Query 004358
Match_columns 759
No_of_seqs 226 out of 2020
Neff 8.5
Searched_HMMs 46136
Date Thu Mar 28 22:04:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004358.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004358hhsearch_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-143 2E-147 1111.2 61.1 747 1-750 1-747 (755)
2 TIGR00604 rad3 DNA repair heli 100.0 7E-113 2E-117 1003.6 63.1 690 7-705 1-696 (705)
3 KOG1132 Helicase of the DEAD s 100.0 8E-103 2E-107 862.7 51.8 664 2-731 7-766 (945)
4 KOG1133 Helicase of the DEAD s 100.0 1.3E-98 3E-103 807.4 52.7 664 6-724 6-817 (821)
5 PRK11747 dinG ATP-dependent DN 100.0 1.7E-82 3.7E-87 739.7 53.3 613 14-695 24-690 (697)
6 PRK08074 bifunctional ATP-depe 100.0 3.5E-81 7.6E-86 750.4 52.7 638 14-721 256-928 (928)
7 TIGR01407 dinG_rel DnaQ family 100.0 2.1E-76 4.5E-81 707.3 49.6 593 12-721 242-850 (850)
8 COG1199 DinG Rad3-related DNA 100.0 1.5E-75 3.2E-80 688.2 44.0 617 7-705 6-639 (654)
9 PRK07246 bifunctional ATP-depe 100.0 1.7E-73 3.6E-78 672.0 51.0 571 14-722 244-820 (820)
10 TIGR03117 cas_csf4 CRISPR-asso 100.0 2.8E-68 6E-73 600.0 51.4 565 20-692 1-624 (636)
11 smart00488 DEXDc2 DEAD-like he 100.0 3.6E-48 7.9E-53 406.7 24.1 262 9-272 2-281 (289)
12 smart00489 DEXDc3 DEAD-like he 100.0 3.6E-48 7.9E-53 406.7 24.1 262 9-272 2-281 (289)
13 PF13307 Helicase_C_2: Helicas 100.0 3.3E-41 7.1E-46 326.2 11.9 166 524-699 1-166 (167)
14 smart00491 HELICc2 helicase su 100.0 5.9E-36 1.3E-40 279.3 16.1 141 542-686 1-142 (142)
15 smart00492 HELICc3 helicase su 100.0 2.1E-33 4.5E-38 261.5 16.2 139 542-685 1-140 (141)
16 PF06733 DEAD_2: DEAD_2; Inte 100.0 7.4E-32 1.6E-36 263.5 7.1 173 72-256 1-174 (174)
17 PF06777 DUF1227: Protein of u 99.8 4.4E-19 9.5E-24 161.0 12.7 144 270-413 3-146 (146)
18 PRK11192 ATP-dependent RNA hel 99.7 1.9E-15 4.1E-20 169.9 28.3 76 12-91 19-97 (434)
19 PRK10590 ATP-dependent RNA hel 99.7 5.1E-15 1.1E-19 167.0 28.7 77 11-91 18-99 (456)
20 PRK11776 ATP-dependent RNA hel 99.7 6.2E-15 1.3E-19 166.9 29.1 75 12-91 22-96 (460)
21 PTZ00110 helicase; Provisional 99.7 8.4E-15 1.8E-19 168.0 29.0 74 12-90 148-226 (545)
22 PRK04837 ATP-dependent RNA hel 99.7 7.4E-15 1.6E-19 164.4 27.8 76 11-91 25-107 (423)
23 PRK04537 ATP-dependent RNA hel 99.7 8.7E-15 1.9E-19 168.4 28.8 76 11-91 26-108 (572)
24 TIGR00614 recQ_fam ATP-depende 99.7 2.6E-14 5.6E-19 161.8 29.7 69 10-89 5-73 (470)
25 PRK01297 ATP-dependent RNA hel 99.7 3.2E-14 6.9E-19 161.6 30.4 76 12-91 105-186 (475)
26 PRK11634 ATP-dependent RNA hel 99.7 2.4E-14 5.2E-19 165.9 28.8 77 11-92 23-99 (629)
27 PLN00206 DEAD-box ATP-dependen 99.7 3E-14 6.6E-19 162.8 27.9 74 12-90 139-219 (518)
28 PTZ00424 helicase 45; Provisio 99.6 8.6E-14 1.9E-18 155.1 29.7 75 11-90 45-119 (401)
29 TIGR03817 DECH_helic helicase/ 99.6 4.1E-13 8.8E-18 158.7 32.2 73 12-90 32-104 (742)
30 TIGR01389 recQ ATP-dependent D 99.6 2.4E-13 5.2E-18 158.4 30.0 69 10-89 7-75 (591)
31 PRK13767 ATP-dependent helicas 99.6 3.2E-13 7E-18 162.7 31.0 72 14-89 30-106 (876)
32 PRK11057 ATP-dependent DNA hel 99.6 5.4E-13 1.2E-17 155.2 29.9 69 10-89 19-87 (607)
33 TIGR00580 mfd transcription-re 99.6 1.5E-12 3.3E-17 155.4 30.8 77 10-91 446-524 (926)
34 PRK10917 ATP-dependent DNA hel 99.5 7E-12 1.5E-16 147.6 31.5 92 8-112 254-347 (681)
35 PRK01172 ski2-like helicase; P 99.5 2.5E-12 5.5E-17 152.2 27.6 70 12-90 19-88 (674)
36 PRK02362 ski2-like helicase; P 99.5 3.1E-12 6.8E-17 152.6 28.2 72 12-90 19-90 (737)
37 PLN03137 ATP-dependent DNA hel 99.5 4.2E-12 9E-17 149.9 28.1 67 11-88 455-521 (1195)
38 PRK00254 ski2-like helicase; P 99.5 7.6E-12 1.7E-16 148.9 27.3 73 12-90 19-91 (720)
39 PRK09401 reverse gyrase; Revie 99.5 4.5E-12 9.7E-17 155.1 25.6 72 11-91 76-147 (1176)
40 PHA02558 uvsW UvsW helicase; P 99.4 9E-11 1.9E-15 133.8 29.5 108 530-681 342-450 (501)
41 cd00268 DEADc DEAD-box helicas 99.4 5E-12 1.1E-16 126.9 12.4 75 12-91 17-93 (203)
42 TIGR02621 cas3_GSU0051 CRISPR- 99.3 3.5E-10 7.6E-15 131.9 28.4 74 13-92 13-87 (844)
43 PRK10689 transcription-repair 99.3 5.2E-10 1.1E-14 136.9 31.1 77 9-90 594-672 (1147)
44 PRK14701 reverse gyrase; Provi 99.3 4.9E-10 1.1E-14 140.4 30.2 73 11-92 75-147 (1638)
45 PF04851 ResIII: Type III rest 99.3 1.5E-11 3.3E-16 120.9 11.5 67 17-90 4-73 (184)
46 TIGR01054 rgy reverse gyrase. 99.3 8.7E-10 1.9E-14 135.4 28.9 87 524-625 318-409 (1171)
47 PF00270 DEAD: DEAD/DEAH box h 99.3 1.4E-11 3E-16 119.6 10.4 68 18-91 1-68 (169)
48 PRK12898 secA preprotein trans 99.3 5.8E-09 1.3E-13 119.2 33.0 69 13-92 101-169 (656)
49 PHA02653 RNA helicase NPH-II; 99.3 3.3E-09 7.2E-14 123.0 29.8 77 13-90 155-245 (675)
50 TIGR01587 cas3_core CRISPR-ass 99.2 1.4E-09 3E-14 119.3 24.8 51 38-90 2-52 (358)
51 TIGR00963 secA preprotein tran 99.2 1.1E-08 2.4E-13 117.7 32.3 153 441-624 330-488 (745)
52 TIGR03714 secA2 accessory Sec 99.2 3.8E-08 8.3E-13 114.0 36.1 67 18-92 70-136 (762)
53 PRK09200 preprotein translocas 99.2 1.1E-08 2.3E-13 119.5 28.8 65 18-92 80-144 (790)
54 PRK09751 putative ATP-dependen 99.2 6.3E-09 1.4E-13 128.5 28.1 50 40-89 1-59 (1490)
55 TIGR00643 recG ATP-dependent D 99.1 5.8E-10 1.3E-14 130.5 13.0 90 10-112 230-321 (630)
56 PRK11664 ATP-dependent RNA hel 99.1 3.1E-08 6.7E-13 117.9 25.7 63 23-89 8-70 (812)
57 TIGR01970 DEAH_box_HrpB ATP-de 99.0 7.6E-08 1.6E-12 114.4 27.0 130 518-671 195-325 (819)
58 smart00487 DEXDc DEAD-like hel 98.9 6.4E-09 1.4E-13 102.9 11.6 73 12-90 4-77 (201)
59 KOG0350 DEAD-box ATP-dependent 98.9 3.3E-09 7.1E-14 113.0 9.5 148 17-244 160-312 (620)
60 COG1110 Reverse gyrase [DNA re 98.9 1.6E-06 3.4E-11 100.5 29.6 131 452-624 277-416 (1187)
61 COG1202 Superfamily II helicas 98.9 6.3E-08 1.4E-12 104.9 16.3 71 13-89 213-283 (830)
62 PRK04914 ATP-dependent helicas 98.8 1.2E-06 2.6E-11 105.2 27.4 132 525-701 485-619 (956)
63 COG0513 SrmB Superfamily II DN 98.8 2.9E-08 6.2E-13 113.3 13.0 76 13-92 48-124 (513)
64 PRK09694 helicase Cas3; Provis 98.8 3.7E-08 8E-13 117.2 12.4 69 16-90 286-354 (878)
65 KOG0345 ATP-dependent RNA heli 98.8 6.4E-08 1.4E-12 102.8 12.1 74 12-89 24-101 (567)
66 PRK13104 secA preprotein trans 98.7 2.8E-06 6E-11 99.7 26.6 139 441-611 369-509 (896)
67 COG1204 Superfamily II helicas 98.7 2.7E-08 5.8E-13 117.0 9.5 69 16-90 31-99 (766)
68 KOG0331 ATP-dependent RNA heli 98.7 3.8E-08 8.2E-13 108.5 9.6 73 13-90 110-188 (519)
69 KOG0342 ATP-dependent RNA heli 98.7 2.7E-08 5.8E-13 106.3 7.3 79 12-94 100-181 (543)
70 KOG0335 ATP-dependent RNA heli 98.7 4.7E-08 1E-12 106.0 8.0 74 13-90 93-175 (482)
71 cd00046 DEXDc DEAD-like helica 98.6 1.7E-07 3.7E-12 87.0 9.9 53 36-90 1-53 (144)
72 PRK12904 preprotein translocas 98.6 9.3E-06 2E-10 95.2 26.0 141 441-612 355-496 (830)
73 PRK13766 Hef nuclease; Provisi 98.6 2.2E-07 4.9E-12 112.3 13.4 69 13-90 13-81 (773)
74 COG1111 MPH1 ERCC4-like helica 98.6 1.8E-07 3.9E-12 100.9 10.7 67 17-91 16-82 (542)
75 KOG0354 DEAD-box like helicase 98.6 1.5E-07 3.2E-12 107.2 10.5 67 16-89 62-128 (746)
76 PRK11448 hsdR type I restricti 98.6 2.9E-07 6.3E-12 112.8 13.4 72 17-90 414-486 (1123)
77 PRK05580 primosome assembly pr 98.6 3.5E-07 7.6E-12 107.7 13.1 72 13-90 142-213 (679)
78 COG1205 Distinct helicase fami 98.6 3.1E-07 6.8E-12 109.7 12.6 70 17-92 71-140 (851)
79 COG1201 Lhr Lhr-like helicases 98.5 4.5E-07 9.8E-12 105.7 12.4 74 14-91 20-97 (814)
80 TIGR01967 DEAH_box_HrpA ATP-de 98.5 1.2E-05 2.7E-10 98.5 25.1 155 515-702 262-418 (1283)
81 PRK11131 ATP-dependent RNA hel 98.5 9.6E-06 2.1E-10 99.2 23.6 136 514-678 268-405 (1294)
82 COG1061 SSL2 DNA or RNA helica 98.5 7E-07 1.5E-11 100.1 11.9 72 10-89 31-102 (442)
83 PRK12899 secA preprotein trans 98.5 7.6E-07 1.6E-11 104.1 12.3 67 18-92 94-160 (970)
84 TIGR00603 rad25 DNA repair hel 98.5 1E-06 2.2E-11 102.2 12.2 69 11-90 251-321 (732)
85 KOG0338 ATP-dependent RNA heli 98.4 6E-07 1.3E-11 96.3 9.0 76 12-91 199-276 (691)
86 TIGR00348 hsdR type I site-spe 98.4 1.6E-06 3.4E-11 102.2 13.4 72 17-90 239-316 (667)
87 COG4889 Predicted helicase [Ge 98.4 1.9E-06 4.1E-11 97.6 12.3 168 6-242 152-319 (1518)
88 TIGR03158 cas3_cyano CRISPR-as 98.4 3.1E-06 6.7E-11 92.4 12.4 56 29-91 6-63 (357)
89 KOG0346 RNA helicase [RNA proc 98.3 7.3E-07 1.6E-11 94.1 6.9 76 13-93 38-119 (569)
90 COG0514 RecQ Superfamily II DN 98.3 2.2E-06 4.8E-11 96.5 9.8 70 9-89 10-79 (590)
91 KOG0330 ATP-dependent RNA heli 98.3 2.1E-06 4.5E-11 89.5 8.8 86 14-112 81-166 (476)
92 PRK12906 secA preprotein trans 98.3 0.00092 2E-08 78.5 31.4 153 441-624 365-524 (796)
93 COG0556 UvrB Helicase subunit 98.2 0.0014 3E-08 71.8 28.8 76 8-91 5-81 (663)
94 PRK13107 preprotein translocas 98.2 0.00071 1.5E-08 79.7 28.2 139 441-611 374-514 (908)
95 KOG0334 RNA helicase [RNA proc 98.1 8.5E-06 1.8E-10 95.2 9.8 77 11-92 382-463 (997)
96 TIGR00595 priA primosomal prot 98.1 1.2E-05 2.6E-10 91.5 10.3 48 39-90 1-48 (505)
97 KOG0333 U5 snRNP-like RNA heli 98.1 1.2E-05 2.6E-10 86.8 9.2 74 13-91 264-346 (673)
98 cd00079 HELICc Helicase superf 98.1 5E-05 1.1E-09 69.8 12.2 115 518-679 15-130 (131)
99 KOG0343 RNA Helicase [RNA proc 98.1 4.4E-06 9.6E-11 90.6 5.6 58 34-91 105-165 (758)
100 COG4096 HsdR Type I site-speci 98.1 1.3E-05 2.9E-10 91.5 9.5 72 17-90 166-238 (875)
101 KOG0344 ATP-dependent RNA heli 98.0 8.2E-06 1.8E-10 89.7 7.0 75 12-90 154-232 (593)
102 KOG0336 ATP-dependent RNA heli 98.0 6.4E-06 1.4E-10 86.2 5.4 75 12-90 238-317 (629)
103 KOG0348 ATP-dependent RNA heli 98.0 7.5E-06 1.6E-10 88.6 5.9 75 12-91 155-235 (708)
104 PF13245 AAA_19: Part of AAA d 97.9 6.4E-05 1.4E-09 62.2 7.7 59 27-87 2-62 (76)
105 COG1200 RecG RecG-like helicas 97.9 7.1E-05 1.5E-09 84.6 10.5 89 11-112 258-348 (677)
106 PF00176 SNF2_N: SNF2 family N 97.8 0.00014 3E-09 77.3 11.8 70 20-91 1-81 (299)
107 KOG0339 ATP-dependent RNA heli 97.8 5.1E-05 1.1E-09 81.7 7.2 56 35-91 260-320 (731)
108 KOG1803 DNA helicase [Replicat 97.8 0.00014 3.1E-09 80.5 10.7 71 10-88 180-250 (649)
109 KOG1802 RNA helicase nonsense 97.8 0.0002 4.4E-09 79.6 11.8 82 14-114 408-489 (935)
110 PLN03142 Probable chromatin-re 97.6 0.00024 5.1E-09 86.2 10.5 71 17-90 170-241 (1033)
111 COG4581 Superfamily II RNA hel 97.5 0.00021 4.6E-09 85.2 7.7 72 10-90 114-185 (1041)
112 COG1197 Mfd Transcription-repa 97.3 0.0014 2.9E-08 78.7 12.2 88 9-109 588-677 (1139)
113 PF13086 AAA_11: AAA domain; P 97.3 0.00084 1.8E-08 68.4 8.2 67 18-89 3-75 (236)
114 PRK13103 secA preprotein trans 97.2 0.0011 2.5E-08 78.0 9.8 140 441-611 374-514 (913)
115 KOG0340 ATP-dependent RNA heli 97.2 0.001 2.3E-08 69.1 7.7 70 16-90 29-98 (442)
116 KOG1805 DNA replication helica 97.1 0.004 8.6E-08 72.7 12.5 140 18-241 671-810 (1100)
117 PF02562 PhoH: PhoH-like prote 97.0 0.0015 3.3E-08 64.8 6.6 57 16-78 4-60 (205)
118 KOG0952 DNA/RNA helicase MER3/ 96.9 0.0024 5.1E-08 75.0 8.3 76 11-89 105-186 (1230)
119 KOG0337 ATP-dependent RNA heli 96.9 0.00094 2E-08 70.9 4.4 74 13-90 40-113 (529)
120 COG1203 CRISPR-associated heli 96.9 0.0025 5.4E-08 76.3 8.4 73 17-90 196-269 (733)
121 PRK12326 preprotein translocas 96.8 0.0082 1.8E-07 69.4 11.6 140 441-611 352-492 (764)
122 KOG0385 Chromatin remodeling c 96.8 0.0047 1E-07 70.3 9.2 72 17-91 168-240 (971)
123 KOG4284 DEAD box protein [Tran 96.7 0.0011 2.3E-08 73.8 3.6 74 16-90 24-116 (980)
124 COG1198 PriA Primosomal protei 96.7 0.012 2.5E-07 69.0 11.7 70 17-90 199-268 (730)
125 KOG0326 ATP-dependent RNA heli 96.6 0.00085 1.8E-08 68.6 1.9 90 12-114 103-192 (459)
126 PF13604 AAA_30: AAA domain; P 96.6 0.007 1.5E-07 60.2 8.4 62 18-86 3-65 (196)
127 KOG0328 Predicted ATP-dependen 96.6 0.0014 3E-08 66.1 2.9 75 11-90 44-118 (400)
128 PF07652 Flavi_DEAD: Flaviviru 96.6 0.0047 1E-07 57.0 5.9 53 33-88 2-54 (148)
129 TIGR00376 DNA helicase, putati 96.5 0.012 2.7E-07 69.0 10.4 67 16-89 157-223 (637)
130 PRK15483 type III restriction- 96.2 0.017 3.6E-07 69.3 9.4 71 12-85 3-107 (986)
131 PF00271 Helicase_C: Helicase 96.1 0.013 2.9E-07 48.4 6.0 43 575-625 20-62 (78)
132 PF00580 UvrD-helicase: UvrD/R 96.1 0.013 2.9E-07 62.5 7.6 65 18-90 2-68 (315)
133 KOG0352 ATP-dependent DNA heli 96.1 0.0096 2.1E-07 63.4 6.0 70 11-90 14-84 (641)
134 COG1061 SSL2 DNA or RNA helica 96.0 0.09 1.9E-06 59.2 13.9 95 531-670 282-376 (442)
135 KOG0347 RNA helicase [RNA proc 96.0 0.0073 1.6E-07 66.4 4.4 88 13-112 200-300 (731)
136 COG4098 comFA Superfamily II D 95.9 0.12 2.6E-06 54.1 12.6 109 530-679 303-411 (441)
137 KOG0327 Translation initiation 95.8 0.0053 1.2E-07 64.8 2.6 70 11-85 43-112 (397)
138 smart00490 HELICc helicase sup 95.8 0.028 6.1E-07 46.4 6.4 43 575-625 24-66 (82)
139 KOG0951 RNA helicase BRR2, DEA 95.7 0.03 6.5E-07 67.2 8.2 77 31-115 321-404 (1674)
140 KOG0353 ATP-dependent DNA heli 95.7 0.016 3.4E-07 60.7 5.3 69 11-90 89-157 (695)
141 TIGR00643 recG ATP-dependent D 95.7 0.35 7.6E-06 57.2 17.4 108 531-680 447-563 (630)
142 PRK10536 hypothetical protein; 95.6 0.034 7.4E-07 56.9 7.6 56 16-78 59-114 (262)
143 KOG0351 ATP-dependent DNA heli 95.6 0.0091 2E-07 71.9 3.7 66 9-85 257-322 (941)
144 TIGR00603 rad25 DNA repair hel 95.5 0.15 3.2E-06 60.2 13.0 96 530-673 494-590 (732)
145 PRK11448 hsdR type I restricti 95.4 0.19 4.1E-06 62.7 14.3 112 531-682 697-814 (1123)
146 TIGR00631 uvrb excinuclease AB 95.4 0.15 3.2E-06 60.1 12.7 75 9-91 3-78 (655)
147 KOG0922 DEAH-box RNA helicase 95.0 0.044 9.5E-07 62.1 6.5 28 23-50 54-81 (674)
148 PRK05298 excinuclease ABC subu 95.0 0.38 8.1E-06 57.0 14.7 76 8-91 5-81 (652)
149 KOG0329 ATP-dependent RNA heli 94.9 0.039 8.4E-07 55.0 5.2 89 12-112 60-148 (387)
150 CHL00122 secA preprotein trans 94.9 0.12 2.5E-06 61.4 9.9 139 441-610 349-490 (870)
151 PRK12902 secA preprotein trans 94.8 0.2 4.3E-06 59.5 11.5 140 441-610 364-505 (939)
152 PRK13766 Hef nuclease; Provisi 94.7 0.35 7.5E-06 58.9 13.9 91 518-623 350-450 (773)
153 TIGR03158 cas3_cyano CRISPR-as 94.5 0.5 1.1E-05 51.7 13.2 82 516-613 255-337 (357)
154 PF12340 DUF3638: Protein of u 94.5 0.085 1.9E-06 53.0 6.5 68 17-89 24-91 (229)
155 KOG0387 Transcription-coupled 94.2 0.37 8E-06 55.8 11.3 85 14-112 203-289 (923)
156 KOG1002 Nucleotide excision re 94.1 0.28 6E-06 53.6 9.6 67 18-90 186-253 (791)
157 KOG0947 Cytoplasmic exosomal R 94.1 0.11 2.4E-06 60.9 7.1 75 7-90 289-363 (1248)
158 PRK09694 helicase Cas3; Provis 94.0 1.2 2.6E-05 54.2 15.8 101 531-672 559-664 (878)
159 TIGR02640 gas_vesic_GvpN gas v 94.0 0.099 2.1E-06 54.6 6.0 36 18-53 4-39 (262)
160 PRK12900 secA preprotein trans 94.0 0.66 1.4E-05 55.9 13.3 156 441-627 523-683 (1025)
161 KOG0926 DEAH-box RNA helicase 93.9 0.15 3.2E-06 58.8 7.5 89 452-555 415-504 (1172)
162 TIGR00631 uvrb excinuclease AB 93.9 0.23 5E-06 58.5 9.4 121 519-682 430-552 (655)
163 PHA02244 ATPase-like protein 93.8 0.13 2.8E-06 55.5 6.6 49 10-60 94-142 (383)
164 PRK08181 transposase; Validate 93.6 0.2 4.2E-06 52.4 7.3 53 18-74 89-141 (269)
165 KOG0389 SNF2 family DNA-depend 93.3 0.46 9.9E-06 55.0 10.1 100 517-630 763-863 (941)
166 TIGR02562 cas3_yersinia CRISPR 93.3 0.31 6.7E-06 58.9 9.1 87 17-112 409-499 (1110)
167 COG1203 CRISPR-associated heli 93.2 0.45 9.8E-06 57.2 10.7 98 531-672 439-537 (733)
168 KOG0341 DEAD-box protein abstr 93.2 0.36 7.7E-06 51.2 8.4 77 523-612 412-489 (610)
169 COG0714 MoxR-like ATPases [Gen 93.1 0.18 4E-06 54.5 6.5 57 18-79 26-82 (329)
170 cd00009 AAA The AAA+ (ATPases 93.0 0.21 4.6E-06 45.9 6.1 32 20-51 2-35 (151)
171 PRK13531 regulatory ATPase Rav 92.9 0.087 1.9E-06 58.9 3.7 34 19-52 23-56 (498)
172 PF01695 IstB_IS21: IstB-like 92.9 0.18 4E-06 49.2 5.6 68 12-88 22-91 (178)
173 PRK05298 excinuclease ABC subu 92.6 0.46 9.9E-06 56.3 9.4 120 519-682 434-556 (652)
174 PRK13894 conjugal transfer ATP 92.6 0.29 6.2E-06 52.5 7.0 50 26-77 139-188 (319)
175 KOG0952 DNA/RNA helicase MER3/ 92.3 1.8 3.8E-05 52.0 13.2 192 452-683 276-490 (1230)
176 COG1474 CDC6 Cdc6-related prot 92.3 0.56 1.2E-05 51.3 8.9 71 18-89 22-95 (366)
177 PF07517 SecA_DEAD: SecA DEAD- 92.2 1 2.2E-05 46.8 10.2 71 12-93 74-144 (266)
178 KOG0345 ATP-dependent RNA heli 92.2 1.6 3.4E-05 47.9 11.8 92 522-631 245-338 (567)
179 COG1484 DnaC DNA replication p 92.2 0.37 8E-06 50.0 7.0 51 21-75 91-141 (254)
180 PRK14873 primosome assembly pr 91.9 0.89 1.9E-05 53.7 10.4 49 38-90 163-211 (665)
181 PRK08939 primosomal protein Dn 91.7 0.49 1.1E-05 50.5 7.5 51 19-73 134-190 (306)
182 COG4098 comFA Superfamily II D 91.6 0.45 9.7E-06 50.0 6.6 58 17-78 98-155 (441)
183 PRK06835 DNA replication prote 91.5 0.5 1.1E-05 50.9 7.3 54 18-75 162-219 (329)
184 KOG0948 Nuclear exosomal RNA h 91.4 0.36 7.8E-06 55.5 6.2 70 11-89 125-194 (1041)
185 PF00308 Bac_DnaA: Bacterial d 91.1 0.45 9.9E-06 48.1 6.2 63 12-76 5-73 (219)
186 PRK13833 conjugal transfer pro 90.9 0.59 1.3E-05 50.0 7.1 50 19-73 131-180 (323)
187 TIGR02782 TrbB_P P-type conjug 90.8 0.7 1.5E-05 49.1 7.6 50 24-75 121-170 (299)
188 PF01078 Mg_chelatase: Magnesi 90.8 0.24 5.3E-06 49.1 3.8 33 19-51 6-38 (206)
189 PF09848 DUF2075: Uncharacteri 90.7 0.46 9.9E-06 51.9 6.2 52 36-89 2-53 (352)
190 KOG0388 SNF2 family DNA-depend 90.6 1.1 2.4E-05 51.2 9.0 70 18-89 569-638 (1185)
191 PF05970 PIF1: PIF1-like helic 90.6 0.54 1.2E-05 51.6 6.7 57 18-78 3-61 (364)
192 KOG1123 RNA polymerase II tran 90.3 0.19 4.1E-06 55.0 2.7 41 12-55 298-340 (776)
193 PRK13900 type IV secretion sys 90.0 0.72 1.6E-05 49.8 6.8 45 23-72 148-192 (332)
194 COG1205 Distinct helicase fami 89.8 2.4 5.3E-05 51.6 11.8 167 439-625 214-393 (851)
195 PF06745 KaiC: KaiC; InterPro 89.7 0.61 1.3E-05 47.3 5.8 52 34-89 18-69 (226)
196 KOG0989 Replication factor C, 89.6 0.51 1.1E-05 49.1 5.0 36 20-55 40-77 (346)
197 PRK10875 recD exonuclease V su 89.6 1.5 3.4E-05 51.2 9.6 74 11-88 146-220 (615)
198 PRK13407 bchI magnesium chelat 89.6 0.27 5.8E-06 53.0 3.2 40 11-51 4-45 (334)
199 COG1204 Superfamily II helicas 89.5 2.8 6.2E-05 50.3 11.9 191 453-681 182-405 (766)
200 COG3587 Restriction endonuclea 89.3 0.26 5.5E-06 57.6 2.9 46 37-84 76-121 (985)
201 TIGR01447 recD exodeoxyribonuc 89.2 1.6 3.4E-05 51.0 9.3 65 19-87 148-213 (586)
202 COG2805 PilT Tfp pilus assembl 88.7 0.76 1.6E-05 47.8 5.4 51 12-63 101-152 (353)
203 TIGR02030 BchI-ChlI magnesium 88.5 0.51 1.1E-05 50.9 4.4 40 12-52 1-42 (337)
204 PRK10919 ATP-dependent DNA hel 88.3 1.1 2.4E-05 53.3 7.5 66 17-90 3-70 (672)
205 TIGR02768 TraA_Ti Ti-type conj 88.2 1.2 2.5E-05 53.7 7.6 59 17-82 353-411 (744)
206 PRK06921 hypothetical protein; 88.1 2 4.2E-05 44.9 8.3 38 35-75 117-154 (266)
207 cd01124 KaiC KaiC is a circadi 88.1 1.1 2.5E-05 43.6 6.3 47 38-89 2-48 (187)
208 TIGR01448 recD_rel helicase, p 87.9 2 4.3E-05 51.6 9.2 64 12-82 320-383 (720)
209 PRK06526 transposase; Provisio 87.8 0.6 1.3E-05 48.4 4.2 42 30-75 93-134 (254)
210 PRK14952 DNA polymerase III su 87.7 0.47 1E-05 55.0 3.7 36 20-55 17-55 (584)
211 TIGR02785 addA_Gpos recombinat 87.7 1.2 2.6E-05 56.8 7.7 62 17-85 2-63 (1232)
212 KOG0991 Replication factor C, 87.6 0.83 1.8E-05 45.6 4.8 34 23-56 34-69 (333)
213 COG2804 PulE Type II secretory 87.6 0.91 2E-05 50.7 5.6 41 18-62 243-284 (500)
214 KOG0386 Chromatin remodeling c 87.4 1.8 3.8E-05 51.7 8.0 71 17-90 395-466 (1157)
215 PRK14955 DNA polymerase III su 87.3 0.62 1.3E-05 51.8 4.3 35 20-54 20-57 (397)
216 PRK13889 conjugal transfer rel 87.3 1.6 3.4E-05 53.8 7.9 60 17-83 347-406 (988)
217 KOG0333 U5 snRNP-like RNA heli 87.1 5.6 0.00012 44.4 11.1 78 524-614 508-587 (673)
218 PRK11773 uvrD DNA-dependent he 87.1 1.6 3.4E-05 52.6 7.9 67 16-90 9-77 (721)
219 PRK12377 putative replication 87.0 2.2 4.7E-05 44.0 7.8 34 18-51 80-117 (248)
220 PF06309 Torsin: Torsin; Inte 87.0 1.9 4E-05 39.3 6.3 29 23-51 36-69 (127)
221 KOG0331 ATP-dependent RNA heli 87.0 3.9 8.6E-05 46.2 10.2 95 515-624 324-419 (519)
222 PF02399 Herpes_ori_bp: Origin 86.8 1 2.3E-05 53.0 5.8 51 34-89 48-100 (824)
223 TIGR01074 rep ATP-dependent DN 86.4 1.7 3.8E-05 51.8 7.8 66 17-90 2-69 (664)
224 PRK12402 replication factor C 86.4 0.82 1.8E-05 49.4 4.6 35 20-54 19-55 (337)
225 PRK07952 DNA replication prote 86.4 2.5 5.4E-05 43.5 7.8 52 19-74 79-134 (244)
226 TIGR01075 uvrD DNA helicase II 86.3 1.6 3.5E-05 52.6 7.4 66 17-90 5-72 (715)
227 PRK09183 transposase/IS protei 86.1 1.3 2.7E-05 46.2 5.6 39 32-74 99-137 (259)
228 PRK08533 flagellar accessory p 86.0 2.1 4.5E-05 43.7 7.0 53 32-89 21-73 (230)
229 PLN03025 replication factor C 86.0 0.95 2.1E-05 48.7 4.8 35 20-54 17-53 (319)
230 cd00984 DnaB_C DnaB helicase C 85.9 0.83 1.8E-05 46.8 4.1 45 30-77 8-52 (242)
231 PRK08116 hypothetical protein; 85.9 2.5 5.5E-05 44.2 7.7 53 18-74 90-149 (268)
232 TIGR03877 thermo_KaiC_1 KaiC d 85.9 1.4 3.1E-05 45.1 5.8 53 32-89 18-70 (237)
233 TIGR02928 orc1/cdc6 family rep 85.6 3.1 6.8E-05 45.5 8.7 35 18-52 20-57 (365)
234 TIGR02524 dot_icm_DotB Dot/Icm 85.5 1.6 3.5E-05 47.6 6.2 47 13-60 111-158 (358)
235 COG1111 MPH1 ERCC4-like helica 85.5 16 0.00034 41.0 13.5 119 518-679 351-478 (542)
236 TIGR00764 lon_rel lon-related 85.5 2.1 4.6E-05 50.2 7.6 57 19-79 21-78 (608)
237 KOG0341 DEAD-box protein abstr 85.4 0.27 5.9E-06 52.1 0.2 63 18-85 194-264 (610)
238 PRK11331 5-methylcytosine-spec 85.1 1 2.2E-05 50.1 4.5 30 23-52 182-211 (459)
239 PRK00411 cdc6 cell division co 85.1 2.7 5.8E-05 46.6 8.0 37 18-54 35-74 (394)
240 PRK05973 replicative DNA helic 85.1 1.1 2.3E-05 45.9 4.2 57 28-89 57-113 (237)
241 TIGR02880 cbbX_cfxQ probable R 85.0 1.2 2.6E-05 47.1 4.8 17 36-52 59-75 (284)
242 smart00382 AAA ATPases associa 84.7 0.82 1.8E-05 41.4 3.1 19 35-53 2-20 (148)
243 TIGR01650 PD_CobS cobaltochela 84.7 1.3 2.8E-05 47.3 4.8 31 22-52 51-81 (327)
244 KOG0949 Predicted helicase, DE 84.6 1.7 3.7E-05 51.7 6.1 68 14-88 510-577 (1330)
245 PF05673 DUF815: Protein of un 84.6 5.6 0.00012 40.6 9.1 67 18-88 32-102 (249)
246 COG1219 ClpX ATP-dependent pro 84.3 1.2 2.5E-05 46.7 4.1 35 36-77 98-132 (408)
247 KOG0342 ATP-dependent RNA heli 84.3 4.5 9.8E-05 44.7 8.7 76 533-624 331-408 (543)
248 PF00158 Sigma54_activat: Sigm 84.2 4 8.7E-05 39.4 7.7 55 20-78 7-62 (168)
249 PRK14961 DNA polymerase III su 84.1 1.3 2.9E-05 48.5 4.9 35 20-54 20-57 (363)
250 TIGR00390 hslU ATP-dependent p 84.0 1.1 2.5E-05 49.2 4.2 40 18-59 14-69 (441)
251 KOG0951 RNA helicase BRR2, DEA 84.0 2.2 4.7E-05 52.2 6.7 50 35-89 1159-1208(1674)
252 PRK14962 DNA polymerase III su 84.0 1 2.2E-05 51.1 3.9 34 20-53 18-54 (472)
253 KOG0343 RNA Helicase [RNA proc 83.9 6.4 0.00014 44.2 9.7 88 523-624 303-393 (758)
254 PF12775 AAA_7: P-loop contain 83.6 1.4 3.1E-05 46.1 4.6 35 18-52 16-50 (272)
255 TIGR02525 plasmid_TraJ plasmid 83.6 2.5 5.4E-05 46.3 6.6 58 13-72 126-184 (372)
256 PF02534 T4SS-DNA_transf: Type 83.6 1.4 3E-05 50.2 5.0 69 36-120 45-114 (469)
257 PRK14956 DNA polymerase III su 83.5 1 2.2E-05 50.6 3.7 35 20-54 22-59 (484)
258 KOG0332 ATP-dependent RNA heli 83.4 0.83 1.8E-05 48.5 2.7 80 531-626 329-410 (477)
259 PRK11054 helD DNA helicase IV; 83.3 3.4 7.4E-05 49.2 8.1 66 16-89 196-263 (684)
260 COG1201 Lhr Lhr-like helicases 83.2 33 0.00071 41.4 16.0 173 453-681 185-361 (814)
261 TIGR03420 DnaA_homol_Hda DnaA 83.1 2.9 6.4E-05 42.2 6.7 33 20-52 21-55 (226)
262 COG4962 CpaF Flp pilus assembl 82.9 2.5 5.3E-05 45.1 5.9 55 18-80 159-213 (355)
263 COG0606 Predicted ATPase with 82.9 1.2 2.6E-05 49.4 3.7 33 19-51 182-214 (490)
264 PRK08727 hypothetical protein; 82.7 2.8 6E-05 42.9 6.2 36 36-75 42-77 (233)
265 KOG0347 RNA helicase [RNA proc 82.7 3.1 6.7E-05 46.6 6.7 83 527-624 458-541 (731)
266 PRK14960 DNA polymerase III su 82.6 1.2 2.6E-05 51.8 3.9 36 20-55 19-57 (702)
267 PF01580 FtsK_SpoIIIE: FtsK/Sp 82.6 2 4.4E-05 42.7 5.1 43 34-76 37-79 (205)
268 PRK13826 Dtr system oriT relax 82.3 4 8.7E-05 50.7 8.4 61 17-84 382-442 (1102)
269 PF07726 AAA_3: ATPase family 82.1 0.92 2E-05 41.4 2.1 17 37-53 1-17 (131)
270 PTZ00112 origin recognition co 82.0 1.7 3.6E-05 52.0 4.7 47 5-54 750-800 (1164)
271 TIGR00382 clpX endopeptidase C 81.9 1.5 3.3E-05 48.6 4.2 38 19-58 80-137 (413)
272 PRK14087 dnaA chromosomal repl 81.9 5.6 0.00012 44.9 8.8 39 36-76 142-180 (450)
273 PRK00440 rfc replication facto 81.9 1.6 3.6E-05 46.6 4.5 35 20-54 21-57 (319)
274 PRK13851 type IV secretion sys 81.8 1.4 3E-05 47.8 3.8 28 24-51 151-178 (344)
275 TIGR01073 pcrA ATP-dependent D 81.7 3.5 7.5E-05 49.8 7.5 66 17-90 5-72 (726)
276 KOG4439 RNA polymerase II tran 81.6 0.34 7.5E-06 55.3 -0.9 92 521-625 735-828 (901)
277 PF13191 AAA_16: AAA ATPase do 81.3 0.74 1.6E-05 44.7 1.4 34 18-51 5-40 (185)
278 CHL00081 chlI Mg-protoporyphyr 81.3 1.1 2.4E-05 48.5 2.8 41 10-51 12-54 (350)
279 COG1643 HrpA HrpA-like helicas 81.2 2.9 6.2E-05 50.4 6.4 28 24-51 54-81 (845)
280 PRK08769 DNA polymerase III su 81.0 2.6 5.6E-05 45.2 5.4 41 14-54 2-45 (319)
281 PF00437 T2SE: Type II/IV secr 80.7 2.8 6E-05 43.8 5.6 44 27-74 119-162 (270)
282 PF13481 AAA_25: AAA domain; P 80.7 2.2 4.8E-05 41.9 4.6 54 34-89 31-91 (193)
283 cd01130 VirB11-like_ATPase Typ 80.7 2.1 4.7E-05 42.0 4.4 31 18-51 11-41 (186)
284 COG1643 HrpA HrpA-like helicas 80.7 5.2 0.00011 48.2 8.3 91 445-554 186-281 (845)
285 PF13401 AAA_22: AAA domain; P 80.5 1 2.2E-05 41.0 2.0 20 33-52 2-21 (131)
286 PRK05342 clpX ATP-dependent pr 80.5 1.6 3.5E-05 48.5 3.9 16 36-51 109-124 (412)
287 PF07728 AAA_5: AAA domain (dy 80.5 3 6.6E-05 38.5 5.2 15 37-51 1-15 (139)
288 COG4889 Predicted helicase [Ge 80.5 0.86 1.9E-05 53.4 1.7 45 603-679 537-583 (1518)
289 cd01122 GP4d_helicase GP4d_hel 80.4 2.1 4.6E-05 44.7 4.6 43 30-75 25-67 (271)
290 PRK05201 hslU ATP-dependent pr 80.4 2 4.4E-05 47.4 4.4 33 18-50 17-65 (443)
291 COG0513 SrmB Superfamily II DN 80.0 9.4 0.0002 44.0 10.0 88 522-624 262-351 (513)
292 PRK04328 hypothetical protein; 79.9 3.9 8.5E-05 42.2 6.3 51 34-89 22-72 (249)
293 KOG1807 Helicases [Replication 79.7 4.7 0.0001 46.9 7.1 53 34-87 392-447 (1025)
294 COG1419 FlhF Flagellar GTP-bin 79.5 3 6.6E-05 45.5 5.4 41 35-76 203-243 (407)
295 PLN03142 Probable chromatin-re 79.5 17 0.00037 45.2 12.4 85 530-626 485-570 (1033)
296 KOG0745 Putative ATP-dependent 79.5 1.6 3.5E-05 47.5 3.2 44 35-85 226-269 (564)
297 TIGR03015 pepcterm_ATPase puta 79.4 2.9 6.3E-05 43.5 5.2 35 18-52 25-60 (269)
298 COG0593 DnaA ATPase involved i 79.3 6.8 0.00015 43.2 8.1 53 23-77 96-153 (408)
299 PF02367 UPF0079: Uncharacteri 79.1 1.7 3.6E-05 39.5 2.8 52 22-80 2-53 (123)
300 PRK14722 flhF flagellar biosyn 79.0 3 6.5E-05 45.6 5.2 22 33-54 135-156 (374)
301 PF02456 Adeno_IVa2: Adenoviru 78.9 3.8 8.3E-05 42.8 5.6 40 37-78 89-128 (369)
302 PF13177 DNA_pol3_delta2: DNA 78.9 3.4 7.4E-05 39.6 5.1 35 20-54 1-38 (162)
303 PRK10436 hypothetical protein; 78.7 3.9 8.4E-05 46.2 6.2 26 34-60 217-242 (462)
304 PRK05580 primosome assembly pr 78.7 25 0.00055 42.0 13.3 135 576-738 468-623 (679)
305 PHA02533 17 large terminase pr 78.6 9.7 0.00021 43.9 9.4 73 12-91 56-128 (534)
306 TIGR00635 ruvB Holliday juncti 78.6 3 6.5E-05 44.4 5.1 33 20-52 8-47 (305)
307 PRK05642 DNA replication initi 78.5 5.3 0.00011 40.8 6.7 37 36-76 46-82 (234)
308 KOG0384 Chromodomain-helicase 78.5 3.2 7E-05 50.7 5.6 72 16-90 370-442 (1373)
309 COG4096 HsdR Type I site-speci 78.5 31 0.00068 41.0 13.3 127 518-683 407-545 (875)
310 COG0467 RAD55 RecA-superfamily 78.3 2.6 5.7E-05 43.8 4.4 53 31-88 19-71 (260)
311 PF00448 SRP54: SRP54-type pro 78.3 5.4 0.00012 39.6 6.4 38 37-77 3-40 (196)
312 TIGR00348 hsdR type I site-spe 78.2 21 0.00044 42.7 12.4 83 532-622 514-617 (667)
313 PF14532 Sigma54_activ_2: Sigm 78.2 3.2 7E-05 38.4 4.6 30 22-51 8-37 (138)
314 PRK14950 DNA polymerase III su 78.2 1.8 3.8E-05 50.8 3.4 36 20-55 20-58 (585)
315 COG0610 Type I site-specific r 77.8 7.6 0.00017 48.1 8.8 77 10-90 244-326 (962)
316 PRK08084 DNA replication initi 77.8 5.3 0.00011 40.9 6.4 52 21-76 29-82 (235)
317 TIGR03880 KaiC_arch_3 KaiC dom 77.7 5.8 0.00012 40.1 6.7 51 34-89 15-65 (224)
318 PRK05896 DNA polymerase III su 77.6 1.8 4E-05 50.0 3.2 36 20-55 20-58 (605)
319 TIGR00150 HI0065_YjeE ATPase, 77.6 2.1 4.6E-05 39.5 3.0 51 23-80 10-60 (133)
320 PRK07133 DNA polymerase III su 77.6 1.9 4.1E-05 51.0 3.4 36 20-55 22-60 (725)
321 PRK06067 flagellar accessory p 77.5 5.1 0.00011 40.8 6.2 53 32-89 22-74 (234)
322 PRK14958 DNA polymerase III su 77.2 2.8 6.1E-05 48.1 4.6 35 20-54 20-57 (509)
323 KOG0744 AAA+-type ATPase [Post 77.2 3.4 7.3E-05 43.5 4.6 49 36-87 178-230 (423)
324 PRK00080 ruvB Holliday junctio 77.1 3.1 6.7E-05 44.9 4.7 34 20-53 29-69 (328)
325 TIGR02655 circ_KaiC circadian 77.1 4.2 9.2E-05 46.5 6.0 50 35-89 263-312 (484)
326 PRK06645 DNA polymerase III su 77.1 3.1 6.7E-05 47.6 4.8 35 20-54 25-62 (507)
327 PHA02544 44 clamp loader, smal 77.0 2.9 6.2E-05 44.8 4.4 41 12-52 9-60 (316)
328 COG1875 NYN ribonuclease and A 76.9 5.9 0.00013 42.5 6.4 62 12-78 224-287 (436)
329 PRK08903 DnaA regulatory inact 76.9 4.9 0.00011 40.7 5.9 37 35-75 42-78 (227)
330 cd01129 PulE-GspE PulE/GspE Th 76.7 5.8 0.00013 41.4 6.4 30 29-59 73-103 (264)
331 PRK13764 ATPase; Provisional 76.4 6.5 0.00014 45.7 7.2 49 11-60 232-281 (602)
332 TIGR03878 thermo_KaiC_2 KaiC d 76.4 3.7 8E-05 42.7 4.9 38 33-74 34-71 (259)
333 COG0630 VirB11 Type IV secreto 76.3 6.5 0.00014 42.1 6.8 49 25-78 133-181 (312)
334 PRK11608 pspF phage shock prot 76.1 9.6 0.00021 41.1 8.1 57 18-77 12-68 (326)
335 PRK12723 flagellar biosynthesi 75.7 9.6 0.00021 42.0 8.0 19 36-54 175-193 (388)
336 PRK14963 DNA polymerase III su 75.6 3.6 7.9E-05 47.1 4.9 35 20-54 18-55 (504)
337 cd01126 TraG_VirD4 The TraG/Tr 75.4 1.4 3E-05 48.8 1.5 43 37-85 1-43 (384)
338 KOG4150 Predicted ATP-dependen 75.3 46 0.00099 37.8 12.8 170 453-679 453-636 (1034)
339 TIGR02538 type_IV_pilB type IV 75.3 5.9 0.00013 46.2 6.6 31 29-60 309-340 (564)
340 TIGR02902 spore_lonB ATP-depen 75.0 2.9 6.2E-05 48.3 3.9 34 19-52 68-103 (531)
341 PF05496 RuvB_N: Holliday junc 74.8 6.2 0.00013 39.8 5.7 33 18-50 26-65 (233)
342 PRK13765 ATP-dependent proteas 74.7 5.5 0.00012 46.8 6.2 66 18-87 33-99 (637)
343 COG3598 RepA RecA-family ATPas 74.6 6.3 0.00014 41.5 5.7 45 31-76 85-136 (402)
344 PRK05703 flhF flagellar biosyn 74.5 4.4 9.4E-05 45.4 5.1 39 35-75 221-259 (424)
345 cd01120 RecA-like_NTPases RecA 74.5 5.2 0.00011 37.5 5.1 38 37-78 1-38 (165)
346 TIGR03499 FlhF flagellar biosy 74.5 4.3 9.3E-05 42.8 4.8 18 36-53 195-212 (282)
347 PF12846 AAA_10: AAA-like doma 74.5 4 8.6E-05 43.0 4.7 37 35-75 1-37 (304)
348 PRK14954 DNA polymerase III su 74.3 3.8 8.3E-05 48.0 4.7 35 20-54 20-57 (620)
349 PRK14969 DNA polymerase III su 74.2 3.9 8.4E-05 47.2 4.7 35 20-54 20-57 (527)
350 TIGR03881 KaiC_arch_4 KaiC dom 74.2 4.2 9.1E-05 41.2 4.6 40 32-75 17-56 (229)
351 CHL00181 cbbX CbbX; Provisiona 74.0 4.6 0.0001 42.7 4.9 20 36-55 60-79 (287)
352 PF01745 IPT: Isopentenyl tran 74.0 4.3 9.4E-05 40.4 4.3 32 37-75 3-34 (233)
353 KOG0344 ATP-dependent RNA heli 74.0 16 0.00035 41.4 9.2 80 530-622 385-464 (593)
354 TIGR02442 Cob-chelat-sub cobal 73.9 3.4 7.3E-05 48.9 4.2 40 12-52 1-42 (633)
355 PRK14949 DNA polymerase III su 73.9 3.9 8.4E-05 49.3 4.7 36 20-55 20-58 (944)
356 TIGR00609 recB exodeoxyribonuc 73.8 5.7 0.00012 50.2 6.4 53 35-88 9-63 (1087)
357 cd01125 repA Hexameric Replica 73.8 5.1 0.00011 41.0 5.1 39 36-75 2-49 (239)
358 KOG0734 AAA+-type ATPase conta 73.7 5.8 0.00012 44.5 5.5 51 19-76 310-371 (752)
359 PRK11034 clpA ATP-dependent Cl 73.6 3.1 6.6E-05 50.0 3.8 33 20-52 462-505 (758)
360 COG3973 Superfamily I DNA and 73.5 9.7 0.00021 43.5 7.3 44 513-556 636-679 (747)
361 PRK13897 type IV secretion sys 73.5 3.9 8.5E-05 47.7 4.6 44 35-84 158-201 (606)
362 PRK05563 DNA polymerase III su 73.5 3.1 6.8E-05 48.3 3.8 37 20-56 20-59 (559)
363 cd01131 PilT Pilus retraction 73.5 5.5 0.00012 39.5 5.1 17 36-52 2-18 (198)
364 PF03237 Terminase_6: Terminas 73.5 5.3 0.00012 43.4 5.5 45 39-85 1-45 (384)
365 COG1126 GlnQ ABC-type polar am 73.4 1.5 3.2E-05 43.6 0.9 61 2-73 2-62 (240)
366 PRK14965 DNA polymerase III su 73.4 3 6.5E-05 48.7 3.6 35 20-54 20-57 (576)
367 PRK04296 thymidine kinase; Pro 73.3 5.5 0.00012 39.2 5.0 35 35-73 2-36 (190)
368 TIGR02881 spore_V_K stage V sp 73.3 4.4 9.6E-05 42.1 4.5 18 36-53 43-60 (261)
369 PF03796 DnaB_C: DnaB-like hel 73.2 4.9 0.00011 41.7 4.9 47 27-76 11-57 (259)
370 PRK00149 dnaA chromosomal repl 73.2 13 0.00028 42.1 8.6 39 36-76 149-187 (450)
371 TIGR02688 conserved hypothetic 73.1 4.8 0.0001 44.5 4.8 34 19-52 193-226 (449)
372 TIGR02759 TraD_Ftype type IV c 73.1 4.5 9.8E-05 47.0 4.9 38 35-76 176-213 (566)
373 PHA00729 NTP-binding motif con 73.1 5.2 0.00011 40.4 4.7 27 24-50 4-32 (226)
374 COG5008 PilU Tfp pilus assembl 73.1 2.9 6.3E-05 42.7 2.9 32 31-63 123-154 (375)
375 PRK06893 DNA replication initi 73.1 9.5 0.00021 38.8 6.8 50 23-76 25-76 (229)
376 TIGR03743 SXT_TraD conjugative 73.0 14 0.00031 43.6 9.0 93 528-628 508-606 (634)
377 PRK09361 radB DNA repair and r 73.0 4.6 9.9E-05 40.9 4.5 37 34-74 22-58 (225)
378 PRK13822 conjugal transfer cou 72.2 5.8 0.00013 46.8 5.6 69 35-120 224-292 (641)
379 TIGR03744 traC_PFL_4706 conjug 72.2 14 0.00029 45.8 9.0 73 35-121 475-547 (893)
380 TIGR03346 chaperone_ClpB ATP-d 71.8 3.4 7.3E-05 50.8 3.7 35 18-52 567-612 (852)
381 PRK14964 DNA polymerase III su 71.8 4.7 0.0001 45.8 4.6 35 20-54 17-54 (491)
382 TIGR02237 recomb_radB DNA repa 71.6 9.6 0.00021 38.0 6.4 37 35-75 12-48 (209)
383 PRK13342 recombination factor 71.6 3.6 7.9E-05 46.0 3.7 34 20-53 16-54 (413)
384 PRK14088 dnaA chromosomal repl 71.6 10 0.00022 42.7 7.2 38 36-75 131-168 (440)
385 PF06862 DUF1253: Protein of u 71.4 23 0.0005 39.6 9.7 85 529-625 297-381 (442)
386 PF00931 NB-ARC: NB-ARC domain 71.1 9.7 0.00021 39.9 6.6 66 22-88 2-71 (287)
387 PF06068 TIP49: TIP49 C-termin 70.9 12 0.00027 40.5 7.1 33 19-51 30-66 (398)
388 TIGR02533 type_II_gspE general 70.7 7 0.00015 44.6 5.6 29 30-59 236-265 (486)
389 PRK12323 DNA polymerase III su 70.5 5.4 0.00012 46.5 4.7 35 20-54 20-57 (700)
390 PRK14086 dnaA chromosomal repl 70.5 8 0.00017 45.0 6.0 39 36-76 315-353 (617)
391 PRK14957 DNA polymerase III su 70.4 5.7 0.00012 45.8 4.9 35 20-54 20-57 (546)
392 TIGR02639 ClpA ATP-dependent C 70.4 4.9 0.00011 48.5 4.6 32 20-51 458-500 (731)
393 TIGR01817 nifA Nif-specific re 70.3 12 0.00026 43.4 7.7 28 24-51 208-235 (534)
394 smart00763 AAA_PrkA PrkA AAA d 70.2 7.2 0.00016 42.3 5.3 42 10-51 44-94 (361)
395 PF05729 NACHT: NACHT domain 70.2 7.2 0.00016 36.7 4.9 25 37-61 2-26 (166)
396 COG0514 RecQ Superfamily II DN 70.2 48 0.001 38.5 12.1 140 452-625 167-309 (590)
397 TIGR00362 DnaA chromosomal rep 70.2 12 0.00025 41.8 7.2 38 36-75 137-174 (405)
398 PF00004 AAA: ATPase family as 70.0 4.1 9E-05 36.8 3.1 14 38-51 1-14 (132)
399 KOG0729 26S proteasome regulat 69.9 4.1 9E-05 41.5 3.1 34 19-52 183-228 (435)
400 PRK07471 DNA polymerase III su 69.8 6.4 0.00014 43.1 4.9 35 20-54 23-60 (365)
401 PF07724 AAA_2: AAA domain (Cd 69.7 4.1 8.8E-05 39.5 3.0 15 36-50 4-18 (171)
402 cd01127 TrwB Bacterial conjuga 69.6 5.9 0.00013 44.2 4.8 41 35-79 42-82 (410)
403 KOG0922 DEAH-box RNA helicase 69.5 18 0.00038 41.8 8.3 189 445-675 187-383 (674)
404 KOG0920 ATP-dependent RNA heli 69.4 4 8.6E-05 49.3 3.4 105 453-560 321-441 (924)
405 TIGR01420 pilT_fam pilus retra 69.4 7.6 0.00016 42.2 5.4 26 27-52 113-139 (343)
406 PRK09111 DNA polymerase III su 69.3 5.7 0.00012 46.4 4.7 35 20-54 28-65 (598)
407 PRK12422 chromosomal replicati 69.2 14 0.00031 41.6 7.7 36 36-75 142-177 (445)
408 PRK10865 protein disaggregatio 69.1 3.9 8.5E-05 50.1 3.4 35 18-52 570-615 (857)
409 COG0470 HolB ATPase involved i 69.0 6.5 0.00014 42.0 4.8 39 18-56 4-45 (325)
410 PRK13850 type IV secretion sys 68.7 1.8 4E-05 51.0 0.5 41 36-82 140-180 (670)
411 PRK06871 DNA polymerase III su 68.6 7.6 0.00016 41.7 5.1 38 17-54 3-43 (325)
412 PRK14712 conjugal transfer nic 68.6 13 0.00028 48.1 7.8 63 17-83 836-900 (1623)
413 TIGR02760 TraI_TIGR conjugativ 68.5 14 0.00031 49.4 8.5 63 17-86 430-493 (1960)
414 TIGR02974 phageshock_pspF psp 68.5 12 0.00025 40.5 6.6 30 22-51 9-38 (329)
415 PRK15429 formate hydrogenlyase 68.3 11 0.00024 45.2 7.0 31 20-50 384-414 (686)
416 PRK07003 DNA polymerase III su 68.2 6.2 0.00014 46.8 4.6 35 20-54 20-57 (830)
417 TIGR02788 VirB11 P-type DNA tr 68.2 5.8 0.00013 42.4 4.2 24 28-51 137-160 (308)
418 TIGR00665 DnaB replicative DNA 68.2 5.5 0.00012 44.8 4.2 54 28-85 188-241 (434)
419 PRK12900 secA preprotein trans 68.0 6.4 0.00014 47.8 4.7 65 5-80 128-192 (1025)
420 PRK05986 cob(I)alamin adenolsy 67.7 18 0.00039 35.6 7.0 40 30-73 17-56 (191)
421 COG0210 UvrD Superfamily I DNA 67.7 11 0.00023 45.0 6.7 67 17-91 3-71 (655)
422 PRK08691 DNA polymerase III su 67.5 6.8 0.00015 46.1 4.7 35 20-54 20-57 (709)
423 COG1702 PhoH Phosphate starvat 67.5 8.4 0.00018 41.0 5.0 53 17-76 129-181 (348)
424 COG2256 MGS1 ATPase related to 67.5 12 0.00025 40.9 6.1 65 19-90 27-99 (436)
425 PRK09112 DNA polymerase III su 67.4 7.4 0.00016 42.4 4.8 34 20-53 27-63 (351)
426 TIGR03600 phage_DnaB phage rep 67.3 6.7 0.00014 44.0 4.6 42 30-74 189-230 (421)
427 COG1223 Predicted ATPase (AAA+ 67.2 3.8 8.2E-05 41.8 2.2 16 36-51 152-167 (368)
428 TIGR02784 addA_alphas double-s 66.9 11 0.00024 48.0 6.9 53 30-83 5-57 (1141)
429 PRK14951 DNA polymerase III su 66.6 7.1 0.00015 45.7 4.7 36 20-55 20-58 (618)
430 PRK13876 conjugal transfer cou 66.5 2.1 4.5E-05 50.5 0.3 40 35-80 144-183 (663)
431 cd01394 radB RadB. The archaea 66.4 8 0.00017 38.8 4.6 38 33-74 17-54 (218)
432 PRK11823 DNA repair protein Ra 66.3 11 0.00024 42.5 6.0 49 33-86 78-126 (446)
433 TIGR02397 dnaX_nterm DNA polym 66.3 7 0.00015 42.5 4.4 35 19-53 17-54 (355)
434 COG0542 clpA ATP-binding subun 66.3 6.7 0.00015 46.7 4.4 35 19-53 494-539 (786)
435 PTZ00361 26 proteosome regulat 65.9 7.2 0.00016 43.7 4.4 17 36-52 218-234 (438)
436 TIGR02655 circ_KaiC circadian 65.2 8.5 0.00018 44.0 5.0 53 33-89 19-71 (484)
437 COG1136 SalX ABC-type antimicr 65.1 6.3 0.00014 39.8 3.4 63 5-74 4-66 (226)
438 PRK09302 circadian clock prote 64.3 12 0.00025 43.2 5.9 50 35-89 273-322 (509)
439 PRK07764 DNA polymerase III su 64.3 8 0.00017 47.0 4.7 37 20-56 19-58 (824)
440 COG1221 PspF Transcriptional r 64.1 12 0.00026 41.2 5.5 20 34-53 100-119 (403)
441 KOG0058 Peptide exporter, ABC 63.9 5.3 0.00012 46.6 2.9 60 8-73 469-528 (716)
442 PRK07994 DNA polymerase III su 63.8 8.7 0.00019 45.2 4.7 36 20-55 20-58 (647)
443 PRK14948 DNA polymerase III su 63.7 8.3 0.00018 45.4 4.6 36 20-55 20-58 (620)
444 KOG0731 AAA+-type ATPase conta 63.7 7.8 0.00017 45.9 4.3 18 36-53 345-362 (774)
445 KOG0739 AAA+-type ATPase [Post 63.7 11 0.00023 39.3 4.7 46 37-90 168-213 (439)
446 TIGR00595 priA primosomal prot 63.7 73 0.0016 36.7 12.1 133 577-738 301-454 (505)
447 PRK12903 secA preprotein trans 63.6 16 0.00034 44.0 6.7 141 441-612 351-492 (925)
448 PRK13709 conjugal transfer nic 63.6 19 0.00042 47.2 8.1 62 17-83 968-1032(1747)
449 cd03115 SRP The signal recogni 63.6 11 0.00025 36.1 4.9 34 37-74 2-35 (173)
450 CHL00095 clpC Clp protease ATP 63.5 7.6 0.00016 47.5 4.4 38 19-58 512-560 (821)
451 PF05872 DUF853: Bacterial pro 63.5 5.8 0.00013 43.9 3.0 35 35-73 19-53 (502)
452 PRK06305 DNA polymerase III su 63.5 8.7 0.00019 43.4 4.6 36 20-55 21-59 (451)
453 KOG1806 DEAD box containing he 63.4 12 0.00025 45.3 5.5 73 12-88 728-804 (1320)
454 KOG0923 mRNA splicing factor A 63.1 5.2 0.00011 45.9 2.6 24 27-50 272-295 (902)
455 TIGR03819 heli_sec_ATPase heli 63.0 7.9 0.00017 42.0 3.9 25 27-51 170-194 (340)
456 PRK14970 DNA polymerase III su 62.8 9.6 0.00021 41.8 4.7 35 20-54 21-58 (367)
457 PRK07993 DNA polymerase III su 62.7 9.1 0.0002 41.4 4.4 38 17-54 3-43 (334)
458 PF13555 AAA_29: P-loop contai 62.6 10 0.00022 29.9 3.5 25 35-61 23-47 (62)
459 PRK07940 DNA polymerase III su 62.6 11 0.00023 41.8 4.9 35 20-54 9-55 (394)
460 COG1222 RPT1 ATP-dependent 26S 62.6 4.8 0.0001 43.0 2.1 47 36-90 186-232 (406)
461 PRK03992 proteasome-activating 62.5 7.7 0.00017 43.0 3.9 16 36-51 166-181 (389)
462 COG1074 RecB ATP-dependent exo 62.4 10 0.00022 48.1 5.3 51 31-82 12-64 (1139)
463 PRK14953 DNA polymerase III su 62.3 9.8 0.00021 43.4 4.7 35 20-54 20-57 (486)
464 PRK09302 circadian clock prote 62.2 10 0.00022 43.7 4.9 54 32-89 28-81 (509)
465 PRK13880 conjugal transfer cou 61.7 1.9 4.2E-05 50.8 -1.1 38 36-79 176-213 (636)
466 COG3638 ABC-type phosphate/pho 61.6 1.7 3.6E-05 43.8 -1.4 44 1-50 2-45 (258)
467 TIGR02767 TraG-Ti Ti-type conj 61.5 3.3 7.1E-05 48.5 0.7 46 36-88 212-257 (623)
468 PRK08760 replicative DNA helic 61.4 9.4 0.0002 43.5 4.4 51 31-85 225-275 (476)
469 COG0553 HepA Superfamily II DN 61.3 28 0.00061 42.8 9.0 73 16-90 338-412 (866)
470 PRK12901 secA preprotein trans 61.3 10 0.00022 46.4 4.6 140 441-611 553-693 (1112)
471 PRK04195 replication factor C 61.1 14 0.0003 42.3 5.7 18 35-52 39-56 (482)
472 PF10236 DAP3: Mitochondrial r 61.1 24 0.00052 37.7 7.2 45 18-63 4-50 (309)
473 PRK05022 anaerobic nitric oxid 61.0 24 0.00051 40.7 7.6 29 23-51 198-226 (509)
474 PF04665 Pox_A32: Poxvirus A32 61.0 12 0.00026 38.3 4.6 40 35-78 13-52 (241)
475 COG4525 TauB ABC-type taurine 60.9 8.7 0.00019 37.7 3.3 44 3-51 4-47 (259)
476 PRK05748 replicative DNA helic 60.9 9 0.0002 43.3 4.1 41 31-74 199-239 (448)
477 cd01121 Sms Sms (bacterial rad 60.3 18 0.00039 39.7 6.2 48 32-84 79-126 (372)
478 PRK11388 DNA-binding transcrip 60.3 23 0.00051 42.0 7.7 28 24-51 337-364 (638)
479 CHL00176 ftsH cell division pr 60.2 9.4 0.0002 45.1 4.2 39 18-58 188-237 (638)
480 KOG0335 ATP-dependent RNA heli 60.2 69 0.0015 36.0 10.5 104 534-681 339-442 (482)
481 TIGR02760 TraI_TIGR conjugativ 60.1 22 0.00048 47.6 8.0 62 17-84 1020-1085(1960)
482 COG2519 GCD14 tRNA(1-methylade 59.8 23 0.00049 36.3 6.2 23 66-89 188-210 (256)
483 PF13872 AAA_34: P-loop contai 59.8 3.1 6.7E-05 43.7 0.1 38 201-238 136-183 (303)
484 PRK12724 flagellar biosynthesi 59.8 14 0.00031 40.9 5.2 37 36-75 224-260 (432)
485 PRK05595 replicative DNA helic 59.7 11 0.00023 42.7 4.4 46 27-75 193-238 (444)
486 COG1220 HslU ATP-dependent pro 59.7 7.9 0.00017 41.1 3.0 32 20-51 19-66 (444)
487 PRK14729 miaA tRNA delta(2)-is 59.6 7.8 0.00017 41.1 3.1 41 35-88 4-44 (300)
488 PRK09165 replicative DNA helic 59.2 11 0.00023 43.3 4.3 30 32-61 214-243 (497)
489 PF13207 AAA_17: AAA domain; P 59.1 5.4 0.00012 35.6 1.6 13 38-50 2-14 (121)
490 PRK12727 flagellar biosynthesi 59.0 14 0.00031 42.1 5.2 21 32-52 347-367 (559)
491 PRK06620 hypothetical protein; 58.8 10 0.00023 38.1 3.8 16 36-51 45-60 (214)
492 PRK00771 signal recognition pa 58.8 36 0.00079 38.2 8.3 37 37-77 97-134 (437)
493 TIGR02012 tigrfam_recA protein 58.5 18 0.00039 38.7 5.6 46 31-80 51-96 (321)
494 TIGR01547 phage_term_2 phage t 58.5 25 0.00054 39.0 7.1 53 37-90 3-56 (396)
495 TIGR03345 VI_ClpV1 type VI sec 58.3 9.2 0.0002 46.8 3.8 34 19-52 569-613 (852)
496 TIGR01241 FtsH_fam ATP-depende 58.3 10 0.00023 43.4 4.1 22 36-59 89-110 (495)
497 COG1116 TauB ABC-type nitrate/ 58.3 3 6.5E-05 42.4 -0.3 62 2-74 3-64 (248)
498 PRK05707 DNA polymerase III su 58.3 10 0.00023 40.8 3.8 37 17-54 4-41 (328)
499 TIGR01242 26Sp45 26S proteasom 58.2 11 0.00023 41.4 4.0 16 36-51 157-172 (364)
500 PRK10646 ADP-binding protein; 58.2 9.3 0.0002 36.1 3.0 52 22-80 15-66 (153)
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=8.8e-143 Score=1111.18 Aligned_cols=747 Identities=64% Similarity=1.075 Sum_probs=722.4
Q ss_pred CEEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhH
Q 004358 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (759)
Q Consensus 1 m~~~i~~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~ 80 (759)
|+|.|+++.|+|||..+||+|.++|.++.++|+.++|+++|+|+|||||.++|+-+++|+...|+...|+||||||.+.+
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 99999999999999999999999999999999999999999999999999999999999999985555999999999999
Q ss_pred HHHHHHHHhhhhhcccCCCCccceEEEeecCCcccccchHHhhhcccccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccc
Q 004358 81 EKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFEN 160 (759)
Q Consensus 81 ~Q~~~el~~l~~~~~~~~g~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~t~~~~~~~~~c~~~~~ 160 (759)
+..+.||+++..|+.+++|...++....|.||+|+|+|+.+....++..++.+|+++++.|++++...|++...|.||+|
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 99999999999999999998899999999999999999999988888899999999999999999888888889999999
Q ss_pred hHHhhhcCCCCCCCCCHHHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCCChh
Q 004358 161 YEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNID 240 (759)
Q Consensus 161 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~ivI~DEAHnl~ 240 (759)
+.. ....+|.|+|+.+++.++|.+.++||||.+|..+..|+|||.+|+||+||.+.+.+..++.+.++|||||||||+
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 876 234689999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhcceeecHHHHHHHHHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHHhcCCCccchhcccCCCCChhhhhhccC
Q 004358 241 NVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVP 320 (759)
Q Consensus 241 ~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 320 (759)
++|.+.+|..|+...++++.+++..+.+.+.+++..|.++|+++|++++++|+........+.|+.||.+|++++.+.+|
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 99999999999999999999999999988888998999999999999999999877666778999999999999999999
Q ss_pred cchhchHHHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHHhhccccchhhhhHHHHHHHHHHhhccCCCccchhHHH
Q 004358 321 GNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTI 400 (759)
Q Consensus 321 ~~i~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~l~~~l~~~~~~~~~~l~~i 400 (759)
|||+++++|+.++++++++++.+++...+..|+|.+|++.+.+..+++.+++++|.+||++++.+|++.+.++|.+|..+
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 99999999999999999999999998888999999999999999999999999999999999999999999999999999
Q ss_pred HhHHHHhccccCCeEEEEecCCCCCCCCCCCeEEEEccCcccccHHHhhccCEEEEecCCCCCCcchhhhhCCCCccccc
Q 004358 401 CDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRS 480 (759)
Q Consensus 401 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~~~~l~~~~~svIltSgTL~p~~~f~~~lg~~~~~~~~ 480 (759)
++|++++++|.++|.++++|.+.+.++..++.+++.|+|.|.+++++|++++|||+|||||+|.++|.++|+|.++...+
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 99999999999999999999998888899999999999999999999999999999999999999999999999998899
Q ss_pred ceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHH
Q 004358 481 FKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKE 560 (759)
Q Consensus 481 ~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~ 560 (759)
+.+++.++++.|+++++|.|+..+++.|+.|+++...+++|+.+.++++.+|||+++|||||-+|+.+...|...|++++
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 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHH
Q 004358 561 IMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYL 640 (759)
Q Consensus 561 l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l 640 (759)
+.++|.+|+|.+|..+++.++++|+++|+.|+||||++|+||+++|||||..+++|+||+.|+||....+-.+++|.+||
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 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCchHHHhhccccccCCCHHHHHHHHHHH
Q 004358 641 RDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALHIAREF 720 (759)
Q Consensus 641 ~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~~~~~~~~F 720 (759)
++++++..++|.+++|||...||+||++|+++|||.+|+.|+||...+.+..||+|+++++...+.|+++|+++...++|
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 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCCCcCCcccccccccHHHHHhhhc
Q 004358 721 LRKMAQPYDKAGSIGRKTLLSQADLEKMTN 750 (759)
Q Consensus 721 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 750 (759)
++.|+|||...|+ +|.|+||+|+|++|+.
T Consensus 719 lR~maQp~~k~dq-~G~Sll~~edle~~~~ 747 (755)
T KOG1131|consen 719 LRLMAQPFDKEDQ-LGVSLLSLEDLEKMQE 747 (755)
T ss_pred HHHhcCCCCcccc-cccccccHHHHHHHHH
Confidence 9999999999999 9999999999998854
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=7.3e-113 Score=1003.61 Aligned_cols=690 Identities=46% Similarity=0.824 Sum_probs=532.3
Q ss_pred CeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHH
Q 004358 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 7 ~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
+++|+|||+++||+|+++|++|++++++++++++|||||||||+|.|+|+|+|+.+.+... ||+||||||+|+.|+++|
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 4689999999999999999999999999999999999999999999999999998665446 999999999999999999
Q ss_pred HHhhhhhcccCCCCccceEEEeecCCcccccchHHhhhcccccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHh-h
Q 004358 87 LKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKA-A 165 (759)
Q Consensus 87 l~~l~~~~~~~~g~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~t~~~~~~~~~c~~~~~~~~~-~ 165 (759)
|+++..+.....+...++++++|+||+++|+|+.+.........++.|+.+...|..+....+.+...|+||++.... .
