCceEEEEecCcc
Q 004910 92 NYQTRHLGPAAKILAIGLSSRK 113 (724)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~gr~ 113 (724)
.++++.++.|-.
T Consensus 279 ----------p~~rv~ilh~t~ 290 (923)
T KOG0387|consen 279 ----------PPFRVFILHGTG 290 (923)
T ss_pred ----------cceEEEEEecCC
Confidence 467888887644
No 153
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=95.73 E-value=0.0062 Score=65.38 Aligned_cols=69 Identities=16% Similarity=0.211 Sum_probs=45.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
-|-..+||.|..-+. +.|-+| +.++|.-|+|.|||++-..++.. -++ ++++.+.+-.-.+|+-.+.+.
T Consensus 298 KPst~iRpYQEksL~---KMFGNgRARSGiIVLPCGAGKtLVGvTAa~t------ikK-~clvLcts~VSVeQWkqQfk~ 367 (776)
T KOG1123|consen 298 KPSTQIRPYQEKSLS---KMFGNGRARSGIIVLPCGAGKTLVGVTAACT------IKK-SCLVLCTSAVSVEQWKQQFKQ 367 (776)
T ss_pred CcccccCchHHHHHH---HHhCCCcccCceEEEecCCCCceeeeeeeee------ecc-cEEEEecCccCHHHHHHHHHh
Confidence 466678999998554 456666 47999999999999976654322 134 555555444445665555444
Q ss_pred h
Q 004910 90 L 90 (724)
Q Consensus 90 l 90 (724)
+
T Consensus 368 w 368 (776)
T KOG1123|consen 368 W 368 (776)
T ss_pred h
Confidence 3
No 154
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=95.68 E-value=0.094 Score=61.52 Aligned_cols=138 Identities=15% Similarity=0.164 Sum_probs=79.3
Q ss_pred chHHhhccCeEEEecCCCCCcc-chhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHH
Q 004910 444 VKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGK 522 (724)
Q Consensus 444 l~~l~~~~~s~Il~SaTL~~~~-~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~ 522 (724)
++.+|...+..--|+||..... .|.+..|++-.. +|-..|.. -.+.|+. -| +...+-+..+.+
T Consensus 367 ~QnfFr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~---IPTnkP~~------R~d~~d~-----vy--~t~~~K~~Ai~~ 430 (939)
T PRK12902 367 YQNFFLLYPKLAGMTGTAKTEEVEFEKTYKLEVTV---IPTNRPRR------RQDWPDQ-----VY--KTEIAKWRAVAN 430 (939)
T ss_pred HHHHHhhCchhcccCCCCHHHHHHHHHHhCCcEEE---cCCCCCee------eecCCCe-----EE--cCHHHHHHHHHH
Confidence 4778888889999999986653 566666765321 11111100 0011111 11 222333455666
Q ss_pred HHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeC-CCchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004910 523 LLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (724)
Q Consensus 523 ~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~-~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~ 601 (724)
.|.+..+ .+..+||-+.|-+.=+.+...+.+.++-.. |+--. .+...-..++.+ + ...|+|-+|+
T Consensus 431 ei~~~~~-~GrPVLIgT~SVe~SE~ls~~L~~~gi~h~------vLNAk~~~~~~EA~IIa~---A--G~~GaVTIAT-- 496 (939)
T PRK12902 431 ETAEMHK-QGRPVLVGTTSVEKSELLSALLQEQGIPHN------LLNAKPENVEREAEIVAQ---A--GRKGAVTIAT-- 496 (939)
T ss_pred HHHHHHh-CCCCEEEeeCCHHHHHHHHHHHHHcCCchh------eeeCCCcchHhHHHHHHh---c--CCCCcEEEec--
Confidence 6666543 577999999999999999999988765322 33211 111111223332 2 3467899887
Q ss_pred CcccccccCC
Q 004910 602 GKVAEGIDFD 611 (724)
Q Consensus 602 g~~~EGiD~~ 611 (724)
.-...|-|+.
T Consensus 497 NMAGRGTDIk 506 (939)
T PRK12902 497 NMAGRGTDII 506 (939)
T ss_pred cCCCCCcCEe
Confidence 4678999984
No 155
>PRK13766 Hef nuclease; Provisional
Probab=95.65 E-value=0.12 Score=62.18 Aligned_cols=92 Identities=24% Similarity=0.295 Sum_probs=63.9
Q ss_pred HHHHHHHHHHhc-ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCC-------C--chhHHHHHHHHHHh
Q 004910 518 RNYGKLLVEMVS-IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-------D--VVETTLALDNYRKA 587 (724)
Q Consensus 518 ~~~~~~i~~~~~-~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~-------~--~~~~~~~~~~f~~~ 587 (724)
..+.+.|.++.. ..++.+|||+.+....+.+.+.+...++ +...+.++ + ..+....+++|++
T Consensus 350 ~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~~~-------~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~- 421 (773)
T PRK13766 350 EKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGI-------KAVRFVGQASKDGDKGMSQKEQIEILDKFRA- 421 (773)
T ss_pred HHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhCCC-------ceEEEEccccccccCCCCHHHHHHHHHHHHc-
Confidence 455666666654 3567999999999999999999865432 22223232 1 1244567888875
Q ss_pred ccCCCCeEEEEeecCcccccccCCCCCceEEEEEccC
Q 004910 588 CDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVP 624 (724)
Q Consensus 588 ~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glP 624 (724)
++..||+++ ....||+|++ .|+.||+...|
T Consensus 422 ---g~~~vLvaT--~~~~eGldi~--~~~~VI~yd~~ 451 (773)
T PRK13766 422 ---GEFNVLVST--SVAEEGLDIP--SVDLVIFYEPV 451 (773)
T ss_pred ---CCCCEEEEC--ChhhcCCCcc--cCCEEEEeCCC
Confidence 567799987 4789999998 48889887643
No 156
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=95.32 E-value=0.19 Score=59.75 Aligned_cols=153 Identities=12% Similarity=0.114 Sum_probs=87.1
Q ss_pred chHHhhccCeEEEecCCCCCc-cchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHH
Q 004910 444 VKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGK 522 (724)
Q Consensus 444 l~~l~~~~~s~Il~SaTL~~~-~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~ 522 (724)
++.+|...+..--|+||.... +.|....+++-+. +| . +. |.+-.+.++ .-| ....+-...+.+
T Consensus 526 ~QnfFr~Y~kLaGMTGTA~te~~Ef~~iY~L~Vv~---IP----T-nr-P~~R~D~~d-----~vy--~t~~eK~~Ali~ 589 (1025)
T PRK12900 526 IQNFFRLYKKLAGMTGTAETEASEFFEIYKLDVVV---IP----T-NK-PIVRKDMDD-----LVY--KTRREKYNAIVL 589 (1025)
T ss_pred HHHHHHhchhhcccCCCChhHHHHHHHHhCCcEEE---CC----C-CC-CcceecCCC-----eEe--cCHHHHHHHHHH
Confidence 466777777777888887654 2555555554221 11 1 10 000001111 011 222233344555
Q ss_pred HHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecC
Q 004910 523 LLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARG 602 (724)
Q Consensus 523 ~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g 602 (724)
.|.+.. ..+..+|||++|....+.+...++..++- ..++ .. .....+..+-.|. .+.++|++|+ .
T Consensus 590 ~I~~~~-~~grpVLIft~Sve~sE~Ls~~L~~~gI~------h~vL-na-kq~~REa~Iia~A----G~~g~VtIAT--N 654 (1025)
T PRK12900 590 KVEELQ-KKGQPVLVGTASVEVSETLSRMLRAKRIA------HNVL-NA-KQHDREAEIVAEA----GQKGAVTIAT--N 654 (1025)
T ss_pred HHHHHh-hCCCCEEEEeCcHHHHHHHHHHHHHcCCC------ceee-cC-CHHHhHHHHHHhc----CCCCeEEEec--c
Confidence 554443 35679999999999999999999876541 1122 12 2234455666665 3688999988 5
Q ss_pred cccccccCCC-CCce---EEEEEccCCCC
Q 004910 603 KVAEGIDFDR-HYGR---LVIMFGVPFQY 627 (724)
Q Consensus 603 ~~~EGiD~~~-~~~r---~vii~glPfp~ 627 (724)
-...|+|++- +... .+.++|.|.|.
T Consensus 655 MAGRGtDIkl~~~V~~vGGL~VIgterhe 683 (1025)
T PRK12900 655 MAGRGTDIKLGEGVRELGGLFILGSERHE 683 (1025)
T ss_pred CcCCCCCcCCccchhhhCCceeeCCCCCc
Confidence 7899999983 2232 23667766653
No 157
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=95.12 E-value=0.06 Score=63.63 Aligned_cols=34 Identities=21% Similarity=0.168 Sum_probs=26.9
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHH
Q 004910 24 YMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSY 59 (724)
Q Consensus 24 ~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~ 59 (724)
...++.+++.+...++|.||||+|||-. +|-..+
T Consensus 54 ~~~~i~~ai~~~~vvii~getGsGKTTq--lP~~ll 87 (845)
T COG1643 54 VRDEILKAIEQNQVVIIVGETGSGKTTQ--LPQFLL 87 (845)
T ss_pred HHHHHHHHHHhCCEEEEeCCCCCChHHH--HHHHHH
Confidence 4457888888999999999999999974 444433
No 158
>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=95.09 E-value=0.099 Score=62.33 Aligned_cols=88 Identities=17% Similarity=0.073 Sum_probs=55.8
Q ss_pred CCHHHHHHHHHHHHHHHh----CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhh
Q 004910 17 IYPEQYSYMLELKRALDA----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~----~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~ 92 (724)
.+..|-...+.+...-++ |-.+|==|.||+|||+|-. =+.|+.+.+....|..|+-.=++|.-|-=++++.-+.
T Consensus 409 rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNA--RImyaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL~ 486 (1110)
T TIGR02562 409 RFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANA--RAMYALRDDKQGARFAIALGLRSLTLQTGHALKTRLN 486 (1110)
T ss_pred CcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHH--HHHHHhCCCCCCceEEEEccccceeccchHHHHHhcC
Confidence 456777766555443222 2356668999999999854 4556665544445889988777777777777776433
Q ss_pred hcccCCCCCCceEEEEecCcc
Q 004910 93 YQTRHLGPAAKILAIGLSSRK 113 (724)
Q Consensus 93 ~~~~~~~~~~~~~~~~l~gr~ 113 (724)
. +.+=-+++++|..
T Consensus 487 L-------~~ddLAVlIGs~A 500 (1110)
T TIGR02562 487 L-------SDDDLAVLIGGTA 500 (1110)
T ss_pred C-------CccceEEEECHHH
Confidence 2 2222356666654
No 159
>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=95.01 E-value=0.055 Score=53.77 Aligned_cols=68 Identities=18% Similarity=0.250 Sum_probs=55.1
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.||.|.+++.++.+. .++++.+.+.-+|-|||-+ ++|.++++.+. ++ +++..+=-++|.+|....|+.
T Consensus 24 iR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKTsV-I~Pmla~~LAd--g~-~LvrviVpk~Ll~q~~~~L~~ 91 (229)
T PF12340_consen 24 IRPVQVEIAREMISP-PSGKNSVMQLNMGEGKTSV-IVPMLALALAD--GS-RLVRVIVPKALLEQMRQMLRS 91 (229)
T ss_pred eeHHHHHHHHHHhCC-CCCCCeEeeecccCCccch-HHHHHHHHHcC--CC-cEEEEEcCHHHHHHHHHHHHH
Confidence 699999999998864 5668999999999999986 56888887765 45 677776677899998887664
No 160
>PRK10536 hypothetical protein; Provisional
Probab=94.97 E-value=0.076 Score=53.85 Aligned_cols=38 Identities=18% Similarity=0.170 Sum_probs=29.1
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHH
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITS 58 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~ 58 (724)
....|..++..+ .+...+++.+|+|||||+..+..++.
T Consensus 60 ~n~~Q~~~l~al----~~~~lV~i~G~aGTGKT~La~a~a~~ 97 (262)
T PRK10536 60 RNEAQAHYLKAI----ESKQLIFATGEAGCGKTWISAAKAAE 97 (262)
T ss_pred CCHHHHHHHHHH----hcCCeEEEECCCCCCHHHHHHHHHHH
Confidence 456777776644 45679999999999999987766654
No 161
>PRK09694 helicase Cas3; Provisional
Probab=94.97 E-value=0.61 Score=56.02 Aligned_cols=101 Identities=13% Similarity=0.176 Sum_probs=63.0
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCc-hhH----HHHHHHHHHhccCCCCeEEEEeecCccc
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VET----TLALDNYRKACDCGRGAVFFSVARGKVA 605 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~-~~~----~~~~~~f~~~~~~~~~~vL~~v~~g~~~ 605 (724)
.++.+|||+++.+..+.+++.+++... ...+..++.++-. .++ ..+++.|.+......+.||+++. ...
T Consensus 559 ~g~~vLVf~NTV~~Aq~ly~~L~~~~~----~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQ--ViE 632 (878)
T PRK09694 559 AGAQVCLICNLVDDAQKLYQRLKELNN----TQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVATQ--VVE 632 (878)
T ss_pred cCCEEEEEECCHHHHHHHHHHHHhhCC----CCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECc--chh
Confidence 456799999999999999999986421 0112344544421 122 24577774321111257998874 799
Q ss_pred ccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCC
Q 004910 606 EGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA 672 (724)
Q Consensus 606 EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~ 672 (724)
.|+|+.- ..+|..-.| +-.+.|.+||+-|+..
T Consensus 633 ~GLDId~---DvlItdlaP--------------------------------idsLiQRaGR~~R~~~ 664 (878)
T PRK09694 633 QSLDLDF---DWLITQLCP--------------------------------VDLLFQRLGRLHRHHR 664 (878)
T ss_pred heeecCC---CeEEECCCC--------------------------------HHHHHHHHhccCCCCC
Confidence 9999953 334433111 1356799999999976
No 162
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=94.71 E-value=0.081 Score=59.41 Aligned_cols=28 Identities=21% Similarity=0.298 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCcchHH
Q 004910 23 SYMLELKRALDAKGHCLLEMPTGTGKTI 50 (724)
Q Consensus 23 e~~~~v~~~l~~~~~~~iEApTGtGKTl 50 (724)
++..+|..++++++.++|-+.||+|||-
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKST 81 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKST 81 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCccc
Confidence 5677888999999999999999999994
No 163
>PRK08181 transposase; Validated
Probab=94.54 E-value=0.098 Score=53.99 Aligned_cols=53 Identities=17% Similarity=0.147 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
+.|........+.++++.++++-+|+|||||.-.- |+...... .+. +|+|.+.
T Consensus 90 ~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~--Aia~~a~~-~g~-~v~f~~~ 142 (269)
T PRK08181 90 KAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAA--AIGLALIE-NGW-RVLFTRT 142 (269)
T ss_pred HHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHH--HHHHHHHH-cCC-ceeeeeH
Confidence 55665554444677788899999999999996332 33332211 245 7877763
No 164
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=94.48 E-value=0.14 Score=59.61 Aligned_cols=88 Identities=16% Similarity=0.291 Sum_probs=59.6
Q ss_pred HHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeC-CCchhHHHHHHHHHHhccCCCCeEEE
Q 004910 519 NYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVFF 597 (724)
Q Consensus 519 ~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~-~~~~~~~~~~~~f~~~~~~~~~~vL~ 597 (724)
.+.+.|.+.. ..+..++||+++....+.+.+.+.+.++ +..++.+ .+..++...++.|+. |+-.||+
T Consensus 430 ~Ll~eI~~~~-~~g~~vLIf~~tk~~ae~L~~~L~~~gi-------~~~~lh~~~~~~eR~~~l~~fr~----G~i~VLV 497 (655)
T TIGR00631 430 DLLSEIRQRV-ARNERVLVTTLTKKMAEDLTDYLKELGI-------KVRYLHSEIDTLERVEIIRDLRL----GEFDVLV 497 (655)
T ss_pred HHHHHHHHHH-cCCCEEEEEECCHHHHHHHHHHHhhhcc-------ceeeeeCCCCHHHHHHHHHHHhc----CCceEEE
Confidence 3444444433 2456899999999999999999987543 2233333 223456677888875 5666777
Q ss_pred EeecCcccccccCCCCCceEEEEEc
Q 004910 598 SVARGKVAEGIDFDRHYGRLVIMFG 622 (724)
Q Consensus 598 ~v~~g~~~EGiD~~~~~~r~vii~g 622 (724)
|+ |.+.+|+|+|+ +++||+..
T Consensus 498 ~t--~~L~rGfDiP~--v~lVvi~D 518 (655)
T TIGR00631 498 GI--NLLREGLDLPE--VSLVAILD 518 (655)
T ss_pred Ec--ChhcCCeeeCC--CcEEEEeC
Confidence 66 79999999998 45566654
No 165
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.40 E-value=0.22 Score=53.84 Aligned_cols=68 Identities=21% Similarity=0.204 Sum_probs=44.0
Q ss_pred CHHHHHHHHHHHHHHHhC-CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 18 YPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~-~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
-|-|+|...=....=... .-+++--..|.|||+-.+.-.++ ..++. +.+|..||.++. |+.+|+.+..
T Consensus 186 L~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLlla----e~~ra-~tLVvaP~VAlm-QW~nEI~~~T 254 (791)
T KOG1002|consen 186 LPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLA----EVDRA-PTLVVAPTVALM-QWKNEIERHT 254 (791)
T ss_pred hhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHh----ccccC-CeeEEccHHHHH-HHHHHHHHhc
Confidence 366777654332221111 34677777899999876643333 23456 889999998864 8999988863
No 166
>COG1204 Superfamily II helicase [General function prediction only]
Probab=94.03 E-value=0.68 Score=54.93 Aligned_cols=193 Identities=20% Similarity=0.152 Sum_probs=101.0
Q ss_pred CeEEEecCCCCCccchhhhhCCCCccccccceeecCCc-eeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcc
Q 004910 452 QSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDC-ICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSI 530 (724)
Q Consensus 452 ~s~Il~SaTL~~~~~~~~~lg~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~ 530 (724)
-.+|-.|||++..+.++..||-+.....-.|.+.-+.. ....+.. -..+.+..+.-.......+..-+-.
T Consensus 181 ~rivgLSATlpN~~evA~wL~a~~~~~~~rp~~l~~~v~~~~~~~~---------~~~~~k~~~~~~~~~~~~~v~~~~~ 251 (766)
T COG1204 181 IRIVGLSATLPNAEEVADWLNAKLVESDWRPVPLRRGVPYVGAFLG---------ADGKKKTWPLLIDNLALELVLESLA 251 (766)
T ss_pred eEEEEEeeecCCHHHHHHHhCCcccccCCCCcccccCCccceEEEE---------ecCccccccccchHHHHHHHHHHHh
Confidence 48999999999999999999987652111122211110 0001111 0111110111111111112222224
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhc---ccH-HH-H---hcCcceEE---------------------eCCCc-hhHHH-
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDS---GIL-KE-I---MQHKLVFI---------------------ETQDV-VETTL- 579 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~---~~~-~~-~---~~~~~i~~---------------------e~~~~-~~~~~- 579 (724)
..|.+|||.+|.+.-..++..+... .+. .. . ....++.. ..-|. .+...
T Consensus 252 ~~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHhAGL~~~~R~~ 331 (766)
T COG1204 252 EGGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPREDRQL 331 (766)
T ss_pred cCCeEEEEEecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccccCCCHHHHHH
Confidence 6789999999999998888887730 000 00 0 00011211 00111 01111
Q ss_pred HHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHH
Q 004910 580 ALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQ 659 (724)
Q Consensus 580 ~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~ 659 (724)
+=+.|+ .|.=.||+++ ++++.||++|. ++|||-+.=.-.| . .+ |. +.-..-
T Consensus 332 vE~~Fr----~g~ikVlv~T--pTLA~GVNLPA---~~VIIk~~~~y~~--------------~---~g--~~-~i~~~d 382 (766)
T COG1204 332 VEDAFR----KGKIKVLVST--PTLAAGVNLPA---RTVIIKDTRRYDP--------------K---GG--IV-DIPVLD 382 (766)
T ss_pred HHHHHh----cCCceEEEec--hHHhhhcCCcc---eEEEEeeeEEEcC--------------C---CC--eE-ECchhh
Confidence 122333 3555677765 79999999996 8899988543221 0 12 21 123467
Q ss_pred HHHhhcccccCC-CCeEEEEEEec
Q 004910 660 AAQCVGRVIRSK-ADYGMMIFADK 682 (724)
Q Consensus 660 v~Q~~GR~iR~~-~D~g~vvllD~ 682 (724)
+.|.+||.=|-. +|+|..+++..
T Consensus 383 v~QM~GRAGRPg~d~~G~~~i~~~ 406 (766)
T COG1204 383 VLQMAGRAGRPGYDDYGEAIILAT 406 (766)
T ss_pred HhhccCcCCCCCcCCCCcEEEEec
Confidence 889999998876 67888777763
No 167
>PRK14873 primosome assembly protein PriA; Provisional
Probab=93.82 E-value=0.31 Score=56.86 Aligned_cols=49 Identities=10% Similarity=0.118 Sum_probs=38.6
Q ss_pred EEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 38 ~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.+..+.+|+|||-.||-.+-.... .++ .++|.+|++++..|+++.++..
T Consensus 163 ~i~~~~~GSGKTevyl~~i~~~l~---~Gk-~vLvLvPEi~lt~q~~~rl~~~ 211 (665)
T PRK14873 163 AVWQALPGEDWARRLAAAAAATLR---AGR-GALVVVPDQRDVDRLEAALRAL 211 (665)
T ss_pred HHhhcCCCCcHHHHHHHHHHHHHH---cCC-eEEEEecchhhHHHHHHHHHHH
Confidence 455666799999999976544332 267 8999999999999999988763
No 168
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=93.81 E-value=0.16 Score=52.14 Aligned_cols=61 Identities=18% Similarity=0.211 Sum_probs=38.1
Q ss_pred CCCCCCCHHHHHHHH---HHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 12 FPYDNIYPEQYSYML---ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~---~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
|-|......+..++. ...+.+.+++.+++-+|+|||||. |..|+..... ..+. +|+|.|-+
T Consensus 79 ~d~~~~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKTh--La~Ai~~~l~-~~g~-sv~f~~~~ 142 (254)
T COG1484 79 FDFEFQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTH--LAIAIGNELL-KAGI-SVLFITAP 142 (254)
T ss_pred ccccCCcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHH--HHHHHHHHHH-HcCC-eEEEEEHH
Confidence 344433344444444 444566778899999999999998 4445555443 3345 78877743
No 169
>PRK06835 DNA replication protein DnaC; Validated
Probab=93.74 E-value=0.15 Score=54.26 Aligned_cols=54 Identities=22% Similarity=0.180 Sum_probs=32.4
Q ss_pred CHHHHHHHHHHHHHHH----hCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 18 YPEQYSYMLELKRALD----AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~----~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
|..+.+++......++ .+..+++-+|||||||.-.. |++..... .+. +|+|.|.
T Consensus 162 ~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~--aIa~~l~~-~g~-~V~y~t~ 219 (329)
T PRK06835 162 RKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSN--CIAKELLD-RGK-SVIYRTA 219 (329)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHH--HHHHHHHH-CCC-eEEEEEH
Confidence 4444444444443444 34789999999999998433 33332222 245 7888774
No 170
>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=93.67 E-value=0.099 Score=50.52 Aligned_cols=60 Identities=18% Similarity=0.309 Sum_probs=26.2
Q ss_pred CCCCCCCHHHHHHHHHHH--HHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 12 FPYDNIYPEQYSYMLELK--RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~--~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
|.|...++.+.+.+..+. +.++++.++++-+|||||||....+-+-. +.. .+. +|.|.+-
T Consensus 22 ~d~~~~~~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKThLa~ai~~~-~~~--~g~-~v~f~~~ 83 (178)
T PF01695_consen 22 FDFSNERGIDKAQIAQLAALEFIENGENLILYGPPGTGKTHLAVAIANE-AIR--KGY-SVLFITA 83 (178)
T ss_dssp ------------HHHHHHHH-S-SC--EEEEEESTTSSHHHHHHHHHHH-HHH--TT---EEEEEH
T ss_pred ccccchhhHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHHHHHHHHHH-hcc--CCc-ceeEeec
Confidence 445444455555554442 23455678999999999999854432222 222 245 7777663
No 171
>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=93.62 E-value=0.13 Score=53.23 Aligned_cols=36 Identities=25% Similarity=0.161 Sum_probs=32.9
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHH
Q 004910 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L 53 (724)
.|...++.+.+..++..+.++++++|+|||||...-
T Consensus 4 t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~ 39 (262)
T TIGR02640 4 TDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAM 39 (262)
T ss_pred CHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHH
Confidence 688999999999999999999999999999998654
No 172
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=93.61 E-value=0.86 Score=49.92 Aligned_cols=96 Identities=23% Similarity=0.362 Sum_probs=63.4
Q ss_pred HHHHHHHHHHhcccC-CcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeC------CCc--hhHHHHHHHHHHhc
Q 004910 518 RNYGKLLVEMVSIVP-DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET------QDV--VETTLALDNYRKAC 588 (724)
Q Consensus 518 ~~~~~~i~~~~~~~~-g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~------~~~--~~~~~~~~~f~~~~ 588 (724)
+.+-+.+.+.++..+ .+++||.......+.+.+.+.+.+... +..|+=+ .|+ ....+++++|++
T Consensus 351 ~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~-----~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~-- 423 (542)
T COG1111 351 EKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKA-----RVRFIGQASREGDKGMSQKEQKEIIDQFRK-- 423 (542)
T ss_pred HHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCcc-----eeEEeeccccccccccCHHHHHHHHHHHhc--
Confidence 455666777775554 488888888899999999998765421 1255521 111 234567899986
Q ss_pred cCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCC
Q 004910 589 DCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQY 627 (724)
Q Consensus 589 ~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~ 627 (724)
|..-||+++ .---||+|+|.- ..||.. =|-|+
T Consensus 424 --Ge~nVLVaT--SVgEEGLDIp~v--DlVifY-EpvpS 455 (542)
T COG1111 424 --GEYNVLVAT--SVGEEGLDIPEV--DLVIFY-EPVPS 455 (542)
T ss_pred --CCceEEEEc--ccccccCCCCcc--cEEEEe-cCCcH
Confidence 788899988 345699999983 334443 35544
No 173
>PHA02244 ATPase-like protein
Probab=93.45 E-value=0.17 Score=54.07 Aligned_cols=49 Identities=12% Similarity=0.028 Sum_probs=37.6
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHH
Q 004910 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV 60 (724)
Q Consensus 10 ~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~ 60 (724)
+.|||-..-|........+..++..+.++++.+|||||||... -++++.
T Consensus 94 ~d~~~ig~sp~~~~~~~ri~r~l~~~~PVLL~GppGtGKTtLA--~aLA~~ 142 (383)
T PHA02244 94 IDTTKIASNPTFHYETADIAKIVNANIPVFLKGGAGSGKNHIA--EQIAEA 142 (383)
T ss_pred CCCcccCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHHH--HHHHHH
Confidence 5577765567777777788899999999999999999999743 344443
No 174
>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=93.44 E-value=0.53 Score=48.33 Aligned_cols=71 Identities=21% Similarity=0.182 Sum_probs=49.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
.++. ||+.|.--+-.+ .+|. ++|..||=|||+...+||...+.. |+ +|-|+|.+--|..+=.+++..+-
T Consensus 74 ~g~~-p~~vQll~~l~L----~~G~--laEm~TGEGKTli~~l~a~~~AL~---G~-~V~vvT~NdyLA~RD~~~~~~~y 142 (266)
T PF07517_consen 74 LGLR-PYDVQLLGALAL----HKGR--LAEMKTGEGKTLIAALPAALNALQ---GK-GVHVVTSNDYLAKRDAEEMRPFY 142 (266)
T ss_dssp TS-----HHHHHHHHHH----HTTS--EEEESTTSHHHHHHHHHHHHHHTT---SS--EEEEESSHHHHHHHHHHHHHHH
T ss_pred cCCc-ccHHHHhhhhhc----ccce--eEEecCCCCcHHHHHHHHHHHHHh---cC-CcEEEeccHHHhhccHHHHHHHH
Confidence 3444 467776544322 3433 999999999999999988777753 56 89999999999988888877765
Q ss_pred hh
Q 004910 92 NY 93 (724)
Q Consensus 92 ~~ 93 (724)
+.
T Consensus 143 ~~ 144 (266)
T PF07517_consen 143 EF 144 (266)
T ss_dssp HH
T ss_pred HH
Confidence 43
No 175
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=93.39 E-value=0.83 Score=54.41 Aligned_cols=105 Identities=13% Similarity=0.219 Sum_probs=65.5
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCc-hhHHHHHHHHHHhccCCCCeEEEEeecCccccccc
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 609 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~-~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD 609 (724)
.++.+||.+++-.....++..++..+. +.+++.++-. .++.+..++.++.+..+++.|++|++ ..--|+|
T Consensus 439 ~~~kvlvI~NTV~~Aie~Y~~Lk~~~~-------~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQ--VIEagvD 509 (733)
T COG1203 439 EGKKVLVIVNTVDRAIELYEKLKEKGP-------KVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQ--VIEAGVD 509 (733)
T ss_pred cCCcEEEEEecHHHHHHHHHHHHhcCC-------CEEEEecccchhhHHHHHHHHHHHHhccCCeEEEEee--EEEEEec
Confidence 457999999999999999999987532 2455555432 23444444444332335667888875 4556777
Q ss_pred CCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCC-eEEEEE
Q 004910 610 FDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKAD-YGMMIF 679 (724)
Q Consensus 610 ~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D-~g~vvl 679 (724)
+.-|. +|+- +--+..+.|++|||-|+..+ -|.+++
T Consensus 510 idfd~----mITe-------------------------------~aPidSLIQR~GRv~R~g~~~~~~~~v 545 (733)
T COG1203 510 IDFDV----LITE-------------------------------LAPIDSLIQRAGRVNRHGKKENGKIYV 545 (733)
T ss_pred cccCe----eeec-------------------------------CCCHHHHHHHHHHHhhcccccCCceeE
Confidence 65432 1211 11257788999999999933 444333
No 176
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=93.18 E-value=0.59 Score=50.79 Aligned_cols=142 Identities=15% Similarity=0.135 Sum_probs=78.7
Q ss_pred hcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCc-hhHHHHHHHHHHhccCCCCeEEEEeec-Cccc
Q 004910 528 VSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VETTLALDNYRKACDCGRGAVFFSVAR-GKVA 605 (724)
Q Consensus 528 ~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~-~~~~~~~~~f~~~~~~~~~~vL~~v~~-g~~~ 605 (724)
....+..+|||..-..+|+.+...+.+.+. .-|-+.+... .++..+.+.|..+ .+ |-++|.+ -.-.
T Consensus 488 ~d~~~~KflVFaHH~~vLd~Iq~~~~~r~v-------g~IRIDGst~s~~R~ll~qsFQ~s---ee--v~VAvlsItA~g 555 (689)
T KOG1000|consen 488 PDAPPRKFLVFAHHQIVLDTIQVEVNKRKV-------GSIRIDGSTPSHRRTLLCQSFQTS---EE--VRVAVLSITAAG 555 (689)
T ss_pred ccCCCceEEEEehhHHHHHHHHHHHHHcCC-------CeEEecCCCCchhHHHHHHHhccc---cc--eEEEEEEEeecc
Confidence 445567999999999999999888876532 3355555443 2456678888763 22 3333321 1244
Q ss_pred ccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCC-----------CCCcccHHHHHHHHHHhhcccccCCCCe
Q 004910 606 EGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQI-----------KEGDFLTFDALRQAAQCVGRVIRSKADY 674 (724)
Q Consensus 606 EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~-----------~~~~~~~~~a~~~v~Q~~GR~iR~~~D~ 674 (724)
-|++|. +.+.||..-||+-+ .-.++|-- ..-+.++. ...|=|.++++.+=.--+|-+=-+++|+
T Consensus 556 vGLt~t--Aa~~VVFaEL~wnP--gvLlQAED-RaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l~~KL~vl~s~gl~s~~~ 630 (689)
T KOG1000|consen 556 VGLTLT--AASVVVFAELHWNP--GVLLQAED-RAHRIGQKSSVFVQYLVAKGTADDYMWPMLQQKLDVLGSVGLSSDTF 630 (689)
T ss_pred cceeee--ccceEEEEEecCCC--ceEEechh-hhhhccccceeeEEEEEecCchHHHHHHHHHHHHHHHhhcccCcccc
Confidence 566664 57889999999864 33444421 11112211 1112234444444444555555556666
Q ss_pred EEEEEEecccCC
Q 004910 675 GMMIFADKRYSR 686 (724)
Q Consensus 675 g~vvllD~R~~~ 686 (724)
-.+=..|-++..
T Consensus 631 ~~~e~~g~s~~~ 642 (689)
T KOG1000|consen 631 RTAEKMGLSFND 642 (689)
T ss_pred eeecccceeecC
Confidence 444445555544
No 177
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=93.08 E-value=0.46 Score=49.87 Aligned_cols=132 Identities=20% Similarity=0.326 Sum_probs=82.9
Q ss_pred hhccCeEEEecCCCCCc-cchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHH--HH
Q 004910 448 FDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGK--LL 524 (724)
Q Consensus 448 ~~~~~s~Il~SaTL~~~-~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~--~i 524 (724)
|..-+..+|.|||+.-. ..|++.--.+|+.. ..-+. |...+++. .+-+|+++-+. .+
T Consensus 354 FK~QRQTLLFSATMP~KIQ~FAkSALVKPvtv-----NVGRA---------GAAsldVi------QevEyVkqEaKiVyl 413 (610)
T KOG0341|consen 354 FKGQRQTLLFSATMPKKIQNFAKSALVKPVTV-----NVGRA---------GAASLDVI------QEVEYVKQEAKIVYL 413 (610)
T ss_pred HhhhhheeeeeccccHHHHHHHHhhcccceEE-----ecccc---------cccchhHH------HHHHHHHhhhhhhhH
Confidence 33447799999999542 35555433333211 00000 11112222 13345544433 24
Q ss_pred HHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEe-CCCchhHHHHHHHHHHhccCCCCeEEEEeecCc
Q 004910 525 VEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIE-TQDVVETTLALDNYRKACDCGRGAVFFSVARGK 603 (724)
Q Consensus 525 ~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e-~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~ 603 (724)
.+.+..++-.+|+|.-.......+.+++--.|. ..+-+. +++..++...++.|+. |+.-||+++ .-
T Consensus 414 LeCLQKT~PpVLIFaEkK~DVD~IhEYLLlKGV-------EavaIHGGKDQedR~~ai~afr~----gkKDVLVAT--DV 480 (610)
T KOG0341|consen 414 LECLQKTSPPVLIFAEKKADVDDIHEYLLLKGV-------EAVAIHGGKDQEDRHYAIEAFRA----GKKDVLVAT--DV 480 (610)
T ss_pred HHHhccCCCceEEEeccccChHHHHHHHHHccc-------eeEEeecCcchhHHHHHHHHHhc----CCCceEEEe--cc
Confidence 556667888999999999999999998754332 123343 4555667788999986 688899987 58
Q ss_pred ccccccCCC
Q 004910 604 VAEGIDFDR 612 (724)
Q Consensus 604 ~~EGiD~~~ 612 (724)
.+.|+|||+
T Consensus 481 ASKGLDFp~ 489 (610)
T KOG0341|consen 481 ASKGLDFPD 489 (610)
T ss_pred hhccCCCcc
Confidence 999999998
No 178
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=93.00 E-value=0.23 Score=52.62 Aligned_cols=50 Identities=22% Similarity=0.244 Sum_probs=30.5
Q ss_pred HHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccch
Q 004910 26 LELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (724)
Q Consensus 26 ~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~ 77 (724)
..+..++..+++++|-+|||+||| .++-+.+.+....+... ++++.-.+.
T Consensus 139 ~~L~~~v~~~~~ilI~G~tGSGKT-Tll~aL~~~~~~~~~~~-rivtIEd~~ 188 (319)
T PRK13894 139 EAIIAAVRAHRNILVIGGTGSGKT-TLVNAIINEMVIQDPTE-RVFIIEDTG 188 (319)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHH-HHHHHHHHhhhhcCCCc-eEEEEcCCC
Confidence 344556778899999999999999 33433333321122234 676554443
No 179
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=92.92 E-value=0.039 Score=57.54 Aligned_cols=70 Identities=16% Similarity=0.126 Sum_probs=53.4
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC--------CCCCceEEEEccchhhHHHHHHHH
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--------PENPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~--------~~~~~~vvi~T~T~~l~~Q~~~el 87 (724)
.|+|.|.+=+.-|. .|+.++=-|-||+|||+.+.+|.+.++... .+++ =-+|.+|++.|..|..+-+
T Consensus 192 ~PTpIQvQGlPvvL----sGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP-~gLiicPSRELArQt~~ii 266 (610)
T KOG0341|consen 192 HPTPIQVQGLPVVL----SGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGP-YGLIICPSRELARQTHDII 266 (610)
T ss_pred CCCceeecCcceEe----ecCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCC-eeEEEcCcHHHHHHHHHHH
Confidence 45677777655544 567788889999999999999999997653 2344 4588889999999988865
Q ss_pred Hhh
Q 004910 88 KLL 90 (724)
Q Consensus 88 ~~l 90 (724)
...
T Consensus 267 e~~ 269 (610)
T KOG0341|consen 267 EQY 269 (610)
T ss_pred HHH
Confidence 554
No 180
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=92.80 E-value=1.1 Score=53.93 Aligned_cols=186 Identities=16% Similarity=0.177 Sum_probs=99.2
Q ss_pred CccccchHHhhccC------eEEEecCCCCCccchhhhh-CCCCccccccceeecCCceeeEEeecCCCCcceeecccCC
Q 004910 439 DASLAVKPVFDRFQ------SVVITSGTLSPIDLYPRLL-NFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMR 511 (724)
Q Consensus 439 ~~s~~l~~l~~~~~------s~Il~SaTL~~~~~~~~~l-g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~ 511 (724)
+++.+++.+...++ .+|++|||++....+...+ |.+.... +.-.-.+.....+++-. |........ .+
T Consensus 214 ~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np~e~~~~l~~~~f~~~--v~~~g~~~~~~~~~~~~-p~~~~~~~~--~r 288 (851)
T COG1205 214 EVALLLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFGRDFEVP--VDEDGSPRGLRYFVRRE-PPIRELAES--IR 288 (851)
T ss_pred HHHHHHHHHHHHHhccCCCceEEEEeccccChHHHHHHhcCCcceee--ccCCCCCCCceEEEEeC-Ccchhhhhh--cc
Confidence 45666676665444 7999999999998777665 4332210 10000111111111111 100000000 11
Q ss_pred CChHHHHHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHh----hcccHHHHhcCcceEEeCCCc--hhHHHHHHHHH
Q 004910 512 SDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWN----DSGILKEIMQHKLVFIETQDV--VETTLALDNYR 585 (724)
Q Consensus 512 ~~~~~~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~----~~~~~~~~~~~~~i~~e~~~~--~~~~~~~~~f~ 585 (724)
.+ .....+. +....-...-.+||||-|....+.++.... ..+ ..+. ..|-.-..+. .++..+...++
T Consensus 289 ~s--~~~~~~~-~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~--~~l~--~~v~~~~~~~~~~er~~ie~~~~ 361 (851)
T COG1205 289 RS--ALAELAT-LAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREG--GKLL--DAVSTYRAGLHREERRRIEAEFK 361 (851)
T ss_pred cc--hHHHHHH-HHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcc--hhhh--hheeeccccCCHHHHHHHHHHHh
Confidence 11 2233333 333333456699999999999999974332 221 0010 1122222222 23344556665
Q ss_pred HhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhc
Q 004910 586 KACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVG 665 (724)
Q Consensus 586 ~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~G 665 (724)
. |+..+++++ ..+-=|||+-+ +.+||..|+|-- .+....|.+|
T Consensus 362 ~----g~~~~~~st--~AlelgidiG~--ldavi~~g~P~~-----------------------------s~~~~~Q~~G 404 (851)
T COG1205 362 E----GELLGVIAT--NALELGIDIGS--LDAVIAYGYPGV-----------------------------SVLSFRQRAG 404 (851)
T ss_pred c----CCccEEecc--hhhhhceeehh--hhhHhhcCCCCc-----------------------------hHHHHHHhhh
Confidence 4 677777776 57889999976 567899998852 1245568899
Q ss_pred ccccCCCC
Q 004910 666 RVIRSKAD 673 (724)
Q Consensus 666 R~iR~~~D 673 (724)
|.=|..+.
