Query 004385
Match_columns 757
No_of_seqs 228 out of 2022
Neff 8.5
Searched_HMMs 46136
Date Thu Mar 28 22:32:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004385.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004385hhsearch_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 2E-148 4E-153 1152.2 61.0 746 1-749 1-748 (755)
2 TIGR00604 rad3 DNA repair heli 100.0 3E-113 6E-118 1006.5 63.0 688 7-703 1-696 (705)
3 KOG1132 Helicase of the DEAD s 100.0 4E-103 8E-108 864.3 51.6 665 3-728 8-765 (945)
4 KOG1133 Helicase of the DEAD s 100.0 2.1E-99 4E-104 812.9 51.9 661 6-722 6-817 (821)
5 PRK11747 dinG ATP-dependent DN 100.0 2.8E-82 6.1E-87 737.3 54.3 609 14-693 24-690 (697)
6 PRK08074 bifunctional ATP-depe 100.0 8.3E-81 1.8E-85 746.6 53.4 634 14-719 256-928 (928)
7 TIGR01407 dinG_rel DnaQ family 100.0 2.5E-76 5.5E-81 706.0 49.9 593 12-719 242-850 (850)
8 COG1199 DinG Rad3-related DNA 100.0 2.5E-75 5.5E-80 685.8 45.9 615 7-703 6-639 (654)
9 PRK07246 bifunctional ATP-depe 100.0 2.5E-73 5.4E-78 669.9 50.2 564 14-720 244-820 (820)
10 TIGR03117 cas_csf4 CRISPR-asso 100.0 2.7E-68 5.9E-73 599.5 51.8 564 20-689 1-623 (636)
11 smart00489 DEXDc3 DEAD-like he 100.0 2.6E-48 5.7E-53 407.4 23.9 262 9-272 2-281 (289)
12 smart00488 DEXDc2 DEAD-like he 100.0 2.6E-48 5.7E-53 407.4 23.9 262 9-272 2-281 (289)
13 PF13307 Helicase_C_2: Helicas 100.0 2.8E-41 6.1E-46 326.4 11.6 166 522-697 1-166 (167)
14 smart00491 HELICc2 helicase su 100.0 4.8E-36 1E-40 279.6 15.9 141 540-684 1-142 (142)
15 smart00492 HELICc3 helicase su 100.0 2.3E-33 5E-38 260.9 16.0 140 540-684 1-141 (141)
16 PF06733 DEAD_2: DEAD_2; Inte 100.0 5.9E-32 1.3E-36 264.0 6.6 173 72-256 1-174 (174)
17 PF06777 DUF1227: Protein of u 99.8 8E-20 1.7E-24 165.6 12.5 142 270-411 3-146 (146)
18 PRK11192 ATP-dependent RNA hel 99.7 2.8E-15 6E-20 168.4 28.0 76 12-91 19-97 (434)
19 PRK11776 ATP-dependent RNA hel 99.7 1.3E-14 2.9E-19 164.0 28.7 75 12-91 22-96 (460)
20 PRK10590 ATP-dependent RNA hel 99.7 1.4E-14 3E-19 163.4 28.0 76 12-91 19-99 (456)
21 TIGR00614 recQ_fam ATP-depende 99.7 2.6E-14 5.6E-19 161.7 29.4 70 9-89 4-73 (470)
22 PRK04837 ATP-dependent RNA hel 99.7 1.2E-14 2.6E-19 162.6 26.2 76 11-91 25-107 (423)
23 PRK04537 ATP-dependent RNA hel 99.7 2.1E-14 4.6E-19 165.1 28.3 76 11-91 26-108 (572)
24 PTZ00110 helicase; Provisional 99.7 2.2E-14 4.8E-19 164.4 28.3 74 12-90 148-226 (545)
25 PRK01297 ATP-dependent RNA hel 99.7 8.3E-14 1.8E-18 158.1 31.0 75 12-91 105-186 (475)
26 PRK11634 ATP-dependent RNA hel 99.6 2.6E-14 5.6E-19 165.5 26.7 77 11-92 23-99 (629)
27 PLN00206 DEAD-box ATP-dependen 99.6 3.6E-14 7.8E-19 162.1 26.6 74 12-90 139-219 (518)
28 PTZ00424 helicase 45; Provisio 99.6 9.1E-14 2E-18 154.8 28.4 75 11-90 45-119 (401)
29 TIGR01389 recQ ATP-dependent D 99.6 2E-13 4.3E-18 159.0 29.5 70 9-89 6-75 (591)
30 PRK13767 ATP-dependent helicas 99.6 5.2E-13 1.1E-17 160.8 31.5 72 14-89 30-106 (876)
31 PRK11057 ATP-dependent DNA hel 99.6 3.8E-13 8.1E-18 156.4 28.9 69 10-89 19-87 (607)
32 TIGR03817 DECH_helic helicase/ 99.6 1.2E-12 2.7E-17 154.5 33.0 73 12-90 32-104 (742)
33 TIGR00580 mfd transcription-re 99.6 1.2E-12 2.5E-17 156.4 29.8 78 9-91 445-524 (926)
34 PRK02362 ski2-like helicase; P 99.5 2.4E-12 5.2E-17 153.4 29.0 72 12-90 19-90 (737)
35 PRK01172 ski2-like helicase; P 99.5 1.4E-12 3E-17 154.4 25.8 70 12-90 19-88 (674)
36 PRK10917 ATP-dependent DNA hel 99.5 6.2E-12 1.3E-16 147.9 31.0 92 8-112 254-347 (681)
37 PLN03137 ATP-dependent DNA hel 99.5 6.9E-12 1.5E-16 148.0 28.5 69 10-89 454-522 (1195)
38 PRK09401 reverse gyrase; Revie 99.5 6E-12 1.3E-16 153.8 27.1 72 11-91 76-147 (1176)
39 PRK00254 ski2-like helicase; P 99.5 7.5E-12 1.6E-16 148.8 27.3 73 12-90 19-91 (720)
40 PHA02558 uvsW UvsW helicase; P 99.4 1.8E-10 3.9E-15 131.2 29.5 108 528-679 342-450 (501)
41 cd00268 DEADc DEAD-box helicas 99.4 4.4E-12 9.5E-17 127.2 12.3 75 12-91 17-93 (203)
42 TIGR02621 cas3_GSU0051 CRISPR- 99.3 3E-10 6.4E-15 132.4 28.1 74 13-92 13-87 (844)
43 PRK10689 transcription-repair 99.3 5.1E-10 1.1E-14 136.9 30.9 77 9-90 594-672 (1147)
44 PRK14701 reverse gyrase; Provi 99.3 6E-10 1.3E-14 139.5 31.1 72 11-91 75-146 (1638)
45 PF04851 ResIII: Type III rest 99.3 1.3E-11 2.9E-16 121.2 11.2 67 17-90 4-73 (184)
46 TIGR01054 rgy reverse gyrase. 99.3 6.8E-10 1.5E-14 136.3 27.7 87 522-623 318-409 (1171)
47 PF00270 DEAD: DEAD/DEAH box h 99.3 1.5E-11 3.3E-16 119.3 10.6 67 19-91 2-68 (169)
48 PRK12898 secA preprotein trans 99.3 5.4E-09 1.2E-13 119.3 32.0 78 17-112 104-181 (656)
49 TIGR00963 secA preprotein tran 99.3 5.5E-09 1.2E-13 120.0 31.9 152 440-622 331-488 (745)
50 PHA02653 RNA helicase NPH-II; 99.3 3.1E-09 6.7E-14 123.1 29.7 78 13-91 155-246 (675)
51 TIGR01587 cas3_core CRISPR-ass 99.2 1.8E-09 4E-14 118.3 25.4 51 38-90 2-52 (358)
52 TIGR03714 secA2 accessory Sec 99.2 1.4E-08 3E-13 117.4 33.2 68 17-92 69-136 (762)
53 PRK09200 preprotein translocas 99.2 1.3E-08 2.8E-13 118.8 30.6 65 18-92 80-144 (790)
54 PRK09751 putative ATP-dependen 99.2 6.5E-09 1.4E-13 128.2 27.7 51 40-90 1-60 (1490)
55 TIGR00643 recG ATP-dependent D 99.1 5.2E-10 1.1E-14 130.8 12.9 90 10-112 230-321 (630)
56 PRK11664 ATP-dependent RNA hel 99.0 4.1E-08 9E-13 116.8 26.2 63 23-89 8-70 (812)