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 999753221111223468999999999999999887665555678899988765543222111223579999887543 1
Q ss_pred hcCCCCCCCCCHHHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCCChhHHhhh
Q 004358 166 SAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIE 245 (759)
Q Consensus 166 ~~~~~~~~~~~~e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~ivI~DEAHnl~~~~~~ 245 (759)
....+..+++|+|++++.|+.++.||||.+|+.++.|||||+|||||||+.++..+...+ ++.+|||||||||+++|++
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 112345679999999999999999999999999999999999999999999998777665 7899999999999999999
Q ss_pred hcceeecHHHHHHHHHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHHhcCCCccchhcccCCCCChhhhhhccCcchhc
Q 004358 246 ALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRR 325 (759)
Q Consensus 246 ~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 325 (759)
++|.+|+..+|..+.+++.++..........+...+.+.+.+++..+.+.........+..++..+..+....+++.++.
T Consensus 239 ~~S~~ls~~~l~~a~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 318 (705)
T TIGR00604 239 SLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKLLDELQKLVEGLKQEDLLTDEDIFLANPVLPKEVLPEAVPGNIRI 318 (705)
T ss_pred HHhcccCHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcccchhhhcCcCchhhccHHHhcccCCc
Confidence 99999999999999999988755443211112222334455555555432110000111222222222222233343333
Q ss_pred hHHHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHHhhccccchhhhhHHHHHHHHHHhhccCCCccchhHHH---Hh
Q 004358 326 AEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTI---CD 402 (759)
Q Consensus 326 ~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~l~~~l~~~~~~~~~~l~~i---~~ 402 (759)
...+...+.++++......+......+....+...+.+...++. .++++.+++...+..+.......+.....+ ..
T Consensus 319 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 397 (705)
T TIGR00604 319 AEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLEHLKEKTFIDR-PLRFCSERLSNLLRELEITHPEDFSALVLLFTFAT 397 (705)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhcccch-hhhHHHHHHHHHHhhhccccccccccchHHHHHHH
Confidence 34444444333322111110001111122334333444333333 566677788777766654444445433333 33
Q ss_pred HHHHh-ccccCCeEEEEecCCCCCCCCCCCeEEEEccCcccccHHHhhccCEEEEecCCCCCCcchhhhhCCCCcccccc
Q 004358 403 FATLV-GTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRSF 481 (759)
Q Consensus 403 f~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~~~~l~~~~~svIltSgTL~p~~~f~~~lg~~~~~~~~~ 481 (759)
|.... ..+..++..+.. . +..+..|+++|+||+..|++++++++|+|||||||+|.++|.+.||+++....+.
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 33322 112223332221 1 1235789999999999999999999999999999999999999999976655566
Q ss_pred eeeccCCceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHH
Q 004358 482 KMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEI 561 (759)
Q Consensus 482 ~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l 561 (759)
++++++++++++++++|+++.+++++|..|+++++.+++++.|.++++.+|||+|||||||.+|+++++.|.+.+.+.++
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 78888999998999999999999999999999999999999999999999999999999999999999999999988888
Q ss_pred hcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHH
Q 004358 562 MQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLR 641 (759)
Q Consensus 562 ~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~ 641 (759)
...|+||+|+++..+++.++++|++.++.++|+||||||||+|||||||+|+.||+|||+|||||+|.||.+++|++|++
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 77789999999876788999999998888889999999999999999999999999999999999999999999999999
Q ss_pred HhcCCCcc-hhhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCchHHHhhccccc
Q 004358 642 DTFQIKEG-DFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAH 705 (759)
Q Consensus 642 ~~~~~~~~-~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD~R~~~~~~~~~lp~w~~~~~~~~~ 705 (759)
+.++..++ .||..+|+++|+||+||+|||++|||+|+|+|+||.++++++.||+|+++++...+
T Consensus 632 ~~~~~~~~~~~y~~~a~~~v~QaiGR~IR~~~D~G~iillD~R~~~~~~~~~lp~W~~~~~~~~~ 696 (705)
T TIGR00604 632 DQYPIRENQDFYEFDAMRAVNQAIGRVIRHKDDYGSIVLLDKRYARSNKRKKLPKWIQDTIQSSD 696 (705)
T ss_pred hhcCCCccHHHHHHHHHHHHHHHhCccccCcCceEEEEEEehhcCCcchhhhcCHHHHhhccccC
Confidence 88655566 89999999999999999999999999999999999999999999999999999765
No 3
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=8e-103 Score=862.66 Aligned_cols=664 Identities=27% Similarity=0.474 Sum_probs=487.0
Q ss_pred EEEEc-CeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC----------------
Q 004358 2 IFKLE-DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---------------- 64 (759)
Q Consensus 2 ~~~i~-~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~---------------- 64 (759)
++.|+ |++|+|||+| ||.|+.||..|..+|+.+.++++|+||||||||++||++|+|+++..
T Consensus 7 ~~~i~~Gv~V~fP~qp-Y~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~ 85 (945)
T KOG1132|consen 7 KIVINIGVPVEFPFQP-YPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFI 85 (945)
T ss_pred ceEeccCceeeccCCc-chHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhcccc
Confidence 35677 9999999997 99999999999999999999999999999999999999999987541
Q ss_pred ----------------------CCCcEEEEEccchhhHHHHHHHHHhhhhhcccCCCCccceEEEeecCCcccccchHHh
Q 004358 65 ----------------------ENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVL 122 (759)
Q Consensus 65 ----------------------~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~g~~~~~~~~~l~gr~~lC~~~~~~ 122 (759)
.+.++|+|+||||+|+.|+++|+++. .| .++.++|+||+|+|+|+.++
T Consensus 86 p~~~s~~~g~~s~e~~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT-~Y---------~vkmtVLgSReq~Cinpev~ 155 (945)
T KOG1132|consen 86 PTQPSDSGGEKSEEAGEPIACYTGIPKIYYASRTHSQLTQVVRELRRT-GY---------RVKMTVLGSREQLCINPEVK 155 (945)
T ss_pred CCCCccCCCCchhhhcCccccccCCceEEEecchHHHHHHHHHHHhhc-CC---------CCceEEeecchhhccCHHHh
Confidence 12349999999999999999999995 22 37789999999999999998
Q ss_pred hhcccccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHhhhcCCCCCCCCCHHHHHHhcccCCCcchHHHHhhcccC
Q 004358 123 AAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFA 202 (759)
Q Consensus 123 ~~~~~~~~~~~c~~l~~~w~~~t~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~Cpy~~ar~~~~~a 202 (759)
.+......+..|++++. ...|.||...........+..+++||||+++.|+....||||.+|++.++|
T Consensus 156 k~~~~~~~~~~C~k~~~------------~~~C~f~~~~~~~sl~~~l~~~i~DIEDLVk~Gk~~~~CPYfaSR~l~edA 223 (945)
T KOG1132|consen 156 KLEGNALQNHVCKKLVK------------SRSCHFYKIVEEKSLQPRLHDEIFDIEDLVKIGKKSRGCPYFASRELKEDA 223 (945)
T ss_pred hhhcchhhhhHHHhhcc------------cccccccccccccccccccCCCcccHHHHHHhCccCcCCcchhhhhhcccC
Confidence 77655566889998763 267999866544433334556799999999999999999999999999999
Q ss_pred eEEEecCccccCHHHHhHhhhccCCCcEEEEcCCCChhHHhhhhcceeecHHHHHHH---HHHHHHHHHHHHHhhhhchh
Q 004358 203 NVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGA---TRNLSRINQEIERFKATDAG 279 (759)
Q Consensus 203 diiv~n~~~ll~~~~~~~~~~~l~~~~ivI~DEAHnl~~~~~~~~s~~is~~~l~~~---~~~l~~~~~~~~~~~~~~~~ 279 (759)
|||+||||||+||.+|.....+| +++|||||||||+|++|++..|++++..+|... .+++......-... ..
T Consensus 224 dIIF~PYnYLiDp~iR~~~~v~L-knsIVIfDEAHNiEdic~esaS~~lts~~l~~~~~l~~e~~~~~~~~~~~----~~ 298 (945)
T KOG1132|consen 224 DIIFCPYNYLIDPKIRRSHKVDL-KNSIVIFDEAHNIEDICRESASFDLTSSDLASGLELINELEQAVTKAAAI----YE 298 (945)
T ss_pred cEEEechhhhcCHhhhccccccc-cccEEEEeccccHHHHHhhcccccccHHHHHHHHHHHHHHHHHHhhhhhh----cC
Confidence 99999999999999999877777 799999999999999999999999998666643 22332221100000 00
Q ss_pred HHHHHHHHHHHHHHhcCCCccchhcccCCCCChhhhhhccCcchhchHHHHHHHHHHHHHHHh----h---hhccccccc
Q 004358 280 RLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRG----R---LETENVEKE 352 (759)
Q Consensus 280 ~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~l~~----~---~~~~~~~~~ 352 (759)
-+.+.-..+.. |+. + +.+.| ..++..+-.+.. . ++..++...
T Consensus 299 pl~ev~~~l~s-------------~l~---~--------------~~e~L-a~l~~~~~~~~~~~d~~~~~~~~~giT~~ 347 (945)
T KOG1132|consen 299 PLREVSLDLIS-------------WLE---L--------------ELEDL-AKLKEILLFLEEAIDKVLLPLDDSGITRP 347 (945)
T ss_pred chhhhhhccch-------------hhh---c--------------chHHH-HHHHHHHHHhhhhcchhccccccccccCC
Confidence 00000000000 000 0 00000 000000000000 0 000011111
Q ss_pred ChhHHHHHHHHhhccccchhhhhHHHHHHHHHHhhccC----CCccchhHHHHhHHHHhc-------------------c
Q 004358 353 GPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITD----TDEFLHIQTICDFATLVG-------------------T 409 (759)
Q Consensus 353 ~~~~~~~~l~~~~~~~~~~~~~~~~rl~~l~~~l~~~~----~~~~~~l~~i~~f~~~~~-------------------~ 409 (759)
... .+........+.......+...+...+..|+... ....+...-+.+++.++. .
T Consensus 348 ~~~-~l~e~~~~a~~t~e~~~~i~~~~~~~v~~le~~~q~~~t~~~s~~~~~~dlld~~fs~~~~~g~~~~~~~~~~e~s 426 (945)
T KOG1132|consen 348 GSP-ILYEEFAKALITSETAEKIVDSLDIAVQHLEGEKQGTATNTGSLWCIFADLLDISFSVILQNGSFSSDASFSVEQS 426 (945)
T ss_pred CcH-HHHHHHHHhccCccccccchhhHHHHHHHhhcccccchhcccchHHHHHHHHHHHhhccccCCccccchhhhhhhh
Confidence 111 1111111111111110001111222222221110 000000000011111100 0
Q ss_pred cc-----------CC--eEEEEecCCCCCCCCCCCeEEEEccCcccccHHHhhc-cCEEEEecCCCCCCcchhhhhCCCC
Q 004358 410 YT-----------RG--FSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDR-FQSVVITSGTLSPIDLYPRLLNFHP 475 (759)
Q Consensus 410 ~~-----------~~--~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~~~~l~~~-~~svIltSgTL~p~~~f~~~lg~~~ 475 (759)
++ ++ .-+|...... ....-+.+++||++|+..|++++.+ +++||||||||+|++.|..+||++.
T Consensus 427 ~~~~~~~d~~~~~~~~~~~v~~~~~s~--~~~~~~vi~~wcf~p~~sf~d~~~k~vrsIiLtSGTLsP~~s~~~El~~~f 504 (945)
T KOG1132|consen 427 YSFGNHLDAPHVINANLGDVWKGKSSR--KLGNYPVINFWCFSPGYSFRDLLGKGVRSIILTSGTLSPMDSFASELGLEF 504 (945)
T ss_pred hcccccCCccccccccccccccccccc--ccCcccceeeeecCcchhHHHHhcccceeEEEecccccCchhHHHHhCCcc
Confidence 00 00 0122221111 0122356899999999999999987 9999999999999999999999998
Q ss_pred cccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhc
Q 004358 476 VVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDS 555 (759)
Q Consensus 476 ~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~ 555 (759)
......+|.+.+.+++..+|++||+...+.++|.+|..++|...+|+.|...++++|.|+|||||||.+|+++.+.|+..
T Consensus 505 ~~~lEn~hii~~~qv~~~vv~~Gp~~~ql~sty~nr~~~ey~~~lg~~i~~v~rvVp~G~L~FfPSY~vmdk~~tfw~~~ 584 (945)
T KOG1132|consen 505 KIQLENPHIINKSQVWVGVVPKGPDGAQLDSTYGNRFTPEYLSELGEAILNVARVVPYGLLIFFPSYPVMDKLITFWQNR 584 (945)
T ss_pred ceeeecchhccccceEEEeeccCCCccccccccccccCHHHHHHHHHHHHHHHhhcccceEEeccchHHHHHHHHHHHcc
Confidence 77778889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccHHHHhcCceEEEeCCCchhHHHHHHHHHHhcc--CCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHH
Q 004358 556 GILKEIMQHKLVFIETQDVVETTLALDNYRKACD--CGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKIL 633 (759)
Q Consensus 556 ~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~--~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v 633 (759)
+.|.++..-|.+++|++...++.++++.|..++. ...|+++++|||||.|||+||+|+..|+||++|||||+..||.|
T Consensus 585 ~~we~~~~vk~l~vEPr~k~~f~e~m~~y~~~i~~pes~ga~~~aVcRGKVSEGlDFsD~~~RaVI~tGlPyP~~~D~~V 664 (945)
T KOG1132|consen 585 GLWERMEKVKKLVVEPRSKSEFTEVMSRYYNAIADPESSGAVFFAVCRGKVSEGLDFSDDNGRAVIITGLPYPPVMDPRV 664 (945)
T ss_pred hHHHHhhcccCceeccCCccchHHHHHHHHHHhhCccccceEEEEEecccccCCCCccccCCceeEEecCCCCCCCCHHH
Confidence 9999999889999999988889999999988765 55689999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCC--------CcchhhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCchHHHhhccccc
Q 004358 634 LARLEYLRDTFQI--------KEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAH 705 (759)
Q Consensus 634 ~ar~~~l~~~~~~--------~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD~R~~~~~~~~~lp~w~~~~~~~~~ 705 (759)
.+|++|++...+. .+.+||..+|+|+||||+||+|||++|||+++|+|.||.+.+....+|+|++.......
T Consensus 665 ~lK~~y~D~~~~~~g~~s~~lsg~eWY~~qA~RAvNQAiGRviRHR~D~Gav~l~D~Rfe~~~~~~~lskw~r~~~~~~~ 744 (945)
T KOG1132|consen 665 KLKKQYLDENSSLKGAKSQLLSGQEWYSQQAYRAVNQAIGRVIRHRNDYGAVILCDDRFENADARSQLSKWIRSVKCDSR 744 (945)
T ss_pred HHHHHhhhhhccccccccccccchHHHHhhHHHHHHHHHHHHHhhhcccceeeEeechhhcCccccccchhhhccccccc
Confidence 9999999987542 37899999999999999999999999999999999999998888889999998333322
Q ss_pred cCCCHHHHHHHHHHHHHHhcCCCCcC
Q 004358 706 LNLSTDMALHIAREFLRKMAQPYDKA 731 (759)
Q Consensus 706 ~~~~~~~~~~~~~~Ff~~~~~~~~~~ 731 (759)
.-+.+..+..+|+.+.++...+
T Consensus 745 ----~~~~~~~~~r~~r~~~~nn~~~ 766 (945)
T KOG1132|consen 745 ----YCEVISSLARKFRTHRSNNSAT 766 (945)
T ss_pred ----cccccchhhhhhhccccccccc
Confidence 2334445566666666554443
No 4
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=1.3e-98 Score=807.42 Aligned_cols=664 Identities=26% Similarity=0.453 Sum_probs=516.7
Q ss_pred cCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC----------------------
Q 004358 6 EDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK---------------------- 63 (759)
Q Consensus 6 ~~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~---------------------- 63 (759)
...+.+|||.| |..|.++|.++++.|++|+.+++|+||||||||+++|++|.|+..+
T Consensus 6 ~~~~F~fPy~P-YdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~eek~~t~~~~~l~~v~~~~~d~ 84 (821)
T KOG1133|consen 6 GAIEFPFPYTP-YDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDFEEKKRTEEARLLETVTGPLHDE 84 (821)
T ss_pred cccccCCCCCc-hhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHhHHhhhhHHHhhhccCCCccccc
Confidence 34677899986 9999999999999999999999999999999999999999997642
Q ss_pred --------------------------------------------------------------------------------
Q 004358 64 -------------------------------------------------------------------------------- 63 (759)
Q Consensus 64 -------------------------------------------------------------------------------- 63 (759)
T Consensus 85 kde~d~~s~wl~~~~~~~~er~~~~r~l~~~qa~~~~re~r~q~~~~~~e~~k~ak~~~~e~~~reyl~~~e~~~pg~~e 164 (821)
T KOG1133|consen 85 KDESDSSSAWLTQFVQKKEERDLVDRNLKAEQARFKQREERLQQLQHRVQGKKGAKRLRQEEEEREYLLSREMLEPGRLE 164 (821)
T ss_pred cccccchhHHHHHHHHHHHhhccchHHHHHhhchHHHHHHHHHhhhhHHhhhhhhhccccccccchhcchhhccCccchh
Confidence
Q ss_pred -----------------------CCCCcEEEEEccchhhHHHHHHHHHhhhhhcccCCCCccceEEEeecCCcccccchH
Q 004358 64 -----------------------PENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSR 120 (759)
Q Consensus 64 -----------------------~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~g~~~~~~~~~l~gr~~lC~~~~ 120 (759)
.+++.||+||+|||+|+.|++.||++. . .+.++|.+.|+||+++|+|+.
T Consensus 165 q~e~~~~~e~s~D~e~~~~~~~~e~~p~KI~ycSRTHSQL~Qfv~ELrKt-~-------f~~~vr~vsL~SRk~LCiNe~ 236 (821)
T KOG1133|consen 165 QLESGEEAESSSDEEKKVASRVDEDAPVKIYYCSRTHSQLAQFVAELKKT-P-------FGKKVRSVSLGSRKNLCINED 236 (821)
T ss_pred hhhcccccccccchhhccccCccccCCeeEEEecccchHHHHHHHHHhhc-c-------cccCceEEeecchhhcccCHH
Confidence 001259999999999999999999984 2 357789999999999999999
Q ss_pred HhhhcccccHHHHHHHhhhHHHHHhhhcC------CCCCCCcCccc--hHHhhhcCCCCCCCCCHHHHHHhcccCCCcch
Q 004358 121 VLAAENRDSVDAACRKRTASWVRALAAEN------PNIETCEFFEN--YEKAASAAVLPPGVYTLQDLRAFGKQQGWCPY 192 (759)
Q Consensus 121 ~~~~~~~~~~~~~c~~l~~~w~~~t~~~~------~~~~~c~~~~~--~~~~~~~~~~~~~~~~~e~~~~~~~~~~~Cpy 192 (759)
|+.++....+|+.|..+...-........ .....||||+. +....+. .+ .++.|+||++..|+..+.|||
T Consensus 237 V~Klk~~~~iNE~Cldlq~s~~~~~~~~~~~~~~~~~~~~Cpf~~~~q~~~~rd~-~l-~e~~DiEdLv~lGk~~~~CPY 314 (821)
T KOG1133|consen 237 VKKLKSVDAINERCLDLQKSKHSLKPSKKMRMTRTKATARCPFYNHTQMEDLRDE-AL-SEVLDIEDLVALGKELRGCPY 314 (821)
T ss_pred hccccchhHHHHHHHHHHhccCcccccccchhcccccccCCCccchhHHHHHHHH-Hh-hhhccHHHHHHhhhhcCCCCc
Confidence 99888888899999876532221100000 01246999943 2222222 22 389999999999999999999
Q ss_pred HHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCCChhHHhhhhcceeecHHHHHHHHHHHHHHHHHHHH
Q 004358 193 FLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIER 272 (759)
Q Consensus 193 ~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~ivI~DEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~ 272 (759)
|.+|+.++.|++|+.||++||+...|..+++.| +++||||||||||.|+..++.|.+||..+|.+|...+..+....++
T Consensus 315 Y~SR~avp~aqlV~LPYQ~LL~~stR~slgI~L-kdsIvIiDEAHNlidti~smhsa~Is~~ql~~a~~~i~~Y~~rf~~ 393 (821)
T KOG1133|consen 315 YASRRAVPQAQLVTLPYQLLLHESTRKSLGISL-KDSIVIIDEAHNLIDTICSMHSAEISFSQLCRAHKQIQQYFERFGK 393 (821)
T ss_pred hhhhhccccccEEeccHHHHHhHHHHHhcCccc-cccEEEEechhHHHHHHHHhhhhheeHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999998887 7999999999999999999999999999999999988887654332
Q ss_pred -hhhhchhHHHHHHHHHHHHHHhcCCCccchhcccCCCCChhhhhhccCcchhchHHH-H------HHHHHHHHHHHhhh
Q 004358 273 -FKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEHF-L------HVLRRLVQYLRGRL 344 (759)
Q Consensus 273 -~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~-~------~~l~~~~~~l~~~~ 344 (759)
+++.+.-.++ .+..++..+...... ..-.++ .. .++.. ..| + -.+.++.+|+....
T Consensus 394 rl~~~N~~~l~-ql~~l~~~ll~fl~~----~~~~~~------~~----~~~~~-~dfl~~~~id~iNL~kl~~Yi~~S~ 457 (821)
T KOG1133|consen 394 RLKAKNLMYLK-QLLSLLRRLLKFLDS----NCELNG------NG----ESLMR-NDFLFSSGIDNINLFKLLDYIEKSK 457 (821)
T ss_pred hhCccchhHHH-HHHHHHHHHHHHHHh----hhhhCC------cc----cccch-hhhhhhcCccceeHHHHHHHHHHhh
Confidence 3333322222 122222222211000 000000 00 00101 122 1 12445666654311
Q ss_pred hcccccccChhHHHHHHHHhhccccchhhhhHHHHHHHHHHhhccCCCcc--chhHHHHhHHHHhccccCCeEEEEecCC
Q 004358 345 ETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEF--LHIQTICDFATLVGTYTRGFSIIIEPFD 422 (759)
Q Consensus 345 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~l~~~l~~~~~~~~--~~l~~i~~f~~~~~~~~~~~~~~~~~~~ 422 (759)
-. .....|-..+.+.. .+++ +.|.. +..+....+.+ +++..+..|+..+.....+-.+++++..
T Consensus 458 i~-----rKv~G~~~r~~~~~---s~pl----q~l~~--~~~~~~ee~~~~ps~l~~l~~FL~~LTn~~~dGri~~~k~~ 523 (821)
T KOG1133|consen 458 IA-----RKVDGFGERLSEVF---SQPL----QSLQK--KRVEAEEESQLKPSPLFELSSFLGALTNNNEDGRIFYSKQG 523 (821)
T ss_pred HH-----HHhcchhhcchhhc---cchh----hHhhh--ccccchhcccCCCchhHHHHHHHHHHhCCCCCCcEEEeccC
Confidence 00 00112222222100 0111 11111 00000011112 3478888888776555555567776543
Q ss_pred CCCCCCCCCeEEEEccCcccccHHHhhccCEEEEecCCCCCCcchhhhhC--C-CCcccccceeeccCCceeeEEeecCC
Q 004358 423 ERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLN--F-HPVVSRSFKMSLTRDCICPMVLTRGS 499 (759)
Q Consensus 423 ~~~~~~~~~~l~~~~l~~s~~~~~l~~~~~svIltSgTL~p~~~f~~~lg--~-~~~~~~~~~~~~~~~~~~~~ii~~g~ 499 (759)
...|++..++|+..|.++...+++||+.+|||.|.+.|...|. . +.....++.|+++++++.+++|..||
T Consensus 524 -------s~~lky~lL~pA~~f~evv~earavvLAGGTMeP~~e~~e~L~~~~~~~i~~fsc~Hvip~e~il~~vv~~gp 596 (821)
T KOG1133|consen 524 -------SGTLKYMLLNPAKHFAEVVLEARAVVLAGGTMEPVDELREQLFPGCPERISPFSCSHVIPPENILPLVVSSGP 596 (821)
T ss_pred -------CceEEEEecCcHHHHHHHHHHhheeeecCCccccHHHHHHHhcccchhhccceecccccChhheeeeeeccCC
Confidence 3689999999999999999999999999999999999988874 2 23445678999999999999999999
Q ss_pred CCCcceeccccCCChHHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHH
Q 004358 500 DQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTL 579 (759)
Q Consensus 500 ~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~ 579 (759)
++.++..+|+.|..+++++.++..+..++.++|||++||||||++|.++++.|.+.|++.+|...|.||.|+++. .+.
T Consensus 597 sg~p~eftf~~R~s~~~l~~l~~~~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~--~~d 674 (821)
T KOG1133|consen 597 SGQPLEFTFETRESPEMIKDLGSSISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT--VED 674 (821)
T ss_pred CCCceEEEeeccCChHHHHHHHHHHHHHHhhCCCcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc--HHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999975 578
Q ss_pred HHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCC--CcchhhHHHHH
Q 004358 580 ALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQI--KEGDFLTFDAL 657 (759)
Q Consensus 580 ~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~--~~~~~~~~~a~ 657 (759)
+++.|+.+++.|+|||||+|.||++||||+|.|+.|||||+||+||||+.|+.++.|+.|++.+... .+++||..-+|
T Consensus 675 vl~~Ya~a~~~g~GaiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyPN~~s~EL~er~k~l~~k~~~~gagke~yEnlCM 754 (821)
T KOG1133|consen 675 VLEGYAEAAERGRGAILLAVVGGKLSEGINFSDDLGRAVVVVGLPYPNIQSVELQERMKHLDGKLPTPGAGKELYENLCM 754 (821)
T ss_pred HHHHHHHHhhcCCCeEEEEEeccccccccccccccccEEEEeecCCCCCCCHHHHHHHHHhhhccCCCCchHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999988764 36899999999
Q ss_pred HHHHHhcccccccCCCeeEEEEeecccCCccccCCCchHHHhhccccccCCCHHHHHHHHHHHHHHh
Q 004358 658 RQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALHIAREFLRKM 724 (759)
Q Consensus 658 ~~~~QaiGR~IR~~~D~g~iillD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~~~~~~~~Ff~~~ 724 (759)
++|||+|||.|||.+||++|+|+|.||..+..+ .||+|+++.+.. +.+..+++..++.||+..
T Consensus 755 kAVNQsIGRAIRH~~DYA~i~LlD~RY~~p~~R-KLp~WI~~~v~s---~~~~G~~ir~~~~ff~~k 817 (821)
T KOG1133|consen 755 KAVNQSIGRAIRHRKDYASIYLLDKRYARPLSR-KLPKWIRKRVHS---KAGFGPAIRATRKFFRAK 817 (821)
T ss_pred HHHHHHHHHHHhhhccceeEEEehhhhcCchhh-hccHHHHhHhcc---ccCccHHHHHHHHHHHHh
Confidence 999999999999999999999999999966666 899999775554 457789999999999854
No 5
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=100.00 E-value=1.7e-82 Score=739.65 Aligned_cols=613 Identities=18% Similarity=0.186 Sum_probs=406.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHh-----CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH-HH
Q 004358 14 YDNIYPEQYSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-EL 87 (759)
Q Consensus 14 y~~~r~~Q~~~~~~v~~al~~-----~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~-el 87 (759)
|++ ||+|.+||.+|+++|.+ +++++||||||||||+|||+|++.|+.+. ++ ||||||.|++||+|++. |+
T Consensus 24 ~e~-R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~--~k-~vVIST~T~~LQeQL~~kDl 99 (697)
T PRK11747 24 FIP-RAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAE--KK-KLVISTATVALQEQLVSKDL 99 (697)
T ss_pred CCc-CHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHc--CC-eEEEEcCCHHHHHHHHhhhh
Confidence 775 99999999999999998 48999999999999999999999998865 57 99999999999999997 89
Q ss_pred HhhhhhcccCCCCccceEEEeecCCcc-cccchHHhhhcc----ccc-----------HHHHHH---HhhhHHHHHhhhc
Q 004358 88 KLLHNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAEN----RDS-----------VDAACR---KRTASWVRALAAE 148 (759)
Q Consensus 88 ~~l~~~~~~~~g~~~~~~~~~l~gr~~-lC~~~~~~~~~~----~~~-----------~~~~c~---~l~~~w~~~t~~~ 148 (759)
+.+.+. .+.+++++++|||+| +|++++...+.. ... ...... .+...|..+|++|
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 357899999999999 999988654321 111 111122 1222344457888
Q ss_pred CCCCCCCcCccchHHhhhcCCCCCCCCCH-HHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccC-
Q 004358 149 NPNIETCEFFENYEKAASAAVLPPGVYTL-QDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQ- 226 (759)
Q Consensus 149 ~~~~~~c~~~~~~~~~~~~~~~~~~~~~~-e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~- 226 (759)
|.+ .++.-.. ...|. .-.++. .|+...|+++..|||+.+|+.++.|||||+||+||+.+.... .+..+|
T Consensus 174 D~d--el~~~~~-~~~w~-----~v~~~~~~C~~~~Cp~~~~Cf~~~ar~~a~~AdivVtNH~LLladl~~~-~~~iLp~ 244 (697)
T PRK11747 174 DRD--HWPEPID-DSLWQ-----RITTDKHSCLGRNCPYFRECPFFKARREIDEADVVVANHDLVLADLELG-GGVVLPD 244 (697)
T ss_pred cHh--hCcCCCc-HHHHH-----HhhcCccccCCCCCCCCccChHHHHHHHHhhCCEEEECcHHHHhhhhcc-CCcccCC
Confidence 754 2322110 00111 111222 244567999999999999999999999999999999665321 122355
Q ss_pred -CCcEEEEcCCCChhHHhhhhcceeecHHHHHHHHHHHHHHHHHHHH-hh---hhchhH---HHHHHHHHHHHHHhcCCC
Q 004358 227 -KESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIER-FK---ATDAGR---LRAEYNRLVEGLALRGNL 298 (759)
Q Consensus 227 -~~~ivI~DEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~-~~---~~~~~~---l~~~~~~l~~~l~~~~~~ 298 (759)
+.+++||||||||+++|.++++.+++...+...++.+.+....+.. +. ...... +...+..++..+......
T Consensus 245 ~~~~~lViDEAH~L~d~A~~~~~~~~s~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 324 (697)
T PRK11747 245 PENLLYVLDEGHHLPDVARDHFAASAELKGTADWLEKLLKLLTKLVALIMEPPLALPERLNAHCEELRELLASLNQILNL 324 (697)
T ss_pred CCCCEEEEECccchHHHHHHHhhhhccHHHHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4889999999999999999999999998877776655432111110 00 000011 111122222222110000
Q ss_pred ccchhcccCCCCChhhhhhccCcchh-chHHHHHHHHHHHHHHH---hhhhccccccc-ChhHHHHHHHHhhccccchhh
Q 004358 299 PIADAWLSNPALPSDILKEAVPGNIR-RAEHFLHVLRRLVQYLR---GRLETENVEKE-GPVSFVASITAHAGIDQKTLR 373 (759)
Q Consensus 299 ~~~~~~~~~~~~~~~~~~~~~~~~i~-~~~~~~~~l~~~~~~l~---~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~ 373 (759)
.... ....... .+....++..+. ....+...+..+...+. +.+.. ..... ....-...+ ...+.
T Consensus 325 ~~~~-~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~~l~~-~~~~~~~~~~~~~~~-------~~~l~ 393 (697)
T PRK11747 325 FLPA-GGEEARY--RFEMGELPEELLELAERLAKLTEKLLGLLEKLLNDLSE-AMKTGKIDIVRLERL-------LLELG 393 (697)
T ss_pred hccc-ccccccc--cccCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhccccchhhHHHH-------HHHHH
Confidence 0000 0000000 000000000000 01112222222222111 10000 00000 000000000 00111
Q ss_pred hhHHHHHHHHHHhhccCCCccchhHHHHhHHHHhcccc---CCeEEEEecCCCCCCCCCCCeEEEEccCccccc-HHHhh
Q 004358 374 FCYERLHSLMLTLEITDTDEFLHIQTICDFATLVGTYT---RGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFD 449 (759)
Q Consensus 374 ~~~~rl~~l~~~l~~~~~~~~~~l~~i~~f~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~~-~~l~~ 449 (759)
.+..++..+.+.+. .++...+ ..++.|++..... ......|+..|+|++..+ +.+|+
T Consensus 394 ~~~~~l~~~~~~l~-----------------~~~~~~~~~~~~~v~Wie~~~~~--~~~~~~l~~~Pl~~~~~l~~~l~~ 454 (697)
T PRK11747 394 RALGRLEALSKLWR-----------------LAAKEDQESGAPMARWITREERD--GQGDYLFHASPIRVGDQLERLLWS 454 (697)
T ss_pred HHHHHHHHHHHHHH-----------------HHhcccccCCCCceEEEEeccCC--CCceEEEEEecCCHHHHHHHHHHh
Confidence 12222222222111 1111111 1468899865321 123567999999999999 68999
Q ss_pred ccCEEEEecCCCCCCc---chhhhhCCCC---cccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHHHHHH
Q 004358 450 RFQSVVITSGTLSPID---LYPRLLNFHP---VVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKL 523 (759)
Q Consensus 450 ~~~svIltSgTL~p~~---~f~~~lg~~~---~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~ 523 (759)
+++++|||||||+|.+ +|.+.+|+++ .....++.+++..+...+++++. . ++.+++++|.+.+++.
T Consensus 455 ~~~~vIltSATL~~~~~f~~~~~~lGL~~~~~~~~~~~~SpF~~~~q~~l~vp~~------~--~~p~~~~~~~~~~~~~ 526 (697)
T PRK11747 455 RAPGAVLTSATLRSLNSFDRFQEQSGLPEKDGDRFLALPSPFDYPNQGKLVIPKM------R--AEPDNEEAHTAEMAEF 526 (697)
T ss_pred hCCEEEEEeeeCCCCCchHHHHHHcCCCCCCCceEEEcCCCCCHHHccEEEeCCC------C--CCCCCcHHHHHHHHHH
Confidence 9999999999999975 6667899974 33444555555433333555431 1 1225678899999999
Q ss_pred HHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCc
Q 004358 524 LVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGK 603 (759)
Q Consensus 524 l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~ 603 (759)
|.+++. ++||+|||||||+.|+++++.|... ....|++|+.+ +...++++|++.++.++++||||+ |+
T Consensus 527 i~~l~~-~~gg~LVlFtSy~~l~~v~~~l~~~-------~~~~ll~Q~~~--~~~~ll~~f~~~~~~~~~~VL~g~--~s 594 (697)
T PRK11747 527 LPELLE-KHKGSLVLFASRRQMQKVADLLPRD-------LRLMLLVQGDQ--PRQRLLEKHKKRVDEGEGSVLFGL--QS 594 (697)
T ss_pred HHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHh-------cCCcEEEeCCc--hHHHHHHHHHHHhccCCCeEEEEe--cc
Confidence 999998 8999999999999999999998742 12468888753 567899999998888889999999 89
Q ss_pred cccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEeecc
Q 004358 604 VAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKR 683 (759)
Q Consensus 604 ~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD~R 683 (759)
|||||||||+.|++|||+|||||+|+||.+++|.+|++++++.+|.+++.|+|+++++||+||+||+++|+|+|+|+|+|
T Consensus 595 f~EGVD~pGd~l~~vII~kLPF~~p~dp~~~ar~~~~~~~g~~~F~~~~lP~A~~kl~Qg~GRlIRs~~D~G~i~ilD~R 674 (697)
T PRK11747 595 FAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLKSRGGNPFMEISVPDASFKLIQAVGRLIRSEQDRGRVTILDRR 674 (697)
T ss_pred ccccccCCCCceEEEEEEcCCCCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHhccccccCCceEEEEEEccc
Confidence 99999999999999999999999999999999999999998888888899999999999999999999999999999999
Q ss_pred cCCcccc----CCCch
Q 004358 684 YSRHDKR----SKLPG 695 (759)
Q Consensus 684 ~~~~~~~----~~lp~ 695 (759)
+.+++|+ ++||+
T Consensus 675 ~~~~~Yg~~~l~sLP~ 690 (697)
T PRK11747 675 LLTKRYGKRLLDALPP 690 (697)
T ss_pred ccchhHHHHHHHhCCC
Confidence 9998885 66775
No 6
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=3.5e-81 Score=750.38 Aligned_cols=638 Identities=16% Similarity=0.186 Sum_probs=417.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH-HHHhhhh
Q 004358 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-ELKLLHN 92 (759)
Q Consensus 14 y~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~-el~~l~~ 92 (759)
|+ +||+|.+||..|.++|.++++++||||||||||+|||+|++.|+... ++ ||||||+|++||+|++. |++.+.+
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 49999999999999999999999999999999999999999888644 57 99999999999999998 8888765
Q ss_pred hcccCCCCccceEEEeecCCcc-cccchHHhhhccc--ccHHHHHHHhhhHHHHHhhhcCCC-CC----CCcCccchHHh
Q 004358 93 YQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENR--DSVDAACRKRTASWVRALAAENPN-IE----TCEFFENYEKA 164 (759)
Q Consensus 93 ~~~~~~g~~~~~~~~~l~gr~~-lC~~~~~~~~~~~--~~~~~~c~~l~~~w~~~t~~~~~~-~~----~c~~~~~~~~~ 164 (759)
. .+.+++++++|||+| +|++++...+... ......++..+..|+.+|++||.+ ++ ...||+.+.
T Consensus 332 ~------~~~~~~~~~lKGr~nYlcl~k~~~~l~~~~~~~~~~~~~~~ll~Wl~~T~tGD~dEl~~~~~~~~~w~~i~-- 403 (928)
T PRK08074 332 I------FPFPVEAALLKGRSHYLCLRKFEQALQEEDDNYDVALTKAQLLVWLTETETGDLDELNLPSGGKLLWNRIA-- 403 (928)
T ss_pred H------cCCCceEEEEEcccccccHHHHHHHHhccCCCHHHHHHHHHHHHHHccCCCCCHHHccCCCCCcchHHHhh--
Confidence 4 356789999999999 9999876543211 111122333345799999999864 11 122333221
Q ss_pred hhcCCCCCCCCCHH-HHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCCChhHHh
Q 004358 165 ASAAVLPPGVYTLQ-DLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVC 243 (759)
Q Consensus 165 ~~~~~~~~~~~~~e-~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~ivI~DEAHnl~~~~ 243 (759)
.+.+ |+.+.|+++..|||+.+|+.+++|||||+||+||+.+...+ ...+|+++++||||||||+++|
T Consensus 404 ----------~~~~~c~~~~cp~~~~Cf~~~ar~~a~~AdivItNHalLl~dl~~~--~~ilp~~~~lViDEAH~l~d~A 471 (928)
T PRK08074 404 ----------SDGESDGGKQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDLTSE--EPLLPSYEHIIIDEAHHFEEAA 471 (928)
T ss_pred ----------ccCcccCCCCCCcccccHHHHHHHHHhcCCEEEECHHHHHHHHhhh--cccCCCCCeEEEECCchHHHHH
Confidence 1222 44567999999999999999999999999999999765322 2347889999999999999999
Q ss_pred hhhcceeecHHHHHHHHHHHHHHH-----HHHHHhh-hhc-------------hhHHHHHHHHHHHHHHhcCCCccchhc
Q 004358 244 IEALSVSVRRQTLEGATRNLSRIN-----QEIERFK-ATD-------------AGRLRAEYNRLVEGLALRGNLPIADAW 304 (759)
Q Consensus 244 ~~~~s~~is~~~l~~~~~~l~~~~-----~~~~~~~-~~~-------------~~~l~~~~~~l~~~l~~~~~~~~~~~~ 304 (759)
.++++.+++...+....+.+.... ..+.... ... ...+..+...++..+...........
T Consensus 472 ~~~~~~~~s~~~~~~~l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~- 550 (928)
T PRK08074 472 SRHLGEQFSYMSFQLLLSRLGTLEEDGLLSKLAKLFKKSDQASRSSFRDLDESLKELKFEADELFQMLRSFVLKRKKQE- 550 (928)
T ss_pred HHHhcceecHHHHHHHHHHHhhhccccHHHHHHHHHhhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccc-
Confidence 999999999998887776553211 0010000 000 00011111111111110000000000
Q ss_pred ccCCCCChhhhhhccCcchhchHHHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHHhhccccchhhhhHHHHHHHHH
Q 004358 305 LSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLML 384 (759)
Q Consensus 305 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~l~~ 384 (759)
........+..+.-.+. ........+.++...+....... ......+.+....+.. ....-+ ..+.
T Consensus 551 -~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~l~~~l-------~~~~~~l~~~~~~~~~---~~~~~~-~~~~ 616 (928)
T PRK08074 551 -QNGRLIYRYNTESEKGK--LWDAITELANRLCYDLRDLLTLL-------EAQKKELQEKMESESA---FLTGEY-AHLI 616 (928)
T ss_pred -ccccceeecccccccch--hhHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhhhhhhhhh---hHHHHH-HHHH
Confidence 00000000000000000 00000011111111110000000 0000000000000000 000000 0000
Q ss_pred HhhccCCCccchhHHHHhHHHHhccccCCeEEEEecCCCCCCCCCCCeEEEEccCccccc-HHHhhccCEEEEecCCCCC
Q 004358 385 TLEITDTDEFLHIQTICDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFDRFQSVVITSGTLSP 463 (759)
Q Consensus 385 ~l~~~~~~~~~~l~~i~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~~-~~l~~~~~svIltSgTL~p 463 (759)
.+. .....+..++....++++.|++..... ......|+..|+|++..+ +.+|++++++|||||||++
T Consensus 617 ~l~----------~~~~~l~~~~~~~~~~~v~w~e~~~~~--~~~~~~l~~~pld~~~~l~~~l~~~~~~~iltSATL~~ 684 (928)
T PRK08074 617 DLL----------EKMAQLLQLLFEEDPDYVTWIEIDAKG--AINATRLYAQPVEVAERLADEFFAKKKSVILTSATLTV 684 (928)
T ss_pred HHH----------HHHHHHHHHHhcCCCCeEEEEEecCCC--CCceEEEEEeeccHHHHHHHHHHhcCCcEEEEeeeccc
Confidence 000 001111222333345678899865321 123456899999999999 6688999999999999997
Q ss_pred Cc---chhhhhCCCCc--ccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhcccCCcEEEE
Q 004358 464 ID---LYPRLLNFHPV--VSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCF 538 (759)
Q Consensus 464 ~~---~f~~~lg~~~~--~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~lv~ 538 (759)
.+ +|.+.||+++. ....++.+++..+-..+++++ .++. ..++++++|.+.+++.|.+++..++||+|||
T Consensus 685 ~~~f~~~~~~lGl~~~~~~~~~~~SpF~~~~q~~l~vp~-----d~p~-~~~~~~~~~~~~la~~i~~l~~~~~g~~LVL 758 (928)
T PRK08074 685 NGSFDYIIERLGLEDFYPRTLQIPSPFSYEEQAKLMIPT-----DMPP-IKDVPIEEYIEEVAAYIAKIAKATKGRMLVL 758 (928)
T ss_pred CCCcHHHHHhcCCCCCCccEEEeCCCCCHHHhcEEEeec-----CCCC-CCCCChHHHHHHHHHHHHHHHHhCCCCEEEE
Confidence 65 56789999742 223344444432112234433 1221 2345567899999999999999999999999
Q ss_pred ecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEE
Q 004358 539 FVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLV 618 (759)
Q Consensus 539 f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~v 618 (759)
||||++|+++++.|.+... .....++.|+.+..+...++++|++ ++++||||+ |+|||||||||+.|++|
T Consensus 759 FtSy~~l~~v~~~l~~~~~----~~~~~ll~Qg~~~~~r~~l~~~F~~----~~~~iLlG~--~sFwEGVD~pg~~l~~v 828 (928)
T PRK08074 759 FTSYEMLKKTYYNLKNEEE----LEGYVLLAQGVSSGSRARLTKQFQQ----FDKAILLGT--SSFWEGIDIPGDELSCL 828 (928)
T ss_pred ECCHHHHHHHHHHHhhccc----ccCceEEecCCCCCCHHHHHHHHHh----cCCeEEEec--CcccCccccCCCceEEE
Confidence 9999999999999976421 1123477776443567889999987 578999997 89999999999999999
Q ss_pred EEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCchHHH
Q 004358 619 IMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWIL 698 (759)
Q Consensus 619 ii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD~R~~~~~~~~~lp~w~~ 698 (759)
||+|||||+|+||.+++|.+|++++++.+|.+|..|+|+++++||+||+||+++|+|+|+++|+|+.+++|++.++..+.
T Consensus 829 iI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~v~ilD~R~~~k~Yg~~~l~sLP 908 (928)
T PRK08074 829 VIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRGTVFVLDRRLTTTSYGKYFLESLP 908 (928)
T ss_pred EEecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceEEEEEecCccccchHHHHHHHhCC
Confidence 99999999999999999999999998888888889999999999999999999999999999999999999855555443
Q ss_pred hhccccccCCCHHHHHHHHHHHH
Q 004358 699 SHLRDAHLNLSTDMALHIAREFL 721 (759)
Q Consensus 699 ~~~~~~~~~~~~~~~~~~~~~Ff 721 (759)
+ .+. ...+.+++...++.|+
T Consensus 909 ~-~~~--~~~~~~~~~~~~~~~~ 928 (928)
T PRK08074 909 T-VPV--YEGTLEELLEEVEEFL 928 (928)
T ss_pred C-CCc--ccCCHHHHHHHHHhhC
Confidence 2 111 1346788888888874
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=2.1e-76 Score=707.30 Aligned_cols=593 Identities=17% Similarity=0.224 Sum_probs=414.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH-HHHhh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-ELKLL 90 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~-el~~l 90 (759)
-.|++ ||+|.+||.+|.+++.+++++++|||||||||+|||+|++.|+. .++ +|+|+|+|+++|+|++. |++.+
T Consensus 242 ~~~~~-r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~---~~~-~vvi~t~t~~Lq~Ql~~~~~~~l 316 (850)
T TIGR01407 242 LGLEY-RPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI---TEK-PVVISTNTKVLQSQLLEKDIPLL 316 (850)
T ss_pred cCCcc-CHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc---CCC-eEEEEeCcHHHHHHHHHHHHHHH
Confidence 35674 99999999999999999999999999999999999999999876 256 99999999999999987 88887
Q ss_pred hhhcccCCCCccceEEEeecCCcc-cccchHHhhhcccccHHHHH---HHhhhHHHHHhhhcCCC-CCC----CcCccch
Q 004358 91 HNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAAC---RKRTASWVRALAAENPN-IET----CEFFENY 161 (759)
Q Consensus 91 ~~~~~~~~g~~~~~~~~~l~gr~~-lC~~~~~~~~~~~~~~~~~c---~~l~~~w~~~t~~~~~~-~~~----c~~~~~~ 161 (759)
.+. .+.++++++++||+| +|+.+....+.... .+..| +..+..|+.+|++||.+ ++. -.||+.+
T Consensus 317 ~~~------~~~~~~~~~~kG~~~ylcl~k~~~~l~~~~-~~~~~~~~~~~~~~wl~~T~tGD~~el~~~~~~~~~~~~i 389 (850)
T TIGR01407 317 NEI------LNFKINAALIKGKSNYLSLGKFSQILKDNT-DNYEFNIFKMQVLVWLTETETGDLDELNLKGGNKMFFAQV 389 (850)
T ss_pred HHH------cCCCceEEEEEcchhhccHHHHHHHHhcCC-CcHHHHHHHHHHHHHhccCCccCHhhccCCCcchhhHHHh
Confidence 643 245789999999999 89887765433211 11223 22345799999999864 111 1122221
Q ss_pred HHhhhcCCCCCCCCCHHHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCCChhH
Q 004358 162 EKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDN 241 (759)
Q Consensus 162 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~ivI~DEAHnl~~ 241 (759)
. .+. |+.+.|++++.|||+.+|+.+++||||||||+||+++.... ...++++.++||||||||++
T Consensus 390 ~------------~~~-~l~~~c~~~~~Cf~~~ar~~a~~AdivItNHa~L~~~~~~~--~~ilp~~~~lIiDEAH~L~d 454 (850)
T TIGR01407 390 R------------HDG-NLSKKDLFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDN--PELFPSFRDLIIDEAHHLPD 454 (850)
T ss_pred h------------cCC-CCCCCCCCccccHHHHHHHHHhcCCEEEecHHHHHHHhhcc--cccCCCCCEEEEECcchHHH
Confidence 1 111 45567999999999999999999999999999999876433 22367889999999999999
Q ss_pred HhhhhcceeecHHHHHHHHHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHHhcCCCccchhcccCCCCChhhhhhccCc
Q 004358 242 VCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPG 321 (759)
Q Consensus 242 ~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 321 (759)
+|+++++.+++...+..+.+.+..... ..+.....++++...... ...+. .
T Consensus 455 ~a~~~~~~~ls~~~~~~~l~~l~~~~~----------~~l~~~l~~~~~~~~~~~-----~~~~~------------~-- 505 (850)
T TIGR01407 455 IAENQLQEELDYADIKYQIDLIGKGEN----------EQLLKRIQQLEKQEILEK-----LFDFE------------T-- 505 (850)
T ss_pred HHHHHhcceeCHHHHHHHHHHHHhhhh----------HHHHHHHHHHHHHHHHHH-----Hhhhh------------h--
Confidence 999999999999999888766532110 001111111111100000 00000 0
Q ss_pred chhchHHHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHHhhccccchhhhhHHHHHHHHHHhhccCCCccchhHHHH
Q 004358 322 NIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTIC 401 (759)
Q Consensus 322 ~i~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~l~~~l~~~~~~~~~~l~~i~ 401 (759)
......+....+.+...+.. ...+.. .. ...+......+. ..+..+.
T Consensus 506 -----~~~~~~l~~~~~~l~~~l~~-----------~~~~~~------~~----~~~l~~~~~~~~-------~~~~~l~ 552 (850)
T TIGR01407 506 -----KDILKDLQAILDKLNKLLQI-----------FSELSH------KT----VDQLRKFDLALK-------DDFKNIE 552 (850)
T ss_pred -----hhHHHHHHHHHHHHHHHHHH-----------HHhhhh------hh----HHHHHHHHHHHH-------HHHHHHH
Confidence 00000111111111110000 000000 00 000111111000 0011111
Q ss_pred hHHHHhccccCCeEEEEecCCCCCCCCCCCeEEEEccCccccc-HHHhhccCEEEEecCCCC---CCcchhhhhCCCCcc
Q 004358 402 DFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFDRFQSVVITSGTLS---PIDLYPRLLNFHPVV 477 (759)
Q Consensus 402 ~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~~-~~l~~~~~svIltSgTL~---p~~~f~~~lg~~~~~ 477 (759)
+ ++ .+..+.|++..... ......++..|++++..+ +.+|++++++|||||||+ |.++|.+.||++...
T Consensus 553 ~---~~---~~~~~~wi~~~~~~--~~~~~~l~~~pl~~~~~l~~~~~~~~~~~il~SATL~~~~~~~~~~~~lGl~~~~ 624 (850)
T TIGR01407 553 Q---SL---KEGHTSWISIENLQ--QKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTSATLKFSHSFESFPQLLGLTDVH 624 (850)
T ss_pred H---Hh---ccCCeEEEEecCCC--CCceEEEEeeeCcHHHHHHHHHhccCCeEEEEecccccCCChHHHHHhcCCCccc
Confidence 1 11 23346788765321 112346889999999887 789999999999999999 567899999997543
Q ss_pred cccc-eeecc-CCceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhc
Q 004358 478 SRSF-KMSLT-RDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDS 555 (759)
Q Consensus 478 ~~~~-~~~~~-~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~ 555 (759)
...+ +.+++ .++.. +++++ .++ .+..++.++|.+.+++.|.+++..++|++|||||||+.|+.+++.+...
T Consensus 625 ~~~~~~spf~~~~~~~-l~v~~-----d~~-~~~~~~~~~~~~~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~ 697 (850)
T TIGR01407 625 FNTIEPTPLNYAENQR-VLIPT-----DAP-AIQNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHMVYDMLNEL 697 (850)
T ss_pred cceecCCCCCHHHcCE-EEecC-----CCC-CCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhh
Confidence 3333 34444 23322 33432 122 1234556789999999999999999999999999999999999998753
Q ss_pred ccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHH
Q 004358 556 GILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLA 635 (759)
Q Consensus 556 ~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~a 635 (759)
.. .....++.|+.+ .++..++++|++ ++++||||+ |+|||||||+|+.+++|||+|||||+|+||.+++
T Consensus 698 ~~----~~~~~~l~q~~~-~~r~~ll~~F~~----~~~~iLlgt--~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a 766 (850)
T TIGR01407 698 PE----FEGYEVLAQGIN-GSRAKIKKRFNN----GEKAILLGT--SSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKK 766 (850)
T ss_pred cc----ccCceEEecCCC-ccHHHHHHHHHh----CCCeEEEEc--ceeecccccCCCceEEEEEeCCCCCCCCCHHHHH
Confidence 21 112457887765 467888999987 578999997 8999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCchHHHhhccccccCCCHHHHHH
Q 004358 636 RLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALH 715 (759)
Q Consensus 636 r~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~~~~ 715 (759)
|.++++++++.++.+|+.|+|+++++||+||+||+++|+|+|+|+|+|+.+++|++.++.++.+..... ..+.++++.
T Consensus 767 ~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G~v~ilD~R~~~~~Yg~~~~~sLp~~~~~~--~~~~~~~~~ 844 (850)
T TIGR01407 767 YWQKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYGKRFEKSLPEYLQVK--GDILGELLE 844 (850)
T ss_pred HHHHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceEEEEEEccccccchHHHHHHHhCCCccccc--cCCHHHHHH
Confidence 999999888878888889999999999999999999999999999999999999888877776533322 235788899
Q ss_pred HHHHHH
Q 004358 716 IAREFL 721 (759)
Q Consensus 716 ~~~~Ff 721 (759)
.++.||
T Consensus 845 ~~~~~~ 850 (850)
T TIGR01407 845 AIKEFL 850 (850)
T ss_pred HHHhhC
Confidence 988885
No 8
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=1.5e-75 Score=688.24 Aligned_cols=617 Identities=25% Similarity=0.298 Sum_probs=407.9
Q ss_pred CeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHH
Q 004358 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 7 ~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
...+.||+..+||.|++||.+|.+++.+++++++|||||||||++||+|++.|+... +. +|||+|+|+++|+|++++
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 356789888889999999999999999999999999999999999999999999866 46 899999999999999997
Q ss_pred HHhhhhhcccCCCCccceEEEeecCCcc-cccchHHhhhcccccHHHHHHH-------hhhHHHHHhhhcCCCCCC-CcC
Q 004358 87 LKLLHNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAACRK-------RTASWVRALAAENPNIET-CEF 157 (759)
Q Consensus 87 l~~l~~~~~~~~g~~~~~~~~~l~gr~~-lC~~~~~~~~~~~~~~~~~c~~-------l~~~w~~~t~~~~~~~~~-c~~ 157 (759)
...+..... .....+..++||.| +|+.+.......+......|.. ....|+.++.+++.+... +..
T Consensus 83 ~~~~~~~~~-----~~~~~~~~~kgr~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (654)
T COG1199 83 DLPIHKLLK-----KLGGKFALLKGRSNYLCLSRLERLAQLGGDDDDYLQSLALKALADLLVWLTETKTGDLRELTPKAL 157 (654)
T ss_pred hcchhhhhh-----hhhhHHHHHhccccccchHHHHHHHHccCcchhHHhhhhHHHHHHHHHHhhcCCCCChhhcccccc
Confidence 666533321 12224578999999 6666555322222222223332 144688888777643111 111
Q ss_pred ccchHHhhhcCCCCCCCCCH-HHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCC
Q 004358 158 FENYEKAASAAVLPPGVYTL-QDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEA 236 (759)
Q Consensus 158 ~~~~~~~~~~~~~~~~~~~~-e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~ivI~DEA 236 (759)
...... ....+. .+....|+.+..|||+.+|+.++.||+||+||++++.....+.....+|++.++|||||
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 001111 12235699999999999999999999999999999977654432221578999999999
Q ss_pred CChhHHhhhhcceeecHHHHHHHHHHHHHHHHHHHHhhhhchhHHH---HHHHHHHHHHHhcCCCccchhcccCCCCChh
Q 004358 237 HNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLR---AEYNRLVEGLALRGNLPIADAWLSNPALPSD 313 (759)
Q Consensus 237 Hnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~---~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~ 313 (759)
|||++.|++++|..++...|..+.+++......... +...+. ..+...++........ . ......
T Consensus 230 H~l~d~a~~~~s~~l~~~~L~~~~~~~~~~~~~~~~----~~~~~~~~~~~L~~~~~~~~~~~~~--~------~~~~~~ 297 (654)
T COG1199 230 HNLPDIARSALSIRLSERTLERLLKEIQALGETLEK----DLKRLEDLADRLEKALEDLRELLIF--D------VDELGN 297 (654)
T ss_pred ccchHHHHHHHHHHhhHHHHHHHHHHHHHhhhhhhh----hHHHHHhhHHHHHHHHHHHHHHHhc--c------hhhhhh
Confidence 999999999999999999999998887766421110 011111 1111222221110000 0 000000
Q ss_pred hhhhccCcchhchHHHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHHhhccccchhhhhHHHHHHHHHHhhccCCCc
Q 004358 314 ILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDE 393 (759)
Q Consensus 314 ~~~~~~~~~i~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~l~~~l~~~~~~~ 393 (759)
. .+...... ..+.....+..+.+.+...++. ...+...... ..+ ......+++...+.
T Consensus 298 ~-~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~--~~d--~~~~~~~~~~~~~~--------- 355 (654)
T COG1199 298 L-RERLREQL-SSEEAKEALGKLEEALLEKLKN-------LSELLGLSQN--ELD--RPTSILERLKEELD--------- 355 (654)
T ss_pred H-HHhccccc-hhhHHHHHHHHHHHHHHHHHHH-------HHHHHHhhhh--hcc--chhHHHHHHHHHHH---------
Confidence 0 00000000 0000000000000000000000 0000000000 000 00000111111100
Q ss_pred cchhHHHHhHHH--HhccccCCeEEEEecCCCCCCCCCCCeEEEEccCcccccHHHhhccCEEEEecCCCCCCcchhhhh
Q 004358 394 FLHIQTICDFAT--LVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLL 471 (759)
Q Consensus 394 ~~~l~~i~~f~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~~~~l~~~~~svIltSgTL~p~~~f~~~l 471 (759)
.+.. .......++..|++...... ...+...|++|+...+++|++++++|||||||+|.++|...+
T Consensus 356 --------~~~~~~~~~~~~~~~~~w~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~vl~SaTL~~~~~f~~~~ 423 (654)
T COG1199 356 --------RLLSRELLLSDDPDYSYWLEIEEREG----VLLLVLPLLVPSKLLEELFSKVASVVLTSATLSPLDSFSSLL 423 (654)
T ss_pred --------HHHhhcccccCCCCceEEEEeccccc----ceeEEeecccHHHHHHHHHhhcCcEEEeeeeccCCCcHHHHH
Confidence 0010 01122346888988765321 113566777888777999999999999999999999999888
Q ss_pred CCCCcccccceeeccC--CceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHH
Q 004358 472 NFHPVVSRSFKMSLTR--DCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEII 549 (759)
Q Consensus 472 g~~~~~~~~~~~~~~~--~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~ 549 (759)
|..........+.++. +..... ...+++.|..++++++.++++..|.++++..|||+|||||||++|+.++
T Consensus 424 ~~~~~~~~~~~~~~~spf~~~~~~-------~~~v~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~lvlF~Sy~~l~~~~ 496 (654)
T COG1199 424 GLLGLEEKLRFLSLPSPFNYEEQG-------QLYVPTDLPEPREPELLAKLAAYLREILKASPGGVLVLFPSYEYLKRVA 496 (654)
T ss_pred HHcCCccccceeccCCCCChhhcc-------eEeccccCCCCCChHHHHHHHHHHHHHHhhcCCCEEEEeccHHHHHHHH
Confidence 7654322210011111 111100 1234555666666789999999999999999999999999999999999
Q ss_pred HHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcC
Q 004358 550 ATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTL 629 (759)
Q Consensus 550 ~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~ 629 (759)
+.|...... ..++.|+. .+.+.++++|++. +++ +++|++|+|||||||+|+.|++|||+|||||+|+
T Consensus 497 ~~~~~~~~~------~~v~~q~~--~~~~~~l~~f~~~---~~~--~~lv~~gsf~EGVD~~g~~l~~vvI~~lPfp~p~ 563 (654)
T COG1199 497 ERLKDERST------LPVLTQGE--DEREELLEKFKAS---GEG--LILVGGGSFWEGVDFPGDALRLVVIVGLPFPNPD 563 (654)
T ss_pred HHHhhcCcc------ceeeecCC--CcHHHHHHHHHHh---cCC--eEEEeeccccCcccCCCCCeeEEEEEecCCCCCC
Confidence 999865321 23555444 4567899999985 333 5556779999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCchHHHhhccccc
Q 004358 630 SKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAH 705 (759)
Q Consensus 630 dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD~R~~~~~~~~~lp~w~~~~~~~~~ 705 (759)
||.+++|.++.++.++.++.+||+++|+++++||+||+|||++|||+|+|+|+||.+++|+..||.|+.+..+..+
T Consensus 564 dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~ivllD~R~~~~~y~~~l~~~l~~~~~~~~ 639 (654)
T COG1199 564 DPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIVLLDKRYATKRYGKLLLDSLPPFPKSKD 639 (654)
T ss_pred CHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEEEecccchhhhHHHHHHHhCCCCccccc
Confidence 9999999999999999999999999999999999999999999999999999999999999999999998777654
No 9
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=1.7e-73 Score=672.01 Aligned_cols=571 Identities=15% Similarity=0.162 Sum_probs=395.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHH-HHHHhhhh
Q 004358 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL-AELKLLHN 92 (759)
Q Consensus 14 y~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~-~el~~l~~ 92 (759)
|+. ||+|.+||.+|++++.+++++++|||||||||+|||+|++.+.. +. +|||+|+|+++|+|++ ++++.+.+
T Consensus 244 ~e~-R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~~----~~-~vvI~t~T~~Lq~Ql~~~~i~~l~~ 317 (820)
T PRK07246 244 LEE-RPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQSD----QR-QIIVSVPTKILQDQIMAEEVKAIQE 317 (820)
T ss_pred Ccc-CHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhcC----CC-cEEEEeCcHHHHHHHHHHHHHHHHH
Confidence 775 99999999999999999999999999999999999999887542 45 8999999999999997 47888765
Q ss_pred hcccCCCCccceEEEeecCCcc-cccchHHhhhc--ccccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHhhhcCC
Q 004358 93 YQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAE--NRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAV 169 (759)
Q Consensus 93 ~~~~~~g~~~~~~~~~l~gr~~-lC~~~~~~~~~--~~~~~~~~c~~l~~~w~~~t~~~~~~~~~c~~~~~~~~~~~~~~ 169 (759)
+ .+++++.++|+.| +|++++...+. ...........-+..|+.+|++||.+ .+++-..-...+..
T Consensus 318 ~--------~~~~~~~~kg~~~ylcl~k~~~~l~~~~~~~~~~~~~~~il~Wl~~T~tGD~~--El~~~~~~~~~w~~-- 385 (820)
T PRK07246 318 V--------FHIDCHSLKGPQNYLKLDAFYDSLQQNDDNRLVNRYKMQLLVWLTETETGDLD--EIKQKQRYAAYFDQ-- 385 (820)
T ss_pred h--------cCCcEEEEECCcccccHHHHHHHhhccCcchHHHHHHHHHHHHHhcCCCCCHh--hccCCccccHHHHH--
Confidence 3 2356778999999 99998765432 11111122333345699999999864 33322111111111
Q ss_pred CCCCCCCHHHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCCChhHHhhhhcce
Q 004358 170 LPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSV 249 (759)
Q Consensus 170 ~~~~~~~~e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~ivI~DEAHnl~~~~~~~~s~ 249 (759)
+ .++ .++...|++++.|||+.+|+.+++|||||+||+||+.....+ ..+|+.+++||||||||++++.+.++.
T Consensus 386 i---~~~-~~~~~~cp~~~~cf~~~ar~~a~~AdivItNHall~~~~~~~---~~~p~~~~lIiDEAH~l~~~~~~~~~~ 458 (820)
T PRK07246 386 L---KHD-GNLSQSSLFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDD---KDFARNKVLVFDEAQKLMLQLEQLSRH 458 (820)
T ss_pred h---hcc-CCCCCCCCcchhhHHHHHHHHHHhCCEEEEchHHHHHHHhhc---cCCCCCCEEEEECcchhHHHHHHHhcc
Confidence 0 000 113346999999999999999999999999999999755332 236889999999999999998877777
Q ss_pred eecHHHHHHHHHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHHhcCCCccchhcccCCCCChhhhhhccCcchhchHHH
Q 004358 250 SVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEHF 329 (759)
Q Consensus 250 ~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~ 329 (759)
.++...+...+..+.. ... ..+.. ..++.+.
T Consensus 459 ~~~~~~~~~~l~~~~~---~~~-------~~~~~---~~~~~~~------------------------------------ 489 (820)
T PRK07246 459 QLNITSFLQTIQKALS---GPL-------PLLQK---RLLESIS------------------------------------ 489 (820)
T ss_pred eecHHHHHHHHHHHHH---HHH-------HHHhh---hhHHHHH------------------------------------
Confidence 6877766544321110 000 00000 0011110
Q ss_pred HHHHHHHHHHHHhhhhcccccccChhHHHHHHHHhhccccchhhhhHHHHHHHHHHhhccCCCccchhHHHHhHHHHhcc
Q 004358 330 LHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVGT 409 (759)
Q Consensus 330 ~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~l~~~l~~~~~~~~~~l~~i~~f~~~~~~ 409 (759)
..+..+...+..... ....... ..++...+..+.. + .... +..++..
T Consensus 490 -~~~~~~~~~~~~~~~--------~~~~~~~---------------l~~l~~~l~~l~~---~---~~~~---~~~~~~~ 536 (820)
T PRK07246 490 -FELLQLSEQFYQGKE--------RQLIHDS---------------LSRLHQYFSELEV---A---GFQE---LQAFFAT 536 (820)
T ss_pred -HHHHHHHHHHHhhhh--------hHHHHHH---------------HHHHHHHHHHHHH---H---HHHH---HHHHHhC
Confidence 000000000000000 0000000 0111111111110 0 0011 1111111
Q ss_pred ccCCeEEEEecCCCCCCCCCCCeEEEEccCcccccHHHhhccCEEEEecCCCCC--CcchhhhhCCCCcccccceeeccC
Q 004358 410 YTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSP--IDLYPRLLNFHPVVSRSFKMSLTR 487 (759)
Q Consensus 410 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~~~~l~~~~~svIltSgTL~p--~~~f~~~lg~~~~~~~~~~~~~~~ 487 (759)
.+.++|++..... ......|+..|++++. ++.+|++.+++|||||||+. .-+|.+.+|++.....+.+++.++
T Consensus 537 --~~~~~W~e~~~~~--~~~~~~l~~~pl~v~~-~~~~~~~~~~~i~tSATL~v~~~f~~~~~lGl~~~~~~~~~~~~~~ 611 (820)
T PRK07246 537 --AEGDYWLESEKQS--EKRVTYLNSASKAFTH-FSQLLPETCKTYFVSATLQISPRVSLADLLGFEEYLFHKIEKDKKQ 611 (820)
T ss_pred --CCCeEEEEecCCC--CcceeEEEeeeCcHHH-HHHHHhcCCeEEEEecccccCCCCcHHHHcCCCccceecCCCChHH
Confidence 1126788765321 1112368999999974 59999999999999999974 336888999975444444444443
Q ss_pred CceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceE
Q 004358 488 DCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLV 567 (759)
Q Consensus 488 ~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~i 567 (759)
+.. ++++. .++.+ ...++++|.+.+++.|.+++ .++|++|||||||++|+.+++.+... ..++
T Consensus 612 ~~~--~~i~~-----~~p~~-~~~~~~~~~~~~~~~i~~~~-~~~g~~LVLFtS~~~l~~v~~~l~~~--------~~~~ 674 (820)
T PRK07246 612 DQL--VVVDQ-----DMPLV-TETSDEVYAEEIAKRLEELK-QLQQPILVLFNSKKHLLAVSDLLDQW--------QVSH 674 (820)
T ss_pred ccE--EEeCC-----CCCCC-CCCChHHHHHHHHHHHHHHH-hcCCCEEEEECcHHHHHHHHHHHhhc--------CCcE
Confidence 332 34432 12222 22346789999999999988 78999999999999999999888542 2457
Q ss_pred EEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCC
Q 004358 568 FIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIK 647 (759)
Q Consensus 568 f~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~ 647 (759)
++|+.+. +...++++|++ ++++||||+ |+|||||||||+.+.+|||+|||||+|+||.+++|.++++++++.+
T Consensus 675 l~Qg~~~-~~~~l~~~F~~----~~~~vLlG~--~sFwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g~~~ 747 (820)
T PRK07246 675 LAQEKNG-TAYNIKKRFDR----GEQQILLGL--GSFWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQEGKNP 747 (820)
T ss_pred EEeCCCc-cHHHHHHHHHc----CCCeEEEec--chhhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCc
Confidence 8888653 45668888986 578999999 7999999999988888999999999999999999999999998888
Q ss_pred cchhhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCchHHHhhccccccCCCHHHHHHHHHHHHH
Q 004358 648 EGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALHIAREFLR 722 (759)
Q Consensus 648 ~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~~~~~~~~Ff~ 722 (759)
|.+|..|+|+++++||+||+||+++|+|+|+++|+|+.+++|++.+..++.+.+... ..+.++..+.++.||.
T Consensus 748 F~~~~lP~A~iklkQg~GRLIRs~~D~Gvv~ilD~R~~~k~Yg~~~l~sLP~~~~~~--~~~~~~~~~~~~~f~~ 820 (820)
T PRK07246 748 FYDYFLPMTILRLKQAIGRTMRREDQKSAVLILDRRILTKSYGKQILASLAEEFLIS--QQNFSDVLVEIDRFLI 820 (820)
T ss_pred hhheeHHHHHHHHHHHhcccccCCCCcEEEEEECCcccccHHHHHHHHhCCCCCccc--cCCHHHHHHHHHHhhC
Confidence 888899999999999999999999999999999999999999877777776543332 3578999999999983
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=2.8e-68 Score=600.03 Aligned_cols=565 Identities=15% Similarity=0.111 Sum_probs=374.8
Q ss_pred HHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh-hhcccCC
Q 004358 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH-NYQTRHL 98 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~-~~~~~~~ 98 (759)
+|.+||+.|++++.+++++++|||||||||+|||+|++.|+.... ++ ||+|+|+|++||+|++++++.+. +.