T Consensus 405 RaGR~~~~ 412 (851)
T COG1205 405 RAGRRGQE 412 (851)
T ss_pred hccCCCCC
Confidence 99887743
No 181
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=92.78 E-value=0.44 Score=55.88 Aligned_cols=119 Identities=19% Similarity=0.338 Sum_probs=78.0
Q ss_pred HHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeC-CCchhHHHHHHHHHHhccCCCCeEEE
Q 004910 519 NYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVFF 597 (724)
Q Consensus 519 ~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~-~~~~~~~~~~~~f~~~~~~~~~~vL~ 597 (724)
.+.+.|.+.. ..+..++||+++....+.+.+.+.+.++ +..++.+ .+...+...++.|+. |+-.|++
T Consensus 434 ~L~~~L~~~~-~~g~~viIf~~t~~~ae~L~~~L~~~gi-------~~~~~h~~~~~~~R~~~l~~f~~----g~i~vlV 501 (652)
T PRK05298 434 DLLSEIRKRV-AKGERVLVTTLTKRMAEDLTDYLKELGI-------KVRYLHSDIDTLERVEIIRDLRL----GEFDVLV 501 (652)
T ss_pred HHHHHHHHHH-hCCCEEEEEeCCHHHHHHHHHHHhhcce-------eEEEEECCCCHHHHHHHHHHHHc----CCceEEE
Confidence 3444444433 2456899999999999999999887543 2233333 333456677888875 5556777
Q ss_pred EeecCcccccccCCCCCceEEEEEccCCC-CCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeE-
Q 004910 598 SVARGKVAEGIDFDRHYGRLVIMFGVPFQ-YTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYG- 675 (724)
Q Consensus 598 ~v~~g~~~EGiD~~~~~~r~vii~glPfp-~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g- 675 (724)
|+ |.+.+|+|+|+ .+.||+...+.. .|.+ .....|.+||.-|.. .|
T Consensus 502 ~t--~~L~rGfdlp~--v~lVii~d~eifG~~~~--------------------------~~~yiqr~GR~gR~~--~G~ 549 (652)
T PRK05298 502 GI--NLLREGLDIPE--VSLVAILDADKEGFLRS--------------------------ERSLIQTIGRAARNV--NGK 549 (652)
T ss_pred Ee--CHHhCCccccC--CcEEEEeCCcccccCCC--------------------------HHHHHHHhccccCCC--CCE
Confidence 66 79999999998 457888776532 1111 123469999999974 35
Q ss_pred EEEEEe
Q 004910 676 MMIFAD 681 (724)
Q Consensus 676 ~vvllD 681 (724)
++.++|
T Consensus 550 ~i~~~~ 555 (652)
T PRK05298 550 VILYAD 555 (652)
T ss_pred EEEEec
Confidence 455666
No 182
>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=92.71 E-value=0.26 Score=44.92 Aligned_cols=32 Identities=38% Similarity=0.407 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHh--CCcEEEEcCCCcchHHH
Q 004910 20 EQYSYMLELKRALDA--KGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~--~~~~~iEApTGtGKTla 51 (724)
+|.+....+...+.. +.++++-+|+|+|||..
T Consensus 2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l 35 (151)
T cd00009 2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTTL 35 (151)
T ss_pred chHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHH
Confidence 566777788888877 67899999999999964
No 183
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=92.63 E-value=0.24 Score=53.04 Aligned_cols=55 Identities=35% Similarity=0.369 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchh
Q 004910 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~ 78 (724)
-++.+.+..+..++..++++++|+|+|+|||. |..+++.... .+...|-+|+...
T Consensus 27 ~g~~~~~~~~l~a~~~~~~vll~G~PG~gKT~--la~~lA~~l~---~~~~~i~~t~~l~ 81 (329)
T COG0714 27 VGDEEVIELALLALLAGGHVLLEGPPGVGKTL--LARALARALG---LPFVRIQCTPDLL 81 (329)
T ss_pred eccHHHHHHHHHHHHcCCCEEEECCCCccHHH--HHHHHHHHhC---CCeEEEecCCCCC
Confidence 44889999999999999999999999999998 4455554432 2335566666543
No 184
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=92.54 E-value=0.21 Score=58.21 Aligned_cols=77 Identities=13% Similarity=0.212 Sum_probs=61.4
Q ss_pred EcceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHH
Q 004910 5 LEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (724)
Q Consensus 5 i~~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~ 84 (724)
|+..-..|||+. =+-|++.+. +|..|.-+++-|+|-.|||+.+=++ ++.++.+ +. |.||.+|-+++-+|=+
T Consensus 287 Vpe~a~~~pFel-D~FQk~Ai~----~lerg~SVFVAAHTSAGKTvVAEYA-ialaq~h--~T-R~iYTSPIKALSNQKf 357 (1248)
T KOG0947|consen 287 VPEMALIYPFEL-DTFQKEAIY----HLERGDSVFVAAHTSAGKTVVAEYA-IALAQKH--MT-RTIYTSPIKALSNQKF 357 (1248)
T ss_pred chhHHhhCCCCc-cHHHHHHHH----HHHcCCeEEEEecCCCCcchHHHHH-HHHHHhh--cc-ceEecchhhhhccchH
Confidence 334446799995 789998665 4568899999999999999987664 4455544 45 9999999999999999
Q ss_pred HHHHhh
Q 004910 85 AELKLL 90 (724)
Q Consensus 85 ~el~~l 90 (724)
+|++..
T Consensus 358 RDFk~t 363 (1248)
T KOG0947|consen 358 RDFKET 363 (1248)
T ss_pred HHHHHh
Confidence 998864
No 185
>PRK13531 regulatory ATPase RavA; Provisional
Probab=92.31 E-value=0.12 Score=57.13 Aligned_cols=34 Identities=18% Similarity=0.051 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHH
Q 004910 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~ 52 (724)
.+|.+.++.+..++..++++++++|+|||||...
T Consensus 23 ~gre~vI~lll~aalag~hVLL~GpPGTGKT~LA 56 (498)
T PRK13531 23 YERSHAIRLCLLAALSGESVFLLGPPGIAKSLIA 56 (498)
T ss_pred cCcHHHHHHHHHHHccCCCEEEECCCChhHHHHH
Confidence 5788999999999999999999999999999854
No 186
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.30 E-value=0.22 Score=56.20 Aligned_cols=92 Identities=13% Similarity=0.200 Sum_probs=49.4
Q ss_pred HHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCC-CchhHHHHHHHHHHhccCCCCeEEEEee
Q 004910 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSVA 600 (724)
Q Consensus 522 ~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~-~~~~~~~~~~~f~~~~~~~~~~vL~~v~ 600 (724)
+.+..+.......++|.-.=-.+|+-+..++++.+. ...-+.++ ...++..+++.|... +.+....|++..
T Consensus 736 ~~le~i~~~skeK~viVSQwtsvLniv~~hi~~~g~-------~y~si~Gqv~vK~Rq~iv~~FN~~-k~~~rVmLlSLt 807 (901)
T KOG4439|consen 736 EILETILTSSKEKVVIVSQWTSVLNIVRKHIQKGGH-------IYTSITGQVLVKDRQEIVDEFNQE-KGGARVMLLSLT 807 (901)
T ss_pred HHHHHHhhcccceeeehhHHHHHHHHHHHHHhhCCe-------eeeeecCccchhHHHHHHHHHHhc-cCCceEEEEEEc
Confidence 344445444566666664445567777777776542 10111111 124667889999763 122333444331
Q ss_pred cCcccccccCCCCCceEEEEEccCC
Q 004910 601 RGKVAEGIDFDRHYGRLVIMFGVPF 625 (724)
Q Consensus 601 ~g~~~EGiD~~~~~~r~vii~glPf 625 (724)
.=.=|+++-| ...+|+++|=.
T Consensus 808 --AGGVGLNL~G--aNHlilvDlHW 828 (901)
T KOG4439|consen 808 --AGGVGLNLIG--ANHLILVDLHW 828 (901)
T ss_pred --cCcceeeecc--cceEEEEeccc
Confidence 1123556655 56789999876
No 187
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=92.05 E-value=0.46 Score=54.50 Aligned_cols=89 Identities=19% Similarity=0.273 Sum_probs=60.2
Q ss_pred CeEEEecCCCCCccchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhccc
Q 004910 452 QSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIV 531 (724)
Q Consensus 452 ~s~Il~SaTL~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~~ 531 (724)
=..|+|||||...++-....= ||...| - +.=..++.+++--|..|...+|.....+....|.+..
T Consensus 415 LKLIIMSATLRVsDFtenk~L--------Fpi~pP--l-----ikVdARQfPVsIHF~krT~~DYi~eAfrKtc~IH~kL 479 (1172)
T KOG0926|consen 415 LKLIIMSATLRVSDFTENKRL--------FPIPPP--L-----IKVDARQFPVSIHFNKRTPDDYIAEAFRKTCKIHKKL 479 (1172)
T ss_pred eeEEEEeeeEEecccccCcee--------cCCCCc--e-----eeeecccCceEEEeccCCCchHHHHHHHHHHHHhhcC
Confidence 368999999998764321111 111111 0 1112456678888888887777766666666666665
Q ss_pred C-CcEEEEecChHHHHHHHHHHhhc
Q 004910 532 P-DGIVCFFVSYSYMDEIIATWNDS 555 (724)
Q Consensus 532 ~-g~~Lvlf~Sy~~l~~v~~~~~~~ 555 (724)
| ||+|||.|--...+++.+.+++.
T Consensus 480 P~G~ILVFvTGQqEV~qL~~kLRK~ 504 (1172)
T KOG0926|consen 480 PPGGILVFVTGQQEVDQLCEKLRKR 504 (1172)
T ss_pred CCCcEEEEEeChHHHHHHHHHHHhh
Confidence 4 89999999999999999988765
No 188
>PRK06526 transposase; Provisional
Probab=91.81 E-value=0.18 Score=51.71 Aligned_cols=43 Identities=19% Similarity=0.253 Sum_probs=27.9
Q ss_pred HHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 29 KRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 29 ~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
.+.+..+.++++-+|+|||||.... ++...... .+. +|++.|.
T Consensus 92 ~~fi~~~~nlll~Gp~GtGKThLa~--al~~~a~~-~g~-~v~f~t~ 134 (254)
T PRK06526 92 LDFVTGKENVVFLGPPGTGKTHLAI--GLGIRACQ-AGH-RVLFATA 134 (254)
T ss_pred CchhhcCceEEEEeCCCCchHHHHH--HHHHHHHH-CCC-chhhhhH
Confidence 3466777899999999999997543 33322211 245 7777544
No 189
>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=91.69 E-value=0.38 Score=48.17 Aligned_cols=63 Identities=21% Similarity=0.359 Sum_probs=34.5
Q ss_pred CCCCCCCHHH-HHHHHHHHHHHHhC-----CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 12 FPYDNIYPEQ-YSYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 12 Fp~~~~r~~Q-~e~~~~v~~~l~~~-----~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
|.|+..-++. -+.+.+..+++.++ ..++|-+|+|+|||- .|.++...+.....+. +|+|.+..
T Consensus 5 ~tFdnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTH-LL~Ai~~~~~~~~~~~-~v~y~~~~ 73 (219)
T PF00308_consen 5 YTFDNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTH-LLQAIANEAQKQHPGK-RVVYLSAE 73 (219)
T ss_dssp -SCCCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHH-HHHHHHHHHHHHCTTS--EEEEEHH
T ss_pred CccccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHH-HHHHHHHHHHhccccc-cceeecHH
Confidence 4555433333 34444555555443 258999999999998 2333333333222245 89998854
No 190
>PRK06921 hypothetical protein; Provisional
Probab=91.58 E-value=0.63 Score=48.09 Aligned_cols=38 Identities=24% Similarity=0.251 Sum_probs=24.3
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
+..+++-+|||+|||.-.. |++.......+. +|+|.+.
T Consensus 117 ~~~l~l~G~~G~GKThLa~--aia~~l~~~~g~-~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLT--AAANELMRKKGV-PVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHH--HHHHHHhhhcCc-eEEEEEH
Confidence 5679999999999997433 333322111134 7888774
No 191
>PRK08939 primosomal protein DnaI; Reviewed
Probab=91.48 E-value=0.55 Score=49.54 Aligned_cols=52 Identities=15% Similarity=0.082 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHh------CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 19 PEQYSYMLELKRALDA------KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~------~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
+.+.+++..+.+.+.+ ++.+++-+|+|||||.- +.|++..... .+. +|.|.+
T Consensus 134 ~~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThL--a~Aia~~l~~-~g~-~v~~~~ 191 (306)
T PRK08939 134 RDRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYL--LAAIANELAK-KGV-SSTLLH 191 (306)
T ss_pred hHHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHH--HHHHHHHHHH-cCC-CEEEEE
Confidence 3566666666666652 45799999999999974 3344433222 234 666554
No 192
>PRK12377 putative replication protein; Provisional
Probab=91.43 E-value=0.6 Score=47.60 Aligned_cols=54 Identities=19% Similarity=0.092 Sum_probs=31.0
Q ss_pred CHHHHHHHHHHHH---HHHhC-CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 18 YPEQYSYMLELKR---ALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 18 r~~Q~e~~~~v~~---~l~~~-~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
.++|..++..+.. .+..+ ..+++-+|+|||||.... |++..... .+. +|+|.|-
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~--AIa~~l~~-~g~-~v~~i~~ 137 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAA--AIGNRLLA-KGR-SVIVVTV 137 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHH--HHHHHHHH-cCC-CeEEEEH
Confidence 3677665544443 33333 578999999999997433 33332222 234 6666553
No 193
>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=91.07 E-value=0.4 Score=51.82 Aligned_cols=52 Identities=25% Similarity=0.235 Sum_probs=37.5
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
..++|+++.|||||+.++.-+-.... ...+. ++++++.++++...+-+.+..
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~-~~~~~-~~~~l~~n~~l~~~l~~~l~~ 53 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQN-SEEGK-KVLYLCGNHPLRNKLREQLAK 53 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhc-cccCC-ceEEEEecchHHHHHHHHHhh
Confidence 46899999999999987754333311 12345 899999999998877666554
No 194
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=91.04 E-value=2.6 Score=46.38 Aligned_cols=80 Identities=18% Similarity=0.282 Sum_probs=57.6
Q ss_pred HHHHHhccc-CCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004910 523 LLVEMVSIV-PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (724)
Q Consensus 523 ~i~~~~~~~-~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~ 601 (724)
.|.++++.. ...++||.+-.+..+.+++.+.+.++ +...+.-+++...+...++.|+. +.+.||+|+
T Consensus 507 kL~eil~~~~~ppiIIFvN~kk~~d~lAk~LeK~g~------~~~tlHg~k~qeQRe~aL~~fr~----~t~dIlVaT-- 574 (673)
T KOG0333|consen 507 KLIEILESNFDPPIIIFVNTKKGADALAKILEKAGY------KVTTLHGGKSQEQRENALADFRE----GTGDILVAT-- 574 (673)
T ss_pred HHHHHHHhCCCCCEEEEEechhhHHHHHHHHhhccc------eEEEeeCCccHHHHHHHHHHHHh----cCCCEEEEe--
Confidence 344444443 56899999999999999999987653 12233333444456778999986 678899987
Q ss_pred CcccccccCCCCC
Q 004910 602 GKVAEGIDFDRHY 614 (724)
Q Consensus 602 g~~~EGiD~~~~~ 614 (724)
.....|||+|+-.
T Consensus 575 DvAgRGIDIpnVS 587 (673)
T KOG0333|consen 575 DVAGRGIDIPNVS 587 (673)
T ss_pred cccccCCCCCccc
Confidence 5899999999843
No 195
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=91.02 E-value=1 Score=51.04 Aligned_cols=70 Identities=14% Similarity=0.078 Sum_probs=46.3
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCC-CCceEEEEccchhhHHHHHHHHHhh
Q 004910 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~-~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
...|..=+.=+....++|-++++--..|-|||.-.+ +.+++.....+ -+ +.+|.||.-. +..+..|+.++
T Consensus 569 KEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsi-svlAhLaE~~nIwG-PFLVVtpaSt-L~NWaqEisrF 639 (1185)
T KOG0388|consen 569 KEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSI-SVLAHLAETHNIWG-PFLVVTPAST-LHNWAQEISRF 639 (1185)
T ss_pred HHHhhccHHHHHHHHHccccceehhhhccchhHHHH-HHHHHHHHhccCCC-ceEEeehHHH-HhHHHHHHHHh
Confidence 355666666667777888899999999999998654 34555544321 23 6777777643 34555565554
No 196
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=91.00 E-value=1.3 Score=52.70 Aligned_cols=203 Identities=14% Similarity=0.152 Sum_probs=101.9
Q ss_pred CeEEEecCCCCCccchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChH--HHHHHHHHHHHHhc
Q 004910 452 QSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPG--VARNYGKLLVEMVS 529 (724)
Q Consensus 452 ~s~Il~SaTL~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~--~~~~~~~~i~~~~~ 529 (724)
=++|.|||||... -|...+|--+.... + -.+.++.-.|......+ ....+...+.....
T Consensus 196 LKiIimSATld~~-rfs~~f~~apvi~i-----------------~-GR~fPVei~Y~~~~~~d~~l~~ai~~~v~~~~~ 256 (845)
T COG1643 196 LKLIIMSATLDAE-RFSAYFGNAPVIEI-----------------E-GRTYPVEIRYLPEAEADYILLDAIVAAVDIHLR 256 (845)
T ss_pred ceEEEEecccCHH-HHHHHcCCCCEEEe-----------------c-CCccceEEEecCCCCcchhHHHHHHHHHHHhcc
Confidence 3799999999764 45555553222110 0 11123333332211111 45667777777777
Q ss_pred ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccc-cc
Q 004910 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAE-GI 608 (724)
Q Consensus 530 ~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~E-Gi 608 (724)
.-+|.+|||+|.-+..+++.+.+.+...-.++. --++|.+ .+..+-..-|.-. ..++..|.+++ +..| ++
T Consensus 257 ~~~GdILvFLpG~~EI~~~~~~L~~~~l~~~~~-i~PLy~~----L~~~eQ~rvF~p~-~~~~RKVVlAT---NIAETSL 327 (845)
T COG1643 257 EGSGSILVFLPGQREIERTAEWLEKAELGDDLE-ILPLYGA----LSAEEQVRVFEPA-PGGKRKVVLAT---NIAETSL 327 (845)
T ss_pred CCCCCEEEECCcHHHHHHHHHHHHhccccCCcE-Eeecccc----CCHHHHHhhcCCC-CCCcceEEEEc---cccccce
Confidence 789999999999999999999987621100000 0123321 1112222233321 22323488887 4555 34
Q ss_pred cCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcc-cHHHHHHHHHHhhcccccCCCCeEEEEEEecccCCC
Q 004910 609 DFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDF-LTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRH 687 (724)
Q Consensus 609 D~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~-~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~~~ 687 (724)
=++| .|.||=.|+=-- ..++-+-+ -..+ ..+-.--..+|..||+-|...-.+ + |+.+.
T Consensus 328 TI~g--Ir~VIDsG~ak~-----------~~y~~~~g--~~~L~~~~ISqAsA~QRaGRAGR~~pGic--y----RLyse 386 (845)
T COG1643 328 TIPG--IRYVIDSGLAKE-----------KRYDPRTG--LTRLETEPISKASADQRAGRAGRTGPGIC--Y----RLYSE 386 (845)
T ss_pred eeCC--eEEEecCCcccc-----------cccccccC--ceeeeEEEechhhhhhhccccccCCCceE--E----EecCH
Confidence 4443 555555553211 11111111 0111 112222356899999999776554 2 33332
Q ss_pred -cccCCCchHHHhhcccc
Q 004910 688 -DKRSKLPGWILSHLRDA 704 (724)
Q Consensus 688 -~~~~~lp~w~~~~~~~~ 704 (724)
.+. .+|....+.|...
T Consensus 387 ~~~~-~~~~~t~PEIlrt 403 (845)
T COG1643 387 EDFL-AFPEFTLPEILRT 403 (845)
T ss_pred HHHH-hcccCCChhhhhc
Confidence 222 5566666555554
No 197
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=90.99 E-value=1.3 Score=52.26 Aligned_cols=139 Identities=13% Similarity=0.127 Sum_probs=79.0
Q ss_pred cchHHhhccCeEEEecCCCCCcc-chhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHH
Q 004910 443 AVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 521 (724)
Q Consensus 443 ~l~~l~~~~~s~Il~SaTL~~~~-~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~ 521 (724)
.++.+|...+..--|+||..... .|.+..|++-+. +|-.-| ..-.+.|+. -| +...+-+..+.
T Consensus 353 T~QnfFr~Y~kLsGMTGTA~te~~Ef~~iY~l~Vv~---IPTnkP------~~R~D~~d~-----iy--~t~~~K~~Aii 416 (925)
T PRK12903 353 TYQNFFRLFKKLSGMTGTAKTEEQEFIDIYNMRVNV---VPTNKP------VIRKDEPDS-----IF--GTKHAKWKAVV 416 (925)
T ss_pred hHHHHHHhcchhhccCCCCHHHHHHHHHHhCCCEEE---CCCCCC------eeeeeCCCc-----EE--EcHHHHHHHHH
Confidence 34677888888899999986542 566666665321 111000 000011111 11 12223335566
Q ss_pred HHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004910 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (724)
Q Consensus 522 ~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~ 601 (724)
+.|.+..+ .+..+||.+.|-+.-+.+...|.+.++-. .++- .+....-..++. ++ ...|+|.+|+
T Consensus 417 ~ei~~~~~-~gqPVLVgT~SIe~SE~ls~~L~~~gi~h------~vLN-Ak~~e~EA~IIa---~A--G~~GaVTIAT-- 481 (925)
T PRK12903 417 KEVKRVHK-KGQPILIGTAQVEDSETLHELLLEANIPH------TVLN-AKQNAREAEIIA---KA--GQKGAITIAT-- 481 (925)
T ss_pred HHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHCCCCc------eeec-ccchhhHHHHHH---hC--CCCCeEEEec--
Confidence 66666553 56799999999999999999998876421 2321 111111112222 21 2368999987
Q ss_pred CcccccccCCC
Q 004910 602 GKVAEGIDFDR 612 (724)
Q Consensus 602 g~~~EGiD~~~ 612 (724)
.-...|.|+.-
T Consensus 482 NMAGRGTDI~L 492 (925)
T PRK12903 482 NMAGRGTDIKL 492 (925)
T ss_pred ccccCCcCccC
Confidence 57889999964
No 198
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=90.87 E-value=3.2 Score=48.39 Aligned_cols=128 Identities=16% Similarity=0.132 Sum_probs=85.1
Q ss_pred HHHHHHHHHHhcc--c---CCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCC
Q 004910 518 RNYGKLLVEMVSI--V---PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGR 592 (724)
Q Consensus 518 ~~~~~~i~~~~~~--~---~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~ 592 (724)
+.++..+.+.+.. . .+.++||..+....+.+...+.+... + .+++-+-+=..+.......++.|.. +..-
T Consensus 407 ~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~yp--e-~~~~~a~~IT~d~~~~q~~Id~f~~--ke~~ 481 (875)
T COG4096 407 ETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYP--E-YNGRYAMKITGDAEQAQALIDNFID--KEKY 481 (875)
T ss_pred HHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCc--c-ccCceEEEEeccchhhHHHHHHHHh--cCCC
Confidence 4455666666554 2 36899999999999999999876422 1 1112111112233445667888876 2344
Q ss_pred CeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCC
Q 004910 593 GAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA 672 (724)
Q Consensus 593 ~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~ 672 (724)
+.|-++| +-+..|||.|- |.++|..+ .| ....++.|.+||.-|--.
T Consensus 482 P~Iaitv--dlL~TGiDvpe--v~nlVF~r---------~V---------------------rSktkF~QMvGRGTRl~~ 527 (875)
T COG4096 482 PRIAITV--DLLTTGVDVPE--VVNLVFDR---------KV---------------------RSKTKFKQMVGRGTRLCP 527 (875)
T ss_pred CceEEeh--hhhhcCCCchh--eeeeeehh---------hh---------------------hhHHHHHHHhcCccccCc
Confidence 5688877 68999999995 55555444 11 235788999999999888
Q ss_pred CeE-------EEEEEeccc
Q 004910 673 DYG-------MMIFADKRY 684 (724)
Q Consensus 673 D~g-------~vvllD~R~ 684 (724)
|.| -+.|+|-.=
T Consensus 528 ~~~~~~~dK~~F~ifDf~~ 546 (875)
T COG4096 528 DLGGPEQDKEFFTIFDFVD 546 (875)
T ss_pred cccCccccceeEEEEEhhh
Confidence 777 688888653
No 199
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=90.87 E-value=0.56 Score=55.30 Aligned_cols=67 Identities=16% Similarity=0.178 Sum_probs=48.2
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC-C-CCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~-~-~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
..|.|++.+.. ..++++|-|+.|||||.+... -++|.... . ... +|++.|-|+...+.+-+.+..+.
T Consensus 3 Ln~~Q~~av~~------~~g~~lV~AgpGSGKT~vL~~-Ria~Li~~~~v~p~-~IL~lTFT~kAA~em~~Rl~~~l 71 (672)
T PRK10919 3 LNPGQQQAVEF------VTGPCLVLAGAGSGKTRVITN-KIAHLIRGCGYQAR-HIAAVTFTNKAAREMKERVAQTL 71 (672)
T ss_pred CCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHH-HHHHHHHhcCCCHH-HeeeEechHHHHHHHHHHHHHHh
Confidence 45788885542 357899999999999988554 45555432 2 234 89999999999888777666553
No 200
>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=90.57 E-value=0.27 Score=48.17 Aligned_cols=34 Identities=35% Similarity=0.286 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHH
Q 004910 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~ 52 (724)
.+|.+.-.++.-|...+.++++.+|.|||||+..
T Consensus 6 ~GQe~aKrAL~iAAaG~h~lLl~GppGtGKTmlA 39 (206)
T PF01078_consen 6 VGQEEAKRALEIAAAGGHHLLLIGPPGTGKTMLA 39 (206)
T ss_dssp SSTHHHHHHHHHHHHCC--EEEES-CCCTHHHHH
T ss_pred cCcHHHHHHHHHHHcCCCCeEEECCCCCCHHHHH
Confidence 5788888888888888889999999999999854
No 201
>PRK07952 DNA replication protein DnaC; Validated
Probab=90.52 E-value=0.83 Score=46.45 Aligned_cols=52 Identities=13% Similarity=0.148 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHh---C-CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 19 PEQYSYMLELKRALDA---K-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~---~-~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
+.|.+.+..+.+..++ + ..+++-+|+|||||.-+. +++..... .+. +|+|.|
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~--aia~~l~~-~g~-~v~~it 134 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAA--AICNELLL-RGK-SVLIIT 134 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHH--HHHHHHHh-cCC-eEEEEE
Confidence 5676666665554432 2 478999999999997433 33322222 245 787775
No 202
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.34 E-value=1.7 Score=48.54 Aligned_cols=94 Identities=26% Similarity=0.384 Sum_probs=68.3
Q ss_pred HHHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeC-CCchhHHHHHHHHHHhccCCCCeE
Q 004910 517 ARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAV 595 (724)
Q Consensus 517 ~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~-~~~~~~~~~~~~f~~~~~~~~~~v 595 (724)
.+.+...|..+....++.++||+......+.+...++..++ +.+-+.+ ..+.+++..|+.|++ |+-.|
T Consensus 326 ~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~~-------~a~~iHGd~sQ~eR~~~L~~Fre----G~~~v 394 (519)
T KOG0331|consen 326 LRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKGW-------PAVAIHGDKSQSERDWVLKGFRE----GKSPV 394 (519)
T ss_pred HHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcCc-------ceeeecccccHHHHHHHHHhccc----CCcce
Confidence 45666667777666788999999999999999888776431 1122222 223466778898875 78889
Q ss_pred EEEeecCcccccccCCCCCceEEEEEccCC
Q 004910 596 FFSVARGKVAEGIDFDRHYGRLVIMFGVPF 625 (724)
Q Consensus 596 L~~v~~g~~~EGiD~~~~~~r~vii~glPf 625 (724)
|+|+ .-.+.|+|+|| .+.||-.-.|-
T Consensus 395 LVAT--dVAaRGLDi~d--V~lVInydfP~ 420 (519)
T KOG0331|consen 395 LVAT--DVAARGLDVPD--VDLVINYDFPN 420 (519)
T ss_pred EEEc--ccccccCCCcc--ccEEEeCCCCC
Confidence 9987 68999999998 56677766553
No 203
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=90.32 E-value=1.8 Score=38.91 Aligned_cols=31 Identities=23% Similarity=0.155 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHhC---CcEE--EEcCCCcchHHHHH
Q 004910 23 SYMLELKRALDAK---GHCL--LEMPTGTGKTIALL 53 (724)
Q Consensus 23 e~~~~v~~~l~~~---~~~~--iEApTGtGKTla~L 53 (724)
.++.+|...+.+. +.++ +-+|||||||.+.=
T Consensus 36 ~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~ 71 (127)
T PF06309_consen 36 VVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSR 71 (127)
T ss_pred HHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHH
Confidence 4445555555443 4555 79999999997543
No 204
>PRK09183 transposase/IS protein; Provisional
Probab=90.28 E-value=0.44 Score=49.05 Aligned_cols=40 Identities=23% Similarity=0.310 Sum_probs=26.5
Q ss_pred HHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 31 ~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
.+..+.++++-+|+|+|||.-.. ++..... ..+. +|.|.+
T Consensus 98 ~i~~~~~v~l~Gp~GtGKThLa~--al~~~a~-~~G~-~v~~~~ 137 (259)
T PRK09183 98 FIERNENIVLLGPSGVGKTHLAI--ALGYEAV-RAGI-KVRFTT 137 (259)
T ss_pred chhcCCeEEEEeCCCCCHHHHHH--HHHHHHH-HcCC-eEEEEe
Confidence 36778899999999999996433 3332211 2245 777765
No 205
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=90.14 E-value=0.64 Score=51.19 Aligned_cols=83 Identities=17% Similarity=0.292 Sum_probs=57.0
Q ss_pred HhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCC-CchhHHHHHHHHHHhccCCCCeEEEEeecCccc
Q 004910 527 MVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSVARGKVA 605 (724)
Q Consensus 527 ~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~-~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~ 605 (724)
++..-||.+|||++|.....+++..+..-++ .++-.... ....+-.-+++|++ ...+||+|+ .-..
T Consensus 458 fl~ryPGrTlVF~NsId~vKRLt~~L~~L~i-------~p~~LHA~M~QKqRLknLEkF~~----~~~~VLiaT--DVAA 524 (731)
T KOG0347|consen 458 FLTRYPGRTLVFCNSIDCVKRLTVLLNNLDI-------PPLPLHASMIQKQRLKNLEKFKQ----SPSGVLIAT--DVAA 524 (731)
T ss_pred EEeecCCceEEEechHHHHHHHHHHHhhcCC-------CCchhhHHHHHHHHHHhHHHHhc----CCCeEEEee--hhhh
Confidence 4556799999999999999999998875432 11111111 11233445899987 477899987 5899
Q ss_pred ccccCCCCCceEEEEEccC
Q 004910 606 EGIDFDRHYGRLVIMFGVP 624 (724)
Q Consensus 606 EGiD~~~~~~r~vii~glP 624 (724)
.|+|+|| ...||=.-+|
T Consensus 525 RGLDIp~--V~HVIHYqVP 541 (731)
T KOG0347|consen 525 RGLDIPG--VQHVIHYQVP 541 (731)
T ss_pred ccCCCCC--cceEEEeecC
Confidence 9999998 3445555555
No 206
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.94 E-value=0.39 Score=50.40 Aligned_cols=81 Identities=19% Similarity=0.339 Sum_probs=57.3
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCc--hhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV--VETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~--~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGi 608 (724)
.-|..+||+.-.+..+-++..+...|. . |-+-..+. .++..++++|++ |..-||+++ .-+..||
T Consensus 329 tigqsiIFc~tk~ta~~l~~~m~~~Gh-------~-V~~l~G~l~~~~R~~ii~~Fr~----g~~kVLitT--nV~ARGi 394 (477)
T KOG0332|consen 329 TIGQSIIFCHTKATAMWLYEEMRAEGH-------Q-VSLLHGDLTVEQRAAIIDRFRE----GKEKVLITT--NVCARGI 394 (477)
T ss_pred hhhheEEEEeehhhHHHHHHHHHhcCc-------e-eEEeeccchhHHHHHHHHHHhc----CcceEEEEe--chhhccc
Confidence 347888999999988888888877652 1 21112232 356778999987 677899987 5899999
Q ss_pred cCCCCCceEEEEEccCCCC
Q 004910 609 DFDRHYGRLVIMFGVPFQY 627 (724)
Q Consensus 609 D~~~~~~r~vii~glPfp~ 627 (724)
|.+- ...||=.-||--.
T Consensus 395 Dv~q--Vs~VvNydlP~~~ 411 (477)
T KOG0332|consen 395 DVAQ--VSVVVNYDLPVKY 411 (477)
T ss_pred ccce--EEEEEecCCcccc
Confidence 9974 5566666777543
No 207
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=89.85 E-value=0.8 Score=54.58 Aligned_cols=68 Identities=16% Similarity=0.189 Sum_probs=50.0
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC-C-CCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~-~-~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
...|.|++.+.. ..++++|-|+.|||||.+...- ++|.... . ... +|++.|-|+.....+-+.+..+.
T Consensus 9 ~Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~vl~~R-ia~Li~~~~v~p~-~IL~lTFT~kAA~Em~~Rl~~~~ 78 (721)
T PRK11773 9 SLNDKQREAVAA------PLGNMLVLAGAGSGKTRVLVHR-IAWLMQVENASPY-SIMAVTFTNKAAAEMRHRIEQLL 78 (721)
T ss_pred hcCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHH-HHHHHHcCCCChh-HeEeeeccHHHHHHHHHHHHHHh
Confidence 467899886542 3579999999999999886544 4555432 1 234 89999999999888877776654
No 208
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=89.80 E-value=1.3 Score=47.84 Aligned_cols=72 Identities=14% Similarity=0.129 Sum_probs=44.0
Q ss_pred CCHHHHHHHHHHHHHH-HhC--CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 17 IYPEQYSYMLELKRAL-DAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l-~~~--~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.|..|.+-+..+.... .++ .++++-+|||||||...-.-+ .-......+..-+.|=+.......|++.++-.
T Consensus 21 ~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~-~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~ 95 (366)
T COG1474 21 HREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVM-EELEESSANVEVVYINCLELRTPYQVLSKILN 95 (366)
T ss_pred ccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHH-HHHHhhhccCceEEEeeeeCCCHHHHHHHHHH
Confidence 3888887665555544 443 369999999999998766432 22221111111356667777777787776443
No 209
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=89.69 E-value=0.7 Score=49.34 Aligned_cols=29 Identities=28% Similarity=0.189 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 23 SYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 23 e~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
++..-+..++..+++++|.+|||+|||-.
T Consensus 148 ~~~~~L~~~v~~~~nili~G~tgSGKTTl 176 (332)
T PRK13900 148 KIKEFLEHAVISKKNIIISGGTSTGKTTF 176 (332)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHH
Confidence 34455556677889999999999999964
No 210
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=89.58 E-value=7.2 Score=47.55 Aligned_cols=126 Identities=19% Similarity=0.218 Sum_probs=75.0
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhccc------------------------------HHHHhcCcceEEeCCCchh-HHH
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDSGI------------------------------LKEIMQHKLVFIETQDVVE-TTL 579 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~~~------------------------------~~~~~~~~~i~~e~~~~~~-~~~ 579 (724)
-.+.+|||..|.+.-..++..++.... ++++..++ +-+...|+.. ...
T Consensus 545 gk~qVLVFVHsRkET~ktA~aIRd~~le~dtls~fmre~s~s~eilrtea~~~kn~dLkdLLpyg-faIHhAGl~R~dR~ 623 (1674)
T KOG0951|consen 545 GKNQVLVFVHSRKETAKTARAIRDKALEEDTLSRFMREDSASREILRTEAGQAKNPDLKDLLPYG-FAIHHAGLNRKDRE 623 (1674)
T ss_pred CCCcEEEEEEechHHHHHHHHHHHHHhhhhHHHHHHhcccchhhhhhhhhhcccChhHHHHhhcc-ceeeccCCCcchHH
Confidence 347999999999988888877763211 11111111 1122222211 112
Q ss_pred HHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHH
Q 004910 580 ALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQ 659 (724)
Q Consensus 580 ~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~ 659 (724)
..+..- ..|.--||++++ .+.-||++|++. |||=|----+|. ...|.. -.-+.