57 TIGR01970 DEAH_box_HrpB ATP-de 99.0 8.3E-08 1.8E-12 114.0 27.4 130 516-669 195-325 (819)
58 KOG0350 DEAD-box ATP-dependent 99.0 1.6E-09 3.4E-14 115.3 9.6 149 17-245 160-313 (620)
59 smart00487 DEXDc DEAD-like hel 98.9 5.3E-09 1.1E-13 103.5 11.6 74 12-90 4-77 (201)
60 COG1110 Reverse gyrase [DNA re 98.9 1.2E-06 2.7E-11 101.2 29.0 131 450-622 277-416 (1187)
61 COG1202 Superfamily II helicas 98.9 2E-07 4.3E-12 101.1 21.1 179 451-684 374-558 (830)
62 COG0513 SrmB Superfamily II DN 98.8 3.4E-08 7.4E-13 112.5 12.8 76 13-92 48-124 (513)
63 PRK04914 ATP-dependent helicas 98.8 1.9E-06 4.1E-11 103.4 27.5 113 522-677 484-599 (956)
64 COG1204 Superfamily II helicas 98.8 1.6E-08 3.4E-13 118.9 9.4 138 16-249 31-168 (766)
65 PRK13104 secA preprotein trans 98.8 1.5E-06 3.3E-11 101.7 24.9 139 439-609 369-509 (896)
66 KOG0345 ATP-dependent RNA heli 98.7 7.3E-08 1.6E-12 102.2 12.1 74 12-89 24-101 (567)
67 KOG0342 ATP-dependent RNA heli 98.7 1.7E-08 3.6E-13 107.8 7.2 79 12-94 100-181 (543)
68 KOG0331 ATP-dependent RNA heli 98.7 2.4E-08 5.1E-13 110.0 8.2 139 13-242 110-254 (519)
69 PRK12904 preprotein translocas 98.7 3.2E-06 6.9E-11 98.9 24.6 140 440-610 356-496 (830)
70 PRK09694 helicase Cas3; Provis 98.7 9.7E-08 2.1E-12 113.5 12.4 69 16-90 286-354 (878)
71 COG1111 MPH1 ERCC4-like helica 98.7 1E-07 2.2E-12 102.6 10.7 67 17-91 16-82 (542)
72 KOG0335 ATP-dependent RNA heli 98.7 4.5E-08 9.8E-13 106.0 7.9 73 13-90 93-175 (482)
73 KOG0354 DEAD-box like helicase 98.6 1.1E-07 2.3E-12 108.2 10.5 67 16-89 62-128 (746)
74 cd00046 DEXDc DEAD-like helica 98.6 1.5E-07 3.3E-12 87.3 9.8 53 36-90 1-53 (144)
75 PRK11448 hsdR type I restricti 98.6 2.6E-07 5.6E-12 113.1 13.4 72 17-90 414-486 (1123)
76 PRK13766 Hef nuclease; Provisi 98.6 2.3E-07 5E-12 112.1 12.8 69 13-90 13-81 (773)
77 PRK05580 primosome assembly pr 98.6 3.3E-07 7.2E-12 107.8 13.1 72 13-90 142-213 (679)
78 COG1205 Distinct helicase fami 98.5 4.1E-07 9E-12 108.6 12.5 69 17-91 71-139 (851)
79 TIGR01967 DEAH_box_HrpA ATP-de 98.5 2E-05 4.2E-10 96.8 26.3 156 513-701 262-419 (1283)
80 PRK11131 ATP-dependent RNA hel 98.5 1.4E-05 3.1E-10 97.6 24.1 136 512-676 268-405 (1294)
81 COG1201 Lhr Lhr-like helicases 98.5 7.5E-07 1.6E-11 103.8 12.4 73 14-90 20-96 (814)
82 COG1061 SSL2 DNA or RNA helica 98.5 6.3E-07 1.4E-11 100.4 11.2 72 10-89 31-102 (442)
83 TIGR00348 hsdR type I site-spe 98.5 1.1E-06 2.3E-11 103.5 13.4 72 17-90 239-316 (667)
84 KOG0348 ATP-dependent RNA heli 98.5 3.5E-07 7.6E-12 98.4 8.3 75 12-91 155-235 (708)
85 PRK12899 secA preprotein trans 98.5 1E-06 2.2E-11 103.0 12.2 66 18-91 94-159 (970)
86 TIGR00603 rad25 DNA repair hel 98.5 1E-06 2.3E-11 102.1 12.2 69 11-90 251-321 (732)
87 COG4889 Predicted helicase [Ge 98.4 1.6E-06 3.5E-11 98.0 12.2 168 6-242 152-319 (1518)
88 KOG0338 ATP-dependent RNA heli 98.4 7.6E-07 1.6E-11 95.4 8.5 76 12-91 199-276 (691)
89 TIGR03158 cas3_cyano CRISPR-as 98.3 3.9E-06 8.4E-11 91.6 12.5 57 28-91 5-63 (357)
90 KOG0346 RNA helicase [RNA proc 98.3 1.1E-06 2.3E-11 92.8 6.9 76 13-93 38-119 (569)
91 PRK13107 preprotein translocas 98.2 0.0003 6.6E-09 82.6 25.7 53 36-92 96-148 (908)
92 KOG0330 ATP-dependent RNA heli 98.2 3.7E-06 8.1E-11 87.6 8.9 86 14-112 81-166 (476)
93 COG0514 RecQ Superfamily II DN 98.2 3.8E-06 8.2E-11 94.6 9.3 71 8-89 9-79 (590)
94 PRK12906 secA preprotein trans 98.2 0.00097 2.1E-08 78.2 28.9 152 440-622 366-524 (796)
95 TIGR00595 priA primosomal prot 98.1 1.2E-05 2.5E-10 91.5 10.4 48 39-90 1-48 (505)
96 COG4096 HsdR Type I site-speci 98.0 1.5E-05 3.2E-10 91.1 9.7 72 17-90 166-238 (875)
97 KOG0334 RNA helicase [RNA proc 98.0 1.5E-05 3.3E-10 93.0 9.8 77 11-92 382-463 (997)
98 cd00079 HELICc Helicase superf 98.0 3.8E-05 8.2E-10 70.6 10.5 114 517-677 16-130 (131)
99 KOG0343 RNA Helicase [RNA proc 98.0 6E-06 1.3E-10 89.5 5.4 58 34-91 105-165 (758)
100 KOG0333 U5 snRNP-like RNA heli 98.0 2.1E-05 4.6E-10 84.9 9.1 74 13-91 264-346 (673)
101 KOG0344 ATP-dependent RNA heli 97.9 2.1E-05 4.6E-10 86.4 7.0 75 12-90 154-232 (593)
102 KOG0336 ATP-dependent RNA heli 97.9 1E-05 2.2E-10 84.7 4.0 73 13-90 239-317 (629)
103 PF13245 AAA_19: Part of AAA d 97.8 8.4E-05 1.8E-09 61.4 7.7 59 27-87 2-62 (76)
104 PF00176 SNF2_N: SNF2 family N 97.8 0.00015 3.2E-09 77.1 11.8 84 20-113 1-95 (299)
105 COG1200 RecG RecG-like helicas 97.8 0.00011 2.4E-09 83.0 10.4 89 11-112 258-348 (677)
106 KOG1803 DNA helicase [Replicat 97.7 8.5E-05 1.8E-09 82.2 8.4 71 10-88 180-250 (649)
107 KOG0339 ATP-dependent RNA heli 97.7 7.2E-05 1.6E-09 80.5 7.3 56 35-91 260-320 (731)
108 KOG1802 RNA helicase nonsense 97.7 0.00017 3.6E-09 80.2 9.8 81 15-114 409-489 (935)
109 PLN03142 Probable chromatin-re 97.6 0.00029 6.4E-09 85.3 10.5 72 16-90 169-241 (1033)
110 COG1197 Mfd Transcription-repa 97.4 0.001 2.2E-08 79.7 12.3 88 9-109 588-677 (1139)
111 PRK13103 secA preprotein trans 97.3 0.00077 1.7E-08 79.4 9.9 140 439-609 374-514 (913)
112 COG4581 Superfamily II RNA hel 97.3 0.00052 1.1E-08 82.0 7.7 72 10-90 114-185 (1041)
113 KOG0326 ATP-dependent RNA heli 97.3 0.00017 3.6E-09 73.6 3.0 73 12-89 103-178 (459)
114 PF13086 AAA_11: AAA domain; P 97.2 0.0007 1.5E-08 68.9 7.4 67 18-89 3-75 (236)
115 KOG0347 RNA helicase [RNA proc 97.2 0.00045 9.7E-09 75.4 6.0 88 13-112 200-300 (731)