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 599999999999999999999999999999999999999986432 46 99999999999999999999875 32
Q ss_pred CCccceEEEeecCCcc-cccchHHhhhcccccHHHHHHHhhhHHHHHhh----------------------hcCCCCCCC
Q 004358 99 GPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAACRKRTASWVRALA----------------------AENPNIETC 155 (759)
Q Consensus 99 g~~~~~~~~~l~gr~~-lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~t~----------------------~~~~~~~~c 155 (759)
.+.++++++++||+| +|+++.......... +. ...+..|+.+|+ +||.+ ..|
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 899887654332211 11 223457999984 34322 112
Q ss_pred cCccchHHhhhcCCCCCCCCCHHHHHHhcccCCCcchHHHHhh---cccCeEEEecCccccCHHHHhHhhhccCCCcEEE
Q 004358 156 EFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHM---VQFANVVVYSYQYLLDPKVAGIISKEMQKESVVV 232 (759)
Q Consensus 156 ~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~Cpy~~ar~~---~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~ivI 232 (759)
...+. . ..-++...|.. ..|+|+.+|+. ++.|||||+||++|+.. .++.. ..+|+.++||
T Consensus 149 ~~~~~-------------~-~~~~~~~~~~~-~~~~~~~aR~~~~~a~~AdivItNHalL~~~-~~~~~-~iLP~~~~lI 211 (636)
T TIGR03117 149 TLLNR-------------Q-DDVTLAIREDD-EDKRLVESREYEAEARRCRILFCTHAMLGLA-FRDKW-GLLPQPDILI 211 (636)
T ss_pred CCcCc-------------c-hhhhccccCCC-cccHHHHHHHHhhccccCCEEEECHHHHHHH-hhhhc-CCCCCCCEEE
Confidence 11110 0 00011122333 45899999998 99999999999999964 33332 3578999999
Q ss_pred EcCCCChhHHhhhhcceeecHHHHHHHHHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHHhcCCCccchhcccCCCCCh
Q 004358 233 FDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPS 312 (759)
Q Consensus 233 ~DEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~ 312 (759)
|||||||++++.++++.+++..++...+..+....... .. ......+...++.++.... +..+
T Consensus 212 iDEAH~L~d~A~~~~g~~ls~~~l~~~l~~l~~~~~~~--~~----~~~~~~~~~~~~~l~~~~~-------~~~~---- 274 (636)
T TIGR03117 212 VDEAHLFEQNISRVYSNALSLRRLHLYVEKRHTGAGKG--IV----SAAVAAVSHCIQRLRALDV-------FGDG---- 274 (636)
T ss_pred EeCCcchHHHHHHHhccEECHHHHHHHHHHHhhcccch--hH----HHHHHHHHHHHHHHHhhhc-------cccc----
Confidence 99999999999999999999998888776442110000 00 0111122233333322000 0000
Q ss_pred hhhhhccCcchhchHHHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHHhhccccchhhhhHHHHHHHHHHhhccCCC
Q 004358 313 DILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTD 392 (759)
Q Consensus 313 ~~~~~~~~~~i~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~l~~~l~~~~~~ 392 (759)
+. . ........+.++...+..... .+... . .......+..|+..+.+.+..
T Consensus 275 ~~------~---~~~~~~~~l~~l~~~L~~l~~--------------~l~~~-~-~~~~~~~~~~rl~~~~~~~~~---- 325 (636)
T TIGR03117 275 QT------L---CLDAGNKELETLFADLDAALD--------------ACSVG-R-NRDENKKALSVVKDVKKARFI---- 325 (636)
T ss_pred cc------c---cHHHHHHHHHHHHHHHHHHHH--------------HHhhc-c-cchHHHHHHHHHHHHHHHHHH----
Confidence 00 0 001111111111111111000 00000 0 000111234455444332221
Q ss_pred ccchhHHHHhHHHHhcc--ccCCeEEEEecCCCCCCCCCCCeEEEEccCcccccHH-HhhccCEEEEecCCCCCC-----
Q 004358 393 EFLHIQTICDFATLVGT--YTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKP-VFDRFQSVVITSGTLSPI----- 464 (759)
Q Consensus 393 ~~~~l~~i~~f~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~s~~~~~-l~~~~~svIltSgTL~p~----- 464 (759)
|...... ....+++|+++.. ....|+..|++++..|+. +++..+++|||||||+..
T Consensus 326 ----------~~~~~~~~~~~~~~~~~~~~~~------~~~~L~~~Pl~va~~l~~~~~~~~~~~I~TSATL~v~~~~~~ 389 (636)
T TIGR03117 326 ----------LDNAITAIQGKASAVLQFSPDR------RFPSLIVGREDLGKVMGGLWKDVTHGAIIVSATLYLPDRFGQ 389 (636)
T ss_pred ----------HhhhccccccccceEEEEecCC------CceEEEEecccHHHHHHHHHhcCCCeEEEEccccccCCcCCC
Confidence 1110001 1125678887543 134799999999999955 556677999999999983
Q ss_pred ---cchhhhhCCCCcccccceeec----cCCceeeEEeecC-CCCCcceec--cccC-C---ChHHHHHHHHHHHHhhcc
Q 004358 465 ---DLYPRLLNFHPVVSRSFKMSL----TRDCICPMVLTRG-SDQLPVSTK--FDMR-S---DPGVARNYGKLLVEMVSI 530 (759)
Q Consensus 465 ---~~f~~~lg~~~~~~~~~~~~~----~~~~~~~~ii~~g-~~~~~l~s~--f~~r-~---~~~~~~~~~~~l~~~~~~ 530 (759)
++|++.+|++.. ....+.+| .++.+..++++.. ++..+-+.. +... . .+.|.+.+++.|.+++..
T Consensus 390 ~~F~~f~~~lGL~~~-~l~~~SPFd~~y~~qa~~~LyvP~~~~~~lP~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 468 (636)
T TIGR03117 390 MSCDYLKRVLSLPLS-RLDTPSPIVAPWVRNAIPHLHVPNAKARFLRPVGKDEQGDANLQEAERTWLENVSLSTAAILRK 468 (636)
T ss_pred cCcHHHHHhcCCCcc-ceeCCCCCCchhHhcCceEEEEcCccccCCCCCCCCcccchhhhcchhhHHHHHHHHHHHHHHH
Confidence 578899999743 33333333 3555333555532 111111111 1111 0 256888899999999999
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccc
Q 004358 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (759)
Q Consensus 531 ~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf 610 (759)
..||+|||||||+.|+.+++.+... + .-++++|+.+ .....++++|++.++.+.++||||+ ++||||||+
T Consensus 469 ~~G~~lvLfTS~~~~~~~~~~l~~~-----l--~~~~l~qg~~-~~~~~l~~~f~~~~~~~~~~vL~gt--~sfweGvDv 538 (636)
T TIGR03117 469 AQGGTLVLTTAFSHISAIGQLVELG-----I--PAEIVIQSEK-NRLASAEQQFLALYANGIQPVLIAA--GGAWTGIDL 538 (636)
T ss_pred cCCCEEEEechHHHHHHHHHHHHhh-----c--CCCEEEeCCC-ccHHHHHHHHHHhhcCCCCcEEEeC--Ccccccccc
Confidence 9999999999999999999988653 2 1458998854 2457789999998777778999999 699999999
Q ss_pred --------CCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCC--eeEEEEe
Q 004358 611 --------DRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKAD--YGMMIFA 680 (759)
Q Consensus 611 --------~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D--~g~iill 680 (759)
+|+.|++|||++||||+ +||. +|.++++++++.++. ..|+|+.+++||+|||||+++| +|+|+++
T Consensus 539 ~~~~~~p~~G~~Ls~ViI~kLPF~~-~dp~--a~~~~~~~~g~~~f~--~~p~a~i~lkQg~GRLIR~~~D~~~G~i~il 613 (636)
T TIGR03117 539 THKPVSPDKDNLLTDLIITCAPFGL-NRSL--SMLKRIRKTSVRPWE--IINESLMMLRQGLGRLVRHPDMPQNRRIHML 613 (636)
T ss_pred CCccCCCCCCCcccEEEEEeCCCCc-CChH--HHHHHHHhcCCChHh--hhHHHHHHHHHhcCceeecCCCcCceEEEEE
Confidence 79999999999999995 6886 888999988765443 4689999999999999999999 9999999
Q ss_pred ecccCCccccCC
Q 004358 681 DKRYSRHDKRSK 692 (759)
Q Consensus 681 D~R~~~~~~~~~ 692 (759)
|+| .++.|+..
T Consensus 614 D~R-~~~~yg~~ 624 (636)
T TIGR03117 614 DGR-IHWPYMES 624 (636)
T ss_pred eCC-CCchhHHH
Confidence 999 56666543
No 11
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=100.00 E-value=3.6e-48 Score=406.69 Aligned_cols=262 Identities=48% Similarity=0.782 Sum_probs=211.3
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCC--CcEEEEEccchhhHHHHHHH
Q 004358 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~--~~kvi~~T~T~~l~~Q~~~e 86 (759)
+|.|||++ ||+|.+||+.|++++.+++++++|||||||||++||+|+++|+...+.. ..+|+|+|+|+++++|++.+
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 68999997 9999999999999999999999999999999999999999998876431 12799999999999999999
Q ss_pred HHhhhhh---------------cccCCCCccceEEEeecCCcccccchHHhhhccc-ccHHHHHHHhhhHHHHHhhhcCC
Q 004358 87 LKLLHNY---------------QTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENR-DSVDAACRKRTASWVRALAAENP 150 (759)
Q Consensus 87 l~~l~~~---------------~~~~~g~~~~~~~~~l~gr~~lC~~~~~~~~~~~-~~~~~~c~~l~~~w~~~t~~~~~ 150 (759)
++++... ..+.-..+.++++++|+||+|+|+++.+..+... ...++.|..+...|...+...+.
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 0000001456889999999999999988754322 23347899888777665421112
Q ss_pred CCCCCcCccchHHhhhcCCCCCCCCCHHHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcE
Q 004358 151 NIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (759)
Q Consensus 151 ~~~~c~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~i 230 (759)
+...|+|+++............+++|+|++.+.|..++.||||.+|+.+++|||||+||+|||++.+++.++..+ ++++
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 357899998754322112344678999999999999999999999999999999999999999999877665555 6999
Q ss_pred EEEcCCCChhHHhhhhcceeecHHHHHHHHHHHHHHHHHHHH
Q 004358 231 VVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIER 272 (759)
Q Consensus 231 vI~DEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~ 272 (759)
|||||||||+++|++++|.+|+...|..+.+++.++...+.+
T Consensus 240 lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~ 281 (289)
T smart00488 240 VIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERIEK 281 (289)
T ss_pred EEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999988887655443
No 12
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=100.00 E-value=3.6e-48 Score=406.69 Aligned_cols=262 Identities=48% Similarity=0.782 Sum_probs=211.3
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCC--CcEEEEEccchhhHHHHHHH
Q 004358 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~--~~kvi~~T~T~~l~~Q~~~e 86 (759)
+|.|||++ ||+|.+||+.|++++.+++++++|||||||||++||+|+++|+...+.. ..+|+|+|+|+++++|++.+
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 68999997 9999999999999999999999999999999999999999998876431 12799999999999999999
Q ss_pred HHhhhhh---------------cccCCCCccceEEEeecCCcccccchHHhhhccc-ccHHHHHHHhhhHHHHHhhhcCC
Q 004358 87 LKLLHNY---------------QTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENR-DSVDAACRKRTASWVRALAAENP 150 (759)
Q Consensus 87 l~~l~~~---------------~~~~~g~~~~~~~~~l~gr~~lC~~~~~~~~~~~-~~~~~~c~~l~~~w~~~t~~~~~ 150 (759)
++++... ..+.-..+.++++++|+||+|+|+++.+..+... ...++.|..+...|...+...+.
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 0000001456889999999999999988754322 23347899888777665421112
Q ss_pred CCCCCcCccchHHhhhcCCCCCCCCCHHHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcE
Q 004358 151 NIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (759)
Q Consensus 151 ~~~~c~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~i 230 (759)
+...|+|+++............+++|+|++.+.|..++.||||.+|+.+++|||||+||+|||++.+++.++..+ ++++
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 357899998754322112344678999999999999999999999999999999999999999999877665555 6999
Q ss_pred EEEcCCCChhHHhhhhcceeecHHHHHHHHHHHHHHHHHHHH
Q 004358 231 VVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIER 272 (759)
Q Consensus 231 vI~DEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~ 272 (759)
|||||||||+++|++++|.+|+...|..+.+++.++...+.+
T Consensus 240 lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~ 281 (289)
T smart00489 240 VIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERIEK 281 (289)
T ss_pred EEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999988887655443
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=3.3e-41 Score=326.24 Aligned_cols=166 Identities=31% Similarity=0.570 Sum_probs=135.8
Q ss_pred HHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCc
Q 004358 524 LVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGK 603 (759)
Q Consensus 524 l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~ 603 (759)
|.++++.+|||+|||||||+.|+.+.+.|++.... ....+|.|+ ..+...++++|++ ++++|||||+||+
T Consensus 1 i~~l~~~~~g~~lv~f~Sy~~l~~~~~~~~~~~~~----~~~~v~~q~--~~~~~~~l~~~~~----~~~~il~~v~~g~ 70 (167)
T PF13307_consen 1 ILELISAVPGGVLVFFPSYRRLEKVYERLKERLEE----KGIPVFVQG--SKSRDELLEEFKR----GEGAILLAVAGGS 70 (167)
T ss_dssp HHHHHHCCSSEEEEEESSHHHHHHHHTT-TSS-E-----ETSCEEEST--CCHHHHHHHHHCC----SSSEEEEEETTSC
T ss_pred ChHHHhcCCCCEEEEeCCHHHHHHHHHHHHhhccc----ccceeeecC--cchHHHHHHHHHh----ccCeEEEEEeccc
Confidence 56788999999999999999999999999876421 234689885 3467888999987 5889999999999
Q ss_pred cccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEeecc
Q 004358 604 VAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKR 683 (759)
Q Consensus 604 ~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD~R 683 (759)
+||||||+|+.||+|||+|||||+|.||.+++|++|++++++.++.+||.++|+++++||+||+|||++|||+|+|+|+|
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 99999999999999999999999999999999999999999888999999999999999999999999999999999999
Q ss_pred cCCccccCCCchHHHh
Q 004358 684 YSRHDKRSKLPGWILS 699 (759)
Q Consensus 684 ~~~~~~~~~lp~w~~~ 699 (759)
|.++.|++.||+|+++
T Consensus 151 ~~~~~y~~~l~~~l~~ 166 (167)
T PF13307_consen 151 FLSKRYGKYLPKWLPP 166 (167)
T ss_dssp GGGHHHHHH-T-----
T ss_pred cccchhhhcCcccccc
Confidence 9999999999999985
No 14
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=100.00 E-value=5.9e-36 Score=279.26 Aligned_cols=141 Identities=47% Similarity=0.810 Sum_probs=128.0
Q ss_pred HHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEE
Q 004358 542 YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMF 621 (759)
Q Consensus 542 y~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~ 621 (759)
|++|+++++.|++.+.+ ...++||+|+++..+.+.++++|++.++.+ |+|||||+||+|||||||+|+.||+|||+
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 78999999999987654 235789999998777778999999876555 79999999999999999999999999999
Q ss_pred ccCCCCcCCHHHHHHHHHHHHhc-CCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEeecccCC
Q 004358 622 GVPFQYTLSKILLARLEYLRDTF-QIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSR 686 (759)
Q Consensus 622 glPfp~~~dp~v~ar~~~l~~~~-~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD~R~~~ 686 (759)
|||||+|+||.+++|++|+++.+ ..++.+||.++|+++++||+||+|||++|||+|+|+|+||.+
T Consensus 77 glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~Qa~GR~iR~~~D~g~i~l~D~R~~~ 142 (142)
T smart00491 77 GIPFPNPDSPILRARLEYLDEKGGIRPFDEVYLFDAMRALAQAIGRAIRHKNDYGVVVLLDKRYAR 142 (142)
T ss_pred ecCCCCCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHhCccccCccceEEEEEEeccccC
Confidence 99999999999999999999887 567788999999999999999999999999999999999863
No 15
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=100.00 E-value=2.1e-33 Score=261.53 Aligned_cols=139 Identities=41% Similarity=0.684 Sum_probs=127.1
Q ss_pred HHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEE
Q 004358 542 YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMF 621 (759)
Q Consensus 542 y~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~ 621 (759)
|++|+++++.|++.+.+.+|.++++||+|+++..+.+.++++|++. +.++|||||+ ++||||||+|+.||+|||+
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 7899999999999999999998999999998876788899999985 3348999997 4999999999999999999
Q ss_pred ccCCCCcCCHHHHHHHHHHHHhc-CCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEeecccC
Q 004358 622 GVPFQYTLSKILLARLEYLRDTF-QIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYS 685 (759)
Q Consensus 622 glPfp~~~dp~v~ar~~~l~~~~-~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD~R~~ 685 (759)
|||||+|+||.+++|.+|+++.+ ..++..++.++|+++++||+||+|||++|||+|+|+|+|+.
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 44556667899999999999999999999999999999986
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=99.97 E-value=7.4e-32 Score=263.54 Aligned_cols=173 Identities=31% Similarity=0.663 Sum_probs=129.9
Q ss_pred EEccchhhHHHHHHHHHhhhhhcccCCCCccceEEEeecCCcccccchHHhhhcccccHHHHHHHhhhHHHHHhhhcCCC
Q 004358 72 YCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPN 151 (759)
Q Consensus 72 ~~T~T~~l~~Q~~~el~~l~~~~~~~~g~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~t~~~~~~ 151 (759)
|+||||+|++|+++||+++..+.+. +.++++++|+||+++|+++.+.....++.+++.|..+...|...
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 8999999999999999998554321 45789999999999999998887655667788999877543211
Q ss_pred CCCCcCccchHHhhh-cCCCCCCCCCHHHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcE
Q 004358 152 IETCEFFENYEKAAS-AAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (759)
Q Consensus 152 ~~~c~~~~~~~~~~~-~~~~~~~~~~~e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~i 230 (759)
..|+||.+...... .......++|++++++.|+..+.||||.+|+.+.+|||||+||+|||++.++..+....+++.+
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 47999987522111 1133457899999999999999999999999999999999999999999988766422357899
Q ss_pred EEEcCCCChhHHhhhhcceeecHHHH
Q 004358 231 VVFDEAHNIDNVCIEALSVSVRRQTL 256 (759)
Q Consensus 231 vI~DEAHnl~~~~~~~~s~~is~~~l 256 (759)
|||||||||+++|++++|.+|+..+|
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 99999999999999999999998865
No 17
>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=99.80 E-value=4.4e-19 Score=161.04 Aligned_cols=144 Identities=56% Similarity=0.871 Sum_probs=133.9
Q ss_pred HHHhhhhchhHHHHHHHHHHHHHHhcCCCccchhcccCCCCChhhhhhccCcchhchHHHHHHHHHHHHHHHhhhhcccc
Q 004358 270 IERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENV 349 (759)
Q Consensus 270 ~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~l~~~~~~~~~ 349 (759)
+++++..|.++|+++|.+++++|+..+.....+.++.+|.+|++++++.+||+|+++++|+.++++++++++.+++...+
T Consensus 3 i~~~k~~d~~rLq~EY~rLV~GL~~~~~~~~~d~~~~npvLp~dil~eaVPGnIR~AeHFv~flkR~veylk~rlrv~~v 82 (146)
T PF06777_consen 3 IDEIKETDAQRLQDEYDRLVEGLREAEIARETDEILANPVLPDDILKEAVPGNIRRAEHFVAFLKRFVEYLKTRLRVQHV 82 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccccchhhcCCCCchhhhhhcCCchHHhHHHHHHHHHHHHHHHHHHhhhcce
Confidence 34456678889999999999999988776667889999999999999999999999999999999999999999998888
Q ss_pred cccChhHHHHHHHHhhccccchhhhhHHHHHHHHHHhhccCCCccchhHHHHhHHHHhccccCC
Q 004358 350 EKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVGTYTRG 413 (759)
Q Consensus 350 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~l~~~l~~~~~~~~~~l~~i~~f~~~~~~~~~~ 413 (759)
..++|.+|++.+.+.++++.+++++|.+||++++++|++.+.++|+++..|++|++++++|.+|
T Consensus 83 ~~e~P~sFL~~~~~~~~id~k~LrFc~eRL~sLl~TLei~d~~df~~L~~Va~FaTLv~tY~~G 146 (146)
T PF06777_consen 83 ISESPLSFLQHLKDETFIDRKPLRFCSERLSSLLRTLEITDIDDFSALQLVADFATLVSTYSKG 146 (146)
T ss_pred eecCHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHCCCcHhhhhHHHHHHHHHHHHHHhcCC
Confidence 9999999999999999999999999999999999999999999999999999999999888764
No 18
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.72 E-value=1.9e-15 Score=169.90 Aligned_cols=76 Identities=24% Similarity=0.189 Sum_probs=63.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC---CCCcEEEEEccchhhHHHHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---ENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~---~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
..|..|+|.|.+.+..+. +++.+++.||||+|||++|++|++.+....+ .+..+++|.++|.++..|+.+.+.
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 578888999999887666 6789999999999999999999998765321 122389999999999999999887
Q ss_pred hhh
Q 004358 89 LLH 91 (759)
Q Consensus 89 ~l~ 91 (759)
.+.
T Consensus 95 ~l~ 97 (434)
T PRK11192 95 ELA 97 (434)
T ss_pred HHH
Confidence 764
No 19
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.70 E-value=5.1e-15 Score=166.97 Aligned_cols=77 Identities=17% Similarity=0.158 Sum_probs=63.2
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCC-----CCcEEEEEccchhhHHHHHH
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-----NPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~-----~~~kvi~~T~T~~l~~Q~~~ 85 (759)
.+.|..|+|.|.+.+..+. +++.+++.||||+|||++|++|++........ ...+++|.+||.+|..|+.+
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 3577778999999987655 68899999999999999999999887643211 12379999999999999999
Q ss_pred HHHhhh
Q 004358 86 ELKLLH 91 (759)
Q Consensus 86 el~~l~ 91 (759)
+++.+.
T Consensus 94 ~~~~~~ 99 (456)
T PRK10590 94 NVRDYS 99 (456)
T ss_pred HHHHHh
Confidence 888764
No 20
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.70 E-value=6.2e-15 Score=166.87 Aligned_cols=75 Identities=19% Similarity=0.159 Sum_probs=63.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
..|..|+|.|.+.+..+. +++++++.||||||||++|++|++.......... +++|.+||.++..|+.++++.+.
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 578878999999887655 6889999999999999999999998765433234 79999999999999999998864
No 21
>PTZ00110 helicase; Provisional
Probab=99.69 E-value=8.4e-15 Score=167.98 Aligned_cols=74 Identities=16% Similarity=0.097 Sum_probs=61.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC-----CCCCcEEEEEccchhhHHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-----PENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~-----~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
..|..|+|.|.+.+..+. .++.+++.||||+|||++|++|++...... ..++ .++|.+||.+|..|+.++
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 468888999999876544 688999999999999999999998775432 1244 899999999999999998
Q ss_pred HHhh
Q 004358 87 LKLL 90 (759)
Q Consensus 87 l~~l 90 (759)
++++
T Consensus 223 ~~~~ 226 (545)
T PTZ00110 223 CNKF 226 (545)
T ss_pred HHHH
Confidence 8876
No 22
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.69 E-value=7.4e-15 Score=164.41 Aligned_cols=76 Identities=26% Similarity=0.260 Sum_probs=63.2
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC-------CCCcEEEEEccchhhHHHH
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-------ENPVKLIYCTRTVHEMEKT 83 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~-------~~~~kvi~~T~T~~l~~Q~ 83 (759)
.+.|..|+|.|.+.+..+. +|+++++.||||+|||++|++|++......+ .+. +++|.+||.++..|+
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 3678888999999886544 7899999999999999999999987654321 124 899999999999999
Q ss_pred HHHHHhhh
Q 004358 84 LAELKLLH 91 (759)
Q Consensus 84 ~~el~~l~ 91 (759)
.+++..+.
T Consensus 100 ~~~~~~l~ 107 (423)
T PRK04837 100 HADAEPLA 107 (423)
T ss_pred HHHHHHHh
Confidence 99888764
No 23
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.69 E-value=8.7e-15 Score=168.44 Aligned_cols=76 Identities=22% Similarity=0.240 Sum_probs=63.3
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC-------CCCcEEEEEccchhhHHHH
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-------ENPVKLIYCTRTVHEMEKT 83 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~-------~~~~kvi~~T~T~~l~~Q~ 83 (759)
.+.|..|+|.|.+.+..+. +++++++.||||||||++||+|++......+ ... +++|.++|++|..|+
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 3678888999999986554 7899999999999999999999987654321 124 899999999999999
Q ss_pred HHHHHhhh
Q 004358 84 LAELKLLH 91 (759)
Q Consensus 84 ~~el~~l~ 91 (759)
.+++.++.
T Consensus 101 ~~~~~~l~ 108 (572)
T PRK04537 101 HKDAVKFG 108 (572)
T ss_pred HHHHHHHh
Confidence 99888763
No 24
>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=99.67 E-value=2.6e-14 Score=161.79 Aligned_cols=69 Identities=20% Similarity=0.294 Sum_probs=59.6
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
-.|+|..+||.|.+.+..+. +++.+++.||||+|||++|++|++.. ++ .++|.+||.+|..|.++.+..
T Consensus 5 ~~~g~~~~r~~Q~~ai~~~l----~g~dvlv~apTGsGKTl~y~lp~l~~------~~-~~lVi~P~~~L~~dq~~~l~~ 73 (470)
T TIGR00614 5 TVFGLSSFRPVQLEVINAVL----LGRDCFVVMPTGGGKSLCYQLPALCS------DG-ITLVISPLISLMEDQVLQLKA 73 (470)
T ss_pred hhcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCCcHhHHHHHHHHHc------CC-cEEEEecHHHHHHHHHHHHHH
Confidence 46999999999999887665 67899999999999999999998752 34 789999999999998887764
No 25
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.67 E-value=3.2e-14 Score=161.60 Aligned_cols=76 Identities=21% Similarity=0.179 Sum_probs=62.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCC------CCcEEEEEccchhhHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE------NPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~------~~~kvi~~T~T~~l~~Q~~~ 85 (759)
+.|..++|.|.+.+..+. +|+++++.||||||||++|++|++......+. +..+++|.++|++|..|+.+
T Consensus 105 ~g~~~~~~iQ~~ai~~~~----~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~ 180 (475)
T PRK01297 105 LGFPYCTPIQAQVLGYTL----AGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAK 180 (475)
T ss_pred CCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHH
Confidence 678878999999886544 78999999999999999999999876654321 12389999999999999999
Q ss_pred HHHhhh
Q 004358 86 ELKLLH 91 (759)
Q Consensus 86 el~~l~ 91 (759)
+++.+.
T Consensus 181 ~~~~l~ 186 (475)
T PRK01297 181 DAAALT 186 (475)
T ss_pred HHHHhh
Confidence 888764
No 26
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.66 E-value=2.4e-14 Score=165.86 Aligned_cols=77 Identities=17% Similarity=0.148 Sum_probs=64.1
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.++|+.|+|.|.+.+..+. +++.+++.||||||||++|++|++........+. +++|.+||.+|..|+.+++..+
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 3578888999999876554 6889999999999999999999887665433345 8999999999999999988876
Q ss_pred hh
Q 004358 91 HN 92 (759)
Q Consensus 91 ~~ 92 (759)
..
T Consensus 98 ~~ 99 (629)
T PRK11634 98 SK 99 (629)
T ss_pred Hh
Confidence 43
No 27
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.66 E-value=3e-14 Score=162.84 Aligned_cols=74 Identities=24% Similarity=0.199 Sum_probs=61.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC-------CCCCcEEEEEccchhhHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-------PENPVKLIYCTRTVHEMEKTL 84 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~-------~~~~~kvi~~T~T~~l~~Q~~ 84 (759)
.+|..|+|.|.+.+..+. .|+++++.||||+|||++|++|++...... ..+. +++|.+||.+|..|+.
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 578888999999986655 789999999999999999999998765321 1244 8999999999999998
Q ss_pred HHHHhh
Q 004358 85 AELKLL 90 (759)
Q Consensus 85 ~el~~l 90 (759)
++++.+
T Consensus 214 ~~~~~l 219 (518)
T PLN00206 214 DQAKVL 219 (518)
T ss_pred HHHHHH
Confidence 887765
No 28
>PTZ00424 helicase 45; Provisional
Probab=99.65 E-value=8.6e-14 Score=155.06 Aligned_cols=75 Identities=11% Similarity=0.038 Sum_probs=62.6
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.|+|..|+|.|.+.+..+. ++.+.++.||||+|||++|++|++........+. +++|.+||.++..|+.+.++.+
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 3678878999999887665 6889999999999999999999998765433345 8999999999999988777664
No 29
>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=99.61 E-value=4.1e-13 Score=158.68 Aligned_cols=73 Identities=18% Similarity=0.170 Sum_probs=62.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
..|+.|||.|.+.+..+ .+|+++++.||||||||+||++|++......+ +. +++|.+||++|..|+.++++.+
T Consensus 32 ~g~~~p~~~Q~~ai~~i----l~G~nvvv~apTGSGKTla~~LPiL~~l~~~~-~~-~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 32 AGIHRPWQHQARAAELA----HAGRHVVVATGTASGKSLAYQLPVLSALADDP-RA-TALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred cCCCcCCHHHHHHHHHH----HCCCCEEEECCCCCcHHHHHHHHHHHHHhhCC-Cc-EEEEEcChHHHHHHHHHHHHHh
Confidence 45777899999988655 47899999999999999999999998775542 34 8999999999999999988875
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=99.61 E-value=2.4e-13 Score=158.45 Aligned_cols=69 Identities=20% Similarity=0.293 Sum_probs=59.3
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
-.|+|..+||.|.+.+..+. +|+.+++.||||+|||++|++|++.. ++ .++|.+||.+++.|.++.++.
T Consensus 7 ~~fg~~~fr~~Q~~~i~~il----~g~dvlv~~PTG~GKTl~y~lpal~~------~g-~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 7 RTFGYDDFRPGQEEIISHVL----DGRDVLVVMPTGGGKSLCYQVPALLL------KG-LTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred HhcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCccHhHHHHHHHHHc------CC-cEEEEcCCHHHHHHHHHHHHH
Confidence 46999999999999997766 68899999999999999999998842 34 678889999999988887765
No 31
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.61 E-value=3.2e-13 Score=162.71 Aligned_cols=72 Identities=21% Similarity=0.265 Sum_probs=57.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC-----CCCcEEEEEccchhhHHHHHHHHH
Q 004358 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 14 y~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~-----~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
|..|+|.|.+.+..+ .+|+++++.||||+|||++|++|++....... ....+++|.+||++|..|+.+.+.
T Consensus 30 ~~~~tpiQ~~Ai~~i----l~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 30 FGTFTPPQRYAIPLI----HEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred cCCCCHHHHHHHHHH----HcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 555799999988665 46899999999999999999999987654321 123389999999999999887655
Q ss_pred h
Q 004358 89 L 89 (759)
Q Consensus 89 ~ 89 (759)
.
T Consensus 106 ~ 106 (876)
T PRK13767 106 E 106 (876)
T ss_pred H
Confidence 3
No 32
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.59 E-value=5.4e-13 Score=155.22 Aligned_cols=69 Identities=20% Similarity=0.313 Sum_probs=59.5
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
-.|+|+.+||.|.+.+..+. +++.+++.||||+|||++|++|++.. ++ .++|.+||+++..|.++.++.
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 36999989999999987665 68899999999999999999998842 24 688999999999998887765
No 33
>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=99.56 E-value=1.5e-12 Score=155.44 Aligned_cols=77 Identities=19% Similarity=0.232 Sum_probs=67.0
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHH
Q 004358 10 VYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (759)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el 87 (759)
-.|||++ +|.|.+.+..|.+.+..+ ...++.||||+|||.+++.|++..... +. +++|.+||..|..|..+.+
T Consensus 446 ~~~~f~~-T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~---g~-qvlvLvPT~~LA~Q~~~~f 520 (926)
T TIGR00580 446 DSFPFEE-TPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD---GK-QVAVLVPTTLLAQQHFETF 520 (926)
T ss_pred HhCCCCC-CHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHh---CC-eEEEEeCcHHHHHHHHHHH
Confidence 4699985 999999999999988765 478999999999999999998766542 45 8999999999999999998
Q ss_pred Hhhh
Q 004358 88 KLLH 91 (759)
Q Consensus 88 ~~l~ 91 (759)
+++.
T Consensus 521 ~~~~ 524 (926)
T TIGR00580 521 KERF 524 (926)
T ss_pred HHHh
Confidence 8753
No 34
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.52 E-value=7e-12 Score=147.59 Aligned_cols=92 Identities=18% Similarity=0.132 Sum_probs=75.1
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH
Q 004358 8 VTVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 8 ~~v~FPy~~~r~~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
+.-.|||++ ++.|.+.+.+|...+..+ .+.++.||||+|||++|++|++.... .+. +++|.+||..+..|..+
T Consensus 254 ~~~~l~f~l-t~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~---~g~-q~lilaPT~~LA~Q~~~ 328 (681)
T PRK10917 254 FLASLPFEL-TGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE---AGY-QAALMAPTEILAEQHYE 328 (681)
T ss_pred HHHhCCCCC-CHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH---cCC-eEEEEeccHHHHHHHHH
Confidence 345689985 999999999999988765 37899999999999999999887654 245 89999999999999999
Q ss_pred HHHhhhhhcccCCCCccceEEEeecCC
Q 004358 86 ELKLLHNYQTRHLGPAAKILAIGLSSR 112 (759)
Q Consensus 86 el~~l~~~~~~~~g~~~~~~~~~l~gr 112 (759)
.++++.+ ..++++..+.|.
T Consensus 329 ~l~~l~~--------~~~i~v~ll~G~ 347 (681)
T PRK10917 329 NLKKLLE--------PLGIRVALLTGS 347 (681)
T ss_pred HHHHHHh--------hcCcEEEEEcCC
Confidence 9988743 223566666654
No 35
>PRK01172 ski2-like helicase; Provisional
Probab=99.52 E-value=2.5e-12 Score=152.21 Aligned_cols=70 Identities=24% Similarity=0.305 Sum_probs=59.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.+|+ +||.|.+.+.. +.+++++++.||||+|||++++.+++..... +. +++|.+||.++..|..++++++
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-LYDHQRMAIEQ----LRKGENVIVSVPTAAGKTLIAYSAIYETFLA---GL-KSIYIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred CCCC-CCHHHHHHHHH----HhcCCcEEEECCCCchHHHHHHHHHHHHHHh---CC-cEEEEechHHHHHHHHHHHHHH
Confidence 4777 59999998865 4678899999999999999999887765432 45 8999999999999999998864
No 36
>PRK02362 ski2-like helicase; Provisional
Probab=99.52 E-value=3.1e-12 Score=152.57 Aligned_cols=72 Identities=18% Similarity=0.223 Sum_probs=61.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.+|..+||.|.+.+.. .+.+++++++.||||+|||+++++|++.... .+. +++|.+||+++..|..++++++
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 3577789999998864 3567899999999999999999999887653 246 8999999999999999998864
No 37
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.51 E-value=4.2e-12 Score=149.94 Aligned_cols=67 Identities=16% Similarity=0.175 Sum_probs=56.2
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
.|+|..+||.|.+.+..+. .|+.+++-||||+|||++|++|+|.. ++ .+||.+||++|+.+.+..+.
T Consensus 455 ~FG~~sFRp~Q~eaI~aiL----~GrDVLVimPTGSGKSLcYQLPAL~~------~G-iTLVISPLiSLmqDQV~~L~ 521 (1195)
T PLN03137 455 VFGNHSFRPNQREIINATM----SGYDVFVLMPTGGGKSLTYQLPALIC------PG-ITLVISPLVSLIQDQIMNLL 521 (1195)
T ss_pred HcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCccHHHHHHHHHHHc------CC-cEEEEeCHHHHHHHHHHHHH
Confidence 6889989999999886664 78999999999999999999999852 34 79999999999875555444
No 38
>PRK00254 ski2-like helicase; Provisional
Probab=99.48 E-value=7.6e-12 Score=148.90 Aligned_cols=73 Identities=21% Similarity=0.281 Sum_probs=61.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.+|..++|.|.+.+.. .+.+++++++.||||+|||+++++|++...... +. +++|.+||+++..|..++++.+
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 5777789999998764 356789999999999999999999988765432 46 8999999999999999988764
No 39
>PRK09401 reverse gyrase; Reviewed
Probab=99.48 E-value=4.5e-12 Score=155.09 Aligned_cols=72 Identities=19% Similarity=0.166 Sum_probs=56.8
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.+.++ |+|.|.+.+..+. .|+++++.||||+|||..++ +.+.+... .+. +++|.+||.+|..|+.+.++.+
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 35776 5999998776554 78999999999999997544 44445433 256 9999999999999999999886
Q ss_pred h
Q 004358 91 H 91 (759)
Q Consensus 91 ~ 91 (759)
.
T Consensus 147 ~ 147 (1176)
T PRK09401 147 G 147 (1176)
T ss_pred h
Confidence 4
No 40
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.42 E-value=9e-11 Score=133.83 Aligned_cols=108 Identities=15% Similarity=0.137 Sum_probs=74.4
Q ss_pred ccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCc-hhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004358 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (759)
Q Consensus 530 ~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~-~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGi 608 (759)
..+++++|||.+-+..+.+.+.+.+.+. +..++.+... .++..+++.|+. ++..||++.. +-++||+
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 4567999999999999999998876542 3345555432 345555666654 5666888753 5899999
Q ss_pred ccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEee
Q 004358 609 DFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFAD 681 (759)
Q Consensus 609 Df~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD 681 (759)
|+|+ +.+||+...| .+ ...+.|.+||+.|...+...+.++|
T Consensus 410 Dip~--ld~vIl~~p~----~s--------------------------~~~~~QriGR~~R~~~~K~~~~i~D 450 (501)
T PHA02558 410 SIKN--LHHVIFAHPS----KS--------------------------KIIVLQSIGRVLRKHGSKSIATVWD 450 (501)
T ss_pred cccc--ccEEEEecCC----cc--------------------------hhhhhhhhhccccCCCCCceEEEEE
Confidence 9997 6677765422 11 1344599999999887766666654
No 41
>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=99.36 E-value=5e-12 Score=126.93 Aligned_cols=75 Identities=19% Similarity=0.166 Sum_probs=64.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC--CCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~--~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+++..+|+.|.+.+..+.+ +++++++||||+|||++|+.|++...... ..+. +++|.++|.++..|..+.++.
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 5777789999999977774 88999999999999999999998877654 2345 899999999999999998887
Q ss_pred hh
Q 004358 90 LH 91 (759)
Q Consensus 90 l~ 91 (759)
+.
T Consensus 92 ~~ 93 (203)
T cd00268 92 LG 93 (203)
T ss_pred Hh
Confidence 53
No 42
>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=99.35 E-value=3.5e-10 Score=131.88 Aligned_cols=74 Identities=19% Similarity=0.244 Sum_probs=56.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCC-cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~-~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
.|+ |+|.|.+.+..+. +|+ .+++.||||||||.++.++.+.......... ++||+++|..+..|+.+++.++.
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 576 5999999998765 565 6888999999999976554443322222234 88899999999999999998875
Q ss_pred h
Q 004358 92 N 92 (759)
Q Consensus 92 ~ 92 (759)
+
T Consensus 87 k 87 (844)
T TIGR02621 87 E 87 (844)
T ss_pred H
Confidence 4
No 43
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.34 E-value=5.2e-10 Score=136.93 Aligned_cols=77 Identities=14% Similarity=0.100 Sum_probs=65.1
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHH
Q 004358 9 TVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
.-.|||++ +|.|.+.+..|...+... ...++.||||+|||.+++.++..... .+. +++|.+||..|..|+.+.
T Consensus 594 ~~~~~~~~-T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~---~g~-qvlvLvPT~eLA~Q~~~~ 668 (1147)
T PRK10689 594 CDSFPFET-TPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE---NHK-QVAVLVPTTLLAQQHYDN 668 (1147)
T ss_pred HHhCCCCC-CHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH---cCC-eEEEEeCcHHHHHHHHHH
Confidence 34699985 999999999999888765 57999999999999999887665443 256 999999999999999998
Q ss_pred HHhh
Q 004358 87 LKLL 90 (759)
Q Consensus 87 l~~l 90 (759)
+++.
T Consensus 669 f~~~ 672 (1147)
T PRK10689 669 FRDR 672 (1147)
T ss_pred HHHh
Confidence 8864
No 44
>PRK14701 reverse gyrase; Provisional
Probab=99.33 E-value=4.9e-10 Score=140.43 Aligned_cols=73 Identities=14% Similarity=0.149 Sum_probs=60.5
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.++|+ |+|.|.+.+..+. +|+.+++-||||+|||+.++.+++..+. .+. +++|.+||.+|..|+.+.++.+
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 47886 6999999997666 6889999999999999977777665432 245 8999999999999999999886
Q ss_pred hh
Q 004358 91 HN 92 (759)
Q Consensus 91 ~~ 92 (759)
..
T Consensus 146 ~~ 147 (1638)
T PRK14701 146 CE 147 (1638)
T ss_pred Hh
Confidence 43
No 45
>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=99.30 E-value=1.5e-11 Score=120.95 Aligned_cols=67 Identities=28% Similarity=0.426 Sum_probs=57.3
Q ss_pred CCHHHHHHHHHHHHHHHhC---CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~---~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+||.|.+.+..+.+.+... .+++++||||+|||..++..+.... . +++|.++|.++.+|..+++..+
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 8999999999999999886444432 3 8999999999999999998654
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=99.29 E-value=8.7e-10 Score=135.45 Aligned_cols=87 Identities=23% Similarity=0.391 Sum_probs=63.9
Q ss_pred HHHhhcccCCcEEEEecCH---HHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee
Q 004358 524 LVEMVSIVPDGIVCFFVSY---SYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 600 (759)
Q Consensus 524 l~~~~~~~~gg~lv~f~Sy---~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~ 600 (759)
+.++++..++|+|||+++- +..+.+.+.+.+.|+ +...+.+.. . ...++.|++ |+--||+|+.
T Consensus 318 L~~ll~~l~~~~IVFv~t~~~~~~a~~l~~~L~~~g~-------~a~~lhg~~-~--~~~l~~Fr~----G~~~vLVata 383 (1171)
T TIGR01054 318 LLEIVKKLGTGGIVYVSIDYGKEKAEEIAEFLENHGV-------KAVAYHATK-P--KEDYEKFAE----GEIDVLIGVA 383 (1171)
T ss_pred HHHHHHHcCCCEEEEEeccccHHHHHHHHHHHHhCCc-------eEEEEeCCC-C--HHHHHHHHc----CCCCEEEEec
Confidence 3344444567899999998 999999998877653 223333322 1 357889987 6777999974
Q ss_pred --cCccccccccCCCCceEEEEEccCC
Q 004358 601 --RGKVAEGIDFDRHYGRLVIMFGVPF 625 (759)
Q Consensus 601 --~G~~~EGiDf~~~~~r~vii~glPf 625 (759)
.|-++.|||+|+ ..|.||-.|+|-
T Consensus 384 ~~tdv~aRGIDip~-~V~~vI~~~~P~ 409 (1171)
T TIGR01054 384 SYYGTLVRGLDLPE-RVRYAVFLGVPK 409 (1171)
T ss_pred cccCcccccCCCCc-cccEEEEECCCC
Confidence 578999999997 568899999994
No 47
>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=99.28 E-value=1.4e-11 Score=119.64 Aligned_cols=68 Identities=19% Similarity=0.284 Sum_probs=58.1
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
.|.|.+.+..+. +++++++.||||+|||++|+.|++....+. ... +++|.+||.++.+|..++++...
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 378999887776 688999999999999999999999877654 335 89999999999999999988763
No 48
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.28 E-value=5.8e-09 Score=119.19 Aligned_cols=69 Identities=22% Similarity=0.119 Sum_probs=55.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhh
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~ 92 (759)
...| ||.|..-+-.+. +|+ +.||.||+|||+++++|++..+. .++ .+.|.|+|..|..|..+++..+..
T Consensus 101 g~~p-~~VQ~~~~~~ll----~G~--Iae~~TGeGKTla~~lp~~~~al---~G~-~v~VvTptreLA~qdae~~~~l~~ 169 (656)
T PRK12898 101 GQRH-FDVQLMGGLALL----SGR--LAEMQTGEGKTLTATLPAGTAAL---AGL-PVHVITVNDYLAERDAELMRPLYE 169 (656)
T ss_pred CCCC-ChHHHHHHHHHh----CCC--eeeeeCCCCcHHHHHHHHHHHhh---cCC-eEEEEcCcHHHHHHHHHHHHHHHh
Confidence 3443 788988775554 455 89999999999999999887643 256 899999999999999999888754
No 49
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.26 E-value=3.3e-09 Score=122.96 Aligned_cols=77 Identities=17% Similarity=0.053 Sum_probs=63.0
Q ss_pred CCC--CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHH---------HHHHHHHHHHh---CCCCCcEEEEEccchh
Q 004358 13 PYD--NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA---------LLSLITSYVLS---KPENPVKLIYCTRTVH 78 (759)
Q Consensus 13 Py~--~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla---------~L~~~l~~~~~---~~~~~~kvi~~T~T~~ 78 (759)
||. +.++.|.++-+++..++.+++.+++.||||+|||.+ ||.|.+.++.. ..... +|++++||.+
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 579999999999999999999999999999999997 56666665532 11235 8999999999
Q ss_pred hHHHHHHHHHhh
Q 004358 79 EMEKTLAELKLL 90 (759)
Q Consensus 79 l~~Q~~~el~~l 90 (759)
+..|+..++...
T Consensus 234 La~qi~~~i~~~ 245 (675)
T PHA02653 234 LVRLHSITLLKS 245 (675)
T ss_pred HHHHHHHHHHHH
Confidence 999988777654
No 50
>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=99.25 E-value=1.4e-09 Score=119.35 Aligned_cols=51 Identities=27% Similarity=0.293 Sum_probs=43.8
Q ss_pred EEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 38 ~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+++.||||+|||++++.|++...... .+. +++|..||.++..|+.+.+..+
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 51
>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=99.24 E-value=1.1e-08 Score=117.65 Aligned_cols=153 Identities=14% Similarity=0.149 Sum_probs=92.7
Q ss_pred ccccHHHhhccCEEEEecCCCCCC-cchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~-~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..++.+--|+||.... +.|.+.-|++.+. +|.+. |..-.+-++. -| ....+-+.+
T Consensus 330 ~It~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY~l~vv~-------IPtnk--p~~R~d~~d~-----i~--~t~~~k~~a 393 (745)
T TIGR00963 330 TITYQNFFRLYEKLSGMTGTAKTEEEEFEKIYNLEVVV-------VPTNR--PVIRKDLSDL-----VY--KTEEEKWKA 393 (745)
T ss_pred eeeHHHHHhhCchhhccCCCcHHHHHHHHHHhCCCEEE-------eCCCC--CeeeeeCCCe-----EE--cCHHHHHHH
Confidence 345588888889999999999653 2455555665321 11111 0100011111 12 223333456
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv 599 (759)
+.+.+.+.. ..+..+|||+.|-..-+.+.+.+.+.|+ +....-+. ....+..+..|. +++|+|++|+
T Consensus 394 i~~~i~~~~-~~grpvLV~t~si~~se~ls~~L~~~gi-------~~~~Lna~-q~~rEa~ii~~a----g~~g~VtIAT 460 (745)
T TIGR00963 394 VVDEIKERH-AKGQPVLVGTTSVEKSELLSNLLKERGI-------PHNVLNAK-NHEREAEIIAQA----GRKGAVTIAT 460 (745)
T ss_pred HHHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHcCC-------CeEEeeCC-hHHHHHHHHHhc----CCCceEEEEe
Confidence 666665554 4688999999999999999999987654 12222232 234455555554 3689999988
Q ss_pred ecCccccccccCCCCce-----EEEEEccC
Q 004358 600 ARGKVAEGIDFDRHYGR-----LVIMFGVP 624 (759)
Q Consensus 600 ~~G~~~EGiDf~~~~~r-----~vii~glP 624 (759)
. -...|+|++.+..+ .||.+-+|
T Consensus 461 n--mAgRGtDI~l~~V~~~GGl~VI~t~~p 488 (745)
T TIGR00963 461 N--MAGRGTDIKLEEVKELGGLYVIGTERH 488 (745)
T ss_pred c--cccCCcCCCccchhhcCCcEEEecCCC
Confidence 3 67999999985444 55555544
No 52
>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=99.23 E-value=3.8e-08 Score=113.97 Aligned_cols=67 Identities=18% Similarity=0.195 Sum_probs=52.6
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhh
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~ 92 (759)
||.|.|++..+. +.+| .++|++||+|||+++++|++..+. .++ .|+|.|+|..|..|..+++..+.+
T Consensus 70 rpydVQlig~l~--l~~G--~Iaem~TGeGKTLta~Lpa~l~aL---~g~-~V~VVTpn~yLA~Rdae~m~~l~~ 136 (762)
T TIGR03714 70 FPYDVQVLGAIV--LHQG--NIAEMKTGEGKTLTATMPLYLNAL---TGK-GAMLVTTNDYLAKRDAEEMGPVYE 136 (762)
T ss_pred CccHHHHHHHHH--hcCC--ceeEecCCcchHHHHHHHHHHHhh---cCC-ceEEeCCCHHHHHHHHHHHHHHHh
Confidence 667777776653 3334 699999999999999999765443 256 799999999999999998877643
No 53
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.18 E-value=1.1e-08 Score=119.54 Aligned_cols=65 Identities=23% Similarity=0.223 Sum_probs=49.9
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhh
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~ 92 (759)
|+.|. +..+ ++.+|. ++||.||+|||+++++|++..+. .++ .|.|.|+|..|..|..+++..+..
T Consensus 80 ~~vQl--~~~~--~l~~G~--Iaem~TGeGKTL~a~lp~~l~al---~G~-~v~VvTpt~~LA~qd~e~~~~l~~ 144 (790)
T PRK09200 80 YDVQL--IGAL--VLHEGN--IAEMQTGEGKTLTATMPLYLNAL---EGK-GVHLITVNDYLAKRDAEEMGQVYE 144 (790)
T ss_pred chHHH--HhHH--HHcCCc--eeeecCCCcchHHHHHHHHHHHH---cCC-CeEEEeCCHHHHHHHHHHHHHHHh
Confidence 55554 4333 333444 99999999999999999875554 256 899999999999999998888753
No 54
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.18 E-value=6.3e-09 Score=128.45 Aligned_cols=50 Identities=18% Similarity=0.311 Sum_probs=40.8
Q ss_pred EEcCCCCcHHHHHHHHHHHHHHhCC---------CCCcEEEEEccchhhHHHHHHHHHh
Q 004358 40 LEMPTGTGKTIALLSLITSYVLSKP---------ENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 40 iEaPTGtGKTla~L~~~l~~~~~~~---------~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
|.||||+|||+||++|+|.-....+ .++.+++|.|||++|..|+.++|+.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 4699999999999999987664321 1234999999999999999998875
No 55
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.09 E-value=5.8e-10 Score=130.53 Aligned_cols=90 Identities=18% Similarity=0.153 Sum_probs=72.6
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCC--cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHH
Q 004358 10 VYFPYDNIYPEQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (759)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~al~~~~--~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el 87 (759)
-.+||++ ++.|.+.+.+|...+.... +.++.||||+|||++|+.|++.... .+. +++|.+||..+..|..+++
T Consensus 230 ~~lpf~l-t~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~---~g~-qvlilaPT~~LA~Q~~~~~ 304 (630)
T TIGR00643 230 ASLPFKL-TRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE---AGY-QVALMAPTEILAEQHYNSL 304 (630)
T ss_pred HhCCCCC-CHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH---cCC-cEEEECCHHHHHHHHHHHH
Confidence 3689975 9999999999998886553 6899999999999999999887654 245 8999999999999999999
Q ss_pred HhhhhhcccCCCCccceEEEeecCC
Q 004358 88 KLLHNYQTRHLGPAAKILAIGLSSR 112 (759)
Q Consensus 88 ~~l~~~~~~~~g~~~~~~~~~l~gr 112 (759)
+++.+ +.+++++.+.|.
T Consensus 305 ~~l~~--------~~gi~v~lltg~ 321 (630)
T TIGR00643 305 RNLLA--------PLGIEVALLTGS 321 (630)
T ss_pred HHHhc--------ccCcEEEEEecC
Confidence 88643 224555666554
No 56
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.05 E-value=3.1e-08 Score=117.92 Aligned_cols=63 Identities=25% Similarity=0.221 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 23 ~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+...+|.+++.+++.+++.||||+|||.+|..+.+... . .+. +|++..||..+..|+.+.+..
T Consensus 8 ~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~--~-~~~-~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 8 AVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHG--G-ING-KIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcC--C-cCC-eEEEECChHHHHHHHHHHHHH
Confidence 45678889999999999999999999999998877532 1 134 899999999999998776543
No 57
>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=99.02 E-value=7.6e-08 Score=114.43 Aligned_cols=130 Identities=13% Similarity=0.107 Sum_probs=79.6
Q ss_pred HHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCC-CchhHHHHHHHHHHhccCCCCeEE
Q 004358 518 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVF 596 (759)
Q Consensus 518 ~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~aiL 596 (759)
..+...|..++...+|.+|||+|+....+.+.+.+.+... .+.+.+-.-+. ...+...+++.|+. |+..|+
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 3445556666666689999999999999999998875200 01122222222 12344556666654 566799
Q ss_pred EEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccC
Q 004358 597 FSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSK 671 (759)
Q Consensus 597 ~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~ 671 (759)
+++. -...|||++| .+.||=.|+|-....||... +..| ...|... -...|..||.=|..
T Consensus 267 VATn--IAErgItIp~--V~~VID~Gl~r~~~yd~~~g--~~~L-------~~~~iSk---asa~QR~GRAGR~~ 325 (819)
T TIGR01970 267 LATN--IAETSLTIEG--IRVVIDSGLARVARFDPKTG--ITRL-------ETVRISQ---ASATQRAGRAGRLE 325 (819)
T ss_pred Eecc--hHhhcccccC--ceEEEEcCcccccccccccC--Ccee-------eEEEECH---HHHHhhhhhcCCCC
Confidence 8874 7889999998 77899999996544444210 0000 0122221 23468888888774
No 58
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.93 E-value=6.4e-09 Score=102.92 Aligned_cols=73 Identities=26% Similarity=0.302 Sum_probs=58.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~-~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+++.+++|.|.+++..+. +. +++++.+|||+|||.+++.+++......+ .. +++|.++|.++..|+.+++...
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 445557999999987666 44 89999999999999988888776654332 35 8999999999999998887765
No 59
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.92 E-value=3.3e-09 Score=113.04 Aligned_cols=148 Identities=20% Similarity=0.291 Sum_probs=104.5
Q ss_pred CCHHHHHHHHHHHHHHHh-----CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 17 IYPEQYSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~-----~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
..|.|...+.-+.+.+.. .+.+++.||||+|||+||-+|++..+.+.+-...|.+|..||..+..|+...+.++.
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 457888888888888773 467999999999999999999998877665555699999999999999999999875
Q ss_pred hhcccCCCCccceEEEeecCCcccccchHHhhhcccccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHhhhcCCCC
Q 004358 92 NYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLP 171 (759)
Q Consensus 92 ~~~~~~~g~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~t~~~~~~~~~c~~~~~~~~~~~~~~~~ 171 (759)
+ +..+.++.+.|. +.+ ....++|.
T Consensus 240 ~--------~tgL~V~~~sgq---------~sl------~~E~~qL~--------------------------------- 263 (620)
T KOG0350|consen 240 S--------GTGLAVCSLSGQ---------NSL------EDEARQLA--------------------------------- 263 (620)
T ss_pred c--------CCceEEEecccc---------cch------HHHHHHHh---------------------------------
Confidence 3 344443333332 111 01111111
Q ss_pred CCCCCHHHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCCChhHHhh
Q 004358 172 PGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCI 244 (759)
Q Consensus 172 ~~~~~~e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~ivI~DEAHnl~~~~~ 244 (759)
.....| .+||+|++-.-|.|+.-. .-+..|..-..+|||||..|.+...
T Consensus 264 -------------~~~~~~----------~~DIlVaTPGRLVDHl~~-~k~f~Lk~LrfLVIDEADRll~qsf 312 (620)
T KOG0350|consen 264 -------------SDPPEC----------RIDILVATPGRLVDHLNN-TKSFDLKHLRFLVIDEADRLLDQSF 312 (620)
T ss_pred -------------cCCCcc----------ccceEEcCchHHHHhccC-CCCcchhhceEEEechHHHHHHHHH
Confidence 122223 689999999999988632 1123345567899999999988754
No 60
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.88 E-value=1.6e-06 Score=100.45 Aligned_cols=131 Identities=26% Similarity=0.376 Sum_probs=88.9
Q ss_pred CEEEEecCCCCCCc----chhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHh
Q 004358 452 QSVVITSGTLSPID----LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEM 527 (759)
Q Consensus 452 ~svIltSgTL~p~~----~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~ 527 (759)
..+|++|||..|-+ .|...|||+.-. +...-+| +. -.|... ...+.+.++
T Consensus 277 g~LvvsSATg~~rg~R~~LfReLlgFevG~----~~~~LRN-Iv--------------D~y~~~-------~~~e~~~el 330 (1187)
T COG1110 277 GILVVSSATGKPRGSRLKLFRELLGFEVGS----GGEGLRN-IV--------------DIYVES-------ESLEKVVEL 330 (1187)
T ss_pred ceEEEeeccCCCCCchHHHHHHHhCCccCc----cchhhhh-ee--------------eeeccC-------ccHHHHHHH
Confidence 46799999999986 688889997431 1111111 11 011111 122335566
Q ss_pred hcccCCcEEEEecC---HHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee--cC
Q 004358 528 VSIVPDGIVCFFVS---YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA--RG 602 (759)
Q Consensus 528 ~~~~~gg~lv~f~S---y~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~--~G 602 (759)
++..+.|.|||.|. -+..+.++++++..|+-. +.++ . .....++.|.+ |+=.+|+||+ -|
T Consensus 331 vk~lG~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a-----~~~~--a----~~~~~le~F~~----GeidvLVGvAsyYG 395 (1187)
T COG1110 331 VKKLGDGGLIFVPIDYGREKAEELAEYLRSHGINA-----ELIH--A----EKEEALEDFEE----GEVDVLVGVASYYG 395 (1187)
T ss_pred HHHhCCCeEEEEEcHHhHHHHHHHHHHHHhcCceE-----EEee--c----cchhhhhhhcc----CceeEEEEeccccc
Confidence 67778899999999 899999999999877521 1122 1 11456788876 7778898886 46
Q ss_pred ccccccccCCCCceEEEEEccC
Q 004358 603 KVAEGIDFDRHYGRLVIMFGVP 624 (759)
Q Consensus 603 ~~~EGiDf~~~~~r~vii~glP 624 (759)
.+-.|||+|. ..|.+|-.|+|
T Consensus 396 ~lVRGlDLP~-rirYaIF~GvP 416 (1187)
T COG1110 396 VLVRGLDLPH-RIRYAVFYGVP 416 (1187)
T ss_pred ceeecCCchh-heeEEEEecCC
Confidence 7889999995 67999999999
No 61
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.85 E-value=6.3e-08 Score=104.93 Aligned_cols=71 Identities=18% Similarity=0.183 Sum_probs=56.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+++...|.|.- +|...|-+|+++++-++|+|||||.-=++-+.-+.. .++ |.+|.+|-.++.+|=.+|++.
T Consensus 213 G~~eLlPVQ~l---aVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~--~g~-KmlfLvPLVALANQKy~dF~~ 283 (830)
T COG1202 213 GIEELLPVQVL---AVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLS--GGK-KMLFLVPLVALANQKYEDFKE 283 (830)
T ss_pred Ccceecchhhh---hhhhccccCCceEEEeccCCCcchHHHhhCcHHHHh--CCC-eEEEEehhHHhhcchHHHHHH
Confidence 45666777765 667788889999999999999998665555544432 367 999999999999999998886
No 62
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=98.82 E-value=1.2e-06 Score=105.20 Aligned_cols=132 Identities=17% Similarity=0.279 Sum_probs=83.7
Q ss_pred HHhhcc-cCCcEEEEecCHHHHHHHHHHHhh-cccHHHHhcCce-EEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004358 525 VEMVSI-VPDGIVCFFVSYSYMDEIIATWND-SGILKEIMQHKL-VFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (759)
Q Consensus 525 ~~~~~~-~~gg~lv~f~Sy~~l~~~~~~~~~-~~~~~~l~~~k~-if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~ 601 (759)
.++++. .+..+|||+.+...+..+.+.++. .|+ +. +|-.+....++...++.|+.. .+...||+++
T Consensus 485 ~~~L~~~~~~KvLVF~~~~~t~~~L~~~L~~~~Gi-------~~~~ihG~~s~~eR~~~~~~F~~~--~~~~~VLIsT-- 553 (956)
T PRK04914 485 IDFLKSHRSEKVLVICAKAATALQLEQALREREGI-------RAAVFHEGMSIIERDRAAAYFADE--EDGAQVLLCS-- 553 (956)
T ss_pred HHHHHhcCCCeEEEEeCcHHHHHHHHHHHhhccCe-------eEEEEECCCCHHHHHHHHHHHhcC--CCCccEEEec--
Confidence 334433 367899999999999999998843 332 22 344444445678889999862 1234477765
Q ss_pred CccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEee
Q 004358 602 GKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFAD 681 (759)
Q Consensus 602 G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD 681 (759)
...+||+||.. +..||..-+|.-+ . ...|++||+=|-.....+.|..
T Consensus 554 dvgseGlNlq~--a~~VInfDlP~nP----~--------------------------~~eQRIGR~~RiGQ~~~V~i~~- 600 (956)
T PRK04914 554 EIGSEGRNFQF--ASHLVLFDLPFNP----D--------------------------LLEQRIGRLDRIGQKHDIQIHV- 600 (956)
T ss_pred hhhccCCCccc--ccEEEEecCCCCH----H--------------------------HHHHHhcccccCCCCceEEEEE-
Confidence 47889999976 5679999988632 1 1348999999977665444433
Q ss_pred cccCCccccCCCchHHHhhc
Q 004358 682 KRYSRHDKRSKLPGWILSHL 701 (759)
Q Consensus 682 ~R~~~~~~~~~lp~w~~~~~ 701 (759)
.-... ..-..+-.|..+.+
T Consensus 601 ~~~~~-t~~e~i~~~~~~~l 619 (956)
T PRK04914 601 PYLEG-TAQERLFRWYHEGL 619 (956)
T ss_pred ccCCC-CHHHHHHHHHhhhc
Confidence 22111 12344555665533
No 63
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=98.81 E-value=2.9e-08 Score=113.27 Aligned_cols=76 Identities=24% Similarity=0.208 Sum_probs=62.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcE-EEEEccchhhHHHHHHHHHhhh
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVK-LIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~k-vi~~T~T~~l~~Q~~~el~~l~ 91 (759)
.|+.|.|.|.+.+..+. .|+.+++.|+||||||+||++|.+............ .+|.+||..|..|+.++++.+.
T Consensus 48 gf~~pt~IQ~~~IP~~l----~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~ 123 (513)
T COG0513 48 GFEEPTPIQLAAIPLIL----AGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLG 123 (513)
T ss_pred CCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHH
Confidence 57778999999987766 679999999999999999999999986531112212 8999999999999999999875
Q ss_pred h
Q 004358 92 N 92 (759)
Q Consensus 92 ~ 92 (759)
.
T Consensus 124 ~ 124 (513)
T COG0513 124 K 124 (513)
T ss_pred h
Confidence 4
No 64
>PRK09694 helicase Cas3; Provisional
Probab=98.77 E-value=3.7e-08 Score=117.15 Aligned_cols=69 Identities=23% Similarity=0.179 Sum_probs=54.5
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.|||.|..+.... ...+.++||||||+|||.++|..+...+... ... +|+|+.||.+..+|+.+.++..
T Consensus 286 ~p~p~Q~~~~~~~----~~pgl~ileApTGsGKTEAAL~~A~~l~~~~-~~~-gi~~aLPT~Atan~m~~Rl~~~ 354 (878)
T PRK09694 286 QPRQLQTLVDALP----LQPGLTIIEAPTGSGKTEAALAYAWRLIDQG-LAD-SIIFALPTQATANAMLSRLEAL 354 (878)
T ss_pred CChHHHHHHHhhc----cCCCeEEEEeCCCCCHHHHHHHHHHHHHHhC-CCC-eEEEECcHHHHHHHHHHHHHHH
Confidence 3599999874321 2567899999999999999998876544332 245 8999999999999999988764
No 65
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.75 E-value=6.4e-08 Score=102.79 Aligned_cols=74 Identities=18% Similarity=0.199 Sum_probs=57.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHH-hCC---CCCcEEEEEccchhhHHHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVL-SKP---ENPVKLIYCTRTVHEMEKTLAEL 87 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~-~~~---~~~~kvi~~T~T~~l~~Q~~~el 87 (759)
++|+...|.|...+-.+. .++.+++|||||+|||+|||+|.+.... ... .+.+-.+|.|||..+..|+.+=+
T Consensus 24 ~GF~~mTpVQa~tIPlll----~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~ 99 (567)
T KOG0345|consen 24 SGFEKMTPVQAATIPLLL----KNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVA 99 (567)
T ss_pred cCCcccCHHHHhhhHHHh----cCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHH
Confidence 567778999998875544 7899999999999999999999998872 211 12235789999999999998743
Q ss_pred Hh
Q 004358 88 KL 89 (759)
Q Consensus 88 ~~ 89 (759)
..
T Consensus 100 ~~ 101 (567)
T KOG0345|consen 100 QP 101 (567)
T ss_pred HH
Confidence 33
No 66
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.75 E-value=2.8e-06 Score=99.66 Aligned_cols=139 Identities=14% Similarity=0.150 Sum_probs=83.0
Q ss_pred ccccHHHhhccCEEEEecCCCCCC-cchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~-~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..++.+--|+||.... +.|.+.-|++-+. +|.+. |.+-.+-++. -| ....+-+.+
T Consensus 369 sIT~Qn~Fr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~-------IPtnk--p~~R~d~~d~-----v~--~t~~~k~~a 432 (896)
T PRK13104 369 SITFQNFFRMYNKLSGMTGTADTEAYEFQQIYNLEVVV-------IPTNR--SMIRKDEADL-----VY--LTQADKFQA 432 (896)
T ss_pred eehHHHHHHhcchhccCCCCChhHHHHHHHHhCCCEEE-------CCCCC--CcceecCCCe-----EE--cCHHHHHHH
Confidence 456688888888899999999654 2555555654321 11111 1111111111 11 223344456
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCC-chhHHHHHHHHHHhccCCCCeEEEE
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFS 598 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~aiL~g 598 (759)
+.+.+.++. ..+..+|||++|-..-+.+...+...|+- ....-.+. ..+...+.+.++ +|+|++|
T Consensus 433 v~~~i~~~~-~~g~PVLVgt~Sie~sE~ls~~L~~~gi~-------h~vLnak~~q~Ea~iia~Ag~------~G~VtIA 498 (896)
T PRK13104 433 IIEDVRECG-VRKQPVLVGTVSIEASEFLSQLLKKENIK-------HQVLNAKFHEKEAQIIAEAGR------PGAVTIA 498 (896)
T ss_pred HHHHHHHHH-hCCCCEEEEeCcHHHHHHHHHHHHHcCCC-------eEeecCCCChHHHHHHHhCCC------CCcEEEe
Confidence 666666644 57889999999999999999999877641 12222222 233344444443 4689988
Q ss_pred eecCccccccccC
Q 004358 599 VARGKVAEGIDFD 611 (759)
Q Consensus 599 v~~G~~~EGiDf~ 611 (759)
+ .-...|+|+.
T Consensus 499 T--NmAGRGtDI~ 509 (896)
T PRK13104 499 T--NMAGRGTDIV 509 (896)
T ss_pred c--cCccCCccee
Confidence 7 4788999995
No 67
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.73 E-value=2.7e-08 Score=117.05 Aligned_cols=69 Identities=25% Similarity=0.309 Sum_probs=57.3
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
..+|.|.+.....+. .+++++|.||||+|||+..+++++.-.... +. |+||.+|+++|..+..++++++
T Consensus 31 el~~~qq~av~~~~~---~~~N~li~aPTgsGKTlIA~lai~~~l~~~--~~-k~vYivPlkALa~Ek~~~~~~~ 99 (766)
T COG1204 31 ELFNPQQEAVEKGLL---SDENVLISAPTGSGKTLIALLAILSTLLEG--GG-KVVYIVPLKALAEEKYEEFSRL 99 (766)
T ss_pred HhhHHHHHHhhcccc---CCCcEEEEcCCCCchHHHHHHHHHHHHHhc--CC-cEEEEeChHHHHHHHHHHhhhH
Confidence 357888886655543 389999999999999999998888776643 45 8999999999999999999865
No 68
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.72 E-value=3.8e-08 Score=108.51 Aligned_cols=73 Identities=18% Similarity=0.103 Sum_probs=62.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHh------CCCCCcEEEEEccchhhHHHHHHH
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS------KPENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~------~~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
.|+.|.|.|.+...-+. .|+.++.-|-||+|||||||+|++.++.. .+.++ +|+|.+||..|..|+-.+
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 45557899998876555 78999999999999999999999999886 23356 899999999999999998
Q ss_pred HHhh
Q 004358 87 LKLL 90 (759)
Q Consensus 87 l~~l 90 (759)
...+
T Consensus 185 ~~~~ 188 (519)
T KOG0331|consen 185 AREF 188 (519)
T ss_pred HHHH
Confidence 8875
No 69
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=98.69 E-value=2.7e-08 Score=106.29 Aligned_cols=79 Identities=24% Similarity=0.254 Sum_probs=65.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC---CCCcEEEEEccchhhHHHHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---ENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~---~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
-.|+.+.+.|...+..+. .|+.+++-|-||||||+|+|+|++.+....+ ..++.++|+++|..+.-|+..|++
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 356667888887775555 6889999999999999999999999977542 234489999999999999999999
Q ss_pred hhhhhc
Q 004358 89 LLHNYQ 94 (759)
Q Consensus 89 ~l~~~~ 94 (759)
.+..+.
T Consensus 176 ~Ll~~h 181 (543)
T KOG0342|consen 176 ELLKYH 181 (543)
T ss_pred HHHhhC
Confidence 998764
No 70
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.66 E-value=4.7e-08 Score=106.00 Aligned_cols=74 Identities=22% Similarity=0.231 Sum_probs=60.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCC-------C--CcEEEEEccchhhHHHH
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-------N--PVKLIYCTRTVHEMEKT 83 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~-------~--~~kvi~~T~T~~l~~Q~ 83 (759)
.|..|.|.|+--+..|. +|..++++||||+|||.|+|+|++.++..... + -++++|.++|+.|.+|+
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 45556788877764444 78899999999999999999999999886521 1 13899999999999999
Q ss_pred HHHHHhh
Q 004358 84 LAELKLL 90 (759)
Q Consensus 84 ~~el~~l 90 (759)
.+|.+++
T Consensus 169 ~nea~k~ 175 (482)
T KOG0335|consen 169 YNEARKF 175 (482)
T ss_pred HHHHHhh
Confidence 9999986
No 71
>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=98.63 E-value=1.7e-07 Score=86.97 Aligned_cols=53 Identities=30% Similarity=0.328 Sum_probs=43.0
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+++++.+|||+|||..++..+...... ...+ +++|++++..+.+|..+.+...
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~-~~~~-~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDS-LKGG-QVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhc-ccCC-CEEEEcCcHHHHHHHHHHHHHH
Confidence 468999999999999998876665543 2345 8999999999999998877764
No 72
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.62 E-value=9.3e-06 Score=95.16 Aligned_cols=141 Identities=15% Similarity=0.185 Sum_probs=85.2
Q ss_pred ccccHHHhhccCEEEEecCCCCCC-cchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~-~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..++.+--|+||.... +.|.+.-|++.+. +|.+. |.+-.+-++.+ | ....+-...
T Consensus 355 ~It~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY~l~vv~-------IPtnk--p~~r~d~~d~i-----~--~t~~~K~~a 418 (830)
T PRK12904 355 SITFQNYFRMYEKLAGMTGTADTEAEEFREIYNLDVVV-------IPTNR--PMIRIDHPDLI-----Y--KTEKEKFDA 418 (830)
T ss_pred eeeHHHHHHhcchhcccCCCcHHHHHHHHHHhCCCEEE-------cCCCC--CeeeeeCCCeE-----E--ECHHHHHHH
Confidence 345588888888999999999653 2455555554321 12111 11111111111 1 123333456
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv 599 (759)
+.+.+.+.. ..+..+|||+.|-..-+.+.+.+...++ +.....++ ..+.+..+..|+. ++++|++|+
T Consensus 419 I~~~I~~~~-~~grpVLIft~Si~~se~Ls~~L~~~gi-------~~~vLnak-q~eREa~Iia~Ag----~~g~VtIAT 485 (830)
T PRK12904 419 VVEDIKERH-KKGQPVLVGTVSIEKSELLSKLLKKAGI-------PHNVLNAK-NHEREAEIIAQAG----RPGAVTIAT 485 (830)
T ss_pred HHHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCC-------ceEeccCc-hHHHHHHHHHhcC----CCceEEEec
Confidence 666665544 3567899999999999999999887653 11222222 2345555666654 789999988
Q ss_pred ecCccccccccCC
Q 004358 600 ARGKVAEGIDFDR 612 (759)
Q Consensus 600 ~~G~~~EGiDf~~ 612 (759)
. -...|+|++=
T Consensus 486 N--mAGRGtDI~L 496 (830)
T PRK12904 486 N--MAGRGTDIKL 496 (830)
T ss_pred c--cccCCcCccC
Confidence 4 7889999964
No 73
>PRK13766 Hef nuclease; Provisional
Probab=98.62 E-value=2.2e-07 Score=112.30 Aligned_cols=69 Identities=19% Similarity=0.169 Sum_probs=55.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+.+ +|+.|.++...+. . +++++.+|||+|||+++++++...... .++ +++|.++|.++..|..++++..