T Consensus 624 ~~EdLf---~~g~iqvlvsta--tlawgvnlpaht---Viikgtqvy~pe------------------kg~w~e-lsp~d 676 (1674)
T KOG0951|consen 624 LVEDLF---ADGHIQVLVSTA--TLAWGVNLPAHT---VIIKGTQVYDPE------------------KGRWTE-LSPLD 676 (1674)
T ss_pred HHHHHH---hcCceeEEEeeh--hhhhhcCCCcce---EEecCccccCcc------------------cCcccc-CCHHH
Confidence 222222 236667898874 799999999965 788884433332 123422 12267
Q ss_pred HHHhhcccccCCCC-eEEEEEEeccc
Q 004910 660 AAQCVGRVIRSKAD-YGMMIFADKRY 684 (724)
Q Consensus 660 v~Q~~GR~iR~~~D-~g~vvllD~R~ 684 (724)
+.|.+||.=|...| +|-+++.+.+-
T Consensus 677 v~qmlgragrp~~D~~gegiiit~~s 702 (1674)
T KOG0951|consen 677 VMQMLGRAGRPQYDTCGEGIIITDHS 702 (1674)
T ss_pred HHHHHhhcCCCccCcCCceeeccCch
Confidence 78999999998865 67788888764
No 211
>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=89.52 E-value=0.81 Score=57.75 Aligned_cols=65 Identities=20% Similarity=0.248 Sum_probs=47.1
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
+++.|.+.+. ..+++++|.|+-|||||.+..--++.......... ++++.|=|+.-...+-+.++
T Consensus 2 ~t~~Q~~ai~------~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~-~il~~tFt~~aa~e~~~ri~ 66 (1232)
T TIGR02785 2 WTDEQWQAIY------TRGQNILVSASAGSGKTAVLVERIIKKILRGVDID-RLLVVTFTNAAAREMKERIE 66 (1232)
T ss_pred CCHHHHHHHh------CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHh-hEEEEeccHHHHHHHHHHHH
Confidence 4688998775 35789999999999999997766655443221124 79999999987766555433
No 212
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=89.51 E-value=1.6 Score=50.61 Aligned_cols=72 Identities=17% Similarity=0.077 Sum_probs=45.3
Q ss_pred eCCCCC-CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHH--HHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHH
Q 004910 11 YFPYDN-IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL--LSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 11 ~Fp~~~-~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~--L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el 87 (724)
.||... .-+.|++.+ ..++. ++..+|-+|+|||||... ++..+ .........+|.+++||..-...+-+.+
T Consensus 146 lf~~~~~~~d~Qk~Av---~~a~~-~~~~vItGgpGTGKTt~v~~ll~~l--~~~~~~~~~~i~l~APTgkAA~rL~e~~ 219 (615)
T PRK10875 146 LFGPVTDEVDWQKVAA---AVALT-RRISVISGGPGTGKTTTVAKLLAAL--IQLADGERCRIRLAAPTGKAAARLTESL 219 (615)
T ss_pred hcCcCCCCCHHHHHHH---HHHhc-CCeEEEEeCCCCCHHHHHHHHHHHH--HHhcCCCCcEEEEECCcHHHHHHHHHHH
Confidence 465431 137888844 44443 579999999999999753 22222 1111111238999999998877776654
Q ss_pred H
Q 004910 88 K 88 (724)
Q Consensus 88 ~ 88 (724)
.
T Consensus 220 ~ 220 (615)
T PRK10875 220 G 220 (615)
T ss_pred H
Confidence 4
No 213
>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=89.44 E-value=0.76 Score=49.90 Aligned_cols=56 Identities=23% Similarity=0.303 Sum_probs=40.0
Q ss_pred CHHHHHHHHHHHHHHHh--CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccch
Q 004910 18 YPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~--~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~ 77 (724)
-+.|++..+.|.+++.. +.++++.+|-|||||+.+=. ...+... .++ .|+++.+|-
T Consensus 3 n~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~-i~~~~~~--~~~-~~~~~a~tg 60 (364)
T PF05970_consen 3 NEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKA-IIDYLRS--RGK-KVLVTAPTG 60 (364)
T ss_pred CHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHH-HHHHhcc--ccc-eEEEecchH
Confidence 47899999999888854 46889999999999986542 2333332 234 667666664
No 214
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=89.35 E-value=0.83 Score=54.42 Aligned_cols=68 Identities=19% Similarity=0.192 Sum_probs=49.7
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC-C-CCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~-~-~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
...|.|++.+.. ..++++|-|+.|||||-+...- ++|.... . ... +|++.|-|+.-...+-+.+..+.
T Consensus 4 ~Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~~L~~R-ia~Li~~~~v~p~-~IL~lTFTnkAA~em~~Rl~~~~ 73 (715)
T TIGR01075 4 GLNDKQREAVAA------PPGNLLVLAGAGSGKTRVLTHR-IAWLLSVENASPH-SIMAVTFTNKAAAEMRHRIGALL 73 (715)
T ss_pred ccCHHHHHHHcC------CCCCEEEEecCCCCHHHHHHHH-HHHHHHcCCCCHH-HeEeeeccHHHHHHHHHHHHHHh
Confidence 357889886542 3579999999999999885544 4555432 1 234 89999999998888777777654
No 215
>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=89.33 E-value=0.82 Score=45.93 Aligned_cols=52 Identities=21% Similarity=0.331 Sum_probs=31.8
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
|...+|++|+|+|||.-.+--+...+... +. +++|.|-. .--+++++.++.+
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~--ge-~vlyvs~e-e~~~~l~~~~~s~ 70 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNF--GE-KVLYVSFE-EPPEELIENMKSF 70 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHH--T---EEEEESS-S-HHHHHHHHHTT
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhc--CC-cEEEEEec-CCHHHHHHHHHHc
Confidence 46799999999999976554444444431 34 66666633 3336777766653
No 216
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=89.27 E-value=0.95 Score=53.52 Aligned_cols=67 Identities=19% Similarity=0.276 Sum_probs=48.0
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC-C-CCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~-~-~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
..|.|++.+.. ..++++|-|+.|||||.+.+.-+ .|.... + ..+ +|++.|-|+.-...+-+.+.+..
T Consensus 2 Ln~~Q~~av~~------~~~~~~V~Ag~GSGKT~~L~~ri-~~ll~~~~~~p~-~IL~vTFt~~Aa~em~~Rl~~~l 70 (664)
T TIGR01074 2 LNPQQQEAVEY------VTGPCLVLAGAGSGKTRVITNKI-AYLIQNCGYKAR-NIAAVTFTNKAAREMKERVAKTL 70 (664)
T ss_pred CCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHH-HHHHHhcCCCHH-HeEEEeccHHHHHHHHHHHHHHh
Confidence 35788775432 35799999999999998876654 444322 1 234 89999999988888777766543
No 217
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=89.24 E-value=0.84 Score=53.78 Aligned_cols=72 Identities=14% Similarity=0.151 Sum_probs=45.6
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCC-CCceEEEEccchhhHHHHHHHHHhh
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~-~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
..++.|+.-..=+.....+.=++++-=-+|.|||..-+. .+.|...... .+ +-+|.||+-.|- .+..|+.++
T Consensus 394 ~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIs-LitYLmE~K~~~G-P~LvivPlstL~-NW~~Ef~kW 466 (1157)
T KOG0386|consen 394 ELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTIS-LITYLMEHKQMQG-PFLIIVPLSTLV-NWSSEFPKW 466 (1157)
T ss_pred CCchhhhhhhHHHhhccCCCcccccchhcccchHHHHHH-HHHHHHHHcccCC-CeEEeccccccC-Cchhhcccc
Confidence 357888888877776666667899999999999987653 4555544322 23 556666654331 334444443
No 218
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=89.08 E-value=0.6 Score=48.04 Aligned_cols=37 Identities=38% Similarity=0.414 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHHHHH
Q 004910 19 PEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSL 55 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~L~~ 55 (724)
-+|......+..++..+ -+.++-+|.|||||-+.++.
T Consensus 39 ~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalaf 77 (346)
T KOG0989|consen 39 AGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAF 77 (346)
T ss_pred cchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHH
Confidence 36888888888888774 37999999999999987753
No 219
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=89.08 E-value=1.6 Score=45.19 Aligned_cols=70 Identities=11% Similarity=0.065 Sum_probs=39.0
Q ss_pred CHHHHHHHHHHHHHHHh------CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 18 YPEQYSYMLELKRALDA------KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~------~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
...|.|-+--..+.... +.-.++-=+||+||--.. ...+....... .+ |.|+.|-+..|..-..+||+.+
T Consensus 39 S~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~i-AgiI~~n~l~G-r~-r~vwvS~s~dL~~Da~RDl~DI 114 (303)
T PF13872_consen 39 SALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQI-AGIILENWLRG-RK-RAVWVSVSNDLKYDAERDLRDI 114 (303)
T ss_pred cHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchh-HHHHHHHHHcC-CC-ceEEEECChhhhhHHHHHHHHh
Confidence 45677644333333221 235677778888886431 12223222222 24 6777777777777777787775
No 220
>PLN03025 replication factor C subunit; Provisional
Probab=89.07 E-value=0.48 Score=50.46 Aligned_cols=34 Identities=26% Similarity=0.327 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~L 53 (724)
+|.+.+..+...+.++ .++++.+|+|||||..+.
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~ 52 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSIL 52 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHH
Confidence 6778777777777766 379999999999997554
No 221
>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=88.72 E-value=0.97 Score=43.66 Aligned_cols=47 Identities=23% Similarity=0.244 Sum_probs=30.4
Q ss_pred EEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 38 ~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.+|.+|+|+|||.-.+--+...++ .++ +++|.|-. ...+++++.+..
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~---~g~-~v~~~s~e-~~~~~~~~~~~~ 48 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLA---RGE-PGLYVTLE-ESPEELIENAES 48 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHH---CCC-cEEEEECC-CCHHHHHHHHHH
Confidence 689999999999866644444442 245 77777543 445666665544
No 222
>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=88.61 E-value=6.2 Score=44.84 Aligned_cols=74 Identities=20% Similarity=0.320 Sum_probs=50.1
Q ss_pred HHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCccc-HHHH
Q 004910 578 TLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFL-TFDA 656 (724)
Q Consensus 578 ~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~-~~~a 656 (724)
+.+++.|++ |+-.||+|+. -...|+|||+ .++|+|+..-..- . ..+|- ...+
T Consensus 302 ~~~l~~f~~----g~~~ILVgT~--~i~kG~d~~~--v~lV~vl~aD~~l-~------------------~pd~ra~E~~ 354 (505)
T TIGR00595 302 EALLNQFAN----GKADILIGTQ--MIAKGHHFPN--VTLVGVLDADSGL-H------------------SPDFRAAERG 354 (505)
T ss_pred HHHHHHHhc----CCCCEEEeCc--ccccCCCCCc--ccEEEEEcCcccc-c------------------CcccchHHHH
Confidence 567888875 6778999985 6999999997 5567776644321 0 11221 1246
Q ss_pred HHHHHHhhcccccCCCCeEEEEE
Q 004910 657 LRQAAQCVGRVIRSKADYGMMIF 679 (724)
Q Consensus 657 ~~~v~Q~~GR~iR~~~D~g~vvl 679 (724)
+..+.|.+||.=|... .|.++|
T Consensus 355 ~~ll~q~~GRagR~~~-~g~vii 376 (505)
T TIGR00595 355 FQLLTQVAGRAGRAED-PGQVII 376 (505)
T ss_pred HHHHHHHHhccCCCCC-CCEEEE
Confidence 7888999999988654 476664
No 223
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=88.60 E-value=0.65 Score=55.77 Aligned_cols=73 Identities=15% Similarity=0.158 Sum_probs=49.6
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-CCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~-~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
..|..|.+=++=++-.+.++.++|+-=-.|-|||+--.+ .|.|..... ..+ +.+|.+|-... ..+.+|+..+.
T Consensus 370 ~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~-fl~~l~~~~~~~g-pflvvvplst~-~~W~~ef~~w~ 443 (1373)
T KOG0384|consen 370 ELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTIT-FLSYLFHSLQIHG-PFLVVVPLSTI-TAWEREFETWT 443 (1373)
T ss_pred hhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHH-HHHHHHHhhhccC-CeEEEeehhhh-HHHHHHHHHHh
Confidence 468999999999999999999999999999999964332 233332211 234 67777765443 35566666653
No 224
>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=88.48 E-value=0.74 Score=53.68 Aligned_cols=51 Identities=20% Similarity=0.335 Sum_probs=39.4
Q ss_pred hCCcEEEEcCCCcchHHHHHHHHHHHHhhC--CCCCceEEEEccchhhHHHHHHHHHh
Q 004910 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 34 ~~~~~~iEApTGtGKTla~L~~al~~~~~~--~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.++..+|.||.|||||-+.+- |.+.. ..+. +|++.+..+++..++.+.++.
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi~----wLk~~l~~~~~-~VLvVShRrSL~~sL~~rf~~ 100 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALIR----WLKDALKNPDK-SVLVVSHRRSLTKSLAERFKK 100 (824)
T ss_pred CCCeEEEECCCCCCcHHHHHH----HHHHhccCCCC-eEEEEEhHHHHHHHHHHHHhh
Confidence 456889999999999988653 33332 2245 899999999999999887664
No 225
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=88.44 E-value=0.53 Score=50.25 Aligned_cols=40 Identities=28% Similarity=0.343 Sum_probs=33.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHh--CCcEEEEcCCCcchHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~--~~~~~iEApTGtGKTla~ 52 (724)
|||.. =-+|.++..++.-++-. .++++|++|+|+|||..+
T Consensus 1 ~pf~~-ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~ 42 (337)
T TIGR02030 1 FPFTA-IVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAV 42 (337)
T ss_pred CCccc-cccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHH
Confidence 89987 47999999888766655 478999999999999743
No 226
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=88.38 E-value=0.39 Score=51.21 Aligned_cols=40 Identities=30% Similarity=0.363 Sum_probs=31.4
Q ss_pred eCCCCCCCHHHHHHHHHHHH-HHHhC-CcEEEEcCCCcchHHH
Q 004910 11 YFPYDNIYPEQYSYMLELKR-ALDAK-GHCLLEMPTGTGKTIA 51 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~-~l~~~-~~~~iEApTGtGKTla 51 (724)
.|||.. -.+|.++...+.- ++..+ .++++++|+|||||..
T Consensus 4 ~~~f~~-i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~l 45 (334)
T PRK13407 4 PFPFSA-IVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTA 45 (334)
T ss_pred CCCHHH-hCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHH
Confidence 567765 4789999888775 44455 7999999999999964
No 227
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=88.24 E-value=17 Score=43.31 Aligned_cols=173 Identities=16% Similarity=0.161 Sum_probs=99.5
Q ss_pred eEEEecCCCCCccchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcccC
Q 004910 453 SVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVP 532 (724)
Q Consensus 453 s~Il~SaTL~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~~~ 532 (724)
..|-.|||.++.+..++.|+-......-......+..-. -++...++.... ++ ........|.++++...
T Consensus 185 qRIGLSATV~~~~~varfL~g~~~~~~Iv~~~~~k~~~i-~v~~p~~~~~~~--------~~-~~~~~~~~i~~~v~~~~ 254 (814)
T COG1201 185 QRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSAAKKLEI-KVISPVEDLIYD--------EE-LWAALYERIAELVKKHR 254 (814)
T ss_pred EEEeehhccCCHHHHHHHhcCCCCceEEEEcccCCcceE-EEEecCCccccc--------cc-hhHHHHHHHHHHHhhcC
Confidence 458899999999888888764421111111111111111 111111110000 11 12344556667776544
Q ss_pred CcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCch--hHHHHHHHHHHhccCCCCeEEEEeecCcccccccC
Q 004910 533 DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVV--ETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (724)
Q Consensus 533 g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~--~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~ 610 (724)
.+|||.++...-+.++..+++.+ ..++.+.....+ .+...-++||+ |+=.+++|+ .|+.=|||.
T Consensus 255 -ttLIF~NTR~~aE~l~~~L~~~~-------~~~i~~HHgSlSre~R~~vE~~lk~----G~lravV~T--SSLELGIDi 320 (814)
T COG1201 255 -TTLIFTNTRSGAERLAFRLKKLG-------PDIIEVHHGSLSRELRLEVEERLKE----GELKAVVAT--SSLELGIDI 320 (814)
T ss_pred -cEEEEEeChHHHHHHHHHHHHhc-------CCceeeecccccHHHHHHHHHHHhc----CCceEEEEc--cchhhcccc
Confidence 99999999999999999887642 144555443221 12233455554 444455544 689999999
Q ss_pred CCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCC--CCeEEEEEEe
Q 004910 611 DRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSK--ADYGMMIFAD 681 (724)
Q Consensus 611 ~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~--~D~g~vvllD 681 (724)
-+ ...||-.+=| ..+.++-|.+||.=+.. ...|.++-.|
T Consensus 321 G~--vdlVIq~~SP------------------------------~sV~r~lQRiGRsgHr~~~~Skg~ii~~~ 361 (814)
T COG1201 321 GD--IDLVIQLGSP------------------------------KSVNRFLQRIGRAGHRLGEVSKGIIIAED 361 (814)
T ss_pred CC--ceEEEEeCCc------------------------------HHHHHHhHhccccccccCCcccEEEEecC
Confidence 77 4556666633 34577789999874433 4688888877
No 228
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=88.21 E-value=4 Score=49.93 Aligned_cols=85 Identities=13% Similarity=0.189 Sum_probs=53.4
Q ss_pred ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCc-hhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004910 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (724)
Q Consensus 530 ~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~-~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGi 608 (724)
..+..+|||...-..|+.+.+.+...+ ...+.+.+... ..+..++++|.+. ..+...+|+++ ....+||
T Consensus 485 ~~g~KVLIFSQft~~LdiLed~L~~~g-------~~y~rIdGsts~~eRq~~Id~Fn~~-~s~~~VfLLST--rAGGlGI 554 (1033)
T PLN03142 485 ERDSRVLIFSQMTRLLDILEDYLMYRG-------YQYCRIDGNTGGEDRDASIDAFNKP-GSEKFVFLLST--RAGGLGI 554 (1033)
T ss_pred hcCCeEEeehhHHHHHHHHHHHHHHcC-------CcEEEECCCCCHHHHHHHHHHhccc-cCCceEEEEec--cccccCC
Confidence 345688887776667776766665432 23344444332 4567789999652 11112345544 5789999
Q ss_pred cCCCCCceEEEEEccCCC
Q 004910 609 DFDRHYGRLVIMFGVPFQ 626 (724)
Q Consensus 609 D~~~~~~r~vii~glPfp 626 (724)
|+.. +..||+.-+|+-
T Consensus 555 NLt~--Ad~VIiyD~dWN 570 (1033)
T PLN03142 555 NLAT--ADIVILYDSDWN 570 (1033)
T ss_pred chhh--CCEEEEeCCCCC
Confidence 9987 688999887763
No 229
>PRK05642 DNA replication initiation factor; Validated
Probab=87.92 E-value=1.1 Score=45.24 Aligned_cols=37 Identities=11% Similarity=0.104 Sum_probs=23.6
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
..+++-+|+|+|||.- +-|+...... .+. +|+|.+..
T Consensus 46 ~~l~l~G~~G~GKTHL--l~a~~~~~~~-~~~-~v~y~~~~ 82 (234)
T PRK05642 46 SLIYLWGKDGVGRSHL--LQAACLRFEQ-RGE-PAVYLPLA 82 (234)
T ss_pred CeEEEECCCCCCHHHH--HHHHHHHHHh-CCC-cEEEeeHH
Confidence 4688999999999974 2233322222 245 78887754
No 230
>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=87.80 E-value=2.2 Score=49.20 Aligned_cols=63 Identities=22% Similarity=0.232 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHH--HHHHHHHHhhCCC-CCceEEEEccchhhHHHHHHHH
Q 004910 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL--LSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~--L~~al~~~~~~~~-~~~~vvi~T~T~~l~~Q~~~el 87 (724)
+.|++. +..++. ++..+|.+|.|||||... ++.++. ...+. ++.+|.+++||.--...+-+-+
T Consensus 148 ~~Qk~A---~~~al~-~~~~vitGgpGTGKTt~v~~ll~~l~--~~~~~~~~~~I~l~APTGkAA~rL~e~~ 213 (586)
T TIGR01447 148 NWQKVA---VALALK-SNFSLITGGPGTGKTTTVARLLLALV--KQSPKQGKLRIALAAPTGKAAARLAESL 213 (586)
T ss_pred HHHHHH---HHHHhh-CCeEEEEcCCCCCHHHHHHHHHHHHH--HhccccCCCcEEEECCcHHHHHHHHHHH
Confidence 567664 444444 579999999999999753 332221 11111 1238999999997776655543
No 231
>PRK08116 hypothetical protein; Validated
Probab=87.76 E-value=1.7 Score=44.99 Aligned_cols=53 Identities=19% Similarity=0.113 Sum_probs=30.1
Q ss_pred CHHHHHHHHHHH---HHHHh--C--CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 18 YPEQYSYMLELK---RALDA--K--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 18 r~~Q~e~~~~v~---~~l~~--~--~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
.+.|..++..+. +.+.. . ..+++-+|+|||||.-+ .|++...... +. +|+|.+
T Consensus 90 ~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa--~aia~~l~~~-~~-~v~~~~ 149 (268)
T PRK08116 90 DKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLA--ACIANELIEK-GV-PVIFVN 149 (268)
T ss_pred ChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHH--HHHHHHHHHc-CC-eEEEEE
Confidence 466665544433 33332 2 24899999999999743 3343322222 44 777766
No 232
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.76 E-value=0.49 Score=54.33 Aligned_cols=35 Identities=37% Similarity=0.358 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|......+..++.+++ | .++.+|.|||||..+.+
T Consensus 17 Gq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~ 54 (584)
T PRK14952 17 GQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARI 54 (584)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999999885 5 58999999999987664
No 233
>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=87.72 E-value=1.3 Score=52.89 Aligned_cols=60 Identities=17% Similarity=0.140 Sum_probs=41.7
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHH
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~ 83 (724)
..+.|++.+..+. ..++..+|.+|+|||||..+ -+++..+... +. +|+.++||......+
T Consensus 353 Ls~~Q~~Av~~i~---~s~~~~il~G~aGTGKTtll-~~i~~~~~~~--g~-~V~~~ApTg~Aa~~L 412 (744)
T TIGR02768 353 LSEEQYEAVRHVT---GSGDIAVVVGRAGTGKSTML-KAAREAWEAA--GY-RVIGAALSGKAAEGL 412 (744)
T ss_pred CCHHHHHHHHHHh---cCCCEEEEEecCCCCHHHHH-HHHHHHHHhC--CC-eEEEEeCcHHHHHHH
Confidence 4799999776654 44578999999999999652 3333333322 45 899999997655443
No 234
>PRK05973 replicative DNA helicase; Provisional
Probab=87.58 E-value=0.64 Score=46.94 Aligned_cols=57 Identities=23% Similarity=0.228 Sum_probs=36.7
Q ss_pred HHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 27 ~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
++...+..|...+|-|++|+|||.-.+--+...+. .++ +++|.|--.+ -+|+.+.+.
T Consensus 56 ~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~---~Ge-~vlyfSlEes-~~~i~~R~~ 112 (237)
T PRK05973 56 ELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMK---SGR-TGVFFTLEYT-EQDVRDRLR 112 (237)
T ss_pred HhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh---cCC-eEEEEEEeCC-HHHHHHHHH
Confidence 34455666778999999999999877754444442 245 7777754333 345555444
No 235
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=87.58 E-value=1.5 Score=44.27 Aligned_cols=53 Identities=19% Similarity=0.224 Sum_probs=34.4
Q ss_pred HHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 32 l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
+..+...++.+|+|+|||...+--+...+. .+. +++|.+ +..-.+++++.+..
T Consensus 21 i~~g~~~~i~G~~G~GKTtl~~~~~~~~~~---~g~-~~~yi~-~e~~~~~~~~~~~~ 73 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSILSQRLAYGFLQ---NGY-SVSYVS-TQLTTTEFIKQMMS 73 (230)
T ss_pred CCCCcEEEEECCCCCCHHHHHHHHHHHHHh---CCC-cEEEEe-CCCCHHHHHHHHHH
Confidence 345778999999999999864433222222 245 777777 44445677776654
No 236
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=87.46 E-value=1.5 Score=46.47 Aligned_cols=30 Identities=30% Similarity=0.408 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
+.|.++ +..++..+++++|.+|||+|||-.
T Consensus 131 ~~~~~~---L~~~v~~~~nilI~G~tGSGKTTl 160 (323)
T PRK13833 131 EAQASV---IRSAIDSRLNIVISGGTGSGKTTL 160 (323)
T ss_pred HHHHHH---HHHHHHcCCeEEEECCCCCCHHHH
Confidence 445544 455667788999999999999953
No 237
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=87.44 E-value=1.7 Score=45.66 Aligned_cols=28 Identities=32% Similarity=0.264 Sum_probs=22.1
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 24 YMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 24 ~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
++..+..++..+++++|.+|||+|||-.
T Consensus 121 ~~~~L~~~v~~~~~ilI~G~tGSGKTTl 148 (299)
T TIGR02782 121 QRDVLREAVLARKNILVVGGTGSGKTTL 148 (299)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHHH
Confidence 3445566677788999999999999964
No 238
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=87.30 E-value=1.4 Score=49.50 Aligned_cols=55 Identities=18% Similarity=0.132 Sum_probs=41.8
Q ss_pred hCCcEEEEcCCCcchHHHHHHHHHHHHhhCCC----CCceEEEEccchhhHHHHHHHHHhh
Q 004910 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPE----NPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 34 ~~~~~~iEApTGtGKTla~L~~al~~~~~~~~----~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
.++.+||.+..|||||-++|.- ++|..+.-+ ++ .|+|..|.....+=+-+-||.|
T Consensus 225 k~~ilVVQGaAGSGKTtiALHR-vAyLlY~~R~~l~~k-~vlvl~PN~vFleYis~VLPeL 283 (747)
T COG3973 225 KNKILVVQGAAGSGKTTIALHR-VAYLLYGYRGPLQAK-PVLVLGPNRVFLEYISRVLPEL 283 (747)
T ss_pred CCCeEEEecCCCCCchhHHHHH-HHHHHhccccccccC-ceEEEcCcHHHHHHHHHhchhh
Confidence 3578999999999999999875 566655422 34 6999999998877766666654
No 239
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=87.26 E-value=1.5 Score=53.26 Aligned_cols=60 Identities=15% Similarity=0.080 Sum_probs=42.6
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHH
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~ 83 (724)
..+.|++.+..+. ..+...+|.++.|||||.. |-++...+... +. +|+.+++|......+
T Consensus 347 Ls~eQr~Av~~il---~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~~--G~-~V~~~ApTGkAA~~L 406 (988)
T PRK13889 347 LSGEQADALAHVT---DGRDLGVVVGYAGTGKSAM-LGVAREAWEAA--GY-EVRGAALSGIAAENL 406 (988)
T ss_pred CCHHHHHHHHHHh---cCCCeEEEEeCCCCCHHHH-HHHHHHHHHHc--CC-eEEEecCcHHHHHHH
Confidence 4789999766553 4456889999999999985 44444443332 45 899999998765443
No 240
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.22 E-value=0.68 Score=50.94 Aligned_cols=35 Identities=23% Similarity=0.227 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|......+..++.+++ | .++.+|.|+|||..+.+
T Consensus 20 Gq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~ 57 (397)
T PRK14955 20 AQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARV 57 (397)
T ss_pred ChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHH
Confidence 89999999999999874 4 77999999999987654
No 241
>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=87.16 E-value=2.3 Score=50.52 Aligned_cols=65 Identities=15% Similarity=0.009 Sum_probs=43.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~ 83 (724)
+++. ..+.|++.+..+. +++..+|.++.|||||...- ..+..+....... +|++++||..-..++
T Consensus 320 ~~~~-l~~~Q~~Ai~~~~----~~~~~iitGgpGTGKTt~l~-~i~~~~~~~~~~~-~v~l~ApTg~AA~~L 384 (720)
T TIGR01448 320 LRKG-LSEEQKQALDTAI----QHKVVILTGGPGTGKTTITR-AIIELAEELGGLL-PVGLAAPTGRAAKRL 384 (720)
T ss_pred cCCC-CCHHHHHHHHHHH----hCCeEEEECCCCCCHHHHHH-HHHHHHHHcCCCc-eEEEEeCchHHHHHH
Confidence 4554 5799999776653 46799999999999997532 2233333221114 899999998776543
No 242
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=86.95 E-value=1.3 Score=50.77 Aligned_cols=70 Identities=20% Similarity=0.283 Sum_probs=55.0
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.|||.- =|-|.+.+ .+++++..+++.|-|-.|||..+=++ ++.+.+. +. ||||.+|-++|-+|=.+||..
T Consensus 125 ~YPF~L-DpFQ~~aI----~Cidr~eSVLVSAHTSAGKTVVAeYA-IA~sLr~--kQ-RVIYTSPIKALSNQKYREl~~ 194 (1041)
T KOG0948|consen 125 TYPFTL-DPFQSTAI----KCIDRGESVLVSAHTSAGKTVVAEYA-IAMSLRE--KQ-RVIYTSPIKALSNQKYRELLE 194 (1041)
T ss_pred CCCccc-CchHhhhh----hhhcCCceEEEEeecCCCcchHHHHH-HHHHHHh--cC-eEEeeChhhhhcchhHHHHHH
Confidence 478873 68888755 46778999999999999999987654 4444433 45 999999999999999887664
No 243
>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=86.94 E-value=0.69 Score=46.95 Aligned_cols=46 Identities=13% Similarity=0.224 Sum_probs=31.9
Q ss_pred HHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 28 LKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 28 v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
+...+..|...+|.||||+|||.-.+--+..++... +. +|+|.|--
T Consensus 6 ~~~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~--g~-~vly~s~E 51 (242)
T cd00984 6 LTGGLQPGDLIIIAARPSMGKTAFALNIAENIAKKQ--GK-PVLFFSLE 51 (242)
T ss_pred hhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhC--CC-ceEEEeCC
Confidence 334566678899999999999987665555555432 45 77777743
No 244
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=86.75 E-value=3 Score=45.63 Aligned_cols=77 Identities=19% Similarity=0.248 Sum_probs=53.4
Q ss_pred CcEEEEecChHHHHHHHHHHhhccc-HHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCC
Q 004910 533 DGIVCFFVSYSYMDEIIATWNDSGI-LKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFD 611 (724)
Q Consensus 533 g~~Lvlf~Sy~~l~~v~~~~~~~~~-~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~ 611 (724)
..++||||+-....-+++.+....+ ...|++ .+....+.....+|+++ +.+||+++ .--+.|+|||
T Consensus 331 ~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHg-------k~~Q~kRT~~~~~F~ka----esgIL~cT--DVaARGlD~P 397 (543)
T KOG0342|consen 331 YKIIVFFSTCMSVKFHAELLNYIDLPVLEIHG-------KQKQNKRTSTFFEFCKA----ESGILVCT--DVAARGLDIP 397 (543)
T ss_pred ceEEEEechhhHHHHHHHHHhhcCCchhhhhc-------CCcccccchHHHHHhhc----ccceEEec--chhhccCCCC
Confidence 7999999999988888887764321 011111 11223456678899874 66899976 6899999999
Q ss_pred CCCceEEEEEccC
Q 004910 612 RHYGRLVIMFGVP 624 (724)
Q Consensus 612 ~~~~r~vii~glP 624 (724)
+ ...||=.|.|
T Consensus 398 ~--V~~VvQ~~~P 408 (543)
T KOG0342|consen 398 D--VDWVVQYDPP 408 (543)
T ss_pred C--ceEEEEeCCC
Confidence 8 5667777755
No 245
>PRK08727 hypothetical protein; Validated
Probab=86.73 E-value=1.4 Score=44.56 Aligned_cols=36 Identities=25% Similarity=0.231 Sum_probs=22.6
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
..+++-+|+|||||.-. -|+...... .+. +++|.+-
T Consensus 42 ~~l~l~G~~G~GKThL~--~a~~~~~~~-~~~-~~~y~~~ 77 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLA--LALCAAAEQ-AGR-SSAYLPL 77 (233)
T ss_pred CeEEEECCCCCCHHHHH--HHHHHHHHH-cCC-cEEEEeH
Confidence 35999999999999632 233322222 245 7877763
No 246
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=86.55 E-value=3.5 Score=46.98 Aligned_cols=89 Identities=19% Similarity=0.378 Sum_probs=64.4
Q ss_pred HHHHHHhccc-CCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCC-CchhHHHHHHHHHHhccCCCCeEEEEe
Q 004910 522 KLLVEMVSIV-PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSV 599 (724)
Q Consensus 522 ~~i~~~~~~~-~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~-~~~~~~~~~~~f~~~~~~~~~~vL~~v 599 (724)
..+..++... ++.++||+.+....+.++..|...|+ +...+.+. ....+...++.|++ |+-.||+|+
T Consensus 262 ~~L~~ll~~~~~~~~IVF~~tk~~~~~l~~~l~~~g~-------~~~~lhG~l~q~~R~~~l~~F~~----g~~~vLVaT 330 (513)
T COG0513 262 ELLLKLLKDEDEGRVIVFVRTKRLVEELAESLRKRGF-------KVAALHGDLPQEERDRALEKFKD----GELRVLVAT 330 (513)
T ss_pred HHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHHCCC-------eEEEecCCCCHHHHHHHHHHHHc----CCCCEEEEe
Confidence 4455566543 34699999999999999999987653 22233332 23456778999985 677899987
Q ss_pred ecCcccccccCCCCCceEEEEEccCC
Q 004910 600 ARGKVAEGIDFDRHYGRLVIMFGVPF 625 (724)
Q Consensus 600 ~~g~~~EGiD~~~~~~r~vii~glPf 625 (724)
.-.++|||+++ .+.||=.-+|.
T Consensus 331 --DvaaRGiDi~~--v~~VinyD~p~ 352 (513)
T COG0513 331 --DVAARGLDIPD--VSHVINYDLPL 352 (513)
T ss_pred --chhhccCCccc--cceeEEccCCC
Confidence 68899999998 56677777774
No 247
>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=86.45 E-value=1.4 Score=49.65 Aligned_cols=70 Identities=21% Similarity=0.105 Sum_probs=43.7
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhhhcccCCCCCCceEEEEecCccc-
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN- 114 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~- 114 (724)
.|+++-||||+|||.++.+|.+.- . +. .+||.-+.-.+.......+++ .+.++.+.-..+..+
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll~---~--~~-s~iV~D~KgEl~~~t~~~r~~----------~G~~V~vldp~~~~~s 108 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLLN---Y--PG-SMIVTDPKGELYEKTAGYRKK----------RGYKVYVLDPFDPEGS 108 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHHh---c--cC-CEEEEECCCcHHHHHHHHHHH----------CCCEEEEeeccccccc
Confidence 489999999999999999998742 1 23 455555554444433333332 244566665666555
Q ss_pred cccchHh
Q 004910 115 LCVNSRV 121 (724)
Q Consensus 115 ~C~~~~~ 121 (724)
.|.|++.
T Consensus 109 ~~~NPL~ 115 (469)
T PF02534_consen 109 HRWNPLD 115 (469)
T ss_pred cccCCcc
Confidence 4677664
No 248
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=86.36 E-value=2.3 Score=52.07 Aligned_cols=72 Identities=21% Similarity=0.315 Sum_probs=52.6
Q ss_pred CHHHHHHHHHHHH-HHHhC-----CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 18 YPEQYSYMLELKR-ALDAK-----GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 18 r~~Q~e~~~~v~~-~l~~~-----~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
|..|...+....+ ..... +.++|---||||||++.+..|-... ..+..+ +|++.|-.+.|-.|+.+++..+.
T Consensus 250 ~~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~~l~-~~~~~~-~v~fvvDR~dLd~Q~~~~f~~~~ 327 (962)
T COG0610 250 RYAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARLLL-ELPKNP-KVLFVVDRKDLDDQTSDEFQSFG 327 (962)
T ss_pred HHHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHHHHH-hccCCC-eEEEEechHHHHHHHHHHHHHHH
Confidence 4566666653333 33322 4699999999999999988764433 334455 99999999999999999988763
No 249
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=86.18 E-value=0.87 Score=48.71 Aligned_cols=34 Identities=38% Similarity=0.528 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHhCC--cEEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~~~iEApTGtGKTla~L 53 (724)
+|.+....+..++.++. ++++.+|+|||||....
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~ 54 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVR 54 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHH
Confidence 56777888888888887 89999999999998654
No 250
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=86.18 E-value=1.3 Score=52.06 Aligned_cols=68 Identities=18% Similarity=0.210 Sum_probs=50.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 14 ~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
|.+ -..|+++.. ..+.++-++|.|||-.|||+.-....-...+.. +.+ -|||+.||+++..|+-.++.
T Consensus 510 F~P-d~WQ~elLD----svDr~eSavIVAPTSaGKTfisfY~iEKVLRes-D~~-VVIyvaPtKaLVnQvsa~Vy 577 (1330)
T KOG0949|consen 510 FCP-DEWQRELLD----SVDRNESAVIVAPTSAGKTFISFYAIEKVLRES-DSD-VVIYVAPTKALVNQVSANVY 577 (1330)
T ss_pred cCC-cHHHHHHhh----hhhcccceEEEeeccCCceeccHHHHHHHHhhc-CCC-EEEEecchHHHhhhhhHHHH
Confidence 554 478888764 456888999999999999987555433333333 345 79999999999999977544
No 251
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=86.00 E-value=1.5 Score=48.45 Aligned_cols=41 Identities=37% Similarity=0.400 Sum_probs=28.1
Q ss_pred CHHHHHHHHHHHHHHHhC-CcEEEEcCCCcchHHHHHHHHHHHHhh
Q 004910 18 YPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLS 62 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~-~~~~iEApTGtGKTla~L~~al~~~~~ 62 (724)
.|.|.+- +.+.+... +.+++-+|||+|||-. |++++.+...
T Consensus 243 ~~~~~~~---~~~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~ 284 (500)
T COG2804 243 SPFQLAR---LLRLLNRPQGLILVTGPTGSGKTTT-LYAALSELNT 284 (500)
T ss_pred CHHHHHH---HHHHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcC
Confidence 4555553 34444444 6889999999999987 5677777643
No 252
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=85.80 E-value=0.87 Score=51.40 Aligned_cols=35 Identities=23% Similarity=0.103 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~---~~~iEApTGtGKTla~L~ 54 (724)
+|..+...+..++.+++ ..++.+|.|||||..+.+
T Consensus 25 Gq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~Ari 62 (507)
T PRK06645 25 GQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARI 62 (507)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 89999999998898886 588999999999986654
No 253
>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=85.78 E-value=1.5 Score=44.55 Aligned_cols=53 Identities=17% Similarity=0.143 Sum_probs=33.7
Q ss_pred HHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 32 l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
+..+...+|.+|+|+|||.-.+--+...+. .+. +++|.| +-.-.+|+++.+..
T Consensus 18 ~~~gs~~lI~G~pGsGKT~la~~~l~~~~~---~ge-~~lyvs-~ee~~~~i~~~~~~ 70 (237)
T TIGR03877 18 IPERNVVLLSGGPGTGKSIFSQQFLWNGLQ---MGE-PGIYVA-LEEHPVQVRRNMAQ 70 (237)
T ss_pred CcCCeEEEEEcCCCCCHHHHHHHHHHHHHH---cCC-cEEEEE-eeCCHHHHHHHHHH
Confidence 334568999999999999855433333232 245 677776 34455677776554
No 254
>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=85.72 E-value=1.8 Score=43.37 Aligned_cols=34 Identities=18% Similarity=0.188 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHh--CCcEEEEcCCCcchHHHH
Q 004910 19 PEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~--~~~~~iEApTGtGKTla~ 52 (724)
+.+.+.+..+...+.. +.++++.+|+|||||...