116 PF02562 PhoH: PhoH-like prote 97.0 0.0016 3.4E-08 64.6 6.6 57 16-78 4-60 (205)
117 PRK12326 preprotein translocas 97.0 0.0055 1.2E-07 70.7 11.5 140 439-609 352-492 (764)
118 KOG1805 DNA replication helica 96.9 0.007 1.5E-07 70.7 12.4 139 18-240 671-809 (1100)
119 KOG0340 ATP-dependent RNA heli 96.9 0.0022 4.8E-08 66.7 7.5 70 16-90 29-98 (442)
120 KOG0952 DNA/RNA helicase MER3/ 96.9 0.0023 5E-08 75.0 8.2 59 31-89 122-186 (1230)
121 COG1203 CRISPR-associated heli 96.9 0.0022 4.7E-08 76.7 8.4 73 17-90 196-269 (733)
122 KOG4284 DEAD box protein [Tran 96.8 0.001 2.2E-08 73.9 3.6 75 15-90 23-116 (980)
123 KOG0337 ATP-dependent RNA heli 96.7 0.0016 3.4E-08 69.1 4.4 74 13-90 40-113 (529)
124 COG1198 PriA Primosomal protei 96.6 0.014 3.1E-07 68.2 11.7 70 17-90 199-268 (730)
125 KOG0385 Chromatin remodeling c 96.6 0.0074 1.6E-07 68.7 8.8 73 16-91 167-240 (971)
126 PF07652 Flavi_DEAD: Flaviviru 96.5 0.0056 1.2E-07 56.5 6.3 54 33-89 2-55 (148)
127 KOG0328 Predicted ATP-dependen 96.5 0.0017 3.6E-08 65.4 2.9 75 11-90 44-118 (400)
128 PF13604 AAA_30: AAA domain; P 96.5 0.011 2.4E-07 58.7 8.5 61 18-85 3-64 (196)
129 TIGR00376 DNA helicase, putati 96.2 0.016 3.4E-07 68.1 9.3 67 16-89 157-223 (637)
130 PRK15483 type III restriction- 96.2 0.016 3.5E-07 69.4 9.4 72 12-86 3-108 (986)
131 KOG0352 ATP-dependent DNA heli 96.2 0.0084 1.8E-07 63.8 6.0 71 10-90 13-84 (641)
132 PF00271 Helicase_C: Helicase 96.2 0.012 2.5E-07 48.8 5.7 43 573-623 20-62 (78)
133 COG1061 SSL2 DNA or RNA helica 96.1 0.071 1.5E-06 60.0 13.6 77 529-620 282-358 (442)
134 PF00580 UvrD-helicase: UvrD/R 95.8 0.021 4.6E-07 60.9 7.4 65 18-90 2-68 (315)
135 smart00490 HELICc helicase sup 95.8 0.024 5.2E-07 46.8 6.1 43 573-623 24-66 (82)
136 KOG0353 ATP-dependent DNA heli 95.7 0.015 3.2E-07 60.8 5.3 69 11-90 89-157 (695)
137 COG0556 UvrB Helicase subunit 95.7 0.15 3.2E-06 56.5 13.0 75 8-90 5-80 (663)
138 KOG0922 DEAH-box RNA helicase 95.6 0.036 7.8E-07 62.7 8.2 28 23-50 54-81 (674)
139 KOG0951 RNA helicase BRR2, DEA 95.6 0.034 7.3E-07 66.7 8.2 77 31-115 321-404 (1674)
140 TIGR00603 rad25 DNA repair hel 95.6 0.13 2.8E-06 60.6 13.0 96 528-671 494-590 (732)
141 KOG0351 ATP-dependent DNA heli 95.6 0.0091 2E-07 71.8 3.6 69 8-87 256-324 (941)
142 PRK10536 hypothetical protein; 95.6 0.039 8.4E-07 56.5 7.6 55 17-78 60-114 (262)
143 PRK12902 secA preprotein trans 95.5 0.1 2.2E-06 61.8 11.7 140 440-609 365-506 (939)
144 PRK11448 hsdR type I restricti 95.5 0.18 3.9E-06 62.9 14.3 114 529-680 697-814 (1123)
145 TIGR00643 recG ATP-dependent D 95.4 0.45 9.8E-06 56.2 17.2 106 529-677 447-561 (630)
146 CHL00122 secA preprotein trans 95.3 0.076 1.6E-06 62.8 9.9 140 439-609 349-491 (870)
147 COG0556 UvrB Helicase subunit 95.3 0.038 8.3E-07 60.8 6.9 174 441-677 378-552 (663)
148 TIGR00631 uvrb excinuclease AB 95.2 0.25 5.5E-06 58.2 13.8 75 9-91 3-78 (655)
149 KOG0327 Translation initiation 95.1 0.013 2.7E-07 62.0 2.6 73 11-88 43-115 (397)
150 PRK05298 excinuclease ABC subu 95.0 0.35 7.6E-06 57.2 14.5 76 8-91 5-81 (652)
151 PRK13766 Hef nuclease; Provisi 94.8 0.31 6.7E-06 59.3 13.8 91 516-621 350-450 (773)
152 PF12340 DUF3638: Protein of u 94.8 0.066 1.4E-06 53.8 6.5 68 17-89 24-91 (229)
153 PRK08181 transposase; Validate 94.2 0.12 2.6E-06 53.8 7.2 52 19-74 90-141 (269)
154 KOG0926 DEAH-box RNA helicase 94.2 0.12 2.5E-06 59.6 7.4 89 450-553 415-504 (1172)
155 TIGR03158 cas3_cyano CRISPR-as 94.1 0.67 1.4E-05 50.7 13.1 82 514-611 255-337 (357)
156 PHA02244 ATPase-like protein 93.9 0.14 3.1E-06 55.1 7.0 49 10-60 94-142 (383)
157 TIGR00631 uvrb excinuclease AB 93.8 0.24 5.1E-06 58.4 9.4 77 529-620 441-518 (655)
158 KOG0329 ATP-dependent RNA heli 93.6 0.11 2.5E-06 51.8 5.3 90 11-112 59-148 (387)
159 COG4098 comFA Superfamily II D 93.5 0.82 1.8E-05 48.1 11.3 109 528-677 303-411 (441)
160 TIGR02640 gas_vesic_GvpN gas v 93.5 0.14 3E-06 53.5 6.0 36 18-53 4-39 (262)
161 KOG0387 Transcription-coupled 93.4 0.39 8.3E-06 55.6 9.6 83 16-112 205-289 (923)
162 COG1111 MPH1 ERCC4-like helica 93.2 1.4 3E-05 48.9 13.1 119 516-677 351-478 (542)
163 PRK12900 secA preprotein trans 93.2 0.96 2.1E-05 54.5 12.9 155 440-625 524-683 (1025)
164 PRK09694 helicase Cas3; Provis 93.1 1.9 4.2E-05 52.4 15.6 75 529-609 559-638 (878)
165 COG1484 DnaC DNA replication p 93.1 0.24 5.1E-06 51.3 7.0 51 21-75 91-141 (254)
166 PF01695 IstB_IS21: IstB-like 93.1 0.17 3.6E-06 49.5 5.5 59 12-74 22-82 (178)
167 cd00009 AAA The AAA+ (ATPases 93.0 0.21 4.6E-06 45.9 6.0 32 20-51 2-35 (151)
168 COG0714 MoxR-like ATPases [Gen 92.9 0.2 4.4E-06 54.1 6.6 57 18-79 26-82 (329)
169 PRK13894 conjugal transfer ATP 92.9 0.24 5.2E-06 53.0 7.0 50 26-77 139-188 (319)
170 KOG1002 Nucleotide excision re 92.8 0.63 1.4E-05 51.0 9.7 68 18-91 186-254 (791)
171 KOG0341 DEAD-box protein abstr 92.7 0.44 9.4E-06 50.6 8.2 77 521-610 412-489 (610)
172 PF07517 SecA_DEAD: SecA DEAD- 92.7 0.82 1.8E-05 47.4 10.3 70 12-92 74-143 (266)
173 TIGR02562 cas3_yersinia CRISPR 92.6 0.4 8.7E-06 57.9 8.8 87 17-112 409-499 (1110)
174 PRK05298 excinuclease ABC subu 92.5 0.49 1.1E-05 56.0 9.4 119 517-679 434-555 (652)
175 PRK08939 primosomal protein Dn 92.3 0.37 8.1E-06 51.3 7.4 51 20-74 135-191 (306)
176 PRK13531 regulatory ATPase Rav 92.2 0.12 2.7E-06 57.6 3.7 34 19-52 23-56 (498)