T Consensus 13 ~~~-~r~yQ~~~~~~~l---~--~n~lv~~ptG~GKT~~a~~~i~~~l~~--~~~-~vLvl~Pt~~L~~Q~~~~~~~~ 81 (773)
T PRK13766 13 TIE-ARLYQQLLAATAL---K--KNTLVVLPTGLGKTAIALLVIAERLHK--KGG-KVLILAPTKPLVEQHAEFFRKF 81 (773)
T ss_pred cCC-ccHHHHHHHHHHh---c--CCeEEEcCCCccHHHHHHHHHHHHHHh--CCC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 344 4999999876554 2 389999999999999988876665532 246 8999999999999999988875
No 74
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.61 E-value=1.8e-07 Score=100.91 Aligned_cols=67 Identities=16% Similarity=0.089 Sum_probs=54.8
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
+|..|..++.+.. .++.++..|||-|||+....-+..+.... ++ +|++..||+.|..|-.+-++++.
T Consensus 16 ~R~YQ~~i~a~al-----~~NtLvvlPTGLGKT~IA~~V~~~~l~~~--~~-kvlfLAPTKPLV~Qh~~~~~~v~ 82 (542)
T COG1111 16 PRLYQLNIAAKAL-----FKNTLVVLPTGLGKTFIAAMVIANRLRWF--GG-KVLFLAPTKPLVLQHAEFCRKVT 82 (542)
T ss_pred HHHHHHHHHHHHh-----hcCeEEEecCCccHHHHHHHHHHHHHHhc--CC-eEEEecCCchHHHHHHHHHHHHh
Confidence 5888888776655 34999999999999998777767677765 46 89999999999999888777763
No 75
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=98.61 E-value=1.5e-07 Score=107.23 Aligned_cols=67 Identities=19% Similarity=0.326 Sum_probs=57.2
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
++|..|.++.. .|| +++.+|.+|||.|||+.+..-++-|.++.+. . |||+.+||..+..|-...+..
T Consensus 62 ~lR~YQ~eivq---~AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-~-KiVF~aP~~pLv~QQ~a~~~~ 128 (746)
T KOG0354|consen 62 ELRNYQEELVQ---PAL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK-G-KVVFLAPTRPLVNQQIACFSI 128 (746)
T ss_pred cccHHHHHHhH---Hhh--cCCeEEEeecCCCccchHHHHHHHHHhcCCc-c-eEEEeeCCchHHHHHHHHHhh
Confidence 46999998764 566 9999999999999999999989999998874 4 899999999999998865544
No 76
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.60 E-value=2.9e-07 Score=112.77 Aligned_cols=72 Identities=19% Similarity=0.205 Sum_probs=58.0
Q ss_pred CCHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~-~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+|+.|.+.+.++.+++.++ +.+++.+|||||||+..+..+....+. ...+ ||++.+.+.+|.+|..++++..
T Consensus 414 lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~-~~~~-rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 414 LRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKA-KRFR-RILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred CCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhc-CccC-eEEEEecHHHHHHHHHHHHHhc
Confidence 6999999999999999876 578999999999998755433333332 2346 9999999999999999988763
No 77
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.58 E-value=3.5e-07 Score=107.74 Aligned_cols=72 Identities=22% Similarity=0.265 Sum_probs=59.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
|++ +++.|.+.++.+.+.+ .....++-||||+|||.+|+.++...... ++ +++|.+||+++..|+.+.++..
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-GFSPFLLDGVTGSGKTEVYLQAIAEVLAQ---GK-QALVLVPEIALTPQMLARFRAR 213 (679)
T ss_pred CCC-CCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHHc---CC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 444 5999999998887655 45789999999999999999876655432 56 8999999999999999988763
No 78
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=98.58 E-value=3.1e-07 Score=109.66 Aligned_cols=70 Identities=20% Similarity=0.270 Sum_probs=59.2
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~ 92 (759)
+|++|.+.++.+. +|++++|.+|||+|||.+|++|++......+. . +.+|.-||++|.+--.+.++++..
T Consensus 71 lY~HQ~~A~~~~~----~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~-a-~AL~lYPtnALa~DQ~~rl~~~~~ 140 (851)
T COG1205 71 LYSHQVDALRLIR----EGRNVVVTTGTGSGKTESFLLPILDHLLRDPS-A-RALLLYPTNALANDQAERLRELIS 140 (851)
T ss_pred ccHHHHHHHHHHH----CCCCEEEECCCCCchhHHHHHHHHHHHhhCcC-c-cEEEEechhhhHhhHHHHHHHHHH
Confidence 6999999885555 88999999999999999999999988776542 3 799999999998777777777643
No 79
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=98.54 E-value=4.5e-07 Score=105.73 Aligned_cols=74 Identities=22% Similarity=0.251 Sum_probs=62.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC----CCCcEEEEEccchhhHHHHHHHHHh
Q 004358 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 14 y~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~----~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
|..|+|.|++.+..|. +|++++|-||||+|||+|.++|++.-....+ .++..++|.||=++|-.-+.+.|..
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 6778999999998777 8999999999999999999999998877652 2235899999999988887776665
Q ss_pred hh
Q 004358 90 LH 91 (759)
Q Consensus 90 l~ 91 (759)
..
T Consensus 96 ~~ 97 (814)
T COG1201 96 PL 97 (814)
T ss_pred HH
Confidence 43
No 80
>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=98.54 E-value=1.2e-05 Score=98.54 Aligned_cols=155 Identities=13% Similarity=0.112 Sum_probs=89.4
Q ss_pred HHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEE-EeCC-CchhHHHHHHHHHHhccCCC
Q 004358 515 GVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVF-IETQ-DVVETTLALDNYRKACDCGR 592 (759)
Q Consensus 515 ~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if-~E~~-~~~~~~~~l~~f~~~~~~~~ 592 (759)
.+...+...|.+++...+|.+|||+|+...++.+.+.+...+. ....|+ .-+. ...+... -|+.. +.
T Consensus 262 ~~~~~i~~~I~~l~~~~~GdILVFLpg~~EI~~l~~~L~~~~~-----~~~~VlpLhg~Ls~~eQ~~---vf~~~---~~ 330 (1283)
T TIGR01967 262 DQLEAILDAVDELFAEGPGDILIFLPGEREIRDAAEILRKRNL-----RHTEILPLYARLSNKEQQR---VFQPH---SG 330 (1283)
T ss_pred hHHHHHHHHHHHHHhhCCCCEEEeCCCHHHHHHHHHHHHhcCC-----CCcEEEeccCCCCHHHHHH---HhCCC---CC
Confidence 3556777777777777789999999999999999999876431 011121 1121 1112222 24331 22
Q ss_pred CeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCC
Q 004358 593 GAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA 672 (759)
Q Consensus 593 ~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~ 672 (759)
..|++++ .-..-|||++| .+.||=.|+|-....||.... .-+ ...+. .--...|..||+=|..
T Consensus 331 rkIVLAT--NIAEtSLTIpg--V~yVIDsGl~r~~~yd~~~~~--~~L-------~~~~I---Skasa~QRaGRAGR~~- 393 (1283)
T TIGR01967 331 RRIVLAT--NVAETSLTVPG--IHYVIDTGTARISRYSYRTKV--QRL-------PIEPI---SQASANQRKGRCGRVA- 393 (1283)
T ss_pred ceEEEec--cHHHhccccCC--eeEEEeCCCccccccccccCc--ccc-------CCccC---CHHHHHHHhhhhCCCC-
Confidence 4688877 36778999998 788998998854433332110 000 01121 1235579999998875
Q ss_pred CeeEEEEeecccCCccccCCCchHHHhhcc
Q 004358 673 DYGMMIFADKRYSRHDKRSKLPGWILSHLR 702 (759)
Q Consensus 673 D~g~iillD~R~~~~~~~~~lp~w~~~~~~ 702 (759)
-|..+ |+.+......+|.+..+.|.
T Consensus 394 -~G~cy----RLyte~~~~~~~~~~~PEIl 418 (1283)
T TIGR01967 394 -PGICI----RLYSEEDFNSRPEFTDPEIL 418 (1283)
T ss_pred -CceEE----EecCHHHHHhhhhccCcccc
Confidence 56544 33332222335555544444
No 81
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.53 E-value=9.6e-06 Score=99.20 Aligned_cols=136 Identities=14% Similarity=0.123 Sum_probs=79.4
Q ss_pred hHHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEE-EeCC-CchhHHHHHHHHHHhccCC
Q 004358 514 PGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVF-IETQ-DVVETTLALDNYRKACDCG 591 (759)
Q Consensus 514 ~~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if-~E~~-~~~~~~~~l~~f~~~~~~~ 591 (759)
.++...+.+.+..++...+|.+|||+|+...++.+.+.+...++ ....|+ .-+. ...+...+ |+. .+
T Consensus 268 ~d~l~~ll~~V~~l~~~~~GdILVFLpg~~EIe~lae~L~~~~~-----~~~~VlpLhg~Ls~~eQ~~V---f~~---~g 336 (1294)
T PRK11131 268 RDQLQAIFDAVDELGREGPGDILIFMSGEREIRDTADALNKLNL-----RHTEILPLYARLSNSEQNRV---FQS---HS 336 (1294)
T ss_pred HHHHHHHHHHHHHHhcCCCCCEEEEcCCHHHHHHHHHHHHhcCC-----CcceEeecccCCCHHHHHHH---hcc---cC
Confidence 34556666666667666788999999999999999999976532 001111 1121 11222223 332 24
Q ss_pred CCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccC
Q 004358 592 RGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSK 671 (759)
Q Consensus 592 ~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~ 671 (759)
..-|++++ .-..-|||++| .+.||=.|+.--...||... .+.+ ...|. ..-..+|..||+=|..
T Consensus 337 ~rkIIVAT--NIAEtSITIpg--I~yVID~Gl~k~~~Yd~~~~--~~~L-------p~~~i---Skasa~QRaGRAGR~~ 400 (1294)
T PRK11131 337 GRRIVLAT--NVAETSLTVPG--IKYVIDPGTARISRYSYRTK--VQRL-------PIEPI---SQASANQRKGRCGRVS 400 (1294)
T ss_pred CeeEEEec--cHHhhccccCc--ceEEEECCCccccccccccC--cccC-------Ceeec---CHhhHhhhccccCCCC
Confidence 45688877 47889999998 77888888653322222110 0000 01121 1234589999998874
Q ss_pred CCeeEEE
Q 004358 672 ADYGMMI 678 (759)
Q Consensus 672 ~D~g~ii 678 (759)
. |..+
T Consensus 401 ~--G~c~ 405 (1294)
T PRK11131 401 E--GICI 405 (1294)
T ss_pred C--cEEE
Confidence 3 5444
No 82
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.49 E-value=7e-07 Score=100.10 Aligned_cols=72 Identities=21% Similarity=0.292 Sum_probs=57.7
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+.|.++ +||.|.+.++++...+.+++.+++-+|||+|||+..+-.+ ... +. +++|.++|..+++|..+.+..
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 445555 5999999999999888888899999999999998765432 221 24 699999999999999876655
No 83
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.49 E-value=7.6e-07 Score=104.10 Aligned_cols=67 Identities=15% Similarity=0.116 Sum_probs=55.9
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhh
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~ 92 (759)
+|.|.+.+..+. .+...++||+||+|||++|++|++.-+.. +. .+.|.|+|..|..|..+.+..+.+
T Consensus 94 tp~qvQ~I~~i~----l~~gvIAeaqTGeGKTLAf~LP~l~~aL~---g~-~v~IVTpTrELA~Qdae~m~~L~k 160 (970)
T PRK12899 94 VPYDVQILGAIA----MHKGFITEMQTGEGKTLTAVMPLYLNALT---GK-PVHLVTVNDYLAQRDCEWVGSVLR 160 (970)
T ss_pred ChHHHHHhhhhh----cCCCeEEEeCCCCChHHHHHHHHHHHHhh---cC-CeEEEeCCHHHHHHHHHHHHHHHh
Confidence 999999986666 45779999999999999999999875542 34 588889999999999998887743
No 84
>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=98.45 E-value=1e-06 Score=102.23 Aligned_cols=69 Identities=13% Similarity=0.198 Sum_probs=52.8
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
.+.++ +||.|.+.+.+. +.++ +.++|.+|||+|||+..+..+... ++ +++|.++|..+.+|..+++.
T Consensus 251 ~~~~~-LRpYQ~eAl~~~---~~~gr~r~GIIvLPtGaGKTlvai~aa~~l------~k-~tLILvps~~Lv~QW~~ef~ 319 (732)
T TIGR00603 251 KPTTQ-IRPYQEKSLSKM---FGNGRARSGIIVLPCGAGKSLVGVTAACTV------KK-SCLVLCTSAVSVEQWKQQFK 319 (732)
T ss_pred ccCCC-cCHHHHHHHHHH---HhcCCCCCcEEEeCCCCChHHHHHHHHHHh------CC-CEEEEeCcHHHHHHHHHHHH
Confidence 34455 599999977655 4444 478999999999999887654321 34 78888899999999999988
Q ss_pred hh
Q 004358 89 LL 90 (759)
Q Consensus 89 ~l 90 (759)
+.
T Consensus 320 ~~ 321 (732)
T TIGR00603 320 MW 321 (732)
T ss_pred Hh
Confidence 74
No 85
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.44 E-value=6e-07 Score=96.26 Aligned_cols=76 Identities=20% Similarity=0.155 Sum_probs=61.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCC--CcEEEEEccchhhHHHHHHHHHh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~--~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
.+|..|.|.|...+--.. -|+.++..|-||||||.||.+|+|.-+.+.|.+ -+||+|.+||..|.-|+..=.++
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 468878999998775332 478899999999999999999999988877643 23999999999999998876666
Q ss_pred hh
Q 004358 90 LH 91 (759)
Q Consensus 90 l~ 91 (759)
|.
T Consensus 275 la 276 (691)
T KOG0338|consen 275 LA 276 (691)
T ss_pred HH
Confidence 54
No 86
>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=98.43 E-value=1.6e-06 Score=102.17 Aligned_cols=72 Identities=18% Similarity=0.213 Sum_probs=59.3
Q ss_pred CCHHHHHHHHHHHHHHHh------CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDA------KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~------~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+|+.|...+.++.+++.+ ++.++|.+|||||||+..+..+...... ...+ +|++.|.+..|.+|+.+++...
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~-~~~~-~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALEL-LKNP-KVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhh-cCCC-eEEEEECcHHHHHHHHHHHHhh
Confidence 599999999999999976 3579999999999999877665443332 2345 9999999999999999988874
No 87
>COG4889 Predicted helicase [General function prediction only]
Probab=98.41 E-value=1.9e-06 Score=97.57 Aligned_cols=168 Identities=20% Similarity=0.279 Sum_probs=109.9
Q ss_pred cCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH
Q 004358 6 EDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 6 ~~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
+++++.=|+++ ||.|.+.++++.+.+..+..+=+-+.+|||||+..|=-+-+.+. . +|++.+|+++++.|.++
T Consensus 152 ~nl~l~~~kk~-R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala~-----~-~iL~LvPSIsLLsQTlr 224 (1518)
T COG4889 152 DNLPLKKPKKP-RPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALAA-----A-RILFLVPSISLLSQTLR 224 (1518)
T ss_pred cccccCCCCCC-ChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHhh-----h-heEeecchHHHHHHHHH
Confidence 35677789986 99999999999999988877777788999999987754333221 4 89999999999999999
Q ss_pred HHHhhhhhcccCCCCccceEEEeecCCcccccchHHhhhcccccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHhh
Q 004358 86 ELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAA 165 (759)
Q Consensus 86 el~~l~~~~~~~~g~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~t~~~~~~~~~c~~~~~~~~~~ 165 (759)
|...= ...++++.. .|....+.... + |+. +
T Consensus 225 ew~~~---------~~l~~~a~a------VcSD~kvsrs~--e----------------------Dik---~-------- 254 (1518)
T COG4889 225 EWTAQ---------KELDFRASA------VCSDDKVSRSA--E----------------------DIK---A-------- 254 (1518)
T ss_pred HHhhc---------cCccceeEE------EecCccccccc--c----------------------ccc---c--------
Confidence 87652 133455443 46655443210 0 000 0
Q ss_pred hcCCCCCCCCCHHHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCCChhHH
Q 004358 166 SAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNV 242 (759)
Q Consensus 166 ~~~~~~~~~~~~e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~ivI~DEAHnl~~~ 242 (759)
.+..+| ..-+.+++.+. ...|+.+..--||+++|+-+..- .+.....+++.++||.||||.--.+
T Consensus 255 sdl~~p-~sT~~~~il~~---------~~~~~k~~~~~vvFsTYQSl~~i--~eAQe~G~~~fDliicDEAHRTtGa 319 (1518)
T COG4889 255 SDLPIP-VSTDLEDILSE---------MEHRQKANGLTVVFSTYQSLPRI--KEAQEAGLDEFDLIICDEAHRTTGA 319 (1518)
T ss_pred ccCCCC-CcccHHHHHHH---------HHHhhccCCcEEEEEcccchHHH--HHHHHcCCCCccEEEecchhccccc
Confidence 000111 22344444322 12245666778999999987533 2222334678999999999986543
No 88
>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=98.35 E-value=3.1e-06 Score=92.45 Aligned_cols=56 Identities=27% Similarity=0.258 Sum_probs=44.7
Q ss_pred HHHHHhCC--cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 29 KRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 29 ~~al~~~~--~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
.+++.+++ ++++.||||+|||.++++|++. . +. +.+|.+||.++.+|..+.++...
T Consensus 6 ~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~----~--~~-~~~~~~P~~aL~~~~~~~~~~~~ 63 (357)
T TIGR03158 6 FEALQSKDADIIFNTAPTGAGKTLAWLTPLLH----G--EN-DTIALYPTNALIEDQTEAIKEFV 63 (357)
T ss_pred HHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH----c--CC-CEEEEeChHHHHHHHHHHHHHHH
Confidence 34555564 5889999999999999998773 1 24 78999999999999998887754
No 89
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=98.35 E-value=7.3e-07 Score=94.09 Aligned_cols=76 Identities=18% Similarity=0.179 Sum_probs=57.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC------CCCcEEEEEccchhhHHHHHHH
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP------ENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~------~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
+++.|.-.|...+--+. +|+.++.-|-||+|||+|||+|.+.-..+.. .+. ..+|.+||+.+.+|+...
T Consensus 38 G~ekpTlIQs~aIplaL----EgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~-sa~iLvPTkEL~qQvy~v 112 (569)
T KOG0346|consen 38 GWEKPTLIQSSAIPLAL----EGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGP-SAVILVPTKELAQQVYKV 112 (569)
T ss_pred CcCCcchhhhcccchhh----cCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccc-eeEEEechHHHHHHHHHH
Confidence 45655666666554333 5779999999999999999999886654321 234 899999999999999998
Q ss_pred HHhhhhh
Q 004358 87 LKLLHNY 93 (759)
Q Consensus 87 l~~l~~~ 93 (759)
+.+|..+
T Consensus 113 iekL~~~ 119 (569)
T KOG0346|consen 113 IEKLVEY 119 (569)
T ss_pred HHHHHHH
Confidence 8887654
No 90
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.30 E-value=2.2e-06 Score=96.52 Aligned_cols=70 Identities=21% Similarity=0.271 Sum_probs=57.8
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
.-.|+|+..||+|.+.++. +-+++++++-.|||.|||++|-+||+.. + + -.+|.+|=.+|++--++.|+
T Consensus 10 ~~~fGy~~FR~gQ~evI~~----~l~g~d~lvvmPTGgGKSlCyQiPAll~-----~-G-~TLVVSPLiSLM~DQV~~l~ 78 (590)
T COG0514 10 KQVFGYASFRPGQQEIIDA----LLSGKDTLVVMPTGGGKSLCYQIPALLL-----E-G-LTLVVSPLISLMKDQVDQLE 78 (590)
T ss_pred HHHhCccccCCCHHHHHHH----HHcCCcEEEEccCCCCcchHhhhHHHhc-----C-C-CEEEECchHHHHHHHHHHHH
Confidence 3479999999999976654 4478999999999999999999999864 2 3 58888899999877777666
Q ss_pred h
Q 004358 89 L 89 (759)
Q Consensus 89 ~ 89 (759)
.
T Consensus 79 ~ 79 (590)
T COG0514 79 A 79 (590)
T ss_pred H
Confidence 5
No 91
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.30 E-value=2.1e-06 Score=89.52 Aligned_cols=86 Identities=17% Similarity=0.082 Sum_probs=71.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhhh
Q 004358 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (759)
Q Consensus 14 y~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~ 93 (759)
+..|.+.|.+.|-.+. +|++++.-|.||+|||.||++|.+..+...+... ..+|.|||..+..|+-+....+
T Consensus 81 ~~~PT~IQ~~aiP~~L----~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~-~~lVLtPtRELA~QI~e~fe~L--- 152 (476)
T KOG0330|consen 81 WKKPTKIQSEAIPVAL----GGRDVIGLAETGSGKTGAFALPILQRLLQEPKLF-FALVLTPTRELAQQIAEQFEAL--- 152 (476)
T ss_pred cCCCchhhhhhcchhh----CCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCc-eEEEecCcHHHHHHHHHHHHHh---
Confidence 5667999999987666 7899999999999999999999999887776554 9999999999999998877665
Q ss_pred cccCCCCccceEEEeecCC
Q 004358 94 QTRHLGPAAKILAIGLSSR 112 (759)
Q Consensus 94 ~~~~~g~~~~~~~~~l~gr 112 (759)
|.+..+++++|-|.
T Consensus 153 -----g~~iglr~~~lvGG 166 (476)
T KOG0330|consen 153 -----GSGIGLRVAVLVGG 166 (476)
T ss_pred -----ccccCeEEEEEecC
Confidence 34566777776665
No 92
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=98.30 E-value=0.00092 Score=78.48 Aligned_cols=153 Identities=13% Similarity=0.163 Sum_probs=87.1
Q ss_pred ccccHHHhhccCEEEEecCCCCCC-cchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~-~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..++.+--|+||.... +.|.+.-|++.+. +|.+. |..-.+-++. -| ....+-...
T Consensus 365 ~It~qnfFr~Y~kl~GmTGTa~~e~~Ef~~iY~l~vv~-------IPtnk--p~~r~d~~d~-----i~--~t~~~K~~a 428 (796)
T PRK12906 365 TITYQNFFRMYKKLSGMTGTAKTEEEEFREIYNMEVIT-------IPTNR--PVIRKDSPDL-----LY--PTLDSKFNA 428 (796)
T ss_pred eehHHHHHHhcchhhccCCCCHHHHHHHHHHhCCCEEE-------cCCCC--CeeeeeCCCe-----EE--cCHHHHHHH
Confidence 345578888888999999999653 2455555655321 11111 1111111111 11 122333455
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv 599 (759)
+.+.+.+.. ..+..+|||+.|-..-+.+...+.+.++- .....++. ...+..+ ..++ ..+|+|++|+
T Consensus 429 l~~~i~~~~-~~g~pvLI~t~si~~se~ls~~L~~~gi~-------~~~Lna~~-~~~Ea~i--i~~a--g~~g~VtIAT 495 (796)
T PRK12906 429 VVKEIKERH-AKGQPVLVGTVAIESSERLSHLLDEAGIP-------HAVLNAKN-HAKEAEI--IMNA--GQRGAVTIAT 495 (796)
T ss_pred HHHHHHHHH-hCCCCEEEEeCcHHHHHHHHHHHHHCCCC-------eeEecCCc-HHHHHHH--HHhc--CCCceEEEEe
Confidence 655555443 47789999999999999999999876541 11222222 2222222 1222 3568899988
Q ss_pred ecCccccccccC-CCCce-----EEEEEccC
Q 004358 600 ARGKVAEGIDFD-RHYGR-----LVIMFGVP 624 (759)
Q Consensus 600 ~~G~~~EGiDf~-~~~~r-----~vii~glP 624 (759)
.-...|.|++ |+..+ .||.+-+|
T Consensus 496 --nmAGRGtDI~l~~~V~~~GGLhVI~te~p 524 (796)
T PRK12906 496 --NMAGRGTDIKLGPGVKELGGLAVIGTERH 524 (796)
T ss_pred --ccccCCCCCCCCcchhhhCCcEEEeeecC
Confidence 3678999996 44444 66665555
No 93
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.24 E-value=0.0014 Score=71.79 Aligned_cols=76 Identities=18% Similarity=0.206 Sum_probs=61.2
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHH
Q 004358 8 VTVYFPYDNIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 8 ~~v~FPy~~~r~~Q~~~~~~v~~al~~~-~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
..++=||+| -.-|-+.+.++.+.+.+| ++-.+-+-||||||+..- -+++ . -++ +.+|.++.+.|..|+.+|
T Consensus 5 F~l~s~f~P-aGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~A-nVI~----~-~~r-PtLV~AhNKTLAaQLy~E 76 (663)
T COG0556 5 FKLHSPFKP-AGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMA-NVIA----K-VQR-PTLVLAHNKTLAAQLYSE 76 (663)
T ss_pred eEeccCCCC-CCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHH-HHHH----H-hCC-CeEEEecchhHHHHHHHH
Confidence 345668986 899999999999999998 588889999999998632 2222 1 135 788999999999999999
Q ss_pred HHhhh
Q 004358 87 LKLLH 91 (759)
Q Consensus 87 l~~l~ 91 (759)
++.+.
T Consensus 77 fk~fF 81 (663)
T COG0556 77 FKEFF 81 (663)
T ss_pred HHHhC
Confidence 99863
No 94
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.22 E-value=0.00071 Score=79.73 Aligned_cols=139 Identities=15% Similarity=0.146 Sum_probs=80.6
Q ss_pred ccccHHHhhccCEEEEecCCCCCCc-chhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~~-~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..++.+--|+||..... .|.+.-|++-+. +|.+. |..-.+-++. -| ....+-+.+
T Consensus 374 sIT~QnfFr~Y~kL~GMTGTa~te~~Ef~~iY~l~Vv~-------IPTnk--p~~R~d~~d~-----iy--~t~~~K~~A 437 (908)
T PRK13107 374 SITFQNYFRQYEKLAGMTGTADTEAFEFQHIYGLDTVV-------VPTNR--PMVRKDMADL-----VY--LTADEKYQA 437 (908)
T ss_pred eehHHHHHHhhhHhhcccCCChHHHHHHHHHhCCCEEE-------CCCCC--CccceeCCCc-----EE--eCHHHHHHH
Confidence 3456888888888899999997642 455555655321 11111 1100000111 12 222333456
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCC-chhHHHHHHHHHHhccCCCCeEEEE
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFS 598 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~aiL~g 598 (759)
+.+.+.++. ..+..+|||..|-..-+.+...+...++- ....-++. ..+...+.+.++ .|+|++|
T Consensus 438 ii~ei~~~~-~~GrpVLV~t~sv~~se~ls~~L~~~gi~-------~~vLnak~~~~Ea~ii~~Ag~------~G~VtIA 503 (908)
T PRK13107 438 IIKDIKDCR-ERGQPVLVGTVSIEQSELLARLMVKEKIP-------HEVLNAKFHEREAEIVAQAGR------TGAVTIA 503 (908)
T ss_pred HHHHHHHHH-HcCCCEEEEeCcHHHHHHHHHHHHHCCCC-------eEeccCcccHHHHHHHHhCCC------CCcEEEe
Confidence 777776665 46789999999999999999888876531 11122222 123333333332 5679888
Q ss_pred eecCccccccccC
Q 004358 599 VARGKVAEGIDFD 611 (759)
Q Consensus 599 v~~G~~~EGiDf~ 611 (759)
+ .-...|+|+.
T Consensus 504 T--nmAGRGTDIk 514 (908)
T PRK13107 504 T--NMAGRGTDIV 514 (908)
T ss_pred c--CCcCCCccee
Confidence 7 3678999996
No 95
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=98.12 E-value=8.5e-06 Score=95.16 Aligned_cols=77 Identities=17% Similarity=0.194 Sum_probs=65.9
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC-----CCCcEEEEEccchhhHHHHHH
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~-----~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
.+.|.+|+|.|.+++-.|. .|..+|--|-||+|||++||+|.+......+ +|+ --+|.++|..|..|+-+
T Consensus 382 kl~y~k~~~IQ~qAiP~Im----sGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGP-i~li~aPtrela~QI~r 456 (997)
T KOG0334|consen 382 KLGYEKPTPIQAQAIPAIM----SGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGP-IALILAPTRELAMQIHR 456 (997)
T ss_pred HhcCCCCcchhhhhcchhc----cCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCc-eEEEEcCCHHHHHHHHH
Confidence 4679999999999997776 7889999999999999999999886654332 455 78999999999999999
Q ss_pred HHHhhhh
Q 004358 86 ELKLLHN 92 (759)
Q Consensus 86 el~~l~~ 92 (759)
+++++..
T Consensus 457 ~~~kf~k 463 (997)
T KOG0334|consen 457 EVRKFLK 463 (997)
T ss_pred HHHHHHh
Confidence 9999754
No 96
>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=98.10 E-value=1.2e-05 Score=91.53 Aligned_cols=48 Identities=23% Similarity=0.234 Sum_probs=38.6
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 39 LLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 39 liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
++.||||+|||.+|+..+... .. .++ +++|.+||.++..|+.+.++..
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~-l~--~g~-~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKV-LA--LGK-SVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHH-HH--cCC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 478999999999998664333 32 256 8999999999999999988763
No 97
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=98.08 E-value=1.2e-05 Score=86.84 Aligned_cols=74 Identities=23% Similarity=0.162 Sum_probs=62.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC---------CCCcEEEEEccchhhHHHH
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---------ENPVKLIYCTRTVHEMEKT 83 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~---------~~~~kvi~~T~T~~l~~Q~ 83 (759)
.|..|.|.|++.+-- ..+.+..|.-|.||+|||+|+++|.|.|..+.| +++ ..+|..+|..+.+|+
T Consensus 264 ~y~eptpIqR~aipl----~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gp-yaiilaptReLaqqI 338 (673)
T KOG0333|consen 264 GYKEPTPIQRQAIPL----GLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGP-YAIILAPTRELAQQI 338 (673)
T ss_pred CCCCCchHHHhhccc----hhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCc-eeeeechHHHHHHHH
Confidence 466678999887763 346778889999999999999999999987765 356 899999999999999
Q ss_pred HHHHHhhh
Q 004358 84 LAELKLLH 91 (759)
Q Consensus 84 ~~el~~l~ 91 (759)
.+|-.++.
T Consensus 339 eeEt~kf~ 346 (673)
T KOG0333|consen 339 EEETNKFG 346 (673)
T ss_pred HHHHHHhc
Confidence 99988764
No 98
>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=98.07 E-value=5e-05 Score=69.81 Aligned_cols=115 Identities=23% Similarity=0.348 Sum_probs=79.5
Q ss_pred HHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCC-chhHHHHHHHHHHhccCCCCeEE
Q 004358 518 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVF 596 (759)
Q Consensus 518 ~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~aiL 596 (759)
..+.+.+.+..+ ..+.+|||+++...++.+.+.+.+.+ ....++.+.. .......++.|++ +...||
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 56899999999999999999987521 2333444432 2345666777776 456788
Q ss_pred EEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeE
Q 004358 597 FSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGM 676 (759)
Q Consensus 597 ~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~ 676 (759)
+++ ..++||+|+++ +..||+.+.|+. ...+.|++||+.|..+ .|.
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 877 58999999986 778898887543 2344799999999876 565
Q ss_pred EEE
Q 004358 677 MIF 679 (759)
Q Consensus 677 iil 679 (759)
+++
T Consensus 128 ~~~ 130 (131)
T cd00079 128 AIL 130 (131)
T ss_pred EEe
Confidence 543
No 99
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=98.06 E-value=4.4e-06 Score=90.57 Aligned_cols=58 Identities=21% Similarity=0.215 Sum_probs=48.0
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHhC---CCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK---PENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~~l~~~~~~---~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
+|..++--|-||+|||||+|+|+|..+... +..++-.+|.|||..+.-|+++-|.++-
T Consensus 105 ~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kvg 165 (758)
T KOG0343|consen 105 QGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKVG 165 (758)
T ss_pred cCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHHh
Confidence 477888899999999999999999865543 2233479999999999999999998874
No 100
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.06 E-value=1.3e-05 Score=91.54 Aligned_cols=72 Identities=15% Similarity=0.177 Sum_probs=58.9
Q ss_pred CCHHHHHHHHHHHHHHHhCC-cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~-~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+|..|...+..|.+|+.+|+ .+++.+.||||||..+..- +--+.+....+ ||++.+-+++|.+|...+....
T Consensus 166 ~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiai-i~rL~r~~~~K-RVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 166 PRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAI-IDRLIKSGWVK-RVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred chHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHH-HHHHHhcchhh-eeeEEechHHHHHHHHHHHHHh
Confidence 59999999999999999984 6999999999999986542 22223334457 9999999999999999887664
No 101
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.03 E-value=8.2e-06 Score=89.68 Aligned_cols=75 Identities=20% Similarity=0.213 Sum_probs=62.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC----CCCcEEEEEccchhhHHHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAEL 87 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~----~~~~kvi~~T~T~~l~~Q~~~el 87 (759)
-+|..|.|.|++.+ -.+-++..++..||||+|||+||++|.+..++... ..+.+.+|+.+|..+..|+..|.
T Consensus 154 ~~F~~Pt~iq~~ai----pvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~ 229 (593)
T KOG0344|consen 154 LGFDEPTPIQKQAI----PVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREM 229 (593)
T ss_pred CCCCCCCcccchhh----hhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHH
Confidence 35676789999655 44557889999999999999999999998877553 23459999999999999999998
Q ss_pred Hhh
Q 004358 88 KLL 90 (759)
Q Consensus 88 ~~l 90 (759)
..+
T Consensus 230 ~k~ 232 (593)
T KOG0344|consen 230 RKY 232 (593)
T ss_pred Hhc
Confidence 875
No 102
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.01 E-value=6.4e-06 Score=86.16 Aligned_cols=75 Identities=23% Similarity=0.087 Sum_probs=56.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC-----CCCcEEEEEccchhhHHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~-----~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
-+|++|.|.|-++=--++ +|..++--|-||||||++||.|.+....+.+ .+.+.+++.|+|..|..|+-.|
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 356777777777654443 6888999999999999999999876654432 1223899999999998888777
Q ss_pred HHhh
Q 004358 87 LKLL 90 (759)
Q Consensus 87 l~~l 90 (759)
..+.
T Consensus 314 ~~ky 317 (629)
T KOG0336|consen 314 VKKY 317 (629)
T ss_pred HhHh
Confidence 7653
No 103
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.00 E-value=7.5e-06 Score=88.56 Aligned_cols=75 Identities=19% Similarity=0.147 Sum_probs=62.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC------CCCcEEEEEccchhhHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP------ENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~------~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
.-+..|...|.+.+-.+. +|+.++|+|+||+|||+|||+|.+.-+.... +|. =.+|.+||..+..|+.+
T Consensus 155 m~i~~pTsVQkq~IP~lL----~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~-~ALVivPTREL~~Q~y~ 229 (708)
T KOG0348|consen 155 MKISAPTSVQKQAIPVLL----EGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGP-YALVIVPTRELALQIYE 229 (708)
T ss_pred hccCccchHhhcchhhhh----cCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCc-eEEEEechHHHHHHHHH
Confidence 445667889999887777 4999999999999999999999998877653 344 57888999999999999
Q ss_pred HHHhhh
Q 004358 86 ELKLLH 91 (759)
Q Consensus 86 el~~l~ 91 (759)
-+.+|.
T Consensus 230 ~~qKLl 235 (708)
T KOG0348|consen 230 TVQKLL 235 (708)
T ss_pred HHHHHh
Confidence 888874
No 104
>PF13245 AAA_19: Part of AAA domain
Probab=97.85 E-value=6.4e-05 Score=62.21 Aligned_cols=59 Identities=24% Similarity=0.379 Sum_probs=42.7
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHH--hCCCCCcEEEEEccchhhHHHHHHHH
Q 004358 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVL--SKPENPVKLIYCTRTVHEMEKTLAEL 87 (759)
Q Consensus 27 ~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~--~~~~~~~kvi~~T~T~~l~~Q~~~el 87 (759)
.|..++..+..++|.||+|||||...+-.+..+.. ..+ ++ +|+++|+|+...+.+.+.+
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 45567774556777999999999665554444442 222 56 8999999999988877766
No 105
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.85 E-value=7.1e-05 Score=84.58 Aligned_cols=89 Identities=18% Similarity=0.144 Sum_probs=74.2
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCC--cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~--~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
.-||+. +..|++.+.+|..-+.... +=++.+-.|+|||+..+++++.... .|. ++....||--|.+|-...+.
T Consensus 258 ~LPF~L-T~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~---~G~-Q~ALMAPTEILA~QH~~~~~ 332 (677)
T COG1200 258 ALPFKL-TNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE---AGY-QAALMAPTEILAEQHYESLR 332 (677)
T ss_pred hCCCCc-cHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHH---cCC-eeEEeccHHHHHHHHHHHHH
Confidence 469985 9999999999999998875 6789999999999999888776543 245 99999999999999999998
Q ss_pred hhhhhcccCCCCccceEEEeecCC
Q 004358 89 LLHNYQTRHLGPAAKILAIGLSSR 112 (759)
Q Consensus 89 ~l~~~~~~~~g~~~~~~~~~l~gr 112 (759)
++.+ +..+++..|.|+
T Consensus 333 ~~l~--------~~~i~V~lLtG~ 348 (677)
T COG1200 333 KWLE--------PLGIRVALLTGS 348 (677)
T ss_pred HHhh--------hcCCeEEEeecc
Confidence 8753 334677777776
No 106
>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=97.82 E-value=0.00014 Score=77.33 Aligned_cols=70 Identities=19% Similarity=0.156 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHH---------HhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCC--CCcEEEEEccchhhHHHHHHHHH
Q 004358 20 EQYSYMLELKRAL---------DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE--NPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 20 ~Q~~~~~~v~~al---------~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~--~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
.|++.+.-+.+.. ...+.+++--.+|+|||+..+..+.......+. .+ +++|.+|+ +++.|..+|+.
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 4788887777776 455788999999999999887654433222211 12 48888999 77899999999
Q ss_pred hhh
Q 004358 89 LLH 91 (759)
Q Consensus 89 ~l~ 91 (759)
+..
T Consensus 79 ~~~ 81 (299)
T PF00176_consen 79 KWF 81 (299)
T ss_dssp HHS
T ss_pred ccc
Confidence 863
No 107
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.76 E-value=5.1e-05 Score=81.73 Aligned_cols=56 Identities=21% Similarity=0.248 Sum_probs=46.4
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCC-----CCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~-----~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
+..++=-|-||+|||-|++.|.+......+ +++ =.+|+++|.++..|+..|.+++-
T Consensus 260 grdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gP-i~vilvPTrela~Qi~~eaKkf~ 320 (731)
T KOG0339|consen 260 GRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGP-IGVILVPTRELASQIFSEAKKFG 320 (731)
T ss_pred cccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCC-eEEEEeccHHHHHHHHHHHHHhh
Confidence 556777799999999999999988765432 344 68999999999999999999863
No 108
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.76 E-value=0.00014 Score=80.51 Aligned_cols=71 Identities=20% Similarity=0.415 Sum_probs=50.8
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
.+||.. .-+.|++. |.-++..+...+|.+|+|||||..+.-- +.-+-. .++ ||++|.||+.-.+.+++.|-
T Consensus 180 ~~~~~~-ln~SQk~A---v~~~~~~k~l~~I~GPPGTGKT~TlvEi-I~qlvk--~~k-~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 180 TFFNKN-LNSSQKAA---VSFAINNKDLLIIHGPPGTGKTRTLVEI-ISQLVK--QKK-RVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred ccCCcc-ccHHHHHH---HHHHhccCCceEeeCCCCCCceeeHHHH-HHHHHH--cCC-eEEEEcCchHHHHHHHHHhc
Confidence 356665 37888874 4445566689999999999999864332 222222 257 99999999999999998544
No 109
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=97.76 E-value=0.0002 Score=79.58 Aligned_cols=82 Identities=16% Similarity=0.311 Sum_probs=58.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhhh
Q 004358 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (759)
Q Consensus 14 y~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~ 93 (759)
.+.....|....+.|. ++..-+|.+|+|||||.. ++++-|......+. +|++|.++..-.+|+-+-+.+.
T Consensus 408 lpkLN~SQ~~AV~~VL----~rplsLIQGPPGTGKTvt--sa~IVyhl~~~~~~-~VLvcApSNiAVDqLaeKIh~t--- 477 (935)
T KOG1802|consen 408 LPKLNASQSNAVKHVL----QRPLSLIQGPPGTGKTVT--SATIVYHLARQHAG-PVLVCAPSNIAVDQLAEKIHKT--- 477 (935)
T ss_pred chhhchHHHHHHHHHH----cCCceeeecCCCCCceeh--hHHHHHHHHHhcCC-ceEEEcccchhHHHHHHHHHhc---
Confidence 3345677877665555 577899999999999986 44555544333345 8999999999999999877763
Q ss_pred cccCCCCccceEEEeecCCcc
Q 004358 94 QTRHLGPAAKILAIGLSSRKN 114 (759)
Q Consensus 94 ~~~~~g~~~~~~~~~l~gr~~ 114 (759)
+ ++++.+.+|+.
T Consensus 478 -------g--LKVvRl~aksR 489 (935)
T KOG1802|consen 478 -------G--LKVVRLCAKSR 489 (935)
T ss_pred -------C--ceEeeeehhhh
Confidence 2 56666555544
No 110
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=97.61 E-value=0.00024 Score=86.20 Aligned_cols=71 Identities=15% Similarity=0.152 Sum_probs=55.1
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC-CCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~-~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.||.|.+-+.-+.....++.++|+--..|.|||+-.++ ++++.... +..+ +++|.+|. +++.|..+|+.+.
T Consensus 170 Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIa-lL~~L~~~~~~~g-p~LIVvP~-SlL~nW~~Ei~kw 241 (1033)
T PLN03142 170 MRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTIS-LLGYLHEYRGITG-PHMVVAPK-STLGNWMNEIRRF 241 (1033)
T ss_pred hHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHH-HHHHHHHhcCCCC-CEEEEeCh-HHHHHHHHHHHHH
Confidence 69999999998888888888999999999999997654 34554432 2234 67777775 5678899999886
No 111
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=97.48 E-value=0.00021 Score=85.24 Aligned_cols=72 Identities=19% Similarity=0.269 Sum_probs=59.6
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
-.|||+. .|-|++.+ .+|+++..++++||||.|||...-.+ ++++... +. |+||.||.+++-.|..+|+..
T Consensus 114 ~~~~F~L-D~fQ~~a~----~~Ler~esVlV~ApTssGKTvVaeyA-i~~al~~--~q-rviYTsPIKALsNQKyrdl~~ 184 (1041)
T COG4581 114 REYPFEL-DPFQQEAI----AILERGESVLVCAPTSSGKTVVAEYA-IALALRD--GQ-RVIYTSPIKALSNQKYRDLLA 184 (1041)
T ss_pred HhCCCCc-CHHHHHHH----HHHhCCCcEEEEccCCCCcchHHHHH-HHHHHHc--CC-ceEeccchhhhhhhHHHHHHH
Confidence 3589986 89999877 66779999999999999999977664 5555443 57 899999999999999998765
Q ss_pred h
Q 004358 90 L 90 (759)
Q Consensus 90 l 90 (759)
.
T Consensus 185 ~ 185 (1041)
T COG4581 185 K 185 (1041)
T ss_pred H
Confidence 3
No 112
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.35 E-value=0.0014 Score=78.74 Aligned_cols=88 Identities=19% Similarity=0.213 Sum_probs=71.7
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCC--cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHH
Q 004358 9 TVYFPYDNIYPEQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~al~~~~--~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
...|||+. +|=|...+++|.+-+.+++ .=+|++-.|-|||-.++=+|-... .+|+ +|.+.+||.-|.+|-.+.
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 45799998 9999999999999999997 468999999999998887765543 3467 999999999999999987
Q ss_pred HHhhhhhcccCCCCccceEEEee
Q 004358 87 LKLLHNYQTRHLGPAAKILAIGL 109 (759)
Q Consensus 87 l~~l~~~~~~~~g~~~~~~~~~l 109 (759)
++.-- .+.++++.+|
T Consensus 663 FkeRF--------~~fPV~I~~L 677 (1139)
T COG1197 663 FKERF--------AGFPVRIEVL 677 (1139)
T ss_pred HHHHh--------cCCCeeEEEe
Confidence 76421 2566765544
No 113
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.25 E-value=0.00084 Score=68.36 Aligned_cols=67 Identities=27% Similarity=0.376 Sum_probs=44.2
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHH------HhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV------LSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~------~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
-+.|.+.+ ..++......+|.+|+|||||... +.++... .....+. +|+++++|+.-.+++++.+..
T Consensus 3 n~~Q~~Ai---~~~~~~~~~~~i~GpPGTGKT~~l-~~~i~~~~~~~~~~~~~~~~-~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 3 NESQREAI---QSALSSNGITLIQGPPGTGKTTTL-ASIIAQLLQRFKSRSADRGK-KILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp -HHHHHHH---HHHCTSSE-EEEE-STTSSHHHHH-HHHHHHH-------HCCCSS--EEEEESSHHHHHHHHHHHHC
T ss_pred CHHHHHHH---HHHHcCCCCEEEECCCCCChHHHH-HHHHHHhccchhhhhhhccc-cceeecCCchhHHHHHHHHHh
Confidence 46787765 334444445999999999999543 3334333 1123456 999999999999999998776
No 114
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=97.24 E-value=0.0011 Score=78.05 Aligned_cols=140 Identities=13% Similarity=0.133 Sum_probs=81.7
Q ss_pred ccccHHHhhccCEEEEecCCCCCC-cchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~-~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..++.+--|+||.... +.|.+.-|++-+. +|.+. |..-.+-++ .-| ....+-+.+
T Consensus 374 sIT~QnfFr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~-------IPTnk--P~~R~D~~d-----~vy--~t~~eK~~A 437 (913)
T PRK13103 374 STTFQNYFRLYNKLSGMTGTADTEAFEFRQIYGLDVVV-------IPPNK--PLARKDFND-----LVY--LTAEEKYAA 437 (913)
T ss_pred eehHHHHHHhcchhccCCCCCHHHHHHHHHHhCCCEEE-------CCCCC--CcccccCCC-----eEE--cCHHHHHHH
Confidence 455688888888899999999654 2455555655321 11111 111001111 112 223344567
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv 599 (759)
+.+.+.++. ..+..+||-.+|-+.=+.+...++..++-.++...| ....+ ..++. ++ +..|+|-+|+
T Consensus 438 i~~ei~~~~-~~GrPVLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk------~~~~E-A~IIa---~A--G~~GaVTIAT 504 (913)
T PRK13103 438 IITDIKECM-ALGRPVLVGTATIETSEHMSNLLKKEGIEHKVLNAK------YHEKE-AEIIA---QA--GRPGALTIAT 504 (913)
T ss_pred HHHHHHHHH-hCCCCEEEEeCCHHHHHHHHHHHHHcCCcHHHhccc------cchhH-HHHHH---cC--CCCCcEEEec
Confidence 777666655 478899999999999999999998877543332211 11111 11222 22 3478999987
Q ss_pred ecCccccccccC
Q 004358 600 ARGKVAEGIDFD 611 (759)
Q Consensus 600 ~~G~~~EGiDf~ 611 (759)
- =...|-|+.
T Consensus 505 N--MAGRGTDIk 514 (913)
T PRK13103 505 N--MAGRGTDIL 514 (913)
T ss_pred c--CCCCCCCEe
Confidence 3 566899984
No 115
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.18 E-value=0.001 Score=69.11 Aligned_cols=70 Identities=20% Similarity=0.148 Sum_probs=61.0
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.|.|.|..-+-+|. +|..++=.|-||+|||.|+-+|.+.-+...|.+. =.+|.|||+.+.-|+-+.+..+
T Consensus 29 ~pTpiQ~~cIpkIL----eGrdcig~AkTGsGKT~AFaLPil~rLsedP~gi-FalvlTPTrELA~QiaEQF~al 98 (442)
T KOG0340|consen 29 KPTPIQQACIPKIL----EGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGI-FALVLTPTRELALQIAEQFIAL 98 (442)
T ss_pred CCCchHhhhhHHHh----cccccccccccCCCcchhhhHHHHHhhccCCCcc-eEEEecchHHHHHHHHHHHHHh
Confidence 45899999887777 7889999999999999999999998887777666 7889999999999998887765
No 116
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=97.13 E-value=0.004 Score=72.72 Aligned_cols=140 Identities=21% Similarity=0.237 Sum_probs=88.9
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhhhcccC
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRH 97 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~ 97 (759)
-..|++. +.+++..+.+++|.+=+|||||-. ++.++..+.+. ++ +|+.++-||+-.+.++--|+..
T Consensus 671 N~dQr~A---~~k~L~aedy~LI~GMPGTGKTTt-I~~LIkiL~~~--gk-kVLLtsyThsAVDNILiKL~~~------- 736 (1100)
T KOG1805|consen 671 NNDQRQA---LLKALAAEDYALILGMPGTGKTTT-ISLLIKILVAL--GK-KVLLTSYTHSAVDNILIKLKGF------- 736 (1100)
T ss_pred CHHHHHH---HHHHHhccchheeecCCCCCchhh-HHHHHHHHHHc--CC-eEEEEehhhHHHHHHHHHHhcc-------
Confidence 4567774 456777889999999999999863 22223222222 67 9999999999998887655542
Q ss_pred CCCccceEEEeecCCcccccchHHhhhcccccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHhhhcCCCCCCCCCH
Q 004358 98 LGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPPGVYTL 177 (759)
Q Consensus 98 ~g~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~t~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~ 177 (759)
.+.++.|++... +++.++. .|.
T Consensus 737 -----~i~~lRLG~~~k--ih~~v~e---------~~~------------------------------------------ 758 (1100)
T KOG1805|consen 737 -----GIYILRLGSEEK--IHPDVEE---------FTL------------------------------------------ 758 (1100)
T ss_pred -----CcceeecCCccc--cchHHHH---------Hhc------------------------------------------
Confidence 233344443321 2222211 110
Q ss_pred HHHHHhcccCCCcchHHHHhhcccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCCChhH
Q 004358 178 QDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDN 241 (759)
Q Consensus 178 e~~~~~~~~~~~Cpy~~ar~~~~~adiiv~n~~~ll~~~~~~~~~~~l~~~~ivI~DEAHnl~~ 241 (759)
+.....|-|..-++...+-.||.|+=--+-+|.... ...+++|||||-.+..
T Consensus 759 ------~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~plf~~------R~FD~cIiDEASQI~l 810 (1100)
T KOG1805|consen 759 ------TNETSEKSYADLKKFLDQTSIVACTCLGINHPLFVN------RQFDYCIIDEASQILL 810 (1100)
T ss_pred ------ccccchhhHHHHHHHhCCCcEEEEEccCCCchhhhc------cccCEEEEcccccccc
Confidence 222334666666777888899999877666775432 2588999999977643
No 117
>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=96.99 E-value=0.0015 Score=64.78 Aligned_cols=57 Identities=26% Similarity=0.229 Sum_probs=40.1
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchh
Q 004358 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~ 78 (759)
|..+.|..+++.+. +...+++.+|.|||||+..+..++..... +.-. ||+|+-++.+
T Consensus 4 p~~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~-g~~~-kiii~Rp~v~ 60 (205)
T PF02562_consen 4 PKNEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKE-GEYD-KIIITRPPVE 60 (205)
T ss_dssp --SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHT-TS-S-EEEEEE-S--
T ss_pred CCCHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHh-CCCc-EEEEEecCCC
Confidence 34789999997666 77899999999999999999999887765 3335 8888877664
No 118
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=96.92 E-value=0.0024 Score=75.02 Aligned_cols=76 Identities=17% Similarity=0.281 Sum_probs=53.3
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC------CCCcEEEEEccchhhHHHHH
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP------ENPVKLIYCTRTVHEMEKTL 84 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~------~~~~kvi~~T~T~~l~~Q~~ 84 (759)
.|+|+..-..|-+.-.- |...+++.+|.||||+|||-.+++..|.-.+... .+..||||..|+++|..-++
T Consensus 105 ~f~f~~fN~iQS~vFp~---aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~ 181 (1230)
T KOG0952|consen 105 FFSFEEFNRIQSEVFPV---AYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMV 181 (1230)
T ss_pred cccHHHHHHHHHHhhhh---hhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHH
Confidence 34555443444332222 3455789999999999999999988887766411 12349999999999999888
Q ss_pred HHHHh
Q 004358 85 AELKL 89 (759)
Q Consensus 85 ~el~~ 89 (759)
+...+
T Consensus 182 ~~~~k 186 (1230)
T KOG0952|consen 182 DKFSK 186 (1230)
T ss_pred HHHhh
Confidence 86543
No 119
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.89 E-value=0.00094 Score=70.85 Aligned_cols=74 Identities=20% Similarity=0.162 Sum_probs=61.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.|..|.|.|+.-|.-|. +++.++--|-||+|||.|+++|++..++.......|.++.++|..|..|.++=++.+
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 56667999999887766 677888899999999999999999888765433459999999999999998865554
No 120
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=96.87 E-value=0.0025 Score=76.28 Aligned_cols=73 Identities=25% Similarity=0.172 Sum_probs=58.3
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHh-CCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS-KPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~-~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.++.|....+.+...-..+..++++||||.|||.+.+.++..-... ..... |+||+.|+++..+++.+.++..
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 3788888887766555544599999999999999999988776554 22345 9999999999999999987764
No 121
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=96.82 E-value=0.0082 Score=69.39 Aligned_cols=140 Identities=13% Similarity=0.172 Sum_probs=82.9
Q ss_pred ccccHHHhhccCEEEEecCCCCCC-cchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~-~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..+..+--|+||.... +.|.+..+++-+ .+|.+ .|..-.+.++.+ +....+-+.+
T Consensus 352 sIT~QnfFr~Y~kLsGMTGTa~t~~~Ef~~iY~l~Vv-------~IPtn--kp~~R~d~~d~i-------y~t~~~k~~A 415 (764)
T PRK12326 352 TITVQALIGRYPTVCGMTGTAVAAGEQLRQFYDLGVS-------VIPPN--KPNIREDEADRV-------YATAAEKNDA 415 (764)
T ss_pred hhhHHHHHHhcchheeecCCChhHHHHHHHHhCCcEE-------ECCCC--CCceeecCCCce-------EeCHHHHHHH
Confidence 455688899999999999999654 356666666522 11211 111111111111 1223445677
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv 599 (759)
+.+.+.++. ..+..+||.++|-+.=+.+...+.+.++- + .++- .++. ..+ -+--.++ ..+|+|-+|+
T Consensus 416 ii~ei~~~~-~~GrPVLVgt~sI~~SE~ls~~L~~~gI~-----h-~vLN-Ak~~-~~E--A~IIa~A--G~~gaVTIAT 482 (764)
T PRK12326 416 IVEHIAEVH-ETGQPVLVGTHDVAESEELAERLRAAGVP-----A-VVLN-AKND-AEE--ARIIAEA--GKYGAVTVST 482 (764)
T ss_pred HHHHHHHHH-HcCCCEEEEeCCHHHHHHHHHHHHhCCCc-----c-eeec-cCch-HhH--HHHHHhc--CCCCcEEEEe
Confidence 777777765 47889999999999999999998876541 1 1321 2221 111 1112232 3468999988
Q ss_pred ecCccccccccC
Q 004358 600 ARGKVAEGIDFD 611 (759)
Q Consensus 600 ~~G~~~EGiDf~ 611 (759)
. =...|.|+.
T Consensus 483 N--MAGRGTDIk 492 (764)
T PRK12326 483 Q--MAGRGTDIR 492 (764)
T ss_pred c--CCCCccCee
Confidence 3 566898885
No 122
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=96.79 E-value=0.0047 Score=70.29 Aligned_cols=72 Identities=14% Similarity=0.148 Sum_probs=55.8
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC-CCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~-~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
.|+.|.+=+.=.+.-..+|-++|+--..|-|||+--+ +.|+|.+... ..+ +-+|++|--. ++..++|+++..
T Consensus 168 lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtI-s~l~yl~~~~~~~G-PfLVi~P~St-L~NW~~Ef~rf~ 240 (971)
T KOG0385|consen 168 LRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTI-SLLGYLKGRKGIPG-PFLVIAPKST-LDNWMNEFKRFT 240 (971)
T ss_pred cchhhhccHHHHHHHHhcCcccEeehhcccchHHHHH-HHHHHHHHhcCCCC-CeEEEeeHhh-HHHHHHHHHHhC
Confidence 5999999999999999999999999999999999654 4567766532 234 5666666544 568899999874
No 123
>KOG4284 consensus DEAD box protein [Transcription]
Probab=96.74 E-value=0.0011 Score=73.80 Aligned_cols=74 Identities=19% Similarity=0.149 Sum_probs=54.4
Q ss_pred CCCHHHHHHHHHHHHHHHh-------------------CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 16 NIYPEQYSYMLELKRALDA-------------------KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~-------------------~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
++-++|..+-+.|...|.. +=.+||.|-.|||||+.|-+.++.-........ .++|.|+|
T Consensus 24 ~~~fe~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~-q~~Iv~PT 102 (980)
T KOG4284|consen 24 TPGFEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHI-QKVIVTPT 102 (980)
T ss_pred CCCHHHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcc-eeEEEecc
Confidence 3466666666666666653 225899999999999998877665443332334 89999999
Q ss_pred hhhHHHHHHHHHhh
Q 004358 77 VHEMEKTLAELKLL 90 (759)
Q Consensus 77 ~~l~~Q~~~el~~l 90 (759)
....-|+-+-+.++
T Consensus 103 REiaVQI~~tv~~v 116 (980)
T KOG4284|consen 103 REIAVQIKETVRKV 116 (980)
T ss_pred hhhhhHHHHHHHHh
Confidence 99998988877765
No 124
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=96.67 E-value=0.012 Score=69.02 Aligned_cols=70 Identities=21% Similarity=0.236 Sum_probs=58.5
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.-+.|....+.|...+..-...++.+-||+|||-.||-.+-..+. .|+ .+++..|-+++..|++..++..
T Consensus 199 Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~---~Gk-qvLvLVPEI~Ltpq~~~rf~~r 268 (730)
T COG1198 199 LNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLA---QGK-QVLVLVPEIALTPQLLARFKAR 268 (730)
T ss_pred cCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHH---cCC-EEEEEeccccchHHHHHHHHHH
Confidence 468999999999888733468999999999999999987555443 367 8999999999999999988864
No 125
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.65 E-value=0.00085 Score=68.62 Aligned_cols=90 Identities=18% Similarity=0.061 Sum_probs=61.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
-+|+.|.|.|.+-+--+. .|+.+++-|-.|||||-||.+|.|.-....... .+.+|.++|..+.-|.-+-.+.+.
T Consensus 103 ~G~ekPSPiQeesIPiaL----tGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~-IQ~~ilVPtrelALQtSqvc~~ls 177 (459)
T KOG0326|consen 103 KGFEKPSPIQEESIPIAL----TGRDILARAKNGTGKTAAYCIPVLEKIDPKKNV-IQAIILVPTRELALQTSQVCKELS 177 (459)
T ss_pred hccCCCCCccccccceee----cchhhhhhccCCCCCccceechhhhhcCccccc-eeEEEEeecchhhHHHHHHHHHHh
Confidence 367778899998775444 578999999999999999999999876544333 377888888876555444333332
Q ss_pred hhcccCCCCccceEEEeecCCcc
Q 004358 92 NYQTRHLGPAAKILAIGLSSRKN 114 (759)
Q Consensus 92 ~~~~~~~g~~~~~~~~~l~gr~~ 114 (759)
+ ...+++++..|..+
T Consensus 178 k--------h~~i~vmvttGGT~ 192 (459)
T KOG0326|consen 178 K--------HLGIKVMVTTGGTS 192 (459)
T ss_pred c--------ccCeEEEEecCCcc
Confidence 1 23366666666533
No 126
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.64 E-value=0.007 Score=60.20 Aligned_cols=62 Identities=19% Similarity=0.198 Sum_probs=42.9
Q ss_pred CHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHH
Q 004358 18 YPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~-~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
.++|++++..+. ..+ +..+|.+|.|||||..+ ..+....... +. +|+++++|+.....+-++
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 334 57889999999999864 3344444433 45 999999999987765443
No 127
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=96.60 E-value=0.0014 Score=66.08 Aligned_cols=75 Identities=11% Similarity=0.068 Sum_probs=58.6
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.++|++|...|...+..|. +|..+++.|-.|||||.+|-++.+.-..-. ....+++|.|||..+..|+-+-+..+
T Consensus 44 ~yGfekPS~IQqrAi~~Il----kGrdViaQaqSGTGKTa~~si~vlq~~d~~-~r~tQ~lilsPTRELa~Qi~~vi~al 118 (400)
T KOG0328|consen 44 AYGFEKPSAIQQRAIPQIL----KGRDVIAQAQSGTGKTATFSISVLQSLDIS-VRETQALILSPTRELAVQIQKVILAL 118 (400)
T ss_pred HhccCCchHHHhhhhhhhh----cccceEEEecCCCCceEEEEeeeeeecccc-cceeeEEEecChHHHHHHHHHHHHHh
Confidence 3689988888988876666 789999999999999999888766433221 12248999999999999987766554
No 128
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=96.56 E-value=0.0047 Score=57.05 Aligned_cols=53 Identities=21% Similarity=0.264 Sum_probs=35.3
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
.+|+.-+|...+|.|||--+|--.+.-..+. +. |++++.||....+-+-+.|+
T Consensus 2 ~kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~--~~-rvLvL~PTRvva~em~~aL~ 54 (148)
T PF07652_consen 2 RKGELTVLDLHPGAGKTRRVLPEIVREAIKR--RL-RVLVLAPTRVVAEEMYEALK 54 (148)
T ss_dssp STTEEEEEE--TTSSTTTTHHHHHHHHHHHT--T---EEEEESSHHHHHHHHHHTT
T ss_pred CCCceeEEecCCCCCCcccccHHHHHHHHHc--cC-eEEEecccHHHHHHHHHHHh
Confidence 3566778999999999998776544433322 45 99999999998776665544
No 129
>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=96.48 E-value=0.012 Score=69.00 Aligned_cols=67 Identities=28% Similarity=0.379 Sum_probs=49.9
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
.+-+.|.+.+ ..++......+|.+|+|||||......+..+. . .+. +|+++++|+.-.+++++.|..
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---SFALSSKDLFLIHGPPGTGKTRTLVELIRQLV-K--RGL-RVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCHHHHHHH---HHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHH-H--cCC-CEEEEcCcHHHHHHHHHHHHh
Confidence 4578898855 44666668999999999999965443322222 2 256 899999999999999987765
No 130
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.21 E-value=0.017 Score=69.32 Aligned_cols=71 Identities=23% Similarity=0.170 Sum_probs=56.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC----------------------------------CcEEEEcCCCCcHHHHHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAK----------------------------------GHCLLEMPTGTGKTIALLSLIT 57 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~----------------------------------~~~liEaPTGtGKTla~L~~~l 57 (759)
|-|+. =|+|.+.+.+|..+|..= .++.++++||||||..||...+
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 55776 699999999999988531 3789999999999999998877
Q ss_pred HHHHhCCCCCcEEEEEccchhhHHHHHH
Q 004358 58 SYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 58 ~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
...+..+ -. ++||.+|+.+--+.+.+
T Consensus 82 ~l~~~~~-~~-~fii~vp~~aI~egv~~ 107 (986)
T PRK15483 82 ELHQKYG-LF-KFIIVVPTPAIKEGTRN 107 (986)
T ss_pred HHHHHcC-Cc-EEEEEeCCHHHHHHHHH
Confidence 6655542 24 89999999887776655
No 131
>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=96.13 E-value=0.013 Score=48.42 Aligned_cols=43 Identities=26% Similarity=0.470 Sum_probs=34.7
Q ss_pred hhHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCC
Q 004358 575 VETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPF 625 (759)
Q Consensus 575 ~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPf 625 (759)
......+++|+. ++..||+++ ..+.+|||+++ ++.||..+.|+
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 456678888887 567899887 58999999995 88899999764
No 132
>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=96.12 E-value=0.013 Score=62.48 Aligned_cols=65 Identities=25% Similarity=0.328 Sum_probs=44.6
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC--CCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~--~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.+.|.+++.. .+++++|.|+.|||||.+++.-++ |+.... ... +|++.|-|+...+.+-+.+...
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 4678776643 478999999999999998766543 433322 234 8999999999777666655543
No 133
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=96.12 E-value=0.0096 Score=63.44 Aligned_cols=70 Identities=19% Similarity=0.175 Sum_probs=51.0
Q ss_pred eCCCCC-CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 11 YFPYDN-IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 11 ~FPy~~-~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
.|+|.+ -.|-|.+.+..| ...+..+.+.+|||.||||+|-+|+|.. +. =.|+.++-++++..-+.-|.+
T Consensus 14 ~FGh~kFKs~LQE~A~~c~---VK~k~DVyVsMPTGaGKSLCyQLPaL~~------~g-ITIV~SPLiALIkDQiDHL~~ 83 (641)
T KOG0352|consen 14 LFGHKKFKSRLQEQAINCI---VKRKCDVYVSMPTGAGKSLCYQLPALVH------GG-ITIVISPLIALIKDQIDHLKR 83 (641)
T ss_pred HhCchhhcChHHHHHHHHH---HhccCcEEEeccCCCchhhhhhchHHHh------CC-eEEEehHHHHHHHHHHHHHHh
Confidence 577664 267888765444 3456799999999999999999999863 23 355566888887766666666
Q ss_pred h
Q 004358 90 L 90 (759)
Q Consensus 90 l 90 (759)
|
T Consensus 84 L 84 (641)
T KOG0352|consen 84 L 84 (641)
T ss_pred c
Confidence 4
No 134
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=96.04 E-value=0.09 Score=59.24 Aligned_cols=95 Identities=25% Similarity=0.314 Sum_probs=67.1
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccc
Q 004358 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (759)
Q Consensus 531 ~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf 610 (759)
...++++|..+-...+.+...+...++ ...+.-+. ...++..++++|++ +.--+|+++ .-+.||||+
T Consensus 282 ~~~~~lif~~~~~~a~~i~~~~~~~~~------~~~it~~t-~~~eR~~il~~fr~----g~~~~lv~~--~vl~EGvDi 348 (442)
T COG1061 282 RGDKTLIFASDVEHAYEIAKLFLAPGI------VEAITGET-PKEEREAILERFRT----GGIKVLVTV--KVLDEGVDI 348 (442)
T ss_pred CCCcEEEEeccHHHHHHHHHHhcCCCc------eEEEECCC-CHHHHHHHHHHHHc----CCCCEEEEe--eeccceecC
Confidence 456999999999999999888765432 11222222 33578889999997 344577766 379999999
Q ss_pred CCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhccccccc
Q 004358 611 DRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRS 670 (759)
Q Consensus 611 ~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~ 670 (759)
|+ +.++|+++ |.- ..+...|.+||.+|.
T Consensus 349 P~--~~~~i~~~-~t~-----------------------------S~~~~~Q~lGR~LR~ 376 (442)
T COG1061 349 PD--ADVLIILR-PTG-----------------------------SRRLFIQRLGRGLRP 376 (442)
T ss_pred CC--CcEEEEeC-CCC-----------------------------cHHHHHHHhhhhccC
Confidence 98 66788877 322 124556999999994
No 135
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=95.95 E-value=0.0073 Score=66.37 Aligned_cols=88 Identities=19% Similarity=0.158 Sum_probs=61.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC-----------CCCcE--EEEEccchhh
Q 004358 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----------ENPVK--LIYCTRTVHE 79 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~-----------~~~~k--vi~~T~T~~l 79 (759)
+|..|.|.|...+-.+ +..+..++=-|.||+||||||=+|.++-..... ... + -+|.|||..+
T Consensus 200 gFs~Pt~IQsl~lp~a---i~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~-k~~~LV~tPTREL 275 (731)
T KOG0347|consen 200 GFSRPTEIQSLVLPAA---IRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYV-KPIALVVTPTREL 275 (731)
T ss_pred CCCCCccchhhcccHh---hccchhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccC-cceeEEecChHHH
Confidence 5766677776554333 333357778899999999999999887322110 122 4 8999999999
Q ss_pred HHHHHHHHHhhhhhcccCCCCccceEEEeecCC
Q 004358 80 MEKTLAELKLLHNYQTRHLGPAAKILAIGLSSR 112 (759)
Q Consensus 80 ~~Q~~~el~~l~~~~~~~~g~~~~~~~~~l~gr 112 (759)
..|+..-|..+.+ ...++++.+.|.
T Consensus 276 a~QV~~Hl~ai~~--------~t~i~v~si~GG 300 (731)
T KOG0347|consen 276 AHQVKQHLKAIAE--------KTQIRVASITGG 300 (731)
T ss_pred HHHHHHHHHHhcc--------ccCeEEEEeech
Confidence 9999998887754 245676766655
No 136
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=95.91 E-value=0.12 Score=54.14 Aligned_cols=109 Identities=19% Similarity=0.370 Sum_probs=74.0
Q ss_pred ccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccc
Q 004358 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 609 (759)
Q Consensus 530 ~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiD 609 (759)
.++..+|+|||+.+.|+++.+.+++. +...+..++.+.+ ..+.+-++.|+. |+-.||+.+. -+-.||-
T Consensus 303 ~~~~P~liF~p~I~~~eq~a~~lk~~-----~~~~~i~~Vhs~d-~~R~EkV~~fR~----G~~~lLiTTT--ILERGVT 370 (441)
T COG4098 303 KTGRPVLIFFPEIETMEQVAAALKKK-----LPKETIASVHSED-QHRKEKVEAFRD----GKITLLITTT--ILERGVT 370 (441)
T ss_pred hcCCcEEEEecchHHHHHHHHHHHhh-----CCccceeeeeccC-ccHHHHHHHHHc----CceEEEEEee--hhhcccc
Confidence 56679999999999999999998653 3333445665555 345566788887 7788999874 6788888
Q ss_pred cCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEEE
Q 004358 610 FDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIF 679 (759)
Q Consensus 610 f~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iil 679 (759)
||. --|+++|-- ..-|+..|+.++.=++||-+++++ |-|++
T Consensus 371 fp~---vdV~Vlgae------------------------h~vfTesaLVQIaGRvGRs~~~Pt--Gdv~F 411 (441)
T COG4098 371 FPN---VDVFVLGAE------------------------HRVFTESALVQIAGRVGRSLERPT--GDVLF 411 (441)
T ss_pred ccc---ceEEEecCC------------------------cccccHHHHHHHhhhccCCCcCCC--CcEEE
Confidence 886 335566511 223444677776667777776654 54554
No 137
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=95.82 E-value=0.0053 Score=64.78 Aligned_cols=70 Identities=16% Similarity=0.130 Sum_probs=55.8
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
.|+|++|...|...+--+. +|.++.+.|++|||||.+++++++.... .+.....+++..||+.+..|+..