T Consensus 20 ~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la 55 (226)
T TIGR03420 20 GGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLL 55 (226)
T ss_pred CCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHH
Confidence 3566677776665433 357999999999999754
No 255
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=85.60 E-value=0.57 Score=54.30 Aligned_cols=47 Identities=23% Similarity=0.201 Sum_probs=33.3
Q ss_pred cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH
Q 004910 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 37 ~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
++=|++-||||||++||=-..+.-+.. |-.+.||.+||.+--+-+..
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLhk~Y--G~~KFIivVPs~AIkeGv~~ 122 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELHKKY--GLFKFIIVVPSLAIKEGVFL 122 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHHHHh--CceeEEEEeccHHHHhhhHH
Confidence 466899999999999996443333333 33489999999876555443
No 256
>PRK11054 helD DNA helicase IV; Provisional
Probab=85.54 E-value=2.1 Score=50.37 Aligned_cols=66 Identities=15% Similarity=0.283 Sum_probs=46.6
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC--CCCCceEEEEccchhhHHHHHHHHHh
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~--~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
+..+.|++.+. ...++++|-|+.|||||.+...- ++|+... ..+. +|++.|-|+...+.+-+.+..
T Consensus 196 ~L~~~Q~~av~------~~~~~~lV~agaGSGKT~vl~~r-~ayLl~~~~~~~~-~IL~ltft~~AA~em~eRL~~ 263 (684)
T PRK11054 196 PLNPSQARAVV------NGEDSLLVLAGAGSGKTSVLVAR-AGWLLARGQAQPE-QILLLAFGRQAAEEMDERIRE 263 (684)
T ss_pred CCCHHHHHHHh------CCCCCeEEEEeCCCCHHHHHHHH-HHHHHHhCCCCHH-HeEEEeccHHHHHHHHHHHHH
Confidence 35789988553 23467899999999999886543 4454432 1234 899999999888777665554
No 257
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=85.40 E-value=1.8 Score=51.93 Aligned_cols=72 Identities=18% Similarity=0.054 Sum_probs=40.6
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC-CCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~-~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
.|..|..=++=+....+++-++|+---.|-|||+--+. .+++..=.. +=+ +=+|.+||-..+ .+--|++++.
T Consensus 616 LReYQkiGLdWLatLYeknlNGILADEmGLGKTIQtIS-llAhLACeegnWG-PHLIVVpTsviL-nWEMElKRwc 688 (1958)
T KOG0391|consen 616 LREYQKIGLDWLATLYEKNLNGILADEMGLGKTIQTIS-LLAHLACEEGNWG-PHLIVVPTSVIL-NWEMELKRWC 688 (1958)
T ss_pred HHHHHHhhHHHHHHHHHhcccceehhhhcccchhHHHH-HHHHHHhcccCCC-CceEEeechhhh-hhhHHHhhhC
Confidence 35555555554555555666899989999999975432 333332111 113 456667775443 2333677663
No 258
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=85.38 E-value=7.5 Score=44.38 Aligned_cols=139 Identities=16% Similarity=0.205 Sum_probs=86.9
Q ss_pred CeEEEecCCCCCc--cchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhc
Q 004910 452 QSVVITSGTLSPI--DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVS 529 (724)
Q Consensus 452 ~s~Il~SaTL~~~--~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~ 529 (724)
..++.+.||=++. ..+...|++.... .+...+.+.|+...+++ ..+...++. .|.+...
T Consensus 167 ~p~~AlTATA~~~v~~DI~~~L~l~~~~--~~~~sfdRpNi~~~v~~----------------~~~~~~q~~-fi~~~~~ 227 (590)
T COG0514 167 PPVLALTATATPRVRDDIREQLGLQDAN--IFRGSFDRPNLALKVVE----------------KGEPSDQLA-FLATVLP 227 (590)
T ss_pred CCEEEEeCCCChHHHHHHHHHhcCCCcc--eEEecCCCchhhhhhhh----------------cccHHHHHH-HHHhhcc
Confidence 4788888888775 4677788876531 22333344443321111 111123333 3444344
Q ss_pred ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCc--hhHHHHHHHHHHhccCCCCeEEEEeecCccccc
Q 004910 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV--VETTLALDNYRKACDCGRGAVFFSVARGKVAEG 607 (724)
Q Consensus 530 ~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~--~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EG 607 (724)
...+..+|++.|.+..+.+++.+...|+ +..+..+ |+ .++...-+.|. .++..|++|+. .|.=|
T Consensus 228 ~~~~~GIIYc~sRk~~E~ia~~L~~~g~-------~a~~YHa-Gl~~~eR~~~q~~f~----~~~~~iiVAT~--AFGMG 293 (590)
T COG0514 228 QLSKSGIIYCLTRKKVEELAEWLRKNGI-------SAGAYHA-GLSNEERERVQQAFL----NDEIKVMVATN--AFGMG 293 (590)
T ss_pred ccCCCeEEEEeeHHhHHHHHHHHHHCCC-------ceEEecC-CCCHHHHHHHHHHHh----cCCCcEEEEec--cccCc
Confidence 5556789999999999999999987653 2223322 33 23344445555 36777888874 79999
Q ss_pred ccCCCCCceEEEEEccCC
Q 004910 608 IDFDRHYGRLVIMFGVPF 625 (724)
Q Consensus 608 iD~~~~~~r~vii~glPf 625 (724)
||=|| .|.||=..+|-
T Consensus 294 IdKpd--VRfViH~~lP~ 309 (590)
T COG0514 294 IDKPD--VRFVIHYDLPG 309 (590)
T ss_pred cCCCC--ceEEEEecCCC
Confidence 99998 78999999884
No 259
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.36 E-value=0.85 Score=51.15 Aligned_cols=34 Identities=26% Similarity=0.234 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHhCCc---EEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLELKRALDAKGH---CLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~~---~~iEApTGtGKTla~L 53 (724)
+|.+....+..++.+++. +++.+|+|||||..+.
T Consensus 18 Gq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~ 54 (472)
T PRK14962 18 GQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVAR 54 (472)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 788888888888888753 6899999999997554
No 260
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.21 E-value=0.83 Score=50.79 Aligned_cols=35 Identities=26% Similarity=0.193 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhCCc---EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKGH---CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~~---~~iEApTGtGKTla~L~ 54 (724)
+|...+..+..++.+++. .++.+|.|||||-.+.+
T Consensus 22 GQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAri 59 (484)
T PRK14956 22 HQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARI 59 (484)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 899999999999998863 59999999999986553
No 261
>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=85.16 E-value=0.9 Score=40.78 Aligned_cols=40 Identities=25% Similarity=0.267 Sum_probs=24.5
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchh
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~ 78 (724)
+.++++.+|+|||||..... ++...... .. .+++.+.+..
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~--l~~~~~~~-~~-~~~~~~~~~~ 41 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARA--LARELGPP-GG-GVIYIDGEDI 41 (148)
T ss_pred CCEEEEECCCCCcHHHHHHH--HHhccCCC-CC-CEEEECCEEc
Confidence 46889999999999986543 33322211 12 3666665543
No 262
>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=84.57 E-value=1.1 Score=48.88 Aligned_cols=35 Identities=29% Similarity=0.217 Sum_probs=29.0
Q ss_pred CHHHHHHHHHHHHHHHhC----------------CcEEEEcCCCcchHHHH
Q 004910 18 YPEQYSYMLELKRALDAK----------------GHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~----------------~~~~iEApTGtGKTla~ 52 (724)
--+|.+....+.-++.++ +++++.+|||+|||...
T Consensus 14 IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lA 64 (441)
T TIGR00390 14 IIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIA 64 (441)
T ss_pred ccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHH
Confidence 358889988888888763 68999999999999743
No 263
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=84.52 E-value=2.3 Score=50.86 Aligned_cols=66 Identities=20% Similarity=0.216 Sum_probs=47.7
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC--CCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~--~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
..|.|++.+.. ..++++|-|+.|||||-+...- ++|.... -... +|+..|=|+.-...+.+.+..+
T Consensus 5 Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~~l~~r-ia~Li~~~~i~P~-~IL~lTFT~kAA~em~~Rl~~~ 72 (726)
T TIGR01073 5 LNPEQREAVKT------TEGPLLIMAGAGSGKTRVLTHR-IAHLIAEKNVAPW-NILAITFTNKAAREMKERVEKL 72 (726)
T ss_pred cCHHHHHHHhC------CCCCEEEEeCCCCCHHHHHHHH-HHHHHHcCCCCHH-HeeeeeccHHHHHHHHHHHHHH
Confidence 56889886642 3579999999999999886654 4454432 1234 8999999988777777666655
No 264
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=84.41 E-value=2.8 Score=48.74 Aligned_cols=34 Identities=26% Similarity=0.234 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHH
Q 004910 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~ 52 (724)
-+|.++...+..++.++.++++-+|+|+|||...
T Consensus 21 iG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~la 54 (608)
T TIGR00764 21 IGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSMLA 54 (608)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEECCCCCCHHHHH
Confidence 5899999999999999999999999999999754
No 265
>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=84.27 E-value=1 Score=44.70 Aligned_cols=33 Identities=30% Similarity=0.314 Sum_probs=22.8
Q ss_pred CHHHHHHHHHHHHHHH---h-C---CcEEEEcCCCcchHH
Q 004910 18 YPEQYSYMLELKRALD---A-K---GHCLLEMPTGTGKTI 50 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~---~-~---~~~~iEApTGtGKTl 50 (724)
+-+|.++.....-.++ . + .++++-+|+|+|||-
T Consensus 26 fiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTT 65 (233)
T PF05496_consen 26 FIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTT 65 (233)
T ss_dssp S-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHH
T ss_pred ccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhH
Confidence 5689998887554433 2 2 379999999999995
No 266
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=84.22 E-value=1.2 Score=49.01 Aligned_cols=31 Identities=26% Similarity=0.396 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCcchHHHHH
Q 004910 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 23 e~~~~v~~~l~~~~~~~iEApTGtGKTla~L 53 (724)
+..+.+..++..++++++.+|+|||||..+-
T Consensus 182 ~~le~l~~~L~~~~~iil~GppGtGKT~lA~ 212 (459)
T PRK11331 182 TTIETILKRLTIKKNIILQGPPGVGKTFVAR 212 (459)
T ss_pred HHHHHHHHHHhcCCCEEEECCCCCCHHHHHH
Confidence 3455778888889999999999999997543
No 267
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=84.08 E-value=1.8 Score=44.54 Aligned_cols=51 Identities=22% Similarity=0.340 Sum_probs=34.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC-CcEEEEcCCCcchHHHHHHHHHHHHhhC
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSK 63 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~-~~~~iEApTGtGKTla~L~~al~~~~~~ 63 (724)
-|...|.-.|..+=..+.+.++.. +.+++-+|||+|||-. |.+.+.|...+
T Consensus 101 Ip~~i~~~e~LglP~i~~~~~~~~~GLILVTGpTGSGKSTT-lAamId~iN~~ 152 (353)
T COG2805 101 IPSKIPTLEELGLPPIVRELAESPRGLILVTGPTGSGKSTT-LAAMIDYINKH 152 (353)
T ss_pred cCccCCCHHHcCCCHHHHHHHhCCCceEEEeCCCCCcHHHH-HHHHHHHHhcc
Confidence 366666667776666666644443 5788999999999976 45556776544
No 268
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=84.01 E-value=4.1 Score=44.05 Aligned_cols=40 Identities=43% Similarity=0.494 Sum_probs=24.9
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceE-EEEccc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKL-IYCTRT 76 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~v-vi~T~T 76 (724)
++++.+-+|||+|||-..-=-|-.|..... .+ +| +|+|-|
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~-~~-kVaiITtDt 243 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKK-KK-KVAIITTDT 243 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhcc-Cc-ceEEEEecc
Confidence 678999999999999553322233331122 23 44 777777
No 269
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=83.75 E-value=4.8 Score=38.39 Aligned_cols=32 Identities=28% Similarity=0.252 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
.=.++++.+..+.....+++|++++||||++.
T Consensus 7 ~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~l 38 (168)
T PF00158_consen 7 AMKRLREQAKRAASSDLPVLITGETGTGKELL 38 (168)
T ss_dssp HHHHHHHHHHHHTTSTS-EEEECSTTSSHHHH
T ss_pred HHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHH
Confidence 34456666666666678999999999999984
No 270
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=83.63 E-value=2.3 Score=44.83 Aligned_cols=57 Identities=19% Similarity=0.180 Sum_probs=35.7
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHH
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEME 81 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~ 81 (724)
..+.|.+++ ..+.....+.++.++||+|||-. +-+++. ..+... |||..=-|-.||-
T Consensus 158 ~~~~~a~~L---~~av~~r~NILisGGTGSGKTTl--LNal~~--~i~~~e-RvItiEDtaELql 214 (355)
T COG4962 158 MIRRAAKFL---RRAVGIRCNILISGGTGSGKTTL--LNALSG--FIDSDE-RVITIEDTAELQL 214 (355)
T ss_pred cCHHHHHHH---HHHHhhceeEEEeCCCCCCHHHH--HHHHHh--cCCCcc-cEEEEeehhhhcc
Confidence 344444444 44555567999999999999963 222322 123345 8888877766653
No 271
>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=83.55 E-value=1.6 Score=46.07 Aligned_cols=30 Identities=13% Similarity=0.193 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCcchHHHH
Q 004910 23 SYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 23 e~~~~v~~~l~~~~~~~iEApTGtGKTla~ 52 (724)
+....|..++..++++++++|+|+|||...
T Consensus 52 ~~~~~vl~~l~~~~~ilL~G~pGtGKTtla 81 (327)
T TIGR01650 52 ATTKAICAGFAYDRRVMVQGYHGTGKSTHI 81 (327)
T ss_pred HHHHHHHHHHhcCCcEEEEeCCCChHHHHH
Confidence 445578888988999999999999999753
No 272
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=83.48 E-value=4.7 Score=48.85 Aligned_cols=80 Identities=10% Similarity=0.177 Sum_probs=48.0
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCC---chhHHHHHHHHHHhccCCCCeEEEEeecCccccc
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD---VVETTLALDNYRKACDCGRGAVFFSVARGKVAEG 607 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~---~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EG 607 (724)
...++||||.=..++..|.+.+.+.. .. ...|.-=-| ...+.+++++|.+. ..-..+|+.+--|- =|
T Consensus 1339 sqHRiLIFcQlK~mlDlVekDL~k~~-----mp-sVtymRLDGSVpp~~R~kiV~~FN~D--ptIDvLlLTThVGG--LG 1408 (1549)
T KOG0392|consen 1339 SQHRILIFCQLKSMLDLVEKDLFKKY-----MP-SVTYMRLDGSVPPGDRQKIVERFNED--PTIDVLLLTTHVGG--LG 1408 (1549)
T ss_pred ccceeEEeeeHHHHHHHHHHHHhhhh-----cC-ceeEEEecCCCCcHHHHHHHHHhcCC--CceeEEEEeeeccc--cc
Confidence 45699999999999999988775421 11 112221011 24567889999752 12235666664342 36
Q ss_pred ccCCCCCceEEEEEc
Q 004910 608 IDFDRHYGRLVIMFG 622 (724)
Q Consensus 608 iD~~~~~~r~vii~g 622 (724)
.++.| ...||.+-
T Consensus 1409 LNLTG--ADTVVFvE 1421 (1549)
T KOG0392|consen 1409 LNLTG--ADTVVFVE 1421 (1549)
T ss_pred cccCC--CceEEEEe
Confidence 77776 45666665
No 273
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=83.38 E-value=1.1 Score=48.97 Aligned_cols=33 Identities=33% Similarity=0.278 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
.+|.+.=.++.-+-..+.++++.+|+|||||+.
T Consensus 182 ~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTml 214 (490)
T COG0606 182 KGQEQAKRALEIAAAGGHNLLLVGPPGTGKTML 214 (490)
T ss_pred cCcHHHHHHHHHHHhcCCcEEEecCCCCchHHh
Confidence 578777777777888889999999999999984
No 274
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.36 E-value=1.5 Score=47.50 Aligned_cols=34 Identities=26% Similarity=0.274 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L 53 (724)
+|.+....+..++..++ | .++.+|.|+|||..+.
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~ 56 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIAR 56 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHH
Confidence 89999999999998875 4 4899999999998654
No 275
>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=83.25 E-value=1.5 Score=45.51 Aligned_cols=36 Identities=31% Similarity=0.314 Sum_probs=25.4
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHH
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~ 52 (724)
|+..-..+..-+...+.+++++++.+|||||||...
T Consensus 15 pT~dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 15 PTVDTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp --HHHHHHHHHHHHHHHCTEEEEEESSTTSSHHHHH
T ss_pred CcHHHHHHHHHHHHHHHcCCcEEEECCCCCchhHHH
Confidence 344444555455556677889999999999999854
No 276
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=83.06 E-value=1.9 Score=42.63 Aligned_cols=33 Identities=27% Similarity=0.394 Sum_probs=23.1
Q ss_pred HHHHHHHHHHhCC--cEEEEcCCCcchHHHHHHHH
Q 004910 24 YMLELKRALDAKG--HCLLEMPTGTGKTIALLSLI 56 (724)
Q Consensus 24 ~~~~v~~~l~~~~--~~~iEApTGtGKTla~L~~a 56 (724)
.++.+.-...+|. ++++.+|+|||||-+.++-|
T Consensus 35 tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LA 69 (333)
T KOG0991|consen 35 TVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLA 69 (333)
T ss_pred HHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHH
Confidence 3433333334453 89999999999999988743
No 277
>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=82.98 E-value=12 Score=44.32 Aligned_cols=113 Identities=15% Similarity=0.098 Sum_probs=65.2
Q ss_pred CCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCch---------------------hHHHHHHHHHHhccC
Q 004910 532 PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVV---------------------ETTLALDNYRKACDC 590 (724)
Q Consensus 532 ~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~---------------------~~~~~~~~f~~~~~~ 590 (724)
+++.+|+..|.......++.+.+..... ......++....+.. ....++++|+. .
T Consensus 514 ~~kamvv~~sr~~a~~~~~~l~~~~~~~-~~~~~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~---~ 589 (667)
T TIGR00348 514 KFKAMVVAISRYACVEEKNALDEELNEK-FEASAIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKK---E 589 (667)
T ss_pred cCceeEEEecHHHHHHHHHHHHhhcccc-cCCeeEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcC---C
Confidence 4889999999998887777765421000 000011111110000 11246667764 2
Q ss_pred CCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccC
Q 004910 591 GRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRS 670 (724)
Q Consensus 591 ~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~ 670 (724)
++--||+.| +.+.+|+|.|. +.++++++ |... ..+.|++||+-|.
T Consensus 590 ~~~~ilIVv--dmllTGFDaP~--l~tLyldK-plk~------------------------------h~LlQai~R~nR~ 634 (667)
T TIGR00348 590 ENPKLLIVV--DMLLTGFDAPI--LNTLYLDK-PLKY------------------------------HGLLQAIARTNRI 634 (667)
T ss_pred CCceEEEEE--cccccccCCCc--cceEEEec-cccc------------------------------cHHHHHHHHhccc
Confidence 344688876 69999999997 67788887 3221 1245999999993
Q ss_pred -CCCeEEEEEEecc
Q 004910 671 -KADYGMMIFADKR 683 (724)
Q Consensus 671 -~~D~g~vvllD~R 683 (724)
..++-..+|+|-+
T Consensus 635 ~~~~K~~g~IvDy~ 648 (667)
T TIGR00348 635 DGKDKTFGLIVDYR 648 (667)
T ss_pred cCCCCCCEEEEECc
Confidence 3333334556654
No 278
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.95 E-value=1.2 Score=51.26 Aligned_cols=35 Identities=29% Similarity=0.249 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|..+...+..++.+++ + .++.+|.|+|||..+.+
T Consensus 19 GQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAri 56 (702)
T PRK14960 19 GQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARI 56 (702)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999999885 4 49999999999976654
No 279
>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=82.91 E-value=1.4 Score=42.92 Aligned_cols=31 Identities=35% Similarity=0.468 Sum_probs=23.9
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
.+.|.+++ ..++..++.+++-+|||+|||-.
T Consensus 11 ~~~~~~~l---~~~v~~g~~i~I~G~tGSGKTTl 41 (186)
T cd01130 11 SPLQAAYL---WLAVEARKNILISGGTGSGKTTL 41 (186)
T ss_pred CHHHHHHH---HHHHhCCCEEEEECCCCCCHHHH
Confidence 35566655 45567789999999999999963
No 280
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=82.88 E-value=1.4 Score=46.77 Aligned_cols=34 Identities=41% Similarity=0.484 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHhCC--cEEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~~~iEApTGtGKTla~L 53 (724)
+|.+.++.+..++.++. ++++.+|+|+|||...-
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~ 56 (319)
T PRK00440 21 GQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAAL 56 (319)
T ss_pred CcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHH
Confidence 68888888888888764 69999999999997654
No 281
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=82.70 E-value=0.92 Score=48.56 Aligned_cols=41 Identities=24% Similarity=0.303 Sum_probs=34.3
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHH
Q 004910 10 VYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIA 51 (724)
Q Consensus 10 ~~Fp~~~~r~~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla 51 (724)
-.|||.. =-+|.++..++..++.+. +.+++.+|+|||||..
T Consensus 12 ~~~pf~~-ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ 54 (350)
T CHL00081 12 PVFPFTA-IVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTT 54 (350)
T ss_pred CCCCHHH-HhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHH
Confidence 4689986 489999999998887764 3688999999999974
No 282
>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=82.70 E-value=1.7 Score=45.36 Aligned_cols=17 Identities=35% Similarity=0.313 Sum_probs=14.7
Q ss_pred CcEEEEcCCCcchHHHH
Q 004910 36 GHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~ 52 (724)
.++++.+|+|||||..+
T Consensus 59 ~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVA 75 (284)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 37999999999999755
No 283
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=82.54 E-value=1.2 Score=47.36 Aligned_cols=43 Identities=21% Similarity=0.186 Sum_probs=32.6
Q ss_pred eeCCC-CCCCH-------HHHHHHHHHHHHHHhCC--cEE-EEcCCCcchHHHH
Q 004910 10 VYFPY-DNIYP-------EQYSYMLELKRALDAKG--HCL-LEMPTGTGKTIAL 52 (724)
Q Consensus 10 ~~Fp~-~~~r~-------~Q~e~~~~v~~~l~~~~--~~~-iEApTGtGKTla~ 52 (724)
..+|+ +++|| +|.+....+...+.+++ +++ +.+|+|+|||...
T Consensus 7 ~~~~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la 60 (316)
T PHA02544 7 NEFMWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVA 60 (316)
T ss_pred CCCcceeccCCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHH
Confidence 34455 56788 88888888888888774 444 4999999999754
No 284
>PRK08084 DNA replication initiation factor; Provisional
Probab=82.42 E-value=2.9 Score=42.28 Aligned_cols=61 Identities=23% Similarity=0.304 Sum_probs=32.9
Q ss_pred CCCCCCCHH-HHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 12 FPYDNIYPE-QYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 12 Fp~~~~r~~-Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
+.|+.+-++ +...+..+.+..... ..+++-+|+|+|||.-.- ++...... .+. +++|.+-.
T Consensus 19 ~~fd~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~--a~~~~~~~-~~~-~v~y~~~~ 82 (235)
T PRK08084 19 ETFASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLH--AACAELSQ-RGR-AVGYVPLD 82 (235)
T ss_pred CCccccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHH--HHHHHHHh-CCC-eEEEEEHH
Confidence 334433333 444444444443332 579999999999996332 22222111 245 78777654
No 285
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=82.38 E-value=3.9 Score=50.25 Aligned_cols=62 Identities=11% Similarity=0.014 Sum_probs=45.4
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
..++|.+.+..+. ..++..+|.++.|||||...-. +...+... +. +|+-+.+|......+-+
T Consensus 382 Ls~eQ~~Av~~i~---~~~r~~~v~G~AGTGKTt~l~~-~~~~~e~~--G~-~V~g~ApTgkAA~~L~e 443 (1102)
T PRK13826 382 LSDEQKTAIEHVA---GPARIAAVVGRAGAGKTTMMKA-AREAWEAA--GY-RVVGGALAGKAAEGLEK 443 (1102)
T ss_pred CCHHHHHHHHHHh---ccCCeEEEEeCCCCCHHHHHHH-HHHHHHHc--CC-eEEEEcCcHHHHHHHHH
Confidence 5799999887764 4567999999999999976443 33333332 45 89999999887766543
No 286
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=82.32 E-value=2.5 Score=42.48 Aligned_cols=50 Identities=16% Similarity=0.087 Sum_probs=28.2
Q ss_pred HHHHHHHHHHH---hCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 23 SYMLELKRALD---AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 23 e~~~~v~~~l~---~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
+.+..+.+... .+..+++.+|+|||||... -++....... +. ++++.+..
T Consensus 27 ~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La--~ai~~~~~~~-~~-~~~~i~~~ 79 (227)
T PRK08903 27 ELVARLRELAAGPVADRFFYLWGEAGSGRSHLL--QALVADASYG-GR-NARYLDAA 79 (227)
T ss_pred HHHHHHHHHHhccCCCCeEEEECCCCCCHHHHH--HHHHHHHHhC-CC-cEEEEehH
Confidence 34444444433 3358999999999999632 2333322122 34 66666643
No 287
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=82.27 E-value=2.8 Score=44.36 Aligned_cols=62 Identities=24% Similarity=0.166 Sum_probs=40.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~ 78 (724)
|+-. ||-.++.|+- ++|-.. +.+.+-++-|||||+-+|++++.--...+.-+ |||++-||..
T Consensus 224 wGi~-prn~eQ~~AL---dlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~-KiiVtRp~vp 287 (436)
T COG1875 224 WGIR-PRNAEQRVAL---DLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYR-KIIVTRPTVP 287 (436)
T ss_pred hccC-cccHHHHHHH---HHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhc-eEEEecCCcC
Confidence 3443 4666666653 334333 46778999999999999999886544333224 6777777644
No 288
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=82.26 E-value=5.4 Score=44.61 Aligned_cols=46 Identities=20% Similarity=0.172 Sum_probs=27.6
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHH-HhhCCCCCceEEEEccchhhHHHHHH
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSY-VLSKPENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~-~~~~~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
..+++-+|+|+|||. |+-|+.. ......+. +|+|.|.. .....+..
T Consensus 142 npl~i~G~~G~GKTH--Ll~Ai~~~l~~~~~~~-~v~yv~~~-~f~~~~~~ 188 (450)
T PRK14087 142 NPLFIYGESGMGKTH--LLKAAKNYIESNFSDL-KVSYMSGD-EFARKAVD 188 (450)
T ss_pred CceEEECCCCCcHHH--HHHHHHHHHHHhCCCC-eEEEEEHH-HHHHHHHH
Confidence 468999999999995 3334433 22222244 88888764 33344443
No 289
>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=82.23 E-value=3.2 Score=40.71 Aligned_cols=38 Identities=29% Similarity=0.340 Sum_probs=22.3
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceE-EEEccch
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKL-IYCTRTV 77 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~v-vi~T~T~ 77 (724)
+.+++-+|||+|||-...=-|..+... ++ +| +|++-|.
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~---~~-~v~lis~D~~ 40 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLK---GK-KVALISADTY 40 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHT---T---EEEEEESTS
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhc---cc-cceeecCCCC
Confidence 357889999999997654333333322 34 45 5555553
No 290
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=82.20 E-value=3.9 Score=47.12 Aligned_cols=69 Identities=22% Similarity=0.287 Sum_probs=46.6
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhC--CCCCceEEEEccchhhHHHHHHHHHhhhhhcccCCCCCCceEEEEecCc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSR 112 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~--~~~~~~vvi~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr 112 (724)
.+..++.+|+|||||+.-|-+.=...... -..+.+|++++-|+.-.+|+..-+-.- .+.++..++||
T Consensus 393 yelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligiy~~-----------qrpsImr~gsr 461 (1025)
T KOG1807|consen 393 YELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGIYYH-----------QRPSIMRQGSR 461 (1025)
T ss_pred hhhheeecCCCCCceeehHHHHHHHHhcccccccccceeeeehhhHHHHHHHHHHHhc-----------CCceEEEeccc
Confidence 46899999999999998876543332211 112238999999999999988754321 12346677777
Q ss_pred cc
Q 004910 113 KN 114 (724)
Q Consensus 113 ~~ 114 (724)
.+
T Consensus 462 ~~ 463 (1025)
T KOG1807|consen 462 FF 463 (1025)
T ss_pred cC
Confidence 54
No 291
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=82.19 E-value=0.65 Score=44.66 Aligned_cols=34 Identities=26% Similarity=0.293 Sum_probs=20.4
Q ss_pred CHHHHHHHHHHHHHHHh--CCcEEEEcCCCcchHHH
Q 004910 18 YPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~--~~~~~iEApTGtGKTla 51 (724)
|..|.+.+....++... +..++|.+|.|+|||.-
T Consensus 5 R~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~l 40 (185)
T PF13191_consen 5 REEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSL 40 (185)
T ss_dssp -HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHH
Confidence 77787766665542222 35899999999999974
No 292
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=82.18 E-value=1.3 Score=47.43 Aligned_cols=28 Identities=32% Similarity=0.294 Sum_probs=22.2
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 24 YMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 24 ~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
+..-+..++..+++++|.+|||+|||-.
T Consensus 151 ~~~~l~~~v~~~~nilI~G~tGSGKTTl 178 (344)
T PRK13851 151 LEAFLHACVVGRLTMLLCGPTGSGKTTM 178 (344)
T ss_pred HHHHHHHHHHcCCeEEEECCCCccHHHH
Confidence 4444555677789999999999999963
No 293
>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=81.95 E-value=1.5 Score=48.03 Aligned_cols=34 Identities=35% Similarity=0.284 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHh--------------------CCcEEEEcCCCcchHHHH
Q 004910 19 PEQYSYMLELKRALDA--------------------KGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~--------------------~~~~~iEApTGtGKTla~ 52 (724)
-+|.+....+..++.+ +.++++.+|||+|||...
T Consensus 80 iGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lA 133 (413)
T TIGR00382 80 IGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLA 133 (413)
T ss_pred cCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHH
Confidence 4677878777766621 247999999999999853
No 294
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=81.76 E-value=1.8 Score=47.31 Aligned_cols=33 Identities=30% Similarity=0.210 Sum_probs=28.2
Q ss_pred CHHHHHHHHHHHHHHHh----------------CCcEEEEcCCCcchHH
Q 004910 18 YPEQYSYMLELKRALDA----------------KGHCLLEMPTGTGKTI 50 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~----------------~~~~~iEApTGtGKTl 50 (724)
-.+|.+....+..++.+ .+++++.+|||+|||.
T Consensus 17 IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~ 65 (443)
T PRK05201 17 IIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTE 65 (443)
T ss_pred cCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHH
Confidence 36899999999988865 3689999999999995
No 295
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=81.64 E-value=4.6 Score=44.00 Aligned_cols=53 Identities=21% Similarity=0.230 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHh-----CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccch
Q 004910 23 SYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (724)
Q Consensus 23 e~~~~v~~~l~~-----~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~ 77 (724)
+++.++..++.+ ...++|-+|+|.|||--+ -++-.++....... +|+|.|.-.
T Consensus 96 ~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl-~Aign~~~~~~~~a-~v~y~~se~ 153 (408)
T COG0593 96 RLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLL-QAIGNEALANGPNA-RVVYLTSED 153 (408)
T ss_pred HHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHH-HHHHHHHHhhCCCc-eEEeccHHH
Confidence 445566666655 468999999999999742 23333333333334 888888654
No 296
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=81.32 E-value=3.2 Score=42.89 Aligned_cols=39 Identities=26% Similarity=0.285 Sum_probs=26.0
Q ss_pred cEEEEcCCCcchHHHHHHHHH-HHHhhCCCCCceEEEEccchh
Q 004910 37 HCLLEMPTGTGKTIALLSLIT-SYVLSKPENPVKLIYCTRTVH 78 (724)
Q Consensus 37 ~~~iEApTGtGKTla~L~~al-~~~~~~~~~~~~vvi~T~T~~ 78 (724)
+++|-+|||+|||- |+-.| +...-.+... .|++.||++-
T Consensus 89 I~~VYGPTG~GKSq--LlRNLis~~lI~P~PE-TVfFItP~~~ 128 (369)
T PF02456_consen 89 IGVVYGPTGSGKSQ--LLRNLISCQLIQPPPE-TVFFITPQKD 128 (369)
T ss_pred EEEEECCCCCCHHH--HHHHhhhcCcccCCCC-ceEEECCCCC
Confidence 48899999999996 33222 2222223345 8999999864
No 297
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=80.95 E-value=1.9 Score=44.77 Aligned_cols=35 Identities=31% Similarity=0.396 Sum_probs=23.8
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccch
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~ 77 (724)
.++++-+|||+|||+- .-+|+-. . + ++.-|+-.|.
T Consensus 98 SNILLiGPTGsGKTlL--AqTLAk~--L--n-VPFaiADATt 132 (408)
T COG1219 98 SNILLIGPTGSGKTLL--AQTLAKI--L--N-VPFAIADATT 132 (408)
T ss_pred ccEEEECCCCCcHHHH--HHHHHHH--h--C-CCeeeccccc
Confidence 4789999999999984 3344322 2 1 3777777763
No 298
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=80.65 E-value=4.2 Score=39.47 Aligned_cols=54 Identities=20% Similarity=0.330 Sum_probs=32.7
Q ss_pred hCCcEEEEcCCCcchHHHHHHHHHHHHhhC-------CCCCceEEEEccchhhHHHHHHHHHh
Q 004910 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK-------PENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 34 ~~~~~~iEApTGtGKTla~L~~al~~~~~~-------~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.|...++-||+|+|||...+--+..++... ..+. +|+|.+.-.+ ..++.+-+..
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~-~Vl~i~~E~~-~~~~~~rl~~ 91 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPG-RVLYISLEDS-ESQIARRLRA 91 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT----------EEEEESSS--HHHHHHHHHH
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCc-eEEEEeccCC-HHHHHHHHHH
Confidence 467899999999999998887666666421 1233 7777765544 3344444443
No 299
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=80.63 E-value=5.8 Score=47.70 Aligned_cols=59 Identities=20% Similarity=0.121 Sum_probs=37.1
Q ss_pred ceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 7 ~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
|-++..... ||+.|.- -.+. |.+| -+.|..||-||||+.-+|+...|.. |+ .|-|.|-.
T Consensus 130 g~~~~wdm~-~ydVQLi--Ggiv--Lh~G--~IAEM~TGEGKTLvatlp~yLnAL~---G~-gVHvVTvN 188 (1025)
T PRK12900 130 GREMTWDMV-PYDVQLI--GGIV--LHSG--KISEMATGEGKTLVSTLPTFLNALT---GR-GVHVVTVN 188 (1025)
T ss_pred ccccccCcc-ccchHHh--hhHH--hhcC--CccccCCCCCcchHhHHHHHHHHHc---CC-CcEEEeec
Confidence 344444444 3666653 2222 2333 4689999999999999998777653 34 56666644
No 300
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=80.42 E-value=3.3 Score=47.83 Aligned_cols=71 Identities=18% Similarity=0.209 Sum_probs=43.8
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhhhcccCCCCCCceEEEEecCcc-
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRK- 113 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~- 113 (724)
..|+++-||||+|||.++.+|.+... +. .+||.-+.-.+.+..-.-.++ .|.++.+.-..+..
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnLL~~-----~~-S~VV~DpKGEl~~~Ta~~R~~----------~G~~V~vfdP~~~~g 221 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNLLFW-----ED-SVVVHDIKLENYELTSGWREK----------QGQKVFVWEPANPDG 221 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhHHhC-----CC-CEEEEeCcHHHHHHHHHHHHH----------CCCeEEEEeCCCCCC
Confidence 36899999999999999999998642 23 566666665555443332222 14455444444332
Q ss_pred -ccccchHh
Q 004910 114 -NLCVNSRV 121 (724)
Q Consensus 114 -~~C~~~~~ 121 (724)
..|-|++.
T Consensus 222 ~S~r~NPL~ 230 (606)
T PRK13897 222 ISHCYNPLD 230 (606)
T ss_pred CceeeCCHH
Confidence 24666664
No 301
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=80.35 E-value=2.8 Score=41.31 Aligned_cols=43 Identities=28% Similarity=0.377 Sum_probs=24.9
Q ss_pred hCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 34 ~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
+..|++|-++||+|||...-.-+...+........+++++-+.
T Consensus 37 ~~~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k 79 (205)
T PF01580_consen 37 KNPHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPK 79 (205)
T ss_dssp GS-SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TT
T ss_pred CCceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCC
Confidence 4459999999999999876655555544222223467766655
No 302
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=80.30 E-value=1.7 Score=47.06 Aligned_cols=22 Identities=36% Similarity=0.436 Sum_probs=17.6
Q ss_pred HhCCcEEEEcCCCcchHHHHHH
Q 004910 33 DAKGHCLLEMPTGTGKTIALLS 54 (724)
Q Consensus 33 ~~~~~~~iEApTGtGKTla~L~ 54 (724)
.+++++++-+|||+|||.....
T Consensus 135 ~~g~ii~lvGptGvGKTTtiak 156 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAK 156 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHH
Confidence 3467899999999999986543
No 303
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=80.29 E-value=5.2 Score=43.87 Aligned_cols=37 Identities=32% Similarity=0.370 Sum_probs=23.8
Q ss_pred CHHHHHH-HHHHHHHHHhC--CcEEEEcCCCcchHHHHHH
Q 004910 18 YPEQYSY-MLELKRALDAK--GHCLLEMPTGTGKTIALLS 54 (724)
Q Consensus 18 r~~Q~e~-~~~v~~~l~~~--~~~~iEApTGtGKTla~L~ 54 (724)
|..|.+- ...+..++.++ .+++|-+|+|||||...-.