177 PRK14873 primosome assembly pr 91.8 0.95 2.1E-05 53.4 10.5 49 38-90 163-211 (665)
178 COG4098 comFA Superfamily II D 91.7 0.64 1.4E-05 48.8 7.9 58 17-78 98-155 (441)
179 PRK06835 DNA replication prote 91.6 0.48 1E-05 51.0 7.3 38 34-75 182-219 (329)
180 COG1474 CDC6 Cdc6-related prot 91.6 0.75 1.6E-05 50.2 8.9 71 18-89 22-95 (366)
181 KOG0947 Cytoplasmic exosomal R 91.5 0.34 7.5E-06 57.0 6.3 76 6-90 288-363 (1248)
182 COG1203 CRISPR-associated heli 91.5 1.4 3.1E-05 53.0 11.9 105 529-677 439-545 (733)
183 KOG0952 DNA/RNA helicase MER3/ 91.5 3.7 8E-05 49.4 14.6 192 450-681 276-490 (1230)
184 KOG0342 ATP-dependent RNA heli 91.3 2.2 4.8E-05 47.0 11.8 76 531-622 331-408 (543)
185 KOG1123 RNA polymerase II tran 91.3 0.15 3.3E-06 55.7 3.1 41 12-55 298-340 (776)
186 PF00308 Bac_DnaA: Bacterial d 91.1 0.44 9.6E-06 48.2 6.1 63 12-76 5-73 (219)
187 PF09848 DUF2075: Uncharacteri 91.0 0.41 9E-06 52.2 6.3 52 36-89 2-53 (352)
188 COG1204 Superfamily II helicas 91.0 2.5 5.5E-05 50.7 13.1 192 450-679 181-405 (766)
189 KOG0345 ATP-dependent RNA heli 91.0 2.5 5.5E-05 46.3 11.7 86 525-628 250-337 (567)
190 KOG0389 SNF2 family DNA-depend 90.4 0.24 5.1E-06 57.2 3.6 66 179-245 466-542 (941)
191 PF01078 Mg_chelatase: Magnesi 90.2 0.3 6.5E-06 48.4 3.8 33 19-51 6-38 (206)
192 COG1205 Distinct helicase fami 90.1 2.1 4.5E-05 52.1 11.5 169 437-623 214-393 (851)
193 PF05970 PIF1: PIF1-like helic 89.9 0.67 1.5E-05 50.8 6.7 57 18-78 3-61 (364)
194 KOG0989 Replication factor C, 89.3 0.57 1.2E-05 48.7 5.0 36 20-55 40-77 (346)
195 PF06745 KaiC: KaiC; InterPro 89.2 0.83 1.8E-05 46.3 6.4 52 34-89 18-69 (226)
196 PRK13407 bchI magnesium chelat 88.9 0.32 7E-06 52.3 3.2 40 11-51 4-45 (334)
197 COG3587 Restriction endonuclea 88.6 0.3 6.4E-06 57.0 2.8 46 37-84 76-121 (985)
198 COG2805 PilT Tfp pilus assembl 88.5 0.79 1.7E-05 47.6 5.5 51 12-63 101-152 (353)
199 PRK06921 hypothetical protein; 88.4 1.8 4E-05 45.1 8.3 38 35-75 117-154 (266)
200 KOG0388 SNF2 family DNA-depend 88.4 2 4.3E-05 49.3 8.8 70 18-89 569-638 (1185)
201 KOG0331 ATP-dependent RNA heli 88.1 3 6.6E-05 47.0 10.2 95 513-622 324-419 (519)
202 TIGR02782 TrbB_P P-type conjug 88.0 1.5 3.4E-05 46.5 7.6 49 24-74 121-169 (299)
203 PRK06526 transposase; Provisio 87.9 0.58 1.3E-05 48.4 4.2 43 29-75 92-134 (254)
204 COG2804 PulE Type II secretory 87.9 0.85 1.9E-05 50.9 5.7 41 18-62 243-284 (500)
205 cd01124 KaiC KaiC is a circadi 87.7 1.2 2.6E-05 43.4 6.3 47 38-89 2-48 (187)
206 PRK10919 ATP-dependent DNA hel 87.7 1.2 2.7E-05 52.9 7.4 66 17-90 3-70 (672)
207 PRK10875 recD exonuclease V su 87.6 2.6 5.7E-05 49.3 9.8 74 11-88 146-220 (615)
208 PRK13833 conjugal transfer pro 87.6 1.5 3.2E-05 47.0 7.1 50 19-73 131-180 (323)
209 PRK12377 putative replication 87.5 2 4.3E-05 44.3 7.8 54 18-75 80-137 (248)
210 TIGR02030 BchI-ChlI magnesium 87.5 0.64 1.4E-05 50.1 4.4 40 12-52 1-42 (337)
211 KOG0948 Nuclear exosomal RNA h 87.1 1.2 2.5E-05 51.5 6.1 70 11-89 125-194 (1041)
212 PRK13900 type IV secretion sys 87.0 1.5 3.3E-05 47.2 6.9 45 23-72 148-192 (332)
213 TIGR01447 recD exodeoxyribonuc 86.9 2.6 5.6E-05 49.1 9.2 65 19-87 148-213 (586)
214 PRK11773 uvrD DNA-dependent he 86.8 1.7 3.6E-05 52.4 7.9 68 16-91 9-78 (721)
215 PRK07952 DNA replication prote 86.7 2.4 5.1E-05 43.6 7.8 52 19-74 79-134 (244)
216 PRK09183 transposase/IS protei 86.7 1.2 2.6E-05 46.3 5.7 39 32-74 99-137 (259)
217 PRK12900 secA preprotein trans 86.6 3.1 6.6E-05 50.4 9.6 67 5-82 128-194 (1025)
218 KOG0333 U5 snRNP-like RNA heli 86.6 5.9 0.00013 44.2 10.9 78 522-612 508-587 (673)
219 PRK05580 primosome assembly pr 86.6 4 8.6E-05 48.7 10.8 135 574-736 468-623 (679)
220 TIGR02768 TraA_Ti Ti-type conj 86.6 1.6 3.5E-05 52.5 7.5 59 17-82 353-411 (744)
221 KOG0991 Replication factor C, 86.2 1.1 2.4E-05 44.7 4.8 34 23-56 34-69 (333)
222 PRK08116 hypothetical protein; 86.2 2.3 5.1E-05 44.4 7.6 53 18-74 90-149 (268)
223 PRK08533 flagellar accessory p 86.2 2.1 4.5E-05 43.6 7.1 53 32-89 21-73 (230)
224 TIGR01448 recD_rel helicase, p 86.1 2.8 6E-05 50.3 9.2 64 12-82 320-383 (720)
225 cd00984 DnaB_C DnaB helicase C 86.1 0.79 1.7E-05 47.0 4.1 46 28-76 6-51 (242)
226 TIGR02785 addA_Gpos recombinat 86.1 1.7 3.6E-05 55.5 7.7 62 17-85 2-63 (1232)
227 PF02399 Herpes_ori_bp: Origin 86.1 1.2 2.6E-05 52.5 5.8 51 34-89 48-100 (824)
228 TIGR01075 uvrD DNA helicase II 85.9 1.7 3.7E-05 52.2 7.3 67 17-91 5-73 (715)
229 TIGR01074 rep ATP-dependent DN 85.8 1.9 4.2E-05 51.4 7.7 65 18-90 3-69 (664)
230 PRK12402 replication factor C 85.7 0.93 2E-05 48.9 4.6 35 20-54 19-55 (337)
231 PRK14952 DNA polymerase III su 85.7 0.7 1.5E-05 53.6 3.7 36 20-55 17-55 (584)
232 PRK05973 replicative DNA helic 85.6 0.96 2.1E-05 46.1 4.3 58 27-89 56-113 (237)
233 PRK14955 DNA polymerase III su 85.4 0.88 1.9E-05 50.5 4.2 35 20-54 20-57 (397)
234 PRK13889 conjugal transfer rel 85.4 2.2 4.8E-05 52.4 7.9 60 17-83 347-406 (988)
235 KOG0347 RNA helicase [RNA proc 85.2 2 4.4E-05 47.9 6.7 83 525-622 458-541 (731)
236 TIGR03877 thermo_KaiC_1 KaiC d 85.0 1.7 3.6E-05 44.6 5.8 52 33-89 19-70 (237)
237 TIGR02524 dot_icm_DotB Dot/Icm 85.0 1.8 3.9E-05 47.2 6.3 47 13-60 111-158 (358)
238 PLN03025 replication factor C 84.9 1.1 2.5E-05 48.1 4.7 35 20-54 17-53 (319)
239 smart00382 AAA ATPases associa 84.9 0.81 1.7E-05 41.5 3.1 19 35-53 2-20 (148)