T Consensus 43 ~yGFekPSaIQqraI~p~i----~G~dv~~qaqsgTgKt~af~i~iLq~iD-~~~ke~qalilaPtreLa~qi~~ 112 (397)
T KOG0327|consen 43 AYGFEKPSAIQQRAILPCI----KGHDVIAQAQSGTGKTAAFLISILQQID-MSVKETQALILAPTRELAQQIQK 112 (397)
T ss_pred hhccCCchHHHhccccccc----cCCceeEeeeccccchhhhHHHHHhhcC-cchHHHHHHHhcchHHHHHHHHH
Confidence 4789988888887765444 6899999999999999999999886532 22233479999999999888885
No 138
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=95.76 E-value=0.028 Score=46.43 Aligned_cols=43 Identities=23% Similarity=0.499 Sum_probs=33.5
Q ss_pred hhHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCC
Q 004358 575 VETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPF 625 (759)
Q Consensus 575 ~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPf 625 (759)
.+....++.|.+ ++..||+++ ..+++|+|+++ ++.||+.+.|+
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 345667778876 456788876 48999999987 88999999754
No 139
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=95.69 E-value=0.03 Score=67.25 Aligned_cols=77 Identities=22% Similarity=0.269 Sum_probs=57.9
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC-------CCCcEEEEEccchhhHHHHHHHHHhhhhhcccCCCCccc
Q 004358 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-------ENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAK 103 (759)
Q Consensus 31 al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~-------~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~g~~~~ 103 (759)
|+...+|++++||||.|||-..+..+|.-+..+. -+.+||+|-.++++|.+-+++.+.+-. .+.+
T Consensus 321 Al~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkRl--------a~~G 392 (1674)
T KOG0951|consen 321 ALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRL--------APLG 392 (1674)
T ss_pred HhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhhc--------cccC
Confidence 4455589999999999999998888887665432 123499999999999999999876532 2445
Q ss_pred eEEEeecCCccc
Q 004358 104 ILAIGLSSRKNL 115 (759)
Q Consensus 104 ~~~~~l~gr~~l 115 (759)
++++-+.|-.++
T Consensus 393 I~V~ElTgD~~l 404 (1674)
T KOG0951|consen 393 ITVLELTGDSQL 404 (1674)
T ss_pred cEEEEecccccc
Confidence 777777777553
No 140
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=95.68 E-value=0.016 Score=60.69 Aligned_cols=69 Identities=22% Similarity=0.258 Sum_probs=52.3
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
-|..++.||-|++.+..+. .++.+++-.|||-||+++|-+|+|.. .+ =.++.+|-+++++.-+-.|+.+
T Consensus 89 ~f~lekfrplq~~ain~~m----a~ed~~lil~tgggkslcyqlpal~a------dg-~alvi~plislmedqil~lkql 157 (695)
T KOG0353|consen 89 QFHLEKFRPLQLAAINATM----AGEDAFLILPTGGGKSLCYQLPALCA------DG-FALVICPLISLMEDQILQLKQL 157 (695)
T ss_pred HhhHHhcChhHHHHhhhhh----ccCceEEEEeCCCccchhhhhhHHhc------CC-ceEeechhHHHHHHHHHHHHHh
Confidence 3555678999999886665 78899999999999999999999862 23 3556667787776555456654
No 141
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=95.67 E-value=0.35 Score=57.19 Aligned_cols=108 Identities=11% Similarity=0.167 Sum_probs=67.9
Q ss_pred cCCcEEEEecCHH--------HHHHHHHHHhhcccHHHHhcCceEEEeCCC-chhHHHHHHHHHHhccCCCCeEEEEeec
Q 004358 531 VPDGIVCFFVSYS--------YMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFSVAR 601 (759)
Q Consensus 531 ~~gg~lv~f~Sy~--------~l~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~aiL~gv~~ 601 (759)
.++.++||+|..+ ..+.+++.+.+. +...+..++.++- ..++..+++.|++ |+..||+|+.
T Consensus 447 ~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~-----~~~~~v~~lHG~m~~~eR~~i~~~F~~----g~~~ILVaT~- 516 (630)
T TIGR00643 447 KGRQAYVVYPLIEESEKLDLKAAEALYERLKKA-----FPKYNVGLLHGRMKSDEKEAVMEEFRE----GEVDILVATT- 516 (630)
T ss_pred hCCcEEEEEccccccccchHHHHHHHHHHHHhh-----CCCCcEEEEeCCCCHHHHHHHHHHHHc----CCCCEEEECc-
Confidence 4567899998753 333444444431 1122334444432 3456778899986 6778999884
Q ss_pred CccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEe
Q 004358 602 GKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFA 680 (759)
Q Consensus 602 G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iill 680 (759)
-+..|||+|+ .+.||+...|-. .+..+.|..||+=|....-=++++.
T Consensus 517 -vie~GvDiP~--v~~VIi~~~~r~-----------------------------gls~lhQ~~GRvGR~g~~g~~il~~ 563 (630)
T TIGR00643 517 -VIEVGVDVPN--ATVMVIEDAERF-----------------------------GLSQLHQLRGRVGRGDHQSYCLLVY 563 (630)
T ss_pred -eeecCcccCC--CcEEEEeCCCcC-----------------------------CHHHHHHHhhhcccCCCCcEEEEEE
Confidence 8999999998 567787765421 0234678999999875442234443
No 142
>PRK10536 hypothetical protein; Provisional
Probab=95.65 E-value=0.034 Score=56.94 Aligned_cols=56 Identities=23% Similarity=0.224 Sum_probs=37.4
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchh
Q 004358 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~ 78 (759)
|....|..++. ++.+...+++.+|+|||||+..++.++..... +.++.+|.||+.-
T Consensus 59 p~n~~Q~~~l~----al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~---~~~~kIiI~RP~v 114 (262)
T PRK10536 59 ARNEAQAHYLK----AIESKQLIFATGEAGCGKTWISAAKAAEALIH---KDVDRIIVTRPVL 114 (262)
T ss_pred CCCHHHHHHHH----HHhcCCeEEEECCCCCCHHHHHHHHHHHHHhc---CCeeEEEEeCCCC
Confidence 34677888776 44557799999999999999877766644322 2234444455544
No 143
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=95.58 E-value=0.0091 Score=71.90 Aligned_cols=66 Identities=18% Similarity=0.241 Sum_probs=51.9
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH
Q 004358 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
...|.+...||.|.+++. +...|+..++.+|||-||+++|-+||+.+ ++ -.++.+|=.+|++-.+.
T Consensus 257 ~~~Fg~~~FR~~Q~eaI~----~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~------~g-itvVISPL~SLm~DQv~ 322 (941)
T KOG0351|consen 257 KEVFGHKGFRPNQLEAIN----ATLSGKDCFVLMPTGGGKSLCYQLPALLL------GG-VTVVISPLISLMQDQVT 322 (941)
T ss_pred HHHhccccCChhHHHHHH----HHHcCCceEEEeecCCceeeEeecccccc------CC-ceEEeccHHHHHHHHHH
Confidence 356899999999999886 45589999999999999999999998864 24 45566687777544443
No 144
>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=95.49 E-value=0.15 Score=60.16 Aligned_cols=96 Identities=23% Similarity=0.284 Sum_probs=65.2
Q ss_pred ccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCC-chhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004358 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (759)
Q Consensus 530 ~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGi 608 (759)
..++.+|||+.+-..++.+...+. . -++-+.. ..++..++++|+.. +.-.+|+.+. -..|||
T Consensus 494 ~~g~kiLVF~~~~~~l~~~a~~L~-----------~-~~I~G~ts~~ER~~il~~Fr~~---~~i~vLv~Sk--VgdeGI 556 (732)
T TIGR00603 494 QRGDKIIVFSDNVFALKEYAIKLG-----------K-PFIYGPTSQQERMQILQNFQHN---PKVNTIFLSK--VGDTSI 556 (732)
T ss_pred hcCCeEEEEeCCHHHHHHHHHHcC-----------C-ceEECCCCHHHHHHHHHHHHhC---CCccEEEEec--cccccc
Confidence 356789999988888777776542 1 2333433 35688899999852 2334666553 467999
Q ss_pred ccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCC
Q 004358 609 DFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKAD 673 (759)
Q Consensus 609 Df~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D 673 (759)
|+|+ +.+||++..|+-++ +...|.+||+.|-+.+
T Consensus 557 DlP~--a~vvI~~s~~~gS~-----------------------------~q~iQRlGRilR~~~~ 590 (732)
T TIGR00603 557 DLPE--ANVLIQISSHYGSR-----------------------------RQEAQRLGRILRAKKG 590 (732)
T ss_pred CCCC--CCEEEEeCCCCCCH-----------------------------HHHHHHhcccccCCCC
Confidence 9998 67889888775432 3334888999997654
No 145
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=95.39 E-value=0.19 Score=62.65 Aligned_cols=112 Identities=13% Similarity=0.123 Sum_probs=74.2
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcccHHHH----hcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccc
Q 004358 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEI----MQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAE 606 (759)
Q Consensus 531 ~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l----~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~E 606 (759)
.++.++||+.|-...+.+.+.+.+. +... .......+-+. ......++++|+.. ....|+++| +-+++
T Consensus 697 ~~~KtiIF~~s~~HA~~i~~~L~~~--f~~~~~~~~~~~v~~itg~-~~~~~~li~~Fk~~---~~p~IlVsv--dmL~T 768 (1123)
T PRK11448 697 GEGKTLIFAATDAHADMVVRLLKEA--FKKKYGQVEDDAVIKITGS-IDKPDQLIRRFKNE---RLPNIVVTV--DLLTT 768 (1123)
T ss_pred CCCcEEEEEcCHHHHHHHHHHHHHH--HHhhcCCcCccceEEEeCC-ccchHHHHHHHhCC---CCCeEEEEe--ccccc
Confidence 4689999999999988888776542 0111 00111122222 23456789999862 223578877 58999
Q ss_pred ccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCC--CeeEEEEeec
Q 004358 607 GIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA--DYGMMIFADK 682 (759)
Q Consensus 607 GiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~--D~g~iillD~ 682 (759)
|||+|. +.+||+.+-|. + .....|.+||..|-.. +.-.++++|-
T Consensus 769 G~DvP~--v~~vVf~rpvk----S--------------------------~~lf~QmIGRgtR~~~~~~K~~f~I~D~ 814 (1123)
T PRK11448 769 GIDVPS--ICNLVFLRRVR----S--------------------------RILYEQMLGRATRLCPEIGKTHFRIFDA 814 (1123)
T ss_pred CCCccc--ccEEEEecCCC----C--------------------------HHHHHHHHhhhccCCccCCCceEEEEeh
Confidence 999995 78889888441 1 2345699999999766 4667778784
No 146
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=95.37 E-value=0.15 Score=60.11 Aligned_cols=75 Identities=19% Similarity=0.165 Sum_probs=60.2
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCC-cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHH
Q 004358 9 TVYFPYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (759)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~al~~~~-~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el 87 (759)
.+.=||+| .-.|-+.+.++.+++.++. +.++-+-||+|||+.. +.+ +.. . ++ +++|.|+++.+..|+.+||
T Consensus 3 ~~~~~~~~-~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~--a~~-~~~-~--~~-p~Lvi~~n~~~A~ql~~el 74 (655)
T TIGR00631 3 KLHSPFQP-AGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTM--ANV-IAQ-V--NR-PTLVIAHNKTLAAQLYNEF 74 (655)
T ss_pred eeccCCCC-ChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHH--HHH-HHH-h--CC-CEEEEECCHHHHHHHHHHH
Confidence 34569986 8999999999999998773 6779999999999853 222 222 1 45 8999999999999999999
Q ss_pred Hhhh
Q 004358 88 KLLH 91 (759)
Q Consensus 88 ~~l~ 91 (759)
+.+.
T Consensus 75 ~~f~ 78 (655)
T TIGR00631 75 KEFF 78 (655)
T ss_pred HHhC
Confidence 9863
No 147
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=95.01 E-value=0.044 Score=62.10 Aligned_cols=28 Identities=21% Similarity=0.298 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHH
Q 004358 23 SYMLELKRALDAKGHCLLEMPTGTGKTI 50 (759)
Q Consensus 23 ~~~~~v~~al~~~~~~liEaPTGtGKTl 50 (759)
++...|..++.+++.++|-++||+|||-
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKST 81 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKST 81 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCccc
Confidence 6778889999999999999999999996
No 148
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=94.99 E-value=0.38 Score=57.01 Aligned_cols=76 Identities=20% Similarity=0.185 Sum_probs=60.7
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhCC-cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHH
Q 004358 8 VTVYFPYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 8 ~~v~FPy~~~r~~Q~~~~~~v~~al~~~~-~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
..+.=||.| ++.|......+.+++.++. ..++.+.||+|||+.+. .+. +.. ++ +++|.|++..+.+|+.++
T Consensus 5 ~~~~~~~~~-~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia--~l~--~~~--~r-~vLIVt~~~~~A~~l~~d 76 (652)
T PRK05298 5 FKLVSPYKP-AGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMA--NVI--ARL--QR-PTLVLAHNKTLAAQLYSE 76 (652)
T ss_pred cccccCCCC-ChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHH--HHH--HHh--CC-CEEEEECCHHHHHHHHHH
Confidence 345668986 9999999999999997763 66799999999998632 222 221 45 899999999999999999
Q ss_pred HHhhh
Q 004358 87 LKLLH 91 (759)
Q Consensus 87 l~~l~ 91 (759)
|+.+.
T Consensus 77 L~~~~ 81 (652)
T PRK05298 77 FKEFF 81 (652)
T ss_pred HHHhc
Confidence 98763
No 149
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.95 E-value=0.039 Score=55.05 Aligned_cols=89 Identities=11% Similarity=0.073 Sum_probs=68.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
-+|+.|.+.|-+-+-... -|-.+++.|-+|.|||..+.+++|.-..-- .|...|++.+.|..+.=|+-+|..+..
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 467767788877665433 266789999999999999998887654322 355689999999999999999999988
Q ss_pred hhcccCCCCccceEEEeecCC
Q 004358 92 NYQTRHLGPAAKILAIGLSSR 112 (759)
Q Consensus 92 ~~~~~~~g~~~~~~~~~l~gr 112 (759)
+|.| .+++++.-|.
T Consensus 135 kymP-------~vkvaVFfGG 148 (387)
T KOG0329|consen 135 KYMP-------SVKVSVFFGG 148 (387)
T ss_pred hhCC-------CceEEEEEcc
Confidence 8764 3666776665
No 150
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=94.93 E-value=0.12 Score=61.39 Aligned_cols=139 Identities=12% Similarity=0.181 Sum_probs=79.7
Q ss_pred ccccHHHhhccCEEEEecCCCCCCc-chhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~~-~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..++.+.-|+||..... .|.+.-|++-+. +|.+. |..-.+-++. -| .+..+-+.+
T Consensus 349 sIT~QnfFr~Y~kL~GMTGTa~te~~Ef~~iY~l~vv~-------IPtnk--p~~R~d~~d~-----v~--~t~~~K~~A 412 (870)
T CHL00122 349 SITYQNFFLLYPKLSGMTGTAKTEELEFEKIYNLEVVC-------IPTHR--PMLRKDLPDL-----IY--KDELSKWRA 412 (870)
T ss_pred eeeHHHHHHhCchhcccCCCCHHHHHHHHHHhCCCEEE-------CCCCC--CccceeCCCe-----EE--eCHHHHHHH
Confidence 4556888999999999999997642 455555654321 11110 0000000111 11 223333466
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCC--chhHHHHHHHHHHhccCCCCeEEE
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD--VVETTLALDNYRKACDCGRGAVFF 597 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~--~~~~~~~l~~f~~~~~~~~~aiL~ 597 (759)
+.+.+.+.. ..+..+||-..|-+.=+.+...+...|+-.+ |+ -.++ ...-..++. ++ +.+|+|-+
T Consensus 413 I~~ei~~~~-~~grPVLIgT~SIe~SE~ls~~L~~~gi~h~------vL-NAk~~~~~~EA~IIA---~A--G~~G~VTI 479 (870)
T CHL00122 413 IADECLQMH-QTGRPILIGTTTIEKSELLSQLLKEYRLPHQ------LL-NAKPENVRRESEIVA---QA--GRKGSITI 479 (870)
T ss_pred HHHHHHHHH-hcCCCEEEeeCCHHHHHHHHHHHHHcCCccc------ee-eCCCccchhHHHHHH---hc--CCCCcEEE
Confidence 777666644 5778999999999999999988887764221 22 1221 111112222 22 34688988
Q ss_pred EeecCcccccccc
Q 004358 598 SVARGKVAEGIDF 610 (759)
Q Consensus 598 gv~~G~~~EGiDf 610 (759)
|+. -...|.|+
T Consensus 480 ATN--MAGRGTDI 490 (870)
T CHL00122 480 ATN--MAGRGTDI 490 (870)
T ss_pred ecc--ccCCCcCe
Confidence 873 56789887
No 151
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=94.85 E-value=0.2 Score=59.54 Aligned_cols=140 Identities=16% Similarity=0.187 Sum_probs=79.5
Q ss_pred ccccHHHhhccCEEEEecCCCCCCc-chhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~~-~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..++.+--|+||..... .|.+.-|++-+. +|.+. |..-.+-++. -| +...+-+.+
T Consensus 364 sIT~QnfFr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~-------IPTnk--P~~R~d~~d~-----vy--~t~~~K~~A 427 (939)
T PRK12902 364 SITYQNFFLLYPKLAGMTGTAKTEEVEFEKTYKLEVTV-------IPTNR--PRRRQDWPDQ-----VY--KTEIAKWRA 427 (939)
T ss_pred eeeHHHHHhhCchhcccCCCCHHHHHHHHHHhCCcEEE-------cCCCC--CeeeecCCCe-----EE--cCHHHHHHH
Confidence 3456888888899999999986543 455555654321 11111 1111111111 12 223344566
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeC-CCchhHHHHHHHHHHhccCCCCeEEEE
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVFFS 598 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~-~~~~~~~~~l~~f~~~~~~~~~aiL~g 598 (759)
+.+.+.++. ..+..+||-..|-+.=+.+...+...|+-.+ |+--. .+...-..++. ++ +..|+|-+|
T Consensus 428 i~~ei~~~~-~~GrPVLIgT~SVe~SE~ls~~L~~~gi~h~------vLNAk~~~~~~EA~IIa---~A--G~~GaVTIA 495 (939)
T PRK12902 428 VANETAEMH-KQGRPVLVGTTSVEKSELLSALLQEQGIPHN------LLNAKPENVEREAEIVA---QA--GRKGAVTIA 495 (939)
T ss_pred HHHHHHHHH-hCCCCEEEeeCCHHHHHHHHHHHHHcCCchh------eeeCCCcchHhHHHHHH---hc--CCCCcEEEe
Confidence 777676654 4688999999999999999999988765332 22111 11111111222 22 346888887
Q ss_pred eecCcccccccc
Q 004358 599 VARGKVAEGIDF 610 (759)
Q Consensus 599 v~~G~~~EGiDf 610 (759)
+. -.-.|-|+
T Consensus 496 TN--MAGRGTDI 505 (939)
T PRK12902 496 TN--MAGRGTDI 505 (939)
T ss_pred cc--CCCCCcCE
Confidence 72 45688887
No 152
>PRK13766 Hef nuclease; Provisional
Probab=94.71 E-value=0.35 Score=58.86 Aligned_cols=91 Identities=24% Similarity=0.309 Sum_probs=63.6
Q ss_pred HHHHHHHHHhhc-ccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCC---------CchhHHHHHHHHHHh
Q 004358 518 RNYGKLLVEMVS-IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ---------DVVETTLALDNYRKA 587 (759)
Q Consensus 518 ~~~~~~l~~~~~-~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~---------~~~~~~~~l~~f~~~ 587 (759)
+.+.+.|.++.. ..++.+|||+.+....+.+.+.+...++ +...+.++ ...+...++++|+.
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 556666666654 3567899999999999999998865442 22223232 11245567888886
Q ss_pred ccCCCCeEEEEeecCccccccccCCCCceEEEEEcc
Q 004358 588 CDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGV 623 (759)
Q Consensus 588 ~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~gl 623 (759)
++..||+++. -.+||+|++ .++.||+...
T Consensus 422 ---g~~~vLvaT~--~~~eGldi~--~~~~VI~yd~ 450 (773)
T PRK13766 422 ---GEFNVLVSTS--VAEEGLDIP--SVDLVIFYEP 450 (773)
T ss_pred ---CCCCEEEECC--hhhcCCCcc--cCCEEEEeCC
Confidence 5678999885 688999997 5888888764
No 153
>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=94.50 E-value=0.5 Score=51.70 Aligned_cols=82 Identities=12% Similarity=0.133 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHhhcc-cCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCe
Q 004358 516 VARNYGKLLVEMVSI-VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGA 594 (759)
Q Consensus 516 ~~~~~~~~l~~~~~~-~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~a 594 (759)
....+.+.+.+..+. .++.+||||++....+.++..+++.+. ..+.....+.. .. .. +-+ .++..
T Consensus 255 ~l~~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l~~~L~~~~~-----~~~~~~l~g~~-~~-~~---R~~----~~~~~ 320 (357)
T TIGR03158 255 ELSELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQQGL-----GDDIGRITGFA-PK-KD---RER----AMQFD 320 (357)
T ss_pred HHHHHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHhhhCC-----CceEEeeecCC-CH-HH---HHH----hccCC
Confidence 345555656555543 446899999999999999998876421 01111111211 11 11 111 13557
Q ss_pred EEEEeecCccccccccCCC
Q 004358 595 VFFSVARGKVAEGIDFDRH 613 (759)
Q Consensus 595 iL~gv~~G~~~EGiDf~~~ 613 (759)
||+|+. -+..|||++++
T Consensus 321 iLVaTd--v~~rGiDi~~~ 337 (357)
T TIGR03158 321 ILLGTS--TVDVGVDFKRD 337 (357)
T ss_pred EEEEec--HHhcccCCCCc
Confidence 898874 89999999975
No 154
>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=94.50 E-value=0.085 Score=53.02 Aligned_cols=68 Identities=18% Similarity=0.250 Sum_probs=55.1
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+||.|.+++.++.+. ..+++.+...-+|-|||-+ ++|.+++..+. +. +++...=-++|.+|..+.|+.
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 599999999999865 5678999999999999965 67988888765 45 666666667888888887664
No 155
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=94.17 E-value=0.37 Score=55.80 Aligned_cols=85 Identities=14% Similarity=0.096 Sum_probs=59.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHH--HHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLS--LITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 14 y~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~--~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
|...+|.|++=.+=+.+--.++.-+|+-=-.|-|||+-.++ ++|.+.. ...+ +++|.+|+ +.+.|.++|+.+.
T Consensus 203 ~~~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~--k~~~-paLIVCP~-Tii~qW~~E~~~w- 277 (923)
T KOG0387|consen 203 WSKLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSG--KLTK-PALIVCPA-TIIHQWMKEFQTW- 277 (923)
T ss_pred HHHhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcc--cccC-ceEEEccH-HHHHHHHHHHHHh-
Confidence 34467889998888888888888899999999999984322 3343331 1124 45555553 3568999999997
Q ss_pred hhcccCCCCccceEEEeecCC
Q 004358 92 NYQTRHLGPAAKILAIGLSSR 112 (759)
Q Consensus 92 ~~~~~~~g~~~~~~~~~l~gr 112 (759)
..++++.++.|-
T Consensus 278 ---------~p~~rv~ilh~t 289 (923)
T KOG0387|consen 278 ---------WPPFRVFILHGT 289 (923)
T ss_pred ---------CcceEEEEEecC
Confidence 346787777654
No 156
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.12 E-value=0.28 Score=53.64 Aligned_cols=67 Identities=21% Similarity=0.200 Sum_probs=43.3
Q ss_pred CHHHHHHHHHHHHHHHh-CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 18 YPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~-~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
-|-|++...=....=+. =.-+++--..|.|||+-.+.-.|+ ..++. +.++..||.++. |..+|+.+.
T Consensus 186 L~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLlla----e~~ra-~tLVvaP~VAlm-QW~nEI~~~ 253 (791)
T KOG1002|consen 186 LPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLA----EVDRA-PTLVVAPTVALM-QWKNEIERH 253 (791)
T ss_pred hhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHh----ccccC-CeeEEccHHHHH-HHHHHHHHh
Confidence 46677765433221111 124566667899999876655444 23455 788999999975 888898875
No 157
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=94.10 E-value=0.11 Score=60.94 Aligned_cols=75 Identities=15% Similarity=0.224 Sum_probs=60.8
Q ss_pred CeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHH
Q 004358 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 7 ~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
.--..|||++ =+-|++.+ -+|.+|..+++-|+|-.|||+.+=.++ +.+.++ +. |.||.||-+++-.|=++|
T Consensus 289 e~a~~~pFel-D~FQk~Ai----~~lerg~SVFVAAHTSAGKTvVAEYAi-alaq~h--~T-R~iYTSPIKALSNQKfRD 359 (1248)
T KOG0947|consen 289 EMALIYPFEL-DTFQKEAI----YHLERGDSVFVAAHTSAGKTVVAEYAI-ALAQKH--MT-RTIYTSPIKALSNQKFRD 359 (1248)
T ss_pred hHHhhCCCCc-cHHHHHHH----HHHHcCCeEEEEecCCCCcchHHHHHH-HHHHhh--cc-ceEecchhhhhccchHHH
Confidence 3345799996 79999877 677799999999999999999776543 333333 45 999999999999999999
Q ss_pred HHhh
Q 004358 87 LKLL 90 (759)
Q Consensus 87 l~~l 90 (759)
++..
T Consensus 360 Fk~t 363 (1248)
T KOG0947|consen 360 FKET 363 (1248)
T ss_pred HHHh
Confidence 9875
No 158
>PRK09694 helicase Cas3; Provisional
Probab=93.98 E-value=1.2 Score=54.17 Aligned_cols=101 Identities=13% Similarity=0.169 Sum_probs=62.8
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCc-hhH----HHHHHHHHHhccCCCCeEEEEeecCccc
Q 004358 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VET----TLALDNYRKACDCGRGAVFFSVARGKVA 605 (759)
Q Consensus 531 ~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~-~~~----~~~l~~f~~~~~~~~~aiL~gv~~G~~~ 605 (759)
.++.+|||+++-+..+.+++.+++.+. ...+..++-++-. .++ ..+++.|.+.-...++.||+++. -+-
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 456789999999999999999875421 0113344444422 122 34577774421111257999885 789
Q ss_pred cccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCC
Q 004358 606 EGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA 672 (759)
Q Consensus 606 EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~ 672 (759)
.|+|+. ...+|..-.| +-.+.|.+||+-||..
T Consensus 633 ~GLDId---~DvlItdlaP--------------------------------idsLiQRaGR~~R~~~ 664 (878)
T PRK09694 633 QSLDLD---FDWLITQLCP--------------------------------VDLLFQRLGRLHRHHR 664 (878)
T ss_pred heeecC---CCeEEECCCC--------------------------------HHHHHHHHhccCCCCC
Confidence 999995 3334432111 1256799999999976
No 159
>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=93.96 E-value=0.099 Score=54.58 Aligned_cols=36 Identities=25% Similarity=0.161 Sum_probs=32.7
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHH
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL 53 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L 53 (759)
.|..+++.+.+..++..+.++++++|+|||||...-
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 688899999999999999999999999999998543
No 160
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=93.96 E-value=0.66 Score=55.90 Aligned_cols=156 Identities=13% Similarity=0.156 Sum_probs=90.6
Q ss_pred ccccHHHhhccCEEEEecCCCCCC-cchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~-~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..++.+--|.||.... +.|...-+++-+. +|.+. |.+-.+-++. -| ....+-..+
T Consensus 523 tIT~QnfFr~Y~kLaGMTGTA~te~~Ef~~iY~L~Vv~-------IPTnr--P~~R~D~~d~-----vy--~t~~eK~~A 586 (1025)
T PRK12900 523 TITIQNFFRLYKKLAGMTGTAETEASEFFEIYKLDVVV-------IPTNK--PIVRKDMDDL-----VY--KTRREKYNA 586 (1025)
T ss_pred eeeHHHHHHhchhhcccCCCChhHHHHHHHHhCCcEEE-------CCCCC--CcceecCCCe-----Ee--cCHHHHHHH
Confidence 345577888888888888888654 2455555554221 11111 1111111111 12 223333455
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv 599 (759)
+.+.|.+.. ..+..+|||++|-...+.+...+...++- +. ++ -.+ ....+..+-.|+. +.|+|++|+
T Consensus 587 li~~I~~~~-~~grpVLIft~Sve~sE~Ls~~L~~~gI~-----h~-vL-nak-q~~REa~Iia~AG----~~g~VtIAT 653 (1025)
T PRK12900 587 IVLKVEELQ-KKGQPVLVGTASVEVSETLSRMLRAKRIA-----HN-VL-NAK-QHDREAEIVAEAG----QKGAVTIAT 653 (1025)
T ss_pred HHHHHHHHh-hCCCCEEEEeCcHHHHHHHHHHHHHcCCC-----ce-ee-cCC-HHHhHHHHHHhcC----CCCeEEEec
Confidence 666555544 46789999999999999999988876542 11 22 122 2344555555554 689999988
Q ss_pred ecCccccccccCC-CCce---EEEEEccCCCC
Q 004358 600 ARGKVAEGIDFDR-HYGR---LVIMFGVPFQY 627 (759)
Q Consensus 600 ~~G~~~EGiDf~~-~~~r---~vii~glPfp~ 627 (759)
. -...|+|++- +... +++++|.+.|.
T Consensus 654 N--MAGRGtDIkl~~~V~~vGGL~VIgterhe 683 (1025)
T PRK12900 654 N--MAGRGTDIKLGEGVRELGGLFILGSERHE 683 (1025)
T ss_pred c--CcCCCCCcCCccchhhhCCceeeCCCCCc
Confidence 3 6789999982 2222 34777877654
No 161
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=93.90 E-value=0.15 Score=58.83 Aligned_cols=89 Identities=20% Similarity=0.308 Sum_probs=60.1
Q ss_pred CEEEEecCCCCCCcchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhccc
Q 004358 452 QSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIV 531 (759)
Q Consensus 452 ~svIltSgTL~p~~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~ 531 (759)
=..|+|||||...++-....-|+ +. .| +|.-..++.+++--|..|...+|+..-.+....+.+..
T Consensus 415 LKLIIMSATLRVsDFtenk~LFp--------i~------pP-likVdARQfPVsIHF~krT~~DYi~eAfrKtc~IH~kL 479 (1172)
T KOG0926|consen 415 LKLIIMSATLRVSDFTENKRLFP--------IP------PP-LIKVDARQFPVSIHFNKRTPDDYIAEAFRKTCKIHKKL 479 (1172)
T ss_pred eeEEEEeeeEEecccccCceecC--------CC------Cc-eeeeecccCceEEEeccCCCchHHHHHHHHHHHHhhcC
Confidence 46899999999865432222121 11 11 11112456778888888877777666556666666655
Q ss_pred -CCcEEEEecCHHHHHHHHHHHhhc
Q 004358 532 -PDGIVCFFVSYSYMDEIIATWNDS 555 (759)
Q Consensus 532 -~gg~lv~f~Sy~~l~~~~~~~~~~ 555 (759)
|||+|||.|--...+++.+.+++.
T Consensus 480 P~G~ILVFvTGQqEV~qL~~kLRK~ 504 (1172)
T KOG0926|consen 480 PPGGILVFVTGQQEVDQLCEKLRKR 504 (1172)
T ss_pred CCCcEEEEEeChHHHHHHHHHHHhh
Confidence 499999999999999999888764
No 162
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=93.86 E-value=0.23 Score=58.50 Aligned_cols=121 Identities=18% Similarity=0.314 Sum_probs=75.6
Q ss_pred HHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeC-CCchhHHHHHHHHHHhccCCCCeEEE
Q 004358 519 NYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVFF 597 (759)
Q Consensus 519 ~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~-~~~~~~~~~l~~f~~~~~~~~~aiL~ 597 (759)
.+.+.|.+.. ..+..++||+++-+..+.+.+.+.+.|+ +..++.+ .+..++...++.|+. |+-.||+
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 3333343332 3456799999999999999999887653 2233323 233456777888875 5556666
Q ss_pred EeecCccccccccCCCCceEEEEEcc-CCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeE
Q 004358 598 SVARGKVAEGIDFDRHYGRLVIMFGV-PFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGM 676 (759)
Q Consensus 598 gv~~G~~~EGiDf~~~~~r~vii~gl-Pfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~ 676 (759)
|+ |.+++|+|+|+ .+.||+..- .|-.|. ....+.|.+||.-|..+-. +
T Consensus 498 ~t--~~L~rGfDiP~--v~lVvi~DadifG~p~--------------------------~~~~~iqriGRagR~~~G~-v 546 (655)
T TIGR00631 498 GI--NLLREGLDLPE--VSLVAILDADKEGFLR--------------------------SERSLIQTIGRAARNVNGK-V 546 (655)
T ss_pred Ec--ChhcCCeeeCC--CcEEEEeCcccccCCC--------------------------CHHHHHHHhcCCCCCCCCE-E
Confidence 55 79999999998 455666541 000011 1123469999999985432 4
Q ss_pred EEEeec
Q 004358 677 MIFADK 682 (759)
Q Consensus 677 iillD~ 682 (759)
++++|.
T Consensus 547 i~~~~~ 552 (655)
T TIGR00631 547 IMYADK 552 (655)
T ss_pred EEEEcC
Confidence 555564
No 163
>PHA02244 ATPase-like protein
Probab=93.82 E-value=0.13 Score=55.47 Aligned_cols=49 Identities=12% Similarity=0.044 Sum_probs=37.6
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004358 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV 60 (759)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~ 60 (759)
+.|||...-|........+.+.+..+.++++.+|||||||.. +-++++.
T Consensus 94 ~d~~~ig~sp~~~~~~~ri~r~l~~~~PVLL~GppGtGKTtL--A~aLA~~ 142 (383)
T PHA02244 94 IDTTKIASNPTFHYETADIAKIVNANIPVFLKGGAGSGKNHI--AEQIAEA 142 (383)
T ss_pred CCCcccCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHH--HHHHHHH
Confidence 457776556777667778889999999999999999999963 4445544
No 164
>PRK08181 transposase; Validated
Probab=93.57 E-value=0.2 Score=52.35 Aligned_cols=53 Identities=17% Similarity=0.150 Sum_probs=33.7
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
-+.|........+.++++.++++-+|+|||||.- +.+++..... .+. +|+|.+
T Consensus 89 ~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHL--a~Aia~~a~~-~g~-~v~f~~ 141 (269)
T PRK08181 89 SKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHL--AAAIGLALIE-NGW-RVLFTR 141 (269)
T ss_pred CHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHH--HHHHHHHHHH-cCC-ceeeee
Confidence 3556655544445677788999999999999963 3333332111 244 787775
No 165
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=93.33 E-value=0.46 Score=55.02 Aligned_cols=100 Identities=17% Similarity=0.233 Sum_probs=57.1
Q ss_pred HHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCc-hhHHHHHHHHHHhccCCCCeE
Q 004358 517 ARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VETTLALDNYRKACDCGRGAV 595 (759)
Q Consensus 517 ~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~-~~~~~~l~~f~~~~~~~~~ai 595 (759)
++.++.+|-++. ..|--+++|+=+..|-.+.+..-.. .+.+-+=..+... ..+..++++|... ..--..
T Consensus 763 ~r~L~~LLp~~k--~~G~RVLiFSQFTqmLDILE~~L~~------l~~~ylRLDGsTqV~~RQ~lId~Fn~d--~difVF 832 (941)
T KOG0389|consen 763 CRKLKELLPKIK--KKGDRVLIFSQFTQMLDILEVVLDT------LGYKYLRLDGSTQVNDRQDLIDEFNTD--KDIFVF 832 (941)
T ss_pred HhHHHHHHHHHh--hcCCEEEEeeHHHHHHHHHHHHHHh------cCceEEeecCCccchHHHHHHHhhccC--CceEEE
Confidence 355555554443 2345567778888887777755432 2223222333332 3467789999763 222345
Q ss_pred EEEeecCccccccccCCCCceEEEEEccCCCCcCC
Q 004358 596 FFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLS 630 (759)
Q Consensus 596 L~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~d 630 (759)
|+++--| .=||++.. +-.|||--+-|-|.+|
T Consensus 833 LLSTKAG--G~GINLt~--An~VIihD~dFNP~dD 863 (941)
T KOG0389|consen 833 LLSTKAG--GFGINLTC--ANTVIIHDIDFNPYDD 863 (941)
T ss_pred EEeeccC--cceecccc--cceEEEeecCCCCccc
Confidence 5555433 24777764 6679999998855444
No 166
>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=93.27 E-value=0.31 Score=58.93 Aligned_cols=87 Identities=16% Similarity=0.054 Sum_probs=50.3
Q ss_pred CCHHHHHHHHHHHHHHHh----CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhh
Q 004358 17 IYPEQYSYMLELKRALDA----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~----~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~ 92 (759)
.+.-|-...+.+...-++ |-.++==|.||+|||+|=. =+.|+.+.+..++|+.|+-.=.+|.-|.=.+++.-+
T Consensus 409 rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNA--RImyaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL- 485 (1110)
T TIGR02562 409 RFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANA--RAMYALRDDKQGARFAIALGLRSLTLQTGHALKTRL- 485 (1110)
T ss_pred CcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHH--HHHHHhCCCCCCceEEEEccccceeccchHHHHHhc-
Confidence 356677666554442222 2245556999999999843 355555554444588888655555445555666532
Q ss_pred hcccCCCCccceEEEeecCC
Q 004358 93 YQTRHLGPAAKILAIGLSSR 112 (759)
Q Consensus 93 ~~~~~~g~~~~~~~~~l~gr 112 (759)
|++.+=-+|+++|.
T Consensus 486 ------~L~~ddLAVlIGs~ 499 (1110)
T TIGR02562 486 ------NLSDDDLAVLIGGT 499 (1110)
T ss_pred ------CCCccceEEEECHH
Confidence 23333346667665
No 167
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=93.24 E-value=0.45 Score=57.17 Aligned_cols=98 Identities=13% Similarity=0.191 Sum_probs=62.0
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCc-hhHHHHHHHHHHhccCCCCeEEEEeecCccccccc
Q 004358 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 609 (759)
Q Consensus 531 ~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~-~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiD 609 (759)
.++.+||.+++-.....+++.++..+. +.+++-++-. ..+....++.++.+..+.+.|++|++ -.--|+|
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 457899999999999999999887532 3455555432 23344444444322335677888875 4445666
Q ss_pred cCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCC
Q 004358 610 FDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA 672 (759)
Q Consensus 610 f~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~ 672 (759)
+.=|.+ |+ .+.-+..+.|++|||-||..
T Consensus 510 idfd~m----IT-------------------------------e~aPidSLIQR~GRv~R~g~ 537 (733)
T COG1203 510 IDFDVL----IT-------------------------------ELAPIDSLIQRAGRVNRHGK 537 (733)
T ss_pred cccCee----ee-------------------------------cCCCHHHHHHHHHHHhhccc
Confidence 543221 11 11236778899999999993
No 168
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=93.24 E-value=0.36 Score=51.23 Aligned_cols=77 Identities=21% Similarity=0.355 Sum_probs=59.5
Q ss_pred HHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEe-CCCchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004358 523 LLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIE-TQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (759)
Q Consensus 523 ~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E-~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~ 601 (759)
++++..+.++-.+|+|.-.......+++++.-.|. ..+-+. ++|..+++..++.|+. |+.-||+|+.
T Consensus 412 ylLeCLQKT~PpVLIFaEkK~DVD~IhEYLLlKGV-------EavaIHGGKDQedR~~ai~afr~----gkKDVLVATD- 479 (610)
T KOG0341|consen 412 YLLECLQKTSPPVLIFAEKKADVDDIHEYLLLKGV-------EAVAIHGGKDQEDRHYAIEAFRA----GKKDVLVATD- 479 (610)
T ss_pred hHHHHhccCCCceEEEeccccChHHHHHHHHHccc-------eeEEeecCcchhHHHHHHHHHhc----CCCceEEEec-
Confidence 35677778889999999999999999998753332 123333 4566678889999997 6888999884
Q ss_pred CccccccccCC
Q 004358 602 GKVAEGIDFDR 612 (759)
Q Consensus 602 G~~~EGiDf~~ 612 (759)
-.|.|+|||+
T Consensus 480 -VASKGLDFp~ 489 (610)
T KOG0341|consen 480 -VASKGLDFPD 489 (610)
T ss_pred -chhccCCCcc
Confidence 7899999998
No 169
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=93.11 E-value=0.18 Score=54.47 Aligned_cols=57 Identities=33% Similarity=0.346 Sum_probs=43.2
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhh
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l 79 (759)
+-++.+.+..+..++..++|+++|+|+|||||. |+-+++.... .++..|-||+...-
T Consensus 26 ~~g~~~~~~~~l~a~~~~~~vll~G~PG~gKT~--la~~lA~~l~---~~~~~i~~t~~l~p 82 (329)
T COG0714 26 VVGDEEVIELALLALLAGGHVLLEGPPGVGKTL--LARALARALG---LPFVRIQCTPDLLP 82 (329)
T ss_pred eeccHHHHHHHHHHHHcCCCEEEECCCCccHHH--HHHHHHHHhC---CCeEEEecCCCCCH
Confidence 345889999999999999999999999999997 4555655432 24366667766543
No 170
>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=93.05 E-value=0.21 Score=45.94 Aligned_cols=32 Identities=38% Similarity=0.407 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHH
Q 004358 20 EQYSYMLELKRALDA--KGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~--~~~~liEaPTGtGKTla 51 (759)
+|.+....+...+.. +.++++-+|+|+|||..
T Consensus 2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l 35 (151)
T cd00009 2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTTL 35 (151)
T ss_pred chHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHH
Confidence 566777888888877 67999999999999963
No 171
>PRK13531 regulatory ATPase RavA; Provisional
Probab=92.93 E-value=0.087 Score=58.87 Aligned_cols=34 Identities=18% Similarity=0.051 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHH
Q 004358 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~ 52 (759)
.+|.+.++.+..++..++|+++++|+|||||...
T Consensus 23 ~gre~vI~lll~aalag~hVLL~GpPGTGKT~LA 56 (498)
T PRK13531 23 YERSHAIRLCLLAALSGESVFLLGPPGIAKSLIA 56 (498)
T ss_pred cCcHHHHHHHHHHHccCCCEEEECCCChhHHHHH
Confidence 4688899999999999999999999999999853
No 172
>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=92.88 E-value=0.18 Score=49.19 Aligned_cols=68 Identities=22% Similarity=0.321 Sum_probs=29.7
Q ss_pred CCCCCCCHHHHHHHHHHH--HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELK--RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~--~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
|.|...++.+.+.+..+. +.++++.++++-+|||||||....+-+-.... .+. +|.|.+- ..++++++
T Consensus 22 ~d~~~~~~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKThLa~ai~~~~~~---~g~-~v~f~~~-----~~L~~~l~ 91 (178)
T PF01695_consen 22 FDFSNERGIDKAQIAQLAALEFIENGENLILYGPPGTGKTHLAVAIANEAIR---KGY-SVLFITA-----SDLLDELK 91 (178)
T ss_dssp ------------HHHHHHHH-S-SC--EEEEEESTTSSHHHHHHHHHHHHHH---TT---EEEEEH-----HHHHHHHH
T ss_pred ccccchhhHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHHHHHHHHHHhcc---CCc-ceeEeec-----Cceecccc
Confidence 445444455555555542 23455679999999999999754333222222 245 7777643 33455554
No 173
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=92.65 E-value=0.46 Score=56.32 Aligned_cols=120 Identities=20% Similarity=0.322 Sum_probs=77.6
Q ss_pred HHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeC-CCchhHHHHHHHHHHhccCCCCeEEE
Q 004358 519 NYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVFF 597 (759)
Q Consensus 519 ~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~-~~~~~~~~~l~~f~~~~~~~~~aiL~ 597 (759)
.+.+.|.+.. ..+..++||+++....+.+.+.+.+.|+ +..++.+ .+..++...++.|+. |+-.|++
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 2456799999999999999998877643 2233322 333456777888875 4555666
Q ss_pred EeecCccccccccCCCCceEEEEEccCCCC-cCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCee-
Q 004358 598 SVARGKVAEGIDFDRHYGRLVIMFGVPFQY-TLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYG- 675 (759)
Q Consensus 598 gv~~G~~~EGiDf~~~~~r~vii~glPfp~-~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g- 675 (759)
|+ |.+++|+|+|+ .+.||+...+... |.+ .....|.+||.=|..+ |
T Consensus 502 ~t--~~L~rGfdlp~--v~lVii~d~eifG~~~~--------------------------~~~yiqr~GR~gR~~~--G~ 549 (652)
T PRK05298 502 GI--NLLREGLDIPE--VSLVAILDADKEGFLRS--------------------------ERSLIQTIGRAARNVN--GK 549 (652)
T ss_pred Ee--CHHhCCccccC--CcEEEEeCCcccccCCC--------------------------HHHHHHHhccccCCCC--CE
Confidence 55 79999999997 4578887765321 111 1224689999999743 5
Q ss_pred EEEEeec
Q 004358 676 MMIFADK 682 (759)
Q Consensus 676 ~iillD~ 682 (759)
+|.++|.
T Consensus 550 ~i~~~~~ 556 (652)
T PRK05298 550 VILYADK 556 (652)
T ss_pred EEEEecC
Confidence 4556663
No 174
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=92.57 E-value=0.29 Score=52.50 Aligned_cols=50 Identities=22% Similarity=0.244 Sum_probs=30.8
Q ss_pred HHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccch
Q 004358 26 LELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (759)
Q Consensus 26 ~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~ 77 (759)
+.+..++..+++++|-+|||+||| .++-+.+.+....+... ++++.-.+.
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 344556677899999999999999 44444443322222234 666544333
No 175
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=92.33 E-value=1.8 Score=52.04 Aligned_cols=192 Identities=19% Similarity=0.175 Sum_probs=108.3
Q ss_pred CEEEEecCCCCCCcchhhhhCCCCcc-cccceeeccCCceeeEEeecCCCCCcceeccc-cCCChH-HHHHHHHHHHHhh
Q 004358 452 QSVVITSGTLSPIDLYPRLLNFHPVV-SRSFKMSLTRDCICPMVLTRGSDQLPVSTKFD-MRSDPG-VARNYGKLLVEMV 528 (759)
Q Consensus 452 ~svIltSgTL~p~~~f~~~lg~~~~~-~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~-~r~~~~-~~~~~~~~l~~~~ 528 (759)
-.+|-.||||......+..|+.++.. -.+|... +.|..++.+. +..++. ++.+.. +-....+.+.+.+
T Consensus 276 IRivgLSATlPN~eDvA~fL~vn~~~glfsFd~~-----yRPvpL~~~~----iG~k~~~~~~~~~~~d~~~~~kv~e~~ 346 (1230)
T KOG0952|consen 276 IRIVGLSATLPNYEDVARFLRVNPYAGLFSFDQR-----YRPVPLTQGF----IGIKGKKNRQQKKNIDEVCYDKVVEFL 346 (1230)
T ss_pred eEEEEeeccCCCHHHHHHHhcCCCccceeeeccc-----ccccceeeeE----EeeecccchhhhhhHHHHHHHHHHHHH
Confidence 46899999998888888888877421 1112111 1122111111 111111 122221 2223334444544
Q ss_pred cccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhH-------------------HHHHHHHHHhcc
Q 004358 529 SIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVET-------------------TLALDNYRKACD 589 (759)
Q Consensus 529 ~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~-------------------~~~l~~f~~~~~ 589 (759)
.-+..++||.+|...--+.++.+.+... ....+..|+-++-.... ..+.++. +.
T Consensus 347 -~~g~qVlvFvhsR~~Ti~tA~~l~~~a~---~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~E~~---F~ 419 (1230)
T KOG0952|consen 347 -QEGHQVLVFVHSRNETIRTAKKLRERAE---TNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVEKE---FK 419 (1230)
T ss_pred -HcCCeEEEEEecChHHHHHHHHHHHHHH---hcCcccccCCChhhHHHHHHHHhhhhhcccccchhhHHHHHHH---Hh
Confidence 3456899999999988888877765432 12234444433211100 1112211 12
Q ss_pred CCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccc
Q 004358 590 CGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIR 669 (759)
Q Consensus 590 ~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR 669 (759)
.|.-.||++++ .++=||++|. -+|||=|-|+-.+ +++ .+.++ .+.-|-|-+||.=|
T Consensus 420 ~G~i~vL~cTa--TLAwGVNLPA---~aViIKGT~~yds-------------skg--~f~dl----gilDVlQifGRAGR 475 (1230)
T KOG0952|consen 420 EGHIKVLCCTA--TLAWGVNLPA---YAVIIKGTQVYDS-------------SKG--SFVDL----GILDVLQIFGRAGR 475 (1230)
T ss_pred cCCceEEEecc--eeeeccCCcc---eEEEecCCccccc-------------ccC--ceeee----hHHHHHHHHhccCC
Confidence 35567888775 8999999997 5699999776432 121 12232 56778899999999
Q ss_pred cC-CCeeEEEEeecc
Q 004358 670 SK-ADYGMMIFADKR 683 (759)
Q Consensus 670 ~~-~D~g~iillD~R 683 (759)
-. ++.|+.+|+=.|
T Consensus 476 PqFd~~G~giIiTt~ 490 (1230)
T KOG0952|consen 476 PQFDSSGEGIIITTR 490 (1230)
T ss_pred CCCCCCceEEEEecc
Confidence 87 567888776555
No 176
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=92.31 E-value=0.56 Score=51.30 Aligned_cols=71 Identities=14% Similarity=0.103 Sum_probs=46.2
Q ss_pred CHHHHHHHHHHHHHHHhC---CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 18 YPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~---~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
|..|.+-+..+....-.+ .+++|-+|||||||...-.-+=......+... -+.|=+..+...-|++.++-+
T Consensus 22 Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~~ 95 (366)
T COG1474 22 REEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKILN 95 (366)
T ss_pred cHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHHH
Confidence 889988777666655444 47999999999999876654322222221111 356667777777788776543
No 177
>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=92.24 E-value=1 Score=46.82 Aligned_cols=71 Identities=21% Similarity=0.197 Sum_probs=48.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
..+.| |+.|.--+-. |.+|. ++|..||=|||+...+|+...+. .|+ +|-|.|.+--|.++=.+++..+-
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 LGLRP-YDVQLLGALA----LHKGR--LAEMKTGEGKTLIAALPAALNAL---QGK-GVHVVTSNDYLAKRDAEEMRPFY 142 (266)
T ss_dssp TS-----HHHHHHHHH----HHTTS--EEEESTTSHHHHHHHHHHHHHHT---TSS--EEEEESSHHHHHHHHHHHHHHH
T ss_pred cCCcc-cHHHHhhhhh----cccce--eEEecCCCCcHHHHHHHHHHHHH---hcC-CcEEEeccHHHhhccHHHHHHHH
Confidence 44553 7777665533 33343 89999999999988887766554 256 89999999999988888877765
Q ss_pred hh
Q 004358 92 NY 93 (759)
Q Consensus 92 ~~ 93 (759)
..
T Consensus 143 ~~ 144 (266)
T PF07517_consen 143 EF 144 (266)
T ss_dssp HH
T ss_pred HH
Confidence 43
No 178
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.22 E-value=1.6 Score=47.90 Aligned_cols=92 Identities=16% Similarity=0.287 Sum_probs=59.1
Q ss_pred HHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEE-eCCCc-hhHHHHHHHHHHhccCCCCeEEEEe
Q 004358 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFI-ETQDV-VETTLALDNYRKACDCGRGAVFFSV 599 (759)
Q Consensus 522 ~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~-E~~~~-~~~~~~l~~f~~~~~~~~~aiL~gv 599 (759)
.++.-+....-..++||||+=...+-+...+.. +.....+|. .++-. ..+...++.|++. ..++||+.
T Consensus 245 ~lv~~L~~~~~kK~iVFF~TCasVeYf~~~~~~------~l~~~~i~~iHGK~~q~~R~k~~~~F~~~----~~~vl~~T 314 (567)
T KOG0345|consen 245 QLVHLLNNNKDKKCIVFFPTCASVEYFGKLFSR------LLKKREIFSIHGKMSQKARAKVLEAFRKL----SNGVLFCT 314 (567)
T ss_pred HHHHHHhccccccEEEEecCcchHHHHHHHHHH------HhCCCcEEEecchhcchhHHHHHHHHHhc----cCceEEee
Confidence 333344456778999999998886655554432 323334443 33322 3477889999984 56899977
Q ss_pred ecCccccccccCCCCceEEEEEccCCCCcCCH
Q 004358 600 ARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSK 631 (759)
Q Consensus 600 ~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp 631 (759)
. -.+.|||+||- ..|| -|.+|.||
T Consensus 315 D--VaARGlDip~i--D~Vv----Q~DpP~~~ 338 (567)
T KOG0345|consen 315 D--VAARGLDIPGI--DLVV----QFDPPKDP 338 (567)
T ss_pred h--hhhccCCCCCc--eEEE----ecCCCCCh
Confidence 4 89999999993 3343 45555553
No 179
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=92.21 E-value=0.37 Score=49.97 Aligned_cols=51 Identities=20% Similarity=0.253 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 21 QYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 21 Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
+.+-+....+.+.+++++++-+|+|||||. |+.|++.... ..+. +|+|.|-
T Consensus 91 ~l~~~~~~~~~~~~~~nl~l~G~~G~GKTh--La~Ai~~~l~-~~g~-sv~f~~~ 141 (254)
T COG1484 91 ALEDLASLVEFFERGENLVLLGPPGVGKTH--LAIAIGNELL-KAGI-SVLFITA 141 (254)
T ss_pred HHHHHHHHHHHhccCCcEEEECCCCCcHHH--HHHHHHHHHH-HcCC-eEEEEEH
Confidence 333344445567778899999999999996 4555554333 2345 7777754
No 180
>PRK14873 primosome assembly protein PriA; Provisional
Probab=91.86 E-value=0.89 Score=53.65 Aligned_cols=49 Identities=10% Similarity=0.118 Sum_probs=39.2
Q ss_pred EEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 38 ~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.+..+.+|+|||-.||-.+-..+. .|+ .++|..+++++..|+++.++..
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 455566799999999987554443 267 8999999999999999988763
No 181
>PRK08939 primosomal protein DnaI; Reviewed
Probab=91.72 E-value=0.49 Score=50.45 Aligned_cols=51 Identities=18% Similarity=0.119 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHh------CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEE
Q 004358 19 PEQYSYMLELKRALDA------KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~------~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~ 73 (759)
+.+.+++..+.+.+.+ ++.+++-+|+|||||. |+.|++..... .+. +|.|.
T Consensus 134 ~~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKTh--La~Aia~~l~~-~g~-~v~~~ 190 (306)
T PRK08939 134 RDRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSY--LLAAIANELAK-KGV-SSTLL 190 (306)
T ss_pred hHHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHH--HHHHHHHHHHH-cCC-CEEEE
Confidence 3566666666665552 4579999999999996 44444433222 234 55555
No 182
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=91.57 E-value=0.45 Score=49.98 Aligned_cols=58 Identities=21% Similarity=0.189 Sum_probs=49.3
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~ 78 (759)
..|+|+.....+.+.+++.+..++-|=||.|||-- +.+++.++... |. +|-++||-..
T Consensus 98 Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEM-if~~i~~al~~--G~-~vciASPRvD 155 (441)
T COG4098 98 LSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEM-IFQGIEQALNQ--GG-RVCIASPRVD 155 (441)
T ss_pred cChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhh-hHHHHHHHHhc--CC-eEEEecCccc
Confidence 47999999999999999999999999999999975 56677777654 56 8999887553
No 183
>PRK06835 DNA replication protein DnaC; Validated
Probab=91.47 E-value=0.5 Score=50.87 Aligned_cols=54 Identities=22% Similarity=0.180 Sum_probs=31.5
Q ss_pred CHHHHHHHHHHHHHHH----hCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 18 YPEQYSYMLELKRALD----AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~----~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
|..+.++++.....++ .+.++++-+|||||||.-.. +++...-. .+. +|+|.|.
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 4444444443333333 35789999999999997433 33322211 245 7888764
No 184
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=91.42 E-value=0.36 Score=55.49 Aligned_cols=70 Identities=21% Similarity=0.291 Sum_probs=54.9
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
.|||.- =|-|.+.+ .++++++.+++-|-|-.|||..+=.+ ++.+. .++. ||||.+|-+++-.|=.+||..
T Consensus 125 ~YPF~L-DpFQ~~aI----~Cidr~eSVLVSAHTSAGKTVVAeYA-IA~sL--r~kQ-RVIYTSPIKALSNQKYREl~~ 194 (1041)
T KOG0948|consen 125 TYPFTL-DPFQSTAI----KCIDRGESVLVSAHTSAGKTVVAEYA-IAMSL--REKQ-RVIYTSPIKALSNQKYRELLE 194 (1041)
T ss_pred CCCccc-CchHhhhh----hhhcCCceEEEEeecCCCcchHHHHH-HHHHH--HhcC-eEEeeChhhhhcchhHHHHHH
Confidence 477773 67787766 78889999999999999999876554 33322 3457 999999999999998888654
No 185
>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=91.08 E-value=0.45 Score=48.14 Aligned_cols=63 Identities=21% Similarity=0.359 Sum_probs=33.9
Q ss_pred CCCCCCCHHH-HHHHHHHHHHHHhC-----CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 12 FPYDNIYPEQ-YSYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 12 FPy~~~r~~Q-~~~~~~v~~al~~~-----~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
|.|+.+-++. -+.+....+++.++ ..++|-+|+|+|||- +|.++.........+. +|+|.+..
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 4555432332 33344445555443 258999999999998 3444433333222245 89998754
No 186
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=90.88 E-value=0.59 Score=50.03 Aligned_cols=50 Identities=20% Similarity=0.333 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEE
Q 004358 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~ 73 (759)
+.|.++ +..++..+++++|.+|||+|||-. |-+.+.+....+... ||+..
T Consensus 131 ~~~~~~---L~~~v~~~~nilI~G~tGSGKTTl-l~aL~~~i~~~~~~~-rivti 180 (323)
T PRK13833 131 EAQASV---IRSAIDSRLNIVISGGTGSGKTTL-ANAVIAEIVASAPED-RLVIL 180 (323)
T ss_pred HHHHHH---HHHHHHcCCeEEEECCCCCCHHHH-HHHHHHHHhcCCCCc-eEEEe
Confidence 445544 455667788999999999999963 333333332222234 66653
No 187
>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=90.83 E-value=0.7 Score=49.13 Aligned_cols=50 Identities=18% Similarity=0.183 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 24 YMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 24 ~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
++..+..++..+++++|.+|||+|||-.+ -+.+.+....+... ||++.-.
T Consensus 121 ~~~~L~~~v~~~~~ilI~G~tGSGKTTll-~al~~~i~~~~~~~-ri~tiEd 170 (299)
T TIGR02782 121 QRDVLREAVLARKNILVVGGTGSGKTTLA-NALLAEIAKNDPTD-RVVIIED 170 (299)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHhhccCCCc-eEEEECC
Confidence 34455566777889999999999999743 33333332222234 6766533
No 188
>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=90.81 E-value=0.24 Score=49.05 Aligned_cols=33 Identities=36% Similarity=0.307 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla 51 (759)
.+|.+.-.++.-|...+.|+++.+|.|||||+.
T Consensus 6 ~GQe~aKrAL~iAAaG~h~lLl~GppGtGKTml 38 (206)
T PF01078_consen 6 VGQEEAKRALEIAAAGGHHLLLIGPPGTGKTML 38 (206)
T ss_dssp SSTHHHHHHHHHHHHCC--EEEES-CCCTHHHH
T ss_pred cCcHHHHHHHHHHHcCCCCeEEECCCCCCHHHH
Confidence 578888888888888889999999999999984
No 189
>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=90.69 E-value=0.46 Score=51.92 Aligned_cols=52 Identities=25% Similarity=0.260 Sum_probs=36.8
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
..++|++..|||||+.++.-+-... ....+. +++|.+.++++...+-+.+..
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~-~~~~~~-~~~~l~~n~~l~~~l~~~l~~ 53 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQ-NSEEGK-KVLYLCGNHPLRNKLREQLAK 53 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhh-ccccCC-ceEEEEecchHHHHHHHHHhh
Confidence 4689999999999997665433321 112345 899999999998776665543
No 190
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=90.61 E-value=1.1 Score=51.19 Aligned_cols=70 Identities=14% Similarity=0.014 Sum_probs=45.6
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
-+.|..=+.=+....++|-++|+--..|-|||.-.+ +.|+++....+--.+.+|.|+.-.+ .....|+.+
T Consensus 569 KEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsi-svlAhLaE~~nIwGPFLVVtpaStL-~NWaqEisr 638 (1185)
T KOG0388|consen 569 KEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSI-SVLAHLAETHNIWGPFLVVTPASTL-HNWAQEISR 638 (1185)
T ss_pred HHHhhccHHHHHHHHHccccceehhhhccchhHHHH-HHHHHHHHhccCCCceEEeehHHHH-hHHHHHHHH
Confidence 456777777777788889899999999999998654 4566655442211156666665443 344445544
No 191
>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=90.60 E-value=0.54 Score=51.61 Aligned_cols=57 Identities=23% Similarity=0.285 Sum_probs=41.2
Q ss_pred CHHHHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchh
Q 004358 18 YPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~--~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~ 78 (759)
-+.|++..+.|.+++.. +.+++|.+|-|||||..+=+ ...+.+. .++ +|+++.+|-.
T Consensus 3 n~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~-i~~~~~~--~~~-~~~~~a~tg~ 61 (364)
T PF05970_consen 3 NEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKA-IIDYLRS--RGK-KVLVTAPTGI 61 (364)
T ss_pred CHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHH-HHHHhcc--ccc-eEEEecchHH
Confidence 57899999999998854 46899999999999986533 2334332 234 6777777654
No 192
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=90.34 E-value=0.19 Score=55.01 Aligned_cols=41 Identities=22% Similarity=0.361 Sum_probs=30.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSL 55 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla~L~~ 55 (759)
-|-..+||.|..-+.++ +.+| ..++|--|.|.|||+.-..+
T Consensus 298 KPst~iRpYQEksL~KM---FGNgRARSGiIVLPCGAGKtLVGvTA 340 (776)
T KOG1123|consen 298 KPSTQIRPYQEKSLSKM---FGNGRARSGIIVLPCGAGKTLVGVTA 340 (776)
T ss_pred CcccccCchHHHHHHHH---hCCCcccCceEEEecCCCCceeeeee
Confidence 36666899999866554 4555 47899999999999865544
No 193
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=89.98 E-value=0.72 Score=49.78 Aligned_cols=45 Identities=24% Similarity=0.194 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEE
Q 004358 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIY 72 (759)
Q Consensus 23 ~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~ 72 (759)
.+..-+..++..+++++|.+|||+|||-. |-+.+.+. +... ||+.
T Consensus 148 ~~~~~L~~~v~~~~nili~G~tgSGKTTl-l~aL~~~i---p~~~-ri~t 192 (332)
T PRK13900 148 KIKEFLEHAVISKKNIIISGGTSTGKTTF-TNAALREI---PAIE-RLIT 192 (332)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHH-HHHHHhhC---CCCC-eEEE
Confidence 34555566777889999999999999964 33333332 3345 6655
No 194
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=89.78 E-value=2.4 Score=51.57 Aligned_cols=167 Identities=15% Similarity=0.169 Sum_probs=85.7
Q ss_pred CcccccHHHhhccC------EEEEecCCCCCCcchhhhh-CCCCcccccceeeccCCceeeEEeecCCCCCcceeccccC
Q 004358 439 DASLAVKPVFDRFQ------SVVITSGTLSPIDLYPRLL-NFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMR 511 (759)
Q Consensus 439 ~~s~~~~~l~~~~~------svIltSgTL~p~~~f~~~l-g~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r 511 (759)
+++..++.+...++ .+|++|||++....|..++ |.+.... ..-.-.+.....+++..-+.. ... .. .+
T Consensus 214 ~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np~e~~~~l~~~~f~~~--v~~~g~~~~~~~~~~~~p~~~-~~~-~~-~r 288 (851)
T COG1205 214 EVALLLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFGRDFEVP--VDEDGSPRGLRYFVRREPPIR-ELA-ES-IR 288 (851)
T ss_pred HHHHHHHHHHHHHhccCCCceEEEEeccccChHHHHHHhcCCcceee--ccCCCCCCCceEEEEeCCcch-hhh-hh-cc
Confidence 45566677665444 7999999999988777765 4332210 000000111111111110000 000 00 11
Q ss_pred CChHHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHH----HhhcccHHHHhcCceEEEeCCC--chhHHHHHHHHH
Q 004358 512 SDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIAT----WNDSGILKEIMQHKLVFIETQD--VVETTLALDNYR 585 (759)
Q Consensus 512 ~~~~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~----~~~~~~~~~l~~~k~if~E~~~--~~~~~~~l~~f~ 585 (759)
.+. ....+ .+...+-...-.+||||-|....+.++.. +...+ ..+.. .|-.-..+ ..++..+.+.++
T Consensus 289 ~s~--~~~~~-~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~--~~l~~--~v~~~~~~~~~~er~~ie~~~~ 361 (851)
T COG1205 289 RSA--LAELA-TLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREG--GKLLD--AVSTYRAGLHREERRRIEAEFK 361 (851)
T ss_pred cch--HHHHH-HHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcc--hhhhh--heeeccccCCHHHHHHHHHHHh
Confidence 121 22222 33333334566899999999999999733 22222 00100 11111111 123445556666
Q ss_pred HhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCC
Q 004358 586 KACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPF 625 (759)
Q Consensus 586 ~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPf 625 (759)
. |+..+++++. .+-=|||+-+ +-+||+.|+|-
T Consensus 362 ~----g~~~~~~st~--AlelgidiG~--ldavi~~g~P~ 393 (851)
T COG1205 362 E----GELLGVIATN--ALELGIDIGS--LDAVIAYGYPG 393 (851)
T ss_pred c----CCccEEecch--hhhhceeehh--hhhHhhcCCCC
Confidence 5 6777777764 7888999976 66789999885
No 195
>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=89.70 E-value=0.61 Score=47.34 Aligned_cols=52 Identities=21% Similarity=0.298 Sum_probs=31.3
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
.+...+|++|+|||||.-.+--+...++.. +. +++|.|-..+ -++++++++.
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~--ge-~vlyvs~ee~-~~~l~~~~~s 69 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNF--GE-KVLYVSFEEP-PEELIENMKS 69 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHH--T---EEEEESSS--HHHHHHHHHT
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhc--CC-cEEEEEecCC-HHHHHHHHHH
Confidence 346899999999999985554444444431 34 6666653333 2677776664
No 196
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=89.63 E-value=0.51 Score=49.10 Aligned_cols=36 Identities=39% Similarity=0.422 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSL 55 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla~L~~ 55 (759)
+|......+..++..+ -|.++-+|.|||||-+.++.
T Consensus 40 gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalaf 77 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAF 77 (346)
T ss_pred chHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHH
Confidence 6777777777787764 48999999999999887654
No 197
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=89.58 E-value=1.5 Score=51.19 Aligned_cols=74 Identities=16% Similarity=0.113 Sum_probs=45.2
Q ss_pred eCCCCC-CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 11 YFPYDN-IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 11 ~FPy~~-~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
.||... .-+.|++.+. .++ .++..+|-+|+|||||...-.-...+.+..+....+|.++++|..-...+-+.+.
T Consensus 146 lf~~~~~~~d~Qk~Av~---~a~-~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~ 220 (615)
T PRK10875 146 LFGPVTDEVDWQKVAAA---VAL-TRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLG 220 (615)
T ss_pred hcCcCCCCCHHHHHHHH---HHh-cCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence 465542 1367887543 333 3679999999999999754222111222111122389999999988777665443
No 198
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=89.56 E-value=0.27 Score=52.97 Aligned_cols=40 Identities=28% Similarity=0.315 Sum_probs=31.1
Q ss_pred eCCCCCCCHHHHHHHHHHHHHH-HhC-CcEEEEcCCCCcHHHH
Q 004358 11 YFPYDNIYPEQYSYMLELKRAL-DAK-GHCLLEMPTGTGKTIA 51 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al-~~~-~~~liEaPTGtGKTla 51 (759)
.|||.. -.+|.+....+.-++ ..+ +|+++++|+|||||..
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 456655 578999998877544 455 7999999999999964
No 199
>COG1204 Superfamily II helicase [General function prediction only]
Probab=89.52 E-value=2.8 Score=50.30 Aligned_cols=191 Identities=21% Similarity=0.182 Sum_probs=98.1
Q ss_pred EEEEecCCCCCCcchhhhhCCCCcccccceeeccCCcee-eEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhccc
Q 004358 453 SVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCIC-PMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIV 531 (759)
Q Consensus 453 svIltSgTL~p~~~f~~~lg~~~~~~~~~~~~~~~~~~~-~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~ 531 (759)
.+|-.||||...+.++..||-+.....-.+..+-+.... ..+.. .....+..+.-..+....+..-+-..
T Consensus 182 rivgLSATlpN~~evA~wL~a~~~~~~~rp~~l~~~v~~~~~~~~---------~~~~~k~~~~~~~~~~~~~v~~~~~~ 252 (766)
T COG1204 182 RIVGLSATLPNAEEVADWLNAKLVESDWRPVPLRRGVPYVGAFLG---------ADGKKKTWPLLIDNLALELVLESLAE 252 (766)
T ss_pred EEEEEeeecCCHHHHHHHhCCcccccCCCCcccccCCccceEEEE---------ecCccccccccchHHHHHHHHHHHhc
Confidence 678999999998999999987654211111111111000 00111 11111111111122222222233356
Q ss_pred CCcEEEEecCHHHHHHHHHHHhh---cccHHH-Hh----cCceEEE-eCCCc----------------------hhHHHH
Q 004358 532 PDGIVCFFVSYSYMDEIIATWND---SGILKE-IM----QHKLVFI-ETQDV----------------------VETTLA 580 (759)
Q Consensus 532 ~gg~lv~f~Sy~~l~~~~~~~~~---~~~~~~-l~----~~k~if~-E~~~~----------------------~~~~~~ 580 (759)
.|.+|||.+|.+.-..++..+.. ..+.+. .. ...++.. ++... ..+..+
T Consensus 253 ~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHhAGL~~~~R~~v 332 (766)
T COG1204 253 GGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPREDRQLV 332 (766)
T ss_pred CCeEEEEEecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccccCCCHHHHHHH
Confidence 78999999999999888887763 100000 00 0011221 11110 001111
Q ss_pred HHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 004358 581 LDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQA 660 (759)
Q Consensus 581 l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~ 660 (759)
-+.|++ |.=.||+++ .+++.||++|. |+|||-+.=.-.| . .+ |.. --..-+
T Consensus 333 E~~Fr~----g~ikVlv~T--pTLA~GVNLPA---~~VIIk~~~~y~~--------------~---~g--~~~-i~~~dv 383 (766)
T COG1204 333 EDAFRK----GKIKVLVST--PTLAAGVNLPA---RTVIIKDTRRYDP--------------K---GG--IVD-IPVLDV 383 (766)
T ss_pred HHHHhc----CCceEEEec--hHHhhhcCCcc---eEEEEeeeEEEcC--------------C---CC--eEE-CchhhH
Confidence 223332 444566655 69999999995 8899988443211 0 12 211 124567
Q ss_pred HHhcccccccC-CCeeEEEEee
Q 004358 661 AQCVGRVIRSK-ADYGMMIFAD 681 (759)
Q Consensus 661 ~QaiGR~IR~~-~D~g~iillD 681 (759)
.|-+||.=|-. +|+|..+++.
T Consensus 384 ~QM~GRAGRPg~d~~G~~~i~~ 405 (766)
T COG1204 384 LQMAGRAGRPGYDDYGEAIILA 405 (766)
T ss_pred hhccCcCCCCCcCCCCcEEEEe
Confidence 89999998876 6788766666
No 200
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=89.30 E-value=0.26 Score=57.56 Aligned_cols=46 Identities=24% Similarity=0.214 Sum_probs=34.8
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHH
Q 004358 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~ 84 (759)
++=|++.||||||.+||=...+.-++. |-.|.||.+||.+--+-+.