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~ 74 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKK 74 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHH
Confidence 4555443 33333444433 5799999999999987554
No 304
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=80.27 E-value=1.4 Score=39.48 Aligned_cols=52 Identities=17% Similarity=0.037 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhH
Q 004910 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (724)
Q Consensus 22 ~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~ 80 (724)
++++..+.+.+..+..++++++-|+|||- |+-++.-+ .. . .-.|.+||-+++
T Consensus 2 ~~la~~l~~~l~~g~vi~L~GdLGaGKTt--f~r~l~~~--lg--~-~~~V~SPTF~l~ 53 (123)
T PF02367_consen 2 IRLAKKLAQILKPGDVILLSGDLGAGKTT--FVRGLARA--LG--I-DEEVTSPTFSLV 53 (123)
T ss_dssp HHHHHHHHHHHSS-EEEEEEESTTSSHHH--HHHHHHHH--TT-----S----TTTTSE
T ss_pred HHHHHHHHHhCCCCCEEEEECCCCCCHHH--HHHHHHHH--cC--C-CCCcCCCCeEEE
Confidence 35778888899889999999999999997 34444333 22 2 337889997763
No 305
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=80.26 E-value=1.5 Score=50.88 Aligned_cols=35 Identities=29% Similarity=0.339 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|......+..++.+++ + .++.+|.|+|||....+
T Consensus 20 Gq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~ 57 (585)
T PRK14950 20 GQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARI 57 (585)
T ss_pred CCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHH
Confidence 88999999988998875 3 48999999999987654
No 306
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=80.26 E-value=8.7 Score=41.09 Aligned_cols=70 Identities=14% Similarity=0.339 Sum_probs=44.9
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccC
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~ 610 (724)
....+++|+.+.-+...+...+.-.++..+ -+.-.+...+.+..++.||. |+--||+++ .-.+.|+|+
T Consensus 464 ~ndKvIiFv~~K~~AD~LSSd~~l~gi~~q------~lHG~r~Q~DrE~al~~~ks----G~vrILvaT--DlaSRGlDv 531 (629)
T KOG0336|consen 464 SNDKVIIFVSRKVMADHLSSDFCLKGISSQ------SLHGNREQSDREMALEDFKS----GEVRILVAT--DLASRGLDV 531 (629)
T ss_pred CCceEEEEEechhhhhhccchhhhcccchh------hccCChhhhhHHHHHHhhhc----CceEEEEEe--chhhcCCCc
Confidence 346888888888776655554432222111 11112333456778898875 676788877 689999999
Q ss_pred CC
Q 004910 611 DR 612 (724)
Q Consensus 611 ~~ 612 (724)
+|
T Consensus 532 ~D 533 (629)
T KOG0336|consen 532 PD 533 (629)
T ss_pred hh
Confidence 98
No 307
>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=80.21 E-value=2.1 Score=44.19 Aligned_cols=42 Identities=19% Similarity=0.197 Sum_probs=28.4
Q ss_pred HHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 30 ~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
..+..+...+|-||||+|||.-.+.-+..++... +. +|+|.|
T Consensus 25 gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~--g~-~vl~iS 66 (271)
T cd01122 25 KGLRKGELIILTAGTGVGKTTFLREYALDLITQH--GV-RVGTIS 66 (271)
T ss_pred EEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhc--Cc-eEEEEE
Confidence 3556678899999999999976554444444322 44 676665
No 308
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=80.17 E-value=1.1 Score=40.38 Aligned_cols=21 Identities=24% Similarity=0.431 Sum_probs=13.1
Q ss_pred HhCCcEEEEcCCCcchHHHHH
Q 004910 33 DAKGHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 33 ~~~~~~~iEApTGtGKTla~L 53 (724)
++++.++|.+|+|+|||...-
T Consensus 2 ~~~~~~~i~G~~G~GKT~~~~ 22 (131)
T PF13401_consen 2 QSQRILVISGPPGSGKTTLIK 22 (131)
T ss_dssp -----EEEEE-TTSSHHHHHH
T ss_pred CCCcccEEEcCCCCCHHHHHH
Confidence 356789999999999998543
No 309
>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=80.05 E-value=4.4 Score=40.52 Aligned_cols=51 Identities=22% Similarity=0.158 Sum_probs=32.2
Q ss_pred hCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 34 ~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.+...++.+|+|+|||.-.+--+...+. .++ +++|.|-.. -.+|+++.+..
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~---~g~-~~~y~s~e~-~~~~l~~~~~~ 65 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLK---NGE-KAMYISLEE-REERILGYAKS 65 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHh---CCC-eEEEEECCC-CHHHHHHHHHH
Confidence 3567899999999998754433333332 245 787776544 35677666554
No 310
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=80.04 E-value=5.6 Score=47.97 Aligned_cols=137 Identities=12% Similarity=0.137 Sum_probs=75.8
Q ss_pred chHHhhccCeEEEecCCCCCc-cchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHH
Q 004910 444 VKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGK 522 (724)
Q Consensus 444 l~~l~~~~~s~Il~SaTL~~~-~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~ 522 (724)
++..|...+..--|+||.... +.|....+++-+. +| .|. |.+-.+.++ .-| +...+-+..+.+
T Consensus 556 ~QnyFR~Y~kLsGMTGTA~tea~Ef~~IY~L~Vv~---IP-----Tnr-P~~R~D~~D-----~vy--~t~~eK~~Aii~ 619 (1112)
T PRK12901 556 LQNYFRMYHKLAGMTGTAETEAGEFWDIYKLDVVV---IP-----TNR-PIARKDKED-----LVY--KTKREKYNAVIE 619 (1112)
T ss_pred HHHHHhhCchhcccCCCCHHHHHHHHHHhCCCEEE---CC-----CCC-CcceecCCC-----eEe--cCHHHHHHHHHH
Confidence 466777777777788887654 2566666654221 11 010 000000011 011 122222356666
Q ss_pred HHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecC
Q 004910 523 LLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARG 602 (724)
Q Consensus 523 ~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g 602 (724)
.|.++.+ .+..+||-++|-+.=+.+...++..++-....+-+ ....+ ..++.+ + ...|+|-+|+ .
T Consensus 620 ei~~~~~-~GrPVLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK------~h~~E-AeIVA~---A--G~~GaVTIAT--N 684 (1112)
T PRK12901 620 EITELSE-AGRPVLVGTTSVEISELLSRMLKMRKIPHNVLNAK------LHQKE-AEIVAE---A--GQPGTVTIAT--N 684 (1112)
T ss_pred HHHHHHH-CCCCEEEEeCcHHHHHHHHHHHHHcCCcHHHhhcc------chhhH-HHHHHh---c--CCCCcEEEec--c
Confidence 6666653 67799999999999999998888776533222111 11111 122332 1 3467899987 4
Q ss_pred cccccccCC
Q 004910 603 KVAEGIDFD 611 (724)
Q Consensus 603 ~~~EGiD~~ 611 (724)
-...|-|+.
T Consensus 685 MAGRGTDIk 693 (1112)
T PRK12901 685 MAGRGTDIK 693 (1112)
T ss_pred CcCCCcCcc
Confidence 678999997
No 311
>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=79.97 E-value=1.6 Score=42.76 Aligned_cols=33 Identities=30% Similarity=0.369 Sum_probs=20.3
Q ss_pred cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 37 ~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
..+|-+|||||||-..+ ..|+.. +. +||++-+-
T Consensus 3 v~~i~GpT~tGKt~~ai----~lA~~~--g~-pvI~~Dri 35 (233)
T PF01745_consen 3 VYLIVGPTGTGKTALAI----ALAQKT--GA-PVISLDRI 35 (233)
T ss_dssp EEEEE-STTSSHHHHHH----HHHHHH-----EEEEE-SG
T ss_pred EEEEECCCCCChhHHHH----HHHHHh--CC-CEEEecce
Confidence 46889999999997543 445544 34 77776543
No 312
>PRK04328 hypothetical protein; Provisional
Probab=79.88 E-value=3.3 Score=42.36 Aligned_cols=51 Identities=16% Similarity=0.149 Sum_probs=29.7
Q ss_pred hCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 34 ~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.|...+|.+|+|+|||.-.+--+...+. .+. +++|.| |-.--+++++.+..
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~---~ge-~~lyis-~ee~~~~i~~~~~~ 72 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ---MGE-PGVYVA-LEEHPVQVRRNMRQ 72 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHh---cCC-cEEEEE-eeCCHHHHHHHHHH
Confidence 3567899999999998754432222222 244 565555 22333456665554
No 313
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=79.87 E-value=1.8 Score=47.60 Aligned_cols=34 Identities=35% Similarity=0.281 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHH------------------hCCcEEEEcCCCcchHHHH
Q 004910 19 PEQYSYMLELKRALD------------------AKGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~------------------~~~~~~iEApTGtGKTla~ 52 (724)
-+|.+....+..++. .+.++++.+|||||||...
T Consensus 74 iGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lA 125 (412)
T PRK05342 74 IGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLA 125 (412)
T ss_pred eChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHH
Confidence 356666666655542 1357999999999999743
No 314
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=79.74 E-value=4 Score=41.22 Aligned_cols=52 Identities=17% Similarity=0.182 Sum_probs=33.0
Q ss_pred HhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 33 ~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
-.+...++.+|+|+|||.-.+.-+...+. .+. +++|.|--.+ .+++++.+..
T Consensus 23 ~~g~~~~i~G~~GsGKt~l~~~~~~~~~~---~g~-~~~y~~~e~~-~~~~~~~~~~ 74 (234)
T PRK06067 23 PFPSLILIEGDHGTGKSVLSQQFVYGALK---QGK-KVYVITTENT-SKSYLKQMES 74 (234)
T ss_pred cCCcEEEEECCCCCChHHHHHHHHHHHHh---CCC-EEEEEEcCCC-HHHHHHHHHH
Confidence 34567999999999999755433333332 245 7877776544 3566665554
No 315
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=79.58 E-value=4.1 Score=44.18 Aligned_cols=47 Identities=28% Similarity=0.188 Sum_probs=27.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHH-hCCcEEEEcCCCcchHHHHHHHHHHHH
Q 004910 13 PYDNIYPEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIALLSLITSYV 60 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~-~~~~~~iEApTGtGKTla~L~~al~~~ 60 (724)
|-..|.-.|.-+...+.+.+. .++.++|.+|||+|||-.. .+.+.+.
T Consensus 126 ~~~~~~l~~lgl~~~~~~~l~~~~GlilI~G~TGSGKTT~l-~al~~~i 173 (372)
T TIGR02525 126 PSDIPDLKQMGIEPDLFNSLLPAAGLGLICGETGSGKSTLA-ASIYQHC 173 (372)
T ss_pred CCcCCCHHHcCCCHHHHHHHHhcCCEEEEECCCCCCHHHHH-HHHHHHH
Confidence 333333344444444444443 4568899999999999753 3334444
No 316
>PHA02533 17 large terminase protein; Provisional
Probab=79.57 E-value=8.2 Score=44.04 Aligned_cols=73 Identities=11% Similarity=0.073 Sum_probs=55.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
-||. ++|.|++++..+. .++..+++.|=..|||.....-++.++...+ +. .|+++.+|..|...+++.++.+.
T Consensus 56 ~Pf~-L~p~Q~~i~~~~~----~~R~~ii~~aRq~GKStl~a~~al~~a~~~~-~~-~v~i~A~~~~QA~~vF~~ik~~i 128 (534)
T PHA02533 56 IKVQ-MRDYQKDMLKIMH----KNRFNACNLSRQLGKTTVVAIFLLHYVCFNK-DK-NVGILAHKASMAAEVLDRTKQAI 128 (534)
T ss_pred eecC-CcHHHHHHHHHHh----cCeEEEEEEcCcCChHHHHHHHHHHHHHhCC-CC-EEEEEeCCHHHHHHHHHHHHHHH
Confidence 4776 4899999987763 4567789999999999876654554554333 45 89999999999999998877653
No 317
>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=79.39 E-value=1.7 Score=47.53 Aligned_cols=43 Identities=19% Similarity=0.155 Sum_probs=31.4
Q ss_pred cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH
Q 004910 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 37 ~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
|+++-||||+|||.++++|.+... +. .+||.-+.-.+.+....
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~~-----~~-s~vv~D~Kge~~~~t~~ 43 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLTW-----PG-SVVVLDPKGENFELTSE 43 (384)
T ss_pred CeeEecCCCCCCccEEEccchhcC-----CC-CEEEEccchhHHHHHHH
Confidence 678999999999999999977532 23 57777766666554433
No 318
>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=79.30 E-value=7 Score=42.29 Aligned_cols=36 Identities=28% Similarity=0.268 Sum_probs=23.2
Q ss_pred CHHHHHHHHHHHHH-HHhC--CcEEEEcCCCcchHHHHH
Q 004910 18 YPEQYSYMLELKRA-LDAK--GHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 18 r~~Q~e~~~~v~~~-l~~~--~~~~iEApTGtGKTla~L 53 (724)
|..|.+-+...... +..+ ..++|-+|+|||||...-
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~ 58 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTK 58 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHH
Confidence 56666544443333 3322 579999999999997643
No 319
>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=79.27 E-value=3.4 Score=37.69 Aligned_cols=16 Identities=50% Similarity=0.576 Sum_probs=13.6
Q ss_pred cEEEEcCCCcchHHHH
Q 004910 37 HCLLEMPTGTGKTIAL 52 (724)
Q Consensus 37 ~~~iEApTGtGKTla~ 52 (724)
++++.+|+|+|||..+
T Consensus 1 ~vlL~G~~G~GKt~l~ 16 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLA 16 (139)
T ss_dssp EEEEEESSSSSHHHHH
T ss_pred CEEEECCCCCCHHHHH
Confidence 4789999999999743
No 320
>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=79.22 E-value=1.4 Score=45.69 Aligned_cols=27 Identities=41% Similarity=0.615 Sum_probs=20.4
Q ss_pred HHHHHHHHhCCcEEEEcCCCcchHHHH
Q 004910 26 LELKRALDAKGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 26 ~~v~~~l~~~~~~~iEApTGtGKTla~ 52 (724)
+.+..++..++++++.+|||+|||-.+
T Consensus 118 ~~l~~~v~~~~~ili~G~tGSGKTT~l 144 (270)
T PF00437_consen 118 EFLRSAVRGRGNILISGPTGSGKTTLL 144 (270)
T ss_dssp HHHHHCHHTTEEEEEEESTTSSHHHHH
T ss_pred HHHhhccccceEEEEECCCccccchHH
Confidence 334445566789999999999999754
No 321
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=79.16 E-value=3.4 Score=51.61 Aligned_cols=52 Identities=25% Similarity=0.350 Sum_probs=37.0
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhC--CCCCceEEEEccchhhHHHHHHHHH
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~--~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
+..+|||.-|||||.+.-.-.+...... -..+ +|++.|=|++-...+-+.++
T Consensus 10 G~~lieAsAGtGKT~ti~~~~lrll~~~~~~~~~-~iLvvTFT~aAt~el~~RIr 63 (1087)
T TIGR00609 10 GTFLIEASAGTGKTFTIAQLYLRLLLEGGPLTVE-EILVVTFTNAATEELKTRIR 63 (1087)
T ss_pred CCEEEEECCCCCHHHHHHHHHHHHHhcCCCCChh-hEEEEehhHHHHHHHHHHHH
Confidence 5889999999999987554444433322 1124 89999999988777766555
No 322
>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=79.00 E-value=3 Score=42.92 Aligned_cols=36 Identities=22% Similarity=0.221 Sum_probs=28.0
Q ss_pred CHHHHHHHHHHHHHHHhCC-cEEEEcCCCcchHHHHH
Q 004910 18 YPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALL 53 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~-~~~iEApTGtGKTla~L 53 (724)
.+.+.+....+...+..+. .+++.+|+|+|||...-
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~ 61 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIR 61 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 4667777777777777655 78899999999997543
No 323
>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=78.96 E-value=3 Score=43.94 Aligned_cols=34 Identities=32% Similarity=0.321 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHh-----C--CcEEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLELKRALDA-----K--GHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~-----~--~~~~iEApTGtGKTla~L 53 (724)
+|.+....+..++.. + .++++.+|+|+|||....
T Consensus 8 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~ 48 (305)
T TIGR00635 8 GQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAH 48 (305)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHH
Confidence 567776666666652 2 469999999999997543
No 324
>PF06862 DUF1253: Protein of unknown function (DUF1253); InterPro: IPR010678 This family is defined by a C-terminal region of approximately 500 residues, Digestive organ expansion factor (DEF) is thought to Regulate the p53 pathway to control the expansion growth of digestive organs and is required for the expansion growth of intestine, liver and exocrine pancreas, but not endocrine pancreas [, ].; GO: 0005634 nucleus
Probab=78.95 E-value=11 Score=41.56 Aligned_cols=86 Identities=17% Similarity=0.184 Sum_probs=60.5
Q ss_pred cccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004910 529 SIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (724)
Q Consensus 529 ~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGi 608 (724)
....+|+|||.|||-..=++.+.+++.++ . -....|-...++.......|. .|+..||+-+-|--|..=.
T Consensus 297 ~~~~~~~LIfIPSYfDfVRlRN~lk~~~~-----s-F~~i~EYts~~~isRAR~~F~----~G~~~iLL~TER~HFfrRy 366 (442)
T PF06862_consen 297 DSKMSGTLIFIPSYFDFVRLRNYLKKENI-----S-FVQISEYTSNSDISRARSQFF----HGRKPILLYTERFHFFRRY 366 (442)
T ss_pred ccCCCcEEEEecchhhhHHHHHHHHhcCC-----e-EEEecccCCHHHHHHHHHHHH----cCCceEEEEEhHHhhhhhc
Confidence 45668999999999999999999886532 0 011223333233344455554 5888999988777778778
Q ss_pred cCCCCCceEEEEEccCCC
Q 004910 609 DFDRHYGRLVIMFGVPFQ 626 (724)
Q Consensus 609 D~~~~~~r~vii~glPfp 626 (724)
.+.| .+.||..|+|--
T Consensus 367 ~irG--i~~viFY~~P~~ 382 (442)
T PF06862_consen 367 RIRG--IRHVIFYGPPEN 382 (442)
T ss_pred eecC--CcEEEEECCCCC
Confidence 8887 899999999854
No 325
>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=78.81 E-value=4.1 Score=44.03 Aligned_cols=39 Identities=18% Similarity=0.267 Sum_probs=24.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHH-hCCcEEEEcCCCcchHHH
Q 004910 13 PYDNIYPEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 13 p~~~~r~~Q~e~~~~v~~~l~-~~~~~~iEApTGtGKTla 51 (724)
|-..+.-.|.-+-..+.+.+. .++.++|.+|||+|||-.
T Consensus 111 ~~~~~~l~~l~~~~~~~~~~~~~~glilI~GpTGSGKTTt 150 (358)
T TIGR02524 111 PAEPPKLSKLDLPAAIIDAIAPQEGIVFITGATGSGKSTL 150 (358)
T ss_pred CCCCCCHHHcCCCHHHHHHHhccCCEEEEECCCCCCHHHH
Confidence 333333334333334455554 567999999999999964
No 326
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=78.76 E-value=2.5 Score=43.50 Aligned_cols=54 Identities=24% Similarity=0.332 Sum_probs=34.3
Q ss_pred HHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 31 ~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.+..+...+|.+++|||||.-.+--+...+.. +. +++|.|-. ...+.+.+.+..
T Consensus 19 G~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~---ge-~vlyvs~~-e~~~~l~~~~~~ 72 (260)
T COG0467 19 GLPRGSVVLITGPPGTGKTIFALQFLYEGARE---GE-PVLYVSTE-ESPEELLENARS 72 (260)
T ss_pred CCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhc---CC-cEEEEEec-CCHHHHHHHHHH
Confidence 35567899999999999998766555554432 45 66666532 333444444443
No 327
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=78.55 E-value=2.3 Score=49.08 Aligned_cols=35 Identities=23% Similarity=0.218 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~---~~~iEApTGtGKTla~L~ 54 (724)
+|..+...+..++..++ .+++.+|.|+|||....+
T Consensus 28 Gq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~ 65 (598)
T PRK09111 28 GQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARI 65 (598)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 89999999999999885 488999999999976553
No 328
>COG4889 Predicted helicase [General function prediction only]
Probab=78.53 E-value=1.8 Score=50.39 Aligned_cols=51 Identities=35% Similarity=0.556 Sum_probs=37.0
Q ss_pred EEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCC--CC
Q 004910 596 FFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSK--AD 673 (724)
Q Consensus 596 L~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~--~D 673 (724)
.++-+| -++||||+|. +..||.. +|. .++.-+.|++||++|.. .|
T Consensus 531 IlSNaR-cLSEGVDVPa--LDsViFf-----~pr-------------------------~smVDIVQaVGRVMRKa~gK~ 577 (1518)
T COG4889 531 ILSNAR-CLSEGVDVPA--LDSVIFF-----DPR-------------------------SSMVDIVQAVGRVMRKAKGKK 577 (1518)
T ss_pred eeccch-hhhcCCCccc--cceEEEe-----cCc-------------------------hhHHHHHHHHHHHHHhCcCCc
Confidence 334343 5999999995 5556543 342 35778899999999976 59
Q ss_pred eEEEEE
Q 004910 674 YGMMIF 679 (724)
Q Consensus 674 ~g~vvl 679 (724)
||.|||
T Consensus 578 yGYIIL 583 (1518)
T COG4889 578 YGYIIL 583 (1518)
T ss_pred cceEEE
Confidence 998886
No 329
>PRK10436 hypothetical protein; Provisional
Probab=78.45 E-value=4.3 Score=45.35 Aligned_cols=26 Identities=35% Similarity=0.511 Sum_probs=20.1
Q ss_pred hCCcEEEEcCCCcchHHHHHHHHHHHH
Q 004910 34 AKGHCLLEMPTGTGKTIALLSLITSYV 60 (724)
Q Consensus 34 ~~~~~~iEApTGtGKTla~L~~al~~~ 60 (724)
.++.+++.+|||+|||-.. .+++.+.
T Consensus 217 ~~GliLvtGpTGSGKTTtL-~a~l~~~ 242 (462)
T PRK10436 217 PQGLILVTGPTGSGKTVTL-YSALQTL 242 (462)
T ss_pred cCCeEEEECCCCCChHHHH-HHHHHhh
Confidence 4578999999999999864 4556654
No 330
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.44 E-value=1.9 Score=49.71 Aligned_cols=35 Identities=29% Similarity=0.289 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|..+...+.+++.+++ | .++.+|.|+|||....+
T Consensus 20 GQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAri 57 (700)
T PRK12323 20 GQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRI 57 (700)
T ss_pred CcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHH
Confidence 89999999999999986 4 48999999999976543
No 331
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=78.33 E-value=13 Score=44.30 Aligned_cols=68 Identities=22% Similarity=0.394 Sum_probs=40.1
Q ss_pred HHHH-HHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHH
Q 004910 579 LALD-NYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDAL 657 (724)
Q Consensus 579 ~~~~-~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~ 657 (724)
+.++ .|++ |...|+.++ ..++=|+++|- |-| |.+-|+--. ++ ...
T Consensus 538 ~~iE~afr~----g~i~vl~aT--STlaaGVNLPA---rRV-IiraP~~g~---------------------~~---l~~ 583 (1008)
T KOG0950|consen 538 EIIEAAFRE----GNIFVLVAT--STLAAGVNLPA---RRV-IIRAPYVGR---------------------EF---LTR 583 (1008)
T ss_pred HHHHHHHHh----cCeEEEEec--chhhccCcCCc---cee-EEeCCcccc---------------------ch---hhh
Confidence 3455 5553 555666655 57889999996 444 445565421 11 123
Q ss_pred HHHHHhhcccccCCC-CeE-EEEEE
Q 004910 658 RQAAQCVGRVIRSKA-DYG-MMIFA 680 (724)
Q Consensus 658 ~~v~Q~~GR~iR~~~-D~g-~vvll 680 (724)
.+.+|.+||.-|..- -.| .|+++
T Consensus 584 ~~YkQM~GRAGR~gidT~GdsiLI~ 608 (1008)
T KOG0950|consen 584 LEYKQMVGRAGRTGIDTLGDSILII 608 (1008)
T ss_pred hhHHhhhhhhhhcccccCcceEEEe
Confidence 456788888888843 355 45554
No 332
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=78.30 E-value=1.8 Score=49.58 Aligned_cols=35 Identities=26% Similarity=0.177 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|......+..++.+++ | .++.+|.|+|||..+..
T Consensus 20 GQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~ 57 (605)
T PRK05896 20 GQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKI 57 (605)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 89999999999998764 3 67999999999987654
No 333
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=78.29 E-value=9.5 Score=43.49 Aligned_cols=211 Identities=14% Similarity=0.210 Sum_probs=110.6
Q ss_pred chHHhhc-cC-eEEEecCCCCCccchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHH
Q 004910 444 VKPVFDR-FQ-SVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 521 (724)
Q Consensus 444 l~~l~~~-~~-s~Il~SaTL~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~ 521 (724)
++.+.++ .. .+|+|||||.-. -|.+-++--+... ++ -+..++.--|......+|+....
T Consensus 186 LKki~~~R~~LklIimSATlda~-kfS~yF~~a~i~~----------------i~--GR~fPVei~y~~~p~~dYv~a~~ 246 (674)
T KOG0922|consen 186 LKKILKKRPDLKLIIMSATLDAE-KFSEYFNNAPILT----------------IP--GRTFPVEILYLKEPTADYVDAAL 246 (674)
T ss_pred HHHHHhcCCCceEEEEeeeecHH-HHHHHhcCCceEe----------------ec--CCCCceeEEeccCCchhhHHHHH
Confidence 3555544 22 799999999653 3333332211110 00 11123333344445667888877
Q ss_pred HHHHHHhcc-cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCc-----ceEEeCCCchhHHHHHHHHHHhccCCCCeE
Q 004910 522 KLLVEMVSI-VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHK-----LVFIETQDVVETTLALDNYRKACDCGRGAV 595 (724)
Q Consensus 522 ~~i~~~~~~-~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~-----~i~~e~~~~~~~~~~~~~f~~~~~~~~~~v 595 (724)
..+.++... -+|.+|||.|.-+..+.+.+.+.+... .+.... ++| +. .+.+.-..-|... ..|...|
T Consensus 247 ~tv~~Ih~~E~~GDILvFLtGqeEIe~~~~~l~e~~~--~~~~~~~~~~lply--~a--L~~e~Q~rvF~p~-p~g~RKv 319 (674)
T KOG0922|consen 247 ITVIQIHLTEPPGDILVFLTGQEEIEAACELLRERAK--SLPEDCPELILPLY--GA--LPSEEQSRVFDPA-PPGKRKV 319 (674)
T ss_pred HHHHHHHccCCCCCEEEEeCCHHHHHHHHHHHHHHhh--hccccCcceeeeec--cc--CCHHHhhccccCC-CCCcceE
Confidence 777777654 568999999999999999998876411 111111 122 11 1212222333322 2355678
Q ss_pred EEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCc--ccHHHHHHHHHHhhcccccCCCC
Q 004910 596 FFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGD--FLTFDALRQAAQCVGRVIRSKAD 673 (724)
Q Consensus 596 L~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~--~~~~~a~~~v~Q~~GR~iR~~~D 673 (724)
.+++ +..| +.+-|.|+=|-. +.=.++.+ .| +-+. +-+ -..|-.--..+|+.||.=|+..=
T Consensus 320 IlsT---NIAE---------TSlTI~GI~YVV-DsG~vK~~-~y-~p~~---g~~~L~v~~ISkasA~QRaGRAGRt~pG 381 (674)
T KOG0922|consen 320 ILST---NIAE---------TSLTIDGIRYVV-DSGFVKQK-KY-NPRT---GLDSLIVVPISKASANQRAGRAGRTGPG 381 (674)
T ss_pred EEEc---ceee---------eeEEecceEEEE-cCCceEEE-ee-cccc---CccceeEEechHHHHhhhcccCCCCCCc
Confidence 8887 5777 667777776653 12122221 11 1111 111 11223345678999999996654
Q ss_pred eEEEEEEecccCC-CcccCCCchHHHhhccccc
Q 004910 674 YGMMIFADKRYSR-HDKRSKLPGWILSHLRDAH 705 (724)
Q Consensus 674 ~g~vvllD~R~~~-~~~~~~lp~w~~~~~~~~~ 705 (724)
.+ + |+.. ..| ..+|+...+.|+.++
T Consensus 382 kc--y----RLYte~~~-~~~~~~~~PEI~R~~ 407 (674)
T KOG0922|consen 382 KC--Y----RLYTESAY-DKMPLQTVPEIQRVN 407 (674)
T ss_pred eE--E----EeeeHHHH-hhcccCCCCceeeec
Confidence 44 3 3222 223 556666666666653
No 334
>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=78.04 E-value=4 Score=38.67 Aligned_cols=34 Identities=29% Similarity=0.390 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L 53 (724)
||.+..+.+...+.+++ | .++++|.|+||+..++
T Consensus 1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~ 37 (162)
T PF13177_consen 1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLAL 37 (162)
T ss_dssp S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHH
T ss_pred CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHH
Confidence 68899999999999885 4 6999999999987655
No 335
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=78.02 E-value=2 Score=39.17 Aligned_cols=52 Identities=17% Similarity=0.024 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHH
Q 004910 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEME 81 (724)
Q Consensus 23 e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~ 81 (724)
+++..+.+.+..+..+++.++.|+|||.- +-++.-. . +. .--|.+||-++++
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaGKTtl--~~~l~~~--l--g~-~~~v~SPTf~lv~ 61 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAGKTTL--VQGLLQG--L--GI-QGNVTSPTFTLVN 61 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCCHHHH--HHHHHHH--c--CC-CCcccCCCeeeee
Confidence 45667777777788999999999999963 3333322 2 12 3357888866543
No 336
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=77.98 E-value=6.6 Score=47.90 Aligned_cols=74 Identities=18% Similarity=0.113 Sum_probs=48.5
Q ss_pred CCCCHHHHHHHHHHHHHHHh-CCcEEEEcCCCcchHHHHHHHHHHHHhhCCC-CCceEEEEccchhhHHHHHHHHHhh
Q 004910 15 DNIYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 15 ~~~r~~Q~e~~~~v~~~l~~-~~~~~iEApTGtGKTla~L~~al~~~~~~~~-~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
...||.|.+...-..+.+.. +..+++--..|.|||+..+.....-...... .+ +.++.+|+ ++..++.+|+.++
T Consensus 337 ~~lr~yq~~g~~wl~~~l~~~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~-~~liv~p~-s~~~nw~~e~~k~ 412 (866)
T COG0553 337 AELRPYQLEGVNWLSELLRSNLLGGILADDMGLGKTVQTIALLLSLLESIKVYLG-PALIVVPA-SLLSNWKREFEKF 412 (866)
T ss_pred hhhHHHHHHHHHHHHHHHHhccCCCcccccccchhHHHHHHHHHhhhhcccCCCC-CeEEEecH-HHHHHHHHHHhhh
Confidence 34689999999776645544 4577777999999998776543221111111 23 67777776 6677888887665
No 337
>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=77.89 E-value=3.2 Score=42.72 Aligned_cols=38 Identities=13% Similarity=0.164 Sum_probs=25.3
Q ss_pred HhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 33 ~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
-.+...+|.+|+|+|||.-.+--+...+. .+. +++|.|
T Consensus 34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a~---~Ge-~vlyis 71 (259)
T TIGR03878 34 PAYSVINITGVSDTGKSLMVEQFAVTQAS---RGN-PVLFVT 71 (259)
T ss_pred ECCcEEEEEcCCCCCHHHHHHHHHHHHHh---CCC-cEEEEE
Confidence 34567899999999999866654333332 244 666555
No 338
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=77.74 E-value=2.7 Score=49.86 Aligned_cols=46 Identities=24% Similarity=0.354 Sum_probs=28.7
Q ss_pred cceeeeCCCCCCCHHHHHHHHH-HHHHHHhCC---cEEEEcCCCcchHHHHHH
Q 004910 6 EDVTVYFPYDNIYPEQYSYMLE-LKRALDAKG---HCLLEMPTGTGKTIALLS 54 (724)
Q Consensus 6 ~~~~~~Fp~~~~r~~Q~e~~~~-v~~~l~~~~---~~~iEApTGtGKTla~L~ 54 (724)
+-++...|. |..|.+-+.. +..++.+.. .++|-+|||||||.+...
T Consensus 751 DYVPD~LPh---REeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~ 800 (1164)
T PTZ00112 751 DVVPKYLPC---REKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYS 800 (1164)
T ss_pred ccCCCcCCC---hHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHH
Confidence 344545554 6666665544 444565432 356999999999997653
No 339
>CHL00181 cbbX CbbX; Provisional
Probab=77.56 E-value=3.1 Score=43.52 Aligned_cols=19 Identities=37% Similarity=0.375 Sum_probs=15.6
Q ss_pred CcEEEEcCCCcchHHHHHH
Q 004910 36 GHCLLEMPTGTGKTIALLS 54 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~ 54 (724)
-++++.+|+|||||..+-+
T Consensus 60 ~~ill~G~pGtGKT~lAr~ 78 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALK 78 (287)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3689999999999976553
No 340
>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=77.47 E-value=3.9 Score=46.28 Aligned_cols=51 Identities=18% Similarity=0.163 Sum_probs=34.7
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
|...+|.+|+|+|||.-.+--+...++ .+. +++|.+ +-.-.+|+.+....+
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~---~ge-~~~y~s-~eEs~~~i~~~~~~l 313 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACA---NKE-RAILFA-YEESRAQLLRNAYSW 313 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHH---CCC-eEEEEE-eeCCHHHHHHHHHHc
Confidence 457899999999999865544333332 255 788877 455566777766654
No 341
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=77.30 E-value=3.6 Score=37.72 Aligned_cols=31 Identities=23% Similarity=0.304 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 21 QYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 21 Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
=.++...+..+-..+.+++|.+++||||+..
T Consensus 7 ~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 7 MRRLRRQLERLAKSSSPVLITGEPGTGKSLL 37 (138)
T ss_dssp HHHHHHHHHHHHCSSS-EEEECCTTSSHHHH
T ss_pred HHHHHHHHHHHhCCCCcEEEEcCCCCCHHHH
Confidence 3445555555556678999999999999985
No 342
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=77.19 E-value=2.1 Score=50.15 Aligned_cols=35 Identities=31% Similarity=0.383 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~~-~iEApTGtGKTla~L~ 54 (724)
||......+..++.+++ |+ ++.+|.|+|||..+.+
T Consensus 22 GQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~Ari 59 (725)
T PRK07133 22 GQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKI 59 (725)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHH
Confidence 89999999999998874 44 8999999999977654
No 343
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=77.11 E-value=17 Score=40.26 Aligned_cols=122 Identities=20% Similarity=0.389 Sum_probs=81.1
Q ss_pred cEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCC
Q 004910 534 GIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRH 613 (724)
Q Consensus 534 ~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~ 613 (724)
.++||....+....+...+...++ ..+.|-.. ....+....+..|+. ++-.+|+++ .-.+.|+|+|+
T Consensus 339 ~tlvFvEt~~~~d~l~~~l~~~~~-----~~~sIhg~-~tq~er~~al~~Fr~----g~~pvlVaT--~VaaRGlDi~~- 405 (482)
T KOG0335|consen 339 KTLVFVETKRGADELAAFLSSNGY-----PAKSIHGD-RTQIEREQALNDFRN----GKAPVLVAT--NVAARGLDIPN- 405 (482)
T ss_pred eEEEEeeccchhhHHHHHHhcCCC-----Cceeecch-hhhhHHHHHHHHhhc----CCcceEEEe--hhhhcCCCCCC-
Confidence 699999999999999998876543 11223221 122355667888875 677799887 58999999998
Q ss_pred CceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEecccCCC------
Q 004910 614 YGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRH------ 687 (724)
Q Consensus 614 ~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~~~~------ 687 (724)
.+.||..-+|=-. | +| ..++||.=|-.+===++.++|.-....
T Consensus 406 -V~hVInyDmP~d~--d-------------------~Y---------vHRIGRTGR~Gn~G~atsf~n~~~~~i~~~L~~ 454 (482)
T KOG0335|consen 406 -VKHVINYDMPADI--D-------------------DY---------VHRIGRTGRVGNGGRATSFFNEKNQNIAKALVE 454 (482)
T ss_pred -CceeEEeecCcch--h-------------------hH---------HHhccccccCCCCceeEEEeccccchhHHHHHH
Confidence 7789998888431 1 11 136777777665544567777322221
Q ss_pred ---cccCCCchHHHh
Q 004910 688 ---DKRSKLPGWILS 699 (724)
Q Consensus 688 ---~~~~~lp~w~~~ 699 (724)
.-.+..|.|+.+
T Consensus 455 ~l~ea~q~vP~wl~~ 469 (482)
T KOG0335|consen 455 ILTEANQEVPQWLSE 469 (482)
T ss_pred HHHHhcccCcHHHHh
Confidence 123778888887
No 344
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=77.01 E-value=1.7 Score=39.19 Aligned_cols=17 Identities=47% Similarity=0.515 Sum_probs=11.2
Q ss_pred cEEEEcCCCcchHHHHH
Q 004910 37 HCLLEMPTGTGKTIALL 53 (724)
Q Consensus 37 ~~~iEApTGtGKTla~L 53 (724)
|+++|+++|+|||...-
T Consensus 1 HvLleg~PG~GKT~la~ 17 (131)
T PF07726_consen 1 HVLLEGVPGVGKTTLAK 17 (131)
T ss_dssp -EEEES---HHHHHHHH
T ss_pred CEeeECCCccHHHHHHH
Confidence 68999999999998654
No 345
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=76.89 E-value=8.4 Score=42.01 Aligned_cols=18 Identities=39% Similarity=0.523 Sum_probs=15.3
Q ss_pred CcEEEEcCCCcchHHHHH
Q 004910 36 GHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L 53 (724)
+++++-+|||+|||-...
T Consensus 175 ~vi~lvGptGvGKTTT~a 192 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIA 192 (388)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 578899999999997654
No 346
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=76.85 E-value=3.5 Score=42.91 Aligned_cols=50 Identities=26% Similarity=0.148 Sum_probs=35.8
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhC----CCCCceEEEEccchhhHHHHHHHHH
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSK----PENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~----~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
+.+++.+|+|||||- ||-|++--... ...+ -++|=.+.|++-..++.|=-
T Consensus 178 RliLlhGPPGTGKTS--LCKaLaQkLSIR~~~~y~~-~~liEinshsLFSKWFsESg 231 (423)
T KOG0744|consen 178 RLILLHGPPGTGKTS--LCKALAQKLSIRTNDRYYK-GQLIEINSHSLFSKWFSESG 231 (423)
T ss_pred eEEEEeCCCCCChhH--HHHHHHHhheeeecCcccc-ceEEEEehhHHHHHHHhhhh
Confidence 458899999999997 78777531111 0123 57888899999998888633
No 347
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=76.84 E-value=3.4 Score=45.72 Aligned_cols=39 Identities=36% Similarity=0.402 Sum_probs=23.8
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
++.+++-+|||+|||-....-|..++... .+. +|.+.|-
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~-~g~-~V~li~~ 259 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLY-GKK-KVALITL 259 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhc-CCC-eEEEEEC
Confidence 45788889999999976554333333112 234 6766653
No 348
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=76.80 E-value=3.4 Score=43.10 Aligned_cols=37 Identities=41% Similarity=0.521 Sum_probs=21.9
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
+.+++-+|||+|||-...--+..++... .+. +|.+.|
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~-g~~-~V~li~ 231 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAARFVLEH-GNK-KVALIT 231 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHHc-CCC-eEEEEE
Confidence 4688889999999975443232333221 124 666555
No 349
>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=76.80 E-value=3.3 Score=45.16 Aligned_cols=35 Identities=17% Similarity=0.198 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHH
Q 004910 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L 53 (724)
..+...+......++++.++++-+|+|||||..|-
T Consensus 193 r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~ 227 (449)
T TIGR02688 193 RQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYN 227 (449)
T ss_pred HHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHH
Confidence 34444455555678888999999999999996544
No 350
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=76.78 E-value=42 Score=37.65 Aligned_cols=173 Identities=14% Similarity=0.075 Sum_probs=93.4
Q ss_pred CeEEEecCCCCCcc-chhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcc
Q 004910 452 QSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSI 530 (724)
Q Consensus 452 ~s~Il~SaTL~~~~-~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~ 530 (724)
-.++=.|+|+...- ......|++........ -++.....+++= .|. .++ -..++.++++.+.+..+.+++.