240 PRK00411 cdc6 cell division co 84.9 2.8 6E-05 46.5 7.9 37 18-54 35-74 (394)
241 TIGR02880 cbbX_cfxQ probable R 84.9 1.2 2.7E-05 46.9 4.8 17 36-52 59-75 (284)
242 TIGR00764 lon_rel lon-related 84.8 2.4 5.3E-05 49.6 7.7 56 19-78 21-77 (608)
243 PF05673 DUF815: Protein of un 84.7 5.5 0.00012 40.6 9.1 67 18-88 32-102 (249)
244 KOG0343 RNA Helicase [RNA proc 84.4 6.1 0.00013 44.4 9.8 88 521-622 303-393 (758)
245 PRK11331 5-methylcytosine-spec 84.2 1.2 2.6E-05 49.6 4.5 36 23-60 182-217 (459)
246 PF06309 Torsin: Torsin; Inte 84.1 3.5 7.5E-05 37.5 6.6 30 22-51 35-69 (127)
247 COG1219 ClpX ATP-dependent pro 84.1 1.2 2.6E-05 46.6 4.1 35 36-77 98-132 (408)
248 PF00158 Sigma54_activat: Sigm 83.9 4.3 9.4E-05 39.1 7.7 55 20-78 7-62 (168)
249 PRK12901 secA preprotein trans 83.8 3.9 8.5E-05 49.6 8.7 139 440-609 554-693 (1112)
250 TIGR01650 PD_CobS cobaltochela 83.7 1.5 3.2E-05 46.8 4.8 31 22-52 51-81 (327)
251 PF01580 FtsK_SpoIIIE: FtsK/Sp 83.7 1.7 3.8E-05 43.2 5.1 43 34-76 37-79 (205)
252 PF02534 T4SS-DNA_transf: Type 83.5 1.4 3.1E-05 50.1 5.0 70 36-121 45-115 (469)
253 TIGR02525 plasmid_TraJ plasmid 83.4 2.6 5.6E-05 46.2 6.6 51 20-72 133-184 (372)
254 PRK05642 DNA replication initi 83.4 2.5 5.5E-05 43.2 6.3 37 36-76 46-82 (234)
255 COG0610 Type I site-specific r 83.4 3.8 8.3E-05 50.7 8.8 77 10-90 244-326 (962)
256 COG4962 CpaF Flp pilus assembl 83.4 2.3 5E-05 45.2 5.9 51 25-80 163-213 (355)
257 TIGR03420 DnaA_homol_Hda DnaA 83.1 2.9 6.4E-05 42.1 6.6 33 20-52 21-55 (226)
258 COG1419 FlhF Flagellar GTP-bin 83.1 1.9 4.2E-05 46.9 5.4 41 35-76 203-243 (407)
259 PRK14962 DNA polymerase III su 83.0 1.2 2.5E-05 50.6 3.9 34 20-53 18-54 (472)
260 KOG0951 RNA helicase BRR2, DEA 83.0 21 0.00045 44.3 14.0 70 589-682 632-702 (1674)
261 COG1875 NYN ribonuclease and A 82.8 2.4 5.3E-05 45.2 5.8 62 12-78 224-287 (436)
262 PRK14087 dnaA chromosomal repl 82.8 4.9 0.00011 45.4 8.8 46 36-85 142-188 (450)
263 PF00448 SRP54: SRP54-type pro 82.8 3.1 6.6E-05 41.3 6.4 38 37-77 3-40 (196)
264 TIGR00595 priA primosomal prot 82.6 14 0.0003 42.4 12.5 75 576-677 302-376 (505)
265 PRK08727 hypothetical protein; 82.6 2.7 5.8E-05 43.0 6.1 36 36-75 42-77 (233)
266 TIGR02928 orc1/cdc6 family rep 82.4 4.6 0.0001 44.1 8.4 35 18-52 20-57 (365)
267 PRK14956 DNA polymerase III su 82.4 1.2 2.6E-05 50.0 3.6 35 20-54 22-59 (484)
268 PF12775 AAA_7: P-loop contain 82.4 1.7 3.7E-05 45.5 4.6 35 18-52 16-50 (272)
269 PRK11054 helD DNA helicase IV; 82.3 3.8 8.2E-05 48.7 8.0 66 16-89 196-263 (684)
270 PRK13851 type IV secretion sys 82.2 1.4 3E-05 47.7 3.9 28 24-51 151-178 (344)
271 TIGR00390 hslU ATP-dependent p 82.1 1.8 4E-05 47.6 4.8 40 18-59 14-69 (441)
272 COG0606 Predicted ATPase with 82.1 1.3 2.9E-05 49.0 3.7 33 19-51 182-214 (490)
273 COG1201 Lhr Lhr-like helicases 82.0 39 0.00085 40.7 16.0 118 516-679 240-361 (814)
274 PRK14961 DNA polymerase III su 81.7 1.9 4.1E-05 47.3 4.9 35 20-54 20-57 (363)
275 KOG0386 Chromatin remodeling c 81.6 3 6.4E-05 49.9 6.5 60 17-78 395-455 (1157)
276 COG0513 SrmB Superfamily II DN 81.5 7.5 0.00016 44.7 9.9 88 520-622 262-351 (513)
277 COG1643 HrpA HrpA-like helicas 81.5 5 0.00011 48.3 8.6 83 451-552 197-281 (845)
278 PF13191 AAA_16: AAA ATPase do 81.5 0.72 1.6E-05 44.8 1.4 34 18-51 5-40 (185)
279 CHL00081 chlI Mg-protoporyphyr 81.3 1.1 2.4E-05 48.5 2.8 41 10-51 12-54 (350)
280 KOG0341 DEAD-box protein abstr 81.3 0.49 1.1E-05 50.2 0.1 50 35-85 207-264 (610)
281 PRK14722 flhF flagellar biosyn 81.2 2.3 4.9E-05 46.5 5.2 24 33-56 135-158 (374)
282 PF13481 AAA_25: AAA domain; P 81.2 3.8 8.3E-05 40.1 6.5 54 34-89 31-91 (193)
283 KOG4439 RNA polymerase II tran 81.1 0.36 7.8E-06 55.1 -1.0 91 518-623 734-828 (901)
284 cd01122 GP4d_helicase GP4d_hel 81.1 1.9 4.2E-05 44.9 4.6 42 30-74 25-66 (271)
285 cd01130 VirB11-like_ATPase Typ 81.1 2 4.4E-05 42.1 4.5 31 18-51 11-41 (186)
286 COG1643 HrpA HrpA-like helicas 81.1 2.9 6.3E-05 50.3 6.4 35 23-59 53-87 (845)
287 TIGR01073 pcrA ATP-dependent D 81.0 3.7 8E-05 49.5 7.5 66 17-90 5-72 (726)
288 PTZ00112 origin recognition co 81.0 1.9 4.1E-05 51.5 4.6 46 5-53 750-799 (1164)
289 PF00437 T2SE: Type II/IV secr 80.8 2.8 6E-05 43.8 5.6 44 26-74 118-162 (270)
290 PF07726 AAA_3: ATPase family 80.7 1.1 2.4E-05 40.8 2.2 17 37-53 1-17 (131)
291 PF13401 AAA_22: AAA domain; P 80.6 1 2.2E-05 40.9 2.0 20 33-52 2-21 (131)
292 TIGR00382 clpX endopeptidase C 80.6 1.8 3.9E-05 48.0 4.2 38 19-58 80-137 (413)
293 COG0593 DnaA ATPase involved i 80.5 5.8 0.00013 43.7 8.0 53 23-77 96-153 (408)
294 PRK00440 rfc replication facto 80.4 2 4.3E-05 45.9 4.5 35 20-54 21-57 (319)
295 PF07728 AAA_5: AAA domain (dy 80.0 3.2 7E-05 38.2 5.2 23 37-61 1-23 (139)
296 PRK13826 Dtr system oriT relax 80.0 5.4 0.00012 49.6 8.3 61 17-84 382-442 (1102)
297 PRK14960 DNA polymerase III su 80.0 1.7 3.7E-05 50.6 3.9 36 20-55 19-57 (702)
298 PF02367 UPF0079: Uncharacteri 79.8 1.6 3.4E-05 39.7 2.8 52 22-80 2-53 (123)
299 PRK05342 clpX ATP-dependent pr 79.4 1.9 4E-05 48.0 3.9 16 36-51 109-124 (412)
300 PRK08084 DNA replication initi 79.1 4.4 9.5E-05 41.4 6.3 53 21-77 29-83 (235)
301 PF02456 Adeno_IVa2: Adenoviru 79.1 3.8 8.3E-05 42.8 5.6 41 37-79 89-129 (369)
302 TIGR03015 pepcterm_ATPase puta 79.0 3.1 6.6E-05 43.3 5.2 36 18-53 25-61 (269)