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLhk~Y--G~~KFIivVPs~AIkeGv~ 121 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELHKKY--GLFKFIIVVPSLAIKEGVF 121 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHHHHh--CceeEEEEeccHHHHhhhH
Confidence 577899999999999997655544444 4448999999988554433
No 201
>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=89.23 E-value=1.6 Score=50.98 Aligned_cols=65 Identities=22% Similarity=0.255 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCC-CCcEEEEEccchhhHHHHHHHH
Q 004358 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAEL 87 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~-~~~kvi~~T~T~~l~~Q~~~el 87 (759)
+.|++. |..++. +...+|.+|+|||||...-.-...+....+. ++.+|.++++|+.-...+-+-+
T Consensus 148 ~~Qk~A---~~~al~-~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~ 213 (586)
T TIGR01447 148 NWQKVA---VALALK-SNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESL 213 (586)
T ss_pred HHHHHH---HHHHhh-CCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHH
Confidence 566654 344444 6899999999999998543222222222211 1138999999998776655533
No 202
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=88.68 E-value=0.76 Score=47.77 Aligned_cols=51 Identities=22% Similarity=0.340 Sum_probs=37.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHhC
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSK 63 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~-~~~liEaPTGtGKTla~L~~~l~~~~~~ 63 (759)
-|...|.-.|..+=..+.+.+... +-+++.+|||+|||-. |.+.+.|...+
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 366666777777777777755443 6888999999999976 56777787654
No 203
>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=88.49 E-value=0.51 Score=50.93 Aligned_cols=40 Identities=28% Similarity=0.343 Sum_probs=33.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~--~~~~liEaPTGtGKTla~ 52 (759)
|||.- =-+|.++..++.-++-+ .++++|++|+|+|||..+
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 57999999998776655 579999999999999743
No 204
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=88.28 E-value=1.1 Score=53.34 Aligned_cols=66 Identities=17% Similarity=0.190 Sum_probs=46.5
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC-C-CCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~-~-~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+.|.|++.+.. ..++++|-|+.|||||.++.. -++|+... + ... +|++.|-|....+.+-+.+..+
T Consensus 3 Ln~~Q~~av~~------~~g~~lV~AgpGSGKT~vL~~-Ria~Li~~~~v~p~-~IL~lTFT~kAA~em~~Rl~~~ 70 (672)
T PRK10919 3 LNPGQQQAVEF------VTGPCLVLAGAGSGKTRVITN-KIAHLIRGCGYQAR-HIAAVTFTNKAAREMKERVAQT 70 (672)
T ss_pred CCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHH-HHHHHHHhcCCCHH-HeeeEechHHHHHHHHHHHHHH
Confidence 36788775532 357899999999999988544 45565432 2 234 8999999999887766656554
No 205
>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=88.20 E-value=1.2 Score=53.74 Aligned_cols=59 Identities=17% Similarity=0.150 Sum_probs=41.6
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHH
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q 82 (759)
+.+.|++.+..+. ..++..+|.+|+|||||.. |-++...+... +. +|+.+++|......
T Consensus 353 Ls~~Q~~Av~~i~---~s~~~~il~G~aGTGKTtl-l~~i~~~~~~~--g~-~V~~~ApTg~Aa~~ 411 (744)
T TIGR02768 353 LSEEQYEAVRHVT---GSGDIAVVVGRAGTGKSTM-LKAAREAWEAA--GY-RVIGAALSGKAAEG 411 (744)
T ss_pred CCHHHHHHHHHHh---cCCCEEEEEecCCCCHHHH-HHHHHHHHHhC--CC-eEEEEeCcHHHHHH
Confidence 4799999876654 3357899999999999965 33333333332 45 89999999875543
No 206
>PRK06921 hypothetical protein; Provisional
Probab=88.10 E-value=2 Score=44.93 Aligned_cols=38 Identities=24% Similarity=0.251 Sum_probs=23.8
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
+..+++-+|||||||.-.. +++.......+. +|+|.+.
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 5679999999999996433 232211111134 7888774
No 207
>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=88.06 E-value=1.1 Score=43.63 Aligned_cols=47 Identities=23% Similarity=0.228 Sum_probs=29.3
Q ss_pred EEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 38 ~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
.+|.+|+|||||.-.+--+...++ .+. +++|.|-.. -.+++++.+..
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~---~g~-~v~~~s~e~-~~~~~~~~~~~ 48 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLA---RGE-PGLYVTLEE-SPEELIENAES 48 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHH---CCC-cEEEEECCC-CHHHHHHHHHH
Confidence 689999999999866544444433 245 676665433 34566655443
No 208
>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=87.87 E-value=2 Score=51.57 Aligned_cols=64 Identities=16% Similarity=0.016 Sum_probs=43.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q 82 (759)
+++. ..+.|++.+..+. .++..+|.+++|||||...- .++..+....... +|+.+++|..-..+
T Consensus 320 ~~~~-l~~~Q~~Ai~~~~----~~~~~iitGgpGTGKTt~l~-~i~~~~~~~~~~~-~v~l~ApTg~AA~~ 383 (720)
T TIGR01448 320 LRKG-LSEEQKQALDTAI----QHKVVILTGGPGTGKTTITR-AIIELAEELGGLL-PVGLAAPTGRAAKR 383 (720)
T ss_pred cCCC-CCHHHHHHHHHHH----hCCeEEEECCCCCCHHHHHH-HHHHHHHHcCCCc-eEEEEeCchHHHHH
Confidence 4444 4799999876653 56799999999999997543 3333333321114 89999999987654
No 209
>PRK06526 transposase; Provisional
Probab=87.76 E-value=0.6 Score=48.35 Aligned_cols=42 Identities=19% Similarity=0.275 Sum_probs=26.8
Q ss_pred HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 30 ~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
+.+..+.++++-+|+|||||.... +++..... .+. +|+|.|.
T Consensus 93 ~fi~~~~nlll~Gp~GtGKThLa~--al~~~a~~-~g~-~v~f~t~ 134 (254)
T PRK06526 93 DFVTGKENVVFLGPPGTGKTHLAI--GLGIRACQ-AGH-RVLFATA 134 (254)
T ss_pred chhhcCceEEEEeCCCCchHHHHH--HHHHHHHH-CCC-chhhhhH
Confidence 456677899999999999997433 33332211 245 7776433
No 210
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.72 E-value=0.47 Score=55.02 Aligned_cols=36 Identities=39% Similarity=0.394 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLSL 55 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~~ 55 (759)
+|......+..++..++ |+ ++.+|.|||||....+-
T Consensus 17 Gq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~l 55 (584)
T PRK14952 17 GQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARIL 55 (584)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 89999999999998874 64 89999999999876653
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=87.71 E-value=1.2 Score=56.80 Aligned_cols=62 Identities=21% Similarity=0.237 Sum_probs=44.9
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
+.+.|.+.+. ..+++++|.|+-|||||.++.--++.......+.. +|++.|=|..-...+-+
T Consensus 2 ~t~~Q~~ai~------~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~-~il~~tFt~~aa~e~~~ 63 (1232)
T TIGR02785 2 WTDEQWQAIY------TRGQNILVSASAGSGKTAVLVERIIKKILRGVDID-RLLVVTFTNAAAREMKE 63 (1232)
T ss_pred CCHHHHHHHh------CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHh-hEEEEeccHHHHHHHHH
Confidence 4688988775 35789999999999999987766655443221223 79999999876655433
No 212
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=87.65 E-value=0.83 Score=45.59 Aligned_cols=34 Identities=26% Similarity=0.387 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHhCC--cEEEEcCCCCcHHHHHHHHH
Q 004358 23 SYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLI 56 (759)
Q Consensus 23 ~~~~~v~~al~~~~--~~liEaPTGtGKTla~L~~~ 56 (759)
+.++.+.-...+|+ |+++.+|+|||||-+.+|-|
T Consensus 34 ~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LA 69 (333)
T KOG0991|consen 34 DTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLA 69 (333)
T ss_pred HHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHH
Confidence 34444444444553 89999999999999988754
No 213
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=87.56 E-value=0.91 Score=50.68 Aligned_cols=41 Identities=34% Similarity=0.391 Sum_probs=28.0
Q ss_pred CHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHh
Q 004358 18 YPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLS 62 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~-~~~liEaPTGtGKTla~L~~~l~~~~~ 62 (759)
.|.|.+-+ .+.+.+. +.+++-+|||+|||.. |.++|.++..
T Consensus 243 ~~~~~~~~---~~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~ 284 (500)
T COG2804 243 SPFQLARL---LRLLNRPQGLILVTGPTGSGKTTT-LYAALSELNT 284 (500)
T ss_pred CHHHHHHH---HHHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcC
Confidence 44554433 3444443 6888999999999986 6777887653
No 214
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=87.37 E-value=1.8 Score=51.73 Aligned_cols=71 Identities=14% Similarity=0.149 Sum_probs=44.5
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCC-CCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~-~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
.++.|+.-.+=+..-..++=++++-=.+|.|||..-+. .+.|....+. .+ +-.|.+|+-.+- ....|+.+.
T Consensus 395 Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIs-LitYLmE~K~~~G-P~LvivPlstL~-NW~~Ef~kW 466 (1157)
T KOG0386|consen 395 LKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTIS-LITYLMEHKQMQG-PFLIIVPLSTLV-NWSSEFPKW 466 (1157)
T ss_pred CchhhhhhhHHHhhccCCCcccccchhcccchHHHHHH-HHHHHHHHcccCC-CeEEeccccccC-Cchhhcccc
Confidence 47788888877777777777899999999999997654 4556554432 22 344444443321 333355544
No 215
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.31 E-value=0.62 Score=51.78 Aligned_cols=35 Identities=23% Similarity=0.227 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~ 54 (759)
+|......+..++.+++ | .++.+|.|+|||.+..+
T Consensus 20 Gq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~ 57 (397)
T PRK14955 20 AQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARV 57 (397)
T ss_pred ChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHH
Confidence 89999999999998874 5 77899999999986554
No 216
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=87.29 E-value=1.6 Score=53.76 Aligned_cols=60 Identities=15% Similarity=0.072 Sum_probs=42.7
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHH
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~ 83 (759)
..++|++.+..+ +..+...+|.++.|||||.. |-++....... +. +|+.+++|......+
T Consensus 347 Ls~eQr~Av~~i---l~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~~--G~-~V~~~ApTGkAA~~L 406 (988)
T PRK13889 347 LSGEQADALAHV---TDGRDLGVVVGYAGTGKSAM-LGVAREAWEAA--GY-EVRGAALSGIAAENL 406 (988)
T ss_pred CCHHHHHHHHHH---hcCCCeEEEEeCCCCCHHHH-HHHHHHHHHHc--CC-eEEEecCcHHHHHHH
Confidence 478999876554 34456889999999999985 44444444433 45 899999999765443
No 217
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=87.13 E-value=5.6 Score=44.40 Aligned_cols=78 Identities=19% Similarity=0.338 Sum_probs=56.5
Q ss_pred HHHhhcc-cCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCce-EEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004358 524 LVEMVSI-VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKL-VFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (759)
Q Consensus 524 l~~~~~~-~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~-if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~ 601 (759)
|.++++. ....++||.+-.+-.+.+++.+.+.|+ +. .+--+++...+...|+.|+. +.+.||+|+.
T Consensus 508 L~eil~~~~~ppiIIFvN~kk~~d~lAk~LeK~g~-------~~~tlHg~k~qeQRe~aL~~fr~----~t~dIlVaTD- 575 (673)
T KOG0333|consen 508 LIEILESNFDPPIIIFVNTKKGADALAKILEKAGY-------KVTTLHGGKSQEQRENALADFRE----GTGDILVATD- 575 (673)
T ss_pred HHHHHHhCCCCCEEEEEechhhHHHHHHHHhhccc-------eEEEeeCCccHHHHHHHHHHHHh----cCCCEEEEec-
Confidence 3333433 356899999999999999998887653 22 23223444567788999997 6788999874
Q ss_pred CccccccccCCCC
Q 004358 602 GKVAEGIDFDRHY 614 (759)
Q Consensus 602 G~~~EGiDf~~~~ 614 (759)
-...|||+|+-+
T Consensus 576 -vAgRGIDIpnVS 587 (673)
T KOG0333|consen 576 -VAGRGIDIPNVS 587 (673)
T ss_pred -ccccCCCCCccc
Confidence 788999999844
No 218
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=87.10 E-value=1.6 Score=52.61 Aligned_cols=67 Identities=16% Similarity=0.199 Sum_probs=48.2
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC-C-CCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~-~-~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
...|.|++.+. ...++++|-|+.|||||.++.. =++|+... . ... +|+..|=|..-...+-+.+.++
T Consensus 9 ~Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~vl~~-Ria~Li~~~~v~p~-~IL~lTFT~kAA~Em~~Rl~~~ 77 (721)
T PRK11773 9 SLNDKQREAVA------APLGNMLVLAGAGSGKTRVLVH-RIAWLMQVENASPY-SIMAVTFTNKAAAEMRHRIEQL 77 (721)
T ss_pred hcCHHHHHHHh------CCCCCEEEEecCCCCHHHHHHH-HHHHHHHcCCCChh-HeEeeeccHHHHHHHHHHHHHH
Confidence 35788988653 2357999999999999987554 45565432 1 234 8999999999887766666654
No 219
>PRK12377 putative replication protein; Provisional
Probab=87.02 E-value=2.2 Score=44.01 Aligned_cols=34 Identities=21% Similarity=0.138 Sum_probs=22.8
Q ss_pred CHHHHHHHHHHHH---HHHhC-CcEEEEcCCCCcHHHH
Q 004358 18 YPEQYSYMLELKR---ALDAK-GHCLLEMPTGTGKTIA 51 (759)
Q Consensus 18 r~~Q~~~~~~v~~---al~~~-~~~liEaPTGtGKTla 51 (759)
.++|..++..+.+ .+..+ ..+++-+|+|||||..
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThL 117 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHL 117 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHH
Confidence 3677665544433 33333 5789999999999963
No 220
>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=86.99 E-value=1.9 Score=39.27 Aligned_cols=29 Identities=24% Similarity=0.214 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHhC---CcEE--EEcCCCCcHHHH
Q 004358 23 SYMLELKRALDAK---GHCL--LEMPTGTGKTIA 51 (759)
Q Consensus 23 ~~~~~v~~al~~~---~~~l--iEaPTGtGKTla 51 (759)
.++.+|...+.+. +.++ +.+|||||||.+
T Consensus 36 ~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v 69 (127)
T PF06309_consen 36 VVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFV 69 (127)
T ss_pred HHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHH
Confidence 4444455455443 4454 689999999974
No 221
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=86.98 E-value=3.9 Score=46.20 Aligned_cols=95 Identities=25% Similarity=0.386 Sum_probs=68.4
Q ss_pred HHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeC-CCchhHHHHHHHHHHhccCCCC
Q 004358 515 GVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRG 593 (759)
Q Consensus 515 ~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~-~~~~~~~~~l~~f~~~~~~~~~ 593 (759)
+-...+...|..+....++.++||+...+.-+.+...++..++ +.+-+.+ ....++...|..|++ |+-
T Consensus 324 ~K~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~~-------~a~~iHGd~sQ~eR~~~L~~Fre----G~~ 392 (519)
T KOG0331|consen 324 AKLRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKGW-------PAVAIHGDKSQSERDWVLKGFRE----GKS 392 (519)
T ss_pred HHHHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcCc-------ceeeecccccHHHHHHHHHhccc----CCc
Confidence 3446677777777777889999999999999988887765421 1122222 223567788999887 788
Q ss_pred eEEEEeecCccccccccCCCCceEEEEEccC
Q 004358 594 AVFFSVARGKVAEGIDFDRHYGRLVIMFGVP 624 (759)
Q Consensus 594 aiL~gv~~G~~~EGiDf~~~~~r~vii~glP 624 (759)
.||+|+ .-.+.|+|++| .+.||-.-.|
T Consensus 393 ~vLVAT--dVAaRGLDi~d--V~lVInydfP 419 (519)
T KOG0331|consen 393 PVLVAT--DVAARGLDVPD--VDLVINYDFP 419 (519)
T ss_pred ceEEEc--ccccccCCCcc--ccEEEeCCCC
Confidence 899987 47999999998 5566665544
No 222
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=86.84 E-value=1 Score=53.04 Aligned_cols=51 Identities=20% Similarity=0.335 Sum_probs=38.9
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHhC--CCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~~l~~~~~~--~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
.++..+|-||.|||||-+++- |.+.. ..+. +|++.|...++..++...++.
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 456889999999999988643 43332 1245 899999999999999887664
No 223
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=86.44 E-value=1.7 Score=51.80 Aligned_cols=66 Identities=20% Similarity=0.289 Sum_probs=46.0
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC-C-CCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~-~-~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+.|.|++.+.. ..++++|-|+.|||||.+++.-+ .|+... + ..+ +|++.|-|..-...+-+.+.+.
T Consensus 2 Ln~~Q~~av~~------~~~~~~V~Ag~GSGKT~~L~~ri-~~ll~~~~~~p~-~IL~vTFt~~Aa~em~~Rl~~~ 69 (664)
T TIGR01074 2 LNPQQQEAVEY------VTGPCLVLAGAGSGKTRVITNKI-AYLIQNCGYKAR-NIAAVTFTNKAAREMKERVAKT 69 (664)
T ss_pred CCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHH-HHHHHhcCCCHH-HeEEEeccHHHHHHHHHHHHHH
Confidence 35778774422 35799999999999999866654 444432 2 234 8999999988777776666554
No 224
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=86.40 E-value=0.82 Score=49.44 Aligned_cols=35 Identities=37% Similarity=0.524 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHhCC--cEEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~liEaPTGtGKTla~L~ 54 (759)
+|.+..+.+..++..+. ++++.+|+|||||.....
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~ 55 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRA 55 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHH
Confidence 56777888888888887 899999999999976443
No 225
>PRK07952 DNA replication protein DnaC; Validated
Probab=86.39 E-value=2.5 Score=43.47 Aligned_cols=52 Identities=13% Similarity=0.213 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHh---C-CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 19 PEQYSYMLELKRALDA---K-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~---~-~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
+.|.+....+.+..++ + ..+++-+|+|||||.-+..- ..++.. .+. +|+|.|
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~ai-a~~l~~--~g~-~v~~it 134 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAI-CNELLL--RGK-SVLIIT 134 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHH-HHHHHh--cCC-eEEEEE
Confidence 5676666655554432 2 47899999999999743322 222222 245 787774
No 226
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=86.33 E-value=1.6 Score=52.56 Aligned_cols=66 Identities=20% Similarity=0.203 Sum_probs=47.4
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC-C-CCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~-~-~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+.|.|++.+. ...++++|-|+.|||||.++.. =++|+... . ... +|+..|=|+.-.+.+-+-+..+
T Consensus 5 Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~~L~~-Ria~Li~~~~v~p~-~IL~lTFTnkAA~em~~Rl~~~ 72 (715)
T TIGR01075 5 LNDKQREAVA------APPGNLLVLAGAGSGKTRVLTH-RIAWLLSVENASPH-SIMAVTFTNKAAAEMRHRIGAL 72 (715)
T ss_pred cCHHHHHHHc------CCCCCEEEEecCCCCHHHHHHH-HHHHHHHcCCCCHH-HeEeeeccHHHHHHHHHHHHHH
Confidence 5788887553 2357999999999999988544 45565532 1 234 8999999998877766666654
No 227
>PRK09183 transposase/IS protein; Provisional
Probab=86.12 E-value=1.3 Score=46.18 Aligned_cols=39 Identities=23% Similarity=0.357 Sum_probs=26.2
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
+.++.++++-+|+|+|||.- +.++..... ..+. +|.|.+
T Consensus 99 i~~~~~v~l~Gp~GtGKThL--a~al~~~a~-~~G~-~v~~~~ 137 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHL--AIALGYEAV-RAGI-KVRFTT 137 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHH--HHHHHHHHH-HcCC-eEEEEe
Confidence 67788999999999999963 333433211 1245 777765
No 228
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=86.03 E-value=2.1 Score=43.68 Aligned_cols=53 Identities=19% Similarity=0.224 Sum_probs=34.1
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+..+...++.+|+|+|||...+-.+...++ .+. +++|.+ +..-.+++++.+..
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 445789999999999999864333222222 245 777777 44444677776544
No 229
>PLN03025 replication factor C subunit; Provisional
Probab=86.01 E-value=0.95 Score=48.71 Aligned_cols=35 Identities=26% Similarity=0.328 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla~L~ 54 (759)
+|.+.+..+...+..+ .|+++.+|+|||||....+
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~ 53 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILA 53 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHH
Confidence 6777777777777665 4899999999999976544
No 230
>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=85.95 E-value=0.83 Score=46.83 Aligned_cols=45 Identities=11% Similarity=0.210 Sum_probs=31.0
Q ss_pred HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccch
Q 004358 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (759)
Q Consensus 30 ~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~ 77 (759)
..+..|...+|.||||+|||.-.+--+..++... +. +|+|.|--.
T Consensus 8 ~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~--g~-~vly~s~E~ 52 (242)
T cd00984 8 GGLQPGDLIIIAARPSMGKTAFALNIAENIAKKQ--GK-PVLFFSLEM 52 (242)
T ss_pred cCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhC--CC-ceEEEeCCC
Confidence 3556678899999999999986665555555432 45 777776433
No 231
>PRK08116 hypothetical protein; Validated
Probab=85.88 E-value=2.5 Score=44.16 Aligned_cols=53 Identities=19% Similarity=0.144 Sum_probs=29.6
Q ss_pred CHHHHHHHHHHH---HHHHh--CC--cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 18 YPEQYSYMLELK---RALDA--KG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 18 r~~Q~~~~~~v~---~al~~--~~--~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
.+.|..++..+. +.+.+ .. .+++-+|+|||||.- +.+++...... +. +|+|.+
T Consensus 90 ~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThL--a~aia~~l~~~-~~-~v~~~~ 149 (268)
T PRK08116 90 DKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYL--AACIANELIEK-GV-PVIFVN 149 (268)
T ss_pred ChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHH--HHHHHHHHHHc-CC-eEEEEE
Confidence 466655444433 34332 22 489999999999974 33333322111 44 677765
No 232
>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=85.85 E-value=1.4 Score=45.08 Aligned_cols=53 Identities=17% Similarity=0.143 Sum_probs=32.6
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+..+...+|.+|+|+|||.-.+--+...++ .+. +++|.| +..-.+|+++.+..
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 334568999999999999854433222222 255 676666 33345577776554
No 233
>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=85.56 E-value=3.1 Score=45.48 Aligned_cols=35 Identities=29% Similarity=0.296 Sum_probs=23.5
Q ss_pred CHHHHHHHHHHHHH-HHhC--CcEEEEcCCCCcHHHHH
Q 004358 18 YPEQYSYMLELKRA-LDAK--GHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 18 r~~Q~~~~~~v~~a-l~~~--~~~liEaPTGtGKTla~ 52 (759)
|..|.+-+...... +..+ .+++|-+|+|||||...
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVT 57 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHH
Confidence 56666554444443 3322 58999999999999754
No 234
>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=85.51 E-value=1.6 Score=47.64 Aligned_cols=47 Identities=19% Similarity=0.266 Sum_probs=30.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHH-hCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004358 13 PYDNIYPEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIALLSLITSYV 60 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~-~~~~~liEaPTGtGKTla~L~~~l~~~ 60 (759)
|-.++.-.|.-+-..+.+.+. .++.++|.+|||+|||-. |.+.+.+.
T Consensus 111 ~~~~~~l~~l~~~~~~~~~~~~~~glilI~GpTGSGKTTt-L~aLl~~i 158 (358)
T TIGR02524 111 PAEPPKLSKLDLPAAIIDAIAPQEGIVFITGATGSGKSTL-LAAIIREL 158 (358)
T ss_pred CCCCCCHHHcCCCHHHHHHHhccCCEEEEECCCCCCHHHH-HHHHHHHH
Confidence 444444555544444556665 568999999999999975 34444444
No 235
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=85.49 E-value=16 Score=40.97 Aligned_cols=119 Identities=22% Similarity=0.297 Sum_probs=75.8
Q ss_pred HHHHHHHHHhhcccC-CcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCC------Cc--hhHHHHHHHHHHhc
Q 004358 518 RNYGKLLVEMVSIVP-DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ------DV--VETTLALDNYRKAC 588 (759)
Q Consensus 518 ~~~~~~l~~~~~~~~-gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~------~~--~~~~~~l~~f~~~~ 588 (759)
+.+-+.+.+..+..+ .+++||.......+.+.+++.+.+... +..|+=+. |. .+..+.+++|++
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 445566666665554 578888888888899999988765311 12566311 11 234568899987
Q ss_pred cCCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhccccc
Q 004358 589 DCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVI 668 (759)
Q Consensus 589 ~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~I 668 (759)
|..-||+|+. ---||+|+|+-. .| |+==|-|+ -.+..|+.||-=
T Consensus 424 --Ge~nVLVaTS--VgEEGLDIp~vD--lV-ifYEpvpS-----------------------------eIR~IQR~GRTG 467 (542)
T COG1111 424 --GEYNVLVATS--VGEEGLDIPEVD--LV-IFYEPVPS-----------------------------EIRSIQRKGRTG 467 (542)
T ss_pred --CCceEEEEcc--cccccCCCCccc--EE-EEecCCcH-----------------------------HHHHHHhhCccc
Confidence 7888999883 345999999833 23 33223332 144568889998
Q ss_pred ccCCCeeEEEE
Q 004358 669 RSKADYGMMIF 679 (759)
Q Consensus 669 R~~~D~g~iil 679 (759)
|...-+-+|++
T Consensus 468 R~r~Grv~vLv 478 (542)
T COG1111 468 RKRKGRVVVLV 478 (542)
T ss_pred cCCCCeEEEEE
Confidence 88766644444
No 236
>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=85.46 E-value=2.1 Score=50.17 Aligned_cols=57 Identities=18% Similarity=0.155 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCC-cEEEEEccchhh
Q 004358 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENP-VKLIYCTRTVHE 79 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~-~kvi~~T~T~~l 79 (759)
-+|.++...+..++.++.++++-+|+|||||...- +++. ..+... .+++|..++...
T Consensus 21 iG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~la~--~la~--~l~~~~~~~~~~~~n~~~~ 78 (608)
T TIGR00764 21 IGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSMLAK--AMAE--LLPDEELEDILVYPNPEDP 78 (608)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEECCCCCCHHHHHH--HHHH--HcCchhheeEEEEeCCCCC
Confidence 58999999999999999999999999999997533 3332 222221 266666666433
No 237
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=85.37 E-value=0.27 Score=52.05 Aligned_cols=63 Identities=17% Similarity=0.149 Sum_probs=43.6
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC--------CCCCcEEEEEccchhhHHHHHH
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--------PENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~--------~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
.|.|.+=+--|. .|...+=-|-||+|||+.+.+|.+.++... .+++ =-+|.+++..+..|..+
T Consensus 194 TpIQvQGlPvvL----sGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP-~gLiicPSRELArQt~~ 264 (610)
T KOG0341|consen 194 TPIQVQGLPVVL----SGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGP-YGLIICPSRELARQTHD 264 (610)
T ss_pred CceeecCcceEe----ecCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCC-eeEEEcCcHHHHHHHHH
Confidence 455554443332 355567778999999999999999887643 3566 44556688888888766
No 238
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=85.13 E-value=1 Score=50.10 Aligned_cols=30 Identities=27% Similarity=0.433 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHHHH
Q 004358 23 SYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 23 ~~~~~v~~al~~~~~~liEaPTGtGKTla~ 52 (759)
+..+.+..++..++++++.+|+|||||...
T Consensus 182 ~~le~l~~~L~~~~~iil~GppGtGKT~lA 211 (459)
T PRK11331 182 TTIETILKRLTIKKNIILQGPPGVGKTFVA 211 (459)
T ss_pred HHHHHHHHHHhcCCCEEEECCCCCCHHHHH
Confidence 345667788888999999999999999644
No 239
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=85.09 E-value=2.7 Score=46.59 Aligned_cols=37 Identities=30% Similarity=0.291 Sum_probs=24.0
Q ss_pred CHHHHHHHHHH-HHHHHhC--CcEEEEcCCCCcHHHHHHH
Q 004358 18 YPEQYSYMLEL-KRALDAK--GHCLLEMPTGTGKTIALLS 54 (759)
Q Consensus 18 r~~Q~~~~~~v-~~al~~~--~~~liEaPTGtGKTla~L~ 54 (759)
|..|.+-+... ..++..+ .+++|-+|+|||||...-.
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~ 74 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKK 74 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHH
Confidence 45554443333 3444432 5799999999999987554
No 240
>PRK05973 replicative DNA helicase; Provisional
Probab=85.06 E-value=1.1 Score=45.90 Aligned_cols=57 Identities=21% Similarity=0.200 Sum_probs=36.0
Q ss_pred HHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 28 LKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 28 v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+...+..|...+|-|++|+|||.-.+--+...++ .+. +++|.|--.+ -+|+++.+..
T Consensus 57 l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~---~Ge-~vlyfSlEes-~~~i~~R~~s 113 (237)
T PRK05973 57 LFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMK---SGR-TGVFFTLEYT-EQDVRDRLRA 113 (237)
T ss_pred hcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh---cCC-eEEEEEEeCC-HHHHHHHHHH
Confidence 3345556778999999999999866654443332 256 7777754443 3566655443
No 241
>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=85.00 E-value=1.2 Score=47.06 Aligned_cols=17 Identities=35% Similarity=0.313 Sum_probs=14.8
Q ss_pred CcEEEEcCCCCcHHHHH
Q 004358 36 GHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~ 52 (759)
.++++.+|+|||||...
T Consensus 59 ~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVA 75 (284)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 37999999999999754
No 242
>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=84.74 E-value=0.82 Score=41.44 Aligned_cols=19 Identities=32% Similarity=0.340 Sum_probs=16.2
Q ss_pred CCcEEEEcCCCCcHHHHHH
Q 004358 35 KGHCLLEMPTGTGKTIALL 53 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L 53 (759)
+.++++.+|+|||||....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~ 20 (148)
T smart00382 2 GEVILIVGPPGSGKTTLAR 20 (148)
T ss_pred CCEEEEECCCCCcHHHHHH
Confidence 5689999999999998644
No 243
>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=84.69 E-value=1.3 Score=47.34 Aligned_cols=31 Identities=13% Similarity=0.164 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCCcHHHHH
Q 004358 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 22 ~~~~~~v~~al~~~~~~liEaPTGtGKTla~ 52 (759)
.+....|..++..++++++++|+|||||...
T Consensus 51 ~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla 81 (327)
T TIGR01650 51 KATTKAICAGFAYDRRVMVQGYHGTGKSTHI 81 (327)
T ss_pred HHHHHHHHHHHhcCCcEEEEeCCCChHHHHH
Confidence 3455678888888999999999999999743
No 244
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=84.59 E-value=1.7 Score=51.68 Aligned_cols=68 Identities=18% Similarity=0.228 Sum_probs=51.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 14 y~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
|.| -..|+++. +.++.++.++|-|||-.|||+.--.+.-.-.+.. +.. -|||+.||+++..|+-.++.
T Consensus 510 F~P-d~WQ~elL----DsvDr~eSavIVAPTSaGKTfisfY~iEKVLRes-D~~-VVIyvaPtKaLVnQvsa~Vy 577 (1330)
T KOG0949|consen 510 FCP-DEWQRELL----DSVDRNESAVIVAPTSAGKTFISFYAIEKVLRES-DSD-VVIYVAPTKALVNQVSANVY 577 (1330)
T ss_pred cCC-cHHHHHHh----hhhhcccceEEEeeccCCceeccHHHHHHHHhhc-CCC-EEEEecchHHHhhhhhHHHH
Confidence 554 57788877 6677899999999999999986444433333333 345 79999999999999977644
No 245
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=84.59 E-value=5.6 Score=40.58 Aligned_cols=67 Identities=21% Similarity=0.285 Sum_probs=44.0
Q ss_pred CHHHHHHHHHHHHHHHhC---CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccch-hhHHHHHHHHH
Q 004358 18 YPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV-HEMEKTLAELK 88 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~---~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~-~l~~Q~~~el~ 88 (759)
+..|++.+.+-.+++-+| .|+++-++-|||||-..-...-.|+ . .++|+|-..+.. ..+..+++.|+
T Consensus 32 ie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~---~-~GLRlIev~k~~L~~l~~l~~~l~ 102 (249)
T PF05673_consen 32 IERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYA---D-QGLRLIEVSKEDLGDLPELLDLLR 102 (249)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHh---h-cCceEEEECHHHhccHHHHHHHHh
Confidence 567888777777777777 5999999999999976544333332 2 235888876653 23334444443
No 246
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=84.35 E-value=1.2 Score=46.72 Aligned_cols=35 Identities=34% Similarity=0.454 Sum_probs=24.8
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccch
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~ 77 (759)
.++++-+|||+|||+ |.-+|+-.. +- +.-++-.|.
T Consensus 98 SNILLiGPTGsGKTl--LAqTLAk~L----nV-PFaiADATt 132 (408)
T COG1219 98 SNILLIGPTGSGKTL--LAQTLAKIL----NV-PFAIADATT 132 (408)
T ss_pred ccEEEECCCCCcHHH--HHHHHHHHh----CC-Ceeeccccc
Confidence 589999999999997 555565433 22 677776664
No 247
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=84.33 E-value=4.5 Score=44.73 Aligned_cols=76 Identities=20% Similarity=0.255 Sum_probs=51.9
Q ss_pred CcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEE-EeC-CCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccc
Q 004358 533 DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVF-IET-QDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (759)
Q Consensus 533 gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if-~E~-~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf 610 (759)
-.++||||+-..-.-+++.+....+ +|+ +.+ +....+.....+|+++ +..||+++. --+.|+||
T Consensus 331 ~KiiVF~sT~~~vk~~~~lL~~~dl--------pv~eiHgk~~Q~kRT~~~~~F~ka----esgIL~cTD--VaARGlD~ 396 (543)
T KOG0342|consen 331 YKIIVFFSTCMSVKFHAELLNYIDL--------PVLEIHGKQKQNKRTSTFFEFCKA----ESGILVCTD--VAARGLDI 396 (543)
T ss_pred ceEEEEechhhHHHHHHHHHhhcCC--------chhhhhcCCcccccchHHHHHhhc----ccceEEecc--hhhccCCC
Confidence 7899999999887777776653211 111 111 1123356678899985 678999774 78899999
Q ss_pred CCCCceEEEEEccC
Q 004358 611 DRHYGRLVIMFGVP 624 (759)
Q Consensus 611 ~~~~~r~vii~glP 624 (759)
|+ ...||=.|.|
T Consensus 397 P~--V~~VvQ~~~P 408 (543)
T KOG0342|consen 397 PD--VDWVVQYDPP 408 (543)
T ss_pred CC--ceEEEEeCCC
Confidence 98 4567777755
No 248
>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=84.25 E-value=4 Score=39.38 Aligned_cols=55 Identities=20% Similarity=0.117 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC-CCCCcEEEEEccchh
Q 004358 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVH 78 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~-~~~~~kvi~~T~T~~ 78 (759)
.=.++++.+.++.....+++|++++||||++. +-++ +.... ..++ =|.|-+++.+
T Consensus 7 ~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~l--A~~I-H~~s~r~~~p-fi~vnc~~~~ 62 (168)
T PF00158_consen 7 AMKRLREQAKRAASSDLPVLITGETGTGKELL--ARAI-HNNSPRKNGP-FISVNCAALP 62 (168)
T ss_dssp HHHHHHHHHHHHTTSTS-EEEECSTTSSHHHH--HHHH-HHCSTTTTS--EEEEETTTS-
T ss_pred HHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHH--HHHH-HHhhhcccCC-eEEEehhhhh
Confidence 33455566666666678999999999999973 3333 33222 2233 3555555554
No 249
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.11 E-value=1.3 Score=48.49 Aligned_cols=35 Identities=26% Similarity=0.261 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~ 54 (759)
+|......+..++..++ |+ ++.+|+|+|||....+
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~ 57 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARL 57 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHH
Confidence 89999999999998874 55 8999999999975443
No 250
>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=84.04 E-value=1.1 Score=49.24 Aligned_cols=40 Identities=25% Similarity=0.152 Sum_probs=30.7
Q ss_pred CHHHHHHHHHHHHHHHhC----------------CcEEEEcCCCCcHHHHHHHHHHHH
Q 004358 18 YPEQYSYMLELKRALDAK----------------GHCLLEMPTGTGKTIALLSLITSY 59 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~----------------~~~liEaPTGtGKTla~L~~~l~~ 59 (759)
--+|.+....+.-|+.++ +++++.+|||+|||.. +-+|+-
T Consensus 14 IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~l--AraLA~ 69 (441)
T TIGR00390 14 IIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEI--ARRLAK 69 (441)
T ss_pred ccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHH--HHHHHH
Confidence 357888888888888753 6899999999999974 334443
No 251
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=84.02 E-value=2.2 Score=52.21 Aligned_cols=50 Identities=16% Similarity=0.286 Sum_probs=37.5
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+.++++-||+|||||.+.=.+.+. +....+++|.++.+.-.+-..++..+
T Consensus 1159 nd~v~vga~~gsgkt~~ae~a~l~-----~~~~~~~vyi~p~~~i~~~~~~~w~~ 1208 (1674)
T KOG0951|consen 1159 NDNVLVGAPNGSGKTACAELALLR-----PDTIGRAVYIAPLEEIADEQYRDWEK 1208 (1674)
T ss_pred cceEEEecCCCCchhHHHHHHhcC-----CccceEEEEecchHHHHHHHHHHHHH
Confidence 468999999999999865544332 33334999999999887777777654
No 252
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.97 E-value=1 Score=51.12 Aligned_cols=34 Identities=29% Similarity=0.314 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L 53 (759)
+|......+..++.++. | .++.+|+|||||....
T Consensus 18 Gq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~ 54 (472)
T PRK14962 18 GQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVAR 54 (472)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 78888888888888874 3 6899999999997544
No 253
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=83.88 E-value=6.4 Score=44.24 Aligned_cols=88 Identities=15% Similarity=0.231 Sum_probs=58.3
Q ss_pred HHHHhhccc-CCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCc--hhHHHHHHHHHHhccCCCCeEEEEe
Q 004358 523 LLVEMVSIV-PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV--VETTLALDNYRKACDCGRGAVFFSV 599 (759)
Q Consensus 523 ~l~~~~~~~-~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~--~~~~~~l~~f~~~~~~~~~aiL~gv 599 (759)
.|..+++.. ...++|||+|-....-+++.+.. +...-+++.-.... ..+..+..+|-+ .+.+||||+
T Consensus 303 ~L~sFI~shlk~K~iVF~SscKqvkf~~e~F~r------lrpg~~l~~L~G~~~Q~~R~ev~~~F~~----~~~~vLF~T 372 (758)
T KOG0343|consen 303 MLWSFIKSHLKKKSIVFLSSCKQVKFLYEAFCR------LRPGIPLLALHGTMSQKKRIEVYKKFVR----KRAVVLFCT 372 (758)
T ss_pred HHHHHHHhccccceEEEEehhhHHHHHHHHHHh------cCCCCceeeeccchhHHHHHHHHHHHHH----hcceEEEee
Confidence 345555554 46899999999998888887654 33334455433222 223445555555 377999988
Q ss_pred ecCccccccccCCCCceEEEEEccC
Q 004358 600 ARGKVAEGIDFDRHYGRLVIMFGVP 624 (759)
Q Consensus 600 ~~G~~~EGiDf~~~~~r~vii~glP 624 (759)
. -.+.|+||| ....||=+--|
T Consensus 373 D--v~aRGLDFp--aVdwViQ~DCP 393 (758)
T KOG0343|consen 373 D--VAARGLDFP--AVDWVIQVDCP 393 (758)
T ss_pred h--hhhccCCCc--ccceEEEecCc
Confidence 4 799999999 66777766555
No 254
>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=83.61 E-value=1.4 Score=46.13 Aligned_cols=35 Identities=31% Similarity=0.347 Sum_probs=25.4
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHH
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~ 52 (759)
...-..+..-+...+..+.++++.+|||||||...
T Consensus 16 T~dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 16 TVDTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp -HHHHHHHHHHHHHHHCTEEEEEESSTTSSHHHHH
T ss_pred cHHHHHHHHHHHHHHHcCCcEEEECCCCCchhHHH
Confidence 44445555555556677889999999999999843
No 255
>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=83.56 E-value=2.5 Score=46.29 Aligned_cols=58 Identities=24% Similarity=0.158 Sum_probs=33.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHH-hCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEE
Q 004358 13 PYDNIYPEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIY 72 (759)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~al~-~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~ 72 (759)
|-..|.-.|.-+...+.+.+. .++.++|.+|||+|||-. |.+.+.+....+... +|+.
T Consensus 126 ~~~~~~l~~lgl~~~~~~~l~~~~GlilI~G~TGSGKTT~-l~al~~~i~~~~~~~-~Ivt 184 (372)
T TIGR02525 126 PSDIPDLKQMGIEPDLFNSLLPAAGLGLICGETGSGKSTL-AASIYQHCGETYPDR-KIVT 184 (372)
T ss_pred CCcCCCHHHcCCCHHHHHHHHhcCCEEEEECCCCCCHHHH-HHHHHHHHHhcCCCc-eEEE
Confidence 444334445555545555443 457889999999999975 344555544332223 5543
No 256
>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=83.55 E-value=1.4 Score=50.16 Aligned_cols=69 Identities=22% Similarity=0.121 Sum_probs=41.7
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhhhcccCCCCccceEEEeecCCcc-
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN- 114 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~g~~~~~~~~~l~gr~~- 114 (759)
.|+++-||||+|||.++++|.+.- . +. .+||.-+.-.+......-+++ .+.++.+.-..+..+
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 2 23 466655555544433333332 133455444555544
Q ss_pred cccchH
Q 004358 115 LCVNSR 120 (759)
Q Consensus 115 lC~~~~ 120 (759)
.|.|++
T Consensus 109 ~~~NPL 114 (469)
T PF02534_consen 109 HRWNPL 114 (469)
T ss_pred cccCCc
Confidence 355654
No 257
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.52 E-value=1 Score=50.61 Aligned_cols=35 Identities=29% Similarity=0.271 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~ 54 (759)
+|......+..++..++ | .++.+|.|||||..+.+
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 89999999999998885 4 59999999999976543
No 258
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=83.36 E-value=0.83 Score=48.52 Aligned_cols=80 Identities=19% Similarity=0.318 Sum_probs=56.7
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCC--chhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004358 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD--VVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (759)
Q Consensus 531 ~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~--~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGi 608 (759)
+=|..++|+...+..+.++..+...|. . |-+-..+ ..++..++++||+ |+.-||+++ .-++.||
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 347889999999998888888887653 1 1111222 2456778999998 678899987 4799999
Q ss_pred ccCCCCceEEEEEccCCC
Q 004358 609 DFDRHYGRLVIMFGVPFQ 626 (759)
Q Consensus 609 Df~~~~~r~vii~glPfp 626 (759)
|.+- ...||=.-||--
T Consensus 395 Dv~q--Vs~VvNydlP~~ 410 (477)
T KOG0332|consen 395 DVAQ--VSVVVNYDLPVK 410 (477)
T ss_pred ccce--EEEEEecCCccc
Confidence 9974 455666666654
No 259
>PRK11054 helD DNA helicase IV; Provisional
Probab=83.30 E-value=3.4 Score=49.16 Aligned_cols=66 Identities=15% Similarity=0.273 Sum_probs=45.5
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC--CCCcEEEEEccchhhHHHHHHHHHh
Q 004358 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~--~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+..+.|++.+. ...++++|-|+.|||||..++. -++|+.... .+. +|++.|-|....+-+-+-+..
T Consensus 196 ~L~~~Q~~av~------~~~~~~lV~agaGSGKT~vl~~-r~ayLl~~~~~~~~-~IL~ltft~~AA~em~eRL~~ 263 (684)
T PRK11054 196 PLNPSQARAVV------NGEDSLLVLAGAGSGKTSVLVA-RAGWLLARGQAQPE-QILLLAFGRQAAEEMDERIRE 263 (684)
T ss_pred CCCHHHHHHHh------CCCCCeEEEEeCCCCHHHHHHH-HHHHHHHhCCCCHH-HeEEEeccHHHHHHHHHHHHH
Confidence 45788987553 2346789999999999987654 445544321 234 899999999877665554443
No 260
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=83.20 E-value=33 Score=41.39 Aligned_cols=173 Identities=16% Similarity=0.182 Sum_probs=98.2
Q ss_pred EEEEecCCCCCCcchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhcccC
Q 004358 453 SVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVP 532 (759)
Q Consensus 453 svIltSgTL~p~~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~ 532 (759)
..|-.|||.+|.+..++.|+-......-......++ ...-++.-.++. . +. ++ ........|.++++...
T Consensus 185 qRIGLSATV~~~~~varfL~g~~~~~~Iv~~~~~k~-~~i~v~~p~~~~---~--~~---~~-~~~~~~~~i~~~v~~~~ 254 (814)
T COG1201 185 QRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSAAKK-LEIKVISPVEDL---I--YD---EE-LWAALYERIAELVKKHR 254 (814)
T ss_pred EEEeehhccCCHHHHHHHhcCCCCceEEEEcccCCc-ceEEEEecCCcc---c--cc---cc-hhHHHHHHHHHHHhhcC
Confidence 348889999999888887764321000000011111 111111111110 0 00 11 22344455666665444
Q ss_pred CcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCc--hhHHHHHHHHHHhccCCCCeEEEEeecCcccccccc
Q 004358 533 DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV--VETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (759)
Q Consensus 533 gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~--~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf 610 (759)
.+|||.++...-+.+...++..+. +++.+..... ..+..+-+++|+ |+=..++|+ .++.=|||.
T Consensus 255 -ttLIF~NTR~~aE~l~~~L~~~~~-------~~i~~HHgSlSre~R~~vE~~lk~----G~lravV~T--SSLELGIDi 320 (814)
T COG1201 255 -TTLIFTNTRSGAERLAFRLKKLGP-------DIIEVHHGSLSRELRLEVEERLKE----GELKAVVAT--SSLELGIDI 320 (814)
T ss_pred -cEEEEEeChHHHHHHHHHHHHhcC-------CceeeecccccHHHHHHHHHHHhc----CCceEEEEc--cchhhcccc
Confidence 999999999999999998876421 3454443221 123334456665 443445444 599999999
Q ss_pred CCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccC--CCeeEEEEee
Q 004358 611 DRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSK--ADYGMMIFAD 681 (759)
Q Consensus 611 ~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~--~D~g~iillD 681 (759)
.+ ...||-.|=| ..+-++-|.+||.=+.. ...|.|+-.|
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 87 4556666633 24567778999885433 4688888888
No 261
>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=83.08 E-value=2.9 Score=42.16 Aligned_cols=33 Identities=18% Similarity=0.210 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHHH
Q 004358 20 EQYSYMLELKRALDA--KGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~--~~~~liEaPTGtGKTla~ 52 (759)
.+.+.+..+.+.+.. +.++++.+|+|||||...
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la 55 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLL 55 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHH
Confidence 566667666665433 368999999999999643
No 262
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=82.91 E-value=2.5 Score=45.08 Aligned_cols=55 Identities=20% Similarity=0.372 Sum_probs=35.1
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhH
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~ 80 (759)
.+.|.+++ ..+.....++++.++||+|||-- |-+.+.+. +... |||..=-|-.+|
T Consensus 159 ~~~~a~~L---~~av~~r~NILisGGTGSGKTTl-LNal~~~i---~~~e-RvItiEDtaELq 213 (355)
T COG4962 159 IRRAAKFL---RRAVGIRCNILISGGTGSGKTTL-LNALSGFI---DSDE-RVITIEDTAELQ 213 (355)
T ss_pred CHHHHHHH---HHHHhhceeEEEeCCCCCCHHHH-HHHHHhcC---CCcc-cEEEEeehhhhc
Confidence 34444443 44555557999999999999963 33333332 3356 888887776655
No 263
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=82.90 E-value=1.2 Score=49.39 Aligned_cols=33 Identities=33% Similarity=0.278 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla 51 (759)
.+|.+.=.++.-|..-+.++++.+|+|||||+.
T Consensus 182 ~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTml 214 (490)
T COG0606 182 KGQEQAKRALEIAAAGGHNLLLVGPPGTGKTML 214 (490)
T ss_pred cCcHHHHHHHHHHHhcCCcEEEecCCCCchHHh
Confidence 467777777777777788999999999999973
No 264
>PRK08727 hypothetical protein; Validated
Probab=82.70 E-value=2.8 Score=42.89 Aligned_cols=36 Identities=25% Similarity=0.253 Sum_probs=22.2
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
..+++-+|+|||||-- +-++...... .+. +++|.+-
T Consensus 42 ~~l~l~G~~G~GKThL--~~a~~~~~~~-~~~-~~~y~~~ 77 (233)
T PRK08727 42 DWLYLSGPAGTGKTHL--ALALCAAAEQ-AGR-SSAYLPL 77 (233)
T ss_pred CeEEEECCCCCCHHHH--HHHHHHHHHH-cCC-cEEEEeH
Confidence 3589999999999963 2233222111 245 7888763
No 265
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=82.69 E-value=3.1 Score=46.60 Aligned_cols=83 Identities=17% Similarity=0.293 Sum_probs=56.3
Q ss_pred hhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCC-CchhHHHHHHHHHHhccCCCCeEEEEeecCccc
Q 004358 527 MVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSVARGKVA 605 (759)
Q Consensus 527 ~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~ 605 (759)
++..-||.++||++|.....+++..+...++ .++-+... ....+-.-+++|++. ..+||+|+. -.+
T Consensus 458 fl~ryPGrTlVF~NsId~vKRLt~~L~~L~i-------~p~~LHA~M~QKqRLknLEkF~~~----~~~VLiaTD--VAA 524 (731)
T KOG0347|consen 458 FLTRYPGRTLVFCNSIDCVKRLTVLLNNLDI-------PPLPLHASMIQKQRLKNLEKFKQS----PSGVLIATD--VAA 524 (731)
T ss_pred EEeecCCceEEEechHHHHHHHHHHHhhcCC-------CCchhhHHHHHHHHHHhHHHHhcC----CCeEEEeeh--hhh
Confidence 4456899999999999999999988876432 11111111 112334468899884 778999884 789
Q ss_pred cccccCCCCceEEEEEccC
Q 004358 606 EGIDFDRHYGRLVIMFGVP 624 (759)
Q Consensus 606 EGiDf~~~~~r~vii~glP 624 (759)
.|+|+|| ..-||=.-+|
T Consensus 525 RGLDIp~--V~HVIHYqVP 541 (731)
T KOG0347|consen 525 RGLDIPG--VQHVIHYQVP 541 (731)
T ss_pred ccCCCCC--cceEEEeecC
Confidence 9999998 3345544444
No 266
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.58 E-value=1.2 Score=51.78 Aligned_cols=36 Identities=31% Similarity=0.289 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLSL 55 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~~ 55 (759)
+|......+..++.+++ |+ ++.+|.|+|||..+.+-
T Consensus 19 GQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriL 57 (702)
T PRK14960 19 GQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARIL 57 (702)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 88999999999998884 55 89999999999866543
No 267
>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=82.55 E-value=2 Score=42.74 Aligned_cols=43 Identities=28% Similarity=0.377 Sum_probs=25.4
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
+..|++|-++||+|||...-..+.+.+..+.....+++++-..
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 4459999999999999987665555544221133377777554
No 268
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=82.32 E-value=4 Score=50.66 Aligned_cols=61 Identities=11% Similarity=0.017 Sum_probs=45.1
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHH
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~ 84 (759)
..++|++.+..|. ..+...+|.++.|||||..+=. +...+... +. +|+-+++|......+-
T Consensus 382 Ls~eQ~~Av~~i~---~~~r~~~v~G~AGTGKTt~l~~-~~~~~e~~--G~-~V~g~ApTgkAA~~L~ 442 (1102)
T PRK13826 382 LSDEQKTAIEHVA---GPARIAAVVGRAGAGKTTMMKA-AREAWEAA--GY-RVVGGALAGKAAEGLE 442 (1102)
T ss_pred CCHHHHHHHHHHh---ccCCeEEEEeCCCCCHHHHHHH-HHHHHHHc--CC-eEEEEcCcHHHHHHHH
Confidence 5799999887763 4467899999999999986544 33333332 45 8999999998765553
No 269
>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=82.12 E-value=0.92 Score=41.36 Aligned_cols=17 Identities=47% Similarity=0.515 Sum_probs=11.1
Q ss_pred cEEEEcCCCCcHHHHHH
Q 004358 37 HCLLEMPTGTGKTIALL 53 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L 53 (759)
|+++|+++|+|||...-
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 78999999999998644
No 270
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=81.96 E-value=1.7 Score=51.97 Aligned_cols=47 Identities=26% Similarity=0.399 Sum_probs=29.4
Q ss_pred EcCeeeeCCCCCCCHHHHHHHHH-HHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004358 5 LEDVTVYFPYDNIYPEQYSYMLE-LKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (759)
Q Consensus 5 i~~~~v~FPy~~~r~~Q~~~~~~-v~~al~~~~--~-~liEaPTGtGKTla~L~ 54 (759)
.+-++-..|+ |..|.+-+.. +..++.... . ++|-+|||||||++...
T Consensus 750 ~DYVPD~LPh---REeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~ 800 (1164)
T PTZ00112 750 LDVVPKYLPC---REKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYS 800 (1164)
T ss_pred cccCCCcCCC---hHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHH
Confidence 3445555565 5666655544 444565332 3 46999999999987543
No 271
>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=81.92 E-value=1.5 Score=48.61 Aligned_cols=38 Identities=32% Similarity=0.253 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHh--------------------CCcEEEEcCCCCcHHHHHHHHHHH
Q 004358 19 PEQYSYMLELKRALDA--------------------KGHCLLEMPTGTGKTIALLSLITS 58 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~--------------------~~~~liEaPTGtGKTla~L~~~l~ 58 (759)
-+|.+..+.+..++.+ +.++++.+|||+|||.. +-+++
T Consensus 80 iGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~l--AraLA 137 (413)
T TIGR00382 80 IGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLL--AQTLA 137 (413)
T ss_pred cCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHH--HHHHH
Confidence 3677777777666621 25799999999999974 44444
No 272
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=81.86 E-value=5.6 Score=44.92 Aligned_cols=39 Identities=23% Similarity=0.287 Sum_probs=24.4
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
..+++-+|+|+|||.- +.++..+......+. +|+|.|..
T Consensus 142 npl~i~G~~G~GKTHL-l~Ai~~~l~~~~~~~-~v~yv~~~ 180 (450)
T PRK14087 142 NPLFIYGESGMGKTHL-LKAAKNYIESNFSDL-KVSYMSGD 180 (450)
T ss_pred CceEEECCCCCcHHHH-HHHHHHHHHHhCCCC-eEEEEEHH
Confidence 4689999999999942 233333333222234 88888764
No 273
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=81.86 E-value=1.6 Score=46.60 Aligned_cols=35 Identities=40% Similarity=0.481 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHhCC--cEEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~liEaPTGtGKTla~L~ 54 (759)
+|.+.++.+...+..+. ++++.+|+|||||...-.
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~ 57 (319)
T PRK00440 21 GQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALA 57 (319)
T ss_pred CcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHH
Confidence 67788888888888764 699999999999976543
No 274
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=81.82 E-value=1.4 Score=47.78 Aligned_cols=28 Identities=32% Similarity=0.294 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 24 YMLELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 24 ~~~~v~~al~~~~~~liEaPTGtGKTla 51 (759)
+..-+..++..+++++|.+|||+|||-.
T Consensus 151 ~~~~l~~~v~~~~nilI~G~tGSGKTTl 178 (344)
T PRK13851 151 LEAFLHACVVGRLTMLLCGPTGSGKTTM 178 (344)
T ss_pred HHHHHHHHHHcCCeEEEECCCCccHHHH
Confidence 4445556677789999999999999963
No 275
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=81.69 E-value=3.5 Score=49.82 Aligned_cols=66 Identities=20% Similarity=0.221 Sum_probs=45.9
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC-C-CCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~-~-~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
..|.|++.+. ...++++|-|+.|||||.++..= ++|+... + ... +|+..|=|..-...+.+-+..+
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 LNPEQREAVK------TTEGPLLIMAGAGSGKTRVLTHR-IAHLIAEKNVAPW-NILAITFTNKAAREMKERVEKL 72 (726)
T ss_pred cCHHHHHHHh------CCCCCEEEEeCCCCCHHHHHHHH-HHHHHHcCCCCHH-HeeeeeccHHHHHHHHHHHHHH
Confidence 5688887654 23579999999999999886654 4454432 1 234 8999999987666655555544
No 276
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=81.60 E-value=0.34 Score=55.26 Aligned_cols=92 Identities=14% Similarity=0.232 Sum_probs=48.6
Q ss_pred HHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCC-CchhHHHHHHHHHHhccCC-CCeEEEE
Q 004358 521 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCG-RGAVFFS 598 (759)
Q Consensus 521 ~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~-~~aiL~g 598 (759)
-+.+..+.......++|.-.=-.+|+-+..++++.|.. ..-+-++ ...++..+++.|... .| ....|+.
T Consensus 735 l~~le~i~~~skeK~viVSQwtsvLniv~~hi~~~g~~-------y~si~Gqv~vK~Rq~iv~~FN~~--k~~~rVmLlS 805 (901)
T KOG4439|consen 735 LEILETILTSSKEKVVIVSQWTSVLNIVRKHIQKGGHI-------YTSITGQVLVKDRQEIVDEFNQE--KGGARVMLLS 805 (901)
T ss_pred HHHHHHHhhcccceeeehhHHHHHHHHHHHHHhhCCee-------eeeecCccchhHHHHHHHHHHhc--cCCceEEEEE
Confidence 33444454455666666555555667777777665431 0111111 124567888999774 22 2233343
Q ss_pred eecCccccccccCCCCceEEEEEccCC
Q 004358 599 VARGKVAEGIDFDRHYGRLVIMFGVPF 625 (759)
Q Consensus 599 v~~G~~~EGiDf~~~~~r~vii~glPf 625 (759)
..-| .=|+++-| +.-+|++++=.
T Consensus 806 LtAG--GVGLNL~G--aNHlilvDlHW 828 (901)
T KOG4439|consen 806 LTAG--GVGLNLIG--ANHLILVDLHW 828 (901)
T ss_pred EccC--cceeeecc--cceEEEEeccc
Confidence 3211 12455554 66789999875
No 277
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=81.31 E-value=0.74 Score=44.73 Aligned_cols=34 Identities=26% Similarity=0.293 Sum_probs=20.6
Q ss_pred CHHHHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHH
Q 004358 18 YPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~--~~~~liEaPTGtGKTla 51 (759)
|..|.+.+....++... +.+++|.+|+|+|||.-
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 77777776666653322 35899999999999974
No 278
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=81.28 E-value=1.1 Score=48.52 Aligned_cols=41 Identities=24% Similarity=0.303 Sum_probs=34.2
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHH
Q 004358 10 VYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIA 51 (759)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla 51 (759)
-.|||.- =-+|.++..++..++.+. +.+++.+|+|||||..
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 3689986 589999999998887664 4788999999999963
No 279
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=81.19 E-value=2.9 Score=50.42 Aligned_cols=28 Identities=25% Similarity=0.329 Sum_probs=24.3
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 24 YMLELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 24 ~~~~v~~al~~~~~~liEaPTGtGKTla 51 (759)
...++.+++.+...++|.||||+|||-.
T Consensus 54 ~~~~i~~ai~~~~vvii~getGsGKTTq 81 (845)
T COG1643 54 VRDEILKAIEQNQVVIIVGETGSGKTTQ 81 (845)
T ss_pred HHHHHHHHHHhCCEEEEeCCCCCChHHH
Confidence 4557778888999999999999999975
No 280
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=80.96 E-value=2.6 Score=45.18 Aligned_cols=41 Identities=32% Similarity=0.286 Sum_probs=34.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004358 14 YDNIYPEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (759)
Q Consensus 14 y~~~r~~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~ 54 (759)
|..+||.|....+.+..++.+++ | .++.+|.|+||+...+.
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 34579999999999999999885 5 77899999999976544
No 281
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=80.75 E-value=2.8 Score=43.83 Aligned_cols=44 Identities=27% Similarity=0.480 Sum_probs=27.6
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 27 ~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
.+..++..++++++-+|||+|||-.+ .+.+.+... ... +|++.=
T Consensus 119 ~l~~~v~~~~~ili~G~tGSGKTT~l-~all~~i~~--~~~-~iv~iE 162 (270)
T PF00437_consen 119 FLRSAVRGRGNILISGPTGSGKTTLL-NALLEEIPP--EDE-RIVTIE 162 (270)
T ss_dssp HHHHCHHTTEEEEEEESTTSSHHHHH-HHHHHHCHT--TTS-EEEEEE
T ss_pred HHhhccccceEEEEECCCccccchHH-HHHhhhccc--ccc-ceEEec
Confidence 34444566789999999999999754 444443321 124 666553
No 282
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=80.72 E-value=2.2 Score=41.88 Aligned_cols=54 Identities=20% Similarity=0.330 Sum_probs=32.6
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHhC-------CCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK-------PENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~~l~~~~~~-------~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
.|+..++-||+|+|||...+--+.+++... ..+. +|+|.+--.+ -.++.+-+..
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 467899999999999998887777776421 1234 7777765544 2344443433
No 283
>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=80.68 E-value=2.1 Score=41.95 Aligned_cols=31 Identities=35% Similarity=0.498 Sum_probs=23.8
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla 51 (759)
-+.|.+++. .++..++.+++-+|||+|||-.
T Consensus 11 ~~~~~~~l~---~~v~~g~~i~I~G~tGSGKTTl 41 (186)
T cd01130 11 SPLQAAYLW---LAVEARKNILISGGTGSGKTTL 41 (186)
T ss_pred CHHHHHHHH---HHHhCCCEEEEECCCCCCHHHH
Confidence 355666554 4566789999999999999964
No 284
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=80.67 E-value=5.2 Score=48.24 Aligned_cols=91 Identities=14% Similarity=0.196 Sum_probs=58.0
Q ss_pred HHHhhcc---CEEEEecCCCCCCcchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCC-ChH-HHHH
Q 004358 445 KPVFDRF---QSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRS-DPG-VARN 519 (759)
Q Consensus 445 ~~l~~~~---~svIltSgTL~p~~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~-~~~-~~~~ 519 (759)
+++...- =.+|+|||||.. +-|...+|--++.. ..| ...++.-.|.... ... ....
T Consensus 186 k~~~~~rr~DLKiIimSATld~-~rfs~~f~~apvi~-----------------i~G-R~fPVei~Y~~~~~~d~~l~~a 246 (845)
T COG1643 186 KDLLARRRDDLKLIIMSATLDA-ERFSAYFGNAPVIE-----------------IEG-RTYPVEIRYLPEAEADYILLDA 246 (845)
T ss_pred HHHHhhcCCCceEEEEecccCH-HHHHHHcCCCCEEE-----------------ecC-CccceEEEecCCCCcchhHHHH
Confidence 5544433 369999999976 45666665322211 011 1223444442211 112 4567
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhh
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWND 554 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~ 554 (759)
+...+......-+|.+|||+|.-+..+++.+.+.+
T Consensus 247 i~~~v~~~~~~~~GdILvFLpG~~EI~~~~~~L~~ 281 (845)
T COG1643 247 IVAAVDIHLREGSGSILVFLPGQREIERTAEWLEK 281 (845)
T ss_pred HHHHHHHhccCCCCCEEEECCcHHHHHHHHHHHHh
Confidence 77777777777899999999999999999998876
No 285
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=80.54 E-value=1 Score=40.96 Aligned_cols=20 Identities=25% Similarity=0.488 Sum_probs=12.5
Q ss_pred HhCCcEEEEcCCCCcHHHHH
Q 004358 33 DAKGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~ 52 (759)
+++++++|.+|+|+|||...
T Consensus 2 ~~~~~~~i~G~~G~GKT~~~ 21 (131)
T PF13401_consen 2 QSQRILVISGPPGSGKTTLI 21 (131)
T ss_dssp -----EEEEE-TTSSHHHHH
T ss_pred CCCcccEEEcCCCCCHHHHH
Confidence 35678999999999999753
No 286
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=80.54 E-value=1.6 Score=48.48 Aligned_cols=16 Identities=50% Similarity=0.717 Sum_probs=14.4
Q ss_pred CcEEEEcCCCCcHHHH
Q 004358 36 GHCLLEMPTGTGKTIA 51 (759)
Q Consensus 36 ~~~liEaPTGtGKTla 51 (759)
.++++.+|||||||..
T Consensus 109 ~~iLl~Gp~GtGKT~l 124 (412)
T PRK05342 109 SNILLIGPTGSGKTLL 124 (412)
T ss_pred ceEEEEcCCCCCHHHH
Confidence 5799999999999974
No 287
>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=80.51 E-value=3 Score=38.48 Aligned_cols=15 Identities=53% Similarity=0.640 Sum_probs=13.3
Q ss_pred cEEEEcCCCCcHHHH
Q 004358 37 HCLLEMPTGTGKTIA 51 (759)
Q Consensus 37 ~~liEaPTGtGKTla 51 (759)
++++.+|+|+|||..
T Consensus 1 ~vlL~G~~G~GKt~l 15 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTL 15 (139)
T ss_dssp EEEEEESSSSSHHHH
T ss_pred CEEEECCCCCCHHHH
Confidence 579999999999974
No 288
>COG4889 Predicted helicase [General function prediction only]
Probab=80.48 E-value=0.86 Score=53.42 Aligned_cols=45 Identities=33% Similarity=0.555 Sum_probs=34.7
Q ss_pred ccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccC--CCeeEEEE
Q 004358 603 KVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSK--ADYGMMIF 679 (759)
Q Consensus 603 ~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~--~D~g~iil 679 (759)
=++||||+|- +.+||.. +|. .+|.-+.|++||+.|.. .|||.|||
T Consensus 537 cLSEGVDVPa--LDsViFf-----~pr-------------------------~smVDIVQaVGRVMRKa~gK~yGYIIL 583 (1518)
T COG4889 537 CLSEGVDVPA--LDSVIFF-----DPR-------------------------SSMVDIVQAVGRVMRKAKGKKYGYIIL 583 (1518)
T ss_pred hhhcCCCccc--cceEEEe-----cCc-------------------------hhHHHHHHHHHHHHHhCcCCccceEEE
Confidence 4999999985 5555533 332 36788899999999976 69999997
No 289
>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=80.42 E-value=2.1 Score=44.67 Aligned_cols=43 Identities=19% Similarity=0.176 Sum_probs=28.3
Q ss_pred HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 30 ~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
..+..+...+|-||||+|||.-.+.-+..++... +. +|+|.|-
T Consensus 25 gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~--g~-~vl~iS~ 67 (271)
T cd01122 25 KGLRKGELIILTAGTGVGKTTFLREYALDLITQH--GV-RVGTISL 67 (271)
T ss_pred EEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhc--Cc-eEEEEEc
Confidence 3455677899999999999975554444443321 45 6766653
No 290
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=80.41 E-value=2 Score=47.37 Aligned_cols=33 Identities=30% Similarity=0.210 Sum_probs=27.8
Q ss_pred CHHHHHHHHHHHHHHHh----------------CCcEEEEcCCCCcHHH
Q 004358 18 YPEQYSYMLELKRALDA----------------KGHCLLEMPTGTGKTI 50 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~----------------~~~~liEaPTGtGKTl 50 (759)
-.+|.+....+..++.+ .+++++.+|||+|||.
T Consensus 17 IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~ 65 (443)
T PRK05201 17 IIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTE 65 (443)
T ss_pred cCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHH
Confidence 46788888888888865 3689999999999995
No 291
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=80.00 E-value=9.4 Score=43.99 Aligned_cols=88 Identities=19% Similarity=0.375 Sum_probs=63.1
Q ss_pred HHHHHhhccc-CCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCC-CchhHHHHHHHHHHhccCCCCeEEEEe
Q 004358 522 KLLVEMVSIV-PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSV 599 (759)
Q Consensus 522 ~~l~~~~~~~-~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~aiL~gv 599 (759)
+.|..++... ++.++||+.+-...+.+...|...|+ +..-+.+. ....+...++.|+. |+-.||+|+
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 4455666543 44699999999999999999887653 22333332 33567788999995 677899988
Q ss_pred ecCccccccccCCCCceEEEEEccC
Q 004358 600 ARGKVAEGIDFDRHYGRLVIMFGVP 624 (759)
Q Consensus 600 ~~G~~~EGiDf~~~~~r~vii~glP 624 (759)
.-.++|||+++ ...||=.-+|
T Consensus 331 --DvaaRGiDi~~--v~~VinyD~p 351 (513)
T COG0513 331 --DVAARGLDIPD--VSHVINYDLP 351 (513)
T ss_pred --chhhccCCccc--cceeEEccCC
Confidence 47889999998 4556665555
No 292
>PRK04328 hypothetical protein; Provisional
Probab=79.91 E-value=3.9 Score=42.22 Aligned_cols=51 Identities=16% Similarity=0.149 Sum_probs=28.9
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
.|...+|.+|+|+|||.-.+--+...++ .+. +++|.| |..--+++++.++.
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 4568899999999998743332222222 245 555554 22223456665554
No 293
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=79.70 E-value=4.7 Score=46.91 Aligned_cols=53 Identities=25% Similarity=0.409 Sum_probs=38.9
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHhC---CCCCcEEEEEccchhhHHHHHHHH
Q 004358 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK---PENPVKLIYCTRTVHEMEKTLAEL 87 (759)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~~l~~~~~~---~~~~~kvi~~T~T~~l~~Q~~~el 87 (759)
..+..++.+|+|||||+.-|-++-..+... .... +|.+.+-|..-.+|+..-+
T Consensus 392 tyelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~e-pIlvvC~Tnhavdq~ligi 447 (1025)
T KOG1807|consen 392 TYELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPE-PILVVCLTNHAVDQYLIGI 447 (1025)
T ss_pred hhhhheeecCCCCCceeehHHHHHHHHhccccccccc-ceeeeehhhHHHHHHHHHH
Confidence 357899999999999997776543333221 1234 8999999999999987643
No 294
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=79.54 E-value=3 Score=45.50 Aligned_cols=41 Identities=39% Similarity=0.428 Sum_probs=24.2
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
++.+.+-+|||+|||-.+-=-|-.|....+..+ --+|+|-|
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~k-VaiITtDt 243 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKK-VAIITTDT 243 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcc-eEEEEecc
Confidence 678999999999999763222222221122223 35666666
No 295
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=79.53 E-value=17 Score=45.16 Aligned_cols=85 Identities=13% Similarity=0.189 Sum_probs=51.5
Q ss_pred ccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCc-hhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004358 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (759)
Q Consensus 530 ~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~-~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGi 608 (759)
..+..+|||...-.+|..+.+.+...+ .+.+-+.+... ..+..+++.|... +.+.-.+|+++ ....+||
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 445577776665555655555554332 23344444432 4577889999752 11112344544 5789999
Q ss_pred ccCCCCceEEEEEccCCC
Q 004358 609 DFDRHYGRLVIMFGVPFQ 626 (759)
Q Consensus 609 Df~~~~~r~vii~glPfp 626 (759)
|+.. +..||+.-.|+-
T Consensus 555 NLt~--Ad~VIiyD~dWN 570 (1033)
T PLN03142 555 NLAT--ADIVILYDSDWN 570 (1033)
T ss_pred chhh--CCEEEEeCCCCC
Confidence 9977 788999887763
No 296
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=79.48 E-value=1.6 Score=47.51 Aligned_cols=44 Identities=32% Similarity=0.429 Sum_probs=29.9
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
+.++++-+|||+|||+ |.-+|+-.. +- ++.||--|.--|.-.+.
T Consensus 226 KSNvLllGPtGsGKTl--laqTLAr~l----dV-PfaIcDcTtLTQAGYVG 269 (564)
T KOG0745|consen 226 KSNVLLLGPTGSGKTL--LAQTLARVL----DV-PFAICDCTTLTQAGYVG 269 (564)
T ss_pred cccEEEECCCCCchhH--HHHHHHHHh----CC-CeEEecccchhhccccc
Confidence 3589999999999997 455555432 23 79999777654443343
No 297
>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=79.42 E-value=2.9 Score=43.50 Aligned_cols=35 Identities=23% Similarity=0.248 Sum_probs=27.5
Q ss_pred CHHHHHHHHHHHHHHHhCC-cEEEEcCCCCcHHHHH
Q 004358 18 YPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIAL 52 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~-~~liEaPTGtGKTla~ 52 (759)
.+.+.+....+...+..+. .+++-+|+|+|||...
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLI 60 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH
Confidence 4667777777777777655 6889999999999753
No 298
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=79.32 E-value=6.8 Score=43.19 Aligned_cols=53 Identities=21% Similarity=0.230 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHh-----CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccch
Q 004358 23 SYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (759)
Q Consensus 23 ~~~~~v~~al~~-----~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~ 77 (759)
+++.++..++.+ ...++|-+|+|.|||--+ -++-.++.....+. +|+|.|.-.