T Consensus 452 ~~~~~~~~~~K~~~~~~~~~~~~~E~~Li~~D--GSPs~~K~~V~W-NP~--~~P--~~~~~~~~~i~E~s~~~~~~i~- 523 (1034)
T KOG4150|consen 452 MGVYDGDTPYKDRTRLRSELANLSELELVTID--GSPSSEKLFVLW-NPS--APP--TSKSEKSSKVVEVSHLFAEMVQ- 523 (1034)
T ss_pred cceEeCCCCcCCHHHHHHHhcCCcceEEEEec--CCCCccceEEEe-CCC--CCC--cchhhhhhHHHHHHHHHHHHHH-
Confidence 35777888886653 34445677654322111 111111112221 111 111 1233445677888888888774
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCC-----------CchhHHHHHHHHHHhccCCCCeEEEEe
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-----------DVVETTLALDNYRKACDCGRGAVFFSV 599 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~-----------~~~~~~~~~~~f~~~~~~~~~~vL~~v 599 (724)
.+-+++.|++|.+.-+.+....++ ||+|.. |.-..+. ..+..+..-.|+=.-.+++
T Consensus 524 ~~~R~IAFC~~R~~CEL~~~~~R~------------I~~ET~~~LV~~i~SYRGGY~A~D-RRKIE~~~F~G~L~giIaT 590 (1034)
T KOG4150|consen 524 HGLRCIAFCPSRKLCELVLCLTRE------------ILAETAPHLVEAITSYRGGYIAED-RRKIESDLFGGKLCGIIAT 590 (1034)
T ss_pred cCCcEEEeccHHHHHHHHHHHHHH------------HHHHhhHHHHHHHHhhcCccchhh-HHHHHHHhhCCeeeEEEec
Confidence 556899999999998877665442 222211 1000000 0111111112331222333
Q ss_pred ecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEE
Q 004910 600 ARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIF 679 (724)
Q Consensus 600 ~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvl 679 (724)
..+-=|||+-+ +.+|+.+|.|+. +-.+.|-.||.=|..+|.=++++
T Consensus 591 --NALELGIDIG~--LDAVl~~GFP~S------------------------------~aNl~QQ~GRAGRRNk~SLavyv 636 (1034)
T KOG4150|consen 591 --NALELGIDIGH--LDAVLHLGFPGS------------------------------IANLWQQAGRAGRRNKPSLAVYV 636 (1034)
T ss_pred --chhhhcccccc--ceeEEEccCchh------------------------------HHHHHHHhccccccCCCceEEEE
Confidence 46778999976 789999998874 24566888888888877655554
No 351
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=76.75 E-value=3.7 Score=47.83 Aligned_cols=70 Identities=11% Similarity=0.048 Sum_probs=43.2
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhhhcccCCCCCCceEEEEecCccc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN 114 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~ 114 (724)
..|+++-||||+|||.++.+|.+.- . +. .+|+.-+.-++ -.+....++- .+.++.+.-..+...
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnLL~---~--~g-S~VV~DpKgEl-~~~Ta~~R~~---------~G~~V~vfdP~~~~~ 287 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTALK---W--GG-PLVVLDPSTEV-APMVSEHRRD---------AGREVIVLDPTNPGT 287 (641)
T ss_pred CceEEEEeCCCCCccceEehhhhhc---C--CC-CEEEEeCcHHH-HHHHHHHHHH---------CCCeEEEEeCCCCcc
Confidence 3699999999999999999998751 1 23 56666555443 3344444432 244554444444444
Q ss_pred cccchHh
Q 004910 115 LCVNSRV 121 (724)
Q Consensus 115 ~C~~~~~ 121 (724)
|-|++.
T Consensus 288 -~~NPLd 293 (641)
T PRK13822 288 -GFNVLD 293 (641)
T ss_pred -CCCchh
Confidence 666653
No 352
>PRK06893 DNA replication initiation factor; Validated
Probab=76.73 E-value=6.8 Score=39.42 Aligned_cols=51 Identities=14% Similarity=0.055 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHhC--CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 22 YSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 22 ~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
..++..+.+.+... ..+++-+|+|+|||.-.- |++..... .+. +++|.+-+
T Consensus 24 ~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~--ai~~~~~~-~~~-~~~y~~~~ 76 (229)
T PRK06893 24 LLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLK--AVSNHYLL-NQR-TAIYIPLS 76 (229)
T ss_pred HHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHH--HHHHHHHH-cCC-CeEEeeHH
Confidence 34555555555433 246899999999996433 22221111 134 67776654
No 353
>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=76.66 E-value=5.4 Score=42.23 Aligned_cols=48 Identities=21% Similarity=0.315 Sum_probs=34.5
Q ss_pred HHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchh
Q 004910 26 LELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (724)
Q Consensus 26 ~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~ 78 (724)
.-+..++++++.+++.+|||+|||-.. .+.+... +... |++..--|..
T Consensus 134 ayL~~~ie~~~siii~G~t~sGKTt~l-nall~~I---p~~~-rivtIEdt~E 181 (312)
T COG0630 134 AYLWLAIEARKSIIICGGTASGKTTLL-NALLDFI---PPEE-RIVTIEDTPE 181 (312)
T ss_pred HHHHHHHHcCCcEEEECCCCCCHHHHH-HHHHHhC---Cchh-cEEEEecccc
Confidence 347888899999999999999999753 3333322 3334 8888877754
No 354
>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=76.56 E-value=3.5 Score=42.38 Aligned_cols=48 Identities=19% Similarity=0.212 Sum_probs=34.0
Q ss_pred HHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 26 LELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 26 ~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
+.+...+..|...+|-|+||.|||.-.+--|..++... +. +|+|.|-=
T Consensus 10 D~~lgG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~--~~-~vly~SlE 57 (259)
T PF03796_consen 10 DRLLGGLRPGELTVIAARPGVGKTAFALQIALNAALNG--GY-PVLYFSLE 57 (259)
T ss_dssp HHHHSSB-TT-EEEEEESTTSSHHHHHHHHHHHHHHTT--SS-EEEEEESS
T ss_pred HHHhcCCCcCcEEEEEecccCCchHHHHHHHHHHHHhc--CC-eEEEEcCC
Confidence 34444556677899999999999999888777777543 34 78777753
No 355
>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=76.46 E-value=5.4 Score=40.04 Aligned_cols=53 Identities=21% Similarity=0.219 Sum_probs=31.0
Q ss_pred HHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 31 ~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
.+..|..+++.+|+|+|||.-.+.-+...+. .++ +++|.+-- ...+++.+..+
T Consensus 16 Gi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~---~g~-~~~~is~e-~~~~~i~~~~~ 68 (229)
T TIGR03881 16 GIPRGFFVAVTGEPGTGKTIFCLHFAYKGLR---DGD-PVIYVTTE-ESRESIIRQAA 68 (229)
T ss_pred CCcCCeEEEEECCCCCChHHHHHHHHHHHHh---cCC-eEEEEEcc-CCHHHHHHHHH
Confidence 3445678999999999998765543333332 245 66666532 22345554433
No 356
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=76.43 E-value=4.9 Score=46.74 Aligned_cols=63 Identities=14% Similarity=0.207 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCC--CceEEEEccchhhHHHHHHH
Q 004910 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~--~~~vvi~T~T~~l~~Q~~~e 86 (724)
.+|.+.+..+..++.++.++++.+|+|+|||...-. ++-. .+.. . .+++...+......+++.
T Consensus 34 igq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla~~--l~~~--l~~~~~~-~~~~~~np~~~~~~~~~~ 98 (637)
T PRK13765 34 IGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLAKA--MAEL--LPKEELQ-DILVYPNPEDPNNPKIRT 98 (637)
T ss_pred CChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHH--HHHH--cChHhHH-HheEeeCCCcchHHHHHH
Confidence 579999999999999999999999999999975432 2211 1111 2 566666665555555554
No 357
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=76.24 E-value=3.2 Score=47.11 Aligned_cols=35 Identities=31% Similarity=0.291 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|...+..+..++.+++ | .++.+|.|+|||..+.+
T Consensus 20 Gq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~ 57 (509)
T PRK14958 20 GQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRI 57 (509)
T ss_pred CCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHH
Confidence 89999999999998874 4 58999999999976543
No 358
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=76.03 E-value=3.6 Score=43.96 Aligned_cols=34 Identities=35% Similarity=0.309 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHh----C---CcEEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLELKRALDA----K---GHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~----~---~~~~iEApTGtGKTla~L 53 (724)
+|.+.+..+...+.. + .++++.+|+|+|||....
T Consensus 29 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 29 GQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred CcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence 677777776666542 2 479999999999998654
No 359
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=76.01 E-value=4.6 Score=42.85 Aligned_cols=41 Identities=32% Similarity=0.286 Sum_probs=34.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 14 YDNIYPEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 14 ~~~~r~~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
|...||.|......+..++.+++ | .++.+|.|+||+..++.
T Consensus 2 ~~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~ 45 (319)
T PRK08769 2 TSAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALA 45 (319)
T ss_pred CccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHH
Confidence 34578999999999999999886 4 78999999999976553
No 360
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=75.86 E-value=5.3 Score=40.31 Aligned_cols=16 Identities=44% Similarity=0.642 Sum_probs=14.8
Q ss_pred CcEEEEcCCCcchHHH
Q 004910 36 GHCLLEMPTGTGKTIA 51 (724)
Q Consensus 36 ~~~~iEApTGtGKTla 51 (724)
+++++-+|||||||+.
T Consensus 152 knVLFyGppGTGKTm~ 167 (368)
T COG1223 152 KNVLFYGPPGTGKTMM 167 (368)
T ss_pred ceeEEECCCCccHHHH
Confidence 6899999999999984
No 361
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=75.81 E-value=17 Score=40.86 Aligned_cols=81 Identities=20% Similarity=0.283 Sum_probs=55.6
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccC
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~ 610 (724)
.+-.+|||..|++.-.+++..+.. +.++. .-+..-.+.....+..+++|+. |+=-||+++ +.+..|+||
T Consensus 386 ~~PP~lIfVQs~eRak~L~~~L~~---~~~i~--v~vIh~e~~~~qrde~~~~FR~----g~IwvLicT--dll~RGiDf 454 (593)
T KOG0344|consen 386 FKPPVLIFVQSKERAKQLFEELEI---YDNIN--VDVIHGERSQKQRDETMERFRI----GKIWVLICT--DLLARGIDF 454 (593)
T ss_pred CCCCeEEEEecHHHHHHHHHHhhh---ccCcc--eeeEecccchhHHHHHHHHHhc----cCeeEEEeh--hhhhccccc
Confidence 567999999999999999888741 11121 1122222234567888999986 565677755 899999999
Q ss_pred CCCCceEEEEEccC
Q 004910 611 DRHYGRLVIMFGVP 624 (724)
Q Consensus 611 ~~~~~r~vii~glP 624 (724)
.| ..+||..-+|
T Consensus 455 ~g--vn~VInyD~p 466 (593)
T KOG0344|consen 455 KG--VNLVINYDFP 466 (593)
T ss_pred cC--cceEEecCCC
Confidence 99 4567775444
No 362
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=75.74 E-value=3.4 Score=44.65 Aligned_cols=38 Identities=34% Similarity=0.475 Sum_probs=26.5
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhH
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~ 80 (724)
.++++-+|||+|||+- .-.|+-.. . +++.||-.|.--|
T Consensus 227 SNvLllGPtGsGKTll--aqTLAr~l----d-VPfaIcDcTtLTQ 264 (564)
T KOG0745|consen 227 SNVLLLGPTGSGKTLL--AQTLARVL----D-VPFAICDCTTLTQ 264 (564)
T ss_pred ccEEEECCCCCchhHH--HHHHHHHh----C-CCeEEecccchhh
Confidence 4899999999999984 33444321 2 3899998775443
No 363
>PRK04296 thymidine kinase; Provisional
Probab=75.44 E-value=4.4 Score=39.52 Aligned_cols=37 Identities=16% Similarity=0.134 Sum_probs=25.1
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
|...++-+|+|+|||...+--+..++.. ++ +|+|..+
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~~~---g~-~v~i~k~ 38 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYEER---GM-KVLVFKP 38 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHc---CC-eEEEEec
Confidence 3467889999999998776554444322 45 7777643
No 364
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=75.34 E-value=4.5 Score=40.97 Aligned_cols=25 Identities=36% Similarity=0.376 Sum_probs=20.2
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHH
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYV 60 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~ 60 (724)
...++-||.|+|||...+.-|++.+
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va 26 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMA 26 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHh
Confidence 4678999999999998887666554
No 365
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=75.28 E-value=8.9 Score=42.79 Aligned_cols=37 Identities=24% Similarity=0.302 Sum_probs=24.2
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
..+++-+|+|+|||.- +-|+....... +. +|+|.+..
T Consensus 142 npl~L~G~~G~GKTHL--l~Ai~~~l~~~-~~-~v~yi~~~ 178 (445)
T PRK12422 142 NPIYLFGPEGSGKTHL--MQAAVHALRES-GG-KILYVRSE 178 (445)
T ss_pred ceEEEEcCCCCCHHHH--HHHHHHHHHHc-CC-CEEEeeHH
Confidence 4689999999999973 33343322222 45 88888753
No 366
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=75.14 E-value=2.5 Score=48.86 Aligned_cols=35 Identities=29% Similarity=0.279 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|..+...+..++.+++ | .++.+|.|+|||....+
T Consensus 20 GQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~ 57 (618)
T PRK14951 20 GQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRI 57 (618)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999999885 4 48999999999976554
No 367
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=75.07 E-value=38 Score=40.92 Aligned_cols=138 Identities=11% Similarity=0.061 Sum_probs=77.9
Q ss_pred chHHhhccCeEEEecCCCCCc-cchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHH
Q 004910 444 VKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGK 522 (724)
Q Consensus 444 l~~l~~~~~s~Il~SaTL~~~-~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~ 522 (724)
++.+|...+.+.-|+||.... ..|.+..|++-.. +|..-|.. . .+.++. . +....+.+..+.+
T Consensus 496 ~qnfFr~Y~kl~GmTGTa~~e~~Ef~~iY~l~v~~---iPt~kp~~--r----~d~~d~-----i--y~t~~~k~~ai~~ 559 (970)
T PRK12899 496 LQNFFRLYEKLAGMTGTAITESREFKEIYNLYVLQ---VPTFKPCL--R----IDHNDE-----F--YMTEREKYHAIVA 559 (970)
T ss_pred HHHHHhhCchhcccCCCCHHHHHHHHHHhCCCEEE---CCCCCCce--e----eeCCCc-----E--ecCHHHHHHHHHH
Confidence 467888888999999998654 3566666664321 11111100 0 011111 1 1223344456666
Q ss_pred HHHHHhcccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecC
Q 004910 523 LLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARG 602 (724)
Q Consensus 523 ~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g 602 (724)
.+.+..+ .+..+||-++|-..=+.+...+.+.++- ..++- .++...-..++.+ + ...|+|-+++ .
T Consensus 560 ei~~~~~-~grPvLigt~si~~se~ls~~L~~~gi~------h~vLN-ak~~~~Ea~iia~---A--G~~g~VTIAT--N 624 (970)
T PRK12899 560 EIASIHR-KGNPILIGTESVEVSEKLSRILRQNRIE------HTVLN-AKNHAQEAEIIAG---A--GKLGAVTVAT--N 624 (970)
T ss_pred HHHHHHh-CCCCEEEEeCcHHHHHHHHHHHHHcCCc------ceecc-cchhhhHHHHHHh---c--CCCCcEEEee--c
Confidence 6666543 5568999999999999999888876542 11321 1111111123332 1 3458899987 4
Q ss_pred cccccccCCC
Q 004910 603 KVAEGIDFDR 612 (724)
Q Consensus 603 ~~~EGiD~~~ 612 (724)
-...|-|+.=
T Consensus 625 mAGRGTDIkl 634 (970)
T PRK12899 625 MAGRGTDIKL 634 (970)
T ss_pred cccCCccccc
Confidence 6789999854
No 368
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=74.90 E-value=0.78 Score=45.00 Aligned_cols=61 Identities=10% Similarity=0.193 Sum_probs=42.8
Q ss_pred eEEEcceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEE
Q 004910 2 IFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (724)
Q Consensus 2 ~~~i~~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~ 73 (724)
.+.|.++.-+|+ +.+....|--.+..|..++|.+|.|+|||- |+-.+...... +.+ .|.|-
T Consensus 2 mi~i~~l~K~fg-------~~~VLkgi~l~v~~Gevv~iiGpSGSGKST--lLRclN~LE~~-~~G-~I~i~ 62 (240)
T COG1126 2 MIEIKNLSKSFG-------DKEVLKGISLSVEKGEVVVIIGPSGSGKST--LLRCLNGLEEP-DSG-SITVD 62 (240)
T ss_pred eEEEEeeeEEeC-------CeEEecCcceeEcCCCEEEEECCCCCCHHH--HHHHHHCCcCC-CCc-eEEEC
Confidence 467788888877 344566666677889999999999999997 45556554433 344 56554
No 369
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=74.90 E-value=11 Score=40.17 Aligned_cols=34 Identities=18% Similarity=0.165 Sum_probs=28.1
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
-|.-.++.+.+..+...+.+++|.+++||||+..
T Consensus 12 S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~l 45 (326)
T PRK11608 12 ANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELI 45 (326)
T ss_pred CHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHH
Confidence 3566677777777777888999999999999974
No 370
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.78 E-value=3.8 Score=47.53 Aligned_cols=35 Identities=23% Similarity=0.245 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|..+...+..++.+++ | .++.+|.|+|||..+.+
T Consensus 20 GQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~ 57 (620)
T PRK14954 20 AQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARV 57 (620)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHH
Confidence 89999999999998874 4 77999999999976653
No 371
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=74.65 E-value=4.6 Score=43.42 Aligned_cols=45 Identities=20% Similarity=0.367 Sum_probs=30.1
Q ss_pred EEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH
Q 004910 39 LLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 39 ~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
++.+|.|.|||.....-++.++...+... .|+++ +|..++...+-
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~-~vi~~-~~~~~~~~~~~ 45 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGR-RVIIA-STYRQARDIFG 45 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS---EEEEE-ESSHHHHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCc-EEEEe-cCHHHHHHHHH
Confidence 58899999999988887888877665334 56666 88877766433
No 372
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.53 E-value=3 Score=48.45 Aligned_cols=35 Identities=34% Similarity=0.311 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~---~~~iEApTGtGKTla~L~ 54 (724)
+|.++...+..++..++ .+++.+|.|+|||..+..
T Consensus 20 Gq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~ 57 (620)
T PRK14948 20 GQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARI 57 (620)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHH
Confidence 88999999999998875 458999999999987654
No 373
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=74.41 E-value=2.9 Score=49.70 Aligned_cols=34 Identities=32% Similarity=0.356 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHh--------C---CcEEEEcCCCcchHHHH
Q 004910 19 PEQYSYMLELKRALDA--------K---GHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~--------~---~~~~iEApTGtGKTla~ 52 (724)
-+|.+.+..|.+++.. + ..+++.+|||+|||...
T Consensus 461 iGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lA 505 (758)
T PRK11034 461 FGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVT 505 (758)
T ss_pred eCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHH
Confidence 3788999999998873 1 25899999999999754
No 374
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=74.39 E-value=2.9 Score=50.15 Aligned_cols=36 Identities=36% Similarity=0.373 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~~ 55 (724)
+|......+..++.+++ | +|+.+|.|+|||...++-
T Consensus 19 Gqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~l 57 (824)
T PRK07764 19 GQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARIL 57 (824)
T ss_pred CcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHH
Confidence 88999999999998874 5 589999999999877653
No 375
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=74.27 E-value=2.7 Score=48.37 Aligned_cols=35 Identities=37% Similarity=0.371 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|.+....+..++.+++ | .++.+|.|||||..+-+
T Consensus 20 Gq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~ 57 (559)
T PRK05563 20 GQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKI 57 (559)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998874 4 57799999999987654
No 376
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=74.02 E-value=12 Score=41.92 Aligned_cols=60 Identities=20% Similarity=0.173 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhC-----CcEEEEcCCCcchHHHHHHHHHHHH-hhCCCCCceEEEEccchhhHHHHHHH
Q 004910 23 SYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSYV-LSKPENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 23 e~~~~v~~~l~~~-----~~~~iEApTGtGKTla~L~~al~~~-~~~~~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
+++......+.++ ..+++-+|+|+|||...- ++... .....+. +|+|.+.. .....++..
T Consensus 131 ~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~--ai~~~~~~~~~~~-~v~yi~~~-~~~~~~~~~ 196 (450)
T PRK00149 131 RLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLH--AIGNYILEKNPNA-KVVYVTSE-KFTNDFVNA 196 (450)
T ss_pred HHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHH--HHHHHHHHhCCCC-eEEEEEHH-HHHHHHHHH
Confidence 3344444444432 468999999999997433 23222 2211134 78887664 233444433
No 377
>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=73.93 E-value=13 Score=43.36 Aligned_cols=75 Identities=19% Similarity=0.114 Sum_probs=40.8
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchh--hHHHHHHHHHhhhhhcccCCCCCCceEEEEecCc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH--EMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSR 112 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~--l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr 112 (724)
.+|.+|-+|||+|||..+ ...+..+... +. .|++.=+.-. +...+...+++. + ...++.+.-+...
T Consensus 176 ~~H~lv~G~TGsGKT~l~-~~l~~q~i~~--g~-~viv~DpKgD~~l~~~~~~~~~~~-G-------~~dd~~~f~~~~p 243 (634)
T TIGR03743 176 VGHTLVLGTTGVGKTRLA-ELLITQDIRR--GD-VVIVIDPKGDADLKRRMRAEAKRA-G-------RPDRFYYFHPAFP 243 (634)
T ss_pred CCcEEEECCCCCCHHHHH-HHHHHHHHHc--CC-eEEEEeCCCchHHHHHHHHHHHHh-C-------CCceEEEEecCCC
Confidence 379999999999999765 3334333333 34 4555544432 444444444442 1 1112555555555
Q ss_pred cc-cccchHh
Q 004910 113 KN-LCVNSRV 121 (724)
Q Consensus 113 ~~-~C~~~~~ 121 (724)
+. .|.|+..
T Consensus 244 ~~S~~~NPl~ 253 (634)
T TIGR03743 244 EISVRYNPLG 253 (634)
T ss_pred CcCcCcChhh
Confidence 54 5666653
No 378
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=73.84 E-value=45 Score=39.15 Aligned_cols=124 Identities=21% Similarity=0.253 Sum_probs=73.0
Q ss_pred HHHHHHHHHHHhcccCC-cEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCC---------chhHHHHHHHHHH
Q 004910 517 ARNYGKLLVEMVSIVPD-GIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD---------VVETTLALDNYRK 586 (724)
Q Consensus 517 ~~~~~~~i~~~~~~~~g-~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~---------~~~~~~~~~~f~~ 586 (724)
.+.+.+.+.+.....+. ++++|.--......+...+... ....-+..+|+ |++ .....+.+++|+.
T Consensus 397 le~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~---~~~~ir~~~fi-Gq~~s~~~~gmtqk~Q~evl~~Fr~ 472 (746)
T KOG0354|consen 397 LEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQL---HELGIKAEIFI-GQGKSTQSTGMTQKEQKEVLDKFRD 472 (746)
T ss_pred HHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhh---hhcccccceee-eccccccccccCHHHHHHHHHHHhC
Confidence 46677777777776665 5555554445555554444321 00101223454 222 1234567899986
Q ss_pred hccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcc
Q 004910 587 ACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGR 666 (724)
Q Consensus 587 ~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR 666 (724)
|+--||+|+ .---||+|++. |..||..+.- .+ -++..|+.||
T Consensus 473 ----G~~NvLVAT--SV~EEGLDI~e--c~lVIcYd~~----sn--------------------------pIrmIQrrGR 514 (746)
T KOG0354|consen 473 ----GEINVLVAT--SVAEEGLDIGE--CNLVICYDYS----SN--------------------------PIRMVQRRGR 514 (746)
T ss_pred ----CCccEEEEe--cchhccCCccc--ccEEEEecCC----cc--------------------------HHHHHHHhcc
Confidence 777799987 35679999986 6677776532 11 2677899999
Q ss_pred cccCCCCeEEEEEEecc
Q 004910 667 VIRSKADYGMMIFADKR 683 (724)
Q Consensus 667 ~iR~~~D~g~vvllD~R 683 (724)
=|-.+-+.+++.-+..
T Consensus 515 -gRa~ns~~vll~t~~~ 530 (746)
T KOG0354|consen 515 -GRARNSKCVLLTTGSE 530 (746)
T ss_pred -ccccCCeEEEEEcchh
Confidence 5855555555544433
No 379
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=73.77 E-value=4.2 Score=40.73 Aligned_cols=38 Identities=26% Similarity=0.309 Sum_probs=25.4
Q ss_pred HhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 33 ~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
..|....+.+|+|+|||.-.+.-+...+.. +. +++|.+
T Consensus 21 ~~g~i~~i~G~~GsGKT~l~~~la~~~~~~---~~-~v~yi~ 58 (225)
T PRK09361 21 ERGTITQIYGPPGSGKTNICLQLAVEAAKN---GK-KVIYID 58 (225)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHHC---CC-eEEEEE
Confidence 335678999999999998766555444432 34 565554
No 380
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=73.48 E-value=21 Score=39.44 Aligned_cols=111 Identities=20% Similarity=0.241 Sum_probs=69.4
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCc---ceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccc
Q 004910 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHK---LVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEG 607 (724)
Q Consensus 531 ~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~---~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EG 607 (724)
.-.++|||..|-+...+....++-. +.... .-|.-+-+.+.+.++++.|.+ |+--||++. ..++.|
T Consensus 428 k~~r~lcf~~S~~sa~Rl~~~L~v~-----~~~~~~~~s~~t~~l~~k~r~k~l~~f~~----g~i~vLIcS--D~laRG 496 (620)
T KOG0350|consen 428 KLNRTLCFVNSVSSANRLAHVLKVE-----FCSDNFKVSEFTGQLNGKRRYKMLEKFAK----GDINVLICS--DALARG 496 (620)
T ss_pred hcceEEEEecchHHHHHHHHHHHHH-----hccccchhhhhhhhhhHHHHHHHHHHHhc----CCceEEEeh--hhhhcC
Confidence 3469999999999988877766511 00000 001101112334556677664 666788854 789999
Q ss_pred ccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHhhcccccCCCCeEEEEEEeccc
Q 004910 608 IDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRY 684 (724)
Q Consensus 608 iD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~~~~a~~~v~Q~~GR~iR~~~D~g~vvllD~R~ 684 (724)
||+.|- .+||=.-.|. -.+....++||--|-..|=-++-++|++=
T Consensus 497 iDv~~v--~~VINYd~P~------------------------------~~ktyVHR~GRTARAgq~G~a~tll~~~~ 541 (620)
T KOG0350|consen 497 IDVNDV--DNVINYDPPA------------------------------SDKTYVHRAGRTARAGQDGYAITLLDKHE 541 (620)
T ss_pred Cccccc--ceEeecCCCc------------------------------hhhHHHHhhcccccccCCceEEEeecccc
Confidence 999984 3454333331 12334568899999998877788888863
No 381
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.48 E-value=4.3 Score=46.37 Aligned_cols=35 Identities=29% Similarity=0.304 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~~-~iEApTGtGKTla~L~ 54 (724)
+|......+..++.+++ |+ ++.+|.|+|||..+.+
T Consensus 20 Gq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~ 57 (527)
T PRK14969 20 GQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARI 57 (527)
T ss_pred CcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHH
Confidence 88899999999998875 54 8999999999976553
No 382
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=73.46 E-value=3.4 Score=47.28 Aligned_cols=33 Identities=36% Similarity=0.374 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHH
Q 004910 20 EQYSYMLELKRALDAK--GHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~ 52 (724)
+|.+.|..+..++... .++++.+|+|||||.++
T Consensus 69 Gqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lA 103 (531)
T TIGR02902 69 GQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAA 103 (531)
T ss_pred CcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHH
Confidence 7888888888877654 68999999999999754
No 383
>PF12846 AAA_10: AAA-like domain
Probab=73.45 E-value=4.4 Score=42.19 Aligned_cols=37 Identities=27% Similarity=0.451 Sum_probs=24.1
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
+.|.+|-++||+|||.....- +...... +. +++|.=+
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l-~~~~~~~--g~-~~~i~D~ 37 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNL-LEQLIRR--GP-RVVIFDP 37 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHH-HHHHHHc--CC-CEEEEcC
Confidence 368999999999999876633 3333322 34 5666633
No 384
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.38 E-value=4.2 Score=48.60 Aligned_cols=35 Identities=29% Similarity=0.286 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~~-~iEApTGtGKTla~L~ 54 (724)
||..+...+..++.+++ |+ ++.+|.|+|||....+
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARi 57 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARL 57 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHH
Confidence 88999988999998875 55 8999999999976554
No 385
>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=73.25 E-value=5.5 Score=39.10 Aligned_cols=17 Identities=47% Similarity=0.792 Sum_probs=14.5
Q ss_pred CcEEEEcCCCcchHHHH
Q 004910 36 GHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~ 52 (724)
+.++|-+|||+|||-..
T Consensus 2 GlilI~GptGSGKTTll 18 (198)
T cd01131 2 GLVLVTGPTGSGKSTTL 18 (198)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 46889999999999764
No 386
>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=73.01 E-value=13 Score=40.92 Aligned_cols=39 Identities=26% Similarity=0.353 Sum_probs=23.5
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
..+++-+|+|+|||...-. +...+.....+. +|+|.+..
T Consensus 137 n~l~l~G~~G~GKThL~~a-i~~~l~~~~~~~-~v~yi~~~ 175 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHA-IGNEILENNPNA-KVVYVSSE 175 (405)
T ss_pred CeEEEECCCCCcHHHHHHH-HHHHHHHhCCCC-cEEEEEHH
Confidence 3589999999999975432 222222221134 78887653
No 387
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=72.84 E-value=3.3 Score=47.84 Aligned_cols=35 Identities=29% Similarity=0.274 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|.+....+..++.+++ | .++.+|.|+|||....+
T Consensus 20 Gq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~ 57 (576)
T PRK14965 20 GQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARI 57 (576)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998885 4 48999999999987654
No 388
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=72.76 E-value=4.9 Score=45.87 Aligned_cols=35 Identities=29% Similarity=0.259 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|......+..++..++ + .++.+|.|+|||....+
T Consensus 20 Gq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~ 57 (546)
T PRK14957 20 GQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRL 57 (546)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998875 3 67999999999976543
No 389
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=72.59 E-value=16 Score=41.92 Aligned_cols=179 Identities=15% Similarity=0.150 Sum_probs=93.8
Q ss_pred CeEEEecCCCCCccchhhhhC-CCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcc
Q 004910 452 QSVVITSGTLSPIDLYPRLLN-FHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSI 530 (724)
Q Consensus 452 ~s~Il~SaTL~~~~~~~~~lg-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~ 530 (724)
-.+|.|||||.. .-|...+| .+.+ .|+ -...++...|....-.+|++........+...
T Consensus 501 lKliVtSATm~a-~kf~nfFgn~p~f-----------------~Ip--GRTyPV~~~~~k~p~eDYVeaavkq~v~Ihl~ 560 (1042)
T KOG0924|consen 501 LKLIVTSATMDA-QKFSNFFGNCPQF-----------------TIP--GRTYPVEIMYTKTPVEDYVEAAVKQAVQIHLS 560 (1042)
T ss_pred ceEEEeeccccH-HHHHHHhCCCcee-----------------eec--CCccceEEEeccCchHHHHHHHHhhheEeecc
Confidence 479999999955 45666666 2211 111 11223444454444566777666666665554
Q ss_pred c-CCcEEEEecChHHHHHHHHHHhhcccHHHHhcCc-------ceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecC
Q 004910 531 V-PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHK-------LVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARG 602 (724)
Q Consensus 531 ~-~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~-------~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g 602 (724)
. +|.+|||.|--+..+.+...++.. +.++.... +||.|=+ .+.-.+-|... ..+-..+++++
T Consensus 561 ~~~GdilIfmtGqediE~t~~~i~~~--l~ql~~~~~~~L~vlpiYSQLp----~dlQ~kiFq~a-~~~vRK~IvAT--- 630 (1042)
T KOG0924|consen 561 GPPGDILIFMTGQEDIECTCDIIKEK--LEQLDSAPTTDLAVLPIYSQLP----ADLQAKIFQKA-EGGVRKCIVAT--- 630 (1042)
T ss_pred CCCCCEEEecCCCcchhHHHHHHHHH--HHhhhcCCCCceEEEeehhhCc----hhhhhhhcccC-CCCceeEEEec---
Confidence 4 489999999999888887766543 11121111 3333221 12223444432 22334566666
Q ss_pred cccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCcc--cHHHHHHHHHHhhcccccCCCCeE
Q 004910 603 KVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDF--LTFDALRQAAQCVGRVIRSKADYG 675 (724)
Q Consensus 603 ~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~--~~~~a~~~v~Q~~GR~iR~~~D~g 675 (724)
...| -.+.=+..++||=+|.--....+|. -|-+- ..|-.--...|..||.=|+..-.+
T Consensus 631 NIAE-TSLTi~gI~yVID~Gy~K~kvyn~~--------------~G~D~L~~~pIS~AnA~QRaGRAGRt~pG~c 690 (1042)
T KOG0924|consen 631 NIAE-TSLTIPGIRYVIDTGYCKLKVYNPR--------------IGMDALQIVPISQANADQRAGRAGRTGPGTC 690 (1042)
T ss_pred cchh-hceeecceEEEEecCceeeeecccc--------------cccceeEEEechhccchhhccccCCCCCcce
Confidence 4555 3333445777887774321111111 11111 123223356899999988765444
No 390
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=72.59 E-value=5.2 Score=50.20 Aligned_cols=53 Identities=21% Similarity=0.222 Sum_probs=36.4
Q ss_pred HHhCCcEEEEcCCCcchHHHHHHHHHHHHhhC--CCCCceEEEEccchhhHHHHHH
Q 004910 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 32 l~~~~~~~iEApTGtGKTla~L~~al~~~~~~--~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
...++.++|||..|||||.+.-.-.+...... -.-. +|+++|-|+.-..-+-.
T Consensus 13 ~~~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~-~ILvvTFT~aAa~Emk~ 67 (1139)
T COG1074 13 SPPGQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVD-EILVVTFTKAAAAEMKE 67 (1139)
T ss_pred cCCCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChh-HeeeeeccHHHHHHHHH
Confidence 34567999999999999987654444444332 1224 89999999866555433
No 391
>PHA00729 NTP-binding motif containing protein
Probab=72.58 E-value=5.4 Score=39.85 Aligned_cols=28 Identities=21% Similarity=0.305 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhCC--cEEEEcCCCcchHHH
Q 004910 24 YMLELKRALDAKG--HCLLEMPTGTGKTIA 51 (724)
Q Consensus 24 ~~~~v~~~l~~~~--~~~iEApTGtGKTla 51 (724)
++..+.+.+.+++ +++|-+|+|||||..
T Consensus 4 ~~k~~~~~l~~~~f~nIlItG~pGvGKT~L 33 (226)
T PHA00729 4 LAKKIVSAYNNNGFVSAVIFGKQGSGKTTY 33 (226)
T ss_pred HHHHHHHHHhcCCeEEEEEECCCCCCHHHH
Confidence 5667777777764 799999999999963
No 392
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=72.56 E-value=8.1 Score=41.58 Aligned_cols=65 Identities=25% Similarity=0.276 Sum_probs=41.4
Q ss_pred HHHHHHH---HHHHHHHHhCC--cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEE---EccchhhHHHHHHHHHhh
Q 004910 19 PEQYSYM---LELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIY---CTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 19 ~~Q~e~~---~~v~~~l~~~~--~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi---~T~T~~l~~Q~~~el~~l 90 (724)
-+|..++ .-+.++++.+. .+|+=+|+|||||-..- +|+. .. +. .+.- .|.+...+++++++.++.
T Consensus 27 vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~--liA~--~~--~~-~f~~~sAv~~gvkdlr~i~e~a~~~ 99 (436)
T COG2256 27 VGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLAR--LIAG--TT--NA-AFEALSAVTSGVKDLREIIEEARKN 99 (436)
T ss_pred cChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHH--HHHH--hh--CC-ceEEeccccccHHHHHHHHHHHHHH
Confidence 3677777 34566777774 69999999999995322 2322 12 12 3333 355567778888877654
No 393
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=72.42 E-value=4.2 Score=47.82 Aligned_cols=35 Identities=29% Similarity=0.248 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHhC-----------CcEEEEcCCCcchHHHHH
Q 004910 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~-----------~~~~iEApTGtGKTla~L 53 (724)
-+|-+.+.+|.+++... +.+++-+|||+|||-...
T Consensus 494 iGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAk 539 (786)
T COG0542 494 IGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAK 539 (786)
T ss_pred eChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHH
Confidence 47999999999999753 357889999999998544
No 394
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=72.38 E-value=7 Score=40.74 Aligned_cols=46 Identities=24% Similarity=0.243 Sum_probs=30.9
Q ss_pred HHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhh-------CCCCCceEEEEccc
Q 004910 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLS-------KPENPVKLIYCTRT 76 (724)
Q Consensus 30 ~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~-------~~~~~~~vvi~T~T 76 (724)
+.+.++-..++-++.|+|||+..|.-.|+.+.- ..+.+ +|+|.|--
T Consensus 84 ~~fr~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epG-kvlyvslE 136 (402)
T COG3598 84 EFFRKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPG-KVLYVSLE 136 (402)
T ss_pred HHhhcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCC-eEEEEEec
Confidence 345556667777999999998887665554431 23345 78888743
No 395
>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=72.24 E-value=7.8 Score=44.70 Aligned_cols=38 Identities=32% Similarity=0.546 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHH-hCCcEEEEcCCCcchHHHHHHHHHHHH
Q 004910 19 PEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIALLSLITSYV 60 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~-~~~~~~iEApTGtGKTla~L~~al~~~ 60 (724)
|.|.+.+ .+++. .++.+++.+|||+|||-.+ .+++.+.
T Consensus 302 ~~~~~~l---~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~ 340 (564)
T TIGR02538 302 PDQKALF---LEAIHKPQGMVLVTGPTGSGKTVSL-YTALNIL 340 (564)
T ss_pred HHHHHHH---HHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhh
Confidence 4444443 34444 3568899999999999764 4555554
No 396
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=72.16 E-value=3.6 Score=49.12 Aligned_cols=33 Identities=30% Similarity=0.342 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHhC-----------CcEEEEcCCCcchHHHH
Q 004910 20 EQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~-----------~~~~iEApTGtGKTla~ 52 (724)
+|.+.++.+..++... ..+++.+|||||||...
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA 501 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELA 501 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHH
Confidence 7888888888888742 24789999999999643
No 397
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=72.13 E-value=7.8 Score=45.76 Aligned_cols=67 Identities=24% Similarity=0.286 Sum_probs=50.0
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCC--CCCceEEEEccchhhHHHHHHHHHhhh
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~--~~~~~vvi~T~T~~l~~Q~~~el~~l~ 91 (724)
..|.|+++.... .+.++|.|+.|+|||-+...- ++|..... ... +|+..|=|+--...+.+.+..+.