303 COG4889 Predicted helicase [Ge 79.0 1.1 2.3E-05 52.6 1.8 45 601-677 537-583 (1518)
304 PRK08769 DNA polymerase III su 78.9 3.3 7.1E-05 44.3 5.4 41 14-54 2-45 (319)
305 PRK10436 hypothetical protein; 78.8 3.9 8.4E-05 46.2 6.2 26 34-60 217-242 (462)
306 PRK04328 hypothetical protein; 78.7 4.5 9.8E-05 41.7 6.3 51 34-89 22-72 (249)
307 PRK06067 flagellar accessory p 78.7 4.6 9.9E-05 41.2 6.3 52 33-89 23-74 (234)
308 KOG0344 ATP-dependent RNA heli 78.6 10 0.00022 43.0 9.1 80 528-620 385-464 (593)
309 TIGR03880 KaiC_arch_3 KaiC dom 78.6 5.4 0.00012 40.3 6.7 51 34-89 15-65 (224)
310 TIGR00635 ruvB Holliday juncti 78.3 3.1 6.8E-05 44.2 5.1 34 20-53 8-48 (305)
311 KOG0949 Predicted helicase, DE 78.0 3.5 7.6E-05 49.2 5.5 68 14-88 510-577 (1330)
312 KOG0745 Putative ATP-dependent 77.9 1.9 4.2E-05 46.9 3.2 44 35-85 226-269 (564)
313 PRK05201 hslU ATP-dependent pr 77.9 3.3 7.2E-05 45.7 5.1 33 18-50 17-65 (443)
314 PLN03142 Probable chromatin-re 77.8 20 0.00044 44.5 12.3 85 528-624 485-570 (1033)
315 COG4096 HsdR Type I site-speci 77.8 34 0.00073 40.8 13.3 127 516-681 407-545 (875)
316 PRK12723 flagellar biosynthesi 77.7 7.8 0.00017 42.7 8.0 40 36-76 175-216 (388)
317 PHA02533 17 large terminase pr 77.6 10 0.00022 43.7 9.3 73 12-91 56-128 (534)
318 TIGR00150 HI0065_YjeE ATPase, 77.5 2.1 4.6E-05 39.4 3.0 52 22-80 9-60 (133)
319 COG0467 RAD55 RecA-superfamily 77.5 2.9 6.2E-05 43.5 4.4 53 31-88 19-71 (260)
320 KOG1807 Helicases [Replication 77.2 6.2 0.00014 45.9 7.1 52 34-86 392-446 (1025)
321 PF13177 DNA_pol3_delta2: DNA 77.0 4.2 9.2E-05 38.9 5.1 35 20-54 1-38 (162)
322 PF14532 Sigma54_activ_2: Sigm 76.7 3.8 8.2E-05 37.9 4.6 31 21-51 7-37 (138)
323 TIGR02655 circ_KaiC circadian 76.7 4.5 9.8E-05 46.2 6.1 51 35-90 263-313 (484)
324 PRK14950 DNA polymerase III su 76.6 2.1 4.5E-05 50.2 3.4 36 20-55 20-58 (585)
325 PRK05703 flhF flagellar biosyn 76.6 3.6 7.8E-05 46.0 5.1 39 35-75 221-259 (424)
326 PRK08903 DnaA regulatory inact 76.6 5 0.00011 40.6 5.8 38 35-76 42-79 (227)
327 PRK13765 ATP-dependent proteas 76.6 4.6 9.9E-05 47.4 6.1 64 18-86 33-98 (637)
328 PRK06645 DNA polymerase III su 76.6 3.2 7E-05 47.3 4.8 35 20-54 25-62 (507)
329 PRK00080 ruvB Holliday junctio 76.4 3.3 7.2E-05 44.6 4.7 34 20-53 29-69 (328)
330 COG0630 VirB11 Type IV secreto 76.3 6.6 0.00014 42.0 6.8 47 27-78 135-181 (312)
331 cd01126 TraG_VirD4 The TraG/Tr 75.8 2.6 5.5E-05 46.6 3.7 43 37-85 1-43 (384)
332 cd01125 repA Hexameric Replica 75.8 4.3 9.3E-05 41.5 5.1 25 36-60 2-26 (239)
333 PF01745 IPT: Isopentenyl tran 75.8 3.7 8E-05 40.8 4.3 32 37-75 3-34 (233)
334 TIGR03743 SXT_TraD conjugative 75.7 11 0.00024 44.4 9.0 94 526-627 508-607 (634)
335 TIGR03881 KaiC_arch_4 KaiC dom 75.5 3.8 8.1E-05 41.6 4.6 40 32-75 17-56 (229)
336 PRK11608 pspF phage shock prot 75.5 10 0.00022 40.8 8.2 57 18-77 12-68 (326)
337 PRK13897 type IV secretion sys 75.4 3.3 7.1E-05 48.3 4.5 43 35-83 158-200 (606)
338 PRK05896 DNA polymerase III su 75.2 2.3 5.1E-05 49.1 3.2 36 20-55 20-58 (605)
339 TIGR03744 traC_PFL_4706 conjug 75.2 10 0.00022 46.8 9.0 73 35-121 475-547 (893)
340 TIGR00609 recB exodeoxyribonuc 75.2 5 0.00011 50.6 6.4 53 35-88 9-63 (1087)
341 TIGR02538 type_IV_pilB type IV 75.1 6.1 0.00013 46.0 6.7 32 28-60 308-340 (564)
342 PF03237 Terminase_6: Terminas 75.0 4.8 0.0001 43.7 5.6 45 39-85 1-45 (384)
343 PRK06893 DNA replication initi 74.9 8.1 0.00018 39.3 6.8 51 22-76 24-76 (229)
344 PRK09361 radB DNA repair and r 74.8 3.9 8.5E-05 41.3 4.5 37 34-74 22-58 (225)
345 TIGR03878 thermo_KaiC_2 KaiC d 74.8 4.3 9.4E-05 42.1 4.9 37 34-74 35-71 (259)
346 PRK14958 DNA polymerase III su 74.7 3.6 7.8E-05 47.1 4.6 35 20-54 20-57 (509)
347 KOG0744 AAA+-type ATPase [Post 74.6 4.5 9.7E-05 42.6 4.7 50 36-88 178-231 (423)
348 COG3598 RepA RecA-family ATPas 74.5 5.8 0.00013 41.7 5.5 46 30-76 84-136 (402)
349 TIGR03499 FlhF flagellar biosy 74.5 4.5 9.7E-05 42.6 5.0 38 35-74 194-231 (282)
350 PRK00149 dnaA chromosomal repl 74.4 11 0.00025 42.5 8.6 48 36-86 149-196 (450)
351 PF03796 DnaB_C: DnaB-like hel 74.3 4.5 9.6E-05 42.0 4.9 47 27-76 11-57 (259)
352 PRK14086 dnaA chromosomal repl 74.3 8.9 0.00019 44.6 7.5 39 36-76 315-353 (617)
353 PHA02544 44 clamp loader, smal 74.2 3.8 8.2E-05 43.9 4.4 33 20-52 25-60 (316)
354 COG2256 MGS1 ATPase related to 74.2 6.8 0.00015 42.6 6.1 65 19-90 27-99 (436)
355 CHL00181 cbbX CbbX; Provisiona 74.1 4.6 0.0001 42.6 5.0 20 36-55 60-79 (287)
356 PRK04296 thymidine kinase; Pro 74.0 5.3 0.00011 39.3 5.0 35 35-73 2-36 (190)
357 cd01120 RecA-like_NTPases RecA 73.9 5.4 0.00012 37.3 5.0 38 37-78 1-38 (165)
358 PF06068 TIP49: TIP49 C-termin 73.9 9.3 0.0002 41.3 7.0 33 19-51 30-66 (398)
359 TIGR02902 spore_lonB ATP-depen 73.9 3.2 6.9E-05 47.9 3.9 34 19-52 68-103 (531)
360 TIGR02881 spore_V_K stage V sp 73.9 4.2 9E-05 42.3 4.5 18 36-53 43-60 (261)
361 TIGR00362 DnaA chromosomal rep 73.9 12 0.00026 41.6 8.5 39 36-76 137-175 (405)
362 cd01129 PulE-GspE PulE/GspE Th 73.6 8 0.00017 40.3 6.5 25 28-52 72-97 (264)
363 PF12846 AAA_10: AAA-like doma 73.4 4.3 9.3E-05 42.7 4.6 37 35-75 1-37 (304)
364 TIGR02759 TraD_Ftype type IV c 73.4 4.4 9.5E-05 47.1 4.9 38 35-76 176-213 (566)
365 KOG0384 Chromodomain-helicase 73.4 4.8 0.0001 49.3 5.2 72 16-90 370-442 (1373)