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 344555566655 468999999999999732 23333333333334 899987644
No 299
>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=79.12 E-value=1.7 Score=39.54 Aligned_cols=52 Identities=17% Similarity=0.054 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhH
Q 004358 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (759)
Q Consensus 22 ~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~ 80 (759)
+++++.+.+.+..+..++++++-|+|||. |+-+++ +.. +. .-.+.+||-+++
T Consensus 2 ~~la~~l~~~l~~g~vi~L~GdLGaGKTt--f~r~l~--~~l--g~-~~~V~SPTF~l~ 53 (123)
T PF02367_consen 2 IRLAKKLAQILKPGDVILLSGDLGAGKTT--FVRGLA--RAL--GI-DEEVTSPTFSLV 53 (123)
T ss_dssp HHHHHHHHHHHSS-EEEEEEESTTSSHHH--HHHHHH--HHT--T---S----TTTTSE
T ss_pred HHHHHHHHHhCCCCCEEEEECCCCCCHHH--HHHHHH--HHc--CC-CCCcCCCCeEEE
Confidence 36778888999889999999999999996 333333 233 22 347888887754
No 300
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=79.01 E-value=3 Score=45.61 Aligned_cols=22 Identities=36% Similarity=0.436 Sum_probs=17.6
Q ss_pred HhCCcEEEEcCCCCcHHHHHHH
Q 004358 33 DAKGHCLLEMPTGTGKTIALLS 54 (759)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~ 54 (759)
.+++.+++-+|||+|||....-
T Consensus 135 ~~g~ii~lvGptGvGKTTtiak 156 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAK 156 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHH
Confidence 3467899999999999986543
No 301
>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=78.94 E-value=3.8 Score=42.83 Aligned_cols=40 Identities=25% Similarity=0.330 Sum_probs=26.8
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchh
Q 004358 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~ 78 (759)
.++|-+|||+|||-- |=..++...-.|..+ .|++.|+++-
T Consensus 89 I~~VYGPTG~GKSqL-lRNLis~~lI~P~PE-TVfFItP~~~ 128 (369)
T PF02456_consen 89 IGVVYGPTGSGKSQL-LRNLISCQLIQPPPE-TVFFITPQKD 128 (369)
T ss_pred EEEEECCCCCCHHHH-HHHhhhcCcccCCCC-ceEEECCCCC
Confidence 488899999999962 222333322234456 8999999874
No 302
>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=78.94 E-value=3.4 Score=39.56 Aligned_cols=35 Identities=29% Similarity=0.390 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~ 54 (759)
+|.+..+.+...+.+++ | .++++|.|+||+...+.
T Consensus 1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~ 38 (162)
T PF13177_consen 1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALA 38 (162)
T ss_dssp S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHH
T ss_pred CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHH
Confidence 58889999999998884 5 59999999999876543
No 303
>PRK10436 hypothetical protein; Provisional
Probab=78.71 E-value=3.9 Score=46.21 Aligned_cols=26 Identities=35% Similarity=0.511 Sum_probs=20.5
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004358 34 AKGHCLLEMPTGTGKTIALLSLITSYV 60 (759)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~~l~~~ 60 (759)
.++.+++.+|||+|||..+ .++|.+.
T Consensus 217 ~~GliLvtGpTGSGKTTtL-~a~l~~~ 242 (462)
T PRK10436 217 PQGLILVTGPTGSGKTVTL-YSALQTL 242 (462)
T ss_pred cCCeEEEECCCCCChHHHH-HHHHHhh
Confidence 4578999999999999864 5566664
No 304
>PRK05580 primosome assembly protein PriA; Validated
Probab=78.65 E-value=25 Score=42.00 Aligned_cols=135 Identities=16% Similarity=0.178 Sum_probs=77.7
Q ss_pred hHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHH
Q 004358 576 ETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFD 655 (759)
Q Consensus 576 ~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~ 655 (759)
+.+.+++.|++ |+-.||+|+. -.+.|+||++ ...|+|.....+- .-|-.++ ...
T Consensus 468 ~~~~~l~~f~~----g~~~ILVgT~--~iakG~d~p~--v~lV~il~aD~~l-~~pdfra-----------------~Er 521 (679)
T PRK05580 468 ALEQLLAQFAR----GEADILIGTQ--MLAKGHDFPN--VTLVGVLDADLGL-FSPDFRA-----------------SER 521 (679)
T ss_pred hHHHHHHHHhc----CCCCEEEECh--hhccCCCCCC--cCEEEEEcCchhc-cCCccch-----------------HHH
Confidence 45667888886 6778999986 5999999997 4567777655431 0111111 124
Q ss_pred HHHHHHHhcccccccCCCeeEEEEe--ecc------cCCcc------------ccCCCchHHHhhccccccCCCHHHHHH
Q 004358 656 ALRQAAQCVGRVIRSKADYGMMIFA--DKR------YSRHD------------KRSKLPGWILSHLRDAHLNLSTDMALH 715 (759)
Q Consensus 656 a~~~~~QaiGR~IR~~~D~g~iill--D~R------~~~~~------------~~~~lp~w~~~~~~~~~~~~~~~~~~~ 715 (759)
++..+.|.+||.=|... .|.+++. ++- +...+ ....+||+.+-...... ....+.+..
T Consensus 522 ~~~~l~q~~GRagR~~~-~g~viiqT~~p~~~~~~~~~~~d~~~f~~~El~~R~~~~~PPf~~l~~i~~~-~~~~~~~~~ 599 (679)
T PRK05580 522 TFQLLTQVAGRAGRAEK-PGEVLIQTYHPEHPVIQALLAQDYDAFAEQELEERRAAGYPPFGRLALLRAS-AKDEEKAEK 599 (679)
T ss_pred HHHHHHHHHhhccCCCC-CCEEEEEeCCCCCHHHHHHHhCCHHHHHHHHHHHHHhcCCCCHHHhhEeEEe-cCCHHHHHH
Confidence 67888999999988654 4666652 221 00111 12558888764322211 223455666
Q ss_pred HHHHHHHHhcCCC-CcCCcccccc
Q 004358 716 IAREFLRKMAQPY-DKAGSIGRKT 738 (759)
Q Consensus 716 ~~~~Ff~~~~~~~-~~~~~~~~~~ 738 (759)
.+..+...+...+ ..+-+++|+.
T Consensus 600 ~~~~~~~~l~~~~~~~~~~vlGp~ 623 (679)
T PRK05580 600 FAQQLAALLPNLLPLLDVEVLGPA 623 (679)
T ss_pred HHHHHHHHHHhhcccCCeEEeCCc
Confidence 6666666555544 2233456654
No 305
>PHA02533 17 large terminase protein; Provisional
Probab=78.62 E-value=9.7 Score=43.95 Aligned_cols=73 Identities=11% Similarity=0.059 Sum_probs=55.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
-||+. +|.|++++..+. .++..+++.|=..|||.....-++.++-.. .+. .|+++++|..|...+++.++.+.
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 IKVQM-RDYQKDMLKIMH----KNRFNACNLSRQLGKTTVVAIFLLHYVCFN-KDK-NVGILAHKASMAAEVLDRTKQAI 128 (534)
T ss_pred eecCC-cHHHHHHHHHHh----cCeEEEEEEcCcCChHHHHHHHHHHHHHhC-CCC-EEEEEeCCHHHHHHHHHHHHHHH
Confidence 47774 899999987763 456778999999999987665454444333 245 89999999999999998877653
No 306
>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=78.60 E-value=3 Score=44.38 Aligned_cols=33 Identities=33% Similarity=0.350 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHh-----C--CcEEEEcCCCCcHHHHH
Q 004358 20 EQYSYMLELKRALDA-----K--GHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~-----~--~~~liEaPTGtGKTla~ 52 (759)
+|.+..+.+...+.. + .++++.+|+|||||...
T Consensus 8 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 8 GQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLA 47 (305)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 566666666665542 2 47999999999999643
No 307
>PRK05642 DNA replication initiation factor; Validated
Probab=78.53 E-value=5.3 Score=40.84 Aligned_cols=37 Identities=11% Similarity=0.104 Sum_probs=23.3
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
..+++-+|+|+|||-- +-++...... .+. +|+|.+..
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 4688999999999963 3333322111 245 78887753
No 308
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=78.51 E-value=3.2 Score=50.70 Aligned_cols=72 Identities=15% Similarity=0.159 Sum_probs=47.0
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC-CCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~-~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
..|..|.+=+.=++-..-+++++|+-=..|-|||+--.+ .|.|+.... -.+ +.+|.++-...+ ...+|+.+.
T Consensus 370 ~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~-fl~~l~~~~~~~g-pflvvvplst~~-~W~~ef~~w 442 (1373)
T KOG0384|consen 370 ELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTIT-FLSYLFHSLQIHG-PFLVVVPLSTIT-AWEREFETW 442 (1373)
T ss_pred hhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHH-HHHHHHHhhhccC-CeEEEeehhhhH-HHHHHHHHH
Confidence 368899999988888999999999999999999974332 233433221 123 455555544432 344466654
No 309
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=78.50 E-value=31 Score=41.03 Aligned_cols=127 Identities=16% Similarity=0.139 Sum_probs=82.8
Q ss_pred HHHHHHHHHhhcc--c---CCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCC
Q 004358 518 RNYGKLLVEMVSI--V---PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGR 592 (759)
Q Consensus 518 ~~~~~~l~~~~~~--~---~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~ 592 (759)
+.++..+.+.+.. . .|.++||.-+....+.+.+.+.+.-. +. +.+.+-+=..+...-..+++.|.. ...-
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--EY-NGRYAMKITGDAEQAQALIDNFID--KEKY 481 (875)
T ss_pred HHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCc--cc-cCceEEEEeccchhhHHHHHHHHh--cCCC
Confidence 4455555555554 2 36799999999999999998876421 11 112222112333455677888876 2234
Q ss_pred CeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCC
Q 004358 593 GAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA 672 (759)
Q Consensus 593 ~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~ 672 (759)
..|-++| +=+.-|||.|- |.++|..+ .| ..+.++.|-+||.-|--.
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 6788877 58999999995 44444433 11 346778899999999888
Q ss_pred Cee-------EEEEeecc
Q 004358 673 DYG-------MMIFADKR 683 (759)
Q Consensus 673 D~g-------~iillD~R 683 (759)
|+| .+.++|-.
T Consensus 528 ~~~~~~~dK~~F~ifDf~ 545 (875)
T COG4096 528 DLGGPEQDKEFFTIFDFV 545 (875)
T ss_pred cccCccccceeEEEEEhh
Confidence 887 67777754
No 310
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=78.28 E-value=2.6 Score=43.79 Aligned_cols=53 Identities=25% Similarity=0.335 Sum_probs=32.2
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 31 al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
.+..+...+|.+|+|||||.-.+--+...++. +. +++|.|-... -+.+.+.++
T Consensus 19 G~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~---ge-~vlyvs~~e~-~~~l~~~~~ 71 (260)
T COG0467 19 GLPRGSVVLITGPPGTGKTIFALQFLYEGARE---GE-PVLYVSTEES-PEELLENAR 71 (260)
T ss_pred CCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhc---CC-cEEEEEecCC-HHHHHHHHH
Confidence 35567899999999999998665554444432 45 5555543222 234444443
No 311
>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=78.27 E-value=5.4 Score=39.57 Aligned_cols=38 Identities=29% Similarity=0.293 Sum_probs=21.9
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccch
Q 004358 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~ 77 (759)
.+++-+|||+|||-...=-|..+.. . +.--.++|+-|.
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~-~--~~~v~lis~D~~ 40 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKL-K--GKKVALISADTY 40 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHH-T--T--EEEEEESTS
T ss_pred EEEEECCCCCchHhHHHHHHHHHhh-c--cccceeecCCCC
Confidence 5678999999999864333322222 2 341455555554
No 312
>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=78.25 E-value=21 Score=42.68 Aligned_cols=83 Identities=11% Similarity=-0.003 Sum_probs=47.3
Q ss_pred CCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCch---------------------hHHHHHHHHHHhccC
Q 004358 532 PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVV---------------------ETTLALDNYRKACDC 590 (759)
Q Consensus 532 ~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~---------------------~~~~~l~~f~~~~~~ 590 (759)
+++..|+..|.......++.+.+..... ......++....+.. ....++++|++.
T Consensus 514 ~~kamvv~~sr~~a~~~~~~l~~~~~~~-~~~~~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~--- 589 (667)
T TIGR00348 514 KFKAMVVAISRYACVEEKNALDEELNEK-FEASAIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKE--- 589 (667)
T ss_pred cCceeEEEecHHHHHHHHHHHHhhcccc-cCCeeEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCC---
Confidence 5888999999888777777664321000 000111111111000 112456666642
Q ss_pred CCCeEEEEeecCccccccccCCCCceEEEEEc
Q 004358 591 GRGAVFFSVARGKVAEGIDFDRHYGRLVIMFG 622 (759)
Q Consensus 591 ~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~g 622 (759)
+.--||+.| ..+.+|+|.|. +.++++.+
T Consensus 590 ~~~~ilIVv--dmllTGFDaP~--l~tLyldK 617 (667)
T TIGR00348 590 ENPKLLIVV--DMLLTGFDAPI--LNTLYLDK 617 (667)
T ss_pred CCceEEEEE--cccccccCCCc--cceEEEec
Confidence 344688766 59999999996 66777777
No 313
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=78.22 E-value=3.2 Score=38.44 Aligned_cols=30 Identities=23% Similarity=0.325 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 22 ~~~~~~v~~al~~~~~~liEaPTGtGKTla 51 (759)
.++.+.+.++...+.+++|.+++||||+..
T Consensus 8 ~~l~~~l~~~a~~~~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 8 RRLRRQLERLAKSSSPVLITGEPGTGKSLL 37 (138)
T ss_dssp HHHHHHHHHHHCSSS-EEEECCTTSSHHHH
T ss_pred HHHHHHHHHHhCCCCcEEEEcCCCCCHHHH
Confidence 444555555556678999999999999974
No 314
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.17 E-value=1.8 Score=50.76 Aligned_cols=36 Identities=31% Similarity=0.366 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~~ 55 (759)
+|......+..++.+++ | .|+.+|.|+|||....+-
T Consensus 20 Gq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~l 58 (585)
T PRK14950 20 GQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARIL 58 (585)
T ss_pred CCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHH
Confidence 88899988988888874 4 489999999999876543
No 315
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=77.81 E-value=7.6 Score=48.14 Aligned_cols=77 Identities=23% Similarity=0.336 Sum_probs=56.1
Q ss_pred eeCCCCCCCHHHHHHHHHHHH-HHHhC-----CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHH
Q 004358 10 VYFPYDNIYPEQYSYMLELKR-ALDAK-----GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (759)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~-al~~~-----~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~ 83 (759)
+.=||+ +..|...+....+ .+... +.++|-=-||+|||++.+..|--. ...+..+ +|++.|-...|-.|+
T Consensus 244 ~~k~~~--~~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~~l-~~~~~~~-~v~fvvDR~dLd~Q~ 319 (962)
T COG0610 244 VKKKYQ--RYAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARLL-LELPKNP-KVLFVVDRKDLDDQT 319 (962)
T ss_pred cchhHH--HHHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHHHH-HhccCCC-eEEEEechHHHHHHH
Confidence 334553 5677777774444 33332 359999999999999988865433 3445556 999999999999999
Q ss_pred HHHHHhh
Q 004358 84 LAELKLL 90 (759)
Q Consensus 84 ~~el~~l 90 (759)
.+++..+
T Consensus 320 ~~~f~~~ 326 (962)
T COG0610 320 SDEFQSF 326 (962)
T ss_pred HHHHHHH
Confidence 9998875
No 316
>PRK08084 DNA replication initiation factor; Provisional
Probab=77.80 E-value=5.3 Score=40.88 Aligned_cols=52 Identities=19% Similarity=0.203 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 21 QYSYMLELKRALDA--KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 21 Q~~~~~~v~~al~~--~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
+......+.+.... +.++++-+|+|+|||--.-. +...+.. .+. ++.|.+-.
T Consensus 29 n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a-~~~~~~~--~~~-~v~y~~~~ 82 (235)
T PRK08084 29 NDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHA-ACAELSQ--RGR-AVGYVPLD 82 (235)
T ss_pred cHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHH-HHHHHHh--CCC-eEEEEEHH
Confidence 44444444444332 25899999999999963221 1112222 245 78877654
No 317
>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=77.74 E-value=5.8 Score=40.12 Aligned_cols=51 Identities=22% Similarity=0.159 Sum_probs=32.0
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
.+...++.+|+|+|||.-.+--+...++ .+. +++|.|-..+ .+|+++.+..
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~---~g~-~~~y~s~e~~-~~~l~~~~~~ 65 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLK---NGE-KAMYISLEER-EERILGYAKS 65 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHh---CCC-eEEEEECCCC-HHHHHHHHHH
Confidence 3567899999999998744433333222 256 7777755443 4566665544
No 318
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=77.62 E-value=1.8 Score=50.01 Aligned_cols=36 Identities=25% Similarity=0.191 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~~ 55 (759)
+|......+..++.+++ | .++.+|.|+|||..+.+-
T Consensus 20 GQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~l 58 (605)
T PRK05896 20 GQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIF 58 (605)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHH
Confidence 89999999999997763 4 678999999999876553
No 319
>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=77.58 E-value=2.1 Score=39.48 Aligned_cols=51 Identities=20% Similarity=0.076 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhH
Q 004358 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (759)
Q Consensus 23 ~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~ 80 (759)
++.+.+.+.+..+..+++.++.|+|||. |+-.++- .. +. .--+.+||-+++
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaGKTt--l~~~l~~--~l--g~-~~~v~SPTf~lv 60 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAGKTT--LVQGLLQ--GL--GI-QGNVTSPTFTLV 60 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCCHHH--HHHHHHH--Hc--CC-CCcccCCCeeee
Confidence 5666777777778899999999999996 3333332 22 22 345778886654
No 320
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=77.57 E-value=1.9 Score=51.00 Aligned_cols=36 Identities=31% Similarity=0.391 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLSL 55 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~~ 55 (759)
+|......+..++..++ |+ |+.+|.|+|||.++.+-
T Consensus 22 GQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriL 60 (725)
T PRK07133 22 GQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIF 60 (725)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHH
Confidence 89999999999998874 55 78999999999876543
No 321
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=77.49 E-value=5.1 Score=40.83 Aligned_cols=53 Identities=17% Similarity=0.206 Sum_probs=33.3
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+-.+...++.+|+|+|||.-.+.-+...++ .+. +++|.|--.+. +++++.+..
T Consensus 22 ~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~---~g~-~~~y~~~e~~~-~~~~~~~~~ 74 (234)
T PRK06067 22 IPFPSLILIEGDHGTGKSVLSQQFVYGALK---QGK-KVYVITTENTS-KSYLKQMES 74 (234)
T ss_pred CcCCcEEEEECCCCCChHHHHHHHHHHHHh---CCC-EEEEEEcCCCH-HHHHHHHHH
Confidence 334568999999999999754433333232 356 78777765443 466665544
No 322
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.25 E-value=2.8 Score=48.07 Aligned_cols=35 Identities=31% Similarity=0.301 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~ 54 (759)
+|......+..++.+++ |+ ++.+|.|||||....+
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 64 8999999999976544
No 323
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=77.24 E-value=3.4 Score=43.50 Aligned_cols=49 Identities=27% Similarity=0.181 Sum_probs=34.7
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhC---CC-CCcEEEEEccchhhHHHHHHHH
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSK---PE-NPVKLIYCTRTVHEMEKTLAEL 87 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~---~~-~~~kvi~~T~T~~l~~Q~~~el 87 (759)
+.+++.+|+|||||- ||-||+--..- .. .+ -++|=-+.|++-...+.|-
T Consensus 178 RliLlhGPPGTGKTS--LCKaLaQkLSIR~~~~y~~-~~liEinshsLFSKWFsES 230 (423)
T KOG0744|consen 178 RLILLHGPPGTGKTS--LCKALAQKLSIRTNDRYYK-GQLIEINSHSLFSKWFSES 230 (423)
T ss_pred eEEEEeCCCCCChhH--HHHHHHHhheeeecCcccc-ceEEEEehhHHHHHHHhhh
Confidence 458899999999995 78887642211 00 12 5788888899888887763
No 324
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=77.15 E-value=3.1 Score=44.93 Aligned_cols=34 Identities=35% Similarity=0.309 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHh----C---CcEEEEcCCCCcHHHHHH
Q 004358 20 EQYSYMLELKRALDA----K---GHCLLEMPTGTGKTIALL 53 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~----~---~~~liEaPTGtGKTla~L 53 (759)
+|.+.++.+...+.. + .++++.+|+|||||....
T Consensus 29 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 29 GQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred CcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence 677777666655542 2 489999999999997544
No 325
>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=77.08 E-value=4.2 Score=46.46 Aligned_cols=50 Identities=18% Similarity=0.171 Sum_probs=33.3
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
|...+|.+|+|||||.-.+--+...++ .+. +++|.+ +..-.+|+++...+
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~---~ge-~~~y~s-~eEs~~~i~~~~~~ 312 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACA---NKE-RAILFA-YEESRAQLLRNAYS 312 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHH---CCC-eEEEEE-eeCCHHHHHHHHHH
Confidence 467999999999999855544333332 356 888877 34445677776555
No 326
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=77.05 E-value=3.1 Score=47.56 Aligned_cols=35 Identities=23% Similarity=0.103 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~---~~liEaPTGtGKTla~L~ 54 (759)
+|..+...+..++.+++ ..++.+|.|||||....+
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 89999998888888875 588999999999986554
No 327
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=77.02 E-value=2.9 Score=44.81 Aligned_cols=41 Identities=24% Similarity=0.283 Sum_probs=30.3
Q ss_pred CCC-CCCCH-------HHHHHHHHHHHHHHhCC--cEEE-EcCCCCcHHHHH
Q 004358 12 FPY-DNIYP-------EQYSYMLELKRALDAKG--HCLL-EMPTGTGKTIAL 52 (759)
Q Consensus 12 FPy-~~~r~-------~Q~~~~~~v~~al~~~~--~~li-EaPTGtGKTla~ 52 (759)
+|+ +++|| +|.+....+...+.++. ++++ .+|+|+|||...
T Consensus 9 ~~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la 60 (316)
T PHA02544 9 FMWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVA 60 (316)
T ss_pred CcceeccCCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHH
Confidence 344 45677 78888888888887774 4555 999999999753
No 328
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=76.92 E-value=5.9 Score=42.50 Aligned_cols=62 Identities=24% Similarity=0.175 Sum_probs=40.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchh
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~ 78 (759)
|+-.| |-.+..++- ++|-+. +.+.+-++-|||||+-.|+++|.-....+.-+ |||++-+|..
T Consensus 224 wGi~p-rn~eQ~~AL---dlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~-KiiVtRp~vp 287 (436)
T COG1875 224 WGIRP-RNAEQRVAL---DLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYR-KIIVTRPTVP 287 (436)
T ss_pred hccCc-ccHHHHHHH---HHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhc-eEEEecCCcC
Confidence 44444 555555542 444444 46778899999999999999887655433234 6777766554
No 329
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=76.87 E-value=4.9 Score=40.70 Aligned_cols=37 Identities=14% Similarity=-0.014 Sum_probs=22.4
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
+..+++-+|+|||||-. +-+++...... +. +++|.+.
T Consensus 42 ~~~~~l~G~~G~GKT~L--a~ai~~~~~~~-~~-~~~~i~~ 78 (227)
T PRK08903 42 DRFFYLWGEAGSGRSHL--LQALVADASYG-GR-NARYLDA 78 (227)
T ss_pred CCeEEEECCCCCCHHHH--HHHHHHHHHhC-CC-cEEEEeh
Confidence 45899999999999953 33333322112 34 5666654
No 330
>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=76.74 E-value=5.8 Score=41.36 Aligned_cols=30 Identities=37% Similarity=0.495 Sum_probs=20.5
Q ss_pred HHHHHh-CCcEEEEcCCCCcHHHHHHHHHHHH
Q 004358 29 KRALDA-KGHCLLEMPTGTGKTIALLSLITSY 59 (759)
Q Consensus 29 ~~al~~-~~~~liEaPTGtGKTla~L~~~l~~ 59 (759)
.+++.. ++.++|-+|||+|||-.+ .+.+.+
T Consensus 73 ~~~~~~~~GlilisG~tGSGKTT~l-~all~~ 103 (264)
T cd01129 73 RKLLEKPHGIILVTGPTGSGKTTTL-YSALSE 103 (264)
T ss_pred HHHHhcCCCEEEEECCCCCcHHHHH-HHHHhh
Confidence 444443 468999999999999754 334444
No 331
>PRK13764 ATPase; Provisional
Probab=76.44 E-value=6.5 Score=45.75 Aligned_cols=49 Identities=20% Similarity=0.294 Sum_probs=30.5
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHH-hCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004358 11 YFPYDNIYPEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIALLSLITSYV 60 (759)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~al~-~~~~~liEaPTGtGKTla~L~~~l~~~ 60 (759)
.-|...+.-.+..+...+.+.+. .++++++-+|||+|||-. |.+.+.+.
T Consensus 232 rrp~~~~~Le~l~l~~~l~~~l~~~~~~ILIsG~TGSGKTTl-l~AL~~~i 281 (602)
T PRK13764 232 VRPVVKLSLEDYNLSEKLKERLEERAEGILIAGAPGAGKSTF-AQALAEFY 281 (602)
T ss_pred EccCCCCCHHHhCCCHHHHHHHHhcCCEEEEECCCCCCHHHH-HHHHHHHH
Confidence 33554444455554445555553 467899999999999974 34444444
No 332
>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=76.41 E-value=3.7 Score=42.69 Aligned_cols=38 Identities=13% Similarity=0.164 Sum_probs=24.5
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
-.+...+|.+|+|+|||.-.+--+...++ .+. +++|.|
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 34568999999999999865543333332 245 555554
No 333
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=76.33 E-value=6.5 Score=42.07 Aligned_cols=49 Identities=20% Similarity=0.304 Sum_probs=35.4
Q ss_pred HHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchh
Q 004358 25 MLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (759)
Q Consensus 25 ~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~ 78 (759)
+..+..+++.++++++.+|||+|||-. |.+.+... +... |++..-.|..
T Consensus 133 ~ayL~~~ie~~~siii~G~t~sGKTt~-lnall~~I---p~~~-rivtIEdt~E 181 (312)
T COG0630 133 AAYLWLAIEARKSIIICGGTASGKTTL-LNALLDFI---PPEE-RIVTIEDTPE 181 (312)
T ss_pred HHHHHHHHHcCCcEEEECCCCCCHHHH-HHHHHHhC---Cchh-cEEEEecccc
Confidence 344788899999999999999999975 44444432 3234 7888866665
No 334
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=76.07 E-value=9.6 Score=41.10 Aligned_cols=57 Identities=16% Similarity=0.154 Sum_probs=36.5
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccch
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~ 77 (759)
-|.-.++.+.+..+...+.+++|.+++||||+.. +-++........++ =|.+-+.+.
T Consensus 12 S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~l--A~~iH~~s~r~~~p-fv~v~c~~~ 68 (326)
T PRK11608 12 ANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELI--ASRLHYLSSRWQGP-FISLNCAAL 68 (326)
T ss_pred CHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHH--HHHHHHhCCccCCC-eEEEeCCCC
Confidence 3566677777777777889999999999999974 33333322212234 355555554
No 335
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=75.66 E-value=9.6 Score=42.01 Aligned_cols=19 Identities=37% Similarity=0.497 Sum_probs=15.7
Q ss_pred CcEEEEcCCCCcHHHHHHH
Q 004358 36 GHCLLEMPTGTGKTIALLS 54 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~ 54 (759)
.++++-+|||+|||....-
T Consensus 175 ~vi~lvGptGvGKTTT~aK 193 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAK 193 (388)
T ss_pred eEEEEECCCCCCHHHHHHH
Confidence 5788999999999987543
No 336
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=75.58 E-value=3.6 Score=47.06 Aligned_cols=35 Identities=31% Similarity=0.258 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~ 54 (759)
+|....+.+..++..++ |+ ++.+|+|||||....+
T Consensus 18 Gq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~ 55 (504)
T PRK14963 18 GQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARL 55 (504)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 78888888888888875 55 9999999999987654
No 337
>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=75.41 E-value=1.4 Score=48.75 Aligned_cols=43 Identities=19% Similarity=0.148 Sum_probs=31.8
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH
Q 004358 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
|+++-||||+|||.++++|.+.. . +. .+||.-+.-.+.+....
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~---~--~~-s~vv~D~Kge~~~~t~~ 43 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLT---W--PG-SVVVLDPKGENFELTSE 43 (384)
T ss_pred CeeEecCCCCCCccEEEccchhc---C--CC-CEEEEccchhHHHHHHH
Confidence 68999999999999999997752 2 24 67777777666654443
No 338
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=75.28 E-value=46 Score=37.77 Aligned_cols=170 Identities=16% Similarity=0.133 Sum_probs=93.5
Q ss_pred EEEEecCCCCCCc-chhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhccc
Q 004358 453 SVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIV 531 (759)
Q Consensus 453 svIltSgTL~p~~-~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~ 531 (759)
.++=.|+|+.... ......|++...... .+-++.+-..+++=. ...++ -..++...++.+.+.++.+++. .
T Consensus 453 ~~~~~~~~~K~~~~~~~~~~~~~E~~Li~--~DGSPs~~K~~V~WN---P~~~P--~~~~~~~~~i~E~s~~~~~~i~-~ 524 (1034)
T KOG4150|consen 453 GVYDGDTPYKDRTRLRSELANLSELELVT--IDGSPSSEKLFVLWN---PSAPP--TSKSEKSSKVVEVSHLFAEMVQ-H 524 (1034)
T ss_pred ceEeCCCCcCCHHHHHHHhcCCcceEEEE--ecCCCCccceEEEeC---CCCCC--cchhhhhhHHHHHHHHHHHHHH-c
Confidence 4677788885543 344455776543211 111122222233311 11122 1234455688888998888874 5
Q ss_pred CCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHH------------HhccCCCCeEEEEe
Q 004358 532 PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYR------------KACDCGRGAVFFSV 599 (759)
Q Consensus 532 ~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~------------~~~~~~~~aiL~gv 599 (759)
+-+++.|+||.+.-+-+...-++ ||+|..- ..-..+-.|+ +..-+| =|.|+
T Consensus 525 ~~R~IAFC~~R~~CEL~~~~~R~------------I~~ET~~--~LV~~i~SYRGGY~A~DRRKIE~~~F~G---~L~gi 587 (1034)
T KOG4150|consen 525 GLRCIAFCPSRKLCELVLCLTRE------------ILAETAP--HLVEAITSYRGGYIAEDRRKIESDLFGG---KLCGI 587 (1034)
T ss_pred CCcEEEeccHHHHHHHHHHHHHH------------HHHHhhH--HHHHHHHhhcCccchhhHHHHHHHhhCC---eeeEE
Confidence 56899999999998877765432 2333211 1111111221 111112 23332
Q ss_pred e-cCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEE
Q 004358 600 A-RGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMI 678 (759)
Q Consensus 600 ~-~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~ii 678 (759)
- ...+-=|||+.+ +.+|+.+|.|+. +-.+.|-.||.=|..+|.=+++
T Consensus 588 IaTNALELGIDIG~--LDAVl~~GFP~S------------------------------~aNl~QQ~GRAGRRNk~SLavy 635 (1034)
T KOG4150|consen 588 IATNALELGIDIGH--LDAVLHLGFPGS------------------------------IANLWQQAGRAGRRNKPSLAVY 635 (1034)
T ss_pred Eecchhhhcccccc--ceeEEEccCchh------------------------------HHHHHHHhccccccCCCceEEE
Confidence 1 235677999976 789999999873 2345577788888887765555
Q ss_pred E
Q 004358 679 F 679 (759)
Q Consensus 679 l 679 (759)
+
T Consensus 636 v 636 (1034)
T KOG4150|consen 636 V 636 (1034)
T ss_pred E
Confidence 5
No 339
>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=75.27 E-value=5.9 Score=46.18 Aligned_cols=31 Identities=32% Similarity=0.523 Sum_probs=22.3
Q ss_pred HHHHH-hCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004358 29 KRALD-AKGHCLLEMPTGTGKTIALLSLITSYV 60 (759)
Q Consensus 29 ~~al~-~~~~~liEaPTGtGKTla~L~~~l~~~ 60 (759)
.+++. .++.+++.+|||+|||-.+ .+++.+.
T Consensus 309 ~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~ 340 (564)
T TIGR02538 309 LEAIHKPQGMVLVTGPTGSGKTVSL-YTALNIL 340 (564)
T ss_pred HHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhh
Confidence 34444 3578899999999999764 5566654
No 340
>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=74.99 E-value=2.9 Score=48.34 Aligned_cols=34 Identities=35% Similarity=0.338 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHH
Q 004358 19 PEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla~ 52 (759)
-+|...|..+..++... .++++.+|+|||||.+.
T Consensus 68 iGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lA 103 (531)
T TIGR02902 68 IGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAA 103 (531)
T ss_pred eCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHH
Confidence 37888888888777554 68999999999999753
No 341
>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=74.80 E-value=6.2 Score=39.78 Aligned_cols=33 Identities=30% Similarity=0.322 Sum_probs=22.5
Q ss_pred CHHHHHHHHHHHHHH---Hh-C---CcEEEEcCCCCcHHH
Q 004358 18 YPEQYSYMLELKRAL---DA-K---GHCLLEMPTGTGKTI 50 (759)
Q Consensus 18 r~~Q~~~~~~v~~al---~~-~---~~~liEaPTGtGKTl 50 (759)
+-+|.++.....-.+ .. + .|+++-+|+|+|||.
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 578988887754333 22 2 489999999999995
No 342
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=74.66 E-value=5.5 Score=46.80 Aligned_cols=66 Identities=14% Similarity=0.172 Sum_probs=44.5
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCC-cEEEEEccchhhHHHHHHHH
Q 004358 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENP-VKLIYCTRTVHEMEKTLAEL 87 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~-~kvi~~T~T~~l~~Q~~~el 87 (759)
-.+|.+.+..+..++.++.++++.+|+|||||...-. ++- ..+... ..+++...+......+++.+
T Consensus 33 vigq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla~~--l~~--~l~~~~~~~~~~~~np~~~~~~~~~~v 99 (637)
T PRK13765 33 VIGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLAKA--MAE--LLPKEELQDILVYPNPEDPNNPKIRTV 99 (637)
T ss_pred cCChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHH--HHH--HcChHhHHHheEeeCCCcchHHHHHHH
Confidence 3579999999999999999999999999999975433 221 111110 15666666655555555543
No 343
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=74.56 E-value=6.3 Score=41.55 Aligned_cols=45 Identities=24% Similarity=0.245 Sum_probs=29.8
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHh-------CCCCCcEEEEEccc
Q 004358 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLS-------KPENPVKLIYCTRT 76 (759)
Q Consensus 31 al~~~~~~liEaPTGtGKTla~L~~~l~~~~~-------~~~~~~kvi~~T~T 76 (759)
.+.++-..++-++.|+|||+.+|.-.++.+.. .++.+ +|+|.|--
T Consensus 85 ~fr~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epG-kvlyvslE 136 (402)
T COG3598 85 FFRKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPG-KVLYVSLE 136 (402)
T ss_pred HhhcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCC-eEEEEEec
Confidence 34445556777999999999877665554331 23456 88888653
No 344
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=74.55 E-value=4.4 Score=45.39 Aligned_cols=39 Identities=36% Similarity=0.402 Sum_probs=23.6
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
++.+++-+|||+|||.....-+..+.... .+. +|.+.|-
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 45678889999999976554333333111 234 6666653
No 345
>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=74.53 E-value=5.2 Score=37.48 Aligned_cols=38 Identities=29% Similarity=0.351 Sum_probs=23.3
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchh
Q 004358 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~ 78 (759)
+.+|.+|+|+|||.-...-+..... .+. +|+|.+....
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 4688999999999855443332222 245 6766655433
No 346
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=74.52 E-value=4.3 Score=42.80 Aligned_cols=18 Identities=50% Similarity=0.606 Sum_probs=14.7
Q ss_pred CcEEEEcCCCCcHHHHHH
Q 004358 36 GHCLLEMPTGTGKTIALL 53 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L 53 (759)
+.+++-+|||+|||....
T Consensus 195 ~vi~~vGptGvGKTTt~~ 212 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLA 212 (282)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 467788999999997543
No 347
>PF12846 AAA_10: AAA-like domain
Probab=74.50 E-value=4 Score=42.97 Aligned_cols=37 Identities=27% Similarity=0.451 Sum_probs=24.5
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
+.|.+|-++||+|||.....- +...... +. ++++.=+
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 368999999999999877643 3333322 34 6666633
No 348
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.35 E-value=3.8 Score=47.99 Aligned_cols=35 Identities=23% Similarity=0.245 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~ 54 (759)
+|..+...+..++.+++ | .++.+|.|+|||....+
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 89999999999998873 5 77999999999986654
No 349
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.23 E-value=3.9 Score=47.19 Aligned_cols=35 Identities=29% Similarity=0.304 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~ 54 (759)
+|......+..++..++ |+ ++.+|.|+|||....+
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 78888888888888874 65 8999999999976554
No 350
>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=74.20 E-value=4.2 Score=41.25 Aligned_cols=40 Identities=25% Similarity=0.250 Sum_probs=25.5
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
+..|...+|.+|+|+|||.-.+.-+...++ .+. +++|.+-
T Consensus 17 i~~G~~~~i~G~~G~GKT~l~~~~~~~~~~---~g~-~~~~is~ 56 (229)
T TIGR03881 17 IPRGFFVAVTGEPGTGKTIFCLHFAYKGLR---DGD-PVIYVTT 56 (229)
T ss_pred CcCCeEEEEECCCCCChHHHHHHHHHHHHh---cCC-eEEEEEc
Confidence 445678999999999998755543333332 245 5655553
No 351
>CHL00181 cbbX CbbX; Provisional
Probab=74.04 E-value=4.6 Score=42.66 Aligned_cols=20 Identities=35% Similarity=0.403 Sum_probs=16.1
Q ss_pred CcEEEEcCCCCcHHHHHHHH
Q 004358 36 GHCLLEMPTGTGKTIALLSL 55 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~ 55 (759)
-|+++.+|+|||||..+-+-
T Consensus 60 ~~ill~G~pGtGKT~lAr~l 79 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALKM 79 (287)
T ss_pred ceEEEECCCCCCHHHHHHHH
Confidence 46899999999999865443
No 352
>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=74.02 E-value=4.3 Score=40.39 Aligned_cols=32 Identities=31% Similarity=0.387 Sum_probs=19.3
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
..+|-+|||||||-..+ ..++.+ +. +||+.-+
T Consensus 3 v~~i~GpT~tGKt~~ai----~lA~~~--g~-pvI~~Dr 34 (233)
T PF01745_consen 3 VYLIVGPTGTGKTALAI----ALAQKT--GA-PVISLDR 34 (233)
T ss_dssp EEEEE-STTSSHHHHHH----HHHHHH-----EEEEE-S
T ss_pred EEEEECCCCCChhHHHH----HHHHHh--CC-CEEEecc
Confidence 46789999999996533 334443 45 7887744
No 353
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=74.01 E-value=16 Score=41.42 Aligned_cols=80 Identities=20% Similarity=0.297 Sum_probs=54.8
Q ss_pred ccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccc
Q 004358 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 609 (759)
Q Consensus 530 ~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiD 609 (759)
..+-.+|||.-|++.-.+++..+. .++++. ...|.-| +.....++.++.|+. |+=-||+ |.+-+..|||
T Consensus 385 g~~PP~lIfVQs~eRak~L~~~L~---~~~~i~-v~vIh~e-~~~~qrde~~~~FR~----g~IwvLi--cTdll~RGiD 453 (593)
T KOG0344|consen 385 GFKPPVLIFVQSKERAKQLFEELE---IYDNIN-VDVIHGE-RSQKQRDETMERFRI----GKIWVLI--CTDLLARGID 453 (593)
T ss_pred cCCCCeEEEEecHHHHHHHHHHhh---hccCcc-eeeEecc-cchhHHHHHHHHHhc----cCeeEEE--ehhhhhcccc
Confidence 467899999999999999988874 222231 1123222 234567888999997 4544555 5589999999
Q ss_pred cCCCCceEEEEEc
Q 004358 610 FDRHYGRLVIMFG 622 (759)
Q Consensus 610 f~~~~~r~vii~g 622 (759)
|.| ..+||..-
T Consensus 454 f~g--vn~VInyD 464 (593)
T KOG0344|consen 454 FKG--VNLVINYD 464 (593)
T ss_pred ccC--cceEEecC
Confidence 999 45566633
No 354
>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=73.87 E-value=3.4 Score=48.92 Aligned_cols=40 Identities=28% Similarity=0.310 Sum_probs=32.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla~ 52 (759)
|||.. --+|..+...+.-++.+. ++++|++|+|||||...
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 88986 578999888887777653 57999999999999753
No 355
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.85 E-value=3.9 Score=49.33 Aligned_cols=36 Identities=28% Similarity=0.297 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLSL 55 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~~ 55 (759)
+|......+..++..++ |+ |+.+|.|||||....+-
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiL 58 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLF 58 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHH
Confidence 88888888888898874 66 89999999999866543
No 356
>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=73.81 E-value=5.7 Score=50.16 Aligned_cols=53 Identities=25% Similarity=0.348 Sum_probs=37.3
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhC--CCCCcEEEEEccchhhHHHHHHHHH
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~--~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
.+..+|||..|||||.+.-.-.+...... -..+ +|++.|=|.+-.+.+-+-++
T Consensus 9 ~G~~lieAsAGtGKT~ti~~~~lrll~~~~~~~~~-~iLvvTFT~aAt~el~~RIr 63 (1087)
T TIGR00609 9 NGTFLIEASAGTGKTFTIAQLYLRLLLEGGPLTVE-EILVVTFTNAATEELKTRIR 63 (1087)
T ss_pred CCCEEEEECCCCCHHHHHHHHHHHHHhcCCCCChh-hEEEEehhHHHHHHHHHHHH
Confidence 36889999999999997555444444322 1224 89999999987766655444
No 357
>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=73.76 E-value=5.1 Score=40.99 Aligned_cols=39 Identities=31% Similarity=0.399 Sum_probs=26.9
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHH---------hCCCCCcEEEEEcc
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVL---------SKPENPVKLIYCTR 75 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~---------~~~~~~~kvi~~T~ 75 (759)
...++-||.|+|||...|.-+++.+. ....+. +|+|.+-
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~-~Vlyi~~ 49 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPG-RVVYLSA 49 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCc-eEEEEEC
Confidence 46789999999999988776665442 111234 7777763
No 358
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=73.66 E-value=5.8 Score=44.54 Aligned_cols=51 Identities=29% Similarity=0.367 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~-----------~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
.+=++=.++|.+.|.+- +-+++.+|+|||||+ |.-|++ ++.+.+.+|++-+
T Consensus 310 DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTl--LARAvA-----GEA~VPFF~~sGS 371 (752)
T KOG0734|consen 310 DEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTL--LARAVA-----GEAGVPFFYASGS 371 (752)
T ss_pred HHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhH--HHHHhh-----cccCCCeEecccc
Confidence 34445677888888762 358999999999997 444443 2334478887664
No 359
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=73.57 E-value=3.1 Score=50.01 Aligned_cols=33 Identities=33% Similarity=0.400 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHH
Q 004358 20 EQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~-----------~~~liEaPTGtGKTla~ 52 (759)
+|.+.++.|.+++... ..+++.+|||+|||...
T Consensus 462 GQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lA 505 (758)
T PRK11034 462 GQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVT 505 (758)
T ss_pred CcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHH
Confidence 6888888888888731 36899999999999744
No 360
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=73.54 E-value=9.7 Score=43.48 Aligned_cols=44 Identities=5% Similarity=0.097 Sum_probs=38.0
Q ss_pred ChHHHHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcc
Q 004358 513 DPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSG 556 (759)
Q Consensus 513 ~~~~~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~ 556 (759)
++++.+...+.+-++-+.-.+.+.|.++.+.....+...+++..
T Consensus 636 ne~l~qr~~~ii~~mkk~~~etiaVi~kt~~d~~~~~d~lre~~ 679 (747)
T COG3973 636 NEELVQRNPDIIPRMKKRGSETIAVICKTDHDCKAVMDSLREKD 679 (747)
T ss_pred hHHHHHhhHHHHHHHHhcCCCceEEECCcHHHHHHHHHHHhhcc
Confidence 56788888888888888888999999999999999999887653
No 361
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=73.53 E-value=3.9 Score=47.71 Aligned_cols=44 Identities=23% Similarity=0.285 Sum_probs=32.1
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHH
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~ 84 (759)
..|+++-||||+|||.++.+|.|... +. .+||.-+.-.+.+..-
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnLL~~-----~~-S~VV~DpKGEl~~~Ta 201 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNLLFW-----ED-SVVVHDIKLENYELTS 201 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhHHhC-----CC-CEEEEeCcHHHHHHHH
Confidence 36899999999999999999988642 23 4666666655554333
No 362
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=73.51 E-value=3.1 Score=48.34 Aligned_cols=37 Identities=35% Similarity=0.375 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHhC--Cc-EEEEcCCCCcHHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAK--GH-CLLEMPTGTGKTIALLSLI 56 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~--~~-~liEaPTGtGKTla~L~~~ 56 (759)
+|......+..++..+ .| .++.+|.|||||...-+-+
T Consensus 20 Gq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lA 59 (559)
T PRK05563 20 GQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFA 59 (559)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 8999999999999877 46 4679999999998765543
No 363
>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=73.49 E-value=5.5 Score=39.54 Aligned_cols=17 Identities=47% Similarity=0.792 Sum_probs=14.7
Q ss_pred CcEEEEcCCCCcHHHHH
Q 004358 36 GHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~ 52 (759)
+.++|-+|||+|||...
T Consensus 2 GlilI~GptGSGKTTll 18 (198)
T cd01131 2 GLVLVTGPTGSGKSTTL 18 (198)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 56889999999999864
No 364
>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=73.45 E-value=5.3 Score=43.36 Aligned_cols=45 Identities=20% Similarity=0.367 Sum_probs=30.3
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH
Q 004358 39 LLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 39 liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
++.+|.|.|||.....-++.++...+... .|+++ +|..++...+.
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 57899999999998887888877664324 56666 88888777544
No 365
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=73.41 E-value=1.5 Score=43.60 Aligned_cols=61 Identities=10% Similarity=0.193 Sum_probs=41.7
Q ss_pred EEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEE
Q 004358 2 IFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (759)
Q Consensus 2 ~~~i~~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~ 73 (759)
-+.|.++.-.|. +.+....|--.+..|+.++|-+|.|+|||. |+-.+..+... +.+ .|.|-
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 456677776666 344566666677889999999999999996 34445555443 344 57664
No 366
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.37 E-value=3 Score=48.67 Aligned_cols=35 Identities=29% Similarity=0.286 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~ 54 (759)
+|......+..++..++ |+ |+.+|.|+|||....+
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 89999999999998874 55 8999999999987654
No 367
>PRK04296 thymidine kinase; Provisional
Probab=73.30 E-value=5.5 Score=39.23 Aligned_cols=35 Identities=17% Similarity=0.155 Sum_probs=24.1
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEE
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~ 73 (759)
|...++-+|+|+|||..++--+..+.. .+. +|+|.
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~~---~g~-~v~i~ 36 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYEE---RGM-KVLVF 36 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHH---cCC-eEEEE
Confidence 346788999999999876655444433 245 77766
No 368
>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=73.25 E-value=4.4 Score=42.12 Aligned_cols=18 Identities=33% Similarity=0.370 Sum_probs=15.1
Q ss_pred CcEEEEcCCCCcHHHHHH
Q 004358 36 GHCLLEMPTGTGKTIALL 53 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L 53 (759)
.|+++.+|+|||||...-
T Consensus 43 ~~vll~GppGtGKTtlA~ 60 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVAR 60 (261)
T ss_pred ceEEEEcCCCCCHHHHHH
Confidence 478999999999997543
No 369
>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=73.23 E-value=4.9 Score=41.70 Aligned_cols=47 Identities=19% Similarity=0.244 Sum_probs=33.6
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 27 ~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
.+...+..|...+|-|+||.|||.-.+--+..++... +. +|+|.|-=
T Consensus 11 ~~lgG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~--~~-~vly~SlE 57 (259)
T PF03796_consen 11 RLLGGLRPGELTVIAARPGVGKTAFALQIALNAALNG--GY-PVLYFSLE 57 (259)
T ss_dssp HHHSSB-TT-EEEEEESTTSSHHHHHHHHHHHHHHTT--SS-EEEEEESS
T ss_pred HHhcCCCcCcEEEEEecccCCchHHHHHHHHHHHHhc--CC-eEEEEcCC
Confidence 3334456677899999999999998888887777643 34 77777653
No 370
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=73.17 E-value=13 Score=42.09 Aligned_cols=39 Identities=26% Similarity=0.327 Sum_probs=23.4
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
..+++-+|+|+|||..+-.-+-......+ +. +|+|.+..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~-~~-~v~yi~~~ 187 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNP-NA-KVVYVTSE 187 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCC-CC-eEEEEEHH
Confidence 46899999999999743322221222111 34 78887664
No 371
>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=73.14 E-value=4.8 Score=44.48 Aligned_cols=34 Identities=18% Similarity=0.233 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHH
Q 004358 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~ 52 (759)
..+...+......++++.|+++-+|+|||||-.+
T Consensus 193 r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla 226 (449)
T TIGR02688 193 RQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIY 226 (449)
T ss_pred HHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHH
Confidence 3444445455567788899999999999999543
No 372
>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=73.12 E-value=4.5 Score=47.01 Aligned_cols=38 Identities=21% Similarity=0.444 Sum_probs=26.9
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
..|+++-||||+|||.+ +-..|.|..+. +. ++||-=++
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 44456666544 45 67776544
No 373
>PHA00729 NTP-binding motif containing protein
Probab=73.12 E-value=5.2 Score=40.45 Aligned_cols=27 Identities=22% Similarity=0.343 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhCC--cEEEEcCCCCcHHH
Q 004358 24 YMLELKRALDAKG--HCLLEMPTGTGKTI 50 (759)
Q Consensus 24 ~~~~v~~al~~~~--~~liEaPTGtGKTl 50 (759)
++..+.+.+.+++ +++|.+|+|||||.
T Consensus 4 ~~k~~~~~l~~~~f~nIlItG~pGvGKT~ 32 (226)
T PHA00729 4 LAKKIVSAYNNNGFVSAVIFGKQGSGKTT 32 (226)
T ss_pred HHHHHHHHHhcCCeEEEEEECCCCCCHHH
Confidence 5566777787764 79999999999995
No 374
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=73.08 E-value=2.9 Score=42.70 Aligned_cols=32 Identities=25% Similarity=0.461 Sum_probs=23.5
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC
Q 004358 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK 63 (759)
Q Consensus 31 al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~ 63 (759)
|+...+.+++.+|||+|||-+ +.+.+.|..++
T Consensus 123 a~~kRGLviiVGaTGSGKSTt-mAaMi~yRN~~ 154 (375)
T COG5008 123 ALAKRGLVIIVGATGSGKSTT-MAAMIGYRNKN 154 (375)
T ss_pred hcccCceEEEECCCCCCchhh-HHHHhcccccC
Confidence 455678899999999999976 34556664433
No 375
>PRK06893 DNA replication initiation factor; Validated
Probab=73.07 E-value=9.5 Score=38.78 Aligned_cols=50 Identities=16% Similarity=0.200 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHhC-C-cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 23 SYMLELKRALDAK-G-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 23 ~~~~~v~~al~~~-~-~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
.++..+.+.+... . .+++-+|+|||||--.-+.+-.+.. . +. ++.|.+-+
T Consensus 25 ~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~-~--~~-~~~y~~~~ 76 (229)
T PRK06893 25 LLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLL-N--QR-TAIYIPLS 76 (229)
T ss_pred HHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHH-c--CC-CeEEeeHH
Confidence 3444455554433 2 4689999999999633322222222 1 34 67776654
No 376
>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=73.03 E-value=14 Score=43.58 Aligned_cols=93 Identities=11% Similarity=0.061 Sum_probs=48.4
Q ss_pred hcccCCcEEEEecCHHHHHHHHH-HHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEE-----Eeec
Q 004358 528 VSIVPDGIVCFFVSYSYMDEIIA-TWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFF-----SVAR 601 (759)
Q Consensus 528 ~~~~~gg~lv~f~Sy~~l~~~~~-~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~-----gv~~ 601 (759)
.+..+-.+.+.+.|...|+..+. .=....+..+. ..+ ++.-.++. + ..+.+.+.+ |+..|.- |+..
T Consensus 508 ~Rs~Gi~~~l~~Qs~sqL~~~yG~~~~a~~Il~N~-~t~-i~lr~~d~-~---TAe~is~~l--G~~~v~~~~~s~~~~~ 579 (634)
T TIGR03743 508 GRGAGFQVTAATQTISDIEARLGSKAKARQVLGNF-NNL-IMLRVRDT-E---TAELLSEQL--PEVAIRTKMVSSGSSD 579 (634)
T ss_pred HHhCCcEEEEEEecHHHHHHHhCCHhHHHHHHhhc-CcE-EEEeCCCH-H---HHHHHHHhc--CCeEEEEEEEeeccCC
Confidence 44556688899999999987762 11111111121 223 44444432 2 234454543 4434432 1111
Q ss_pred CccccccccCCCCceEEEEEccCCCCc
Q 004358 602 GKVAEGIDFDRHYGRLVIMFGVPFQYT 628 (759)
Q Consensus 602 G~~~EGiDf~~~~~r~vii~glPfp~~ 628 (759)
+.-..|.+|.+..-+.+=..+-|.-.|
T Consensus 580 ~~~~~g~~fs~s~s~s~~~~~~~Li~p 606 (634)
T TIGR03743 580 TSEDPGTEFSSSVSERVSEEEVPMIPP 606 (634)
T ss_pred CcccccccccCCcceeeeeeeeeccCH
Confidence 112458888887766666677776555
No 377
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=73.02 E-value=4.6 Score=40.88 Aligned_cols=37 Identities=27% Similarity=0.293 Sum_probs=24.6
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
.|...++.+|+|+|||.-.+.-+...+.. +. +++|.+
T Consensus 22 ~g~i~~i~G~~GsGKT~l~~~la~~~~~~---~~-~v~yi~ 58 (225)
T PRK09361 22 RGTITQIYGPPGSGKTNICLQLAVEAAKN---GK-KVIYID 58 (225)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHC---CC-eEEEEE
Confidence 35678999999999998666554444432 34 555554
No 378
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=72.18 E-value=5.8 Score=46.76 Aligned_cols=69 Identities=12% Similarity=0.073 Sum_probs=42.1
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhhhcccCCCCccceEEEeecCCcc
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN 114 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~g~~~~~~~~~l~gr~~ 114 (759)
..|+++-||||+|||.++.+|.+. .. +. .+|+.-+.-.. -.+....++- .+.++...-..+...
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnLL---~~--~g-S~VV~DpKgEl-~~~Ta~~R~~---------~G~~V~vfdP~~~~~ 287 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTAL---KW--GG-PLVVLDPSTEV-APMVSEHRRD---------AGREVIVLDPTNPGT 287 (641)
T ss_pred CceEEEEeCCCCCccceEehhhhh---cC--CC-CEEEEeCcHHH-HHHHHHHHHH---------CCCeEEEEeCCCCcc
Confidence 369999999999999999999874 22 23 46666554443 3444444431 134454444444444
Q ss_pred cccchH
Q 004358 115 LCVNSR 120 (759)
Q Consensus 115 lC~~~~ 120 (759)
|-|++
T Consensus 288 -~~NPL 292 (641)
T PRK13822 288 -GFNVL 292 (641)
T ss_pred -CCCch
Confidence 66665
No 379
>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=72.15 E-value=14 Score=45.81 Aligned_cols=73 Identities=16% Similarity=0.220 Sum_probs=42.9
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhhhhhcccCCCCccceEEEeecCCcc
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN 114 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~g~~~~~~~~~l~gr~~ 114 (759)
..|.+|-||||+|||...-.-+..+.... +. +|+|.=+-.+ ...+.+-.+. .|..+..+.++..+.
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q~~~~~--~~-~v~IiD~g~s-y~~l~~~~~a----------lGG~~~~I~l~~gs~ 540 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQVMAVH--RP-RLFIVEAGNS-FGLLADYAAR----------LGLSVNRVSLKPGSG 540 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHHHHHhc--CC-EEEEEcCCCC-HHHHHHHHHh----------cCCceeEEEecCCCC
Confidence 57999999999999986543333333222 35 8999866655 1111111122 233443456666566
Q ss_pred cccchHH
Q 004358 115 LCVNSRV 121 (759)
Q Consensus 115 lC~~~~~ 121 (759)
.|+|++.
T Consensus 541 ~~lNPf~ 547 (893)
T TIGR03744 541 VSLPPFA 547 (893)
T ss_pred cccCchh
Confidence 8888764
No 380
>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=71.85 E-value=3.4 Score=50.77 Aligned_cols=35 Identities=29% Similarity=0.270 Sum_probs=28.4
Q ss_pred CHHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHH
Q 004358 18 YPEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~-----------~~~liEaPTGtGKTla~ 52 (759)
-.+|-+.+..|.+++... ..+++.+|||||||...
T Consensus 567 v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA 612 (852)
T TIGR03346 567 VVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELA 612 (852)
T ss_pred cCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHH
Confidence 368899999999988752 35889999999999643
No 381
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.83 E-value=4.7 Score=45.78 Aligned_cols=35 Identities=26% Similarity=0.206 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~---~~liEaPTGtGKTla~L~ 54 (759)
+|..+...+..++..++ ..++.+|.|||||....+
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 78889988888888874 588999999999976554
No 382
>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=71.63 E-value=9.6 Score=37.95 Aligned_cols=37 Identities=22% Similarity=0.270 Sum_probs=24.4
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
|....|.+|+|+|||.-.+-.+...+. . +. +++|.+-
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~-~--g~-~v~yi~~ 48 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAAR-Q--GK-KVVYIDT 48 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHh-C--CC-eEEEEEC
Confidence 467889999999999876654444332 1 34 5555544
No 383
>PRK13342 recombination factor protein RarA; Reviewed
Probab=71.61 E-value=3.6 Score=45.95 Aligned_cols=34 Identities=32% Similarity=0.347 Sum_probs=26.4
Q ss_pred HHHHHHHH---HHHHHHhCC--cEEEEcCCCCcHHHHHH
Q 004358 20 EQYSYMLE---LKRALDAKG--HCLLEMPTGTGKTIALL 53 (759)
Q Consensus 20 ~Q~~~~~~---v~~al~~~~--~~liEaPTGtGKTla~L 53 (759)
+|...+.. +.+.+.++. ++++.+|+|||||...-
T Consensus 16 Gq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~ 54 (413)
T PRK13342 16 GQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLAR 54 (413)
T ss_pred CcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHH
Confidence 67777655 777777664 79999999999997543
No 384
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=71.57 E-value=10 Score=42.70 Aligned_cols=38 Identities=26% Similarity=0.324 Sum_probs=23.6
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
..+++-+|+|+|||.-+-+-+-......+ +. +|+|.|.
T Consensus 131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~-~~-~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEP-DL-RVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHHHHHhCC-CC-eEEEEEH
Confidence 36999999999999743322222222222 34 7888875
No 385
>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=71.38 E-value=23 Score=39.56 Aligned_cols=85 Identities=18% Similarity=0.203 Sum_probs=59.3
Q ss_pred cccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004358 529 SIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (759)
Q Consensus 529 ~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGi 608 (759)
....+|+|||.|||-..=++.+++++.++ .. ....|-....+...+...|.. |+..||+-+-|--|..=.
T Consensus 297 ~~~~~~~LIfIPSYfDfVRlRN~lk~~~~-----sF-~~i~EYts~~~isRAR~~F~~----G~~~iLL~TER~HFfrRy 366 (442)
T PF06862_consen 297 DSKMSGTLIFIPSYFDFVRLRNYLKKENI-----SF-VQISEYTSNSDISRARSQFFH----GRKPILLYTERFHFFRRY 366 (442)
T ss_pred ccCCCcEEEEecchhhhHHHHHHHHhcCC-----eE-EEecccCCHHHHHHHHHHHHc----CCceEEEEEhHHhhhhhc
Confidence 45668999999999999899888875432 00 122344333344445555554 788999977666677777
Q ss_pred ccCCCCceEEEEEccCC
Q 004358 609 DFDRHYGRLVIMFGVPF 625 (759)
Q Consensus 609 Df~~~~~r~vii~glPf 625 (759)
.+.| .+-||..|+|-
T Consensus 367 ~irG--i~~viFY~~P~ 381 (442)
T PF06862_consen 367 RIRG--IRHVIFYGPPE 381 (442)
T ss_pred eecC--CcEEEEECCCC
Confidence 7777 88999999985
No 386
>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=71.09 E-value=9.7 Score=39.90 Aligned_cols=66 Identities=14% Similarity=0.011 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHh----CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 22 YSYMLELKRALDA----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 22 ~~~~~~v~~al~~----~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
...+++|.+.|.. .+.+.|.++.|+|||..+.-.+-....... -...+++...+.....++.+.+-
T Consensus 2 e~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~-f~~v~wv~~~~~~~~~~~~~~i~ 71 (287)
T PF00931_consen 2 EKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNR-FDGVIWVSLSKNPSLEQLLEQIL 71 (287)
T ss_dssp HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCC-CTEEEEEEEES-SCCHHHHHHHH
T ss_pred HHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccc-ccccccccccccccccccccccc
Confidence 3556788888877 257889999999999754432211111111 12155566555444455555433
No 387
>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=70.90 E-value=12 Score=40.48 Aligned_cols=33 Identities=21% Similarity=0.191 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHhC----CcEEEEcCCCCcHHHH
Q 004358 19 PEQYSYMLELKRALDAK----GHCLLEMPTGTGKTIA 51 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~----~~~liEaPTGtGKTla 51 (759)
...++.+--|.+-+.++ +.+++-+|+|||||.-
T Consensus 30 ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAl 66 (398)
T PF06068_consen 30 EKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTAL 66 (398)
T ss_dssp HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHH
T ss_pred HHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHH
Confidence 34567777778888776 4688999999999953
No 388
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=70.66 E-value=7 Score=44.60 Aligned_cols=29 Identities=38% Similarity=0.474 Sum_probs=19.7
Q ss_pred HHHHh-CCcEEEEcCCCCcHHHHHHHHHHHH
Q 004358 30 RALDA-KGHCLLEMPTGTGKTIALLSLITSY 59 (759)
Q Consensus 30 ~al~~-~~~~liEaPTGtGKTla~L~~~l~~ 59 (759)
+.+.. ++.+++.+|||+|||-.+ .+++..
T Consensus 236 ~~~~~~~GlilitGptGSGKTTtL-~a~L~~ 265 (486)
T TIGR02533 236 RLIRRPHGIILVTGPTGSGKTTTL-YAALSR 265 (486)
T ss_pred HHHhcCCCEEEEEcCCCCCHHHHH-HHHHhc
Confidence 34443 357899999999999764 344444
No 389
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.49 E-value=5.4 Score=46.55 Aligned_cols=35 Identities=29% Similarity=0.299 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~ 54 (759)
+|..+...+..++.+++ |+ |+.+|.|+|||....+
T Consensus 20 GQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAri 57 (700)
T PRK12323 20 GQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRI 57 (700)
T ss_pred CcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHH
Confidence 89999999999999885 55 8899999999976554
No 390
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=70.46 E-value=8 Score=44.98 Aligned_cols=39 Identities=21% Similarity=0.244 Sum_probs=24.0
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
+.++|-+|+|+|||.- |.++..++.....+. +|+|.+..
T Consensus 315 NpL~LyG~sGsGKTHL-L~AIa~~a~~~~~g~-~V~Yitae 353 (617)
T PRK14086 315 NPLFIYGESGLGKTHL-LHAIGHYARRLYPGT-RVRYVSSE 353 (617)
T ss_pred CcEEEECCCCCCHHHH-HHHHHHHHHHhCCCC-eEEEeeHH
Confidence 3589999999999973 233333332221234 78888753
No 391
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.42 E-value=5.7 Score=45.81 Aligned_cols=35 Identities=29% Similarity=0.259 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~ 54 (759)
+|......+..++..++ | .++.+|.|+|||....+
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 88999988999998864 4 67899999999986554
No 392
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=70.40 E-value=4.9 Score=48.50 Aligned_cols=32 Identities=31% Similarity=0.365 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHH
Q 004358 20 EQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIA 51 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~-----------~~~liEaPTGtGKTla 51 (759)
+|.+.++.|.+++... +.+++.+|||||||..
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~l 500 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTEL 500 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHH
Confidence 6888888888888742 2478999999999953
No 393
>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=70.27 E-value=12 Score=43.36 Aligned_cols=28 Identities=21% Similarity=0.299 Sum_probs=20.4
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 24 YMLELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 24 ~~~~v~~al~~~~~~liEaPTGtGKTla 51 (759)
+.+.+..+...+.+++|.++||||||..
T Consensus 208 ~~~~~~~~a~~~~pvli~Ge~GtGK~~l 235 (534)
T TIGR01817 208 VVDQARVVARSNSTVLLRGESGTGKELI 235 (534)
T ss_pred HHHHHHHHhCcCCCEEEECCCCccHHHH
Confidence 3444444445567999999999999973
No 394
>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=70.24 E-value=7.2 Score=42.27 Aligned_cols=42 Identities=19% Similarity=0.185 Sum_probs=25.9
Q ss_pred eeCCCCC-----CCHHHHHHHHHHHHHHH----hCCcEEEEcCCCCcHHHH
Q 004358 10 VYFPYDN-----IYPEQYSYMLELKRALD----AKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 10 v~FPy~~-----~r~~Q~~~~~~v~~al~----~~~~~liEaPTGtGKTla 51 (759)
..|||-. ..+...++++.+..+.. .+..+++.+|+|+|||..
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 3566543 23344555544444443 136789999999999974
No 395
>PF05729 NACHT: NACHT domain
Probab=70.20 E-value=7.2 Score=36.73 Aligned_cols=25 Identities=20% Similarity=0.203 Sum_probs=17.5
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHH
Q 004358 37 HCLLEMPTGTGKTIALLSLITSYVL 61 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L~~~l~~~~ 61 (759)
.++|.+++|+|||...---+..|..
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~ 26 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAE 26 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHh
Confidence 5789999999999854433334443
No 396
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=70.18 E-value=48 Score=38.46 Aligned_cols=140 Identities=16% Similarity=0.204 Sum_probs=85.2
Q ss_pred CEEEEecCCCCCC--cchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHHHHHHHHHhhc
Q 004358 452 QSVVITSGTLSPI--DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVS 529 (759)
Q Consensus 452 ~svIltSgTL~p~--~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~ 529 (759)
-.++...||=+|. ......|++.... .+...+.+.|+..-++.. .+....+. .|.+...
T Consensus 167 ~p~~AlTATA~~~v~~DI~~~L~l~~~~--~~~~sfdRpNi~~~v~~~----------------~~~~~q~~-fi~~~~~ 227 (590)
T COG0514 167 PPVLALTATATPRVRDDIREQLGLQDAN--IFRGSFDRPNLALKVVEK----------------GEPSDQLA-FLATVLP 227 (590)
T ss_pred CCEEEEeCCCChHHHHHHHHHhcCCCcc--eEEecCCCchhhhhhhhc----------------ccHHHHHH-HHHhhcc
Confidence 3567777888775 4677778876531 123334444443222211 11122333 3333334
Q ss_pred ccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCC-CchhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004358 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (759)
Q Consensus 530 ~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGi 608 (759)
...++.+|++.|.+.-+.+++.+...|+ +..+.-+. +..++..+-+.|.. ++..|++|+. .|-=||
T Consensus 228 ~~~~~GIIYc~sRk~~E~ia~~L~~~g~-------~a~~YHaGl~~~eR~~~q~~f~~----~~~~iiVAT~--AFGMGI 294 (590)
T COG0514 228 QLSKSGIIYCLTRKKVEELAEWLRKNGI-------SAGAYHAGLSNEERERVQQAFLN----DEIKVMVATN--AFGMGI 294 (590)
T ss_pred ccCCCeEEEEeeHHhHHHHHHHHHHCCC-------ceEEecCCCCHHHHHHHHHHHhc----CCCcEEEEec--cccCcc
Confidence 4556689999999999999999887653 22333222 12234444455553 6778888885 799999
Q ss_pred ccCCCCceEEEEEccCC
Q 004358 609 DFDRHYGRLVIMFGVPF 625 (759)
Q Consensus 609 Df~~~~~r~vii~glPf 625 (759)
|=|| .|.||=..+|=
T Consensus 295 dKpd--VRfViH~~lP~ 309 (590)
T COG0514 295 DKPD--VRFVIHYDLPG 309 (590)
T ss_pred CCCC--ceEEEEecCCC
Confidence 9998 78899888884
No 397
>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=70.16 E-value=12 Score=41.83 Aligned_cols=38 Identities=24% Similarity=0.353 Sum_probs=23.0
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
..+++-+|+|+|||...-+- ...+.....+. +|+|.+.
T Consensus 137 n~l~l~G~~G~GKThL~~ai-~~~l~~~~~~~-~v~yi~~ 174 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAI-GNEILENNPNA-KVVYVSS 174 (405)
T ss_pred CeEEEECCCCCcHHHHHHHH-HHHHHHhCCCC-cEEEEEH
Confidence 36889999999999754322 22222221134 7888764
No 398
>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=70.00 E-value=4.1 Score=36.78 Aligned_cols=14 Identities=57% Similarity=0.740 Sum_probs=12.3
Q ss_pred EEEEcCCCCcHHHH
Q 004358 38 CLLEMPTGTGKTIA 51 (759)
Q Consensus 38 ~liEaPTGtGKTla 51 (759)
+++.+|+|||||..
T Consensus 1 ill~G~~G~GKT~l 14 (132)
T PF00004_consen 1 ILLHGPPGTGKTTL 14 (132)
T ss_dssp EEEESSTTSSHHHH
T ss_pred CEEECcCCCCeeHH
Confidence 57899999999974
No 399
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=69.90 E-value=4.1 Score=41.48 Aligned_cols=34 Identities=35% Similarity=0.386 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHH------------HhCCcEEEEcCCCCcHHHHH
Q 004358 19 PEQYSYMLELKRAL------------DAKGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 19 ~~Q~~~~~~v~~al------------~~~~~~liEaPTGtGKTla~ 52 (759)
+.|.+-+.+|.+.= +--+-+++-+|+||||||+.
T Consensus 183 keqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~a 228 (435)
T KOG0729|consen 183 KEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCA 228 (435)
T ss_pred HHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHH
Confidence 67888888887631 12256889999999999864
No 400
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=69.80 E-value=6.4 Score=43.11 Aligned_cols=35 Identities=23% Similarity=0.239 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~ 54 (759)
+|.+....+.+++.+++ | .++.+|.|+||+...+.
T Consensus 23 Gq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~ 60 (365)
T PRK07471 23 GHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYR 60 (365)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 89999999999999884 5 77899999999975443
No 401
>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=69.69 E-value=4.1 Score=39.46 Aligned_cols=15 Identities=47% Similarity=0.680 Sum_probs=13.3
Q ss_pred CcEEEEcCCCCcHHH
Q 004358 36 GHCLLEMPTGTGKTI 50 (759)
Q Consensus 36 ~~~liEaPTGtGKTl 50 (759)
.++++-+|||+|||.
T Consensus 4 ~~~ll~GpsGvGKT~ 18 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTE 18 (171)
T ss_dssp EEEEEESSTTSSHHH
T ss_pred EEEEEECCCCCCHHH
Confidence 468899999999995
No 402
>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=69.64 E-value=5.9 Score=44.20 Aligned_cols=41 Identities=20% Similarity=0.246 Sum_probs=28.0
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhh
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l 79 (759)
..|++|-||||+|||.. +-..+.+..+. +. ++||.=++-..
T Consensus 42 ~~h~~i~g~tGsGKt~~-i~~l~~~~~~~--~~-~~vi~D~kg~~ 82 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQ-IRELLASIRAR--GD-RAIIYDPNGGF 82 (410)
T ss_pred hccEEEEcCCCCCHHHH-HHHHHHHHHhc--CC-CEEEEeCCcch
Confidence 36999999999999986 33444454433 45 77777666543
No 403
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=69.48 E-value=18 Score=41.85 Aligned_cols=189 Identities=14% Similarity=0.211 Sum_probs=97.5
Q ss_pred HHHhhcc--CEEEEecCCCCCCcchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHHHHH
Q 004358 445 KPVFDRF--QSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGK 522 (759)
Q Consensus 445 ~~l~~~~--~svIltSgTL~p~~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~~~~ 522 (759)
+.+.++- =.+|+|||||.- +-|.+.++--++ +.|+ | +..++.--|......+|+++...
T Consensus 187 Kki~~~R~~LklIimSATlda-~kfS~yF~~a~i----------------~~i~-G-R~fPVei~y~~~p~~dYv~a~~~ 247 (674)
T KOG0922|consen 187 KKILKKRPDLKLIIMSATLDA-EKFSEYFNNAPI----------------LTIP-G-RTFPVEILYLKEPTADYVDAALI 247 (674)
T ss_pred HHHHhcCCCceEEEEeeeecH-HHHHHHhcCCce----------------Eeec-C-CCCceeEEeccCCchhhHHHHHH
Confidence 5555432 269999999974 333333321111 0111 0 12234444555556778888878
Q ss_pred HHHHhhc-ccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCc-----eEEEeCCCchhHHHHHHHHHHhccCCCCeEE
Q 004358 523 LLVEMVS-IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHK-----LVFIETQDVVETTLALDNYRKACDCGRGAVF 596 (759)
Q Consensus 523 ~l~~~~~-~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k-----~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL 596 (759)
.+.++.. .-||.+|||.|.-+..+.+.+.+.+.. ..+.... ++| ++-+...-.+-|... ..|...|.