T Consensus 3 Ln~~Q~~av~~~------~gp~lV~AGaGsGKT~vlt~R-ia~li~~~~v~p~-~Il~vTFTnkAA~em~~Rl~~~~ 71 (655)
T COG0210 3 LNPEQREAVLHP------DGPLLVLAGAGSGKTRVLTER-IAYLIAAGGVDPE-QILAITFTNKAAAEMRERLLKLL 71 (655)
T ss_pred CCHHHHHHHhcC------CCCeEEEECCCCCchhhHHHH-HHHHHHcCCcChH-HeeeeechHHHHHHHHHHHHHHh
Confidence 468898877654 689999999999999775443 44544331 123 79999999999888888777765
No 398
>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=72.07 E-value=8.1 Score=35.76 Aligned_cols=38 Identities=29% Similarity=0.351 Sum_probs=23.5
Q ss_pred cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchh
Q 004910 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (724)
Q Consensus 37 ~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~ 78 (724)
+.+|.+|+|+|||.-...-+-..+. .+. +|+|.+....
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~---~~~-~v~~~~~e~~ 38 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIAT---KGG-KVVYVDIEEE 38 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHh---cCC-EEEEEECCcc
Confidence 4688999999999865433322222 245 6766665433
No 399
>PRK13342 recombination factor protein RarA; Reviewed
Probab=72.07 E-value=3 Score=46.15 Aligned_cols=34 Identities=32% Similarity=0.347 Sum_probs=26.7
Q ss_pred HHHHHHHH---HHHHHHhCC--cEEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLE---LKRALDAKG--HCLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~---v~~~l~~~~--~~~iEApTGtGKTla~L 53 (724)
+|.+++.. +...+.++. ++++.+|+|||||...-
T Consensus 16 Gq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~ 54 (413)
T PRK13342 16 GQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLAR 54 (413)
T ss_pred CcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHH
Confidence 67777665 777787764 78999999999997543
No 400
>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=71.96 E-value=4 Score=45.46 Aligned_cols=47 Identities=15% Similarity=0.246 Sum_probs=31.0
Q ss_pred HHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 27 ~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
++...+..|...+|-|+||+|||.-.+--+...+... +. +|+|.|--
T Consensus 187 ~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~--g~-~vl~~SlE 233 (434)
T TIGR00665 187 KLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKE--GK-PVAFFSLE 233 (434)
T ss_pred hhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhC--CC-eEEEEeCc
Confidence 3334455566789999999999987775554444332 45 67666543
No 401
>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=71.91 E-value=3.4 Score=50.22 Aligned_cols=36 Identities=28% Similarity=0.243 Sum_probs=28.9
Q ss_pred CHHHHHHHHHHHHHHHhC-----------CcEEEEcCCCcchHHHHH
Q 004910 18 YPEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~-----------~~~~iEApTGtGKTla~L 53 (724)
-.+|.+.+..|.+++... ..+++.+|||||||..+-
T Consensus 567 v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~ 613 (852)
T TIGR03346 567 VVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAK 613 (852)
T ss_pred cCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHH
Confidence 368999999999998752 248899999999997543
No 402
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.71 E-value=4.9 Score=45.17 Aligned_cols=35 Identities=26% Similarity=0.206 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~---~~~iEApTGtGKTla~L~ 54 (724)
+|..+...+..++..++ ..++.+|.|+|||-.+.+
T Consensus 17 GQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~Ari 54 (491)
T PRK14964 17 GQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARI 54 (491)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHH
Confidence 89999999989998885 488999999999976553
No 403
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.67 E-value=4.9 Score=45.54 Aligned_cols=35 Identities=31% Similarity=0.258 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~~-~iEApTGtGKTla~L~ 54 (724)
+|......+..++.+++ |+ ++.+|+|||||....+
T Consensus 18 Gq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~ 55 (504)
T PRK14963 18 GQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARL 55 (504)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 78888888888888885 44 9999999999987654
No 404
>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=71.66 E-value=3.8 Score=43.36 Aligned_cols=24 Identities=29% Similarity=0.458 Sum_probs=19.9
Q ss_pred HHHHHHhCCcEEEEcCCCcchHHH
Q 004910 28 LKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 28 v~~~l~~~~~~~iEApTGtGKTla 51 (724)
+..++..++++++-+|||+|||-.
T Consensus 137 l~~~v~~~~~ili~G~tGsGKTTl 160 (308)
T TIGR02788 137 LRLAIASRKNIIISGGTGSGKTTF 160 (308)
T ss_pred HHHHhhCCCEEEEECCCCCCHHHH
Confidence 444667789999999999999973
No 405
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=71.54 E-value=9.2 Score=39.67 Aligned_cols=65 Identities=14% Similarity=0.041 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHh----CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHH
Q 004910 22 YSYMLELKRALDA----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 22 ~e~~~~v~~~l~~----~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el 87 (724)
...+++|.+.|.. .+.+.|.++.|+|||-.+.-.+-.......-+. .+++...+.....++.+.+
T Consensus 2 e~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~-v~wv~~~~~~~~~~~~~~i 70 (287)
T PF00931_consen 2 EKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDG-VIWVSLSKNPSLEQLLEQI 70 (287)
T ss_dssp HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTE-EEEEEEES-SCCHHHHHHH
T ss_pred HHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccccccccccc-ccccccccccccccccccc
Confidence 3456688888877 257899999999999865432211111122222 4555555444445555543
No 406
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=71.38 E-value=6 Score=42.87 Aligned_cols=34 Identities=24% Similarity=0.248 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L 53 (724)
+|.+....+.+++.+++ | .++.+|.|+||+..++
T Consensus 23 Gq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~ 59 (365)
T PRK07471 23 GHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAY 59 (365)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHH
Confidence 89999999999999985 4 7899999999997654
No 407
>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=71.18 E-value=4.9 Score=44.57 Aligned_cols=44 Identities=16% Similarity=0.261 Sum_probs=30.2
Q ss_pred HHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 28 LKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 28 v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
+...+..|...+|-|+||+|||.-.|--|...+... +. +|+|.+
T Consensus 187 ~~~G~~~g~liviag~pg~GKT~~al~ia~~~a~~~--g~-~v~~fS 230 (421)
T TIGR03600 187 LTNGLVKGDLIVIGARPSMGKTTLALNIAENVALRE--GK-PVLFFS 230 (421)
T ss_pred HhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhC--CC-cEEEEE
Confidence 333555567789999999999988776555555332 45 676665
No 408
>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=71.10 E-value=5.4 Score=45.94 Aligned_cols=38 Identities=21% Similarity=0.444 Sum_probs=26.2
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
.+|+++-||||+|||.+ +-..+.+.... +. ++||.=++
T Consensus 176 ~~h~li~G~tGsGKs~~-i~~ll~~~~~~--g~-~~ii~D~~ 213 (566)
T TIGR02759 176 TQHILIHGTTGSGKSVA-IRKLLRWIRQR--GD-RAIIYDKG 213 (566)
T ss_pred ccceEEEcCCCCCHHHH-HHHHHHHHHhc--CC-eEEEEECC
Confidence 46999999999999964 34445555443 45 67776554
No 409
>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=71.00 E-value=15 Score=44.95 Aligned_cols=73 Identities=18% Similarity=0.249 Sum_probs=42.8
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhhhhhcccCCCCCCceEEEEecCccc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN 114 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~ 114 (724)
..|++|-||||+|||...-.-+..+.... +. +|+|.=+-.+ ..-+.+-++.+ |..+..+.+...+.
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q~~~~~--~~-~v~IiD~g~s-y~~l~~~~~al----------GG~~~~I~l~~gs~ 540 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQVMAVH--RP-RLFIVEAGNS-FGLLADYAARL----------GLSVNRVSLKPGSG 540 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHHHHHhc--CC-EEEEEcCCCC-HHHHHHHHHhc----------CCceeEEEecCCCC
Confidence 46999999999999976543222322221 35 8998877765 22222222221 33333455555556
Q ss_pred cccchHh
Q 004910 115 LCVNSRV 121 (724)
Q Consensus 115 ~C~~~~~ 121 (724)
.|+|++.
T Consensus 541 ~~lNPf~ 547 (893)
T TIGR03744 541 VSLPPFA 547 (893)
T ss_pred cccCchh
Confidence 8888874
No 410
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=70.81 E-value=11 Score=41.94 Aligned_cols=37 Identities=22% Similarity=0.264 Sum_probs=23.7
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHH-HhhCCCCCceEEEEcc
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSY-VLSKPENPVKLIYCTR 75 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~-~~~~~~~~~~vvi~T~ 75 (724)
..+++-+|+|+|||.-+- ++.. ......+. +|+|.|.
T Consensus 131 n~l~lyG~~G~GKTHLl~--ai~~~l~~~~~~~-~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQ--SIGNYVVQNEPDL-RVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHHH--HHHHHHHHhCCCC-eEEEEEH
Confidence 369999999999997443 3332 22211234 7888875
No 411
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial 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 alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=70.79 E-value=8.5 Score=48.57 Aligned_cols=54 Identities=22% Similarity=0.234 Sum_probs=38.2
Q ss_pred HHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH
Q 004910 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 31 ~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
|.+-.+.++|.|+-|||||....--.+.......... +|++.|-|+.-...+-+
T Consensus 6 A~dp~~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~-~i~~~t~t~~aa~em~~ 59 (1141)
T TIGR02784 6 ASDPKTSAWVSANAGSGKTHVLTQRVIRLLLNGVPPS-KILCLTYTKAAAAEMQN 59 (1141)
T ss_pred hcCCCCCEEEEEECCCCHHHHHHHHHHHHHHcCCCCC-eEEEEecCHHHHHHHHH
Confidence 4556678999999999999886655544443322345 89999999866555443
No 412
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=70.28 E-value=6.1 Score=42.57 Aligned_cols=34 Identities=24% Similarity=0.201 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~---~~~iEApTGtGKTla~L 53 (724)
+|.+....+..++.+++ ..++.+|+|+|||....
T Consensus 27 Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~ 63 (351)
T PRK09112 27 GHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAF 63 (351)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHH
Confidence 78889999999999986 38899999999997544
No 413
>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=70.22 E-value=10 Score=37.27 Aligned_cols=38 Identities=21% Similarity=0.251 Sum_probs=25.0
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
|....|.+|+|+|||.-.+--+...+.. +. +++|.+-.
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~---g~-~v~yi~~e 49 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQ---GK-KVVYIDTE 49 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhC---CC-eEEEEECC
Confidence 4678999999999998776544443322 34 55555543
No 414
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 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 ATPase AAA-2 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 []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=70.01 E-value=4.2 Score=38.94 Aligned_cols=15 Identities=47% Similarity=0.680 Sum_probs=13.2
Q ss_pred CcEEEEcCCCcchHH
Q 004910 36 GHCLLEMPTGTGKTI 50 (724)
Q Consensus 36 ~~~~iEApTGtGKTl 50 (724)
.++++-+|||+|||.
T Consensus 4 ~~~ll~GpsGvGKT~ 18 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTE 18 (171)
T ss_dssp EEEEEESSTTSSHHH
T ss_pred EEEEEECCCCCCHHH
Confidence 368899999999996
No 415
>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=69.88 E-value=7.2 Score=41.95 Aligned_cols=19 Identities=42% Similarity=0.742 Sum_probs=16.2
Q ss_pred hCCcEEEEcCCCcchHHHH
Q 004910 34 AKGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 34 ~~~~~~iEApTGtGKTla~ 52 (724)
.++.++|.+|||+|||-..
T Consensus 121 ~~g~ili~G~tGSGKTT~l 139 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTL 139 (343)
T ss_pred cCcEEEEECCCCCCHHHHH
Confidence 4578999999999999753
No 416
>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=69.80 E-value=6 Score=40.69 Aligned_cols=18 Identities=33% Similarity=0.370 Sum_probs=14.9
Q ss_pred CcEEEEcCCCcchHHHHH
Q 004910 36 GHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L 53 (724)
.++++.+|+|||||...-
T Consensus 43 ~~vll~GppGtGKTtlA~ 60 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVAR 60 (261)
T ss_pred ceEEEEcCCCCCHHHHHH
Confidence 478999999999996543
No 417
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=69.78 E-value=12 Score=48.07 Aligned_cols=65 Identities=12% Similarity=0.142 Sum_probs=43.3
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHH--HHHHHHHHhhCCCCCceEEEEccchhhHHHHH
Q 004910 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL--LSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (724)
Q Consensus 16 ~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~--L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~ 84 (724)
...++|++.+..+... .++..+|.++.|||||... ++.++...... .+. +|+.+.||+.....+-
T Consensus 835 ~Lt~~Qr~Av~~iLts--~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~-~g~-~V~glAPTgkAa~~L~ 901 (1623)
T PRK14712 835 KLTSGQRAATRMILET--SDRFTVVQGYAGVGKTTQFRAVMSAVNMLPES-ERP-RVVGLGPTHRAVGEMR 901 (1623)
T ss_pred ccCHHHHHHHHHHHhC--CCceEEEEeCCCCCHHHHHHHHHHHHHHHhhc-cCc-eEEEEechHHHHHHHH
Confidence 3579999977665422 3479999999999999763 22222211111 234 8999999998776653
No 418
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=69.77 E-value=1.8 Score=50.54 Aligned_cols=42 Identities=19% Similarity=0.148 Sum_probs=31.4
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHH
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q 82 (724)
..|+++-||||+|||.++.+|.+.- . +. .+||.=+.-.+.+.
T Consensus 139 ~~hvlviApTgSGKgvg~VIPnLL~---~--~g-S~VV~DpKGE~~~~ 180 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPTLLT---F--KG-SVIALDVKGELFEL 180 (670)
T ss_pred CceEEEEecCCCCceeeehHhHHhc---C--CC-CEEEEeCCchHHHH
Confidence 3599999999999999999998763 1 23 57777666555443
No 419
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=69.74 E-value=13 Score=42.63 Aligned_cols=29 Identities=21% Similarity=0.291 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 23 SYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 23 e~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
++.+.+..+...+.+++|.++||||||..
T Consensus 207 ~~~~~~~~~a~~~~pvli~Ge~GtGK~~l 235 (534)
T TIGR01817 207 QVVDQARVVARSNSTVLLRGESGTGKELI 235 (534)
T ss_pred HHHHHHHHHhCcCCCEEEECCCCccHHHH
Confidence 33444444445567999999999999984
No 420
>PF02702 KdpD: Osmosensitive K+ channel His kinase sensor domain; InterPro: IPR003852 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the N-terminal domain found in KdpD sensor kinase proteins, which regulate the kdpFABC operon responsible for potassium transport []. The N-terminal domain forms part of the cytoplasmic region of the protein, which may be the sensor domain responsible for sensing turgor pressure [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0016020 membrane; PDB: 2R8R_B.
Probab=69.64 E-value=8.4 Score=37.54 Aligned_cols=50 Identities=24% Similarity=0.280 Sum_probs=32.3
Q ss_pred cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEE---ccchhhHHHHHHHHHhh
Q 004910 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC---TRTVHEMEKTLAELKLL 90 (724)
Q Consensus 37 ~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~---T~T~~l~~Q~~~el~~l 90 (724)
.+++-+..|+|||.++|..|-..... |. -|+|. |+.+....++++.|+.+
T Consensus 7 kIflG~apGVGKTy~ML~ea~~l~~~---G~-DVViG~vethgR~et~~l~~gLe~i 59 (211)
T PF02702_consen 7 KIFLGAAPGVGKTYAMLQEAHRLKEQ---GV-DVVIGYVETHGRPETEALLEGLEVI 59 (211)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHT---T---EEEEE---TT-HHHHHHHCTS-B-
T ss_pred EEEEecCCCCCHHHHHHHHHHHHHHC---CC-CEEEEEecCCCcHHHHHHHcCCCcC
Confidence 47889999999999999887554432 33 55554 55557777777766654
No 421
>PRK10865 protein disaggregation chaperone; Provisional
Probab=69.61 E-value=3.8 Score=49.68 Aligned_cols=35 Identities=29% Similarity=0.269 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHhC-----------CcEEEEcCCCcchHHHHH
Q 004910 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~-----------~~~~iEApTGtGKTla~L 53 (724)
.+|.+.+..|..++... ..+++.+|||||||..+-
T Consensus 571 iGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~ 616 (857)
T PRK10865 571 IGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCK 616 (857)
T ss_pred eCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHH
Confidence 58899999998888642 257899999999998543
No 422
>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=69.53 E-value=9 Score=43.33 Aligned_cols=53 Identities=13% Similarity=0.199 Sum_probs=33.0
Q ss_pred HhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 33 ~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
-.+...+|.+|+|+|||.-.+--+..-+... +. +++|.|-- .-.+++++....
T Consensus 19 p~g~~~Li~G~pGsGKT~la~qfl~~g~~~~--ge-~~lyvs~e-E~~~~l~~~~~~ 71 (484)
T TIGR02655 19 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIHF--DE-PGVFVTFE-ESPQDIIKNARS 71 (484)
T ss_pred CCCeEEEEEcCCCCCHHHHHHHHHHHHHHhC--CC-CEEEEEEe-cCHHHHHHHHHH
Confidence 3456899999999999986654433333321 34 66666643 445666665554
No 423
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=69.31 E-value=5.3 Score=42.67 Aligned_cols=42 Identities=21% Similarity=0.220 Sum_probs=25.7
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
+-+++-+|+|||||+ |.-|++ .. .+ ..++-+..-.+...+-.
T Consensus 246 kgvLm~GPPGTGKTl--LAKAvA--TE---c~-tTFFNVSsstltSKwRG 287 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTL--LAKAVA--TE---CG-TTFFNVSSSTLTSKWRG 287 (491)
T ss_pred ceeeeeCCCCCcHHH--HHHHHH--Hh---hc-CeEEEechhhhhhhhcc
Confidence 348899999999998 333332 22 34 55665555555555433
No 424
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=69.07 E-value=39 Score=40.46 Aligned_cols=62 Identities=27% Similarity=0.291 Sum_probs=40.3
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
|+.|. |-.+. |..|+ +.|..||-||||+..+|+...|.. |+ .|-|+|..--|...=.+....
T Consensus 80 ydVQl--iGglv--Lh~G~--IAEMkTGEGKTLvAtLpayLnAL~---Gk-gVhVVTvNdYLA~RDae~mg~ 141 (925)
T PRK12903 80 YDVQI--IGGII--LDLGS--VAEMKTGEGKTITSIAPVYLNALT---GK-GVIVSTVNEYLAERDAEEMGK 141 (925)
T ss_pred CchHH--HHHHH--HhcCC--eeeecCCCCccHHHHHHHHHHHhc---CC-ceEEEecchhhhhhhHHHHHH
Confidence 45554 44442 44443 699999999999999988665542 56 788888776555443333333
No 425
>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=68.81 E-value=14 Score=48.95 Aligned_cols=63 Identities=14% Similarity=0.127 Sum_probs=44.5
Q ss_pred CCHHHHHHHHHHHHHHHh-CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHH
Q 004910 17 IYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~-~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
..+.|++.+..+ +.+ ++..+|.++.|||||-..= +++..+... +. +|+.++||..-..++-++
T Consensus 430 Ls~~Q~~Av~~i---l~s~~~v~ii~G~aGTGKTt~l~-~l~~~~~~~--G~-~V~~lAPTgrAA~~L~e~ 493 (1960)
T TIGR02760 430 LSPSNKDAVSTL---FTSTKRFIIINGFGGTGSTEIAQ-LLLHLASEQ--GY-EIQIITAGSLSAQELRQK 493 (1960)
T ss_pred CCHHHHHHHHHH---HhCCCCeEEEEECCCCCHHHHHH-HHHHHHHhc--CC-eEEEEeCCHHHHHHHHHH
Confidence 468999866544 444 4799999999999997533 333333332 56 999999998777666554
No 426
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=68.79 E-value=5.3 Score=46.81 Aligned_cols=40 Identities=28% Similarity=0.310 Sum_probs=32.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~ 52 (724)
|||.. =-+|..+...+.-+..+. +.++|++|+|||||...
T Consensus 1 ~pf~~-ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~la 42 (633)
T TIGR02442 1 FPFTA-IVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTAA 42 (633)
T ss_pred CCcch-hcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHHH
Confidence 78986 478999888887777654 46999999999999754
No 427
>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=68.74 E-value=3.6 Score=36.77 Aligned_cols=16 Identities=50% Similarity=0.578 Sum_probs=13.3
Q ss_pred EEEEcCCCcchHHHHH
Q 004910 38 CLLEMPTGTGKTIALL 53 (724)
Q Consensus 38 ~~iEApTGtGKTla~L 53 (724)
+++.+|+|+|||...-
T Consensus 1 ill~G~~G~GKT~l~~ 16 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLAR 16 (132)
T ss_dssp EEEESSTTSSHHHHHH
T ss_pred CEEECcCCCCeeHHHH
Confidence 5789999999998543
No 428
>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=68.46 E-value=6.7 Score=43.33 Aligned_cols=41 Identities=20% Similarity=0.246 Sum_probs=27.6
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhh
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l 79 (724)
.+|++|-||||+|||... ...+.++... +. ++||.=++-..
T Consensus 42 ~~h~~i~g~tGsGKt~~i-~~l~~~~~~~--~~-~~vi~D~kg~~ 82 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQI-RELLASIRAR--GD-RAIIYDPNGGF 82 (410)
T ss_pred hccEEEEcCCCCCHHHHH-HHHHHHHHhc--CC-CEEEEeCCcch
Confidence 368999999999999863 3334444333 34 67777766554
No 429
>PRK13764 ATPase; Provisional
Probab=68.14 E-value=12 Score=43.12 Aligned_cols=41 Identities=24% Similarity=0.307 Sum_probs=26.1
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHH-hCCcEEEEcCCCcchHHH
Q 004910 11 YFPYDNIYPEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 11 ~Fp~~~~r~~Q~e~~~~v~~~l~-~~~~~~iEApTGtGKTla 51 (724)
.-|...+.-.+..+...+.+.+. .++.+++.+|||+|||-.
T Consensus 232 rrp~~~~~Le~l~l~~~l~~~l~~~~~~ILIsG~TGSGKTTl 273 (602)
T PRK13764 232 VRPVVKLSLEDYNLSEKLKERLEERAEGILIAGAPGAGKSTF 273 (602)
T ss_pred EccCCCCCHHHhCCCHHHHHHHHhcCCEEEEECCCCCCHHHH
Confidence 33554444444444444555553 457899999999999964
No 430
>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=68.13 E-value=5.3 Score=41.19 Aligned_cols=31 Identities=39% Similarity=0.689 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHh-CCcEEEEcCCCcchHHHH
Q 004910 19 PEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~-~~~~~iEApTGtGKTla~ 52 (724)
+.|.+.+ .+++.. ++.++|-+|||+|||-..
T Consensus 66 ~~~~~~l---~~~~~~~~GlilisG~tGSGKTT~l 97 (264)
T cd01129 66 PENLEIF---RKLLEKPHGIILVTGPTGSGKTTTL 97 (264)
T ss_pred HHHHHHH---HHHHhcCCCEEEEECCCCCcHHHHH
Confidence 4444443 444443 468999999999999754
No 431
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=68.13 E-value=14 Score=38.96 Aligned_cols=54 Identities=17% Similarity=0.240 Sum_probs=37.6
Q ss_pred CHHHHHHHHHHHHHHHhC--CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 18 YPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~--~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
|+.=.+++..+.++-.++ ...++-++.|+|||.+.+- ++.||..+ + =||+-.|.
T Consensus 4 R~~t~el~~~l~~~~~~~~~~r~vL~G~~GsGKS~~L~q-~~~~A~~~---~-wiVl~vp~ 59 (309)
T PF10236_consen 4 RKPTLELINKLKEADKSSKNNRYVLTGERGSGKSVLLAQ-AVHYAREN---G-WIVLYVPS 59 (309)
T ss_pred chHHHHHHHHHHHhcccCCceEEEEECCCCCCHHHHHHH-HHHHHHhC---C-EEEEEcCC
Confidence 555566777776663333 4699999999999998654 67888765 4 45555554
No 432
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=68.07 E-value=1.7 Score=50.64 Aligned_cols=38 Identities=18% Similarity=0.114 Sum_probs=28.4
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhh
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l 79 (724)
.|+++-||||+|||.++.+|.|.-. +. .+||.=+.-.+
T Consensus 176 ~HvlviapTgSGKgvg~ViPnLL~~-----~~-S~VV~D~KGE~ 213 (636)
T PRK13880 176 EHVLTYAPTRSGKGVGLVVPTLLSW-----GH-SSVITDLKGEL 213 (636)
T ss_pred ceEEEEecCCCCCceEEEccchhhC-----CC-CEEEEeCcHHH
Confidence 6899999999999999999987621 23 55555555444
No 433
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=68.00 E-value=17 Score=35.41 Aligned_cols=37 Identities=22% Similarity=0.275 Sum_probs=27.1
Q ss_pred HhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEE
Q 004910 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (724)
Q Consensus 33 ~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~ 73 (724)
..++.+.+-.|+|.|||-+.+--++..+- .+. +|.+.
T Consensus 20 ~~~g~v~v~~g~GkGKtt~a~g~a~ra~g---~G~-~V~iv 56 (191)
T PRK05986 20 EEKGLLIVHTGNGKGKSTAAFGMALRAVG---HGK-KVGVV 56 (191)
T ss_pred ccCCeEEEECCCCCChHHHHHHHHHHHHH---CCC-eEEEE
Confidence 45679999999999999998876665442 244 66553
No 434
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=67.94 E-value=7.9 Score=40.80 Aligned_cols=53 Identities=25% Similarity=0.217 Sum_probs=35.5
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
..+.|..++++|. +....+--+|-|||||+-.-..|+...... .++=||+|+=
T Consensus 129 kt~~Q~~y~eai~----~~di~fGiGpAGTGKTyLava~av~al~~~---~v~rIiLtRP 181 (348)
T COG1702 129 KTPGQNMYPEAIE----EHDIVFGIGPAGTGKTYLAVAKAVDALGAG---QVRRIILTRP 181 (348)
T ss_pred cChhHHHHHHHHH----hcCeeeeecccccCChhhhHHhHhhhhhhc---ccceeeecCc
Confidence 3689999998775 555666678999999986655555444332 2344666654
No 435
>PRK11823 DNA repair protein RadA; Provisional
Probab=67.80 E-value=9.8 Score=42.51 Aligned_cols=52 Identities=15% Similarity=0.185 Sum_probs=33.1
Q ss_pred HhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 33 ~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
..+...++.+|+|+|||.-.+--+...+. .+. +|+|.+--.+ .+|+.....+
T Consensus 78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~---~g~-~vlYvs~Ees-~~qi~~ra~r 129 (446)
T PRK11823 78 VPGSVVLIGGDPGIGKSTLLLQVAARLAA---AGG-KVLYVSGEES-ASQIKLRAER 129 (446)
T ss_pred cCCEEEEEECCCCCCHHHHHHHHHHHHHh---cCC-eEEEEEcccc-HHHHHHHHHH
Confidence 33567899999999999876655544442 245 8888775433 3455443333
No 436
>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=67.78 E-value=7.1 Score=38.81 Aligned_cols=38 Identities=24% Similarity=0.250 Sum_probs=25.7
Q ss_pred HhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 33 ~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
..+...+|.+|+|+|||.-.+.-+...+. .+. +++|.+
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~~a~~~~~---~g~-~v~yi~ 54 (218)
T cd01394 17 ERGTVTQVYGPPGTGKTNIAIQLAVETAG---QGK-KVAYID 54 (218)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHh---cCC-eEEEEE
Confidence 34567899999999999876654443332 245 676664
No 437
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=67.74 E-value=13 Score=39.78 Aligned_cols=30 Identities=20% Similarity=0.248 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 22 ~e~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
.++...+..+-..+.+++|.+++||||+..
T Consensus 9 ~~~~~~~~~~a~~~~pVLI~GE~GtGK~~l 38 (329)
T TIGR02974 9 LEVLEQVSRLAPLDRPVLIIGERGTGKELI 38 (329)
T ss_pred HHHHHHHHHHhCCCCCEEEECCCCChHHHH
Confidence 345555555666678999999999999984
No 438
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=67.67 E-value=4.6 Score=46.43 Aligned_cols=35 Identities=23% Similarity=0.331 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|......+..++.+++ + .++.+|.|+|||.++.+
T Consensus 20 Gqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~ 57 (563)
T PRK06647 20 GQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARA 57 (563)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998875 3 68999999999987654
No 439
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=67.54 E-value=6.8 Score=46.02 Aligned_cols=35 Identities=31% Similarity=0.290 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|.++...+..++.+++ | +++.+|.|||||....+
T Consensus 20 GQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAri 57 (830)
T PRK07003 20 GQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRI 57 (830)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999999875 4 48999999999976553
No 440
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=67.42 E-value=12 Score=44.40 Aligned_cols=32 Identities=25% Similarity=0.384 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCcchHH
Q 004910 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTl 50 (724)
+.-.++.+.+..+...+.+++|.++||||||+
T Consensus 383 ~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~ 414 (686)
T PRK15429 383 EAMYSVLKQVEMVAQSDSTVLILGETGTGKEL 414 (686)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECCCCcCHHH
Confidence 33444444455555556799999999999997
No 441
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=67.31 E-value=16 Score=42.72 Aligned_cols=43 Identities=28% Similarity=0.349 Sum_probs=29.8
Q ss_pred hccCcEEEEcCccccCHHHHhHhhhcCCCCcEEEEeCCCCchHHhhhhc
Q 004910 199 VQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEAL 247 (724)
Q Consensus 199 ~~~adivv~n~~~ll~~~~~~~~~~~l~~~~~lIiDEAHnL~~~~~~~~ 247 (724)
...-|||+|+|+.+-...... ...-.+|+||||++-..=+..+
T Consensus 232 l~~~dVVltTy~il~~~~l~~------i~w~Riildea~~ikn~~tq~~ 274 (674)
T KOG1001|consen 232 LNSYDVVLTTYDILKNSPLVK------IKWLRIVLDEAHTIKNKDTQIF 274 (674)
T ss_pred hcCCceEEeeHHHhhcccccc------eeEEEEEeccccccCCcchHhh
Confidence 345679999999876422111 3566899999999987765544
No 442
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=67.19 E-value=20 Score=40.90 Aligned_cols=185 Identities=11% Similarity=0.160 Sum_probs=95.6
Q ss_pred cCeEEEecCCCCCccchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhcc
Q 004910 451 FQSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSI 530 (724)
Q Consensus 451 ~~s~Il~SaTL~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~~ 530 (724)
-=.++++||||.-. -|...++=- |+ +.+| ....++..-|....+.+|++.....|..|.-.
T Consensus 410 dLKllIsSAT~DAe-kFS~fFDda-------pI---------F~iP--GRRyPVdi~Yt~~PEAdYldAai~tVlqIH~t 470 (902)
T KOG0923|consen 410 DLKLLISSATMDAE-KFSAFFDDA-------PI---------FRIP--GRRYPVDIFYTKAPEADYLDAAIVTVLQIHLT 470 (902)
T ss_pred cceEEeeccccCHH-HHHHhccCC-------cE---------Eecc--CcccceeeecccCCchhHHHHHHhhheeeEec
Confidence 34799999999653 333333211 11 1111 11123444455445567777666666666554
Q ss_pred c-CCcEEEEecChHHHHHHHHHHhhcccHHHHhc-CcceEEeC--CCchhHHHHHHHHHHhccCCCCeEEEEeecCcccc
Q 004910 531 V-PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQ-HKLVFIET--QDVVETTLALDNYRKACDCGRGAVFFSVARGKVAE 606 (724)
Q Consensus 531 ~-~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~-~~~i~~e~--~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~E 606 (724)
. .|-+|||++--+..+.+.+.+.+.. ..+.. .+.+.+=+ .+. +.+.-..-|.-. ..|-..|.+|+ ...|
T Consensus 471 qp~GDILVFltGQeEIEt~~e~l~~~~--~~LGski~eliv~PiYaNL-PselQakIFePt-P~gaRKVVLAT---NIAE 543 (902)
T KOG0923|consen 471 QPLGDILVFLTGQEEIETVKENLKERC--RRLGSKIRELIVLPIYANL-PSELQAKIFEPT-PPGARKVVLAT---NIAE 543 (902)
T ss_pred cCCccEEEEeccHHHHHHHHHHHHHHH--HHhccccceEEEeeccccC-ChHHHHhhcCCC-CCCceeEEEee---cchh
Confidence 4 4789999999999999888776531 11211 11122211 111 111112222221 22335688887 5776
Q ss_pred cccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCc-c-cHHHHHHHHHHhhcccccCCCCeEE
Q 004910 607 GIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGD-F-LTFDALRQAAQCVGRVIRSKADYGM 676 (724)
Q Consensus 607 GiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~-~-~~~~a~~~v~Q~~GR~iR~~~D~g~ 676 (724)
+.+-|.|+-|-. ||=......|..+ .|.+ + ..|-.--.++|..||.=|+.--.|.
T Consensus 544 ---------TSlTIdgI~yVi--DpGf~K~nsynpr----tGmesL~v~piSKAsA~QRaGRAGRtgPGKCf 600 (902)
T KOG0923|consen 544 ---------TSLTIDGIKYVI--DPGFVKQNSYNPR----TGMESLLVTPISKASANQRAGRAGRTGPGKCF 600 (902)
T ss_pred ---------hceeecCeEEEe--cCccccccCcCCC----cCceeEEEeeechhhhhhhccccCCCCCCceE
Confidence 667777777753 4432221122111 1222 2 2343444578999999887765553
No 443
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=67.16 E-value=3.8 Score=42.97 Aligned_cols=42 Identities=19% Similarity=0.223 Sum_probs=26.7
Q ss_pred hCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 34 ~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
.++.++|-+|||+|||-..+ ..|+.. + .||+.-+ .|+.+++.
T Consensus 3 ~~~ii~I~GpTasGKS~LAl----~LA~~~--~---eIIsaDS----~QvYr~ld 44 (300)
T PRK14729 3 ENKIVFIFGPTAVGKSNILF----HFPKGK--A---EIINVDS----IQVYKEFD 44 (300)
T ss_pred CCcEEEEECCCccCHHHHHH----HHHHhC--C---cEEeccH----HHHHCCCc
Confidence 34678999999999998543 444442 2 4666543 46665433
No 444
>CHL00095 clpC Clp protease ATP binding subunit
Probab=67.10 E-value=6.1 Score=47.89 Aligned_cols=34 Identities=26% Similarity=0.304 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHhC--------C---cEEEEcCCCcchHHHH
Q 004910 19 PEQYSYMLELKRALDAK--------G---HCLLEMPTGTGKTIAL 52 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~--------~---~~~iEApTGtGKTla~ 52 (724)
.+|.+.+..|.+++... + ..++.+|||+|||...
T Consensus 512 ~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA 556 (821)
T CHL00095 512 IGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELT 556 (821)
T ss_pred cChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHH
Confidence 58999999999998642 1 3689999999999643
No 445
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=67.05 E-value=5.4 Score=47.72 Aligned_cols=98 Identities=12% Similarity=0.158 Sum_probs=0.0
Q ss_pred eEEEecCCCCCccchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecc----------------cCCCChHH
Q 004910 453 SVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKF----------------DMRSDPGV 516 (724)
Q Consensus 453 s~Il~SaTL~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f----------------~~~~~~~~ 516 (724)
.+||||||+. .+.|.+-+|..+.....-....-....+-=++..-.....-.+++ .+.-+.+.
T Consensus 321 kvILMSAT~d-ae~fs~YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~id~~L 399 (924)
T KOG0920|consen 321 KVILMSATLD-AELFSDYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRLARLKLWEPEIDYDL 399 (924)
T ss_pred eEEEeeeecc-hHHHHHHhCCCceEeecCCCcchHHHHHHHHHHHhcccccccccccccccCccccccchhccccccHHH
Q ss_pred HHHHHHHHHHHhcccCCcEEEEecChHHHHHHHHHHh
Q 004910 517 ARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWN 553 (724)
Q Consensus 517 ~~~~~~~i~~~~~~~~g~~Lvlf~Sy~~l~~v~~~~~ 553 (724)
+..+...|.+- ..+|.+|||.|.|..+.++++.+.
T Consensus 400 i~~li~~I~~~--~~~GaILVFLPG~~eI~~~~~~L~ 434 (924)
T KOG0920|consen 400 IEDLIEYIDER--EFEGAILVFLPGWEEILQLKELLE 434 (924)
T ss_pred HHHHHHhcccC--CCCceEEEEcCCHHHHHHHHHHhh
No 446
>PRK08760 replicative DNA helicase; Provisional
Probab=66.92 E-value=6.5 Score=44.31 Aligned_cols=42 Identities=14% Similarity=0.170 Sum_probs=29.1
Q ss_pred HHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 30 ~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
..|..|...+|-|+||+|||.-.|--|...+... +. +|+|.+
T Consensus 224 ~G~~~G~LivIaarPg~GKTafal~iA~~~a~~~--g~-~V~~fS 265 (476)
T PRK08760 224 AGLQPTDLIILAARPAMGKTTFALNIAEYAAIKS--KK-GVAVFS 265 (476)
T ss_pred cCCCCCceEEEEeCCCCChhHHHHHHHHHHHHhc--CC-ceEEEe
Confidence 3455566789999999999988876555544332 45 676664
No 447
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=66.86 E-value=7.6 Score=30.21 Aligned_cols=26 Identities=31% Similarity=0.346 Sum_probs=19.2
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhh
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLS 62 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~ 62 (724)
+...+|-+|+|+|||- |+=|+.|+..
T Consensus 23 g~~tli~G~nGsGKST--llDAi~~~L~ 48 (62)
T PF13555_consen 23 GDVTLITGPNGSGKST--LLDAIQTVLY 48 (62)
T ss_pred CcEEEEECCCCCCHHH--HHHHHHHHHc
Confidence 3479999999999997 4455665543
No 448
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=66.65 E-value=2.1 Score=49.96 Aligned_cols=47 Identities=19% Similarity=0.125 Sum_probs=32.1
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
..|+++-||||+|||.++.+|.|.-. .. .+||.=+.-.+. ++....+
T Consensus 144 ~~hvLviApTrSGKgvg~VIPnLL~~-----~~-S~VV~D~KGEl~-~~Ta~~R 190 (663)
T PRK13876 144 PEHVLCFAPTRSGKGVGLVVPTLLTW-----PG-SAIVHDIKGENW-QLTAGFR 190 (663)
T ss_pred CceEEEEecCCCCcceeEehhhHHhC-----CC-CEEEEeCcchHH-HHHHHHH
Confidence 47999999999999999999987632 23 455555554443 3344333
No 449
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=66.64 E-value=9.7 Score=43.43 Aligned_cols=50 Identities=14% Similarity=0.126 Sum_probs=31.9
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
+...+|.+|+|+|||.-.+--+...+. .+. +++|.|-..+ .+|+.+.+..