366 COG0514 RecQ Superfamily II DN 73.3 35 0.00075 39.5 11.9 139 450-622 167-308 (590)
367 KOG4150 Predicted ATP-dependen 73.1 55 0.0012 37.2 12.7 170 451-677 453-636 (1034)
368 TIGR02237 recomb_radB DNA repa 73.1 8.5 0.00018 38.3 6.4 37 35-75 12-48 (209)
369 PHA00729 NTP-binding motif con 72.9 5.3 0.00012 40.3 4.7 27 24-50 4-32 (226)
370 PRK14088 dnaA chromosomal repl 72.8 9.3 0.0002 43.0 7.2 38 36-75 131-168 (440)
371 COG3973 Superfamily I DNA and 72.5 10 0.00023 43.2 7.2 44 511-554 636-679 (747)
372 PRK13822 conjugal transfer cou 72.1 5.5 0.00012 46.9 5.4 69 35-120 224-292 (641)
373 cd01131 PilT Pilus retraction 72.0 6.3 0.00014 39.1 5.1 17 36-52 2-18 (198)
374 PRK14949 DNA polymerase III su 71.7 4.7 0.0001 48.6 4.7 36 20-55 20-58 (944)
375 TIGR02442 Cob-chelat-sub cobal 71.7 4.1 8.8E-05 48.2 4.2 40 12-52 1-42 (633)
376 TIGR02688 conserved hypothetic 71.7 5.4 0.00012 44.0 4.8 35 19-53 193-227 (449)
377 PRK13342 recombination factor 71.6 3.7 8E-05 45.9 3.7 34 20-53 16-54 (413)
378 KOG0332 ATP-dependent RNA heli 71.5 5.4 0.00012 42.6 4.5 80 530-625 330-411 (477)
379 PRK13764 ATPase; Provisional 71.4 9.2 0.0002 44.5 6.9 49 11-60 232-281 (602)
380 KOG0734 AAA+-type ATPase conta 71.4 6.7 0.00015 44.0 5.4 50 20-76 311-371 (752)
381 KOG0354 DEAD-box like helicase 71.2 54 0.0012 38.8 12.9 124 515-680 397-529 (746)
382 PRK06871 DNA polymerase III su 71.2 6.2 0.00013 42.3 5.1 38 17-54 3-43 (325)
383 PRK05563 DNA polymerase III su 71.2 3.8 8.3E-05 47.6 3.8 37 20-56 20-59 (559)
384 PRK14954 DNA polymerase III su 71.0 5.1 0.00011 47.0 4.7 35 20-54 20-57 (620)
385 PRK14969 DNA polymerase III su 70.9 5.2 0.00011 46.1 4.7 35 20-54 20-57 (527)
386 PRK13850 type IV secretion sys 70.7 1.6 3.5E-05 51.4 0.6 42 35-82 139-180 (670)
387 PRK14964 DNA polymerase III su 70.7 5.2 0.00011 45.4 4.6 35 20-54 17-54 (491)
388 TIGR02533 type_II_gspE general 70.6 7.1 0.00015 44.5 5.7 30 29-59 235-265 (486)
389 PF00931 NB-ARC: NB-ARC domain 70.5 11 0.00023 39.6 6.7 66 22-88 2-71 (287)
390 PF05729 NACHT: NACHT domain 70.5 7.7 0.00017 36.5 5.2 25 37-61 2-26 (166)
391 PRK12422 chromosomal replicati 70.4 13 0.00028 41.9 7.6 36 36-75 142-177 (445)
392 TIGR02639 ClpA ATP-dependent C 70.3 4.9 0.00011 48.4 4.6 32 20-51 458-500 (731)
393 PRK11034 clpA ATP-dependent Cl 70.2 4.9 0.00011 48.3 4.5 33 20-52 462-505 (758)
394 TIGR01817 nifA Nif-specific re 70.2 12 0.00027 43.3 7.7 51 24-77 208-258 (534)
395 cd01127 TrwB Bacterial conjuga 70.2 5.6 0.00012 44.4 4.7 41 35-79 42-82 (410)
396 PRK14963 DNA polymerase III su 70.1 5.3 0.00011 45.7 4.5 35 20-54 18-55 (504)
397 PRK14957 DNA polymerase III su 69.9 6 0.00013 45.6 4.9 36 20-55 20-58 (546)
398 TIGR00665 DnaB replicative DNA 69.5 4.9 0.00011 45.2 4.2 46 28-76 188-233 (434)
399 KOG0739 AAA+-type ATPase [Post 69.1 7.2 0.00016 40.5 4.7 46 37-90 168-213 (439)
400 KOG0348 ATP-dependent RNA heli 69.1 28 0.0006 39.3 9.4 101 516-625 410-528 (708)
401 PRK14965 DNA polymerase III su 69.0 4.3 9.3E-05 47.4 3.6 35 20-54 20-57 (576)
402 PRK12903 secA preprotein trans 69.0 11 0.00023 45.3 6.7 141 439-610 351-492 (925)
403 TIGR03600 phage_DnaB phage rep 68.9 5.9 0.00013 44.4 4.6 42 30-74 189-230 (421)
404 TIGR02788 VirB11 P-type DNA tr 68.9 5.8 0.00012 42.4 4.3 25 27-51 136-160 (308)
405 KOG0920 ATP-dependent RNA heli 68.8 3.9 8.6E-05 49.3 3.2 104 452-558 322-441 (924)
406 PF00004 AAA: ATPase family as 68.8 4.6 9.9E-05 36.5 3.1 14 38-51 1-14 (132)
407 PRK12323 DNA polymerase III su 68.7 6.2 0.00013 46.0 4.7 35 20-54 20-57 (700)
408 PRK09111 DNA polymerase III su 68.6 6.1 0.00013 46.2 4.7 35 20-54 28-65 (598)
409 PRK05986 cob(I)alamin adenolsy 68.5 16 0.00035 35.9 6.9 39 31-73 18-56 (191)
410 TIGR03346 chaperone_ClpB ATP-d 68.5 5.3 0.00011 49.0 4.4 40 18-59 567-617 (852)
411 TIGR01420 pilT_fam pilus retra 68.4 8.3 0.00018 41.9 5.5 25 28-52 114-139 (343)
412 PRK13876 conjugal transfer cou 68.3 1.8 3.9E-05 51.0 0.3 47 35-88 144-190 (663)
413 PRK08699 DNA polymerase III su 68.2 22 0.00047 38.3 8.5 40 17-56 2-42 (325)
414 KOG0922 DEAH-box RNA helicase 68.2 15 0.00033 42.3 7.5 149 501-672 228-382 (674)
415 PF06862 DUF1253: Protein of u 68.1 29 0.00062 38.8 9.5 85 527-623 297-381 (442)
416 PRK15429 formate hydrogenlyase 67.8 12 0.00025 44.9 7.0 31 20-50 384-414 (686)
417 PRK11823 DNA repair protein Ra 67.8 10 0.00022 42.8 6.1 50 34-88 79-128 (446)
418 cd01394 radB RadB. The archaea 67.5 7.5 0.00016 39.0 4.6 38 33-74 17-54 (218)
419 PRK08691 DNA polymerase III su 67.2 7 0.00015 46.0 4.7 36 20-55 20-58 (709)
420 TIGR02974 phageshock_pspF psp 67.2 13 0.00028 40.1 6.6 30 22-51 9-38 (329)
421 TIGR02784 addA_alphas double-s 67.0 12 0.00025 47.8 7.1 53 30-83 5-57 (1141)
422 COG1126 GlnQ ABC-type polar am 66.9 1.5 3.2E-05 43.6 -0.6 61 2-73 2-62 (240)
423 KOG0729 26S proteasome regulat 66.8 5.3 0.00011 40.7 3.1 34 19-52 183-228 (435)
424 COG0210 UvrD Superfamily I DNA 66.6 12 0.00025 44.7 6.7 67 17-91 3-71 (655)
425 TIGR00348 hsdR type I site-spe 66.6 57 0.0012 38.9 12.4 83 530-620 514-617 (667)
426 TIGR02760 TraI_TIGR conjugativ 66.4 15 0.00033 49.0 8.2 63 17-86 430-493 (1960)
427 PRK09112 DNA polymerase III su 66.3 8.1 0.00018 42.1 4.8 34 20-53 27-63 (351)