T Consensus 248 tv~~Ih~~E~~GDILvFLtGqeEIe~~~~~l~e~~--~~~~~~~~~~~lply----~aL~~e~Q~rvF~p~-p~g~RKvI 320 (674)
T KOG0922|consen 248 TVIQIHLTEPPGDILVFLTGQEEIEAACELLRERA--KSLPEDCPELILPLY----GALPSEEQSRVFDPA-PPGKRKVI 320 (674)
T ss_pred HHHHHHccCCCCCEEEEeCCHHHHHHHHHHHHHHh--hhccccCcceeeeec----ccCCHHHhhccccCC-CCCcceEE
Confidence 7777775 457999999999999999999887641 1111111 122 111222223333332 22445677
Q ss_pred EEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCee
Q 004358 597 FSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYG 675 (759)
Q Consensus 597 ~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g 675 (759)
+++ ..+| ..+-|.|+=|-- +.=.++.| .++.+.+.. .--..+-.--.++|+.||.=|...-..
T Consensus 321 lsT---NIAE---------TSlTI~GI~YVV-DsG~vK~~--~y~p~~g~~-~L~v~~ISkasA~QRaGRAGRt~pGkc 383 (674)
T KOG0922|consen 321 LST---NIAE---------TSLTIDGIRYVV-DSGFVKQK--KYNPRTGLD-SLIVVPISKASANQRAGRAGRTGPGKC 383 (674)
T ss_pred EEc---ceee---------eeEEecceEEEE-cCCceEEE--eeccccCcc-ceeEEechHHHHhhhcccCCCCCCceE
Confidence 777 5666 566677766642 11122211 111111100 000111123467899999998665443
No 404
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=69.44 E-value=4 Score=49.30 Aligned_cols=105 Identities=11% Similarity=0.133 Sum_probs=0.0
Q ss_pred EEEEecCCCCCCcchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceecc----------------ccCCChHH
Q 004358 453 SVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKF----------------DMRSDPGV 516 (759)
Q Consensus 453 svIltSgTL~p~~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f----------------~~r~~~~~ 516 (759)
.+||||||+. .+.|...+|-.++........--.....--++.+-.....-.+++ ...-+.+.
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 HHHHHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHH
Q 004358 517 ARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKE 560 (759)
Q Consensus 517 ~~~~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~ 560 (759)
+..+...|.+- ..+|.+|||.|.|..+.++++.+.....+.+
T Consensus 400 i~~li~~I~~~--~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~ 441 (924)
T KOG0920|consen 400 IEDLIEYIDER--EFEGAILVFLPGWEEILQLKELLEVNLPFAD 441 (924)
T ss_pred HHHHHHhcccC--CCCceEEEEcCCHHHHHHHHHHhhhcccccc
No 405
>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=69.39 E-value=7.6 Score=42.20 Aligned_cols=26 Identities=35% Similarity=0.613 Sum_probs=19.1
Q ss_pred HHHHHHH-hCCcEEEEcCCCCcHHHHH
Q 004358 27 ELKRALD-AKGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 27 ~v~~al~-~~~~~liEaPTGtGKTla~ 52 (759)
.+.+.+. .++.++|.+|||+|||-..
T Consensus 113 ~l~~~~~~~~g~ili~G~tGSGKTT~l 139 (343)
T TIGR01420 113 VLRELAERPRGLILVTGPTGSGKSTTL 139 (343)
T ss_pred HHHHHHhhcCcEEEEECCCCCCHHHHH
Confidence 3344443 4679999999999999754
No 406
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=69.30 E-value=5.7 Score=46.41 Aligned_cols=35 Identities=23% Similarity=0.218 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~---~~liEaPTGtGKTla~L~ 54 (759)
+|..+...+..++..++ ..++.+|.|+|||....+
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 488999999999986554
No 407
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=69.21 E-value=14 Score=41.55 Aligned_cols=36 Identities=25% Similarity=0.309 Sum_probs=23.4
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
..+++-+|+|+|||-- +-+++..... .+. +|+|.+.
T Consensus 142 npl~L~G~~G~GKTHL--l~Ai~~~l~~-~~~-~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHL--MQAAVHALRE-SGG-KILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHH--HHHHHHHHHH-cCC-CEEEeeH
Confidence 4689999999999963 3333332211 145 8888875
No 408
>PRK10865 protein disaggregation chaperone; Provisional
Probab=69.11 E-value=3.9 Score=50.11 Aligned_cols=35 Identities=29% Similarity=0.279 Sum_probs=27.9
Q ss_pred CHHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHH
Q 004358 18 YPEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~-----------~~~liEaPTGtGKTla~ 52 (759)
..+|-..+..|..++... +.+++.+|||||||...
T Consensus 570 viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA 615 (857)
T PRK10865 570 VIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELC 615 (857)
T ss_pred EeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHH
Confidence 358888888888888642 35889999999999854
No 409
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=69.04 E-value=6.5 Score=42.03 Aligned_cols=39 Identities=38% Similarity=0.402 Sum_probs=25.4
Q ss_pred CHHHHHHHHHHHHHHHhC--Cc-EEEEcCCCCcHHHHHHHHH
Q 004358 18 YPEQYSYMLELKRALDAK--GH-CLLEMPTGTGKTIALLSLI 56 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~--~~-~liEaPTGtGKTla~L~~~ 56 (759)
++.|.............+ .| +++.+|+|||||.+.++-+
T Consensus 4 ~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA 45 (325)
T COG0470 4 VPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALA 45 (325)
T ss_pred ccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHH
Confidence 344444444444444333 57 9999999999999876543
No 410
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=68.69 E-value=1.8 Score=50.99 Aligned_cols=41 Identities=20% Similarity=0.139 Sum_probs=31.0
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHH
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q 82 (759)
.|+++-||||+|||.++++|.|.- . +. .+||.-+.-...+.
T Consensus 140 ~hvlviApTgSGKgvg~VIPnLL~---~--~g-S~VV~DpKGE~~~~ 180 (670)
T PRK13850 140 PHSLVVAPTRAGKGVGVVIPTLLT---F--KG-SVIALDVKGELFEL 180 (670)
T ss_pred ceEEEEecCCCCceeeehHhHHhc---C--CC-CEEEEeCCchHHHH
Confidence 599999999999999999998752 2 23 57777666555443
No 411
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=68.63 E-value=7.6 Score=41.73 Aligned_cols=38 Identities=18% Similarity=0.329 Sum_probs=31.3
Q ss_pred CCHHHHHHHHHHHHHHHhCC--cEE-EEcCCCCcHHHHHHH
Q 004358 17 IYPEQYSYMLELKRALDAKG--HCL-LEMPTGTGKTIALLS 54 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~--~~l-iEaPTGtGKTla~L~ 54 (759)
.||.|...-..+..++.+++ |++ +++|.|+||+.....
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 47889999999999999874 655 799999999976543
No 412
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=68.60 E-value=13 Score=48.13 Aligned_cols=63 Identities=13% Similarity=0.155 Sum_probs=42.0
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHH--HHHHHHHHHhCCCCCcEEEEEccchhhHHHH
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL--LSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~--L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~ 83 (759)
..++|++.+..+..+ .+...+|.++.|||||... ++.++..... ..+. +|+.+++|+.....+
T Consensus 836 Lt~~Qr~Av~~iLts--~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e-~~g~-~V~glAPTgkAa~~L 900 (1623)
T PRK14712 836 LTSGQRAATRMILET--SDRFTVVQGYAGVGKTTQFRAVMSAVNMLPE-SERP-RVVGLGPTHRAVGEM 900 (1623)
T ss_pred cCHHHHHHHHHHHhC--CCceEEEEeCCCCCHHHHHHHHHHHHHHHhh-ccCc-eEEEEechHHHHHHH
Confidence 578999987665422 3469999999999999863 2222211111 1234 899999999877665
No 413
>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=68.52 E-value=14 Score=49.40 Aligned_cols=63 Identities=14% Similarity=0.127 Sum_probs=44.4
Q ss_pred CCHHHHHHHHHHHHHHHh-CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHH
Q 004358 17 IYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~-~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
+-++|++.+..+ +.. ....+|.++.|||||...= .++..++.. +. +|+.+++|.....++-++
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 443 4799999999999997643 334444433 56 999999998776666554
No 414
>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=68.45 E-value=12 Score=40.49 Aligned_cols=30 Identities=20% Similarity=0.248 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 22 ~~~~~~v~~al~~~~~~liEaPTGtGKTla 51 (759)
.++.+.+..+...+.+++|.+++||||+..
T Consensus 9 ~~~~~~~~~~a~~~~pVLI~GE~GtGK~~l 38 (329)
T TIGR02974 9 LEVLEQVSRLAPLDRPVLIIGERGTGKELI 38 (329)
T ss_pred HHHHHHHHHHhCCCCCEEEECCCCChHHHH
Confidence 344555555666678999999999999973
No 415
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=68.27 E-value=11 Score=45.15 Aligned_cols=31 Identities=26% Similarity=0.401 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHhCCcEEEEcCCCCcHHH
Q 004358 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~~~liEaPTGtGKTl 50 (759)
.-..+.+.+..+...+.+++|.++||||||+
T Consensus 384 ~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~ 414 (686)
T PRK15429 384 AMYSVLKQVEMVAQSDSTVLILGETGTGKEL 414 (686)
T ss_pred HHHHHHHHHHHHhCCCCCEEEECCCCcCHHH
Confidence 3334444444444556799999999999997
No 416
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=68.24 E-value=6.2 Score=46.78 Aligned_cols=35 Identities=31% Similarity=0.300 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~ 54 (759)
+|..+.+.+..++..++ |+ |+.+|.|||||....+
T Consensus 20 GQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAri 57 (830)
T PRK07003 20 GQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRI 57 (830)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998874 55 8999999999976554
No 417
>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=68.23 E-value=5.8 Score=42.41 Aligned_cols=24 Identities=29% Similarity=0.458 Sum_probs=20.0
Q ss_pred HHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 28 LKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 28 v~~al~~~~~~liEaPTGtGKTla 51 (759)
+..++..++++++-+|||+|||..
T Consensus 137 l~~~v~~~~~ili~G~tGsGKTTl 160 (308)
T TIGR02788 137 LRLAIASRKNIIISGGTGSGKTTF 160 (308)
T ss_pred HHHHhhCCCEEEEECCCCCCHHHH
Confidence 445667789999999999999974
No 418
>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=68.22 E-value=5.5 Score=44.85 Aligned_cols=54 Identities=15% Similarity=0.223 Sum_probs=33.1
Q ss_pred HHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH
Q 004358 28 LKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 28 v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
+...+..|...+|-|+||+|||.-.+--+...+... +. +|+|.|-=.+ -+|+++
T Consensus 188 ~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~--g~-~vl~~SlEm~-~~~i~~ 241 (434)
T TIGR00665 188 LTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKE--GK-PVAFFSLEMS-AEQLAM 241 (434)
T ss_pred hcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhC--CC-eEEEEeCcCC-HHHHHH
Confidence 333455566789999999999987665544444322 45 6766654433 234444
No 419
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=67.99 E-value=6.4 Score=47.85 Aligned_cols=65 Identities=18% Similarity=0.080 Sum_probs=41.8
Q ss_pred EcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhH
Q 004358 5 LEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (759)
Q Consensus 5 i~~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~ 80 (759)
..|-++.....+ |+.|.-=.- +|-+|+ |.|+.||=||||+.-+|+..-+.. |+ .|-+.|-.-=|.
T Consensus 128 ~~g~~~~wdm~~-ydVQLiGgi----vLh~G~--IAEM~TGEGKTLvatlp~yLnAL~---G~-gVHvVTvNDYLA 192 (1025)
T PRK12900 128 VMGREMTWDMVP-YDVQLIGGI----VLHSGK--ISEMATGEGKTLVSTLPTFLNALT---GR-GVHVVTVNDYLA 192 (1025)
T ss_pred ccccccccCccc-cchHHhhhH----HhhcCC--ccccCCCCCcchHhHHHHHHHHHc---CC-CcEEEeechHhh
Confidence 456777777775 788865332 233444 469999999999988886554442 44 566665544443
No 420
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=67.72 E-value=18 Score=35.60 Aligned_cols=40 Identities=23% Similarity=0.256 Sum_probs=29.6
Q ss_pred HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEE
Q 004358 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (759)
Q Consensus 30 ~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~ 73 (759)
.+-.+++.+.+-.|+|.|||-+.+.-++..+. .+. +|.+.
T Consensus 17 ~~~~~~g~v~v~~g~GkGKtt~a~g~a~ra~g---~G~-~V~iv 56 (191)
T PRK05986 17 AAQEEKGLLIVHTGNGKGKSTAAFGMALRAVG---HGK-KVGVV 56 (191)
T ss_pred HhhccCCeEEEECCCCCChHHHHHHHHHHHHH---CCC-eEEEE
Confidence 33346789999999999999998877766543 245 67665
No 421
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=67.69 E-value=11 Score=45.00 Aligned_cols=67 Identities=24% Similarity=0.285 Sum_probs=49.2
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCC--CCCcEEEEEccchhhHHHHHHHHHhhh
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~--~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (759)
..|.|++..... .+.++|.|+.|||||-+... -++|+-... ... .|+..|=|+.-...+.+.+..+.
T Consensus 3 Ln~~Q~~av~~~------~gp~lV~AGaGsGKT~vlt~-Ria~li~~~~v~p~-~Il~vTFTnkAA~em~~Rl~~~~ 71 (655)
T COG0210 3 LNPEQREAVLHP------DGPLLVLAGAGSGKTRVLTE-RIAYLIAAGGVDPE-QILAITFTNKAAAEMRERLLKLL 71 (655)
T ss_pred CCHHHHHHHhcC------CCCeEEEECCCCCchhhHHH-HHHHHHHcCCcChH-HeeeeechHHHHHHHHHHHHHHh
Confidence 468888876555 78999999999999987544 455555442 123 79999999888887777777664
No 422
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=67.54 E-value=6.8 Score=46.14 Aligned_cols=35 Identities=34% Similarity=0.328 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~ 54 (759)
+|..+...+..++..++ | +|+.+|.|+|||....+
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 89999999999999875 4 58999999999976554
No 423
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=67.54 E-value=8.4 Score=41.04 Aligned_cols=53 Identities=25% Similarity=0.226 Sum_probs=35.4
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 004358 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T 76 (759)
-.+.|..++++|. +....+--+|-|||||.-.-..+.....+ +..+=|++||=
T Consensus 129 kt~~Q~~y~eai~----~~di~fGiGpAGTGKTyLava~av~al~~---~~v~rIiLtRP 181 (348)
T COG1702 129 KTPGQNMYPEAIE----EHDIVFGIGPAGTGKTYLAVAKAVDALGA---GQVRRIILTRP 181 (348)
T ss_pred cChhHHHHHHHHH----hcCeeeeecccccCChhhhHHhHhhhhhh---cccceeeecCc
Confidence 3689999996665 66677778899999997555555544432 23344555554
No 424
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=67.49 E-value=12 Score=40.86 Aligned_cols=65 Identities=25% Similarity=0.281 Sum_probs=41.0
Q ss_pred HHHHHHH---HHHHHHHHhCC--cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEE---ccchhhHHHHHHHHHhh
Q 004358 19 PEQYSYM---LELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC---TRTVHEMEKTLAELKLL 90 (759)
Q Consensus 19 ~~Q~~~~---~~v~~al~~~~--~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~---T~T~~l~~Q~~~el~~l 90 (759)
-+|..+. .-+.++++.+. +.|+=+|+|||||-. ..+++. .. +. .+.-. |.++..+++++++-++.
T Consensus 27 vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTl--A~liA~--~~--~~-~f~~~sAv~~gvkdlr~i~e~a~~~ 99 (436)
T COG2256 27 VGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTL--ARLIAG--TT--NA-AFEALSAVTSGVKDLREIIEEARKN 99 (436)
T ss_pred cChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHH--HHHHHH--hh--CC-ceEEeccccccHHHHHHHHHHHHHH
Confidence 3677776 34566777764 799999999999963 333332 21 22 34443 45566777778776553
No 425
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=67.37 E-value=7.4 Score=42.37 Aligned_cols=34 Identities=24% Similarity=0.201 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALL 53 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~---~~liEaPTGtGKTla~L 53 (759)
+|.+....+..++..++ ..++.+|+|+|||....
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 78888899999999886 38889999999996543
No 426
>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=67.32 E-value=6.7 Score=43.98 Aligned_cols=42 Identities=14% Similarity=0.241 Sum_probs=28.9
Q ss_pred HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 30 ~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
..+..|...+|-|+||+|||.-.|--+...+... +. +|+|.+
T Consensus 189 ~G~~~g~liviag~pg~GKT~~al~ia~~~a~~~--g~-~v~~fS 230 (421)
T TIGR03600 189 NGLVKGDLIVIGARPSMGKTTLALNIAENVALRE--GK-PVLFFS 230 (421)
T ss_pred cCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhC--CC-cEEEEE
Confidence 3455567889999999999987776655544322 45 676665
No 427
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=67.22 E-value=3.8 Score=41.81 Aligned_cols=16 Identities=44% Similarity=0.642 Sum_probs=14.6
Q ss_pred CcEEEEcCCCCcHHHH
Q 004358 36 GHCLLEMPTGTGKTIA 51 (759)
Q Consensus 36 ~~~liEaPTGtGKTla 51 (759)
++++.-+|||||||+.
T Consensus 152 knVLFyGppGTGKTm~ 167 (368)
T COG1223 152 KNVLFYGPPGTGKTMM 167 (368)
T ss_pred ceeEEECCCCccHHHH
Confidence 6899999999999974
No 428
>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=66.91 E-value=11 Score=48.04 Aligned_cols=53 Identities=25% Similarity=0.280 Sum_probs=38.0
Q ss_pred HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHH
Q 004358 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (759)
Q Consensus 30 ~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~ 83 (759)
.|++-...++|.|+-|||||..+.--.+.......... +|++.|-|+.-...+
T Consensus 5 ~A~dp~~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~-~i~~~t~t~~aa~em 57 (1141)
T TIGR02784 5 RASDPKTSAWVSANAGSGKTHVLTQRVIRLLLNGVPPS-KILCLTYTKAAAAEM 57 (1141)
T ss_pred hhcCCCCCEEEEEECCCCHHHHHHHHHHHHHHcCCCCC-eEEEEecCHHHHHHH
Confidence 35666788999999999999886665554443322345 899999998754443
No 429
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=66.62 E-value=7.1 Score=45.70 Aligned_cols=36 Identities=31% Similarity=0.317 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLSL 55 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~~ 55 (759)
+|..+...+..++.+++ |+ ++.+|.|+|||....+-
T Consensus 20 GQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~l 58 (618)
T PRK14951 20 GQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRIL 58 (618)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 89999999999998884 55 89999999999866543
No 430
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=66.51 E-value=2.1 Score=50.54 Aligned_cols=40 Identities=20% Similarity=0.103 Sum_probs=29.7
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhH
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~ 80 (759)
.+|+++-||||+|||.++.+|.|.-. +. .+||.-..-.+.
T Consensus 144 ~~hvLviApTrSGKgvg~VIPnLL~~-----~~-S~VV~D~KGEl~ 183 (663)
T PRK13876 144 PEHVLCFAPTRSGKGVGLVVPTLLTW-----PG-SAIVHDIKGENW 183 (663)
T ss_pred CceEEEEecCCCCcceeEehhhHHhC-----CC-CEEEEeCcchHH
Confidence 46999999999999999999987632 23 466665554443
No 431
>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=66.37 E-value=8 Score=38.83 Aligned_cols=38 Identities=24% Similarity=0.250 Sum_probs=25.4
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
..+...+|.+|+|+|||.-.+.-+...+. .+. +++|.+
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 34567889999999999876654443332 245 676664
No 432
>PRK11823 DNA repair protein RadA; Provisional
Probab=66.30 E-value=11 Score=42.55 Aligned_cols=49 Identities=16% Similarity=0.211 Sum_probs=31.7
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHH
Q 004358 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (759)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (759)
..+...++.+|+|+|||.-.+--+..+++ .+. +++|.+--.+ .+|+...
T Consensus 78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~---~g~-~vlYvs~Ees-~~qi~~r 126 (446)
T PRK11823 78 VPGSVVLIGGDPGIGKSTLLLQVAARLAA---AGG-KVLYVSGEES-ASQIKLR 126 (446)
T ss_pred cCCEEEEEECCCCCCHHHHHHHHHHHHHh---cCC-eEEEEEcccc-HHHHHHH
Confidence 34567899999999999876655544442 245 8888775433 3454443
No 433
>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=66.27 E-value=7 Score=42.50 Aligned_cols=35 Identities=31% Similarity=0.293 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHH
Q 004358 19 PEQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALL 53 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~~---~~liEaPTGtGKTla~L 53 (759)
-+|.+..+.+.+++.+++ ..++.+|+|+|||....
T Consensus 17 ig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~ 54 (355)
T TIGR02397 17 IGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIAR 54 (355)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 478888999999998875 36889999999997543
No 434
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=66.26 E-value=6.7 Score=46.68 Aligned_cols=35 Identities=29% Similarity=0.248 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHHH
Q 004358 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALL 53 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~-----------~~~liEaPTGtGKTla~L 53 (759)
-+|-+.+.+|.+++... +..++-+|||+|||-...
T Consensus 494 iGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAk 539 (786)
T COG0542 494 IGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAK 539 (786)
T ss_pred eChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHH
Confidence 37999999999999763 368889999999997433
No 435
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=65.94 E-value=7.2 Score=43.72 Aligned_cols=17 Identities=41% Similarity=0.542 Sum_probs=14.5
Q ss_pred CcEEEEcCCCCcHHHHH
Q 004358 36 GHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~ 52 (759)
..+++.+|+|||||+..
T Consensus 218 ~gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLA 234 (438)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 57899999999999853
No 436
>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=65.24 E-value=8.5 Score=44.01 Aligned_cols=53 Identities=13% Similarity=0.199 Sum_probs=31.6
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
-.+...+|.+|+|||||.-.+--+..-+... +. +++|.|-- .-.+++++....
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 3456899999999999986554333333321 35 56666532 333556655444
No 437
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=65.07 E-value=6.3 Score=39.81 Aligned_cols=63 Identities=14% Similarity=0.240 Sum_probs=40.3
Q ss_pred EcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 5 LEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 5 i~~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
+.++.-.|.... .. ......|--.+..|+.+.|-+|+|+|||- |+..+..... |+.+ .|+|.-
T Consensus 4 ~~~v~k~y~~~~-~~--~~~L~~v~l~i~~Ge~vaI~GpSGSGKST--LLniig~ld~-pt~G-~v~i~g 66 (226)
T COG1136 4 LKNVSKIYGLGG-EK--VEALKDVNLEIEAGEFVAIVGPSGSGKST--LLNLLGGLDK-PTSG-EVLING 66 (226)
T ss_pred EeeeEEEeccCC-cc--eEecccceEEEcCCCEEEEECCCCCCHHH--HHHHHhcccC-CCCc-eEEECC
Confidence 445555555443 22 44555555567789999999999999996 4445555443 4555 677764
No 438
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=64.33 E-value=12 Score=43.23 Aligned_cols=50 Identities=14% Similarity=0.126 Sum_probs=31.5
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+...+|.+|+|+|||.-.+--+...+. .+. +++|.|-..+ .+|+.+.+..
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 457889999999999854443332222 256 7777765544 4566665543
No 439
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=64.31 E-value=8 Score=46.95 Aligned_cols=37 Identities=35% Similarity=0.355 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSLI 56 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~~~ 56 (759)
+|....+.+..++..++ | .|+.+|.|+|||...++-+
T Consensus 19 Gqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lA 58 (824)
T PRK07764 19 GQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILA 58 (824)
T ss_pred CcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHH
Confidence 78888988999998873 6 5899999999998776644
No 440
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=64.13 E-value=12 Score=41.22 Aligned_cols=20 Identities=30% Similarity=0.218 Sum_probs=16.8
Q ss_pred hCCcEEEEcCCCCcHHHHHH
Q 004358 34 AKGHCLLEMPTGTGKTIALL 53 (759)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L 53 (759)
.+.+++|.++|||||++..-
T Consensus 100 ~~~~vLi~GetGtGKel~A~ 119 (403)
T COG1221 100 SGLPVLIIGETGTGKELFAR 119 (403)
T ss_pred CCCcEEEecCCCccHHHHHH
Confidence 46799999999999998543
No 441
>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.88 E-value=5.3 Score=46.55 Aligned_cols=60 Identities=18% Similarity=0.287 Sum_probs=41.5
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEE
Q 004358 8 VTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (759)
Q Consensus 8 ~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~ 73 (759)
..|.|-|+. ||.. ..++.+-=.+..|++..+-+|.|.|||-.. .|.-..+.|..+ +|.+=
T Consensus 469 ~~VsFaYP~-Rp~~-~Vlk~lsfti~pGe~vALVGPSGsGKSTia---sLL~rfY~PtsG-~IllD 528 (716)
T KOG0058|consen 469 EDVSFAYPT-RPDV-PVLKNLSFTIRPGEVVALVGPSGSGKSTIA---SLLLRFYDPTSG-RILLD 528 (716)
T ss_pred EEeeeecCC-CCCc-hhhcCceeeeCCCCEEEEECCCCCCHHHHH---HHHHHhcCCCCC-eEEEC
Confidence 356788876 7764 345566667788999999999999999742 333344667666 67653
No 442
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=63.83 E-value=8.7 Score=45.17 Aligned_cols=36 Identities=33% Similarity=0.327 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~~ 55 (759)
+|......+..++.+++ | .++.+|.|+|||....+-
T Consensus 20 GQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~l 58 (647)
T PRK07994 20 GQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLL 58 (647)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 89999999999999885 4 489999999999865543
No 443
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.75 E-value=8.3 Score=45.38 Aligned_cols=36 Identities=36% Similarity=0.339 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLSL 55 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~---~~liEaPTGtGKTla~L~~ 55 (759)
+|.+....+..++..++ ..++.+|.|+|||....+-
T Consensus 20 Gq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~l 58 (620)
T PRK14948 20 GQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARIL 58 (620)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHH
Confidence 88888888888888874 4689999999999876543
No 444
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=63.74 E-value=7.8 Score=45.87 Aligned_cols=18 Identities=44% Similarity=0.510 Sum_probs=14.9
Q ss_pred CcEEEEcCCCCcHHHHHH
Q 004358 36 GHCLLEMPTGTGKTIALL 53 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L 53 (759)
+-+++.+|+||||||.+-
T Consensus 345 kGvLL~GPPGTGKTLLAK 362 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTLLAK 362 (774)
T ss_pred CceEEECCCCCcHHHHHH
Confidence 459999999999998543
No 445
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=63.69 E-value=11 Score=39.35 Aligned_cols=46 Identities=26% Similarity=0.317 Sum_probs=33.4
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
-+++-+|+||||+ ||.-|.+- +.. ..+++..+-.+....+.|-.+|
T Consensus 168 giLLyGPPGTGKS--YLAKAVAT-----EAn-STFFSvSSSDLvSKWmGESEkL 213 (439)
T KOG0739|consen 168 GILLYGPPGTGKS--YLAKAVAT-----EAN-STFFSVSSSDLVSKWMGESEKL 213 (439)
T ss_pred eEEEeCCCCCcHH--HHHHHHHh-----hcC-CceEEeehHHHHHHHhccHHHH
Confidence 4788999999998 56655542 123 5888988888888887764444
No 446
>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=63.69 E-value=73 Score=36.66 Aligned_cols=133 Identities=16% Similarity=0.165 Sum_probs=74.0
Q ss_pred HHHHHHHHHHhccCCCCeEEEEeecCccccccccCCCCceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchh-hHHH
Q 004358 577 TTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDF-LTFD 655 (759)
Q Consensus 577 ~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~-~~~~ 655 (759)
....++.|++ |+-.||+|+. -++.|+||++ ..+|+|+..-..- ...|| ..-.
T Consensus 301 ~~~~l~~f~~----g~~~ILVgT~--~i~kG~d~~~--v~lV~vl~aD~~l-------------------~~pd~ra~E~ 353 (505)
T TIGR00595 301 HEALLNQFAN----GKADILIGTQ--MIAKGHHFPN--VTLVGVLDADSGL-------------------HSPDFRAAER 353 (505)
T ss_pred HHHHHHHHhc----CCCCEEEeCc--ccccCCCCCc--ccEEEEEcCcccc-------------------cCcccchHHH
Confidence 3567788876 6778999986 6999999997 4567766644321 01122 1124
Q ss_pred HHHHHHHhcccccccCCCeeEEEE--eeccc------CCccc------------cCCCchHHHhhccccccCCCHHHHHH
Q 004358 656 ALRQAAQCVGRVIRSKADYGMMIF--ADKRY------SRHDK------------RSKLPGWILSHLRDAHLNLSTDMALH 715 (759)
Q Consensus 656 a~~~~~QaiGR~IR~~~D~g~iil--lD~R~------~~~~~------------~~~lp~w~~~~~~~~~~~~~~~~~~~ 715 (759)
++..+.|..||.=|... .|-+++ .++.- ...++ ...+||+.+-...... ..+.+.+.+
T Consensus 354 ~~~ll~q~~GRagR~~~-~g~viiqt~~p~~~~~~~~~~~d~~~f~~~el~~R~~~~~PPf~~l~~i~~~-~~~~~~~~~ 431 (505)
T TIGR00595 354 GFQLLTQVAGRAGRAED-PGQVIIQTYNPNHPAIQAALTGDYEAFYEQELAQRRALNYPPFTRLIRLIFR-GKNEEKAQQ 431 (505)
T ss_pred HHHHHHHHHhccCCCCC-CCEEEEEeCCCCCHHHHHHHhCCHHHHHHHHHHHHHHcCCCchhcEEEEEEe-cCCHHHHHH
Confidence 67888999999988655 465554 23321 11111 1557887664322211 123344444
Q ss_pred HHHHHHHHhcCCCCcCCcccccc
Q 004358 716 IAREFLRKMAQPYDKAGSIGRKT 738 (759)
Q Consensus 716 ~~~~Ff~~~~~~~~~~~~~~~~~ 738 (759)
.+..+.+.....+...-.++|+.
T Consensus 432 ~~~~~~~~l~~~~~~~~~~lgP~ 454 (505)
T TIGR00595 432 TAQAAHELLKQNLDEKLEVLGPS 454 (505)
T ss_pred HHHHHHHHHHhhccCCcEEeCCc
Confidence 44455544444443334566654
No 447
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=63.64 E-value=16 Score=44.00 Aligned_cols=141 Identities=13% Similarity=0.152 Sum_probs=81.1
Q ss_pred ccccHHHhhccCEEEEecCCCCCCc-chhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~~-~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..++.+--|+||..... .|.+.-|++-+. +|.+. |..-.+-++. -| +...+-+.+
T Consensus 351 sIT~QnfFr~Y~kLsGMTGTA~te~~Ef~~iY~l~Vv~-------IPTnk--P~~R~D~~d~-----iy--~t~~~K~~A 414 (925)
T PRK12903 351 TITYQNFFRLFKKLSGMTGTAKTEEQEFIDIYNMRVNV-------VPTNK--PVIRKDEPDS-----IF--GTKHAKWKA 414 (925)
T ss_pred eehHHHHHHhcchhhccCCCCHHHHHHHHHHhCCCEEE-------CCCCC--CeeeeeCCCc-----EE--EcHHHHHHH
Confidence 4556888888888999999986532 455555654321 11111 1111111111 11 123333456
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv 599 (759)
+.+.|.+.. ..+..+||.+.|-+.-+.+...+.+.|+-.. ++- .+.. +.+. +-..++ +.+|+|-+|+
T Consensus 415 ii~ei~~~~-~~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~------vLN-Ak~~-e~EA--~IIa~A--G~~GaVTIAT 481 (925)
T PRK12903 415 VVKEVKRVH-KKGQPILIGTAQVEDSETLHELLLEANIPHT------VLN-AKQN-AREA--EIIAKA--GQKGAITIAT 481 (925)
T ss_pred HHHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCCCce------eec-ccch-hhHH--HHHHhC--CCCCeEEEec
Confidence 666676665 3678999999999999999999987764222 221 1111 1111 111222 3478999987
Q ss_pred ecCccccccccCC
Q 004358 600 ARGKVAEGIDFDR 612 (759)
Q Consensus 600 ~~G~~~EGiDf~~ 612 (759)
.-...|.|+.-
T Consensus 482 --NMAGRGTDI~L 492 (925)
T PRK12903 482 --NMAGRGTDIKL 492 (925)
T ss_pred --ccccCCcCccC
Confidence 36779999963
No 448
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=63.64 E-value=19 Score=47.18 Aligned_cols=62 Identities=16% Similarity=0.172 Sum_probs=41.9
Q ss_pred CCHHHHHHHHHHHHHHHh-CCcEEEEcCCCCcHHHHHHHHHHHHHHhC--CCCCcEEEEEccchhhHHHH
Q 004358 17 IYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKT 83 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~-~~~~liEaPTGtGKTla~L~~~l~~~~~~--~~~~~kvi~~T~T~~l~~Q~ 83 (759)
+.++|++.+..+. .. +...+|.++.|||||..+= +++...... ..+. +|+.+++|+.-..++
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 4789999776555 33 4699999999999997642 233322211 1234 899999999876554
No 449
>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=63.63 E-value=11 Score=36.14 Aligned_cols=34 Identities=26% Similarity=0.212 Sum_probs=21.8
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
..++.+|+|+|||.....-+..+.. . +. +|++..
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~-~--g~-~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKK-K--GK-KVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH-C--CC-cEEEEE
Confidence 4678999999999875544443332 2 34 665543
No 450
>CHL00095 clpC Clp protease ATP binding subunit
Probab=63.53 E-value=7.6 Score=47.54 Aligned_cols=38 Identities=24% Similarity=0.283 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHHHHHHHH
Q 004358 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITS 58 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~-----------~~~liEaPTGtGKTla~L~~~l~ 58 (759)
.+|.+.+..|.+++... ...++.+|||+|||.. +-+|+
T Consensus 512 ~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~l--A~~LA 560 (821)
T CHL00095 512 IGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTEL--TKALA 560 (821)
T ss_pred cChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHH--HHHHH
Confidence 58999999999998642 2468999999999963 33444
No 451
>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=63.48 E-value=5.8 Score=43.85 Aligned_cols=35 Identities=31% Similarity=0.420 Sum_probs=25.4
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEE
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~ 73 (759)
+.|++|-+.||||||..+=+-|-.+.. .+++|+.+
T Consensus 19 NRHGLIaGATGTGKTvTLqvlAE~fS~----~GVPVfla 53 (502)
T PF05872_consen 19 NRHGLIAGATGTGKTVTLQVLAEQFSD----AGVPVFLA 53 (502)
T ss_pred cccceeeccCCCCceehHHHHHHHhhh----cCCcEEEe
Confidence 679999999999999987665544432 23367765
No 452
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=63.47 E-value=8.7 Score=43.42 Aligned_cols=36 Identities=33% Similarity=0.284 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~-~liEaPTGtGKTla~L~~ 55 (759)
+|......+..++..++ | .++.+|+|+|||....+-
T Consensus 21 Gq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~l 59 (451)
T PRK06305 21 GQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIF 59 (451)
T ss_pred CcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHH
Confidence 89999999999998874 4 678999999999876543
No 453
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=63.44 E-value=12 Score=45.28 Aligned_cols=73 Identities=22% Similarity=0.383 Sum_probs=46.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC---CcEEEEcCCCCcHHHHHHH-HHHHHHHhCCCCCcEEEEEccchhhHHHHHHHH
Q 004358 12 FPYDNIYPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLS-LITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (759)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~al~~~---~~~liEaPTGtGKTla~L~-~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el 87 (759)
+||. |..-|...--.-.+++..| +...+-+|+|||||-..-= -...|. ..+ .. +.+|+|...+-..|+++-+
T Consensus 728 y~y~-p~~n~v~ft~~qveai~sg~qpgltmvvgppgtgktd~avqil~~lyh-n~p-~q-rTlivthsnqaln~lfeKi 803 (1320)
T KOG1806|consen 728 YPYN-PKKNQVKFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAVQILSVLYH-NSP-NQ-RTLIVTHSNQALNQLFEKI 803 (1320)
T ss_pred CCcC-cccchhccCHHHHHHHHhcCCCCceeeecCCCCCCcchhhhhhhhhhh-cCC-Cc-ceEEEEecccchhHHHHHH
Confidence 5665 3556666655555566555 5677889999999974321 112232 223 35 8899999988888887744
Q ss_pred H
Q 004358 88 K 88 (759)
Q Consensus 88 ~ 88 (759)
-
T Consensus 804 ~ 804 (1320)
T KOG1806|consen 804 M 804 (1320)
T ss_pred H
Confidence 3
No 454
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=63.14 E-value=5.2 Score=45.88 Aligned_cols=24 Identities=33% Similarity=0.432 Sum_probs=20.6
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHH
Q 004358 27 ELKRALDAKGHCLLEMPTGTGKTI 50 (759)
Q Consensus 27 ~v~~al~~~~~~liEaPTGtGKTl 50 (759)
++..|+.+...++|++.||+|||-
T Consensus 272 ell~av~e~QVLiI~GeTGSGKTT 295 (902)
T KOG0923|consen 272 ELLKAVKEHQVLIIVGETGSGKTT 295 (902)
T ss_pred HHHHHHHhCcEEEEEcCCCCCccc
Confidence 455677789999999999999996
No 455
>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=62.97 E-value=7.9 Score=41.97 Aligned_cols=25 Identities=32% Similarity=0.349 Sum_probs=19.6
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 27 ELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 27 ~v~~al~~~~~~liEaPTGtGKTla 51 (759)
-+..++..++++++-+|||+|||-.
T Consensus 170 ~L~~~v~~~~~ili~G~tGsGKTTl 194 (340)
T TIGR03819 170 LLRAIVAARLAFLISGGTGSGKTTL 194 (340)
T ss_pred HHHHHHhCCCeEEEECCCCCCHHHH
Confidence 3444556778999999999999863
No 456
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.82 E-value=9.6 Score=41.79 Aligned_cols=35 Identities=26% Similarity=0.219 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~---~~liEaPTGtGKTla~L~ 54 (759)
+|....+.+...+.++. +.++.+|+|+|||.....
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~ 58 (367)
T PRK14970 21 GQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARI 58 (367)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 88899999999998874 688999999999975543
No 457
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=62.69 E-value=9.1 Score=41.39 Aligned_cols=38 Identities=21% Similarity=0.290 Sum_probs=31.7
Q ss_pred CCHHHHHHHHHHHHHHHhCC--cEE-EEcCCCCcHHHHHHH
Q 004358 17 IYPEQYSYMLELKRALDAKG--HCL-LEMPTGTGKTIALLS 54 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~--~~l-iEaPTGtGKTla~L~ 54 (759)
+||.|...-+.+..++.+++ |++ +.+|.|+||+...+.
T Consensus 3 ~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~ 43 (334)
T PRK07993 3 WYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYA 43 (334)
T ss_pred CCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHH
Confidence 48889999999999998874 555 899999999986554
No 458
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=62.62 E-value=10 Score=29.87 Aligned_cols=25 Identities=32% Similarity=0.385 Sum_probs=18.6
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHH
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVL 61 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~ 61 (759)
+...+|-+|+|+|||- |+=|+.|+.
T Consensus 23 g~~tli~G~nGsGKST--llDAi~~~L 47 (62)
T PF13555_consen 23 GDVTLITGPNGSGKST--LLDAIQTVL 47 (62)
T ss_pred CcEEEEECCCCCCHHH--HHHHHHHHH
Confidence 3478999999999996 344555554
No 459
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=62.60 E-value=11 Score=41.85 Aligned_cols=35 Identities=31% Similarity=0.462 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHhCC-----------c-EEEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG-----------H-CLLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~-----------~-~liEaPTGtGKTla~L~ 54 (759)
+|....+.+..++..+. | .++.+|.|+|||.....
T Consensus 9 Gq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~ 55 (394)
T PRK07940 9 GQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARA 55 (394)
T ss_pred ChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHH
Confidence 78888888888887753 4 77999999999975443
No 460
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=62.59 E-value=4.8 Score=43.04 Aligned_cols=47 Identities=26% Similarity=0.248 Sum_probs=26.9
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
+-+++-+|+|||||| |+=|.+. +. +- .+|=..--.+.+..+.|-.++
T Consensus 186 KGVLLYGPPGTGKTL--LAkAVA~--~T--~A--tFIrvvgSElVqKYiGEGaRl 232 (406)
T COG1222 186 KGVLLYGPPGTGKTL--LAKAVAN--QT--DA--TFIRVVGSELVQKYIGEGARL 232 (406)
T ss_pred CceEeeCCCCCcHHH--HHHHHHh--cc--Cc--eEEEeccHHHHHHHhccchHH
Confidence 569999999999997 3334432 11 22 333333345555566554443
No 461
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=62.53 E-value=7.7 Score=42.95 Aligned_cols=16 Identities=50% Similarity=0.625 Sum_probs=14.0
Q ss_pred CcEEEEcCCCCcHHHH
Q 004358 36 GHCLLEMPTGTGKTIA 51 (759)
Q Consensus 36 ~~~liEaPTGtGKTla 51 (759)
..+++.+|+|||||+.
T Consensus 166 ~gvLL~GppGtGKT~l 181 (389)
T PRK03992 166 KGVLLYGPPGTGKTLL 181 (389)
T ss_pred CceEEECCCCCChHHH
Confidence 4699999999999974
No 462
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=62.42 E-value=10 Score=48.13 Aligned_cols=51 Identities=24% Similarity=0.264 Sum_probs=36.0
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhC--CCCCcEEEEEccchhhHHH
Q 004358 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEK 82 (759)
Q Consensus 31 al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~--~~~~~kvi~~T~T~~l~~Q 82 (759)
+...++.++|||-.|||||.+.-.-.+...... -+.. +|++.|=|++-..-
T Consensus 12 ~~~~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~-~ILvvTFT~aAa~E 64 (1139)
T COG1074 12 ASPPGQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVD-EILVVTFTKAAAAE 64 (1139)
T ss_pred hcCCCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChh-HeeeeeccHHHHHH
Confidence 344567999999999999997655555554442 1234 89999999875433
No 463
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.25 E-value=9.8 Score=43.40 Aligned_cols=35 Identities=31% Similarity=0.330 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004358 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~~--~~-liEaPTGtGKTla~L~ 54 (759)
+|...+..+..++.++. |+ ++.+|.|+|||....+
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 89999999999998874 54 6899999999876544
No 464
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=62.16 E-value=10 Score=43.69 Aligned_cols=54 Identities=19% Similarity=0.199 Sum_probs=33.4
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004358 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+-.|...+|.+|+|+|||.-.+--+...+... +. +++|.|=..+ -+|+++.+..
T Consensus 28 ~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~--ge-~~lyis~ee~-~~~i~~~~~~ 81 (509)
T PRK09302 28 LPKGRPTLVSGTAGTGKTLFALQFLVNGIKRF--DE-PGVFVTFEES-PEDIIRNVAS 81 (509)
T ss_pred CCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhc--CC-CEEEEEccCC-HHHHHHHHHH
Confidence 44567899999999999986554444444321 45 6766654433 3466665544
No 465
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=61.70 E-value=1.9 Score=50.78 Aligned_cols=38 Identities=18% Similarity=0.107 Sum_probs=28.7
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhh
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l 79 (759)
.|+++-||||+|||.++.+|.|.- . +. .+||.-+.-..
T Consensus 176 ~HvlviapTgSGKgvg~ViPnLL~---~--~~-S~VV~D~KGE~ 213 (636)
T PRK13880 176 EHVLTYAPTRSGKGVGLVVPTLLS---W--GH-SSVITDLKGEL 213 (636)
T ss_pred ceEEEEecCCCCCceEEEccchhh---C--CC-CEEEEeCcHHH
Confidence 699999999999999999998752 1 24 56666555444
No 466
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=61.55 E-value=1.7 Score=43.81 Aligned_cols=44 Identities=14% Similarity=0.368 Sum_probs=37.0
Q ss_pred CEEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHH
Q 004358 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (759)
Q Consensus 1 m~~~i~~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTl 50 (759)
|.+.+.++...|| .+...+..|.-.+.+|+++.|-+|.|.|||-
T Consensus 2 ~~i~~~nl~k~yp------~~~~aL~~Vnl~I~~GE~VaiIG~SGaGKST 45 (258)
T COG3638 2 MMIEVKNLSKTYP------GGHQALKDVNLEINQGEMVAIIGPSGAGKST 45 (258)
T ss_pred ceEEEeeeeeecC------CCceeeeeEeEEeCCCcEEEEECCCCCcHHH
Confidence 6678888888877 3456777888888899999999999999996
No 467
>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=61.54 E-value=3.3 Score=48.55 Aligned_cols=46 Identities=15% Similarity=0.139 Sum_probs=31.1
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
+|+++-||||+|||.++.+|.+.- . +. .+|+.-+. -..-.+....+
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnLL~---~--~g-S~VV~DpK-gE~~~~Ta~~R 257 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTALK---Y--GG-PLVCLDPS-TEVAPMVCEHR 257 (623)
T ss_pred ceEEEEeCCCCCccceeehhhhhc---C--CC-CEEEEECh-HHHHHHHHHHH
Confidence 699999999999999999998642 2 23 45555554 33344444444
No 468
>PRK08760 replicative DNA helicase; Provisional
Probab=61.38 E-value=9.4 Score=43.46 Aligned_cols=51 Identities=12% Similarity=0.132 Sum_probs=31.8
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHH
Q 004358 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (759)
Q Consensus 31 al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (759)
.+..|...+|-|+||+|||.-.|--+...+... +. +|+|.|-=.+- +|++.
T Consensus 225 G~~~G~LivIaarPg~GKTafal~iA~~~a~~~--g~-~V~~fSlEMs~-~ql~~ 275 (476)
T PRK08760 225 GLQPTDLIILAARPAMGKTTFALNIAEYAAIKS--KK-GVAVFSMEMSA-SQLAM 275 (476)
T ss_pred CCCCCceEEEEeCCCCChhHHHHHHHHHHHHhc--CC-ceEEEeccCCH-HHHHH
Confidence 344556789999999999987776655444332 45 67666433322 34544
No 469
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=61.34 E-value=28 Score=42.83 Aligned_cols=73 Identities=18% Similarity=0.115 Sum_probs=45.5
Q ss_pred CCCHHHHHHHHHHHHHHHh-CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCC-CCcEEEEEccchhhHHHHHHHHHhh
Q 004358 16 NIYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAELKLL 90 (759)
Q Consensus 16 ~~r~~Q~~~~~~v~~al~~-~~~~liEaPTGtGKTla~L~~~l~~~~~~~~-~~~kvi~~T~T~~l~~Q~~~el~~l 90 (759)
..||.|.+...-..+.+.. +..+++-...|.|||+..++....-....+. .+ +.++.+++ ++..+..+|+.+.
T Consensus 338 ~lr~yq~~g~~wl~~~l~~~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~-~~liv~p~-s~~~nw~~e~~k~ 412 (866)
T COG0553 338 ELRPYQLEGVNWLSELLRSNLLGGILADDMGLGKTVQTIALLLSLLESIKVYLG-PALIVVPA-SLLSNWKREFEKF 412 (866)
T ss_pred hhHHHHHHHHHHHHHHHHhccCCCcccccccchhHHHHHHHHHhhhhcccCCCC-CeEEEecH-HHHHHHHHHHhhh
Confidence 3588899999777745544 4577777999999998776543321111111 23 45555554 3445667777654
No 470
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=61.31 E-value=10 Score=46.37 Aligned_cols=140 Identities=12% Similarity=0.153 Sum_probs=78.6
Q ss_pred ccccHHHhhccCEEEEecCCCCCC-cchhhhhCCCCcccccceeeccCCceeeEEeecCCCCCcceeccccCCChHHHHH
Q 004358 441 SLAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 519 (759)
Q Consensus 441 s~~~~~l~~~~~svIltSgTL~p~-~~f~~~lg~~~~~~~~~~~~~~~~~~~~~ii~~g~~~~~l~s~f~~r~~~~~~~~ 519 (759)
+..++.+|..++.+--|+||.... +.|.+.-+++-+. +|.+. |.+-.+-++ .-| +...+-+.+
T Consensus 553 tIT~QnyFR~Y~kLsGMTGTA~tea~Ef~~IY~L~Vv~-------IPTnr--P~~R~D~~D-----~vy--~t~~eK~~A 616 (1112)
T PRK12901 553 TITLQNYFRMYHKLAGMTGTAETEAGEFWDIYKLDVVV-------IPTNR--PIARKDKED-----LVY--KTKREKYNA 616 (1112)
T ss_pred eeeHHHHHhhCchhcccCCCCHHHHHHHHHHhCCCEEE-------CCCCC--CcceecCCC-----eEe--cCHHHHHHH
Confidence 345577888888888888888553 2455555554221 11111 111111111 112 222333466
Q ss_pred HHHHHHHhhcccCCcEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004358 520 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (759)
Q Consensus 520 ~~~~l~~~~~~~~gg~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv 599 (759)
+.+.+.++. ..+..+||-.+|-+.=+.+...++..|+-.+...-| ....+ ..++ .++ +.+|+|-+|+
T Consensus 617 ii~ei~~~~-~~GrPVLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK------~h~~E-AeIV---A~A--G~~GaVTIAT 683 (1112)
T PRK12901 617 VIEEITELS-EAGRPVLVGTTSVEISELLSRMLKMRKIPHNVLNAK------LHQKE-AEIV---AEA--GQPGTVTIAT 683 (1112)
T ss_pred HHHHHHHHH-HCCCCEEEEeCcHHHHHHHHHHHHHcCCcHHHhhcc------chhhH-HHHH---Hhc--CCCCcEEEec
Confidence 777777666 478899999999999998888888776543332111 11111 1112 122 3468999887
Q ss_pred ecCccccccccC
Q 004358 600 ARGKVAEGIDFD 611 (759)
Q Consensus 600 ~~G~~~EGiDf~ 611 (759)
- =...|-|+.
T Consensus 684 N--MAGRGTDIk 693 (1112)
T PRK12901 684 N--MAGRGTDIK 693 (1112)
T ss_pred c--CcCCCcCcc
Confidence 2 456899986
No 471
>PRK04195 replication factor C large subunit; Provisional
Probab=61.10 E-value=14 Score=42.31 Aligned_cols=18 Identities=44% Similarity=0.445 Sum_probs=15.2
Q ss_pred CCcEEEEcCCCCcHHHHH
Q 004358 35 KGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~ 52 (759)
..++++-+|+|||||...
T Consensus 39 ~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLA 56 (482)
T ss_pred CCeEEEECCCCCCHHHHH
Confidence 358999999999999753
No 472
>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=61.06 E-value=24 Score=37.70 Aligned_cols=45 Identities=20% Similarity=0.285 Sum_probs=32.3
Q ss_pred CHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHhC
Q 004358 18 YPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSK 63 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~--~~~liEaPTGtGKTla~L~~~l~~~~~~ 63 (759)
|+.=.+++..+.++-..+ ...++-++.|+|||.++ +-+++|+..+
T Consensus 4 R~~t~el~~~l~~~~~~~~~~r~vL~G~~GsGKS~~L-~q~~~~A~~~ 50 (309)
T PF10236_consen 4 RKPTLELINKLKEADKSSKNNRYVLTGERGSGKSVLL-AQAVHYAREN 50 (309)
T ss_pred chHHHHHHHHHHHhcccCCceEEEEECCCCCCHHHHH-HHHHHHHHhC
Confidence 455566676666663333 47999999999999875 4567888754
No 473
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=61.00 E-value=24 Score=40.71 Aligned_cols=29 Identities=21% Similarity=0.243 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 23 SYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 23 ~~~~~v~~al~~~~~~liEaPTGtGKTla 51 (759)
++.+.+..+-..+.+++|.+++|||||..
T Consensus 198 ~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~ 226 (509)
T PRK05022 198 QLKKEIEVVAASDLNVLILGETGVGKELV 226 (509)
T ss_pred HHHHHHHHHhCCCCcEEEECCCCccHHHH
Confidence 33444444445567999999999999974
No 474
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=60.96 E-value=12 Score=38.25 Aligned_cols=40 Identities=18% Similarity=0.181 Sum_probs=26.0
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchh
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~ 78 (759)
.-.++|-||+|+|||.-.+ ..+...... -. .|++.|++.+
T Consensus 13 ~fr~viIG~sGSGKT~li~-~lL~~~~~~--f~-~I~l~t~~~n 52 (241)
T PF04665_consen 13 PFRMVIIGKSGSGKTTLIK-SLLYYLRHK--FD-HIFLITPEYN 52 (241)
T ss_pred CceEEEECCCCCCHHHHHH-HHHHhhccc--CC-EEEEEecCCc
Confidence 3478999999999997443 334433222 13 7888888544
No 475
>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=60.91 E-value=8.7 Score=37.72 Aligned_cols=44 Identities=14% Similarity=0.249 Sum_probs=35.1
Q ss_pred EEEcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 3 FKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 3 ~~i~~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla 51 (759)
.+++++..+|+=.+ +...+.|.-.+..|+.+++-+|+|+|||--
T Consensus 4 l~~~~~sl~y~g~~-----~~~le~vsL~ia~ge~vv~lGpSGcGKTTL 47 (259)
T COG4525 4 LNVSHLSLSYEGKP-----RSALEDVSLTIASGELVVVLGPSGCGKTTL 47 (259)
T ss_pred eehhheEEecCCcc-----hhhhhccceeecCCCEEEEEcCCCccHHHH
Confidence 46778888888764 456667777778899999999999999964
No 476
>PRK05748 replicative DNA helicase; Provisional
Probab=60.89 E-value=9 Score=43.33 Aligned_cols=41 Identities=12% Similarity=0.197 Sum_probs=27.4
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 31 al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
.+..|...+|-|+||+|||.-.|--+...+.. .+. +|+|.|
T Consensus 199 G~~~G~livIaarpg~GKT~~al~ia~~~a~~--~g~-~v~~fS 239 (448)
T PRK05748 199 GLQPNDLIIVAARPSVGKTAFALNIAQNVATK--TDK-NVAIFS 239 (448)
T ss_pred CCCCCceEEEEeCCCCCchHHHHHHHHHHHHh--CCC-eEEEEe
Confidence 34445678999999999998766554443332 245 776665
No 477
>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=60.35 E-value=18 Score=39.71 Aligned_cols=48 Identities=21% Similarity=0.250 Sum_probs=30.8
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHH
Q 004358 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (759)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~ 84 (759)
+..+...++-+|+|+|||.-.+--+...+. .+. +|+|.+...+ .+|+.
T Consensus 79 i~~GslvLI~G~pG~GKStLllq~a~~~a~---~g~-~VlYvs~EEs-~~qi~ 126 (372)
T cd01121 79 LVPGSVILIGGDPGIGKSTLLLQVAARLAK---RGG-KVLYVSGEES-PEQIK 126 (372)
T ss_pred ccCCeEEEEEeCCCCCHHHHHHHHHHHHHh---cCC-eEEEEECCcC-HHHHH
Confidence 334568899999999999866654433332 245 7888765443 24443
No 478
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=60.26 E-value=23 Score=42.01 Aligned_cols=28 Identities=21% Similarity=0.152 Sum_probs=20.9
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004358 24 YMLELKRALDAKGHCLLEMPTGTGKTIA 51 (759)
Q Consensus 24 ~~~~v~~al~~~~~~liEaPTGtGKTla 51 (759)
+.+.+..+...+.+++|.++|||||++.
T Consensus 337 ~~~~~~~~a~~~~pvli~Ge~GtGK~~~ 364 (638)
T PRK11388 337 LIHFGRQAAKSSFPVLLCGEEGVGKALL 364 (638)
T ss_pred HHHHHHHHhCcCCCEEEECCCCcCHHHH
Confidence 4444444555567999999999999974
No 479
>CHL00176 ftsH cell division protein; Validated
Probab=60.21 E-value=9.4 Score=45.05 Aligned_cols=39 Identities=28% Similarity=0.263 Sum_probs=26.7
Q ss_pred CHHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHHHHHHHH
Q 004358 18 YPEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITS 58 (759)
Q Consensus 18 r~~Q~~~~~~v~~al~~~-----------~~~liEaPTGtGKTla~L~~~l~ 58 (759)
...+.+-+..+.+.+.+. +.+++.+|+|||||+. +-+++
T Consensus 188 ~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~L--AralA 237 (638)
T CHL00176 188 IEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLL--AKAIA 237 (638)
T ss_pred hHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHH--HHHHH
Confidence 455556666666666543 3589999999999974 44554
No 480
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=60.15 E-value=69 Score=36.01 Aligned_cols=104 Identities=22% Similarity=0.356 Sum_probs=71.7
Q ss_pred cEEEEecCHHHHHHHHHHHhhcccHHHHhcCceEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccccCCC
Q 004358 534 GIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRH 613 (759)
Q Consensus 534 g~lv~f~Sy~~l~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~aiL~gv~~G~~~EGiDf~~~ 613 (759)
.++||...-+....+...+...++ +.+.|-.+. ...++...+..|+. ++-.+|++.. -.+.|+|+|+
T Consensus 339 ~tlvFvEt~~~~d~l~~~l~~~~~-----~~~sIhg~~-tq~er~~al~~Fr~----g~~pvlVaT~--VaaRGlDi~~- 405 (482)
T KOG0335|consen 339 KTLVFVETKRGADELAAFLSSNGY-----PAKSIHGDR-TQIEREQALNDFRN----GKAPVLVATN--VAARGLDIPN- 405 (482)
T ss_pred eEEEEeeccchhhHHHHHHhcCCC-----Cceeecchh-hhhHHHHHHHHhhc----CCcceEEEeh--hhhcCCCCCC-
Confidence 599999999999999888876543 223333222 22456778888886 5667898874 7999999997
Q ss_pred CceEEEEEccCCCCcCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHhcccccccCCCeeEEEEee
Q 004358 614 YGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFAD 681 (759)
Q Consensus 614 ~~r~vii~glPfp~~~dp~v~ar~~~l~~~~~~~~~~~~~~~a~~~~~QaiGR~IR~~~D~g~iillD 681 (759)
.+-||..-+|=. +.+|. .++||.=|..+===++.|+|
T Consensus 406 -V~hVInyDmP~d---------------------~d~Yv---------HRIGRTGR~Gn~G~atsf~n 442 (482)
T KOG0335|consen 406 -VKHVINYDMPAD---------------------IDDYV---------HRIGRTGRVGNGGRATSFFN 442 (482)
T ss_pred -CceeEEeecCcc---------------------hhhHH---------HhccccccCCCCceeEEEec
Confidence 677888888732 11222 25787777665433677777
No 481
>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=60.14 E-value=22 Score=47.63 Aligned_cols=62 Identities=16% Similarity=0.096 Sum_probs=42.1
Q ss_pred CCHHHHHHHHHHHHHHHh-CCcEEEEcCCCCcHHHHHH---HHHHHHHHhCCCCCcEEEEEccchhhHHHHH
Q 004358 17 IYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALL---SLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~-~~~~liEaPTGtGKTla~L---~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~ 84 (759)
..++|++.+..| +.. +..++|.++.|||||..+- -++...... .+. +|+.+++|+.....+-
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 478999977655 333 4688999999999997651 222222222 244 8999999988766553
No 482
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=59.84 E-value=23 Score=36.31 Aligned_cols=23 Identities=26% Similarity=0.372 Sum_probs=17.3
Q ss_pred CCcEEEEEccchhhHHHHHHHHHh
Q 004358 66 NPVKLIYCTRTVHEMEKTLAELKL 89 (759)
Q Consensus 66 ~~~kvi~~T~T~~l~~Q~~~el~~ 89 (759)
+. .+++-++|..|.+.+++.|+.
T Consensus 188 gg-~~~~y~P~veQv~kt~~~l~~ 210 (256)
T COG2519 188 GG-VVVVYSPTVEQVEKTVEALRE 210 (256)
T ss_pred Cc-EEEEEcCCHHHHHHHHHHHHh
Confidence 44 788888888888887776665
No 483
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=59.83 E-value=3.1 Score=43.67 Aligned_cols=38 Identities=26% Similarity=0.450 Sum_probs=0.0
Q ss_pred cCeEEEecCccccCH-----HHHhHhhhcc-----CCCcEEEEcCCCC
Q 004358 201 FANVVVYSYQYLLDP-----KVAGIISKEM-----QKESVVVFDEAHN 238 (759)
Q Consensus 201 ~adiiv~n~~~ll~~-----~~~~~~~~~l-----~~~~ivI~DEAHn 238 (759)
...||+++|+.|... .-+.++...+ ..+.+|||||+|+
T Consensus 136 ~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDEcH~ 183 (303)
T PF13872_consen 136 KEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDECHK 183 (303)
T ss_pred CCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEeccchh
No 484
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=59.79 E-value=14 Score=40.95 Aligned_cols=37 Identities=27% Similarity=0.393 Sum_probs=22.9
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
..+++-+|||+|||....--+..+... .+. +|.++|-
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 357788999999998644433333222 245 6766653
No 485
>PRK05595 replicative DNA helicase; Provisional
Probab=59.74 E-value=11 Score=42.70 Aligned_cols=46 Identities=13% Similarity=0.127 Sum_probs=30.2
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 004358 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (759)
Q Consensus 27 ~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~ 75 (759)
.+...+..|..++|-|+||.|||.-.+--+..++... +. +|+|.+-
T Consensus 193 ~~~~G~~~g~liviaarpg~GKT~~al~ia~~~a~~~--g~-~vl~fSl 238 (444)
T PRK05595 193 AKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALRE--GK-SVAIFSL 238 (444)
T ss_pred HhcCCCCCCcEEEEEecCCCChHHHHHHHHHHHHHHc--CC-cEEEEec
Confidence 3334455567789999999999987665554444332 45 6766644
No 486
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=59.72 E-value=7.9 Score=41.10 Aligned_cols=32 Identities=31% Similarity=0.275 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHhC----------------CcEEEEcCCCCcHHHH
Q 004358 20 EQYSYMLELKRALDAK----------------GHCLLEMPTGTGKTIA 51 (759)
Q Consensus 20 ~Q~~~~~~v~~al~~~----------------~~~liEaPTGtGKTla 51 (759)
+|.+.=.+|+=||.+. ++++.-+|||+|||-.
T Consensus 19 GQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEI 66 (444)
T COG1220 19 GQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEI 66 (444)
T ss_pred CcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHH
Confidence 5667777777777652 6899999999999963
No 487
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=59.59 E-value=7.8 Score=41.10 Aligned_cols=41 Identities=20% Similarity=0.176 Sum_probs=25.3
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHHHHHHHH
Q 004358 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (759)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (759)
+..++|-+|||+|||-.. +..++.. . .||+.- --|+.++++
T Consensus 4 ~~ii~I~GpTasGKS~LA----l~LA~~~---~--eIIsaD----S~QvYr~ld 44 (300)
T PRK14729 4 NKIVFIFGPTAVGKSNIL----FHFPKGK---A--EIINVD----SIQVYKEFD 44 (300)
T ss_pred CcEEEEECCCccCHHHHH----HHHHHhC---C--cEEecc----HHHHHCCCc
Confidence 457899999999999743 3334432 2 455543 346666544
No 488
>PRK09165 replicative DNA helicase; Provisional
Probab=59.17 E-value=11 Score=43.31 Aligned_cols=30 Identities=17% Similarity=0.107 Sum_probs=22.1
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHH
Q 004358 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVL 61 (759)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~~l~~~~ 61 (759)
+..|...+|-|+||+|||.-.|--+...+.
T Consensus 214 ~~~g~livIaarpg~GKT~~al~ia~~~a~ 243 (497)
T PRK09165 214 LHPSDLIILAGRPSMGKTALATNIAFNAAK 243 (497)
T ss_pred CCCCceEEEEeCCCCChHHHHHHHHHHHHH
Confidence 344556899999999999877765555543
No 489
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=59.07 E-value=5.4 Score=35.63 Aligned_cols=13 Identities=31% Similarity=0.710 Sum_probs=11.9
Q ss_pred EEEEcCCCCcHHH
Q 004358 38 CLLEMPTGTGKTI 50 (759)
Q Consensus 38 ~liEaPTGtGKTl 50 (759)
++|.+|+|+|||.
T Consensus 2 I~I~G~~gsGKST 14 (121)
T PF13207_consen 2 IIISGPPGSGKST 14 (121)
T ss_dssp EEEEESTTSSHHH
T ss_pred EEEECCCCCCHHH
Confidence 6899999999996
No 490
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=59.03 E-value=14 Score=42.11 Aligned_cols=21 Identities=43% Similarity=0.608 Sum_probs=16.8
Q ss_pred HHhCCcEEEEcCCCCcHHHHH
Q 004358 32 LDAKGHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~ 52 (759)
+..++.+.+-+|||+|||...
T Consensus 347 l~~G~vIaLVGPtGvGKTTta 367 (559)
T PRK12727 347 LERGGVIALVGPTGAGKTTTI 367 (559)
T ss_pred ccCCCEEEEECCCCCCHHHHH
Confidence 345678888899999999754
No 491
>PRK06620 hypothetical protein; Validated
Probab=58.81 E-value=10 Score=38.09 Aligned_cols=16 Identities=31% Similarity=0.395 Sum_probs=13.6
Q ss_pred CcEEEEcCCCCcHHHH
Q 004358 36 GHCLLEMPTGTGKTIA 51 (759)
Q Consensus 36 ~~~liEaPTGtGKTla 51 (759)
..+++-+|+|+|||--
T Consensus 45 ~~l~l~Gp~G~GKThL 60 (214)
T PRK06620 45 FTLLIKGPSSSGKTYL 60 (214)
T ss_pred ceEEEECCCCCCHHHH
Confidence 3489999999999963
No 492
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=58.79 E-value=36 Score=38.19 Aligned_cols=37 Identities=24% Similarity=0.212 Sum_probs=22.7
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEE-EEccch
Q 004358 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLI-YCTRTV 77 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi-~~T~T~ 77 (759)
.+++-+|+|+|||....--|..+. .. +. +|. +++.|.
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~-~~--g~-kV~lV~~D~~ 134 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFK-KK--GL-KVGLVAADTY 134 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHH-Hc--CC-eEEEecCCCC
Confidence 577889999999986554443332 22 34 444 455443
No 493
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=58.52 E-value=18 Score=38.74 Aligned_cols=46 Identities=15% Similarity=0.036 Sum_probs=30.9
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhH
Q 004358 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (759)
Q Consensus 31 al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~ 80 (759)
.+..+....|-+|+|+|||.-.|-.+...++. +. +++|.+.-++.-
T Consensus 51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~~---g~-~v~yId~E~~~~ 96 (321)
T TIGR02012 51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQKA---GG-TAAFIDAEHALD 96 (321)
T ss_pred CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHc---CC-cEEEEcccchhH
Confidence 34445688899999999998777655555432 45 676666555543
No 494
>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=58.46 E-value=25 Score=38.99 Aligned_cols=53 Identities=9% Similarity=0.202 Sum_probs=39.3
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhHHH-HHHHHHhh
Q 004358 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK-TLAELKLL 90 (759)
Q Consensus 37 ~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~~Q-~~~el~~l 90 (759)
..+++++.|+|||.+...-.+.++...+.+. +++++-+|...+.+ ++.++...
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~-~~~~~r~~~~sl~~sv~~~l~~~ 56 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQ-NILAARKVQNSIRDSVFKDIENL 56 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhcCCCc-EEEEEehhhhHHHHHHHHHHHHH
Confidence 5688999999999988887777776642245 89988888875555 44566654
No 495
>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=58.33 E-value=9.2 Score=46.85 Aligned_cols=34 Identities=26% Similarity=0.297 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHH
Q 004358 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIAL 52 (759)
Q Consensus 19 ~~Q~~~~~~v~~al~~~-----------~~~liEaPTGtGKTla~ 52 (759)
-+|-+.+..|.+++... +.+++.+|||+|||...
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 47888999999888541 24789999999999743
No 496
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=58.30 E-value=10 Score=43.43 Aligned_cols=22 Identities=36% Similarity=0.397 Sum_probs=16.9
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHH
Q 004358 36 GHCLLEMPTGTGKTIALLSLITSY 59 (759)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~~l~~ 59 (759)
+.+++.+|+|||||.. +-+++.
T Consensus 89 ~giLL~GppGtGKT~l--a~alA~ 110 (495)
T TIGR01241 89 KGVLLVGPPGTGKTLL--AKAVAG 110 (495)
T ss_pred CcEEEECCCCCCHHHH--HHHHHH
Confidence 3699999999999973 445543
No 497
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=58.28 E-value=3 Score=42.42 Aligned_cols=62 Identities=13% Similarity=0.232 Sum_probs=41.5
Q ss_pred EEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 004358 2 IFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (759)
Q Consensus 2 ~~~i~~~~v~FPy~~~r~~Q~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T 74 (759)
.+.|+++...|+. ....+.|--.+..|+.+.|-+|+|+|||-- +-+++-... +..+ .|.+..
T Consensus 3 ~l~i~~v~~~f~~-------~~vl~~i~L~v~~GEfvsilGpSGcGKSTL--LriiAGL~~-p~~G-~V~~~g 64 (248)
T COG1116 3 LLEIEGVSKSFGG-------VEVLEDINLSVEKGEFVAILGPSGCGKSTL--LRLIAGLEK-PTSG-EVLLDG 64 (248)
T ss_pred eEEEEeeEEEeCc-------eEEeccceeEECCCCEEEEECCCCCCHHHH--HHHHhCCCC-CCCc-eEEECC
Confidence 4678888888887 334555666677899999999999999963 334443322 3334 455543
No 498
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=58.27 E-value=10 Score=40.83 Aligned_cols=37 Identities=35% Similarity=0.415 Sum_probs=27.0
Q ss_pred CCHHHHHHHHHHHHHHHhCCc-EEEEcCCCCcHHHHHHH
Q 004358 17 IYPEQYSYMLELKRALDAKGH-CLLEMPTGTGKTIALLS 54 (759)
Q Consensus 17 ~r~~Q~~~~~~v~~al~~~~~-~liEaPTGtGKTla~L~ 54 (759)
.||.|...-..+.+. .+-.| .++.+|.|+|||.....
T Consensus 4 ~yPWl~~~~~~~~~~-~r~~ha~Lf~G~~G~GK~~~A~~ 41 (328)
T PRK05707 4 IYPWQQSLWQQLAGR-GRHPHAYLLHGPAGIGKRALAER 41 (328)
T ss_pred CCCCcHHHHHHHHHC-CCcceeeeeECCCCCCHHHHHHH
Confidence 588888888887765 22235 66899999999975543
No 499
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=58.19 E-value=11 Score=41.40 Aligned_cols=16 Identities=50% Similarity=0.625 Sum_probs=13.7
Q ss_pred CcEEEEcCCCCcHHHH
Q 004358 36 GHCLLEMPTGTGKTIA 51 (759)
Q Consensus 36 ~~~liEaPTGtGKTla 51 (759)
..+++.+|+|||||..
T Consensus 157 ~gvLL~GppGtGKT~l 172 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLL 172 (364)
T ss_pred ceEEEECCCCCCHHHH
Confidence 4589999999999964
No 500
>PRK10646 ADP-binding protein; Provisional
Probab=58.19 E-value=9.3 Score=36.15 Aligned_cols=52 Identities=17% Similarity=-0.022 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHhCCCCCcEEEEEccchhhH
Q 004358 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (759)
Q Consensus 22 ~~~~~~v~~al~~~~~~liEaPTGtGKTla~L~~~l~~~~~~~~~~~kvi~~T~T~~l~ 80 (759)
.++.+.+.+.+..+..++++++-|+|||. |+-+++-+ . +. +-.|.+||-+++
T Consensus 15 ~~l~~~la~~l~~g~vi~L~GdLGaGKTt--f~rgl~~~--L--g~-~~~V~SPTFtlv 66 (153)
T PRK10646 15 LDLGARVAKACDGATVIYLYGDLGAGKTT--FSRGFLQA--L--GH-QGNVKSPTYTLV 66 (153)
T ss_pred HHHHHHHHHhCCCCcEEEEECCCCCCHHH--HHHHHHHH--c--CC-CCCCCCCCEeeE
Confidence 46677777778888899999999999996 34444332 2 22 334788888764
Done!