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~---~g~-~~~yis~e~~-~~~i~~~~~~ 322 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACR---RGE-RCLLFAFEES-RAQLIRNARS 322 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHh---CCC-cEEEEEecCC-HHHHHHHHHH
Confidence 457889999999999865543333332 245 7777765443 5566665544
No 450
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=66.61 E-value=14 Score=42.59 Aligned_cols=39 Identities=21% Similarity=0.244 Sum_probs=23.9
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
..++|-+|+|+|||.-. .++..++.....+. +|+|.+..
T Consensus 315 NpL~LyG~sGsGKTHLL-~AIa~~a~~~~~g~-~V~Yitae 353 (617)
T PRK14086 315 NPLFIYGESGLGKTHLL-HAIGHYARRLYPGT-RVRYVSSE 353 (617)
T ss_pred CcEEEECCCCCCHHHHH-HHHHHHHHHhCCCC-eEEEeeHH
Confidence 35899999999999732 22222332222244 78887753
No 451
>PRK05748 replicative DNA helicase; Provisional
Probab=66.58 E-value=6.1 Score=44.25 Aligned_cols=41 Identities=12% Similarity=0.199 Sum_probs=28.1
Q ss_pred HHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 31 ~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
.|..|...+|-|+||+|||.-.|--+...+... +. +|+|.|
T Consensus 199 G~~~G~livIaarpg~GKT~~al~ia~~~a~~~--g~-~v~~fS 239 (448)
T PRK05748 199 GLQPNDLIIVAARPSVGKTAFALNIAQNVATKT--DK-NVAIFS 239 (448)
T ss_pred CCCCCceEEEEeCCCCCchHHHHHHHHHHHHhC--CC-eEEEEe
Confidence 445556789999999999987775544444322 45 776665
No 452
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=66.53 E-value=11 Score=42.11 Aligned_cols=48 Identities=29% Similarity=0.371 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHhC-----------CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 22 YSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 22 ~e~~~~v~~~l~~~-----------~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
++=.++|.+.|++. +-+++.+|+|||||+ |.-|++ .+.+++.++++..
T Consensus 313 K~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTl--LARAvA-----GEA~VPFF~~sGS 371 (752)
T KOG0734|consen 313 KQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTL--LARAVA-----GEAGVPFFYASGS 371 (752)
T ss_pred HHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhH--HHHHhh-----cccCCCeEecccc
Confidence 44567788888763 358999999999998 444443 2223477777654
No 453
>PF05729 NACHT: NACHT domain
Probab=66.39 E-value=9.4 Score=35.53 Aligned_cols=25 Identities=20% Similarity=0.227 Sum_probs=17.5
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHH
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYV 60 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~ 60 (724)
+.++|.+++|+|||...-.-+-.|+
T Consensus 1 r~l~I~G~~G~GKStll~~~~~~~~ 25 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRKLAQQLA 25 (166)
T ss_pred CEEEEECCCCCChHHHHHHHHHHHH
Confidence 3578999999999985543333343
No 454
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=66.36 E-value=9 Score=40.71 Aligned_cols=38 Identities=18% Similarity=0.311 Sum_probs=31.4
Q ss_pred CCHHHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 17 IYPEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
.||.|...-..+..++.+++ | .++++|.|+||+..+..
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~ 43 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRA 43 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHH
Confidence 47889999999999999885 4 45899999999976553
No 455
>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=66.17 E-value=13 Score=38.40 Aligned_cols=35 Identities=17% Similarity=0.235 Sum_probs=22.1
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
+.+++-+|+|+|||-...--|..++. .++ +|.+.+
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~---~g~-~V~li~ 107 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKK---QGK-SVLLAA 107 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHh---cCC-EEEEEe
Confidence 34666799999999765554444432 245 665554
No 456
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=66.12 E-value=14 Score=39.17 Aligned_cols=35 Identities=23% Similarity=0.268 Sum_probs=21.6
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
..+.+-+|+|+|||-....-|..+. +.++ +|.+.+
T Consensus 115 ~vi~lvGpnGsGKTTt~~kLA~~l~---~~g~-~V~Li~ 149 (318)
T PRK10416 115 FVILVVGVNGVGKTTTIGKLAHKYK---AQGK-KVLLAA 149 (318)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHH---hcCC-eEEEEe
Confidence 4677889999999975443332222 2245 676554
No 457
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=66.11 E-value=7.7 Score=45.12 Aligned_cols=35 Identities=29% Similarity=0.224 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhCCc---EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKGH---CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~~---~~iEApTGtGKTla~L~ 54 (724)
+|......+..++.+++. .++.+|.|+|||....+
T Consensus 20 GQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~ 57 (647)
T PRK07994 20 GQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARL 57 (647)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 899999999999998863 58999999999976543
No 458
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=65.88 E-value=7.8 Score=45.18 Aligned_cols=35 Identities=34% Similarity=0.328 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|..+...+..++.+++ + +++.+|.|+|||....+
T Consensus 20 GQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAri 57 (709)
T PRK08691 20 GQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARI 57 (709)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHH
Confidence 89999999999999886 3 59999999999976553
No 459
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=65.82 E-value=5.9 Score=47.36 Aligned_cols=52 Identities=25% Similarity=0.274 Sum_probs=39.5
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.+.++-||||.|||++|=.+... +.....+. ||+|.+|-+++.+--+++..+
T Consensus 944 ~~~~~g~ptgsgkt~~ae~a~~~-~~~~~p~~-kvvyIap~kalvker~~Dw~~ 995 (1230)
T KOG0952|consen 944 LNFLLGAPTGSGKTVVAELAIFR-ALSYYPGS-KVVYIAPDKALVKERSDDWSK 995 (1230)
T ss_pred hhhhhcCCccCcchhHHHHHHHH-HhccCCCc-cEEEEcCCchhhcccccchhh
Confidence 45788999999999998776443 33333345 899999999998877776554
No 460
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=65.63 E-value=5.5 Score=41.78 Aligned_cols=32 Identities=31% Similarity=0.275 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHhC----------------CcEEEEcCCCcchHHH
Q 004910 20 EQYSYMLELKRALDAK----------------GHCLLEMPTGTGKTIA 51 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~----------------~~~~iEApTGtGKTla 51 (724)
+|.+.=.+|+=||.+. ++++.-+|||+|||-.
T Consensus 19 GQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEI 66 (444)
T COG1220 19 GQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEI 66 (444)
T ss_pred CcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHH
Confidence 5666666676666652 6899999999999964
No 461
>PRK05595 replicative DNA helicase; Provisional
Probab=65.59 E-value=7.2 Score=43.62 Aligned_cols=47 Identities=13% Similarity=0.096 Sum_probs=31.0
Q ss_pred HHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 26 LELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 26 ~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
..+...+..|..++|-|+||.|||.-.+--|...+... +. +|+|.+-
T Consensus 192 d~~~~G~~~g~liviaarpg~GKT~~al~ia~~~a~~~--g~-~vl~fSl 238 (444)
T PRK05595 192 DAKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALRE--GK-SVAIFSL 238 (444)
T ss_pred HHhcCCCCCCcEEEEEecCCCChHHHHHHHHHHHHHHc--CC-cEEEEec
Confidence 33444555667789999999999987775554444332 45 7766643
No 462
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=65.53 E-value=20 Score=38.53 Aligned_cols=42 Identities=14% Similarity=0.115 Sum_probs=25.1
Q ss_pred eeCCCCC-CCHHHHHHHHHHHHHHHh--------CCcEEEEcCCCcchHHH
Q 004910 10 VYFPYDN-IYPEQYSYMLELKRALDA--------KGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 10 ~~Fp~~~-~r~~Q~e~~~~v~~~l~~--------~~~~~iEApTGtGKTla 51 (724)
..|||-. ---+|.+.+.++.+.+.. ++.+++.+|+|+|||..
T Consensus 44 ~~y~~F~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStl 94 (361)
T smart00763 44 KRYRFFDHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSL 94 (361)
T ss_pred eeccccchhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHH
Confidence 4455543 112344444444444432 36789999999999964
No 463
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=65.51 E-value=31 Score=34.93 Aligned_cols=55 Identities=22% Similarity=0.303 Sum_probs=37.5
Q ss_pred CHHHHHHHHHHHHHHHhC---CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccc
Q 004910 18 YPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (724)
Q Consensus 18 r~~Q~e~~~~v~~~l~~~---~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T 76 (724)
+..|++.+.+-..+|-+| .++++-++-|||||-..-...-.|+ .. ++|+|-..+.
T Consensus 32 ie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~---~~-GLRlIev~k~ 89 (249)
T PF05673_consen 32 IERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYA---DQ-GLRLIEVSKE 89 (249)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHh---hc-CceEEEECHH
Confidence 456777777767777666 5899999999999876544333333 22 3588877654
No 464
>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=65.39 E-value=18 Score=38.90 Aligned_cols=34 Identities=21% Similarity=0.174 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHhC----CcEEEEcCCCcchHHHH
Q 004910 19 PEQYSYMLELKRALDAK----GHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~----~~~~iEApTGtGKTla~ 52 (724)
...++.+--|.+.++++ +.+++-+|+|||||.-.
T Consensus 30 ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA 67 (398)
T PF06068_consen 30 EKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALA 67 (398)
T ss_dssp HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHH
T ss_pred HHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHH
Confidence 34567777788888776 46899999999999743
No 465
>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=65.32 E-value=10 Score=36.15 Aligned_cols=34 Identities=24% Similarity=0.181 Sum_probs=21.8
Q ss_pred cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 37 ~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
..++.+|+|+|||.....-+..++.. +. +|++..
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~---g~-~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKK---GK-KVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHC---CC-cEEEEE
Confidence 46789999999998765444443322 34 665443
No 466
>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=65.21 E-value=7.8 Score=41.71 Aligned_cols=35 Identities=31% Similarity=0.293 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHhCC---cEEEEcCCCcchHHHHH
Q 004910 19 PEQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALL 53 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~---~~~iEApTGtGKTla~L 53 (724)
-+|.+..+.+..++.+++ ..++.+|+|+|||....
T Consensus 17 ig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~ 54 (355)
T TIGR02397 17 IGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIAR 54 (355)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 488899999999998875 36889999999997644
No 467
>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=65.14 E-value=6.8 Score=42.00 Aligned_cols=26 Identities=31% Similarity=0.308 Sum_probs=20.2
Q ss_pred HHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 26 LELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 26 ~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
.-+..++..++++++.+|||+|||-.
T Consensus 169 ~~L~~~v~~~~~ili~G~tGsGKTTl 194 (340)
T TIGR03819 169 RLLRAIVAARLAFLISGGTGSGKTTL 194 (340)
T ss_pred HHHHHHHhCCCeEEEECCCCCCHHHH
Confidence 33444566778999999999999863
No 468
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=64.75 E-value=4.7 Score=45.76 Aligned_cols=24 Identities=33% Similarity=0.432 Sum_probs=20.4
Q ss_pred HHHHHHHhCCcEEEEcCCCcchHH
Q 004910 27 ELKRALDAKGHCLLEMPTGTGKTI 50 (724)
Q Consensus 27 ~v~~~l~~~~~~~iEApTGtGKTl 50 (724)
++..++.+.+.++|++.||+|||-
T Consensus 272 ell~av~e~QVLiI~GeTGSGKTT 295 (902)
T KOG0923|consen 272 ELLKAVKEHQVLIIVGETGSGKTT 295 (902)
T ss_pred HHHHHHHhCcEEEEEcCCCCCccc
Confidence 455666788999999999999995
No 469
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=64.50 E-value=10 Score=40.22 Aligned_cols=47 Identities=26% Similarity=0.259 Sum_probs=28.2
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHhh
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~l 90 (724)
+-+++-+|+|||||+ |.-|++ +..+. .+|=+.--.+.+..+-|=.++
T Consensus 186 KGVLLYGPPGTGKTL--LAkAVA----~~T~A--tFIrvvgSElVqKYiGEGaRl 232 (406)
T COG1222 186 KGVLLYGPPGTGKTL--LAKAVA----NQTDA--TFIRVVGSELVQKYIGEGARL 232 (406)
T ss_pred CceEeeCCCCCcHHH--HHHHHH----hccCc--eEEEeccHHHHHHHhccchHH
Confidence 558999999999998 333443 22222 344444446666666653333
No 470
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=64.49 E-value=6.3 Score=44.80 Aligned_cols=35 Identities=34% Similarity=0.291 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~~-~iEApTGtGKTla~L~ 54 (724)
+|......+..++.+++ |+ ++.+|.|+|||-++.+
T Consensus 18 Gqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~ 55 (535)
T PRK08451 18 GQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARI 55 (535)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHH
Confidence 89999999999998885 33 8999999999987653
No 471
>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=64.47 E-value=16 Score=48.57 Aligned_cols=63 Identities=14% Similarity=0.071 Sum_probs=42.5
Q ss_pred CCHHHHHHHHHHHHHHHh-CCcEEEEcCCCcchHHHH--HHHHHHHHhhCCCCCceEEEEccchhhHHHHH
Q 004910 17 IYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIAL--LSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~-~~~~~iEApTGtGKTla~--L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~ 84 (724)
..++|++.+..| +.+ ++.++|.++.|||||... ++.++.-+... .+. +|+.+.||+.-...+-
T Consensus 1020 Lt~~Q~~Ai~~i---l~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~-~g~-~v~glApT~~Aa~~L~ 1085 (1960)
T TIGR02760 1020 LTHGQKQAIHLI---ISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFES-EQL-QVIGLAPTHEAVGELK 1085 (1960)
T ss_pred CCHHHHHHHHHH---HhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHh-cCC-eEEEEeChHHHHHHHH
Confidence 579999976665 433 468899999999999765 11222222111 244 8999999988776663
No 472
>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=64.33 E-value=8.4 Score=39.39 Aligned_cols=33 Identities=30% Similarity=0.549 Sum_probs=26.5
Q ss_pred CHHHHHHHHHHHH-HHHhCCcEEEEcCCCcchHH
Q 004910 18 YPEQYSYMLELKR-ALDAKGHCLLEMPTGTGKTI 50 (724)
Q Consensus 18 r~~Q~e~~~~v~~-~l~~~~~~~iEApTGtGKTl 50 (724)
-|.=..|++.|.. ++.+...+++.+|||.|||+
T Consensus 190 np~fnrmieqierva~rsr~p~ll~gptgagksf 223 (531)
T COG4650 190 NPHFNRMIEQIERVAIRSRAPILLNGPTGAGKSF 223 (531)
T ss_pred ChHHHHHHHHHHHHHhhccCCeEeecCCCcchhH
Confidence 4666678888877 45556799999999999997
No 473
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=64.31 E-value=21 Score=39.45 Aligned_cols=87 Identities=21% Similarity=0.328 Sum_probs=60.6
Q ss_pred HHHHHHHHHhcc-cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEe-CCCchhHHHHHHHHHHhccCCCCeEE
Q 004910 519 NYGKLLVEMVSI-VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIE-TQDVVETTLALDNYRKACDCGRGAVF 596 (724)
Q Consensus 519 ~~~~~i~~~~~~-~~g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e-~~~~~~~~~~~~~f~~~~~~~~~~vL 596 (724)
.+-..+..+.+. ..|.+|+|.+-....+.+...|+-.++ ...+.. ..+..++.+.+.+||+ +...||
T Consensus 454 Kl~wl~~~L~~f~S~gkvlifVTKk~~~e~i~a~Lklk~~-------~v~llhgdkdqa~rn~~ls~fKk----k~~~Vl 522 (731)
T KOG0339|consen 454 KLNWLLRHLVEFSSEGKVLIFVTKKADAEEIAANLKLKGF-------NVSLLHGDKDQAERNEVLSKFKK----KRKPVL 522 (731)
T ss_pred HHHHHHHHhhhhccCCcEEEEEeccCCHHHHHHHhccccc-------eeeeecCchhhHHHHHHHHHHhh----cCCceE
Confidence 444445555554 468999999999999999988875432 222222 2334567888999997 466799
Q ss_pred EEeecCcccccccCCCCCceEEEE
Q 004910 597 FSVARGKVAEGIDFDRHYGRLVIM 620 (724)
Q Consensus 597 ~~v~~g~~~EGiD~~~~~~r~vii 620 (724)
+++ .-...|.|++ .++.||-
T Consensus 523 vat--DvaargldI~--~ikTVvn 542 (731)
T KOG0339|consen 523 VAT--DVAARGLDIP--SIKTVVN 542 (731)
T ss_pred EEe--eHhhcCCCcc--ccceeec
Confidence 887 4678999999 5677764
No 474
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.31 E-value=8.9 Score=43.28 Aligned_cols=35 Identities=31% Similarity=0.320 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|..++..+..++.+++ | .++.+|.|+|||....+
T Consensus 20 Gq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~ 57 (486)
T PRK14953 20 GQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARI 57 (486)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999999875 4 47899999999876553
No 475
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=64.02 E-value=9.9 Score=41.65 Aligned_cols=35 Identities=31% Similarity=0.434 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHhCC-----------c-EEEEcCCCcchHHHHH
Q 004910 19 PEQYSYMLELKRALDAKG-----------H-CLLEMPTGTGKTIALL 53 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~~-----------~-~~iEApTGtGKTla~L 53 (724)
-+|......+..++..++ | .++.+|.|+|||....
T Consensus 8 iGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~ 54 (394)
T PRK07940 8 VGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAAR 54 (394)
T ss_pred cChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHH
Confidence 378888888899988764 3 7799999999997654
No 476
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=63.99 E-value=9.5 Score=42.66 Aligned_cols=35 Identities=34% Similarity=0.273 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCcchHHHHHH
Q 004910 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~--~-~~iEApTGtGKTla~L~ 54 (724)
+|..++..+..++..++ + .++.+|+|+|||..+.+
T Consensus 21 Gq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~ 58 (451)
T PRK06305 21 GQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARI 58 (451)
T ss_pred CcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHH
Confidence 89999999999998874 3 68999999999987653
No 477
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=63.94 E-value=17 Score=41.18 Aligned_cols=22 Identities=41% Similarity=0.563 Sum_probs=17.2
Q ss_pred HHhCCcEEEEcCCCcchHHHHH
Q 004910 32 LDAKGHCLLEMPTGTGKTIALL 53 (724)
Q Consensus 32 l~~~~~~~iEApTGtGKTla~L 53 (724)
+..++.+++-+|||+|||-..-
T Consensus 347 l~~G~vIaLVGPtGvGKTTtaa 368 (559)
T PRK12727 347 LERGGVIALVGPTGAGKTTTIA 368 (559)
T ss_pred ccCCCEEEEECCCCCCHHHHHH
Confidence 3456788889999999997543
No 478
>PRK05580 primosome assembly protein PriA; Validated
Probab=63.89 E-value=30 Score=40.96 Aligned_cols=77 Identities=21% Similarity=0.345 Sum_probs=52.5
Q ss_pred hHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEEccCCCCCccHHHHHHHHHHHHhcCCCCCccc-HH
Q 004910 576 ETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFL-TF 654 (724)
Q Consensus 576 ~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~~~~~l~~~~~~~~~~~~-~~ 654 (724)
+.+.++++|++ ++-.||+|+. -...|+|||+ ..+|+|.....+- .- .+|- ..
T Consensus 468 ~~~~~l~~f~~----g~~~ILVgT~--~iakG~d~p~--v~lV~il~aD~~l-~~------------------pdfra~E 520 (679)
T PRK05580 468 ALEQLLAQFAR----GEADILIGTQ--MLAKGHDFPN--VTLVGVLDADLGL-FS------------------PDFRASE 520 (679)
T ss_pred hHHHHHHHHhc----CCCCEEEECh--hhccCCCCCC--cCEEEEEcCchhc-cC------------------CccchHH
Confidence 45677888875 6778999985 5999999997 4567777655432 11 1221 12
Q ss_pred HHHHHHHHhhcccccCCCCeEEEEEE
Q 004910 655 DALRQAAQCVGRVIRSKADYGMMIFA 680 (724)
Q Consensus 655 ~a~~~v~Q~~GR~iR~~~D~g~vvll 680 (724)
.++..+.|.+||.=|.. ..|.++|.
T Consensus 521 r~~~~l~q~~GRagR~~-~~g~viiq 545 (679)
T PRK05580 521 RTFQLLTQVAGRAGRAE-KPGEVLIQ 545 (679)
T ss_pred HHHHHHHHHHhhccCCC-CCCEEEEE
Confidence 46788899999988854 44766654
No 479
>PRK09165 replicative DNA helicase; Provisional
Probab=63.81 E-value=7.8 Score=43.96 Aligned_cols=31 Identities=16% Similarity=0.109 Sum_probs=22.8
Q ss_pred HHHhCCcEEEEcCCCcchHHHHHHHHHHHHh
Q 004910 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVL 61 (724)
Q Consensus 31 ~l~~~~~~~iEApTGtGKTla~L~~al~~~~ 61 (724)
.|..|...+|-|+||+|||.-.|--|...+.
T Consensus 213 G~~~g~livIaarpg~GKT~~al~ia~~~a~ 243 (497)
T PRK09165 213 GLHPSDLIILAGRPSMGKTALATNIAFNAAK 243 (497)
T ss_pred CCCCCceEEEEeCCCCChHHHHHHHHHHHHH
Confidence 3444566899999999999877765555553
No 480
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=63.70 E-value=1.2e+02 Score=37.15 Aligned_cols=141 Identities=17% Similarity=0.153 Sum_probs=85.6
Q ss_pred CeEEEecCCCCCc--cchhhhhCCCCccccccceeecCCceeeEEeecCCCCcceeecccCCCChHHHHHHHHHHHHHhc
Q 004910 452 QSVVITSGTLSPI--DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVS 529 (724)
Q Consensus 452 ~s~Il~SaTL~~~--~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~s~f~~~~~~~~~~~~~~~i~~~~~ 529 (724)
..+|-+.||.++. ....+.||+.... .+...+.+.|+..-|.++.. .+ ..-..+..+-.
T Consensus 421 vP~iALTATAT~~v~~DIi~~L~l~~~~--~~~~sfnR~NL~yeV~~k~~------------~~-----~~~~~~~~~~~ 481 (941)
T KOG0351|consen 421 VPFIALTATATERVREDVIRSLGLRNPE--LFKSSFNRPNLKYEVSPKTD------------KD-----ALLDILEESKL 481 (941)
T ss_pred CCeEEeehhccHHHHHHHHHHhCCCCcc--eecccCCCCCceEEEEeccC------------cc-----chHHHHHHhhh
Confidence 5799999999765 5788899987643 33445556665544433311 01 11111122222
Q ss_pred ccC-CcEEEEecChHHHHHHHHHHhhcccHHHHhcCcceEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004910 530 IVP-DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (724)
Q Consensus 530 ~~~-g~~Lvlf~Sy~~l~~v~~~~~~~~~~~~~~~~~~i~~e~~~~~~~~~~~~~f~~~~~~~~~~vL~~v~~g~~~EGi 608 (724)
..+ +-.+|++.|....+++...++..+.-.. -|.-+-....+..+-..|.. ++--|.+|+. .|.=||
T Consensus 482 ~~~~~s~IIYC~sr~~ce~vs~~L~~~~~~a~------~YHAGl~~~~R~~Vq~~w~~----~~~~VivATV--AFGMGI 549 (941)
T KOG0351|consen 482 RHPDQSGIIYCLSRKECEQVSAVLRSLGKSAA------FYHAGLPPKERETVQKAWMS----DKIRVIVATV--AFGMGI 549 (941)
T ss_pred cCCCCCeEEEeCCcchHHHHHHHHHHhchhhH------hhhcCCCHHHHHHHHHHHhc----CCCeEEEEEe--eccCCC
Confidence 233 5789999999999999999987653211 12112122344555666654 2333444443 599999
Q ss_pred cCCCCCceEEEEEccCC
Q 004910 609 DFDRHYGRLVIMFGVPF 625 (724)
Q Consensus 609 D~~~~~~r~vii~glPf 625 (724)
|.|| .|.||=.+||=
T Consensus 550 dK~D--VR~ViH~~lPk 564 (941)
T KOG0351|consen 550 DKPD--VRFVIHYSLPK 564 (941)
T ss_pred CCCc--eeEEEECCCch
Confidence 9998 79999999983
No 481
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=63.65 E-value=12 Score=44.67 Aligned_cols=73 Identities=22% Similarity=0.357 Sum_probs=45.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC---CcEEEEcCCCcchHHHHH-HHHHHHHhhCCCCCceEEEEccchhhHHHHHHHH
Q 004910 12 FPYDNIYPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALL-SLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (724)
Q Consensus 12 Fp~~~~r~~Q~e~~~~v~~~l~~~---~~~~iEApTGtGKTla~L-~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el 87 (724)
+||. |+.-|...--.-.+++..| +...+-+|+|||||-..- +-...|.. .+ .. +.+|+|...+-..|+.+-+
T Consensus 728 y~y~-p~~n~v~ft~~qveai~sg~qpgltmvvgppgtgktd~avqil~~lyhn-~p-~q-rTlivthsnqaln~lfeKi 803 (1320)
T KOG1806|consen 728 YPYN-PKKNQVKFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAVQILSVLYHN-SP-NQ-RTLIVTHSNQALNQLFEKI 803 (1320)
T ss_pred CCcC-cccchhccCHHHHHHHHhcCCCCceeeecCCCCCCcchhhhhhhhhhhc-CC-Cc-ceEEEEecccchhHHHHHH
Confidence 4555 3455554444444444444 567889999999995432 11223332 22 34 8999999999999988743
Q ss_pred H
Q 004910 88 K 88 (724)
Q Consensus 88 ~ 88 (724)
-
T Consensus 804 ~ 804 (1320)
T KOG1806|consen 804 M 804 (1320)
T ss_pred H
Confidence 3
No 482
>PRK06620 hypothetical protein; Validated
Probab=63.52 E-value=7.1 Score=38.88 Aligned_cols=16 Identities=31% Similarity=0.395 Sum_probs=13.8
Q ss_pred CcEEEEcCCCcchHHH
Q 004910 36 GHCLLEMPTGTGKTIA 51 (724)
Q Consensus 36 ~~~~iEApTGtGKTla 51 (724)
..+++-+|+|+|||.-
T Consensus 45 ~~l~l~Gp~G~GKThL 60 (214)
T PRK06620 45 FTLLIKGPSSSGKTYL 60 (214)
T ss_pred ceEEEECCCCCCHHHH
Confidence 3489999999999974
No 483
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=63.51 E-value=8.7 Score=42.63 Aligned_cols=17 Identities=41% Similarity=0.542 Sum_probs=14.6
Q ss_pred CcEEEEcCCCcchHHHH
Q 004910 36 GHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~ 52 (724)
+.+++.+|+|||||+..
T Consensus 218 ~gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLA 234 (438)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 56899999999999854
No 484
>PRK04195 replication factor C large subunit; Provisional
Probab=63.41 E-value=8.9 Score=43.39 Aligned_cols=33 Identities=27% Similarity=0.256 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHH---h---CCcEEEEcCCCcchHHHH
Q 004910 20 EQYSYMLELKRALD---A---KGHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~---~---~~~~~iEApTGtGKTla~ 52 (724)
+|.+....+.+.+. + .+++++-+|+|+|||...
T Consensus 18 g~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLA 56 (482)
T ss_pred CCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 44555555555544 3 357999999999999754
No 485
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=63.25 E-value=19 Score=46.69 Aligned_cols=62 Identities=16% Similarity=0.190 Sum_probs=41.6
Q ss_pred CCHHHHHHHHHHHHHHHh-CCcEEEEcCCCcchHHHHHHHHHHHHhh--CCCCCceEEEEccchhhHHHH
Q 004910 17 IYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLS--KPENPVKLIYCTRTVHEMEKT 83 (724)
Q Consensus 17 ~r~~Q~e~~~~v~~~l~~-~~~~~iEApTGtGKTla~L~~al~~~~~--~~~~~~~vvi~T~T~~l~~Q~ 83 (724)
..++|++.+..+. .. ++..+|.++.|||||...= +++..... ...+. +|+.+.||+.-..++
T Consensus 968 Lt~~Q~~Av~~il---~s~dr~~~I~G~AGTGKTT~l~-~v~~~~~~l~~~~~~-~V~glAPTgrAAk~L 1032 (1747)
T PRK13709 968 LTSGQRAATRMIL---ESTDRFTVVQGYAGVGKTTQFR-AVMSAVNTLPESERP-RVVGLGPTHRAVGEM 1032 (1747)
T ss_pred CCHHHHHHHHHHH---hCCCcEEEEEeCCCCCHHHHHH-HHHHHHHHhhcccCc-eEEEECCcHHHHHHH
Confidence 5799999766554 43 4799999999999997532 22222221 11234 799999998776654
No 486
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.21 E-value=9.6 Score=41.37 Aligned_cols=34 Identities=26% Similarity=0.243 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCcchHHHHH
Q 004910 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALL 53 (724)
Q Consensus 20 ~Q~e~~~~v~~~l~~~~---~~~iEApTGtGKTla~L 53 (724)
+|......+...+.+++ +.++.+|+|+|||....
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~ 57 (367)
T PRK14970 21 GQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCAR 57 (367)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 88999999999998874 58899999999996554
No 487
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=63.02 E-value=6.9 Score=39.52 Aligned_cols=60 Identities=23% Similarity=0.251 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHH------------HHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHH
Q 004910 19 PEQYSYMLELKRA------------LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (724)
Q Consensus 19 ~~Q~e~~~~v~~~------------l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~e 86 (724)
+.|+|-+.+|.+. ++-.+-+++-+|+|||||+++= |+ ++..+. .+|-+=-..|.+..+.|
T Consensus 183 keqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~ar--av----anrtda--cfirvigselvqkyvge 254 (435)
T KOG0729|consen 183 KEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCAR--AV----ANRTDA--CFIRVIGSELVQKYVGE 254 (435)
T ss_pred HHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHH--HH----hcccCc--eEEeehhHHHHHHHhhh
Confidence 5788888877662 1122568899999999999643 22 232222 33333344555555554
No 488
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=62.78 E-value=1.6 Score=43.44 Aligned_cols=51 Identities=14% Similarity=0.275 Sum_probs=39.7
Q ss_pred CeEEEcceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHHHHHHHHHHH
Q 004910 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSY 59 (724)
Q Consensus 1 ~~~~i~~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTla~L~~al~~ 59 (724)
|.+.++++...|| .+...+.+|.-.+..|..+.|-+|.|+|||- |+-.+.-
T Consensus 2 ~~i~~~nl~k~yp------~~~~aL~~Vnl~I~~GE~VaiIG~SGaGKST--LLR~lng 52 (258)
T COG3638 2 MMIEVKNLSKTYP------GGHQALKDVNLEINQGEMVAIIGPSGAGKST--LLRSLNG 52 (258)
T ss_pred ceEEEeeeeeecC------CCceeeeeEeEEeCCCcEEEEECCCCCcHHH--HHHHHhc
Confidence 6788899988887 3445677777788889999999999999997 4444443
No 489
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=62.56 E-value=8.7 Score=43.81 Aligned_cols=55 Identities=18% Similarity=0.215 Sum_probs=33.9
Q ss_pred HHHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHHh
Q 004910 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (724)
Q Consensus 31 ~l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~~ 89 (724)
.+-.|...+|.+++|+|||.-.+--+...+... +. +++|.|-. .--+|+++.+..
T Consensus 27 G~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~--ge-~~lyis~e-e~~~~i~~~~~~ 81 (509)
T PRK09302 27 GLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRF--DE-PGVFVTFE-ESPEDIIRNVAS 81 (509)
T ss_pred CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhc--CC-CEEEEEcc-CCHHHHHHHHHH
Confidence 344567899999999999986554444444321 45 67666533 344566665444
No 490
>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=62.45 E-value=16 Score=39.76 Aligned_cols=49 Identities=20% Similarity=0.236 Sum_probs=31.4
Q ss_pred HHhCCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHH
Q 004910 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (724)
Q Consensus 32 l~~~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~ 85 (724)
+..+...++-+|+|+|||.-.+--+...+. .+. +|+|.+...+ .+|+..
T Consensus 79 i~~GslvLI~G~pG~GKStLllq~a~~~a~---~g~-~VlYvs~EEs-~~qi~~ 127 (372)
T cd01121 79 LVPGSVILIGGDPGIGKSTLLLQVAARLAK---RGG-KVLYVSGEES-PEQIKL 127 (372)
T ss_pred ccCCeEEEEEeCCCCCHHHHHHHHHHHHHh---cCC-eEEEEECCcC-HHHHHH
Confidence 334567899999999999876654444432 235 7888765433 345443
No 491
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=62.26 E-value=12 Score=41.10 Aligned_cols=37 Identities=27% Similarity=0.393 Sum_probs=23.0
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEcc
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~ 75 (724)
..+++-+|||+|||-...--|..+... .+. +|.++|-
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~--~G~-~V~Lit~ 260 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLH--MGK-SVSLYTT 260 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHh--cCC-eEEEecc
Confidence 357788999999997654433333222 245 6766663
No 492
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=62.15 E-value=20 Score=39.37 Aligned_cols=53 Identities=9% Similarity=0.187 Sum_probs=38.8
Q ss_pred cEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhh-HHHHHHHHHhh
Q 004910 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE-MEKTLAELKLL 90 (724)
Q Consensus 37 ~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l-~~Q~~~el~~l 90 (724)
..++.++.|+|||.+...-.+.++...+.+. +++++=+|... .+-+++++...
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~-~~~~~r~~~~sl~~sv~~~l~~~ 56 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQ-NILAARKVQNSIRDSVFKDIENL 56 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhcCCCc-EEEEEehhhhHHHHHHHHHHHHH
Confidence 5688999999999988887777776641234 88888888764 44455666654
No 493
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=62.04 E-value=16 Score=40.94 Aligned_cols=38 Identities=32% Similarity=0.352 Sum_probs=23.4
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEc
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T 74 (724)
++.+.+-+|||+|||-....-+-.+....+ .+ +|.+.+
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G-~~-kV~LI~ 293 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVMRHG-AS-KVALLT 293 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHhcC-CC-eEEEEe
Confidence 467889999999999765543333332221 23 565444
No 494
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=61.97 E-value=11 Score=39.82 Aligned_cols=37 Identities=41% Similarity=0.441 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHhC--Cc-EEEEcCCCcchHHHHHHH
Q 004910 19 PEQYSYMLELKRALDAK--GH-CLLEMPTGTGKTIALLSL 55 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~--~~-~~iEApTGtGKTla~L~~ 55 (724)
+.|.............+ .| +++.+|.|+|||.+.+.-
T Consensus 5 ~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~l 44 (325)
T COG0470 5 PWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALAL 44 (325)
T ss_pred cchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHH
Confidence 33433333333333333 47 999999999999887653
No 495
>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=61.85 E-value=3.2 Score=48.11 Aligned_cols=46 Identities=15% Similarity=0.146 Sum_probs=31.1
Q ss_pred CcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEEccchhhHHHHHHHHH
Q 004910 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (724)
Q Consensus 36 ~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~T~T~~l~~Q~~~el~ 88 (724)
.|+++-||||+|||.++.+|.+.-. +. .+|+.=+. -..-.+....+
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnLL~~-----~g-S~VV~DpK-gE~~~~Ta~~R 257 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTALKY-----GG-PLVCLDPS-TEVAPMVCEHR 257 (623)
T ss_pred ceEEEEeCCCCCccceeehhhhhcC-----CC-CEEEEECh-HHHHHHHHHHH
Confidence 6999999999999999999986521 23 45555554 44344444444
No 496
>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=61.41 E-value=7.7 Score=47.03 Aligned_cols=34 Identities=26% Similarity=0.297 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHhC-----------CcEEEEcCCCcchHHHH
Q 004910 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIAL 52 (724)
Q Consensus 19 ~~Q~e~~~~v~~~l~~~-----------~~~~iEApTGtGKTla~ 52 (724)
.+|.+.+..|.+++... ..+++.+|||+|||...
T Consensus 569 ~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA 613 (852)
T TIGR03345 569 IGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETA 613 (852)
T ss_pred cChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHH
Confidence 58999999999988531 13789999999999754
No 497
>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional
Probab=61.10 E-value=1.5 Score=44.76 Aligned_cols=43 Identities=16% Similarity=0.356 Sum_probs=32.9
Q ss_pred CeEEEcceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHH
Q 004910 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (724)
Q Consensus 1 ~~~~i~~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTl 50 (724)
|.+.++++...|| . + .....+.-.+..|.+..|-+|+|+|||.
T Consensus 1 ~~~~~~~l~~~~~-~--~----~~l~~isl~i~~Ge~~~i~G~nGsGKST 43 (246)
T PRK14269 1 MIAKTTNLNLFYG-K--K----QALFDINMQIEQNKITALIGASGCGKST 43 (246)
T ss_pred CceeeeeeEEEEC-C--E----eeeeeeEEEEcCCCEEEEECCCCCCHHH
Confidence 7889999999886 2 1 1344444455678899999999999996
No 498
>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=61.08 E-value=6.9 Score=42.86 Aligned_cols=35 Identities=31% Similarity=0.420 Sum_probs=25.1
Q ss_pred CCcEEEEcCCCcchHHHHHHHHHHHHhhCCCCCceEEEE
Q 004910 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (724)
Q Consensus 35 ~~~~~iEApTGtGKTla~L~~al~~~~~~~~~~~~vvi~ 73 (724)
++|++|-+.||||||...=+-|-.+.. .+++|+.+
T Consensus 19 NRHGLIaGATGTGKTvTLqvlAE~fS~----~GVPVfla 53 (502)
T PF05872_consen 19 NRHGLIAGATGTGKTVTLQVLAEQFSD----AGVPVFLA 53 (502)
T ss_pred cccceeeccCCCCceehHHHHHHHhhh----cCCcEEEe
Confidence 589999999999999887665544432 22366655
No 499
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=61.06 E-value=23 Score=41.61 Aligned_cols=29 Identities=21% Similarity=0.145 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCcchHHH
Q 004910 23 SYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (724)
Q Consensus 23 e~~~~v~~~l~~~~~~~iEApTGtGKTla 51 (724)
++...+..+...+.+++|.++|||||++.
T Consensus 336 ~~~~~~~~~a~~~~pvli~Ge~GtGK~~~ 364 (638)
T PRK11388 336 RLIHFGRQAAKSSFPVLLCGEEGVGKALL 364 (638)
T ss_pred HHHHHHHHHhCcCCCEEEECCCCcCHHHH
Confidence 34444455555677899999999999984
No 500
>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=60.98 E-value=1.7 Score=44.06 Aligned_cols=43 Identities=21% Similarity=0.317 Sum_probs=33.3
Q ss_pred CeEEEcceeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCcchHH
Q 004910 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (724)
Q Consensus 1 ~~~~i~~~~~~Fp~~~~r~~Q~e~~~~v~~~l~~~~~~~iEApTGtGKTl 50 (724)
|.+.++++...|+- + .....+.-.+..|+...|-+|.|+|||.
T Consensus 1 ~~l~~~~l~~~~~~---~----~il~~vs~~i~~Ge~~~i~G~nGsGKST 43 (239)
T cd03296 1 MSIEVRNVSKRFGD---F----VALDDVSLDIPSGELVALLGPSGSGKTT 43 (239)
T ss_pred CEEEEEeEEEEECC---E----EeeeeeeEEEcCCCEEEEECCCCCCHHH
Confidence 78889999988863 1 1344555566788999999999999996
Done!