428 COG0470 HolB ATPase involved i 66.2 8 0.00017 41.3 4.8 39 18-56 4-45 (325)
429 KOG0391 SNF2 family DNA-depend 66.0 2.7 5.9E-05 50.9 1.1 63 179-245 683-755 (1958)
430 COG1223 Predicted ATPase (AAA+ 65.9 11 0.00025 38.4 5.3 16 36-51 152-167 (368)
431 PRK14729 miaA tRNA delta(2)-is 65.9 4.1 9E-05 43.1 2.4 18 35-52 4-21 (300)
432 PRK10865 protein disaggregatio 65.7 6 0.00013 48.5 4.1 35 18-52 570-615 (857)
433 cd03115 SRP The signal recogni 65.5 10 0.00022 36.5 4.9 34 37-74 2-35 (173)
434 smart00763 AAA_PrkA PrkA AAA d 65.2 20 0.00043 38.9 7.4 33 19-51 58-94 (361)
435 PTZ00361 26 proteosome regulat 65.1 7.7 0.00017 43.5 4.4 17 36-52 218-234 (438)
436 PRK07993 DNA polymerase III su 65.1 7.8 0.00017 41.9 4.4 38 17-54 3-43 (334)
437 TIGR02397 dnaX_nterm DNA polym 65.0 7.7 0.00017 42.2 4.5 35 19-53 17-54 (355)
438 COG5008 PilU Tfp pilus assembl 64.6 6.4 0.00014 40.3 3.3 31 31-62 123-153 (375)
439 COG1221 PspF Transcriptional r 64.6 12 0.00025 41.3 5.6 42 34-78 100-142 (403)
440 PRK07133 DNA polymerase III su 64.5 8.2 0.00018 45.8 4.7 36 20-55 22-60 (725)
441 TIGR02655 circ_KaiC circadian 64.5 8.8 0.00019 43.8 4.9 53 33-89 19-71 (484)
442 PRK14951 DNA polymerase III su 64.3 8.4 0.00018 45.1 4.7 36 20-55 20-58 (618)
443 PRK14712 conjugal transfer nic 64.2 17 0.00038 47.0 7.7 63 17-83 836-900 (1623)
444 COG0542 clpA ATP-binding subun 64.1 7.8 0.00017 46.1 4.4 35 19-53 494-539 (786)
445 PRK07003 DNA polymerase III su 64.0 8.5 0.00018 45.7 4.6 35 20-54 20-57 (830)
446 PF04665 Pox_A32: Poxvirus A32 63.9 10 0.00022 38.8 4.7 39 36-78 14-52 (241)
447 PRK07471 DNA polymerase III su 63.9 9.9 0.00022 41.6 5.0 36 19-54 22-60 (365)
448 PF13555 AAA_29: P-loop contai 63.8 9.5 0.00021 30.0 3.5 25 36-62 24-48 (62)
449 PRK12727 flagellar biosynthesi 63.7 11 0.00023 43.1 5.2 22 32-53 347-368 (559)
450 TIGR03819 heli_sec_ATPase heli 63.7 7.6 0.00016 42.1 3.9 26 26-51 169-194 (340)
451 PRK13880 conjugal transfer cou 63.6 1.7 3.6E-05 51.3 -1.2 39 35-79 175-213 (636)
452 PRK09302 circadian clock prote 63.3 13 0.00027 42.9 5.9 50 35-89 273-322 (509)
453 COG1222 RPT1 ATP-dependent 26S 63.2 10 0.00023 40.6 4.7 47 36-90 186-232 (406)
454 COG1702 PhoH Phosphate starvat 63.2 11 0.00024 40.2 4.9 52 18-76 130-181 (348)
455 PRK14948 DNA polymerase III su 63.2 8.5 0.00019 45.2 4.5 36 20-55 20-58 (620)
456 PRK05707 DNA polymerase III su 63.2 7.6 0.00016 41.8 3.8 38 16-54 3-41 (328)
457 TIGR02767 TraG-Ti Ti-type conj 63.1 2.9 6.4E-05 48.9 0.7 48 35-89 211-258 (623)
458 PRK05748 replicative DNA helic 62.9 7.9 0.00017 43.8 4.1 41 31-74 199-239 (448)
459 PRK08760 replicative DNA helic 62.9 8.4 0.00018 43.8 4.3 41 31-74 225-265 (476)
460 PF10236 DAP3: Mitochondrial r 62.7 20 0.00044 38.2 7.0 45 18-63 4-50 (309)
461 PRK07994 DNA polymerase III su 62.7 9.4 0.0002 44.9 4.7 36 20-55 20-58 (647)
462 COG2519 GCD14 tRNA(1-methylade 62.6 19 0.00041 36.8 6.2 24 66-90 188-211 (256)
463 COG1074 RecB ATP-dependent exo 62.6 11 0.00023 48.0 5.5 51 31-82 12-64 (1139)
464 PRK07940 DNA polymerase III su 62.5 11 0.00023 41.8 4.9 35 20-54 9-55 (394)
465 CHL00095 clpC Clp protease ATP 62.5 8.2 0.00018 47.2 4.4 39 19-59 512-561 (821)
466 PRK10416 signal recognition pa 62.4 20 0.00042 38.5 6.8 50 21-74 89-149 (318)
467 COG1224 TIP49 DNA helicase TIP 62.2 12 0.00025 40.2 4.8 30 22-51 48-81 (450)
468 cd01121 Sms Sms (bacterial rad 62.2 16 0.00036 40.0 6.3 48 33-85 80-127 (372)
469 PRK06305 DNA polymerase III su 62.1 9.5 0.00021 43.1 4.6 36 20-55 21-59 (451)
470 PRK09165 replicative DNA helic 62.0 8.8 0.00019 44.0 4.3 30 32-61 214-243 (497)
471 PRK05595 replicative DNA helic 62.0 9.1 0.0002 43.2 4.4 46 27-75 193-238 (444)
472 COG4525 TauB ABC-type taurine 61.8 8.3 0.00018 37.8 3.3 45 2-51 3-47 (259)
473 PRK06995 flhF flagellar biosyn 61.6 17 0.00037 41.2 6.3 39 34-74 255-293 (484)
474 PRK09302 circadian clock prote 61.6 10 0.00023 43.6 4.9 54 32-89 28-81 (509)
475 PRK05022 anaerobic nitric oxid 61.5 23 0.0005 40.7 7.7 53 23-78 198-250 (509)
476 PRK00771 signal recognition pa 61.4 31 0.00067 38.7 8.3 38 36-77 96-134 (437)
477 PRK14953 DNA polymerase III su 61.4 10 0.00022 43.2 4.7 35 20-54 20-57 (486)
478 PRK03992 proteasome-activating 61.1 8.5 0.00018 42.6 3.9 21 36-58 166-186 (389)
479 PRK14970 DNA polymerase III su 61.1 11 0.00023 41.4 4.7 35 20-54 21-58 (367)
480 TIGR00064 ftsY signal recognit 61.0 19 0.00041 37.7 6.3 35 36-74 73-107 (272)
481 PF05496 RuvB_N: Holliday junc 60.8 17 0.00037 36.6 5.5 33 18-50 26-65 (233)
482 KOG2373 Predicted mitochondria 60.7 3.9 8.5E-05 43.2 1.0 26 25-50 263-288 (514)
483 KOG0731 AAA+-type ATPase conta 60.7 6.1 0.00013 46.7 2.7 18 36-53 345-362 (774)
484 PRK06090 DNA polymerase III su 60.5 14 0.00029 39.7 5.1 37 17-53 4-43 (319)
485 PHA00547 hypothetical protein 60.5 18 0.0004 36.9 5.6 34 27-60 67-100 (337)
486 PRK12724 flagellar biosynthesi 60.3 14 0.0003 41.0 5.2 37 36-75 224-260 (432)
487 TIGR03689 pup_AAA proteasome A 60.3 20 0.00043 41.0 6.7 16 36-51 217-232 (512)
488 KOG0058 Peptide exporter, ABC 60.1 6.7 0.00014 45.8 2.8 60 8-73 469-528 (716)
489 PRK07764 DNA polymerase III su 60.1 11 0.00023 45.9 4.7 38 20-57 19-59 (824)
490 PRK04195 replication factor C 59.9 15 0.00032 42.0 5.7 18 35-52 39-56 (482)
491 PRK11388 DNA-binding transcrip 59.8 24 0.00053 41.8 7.7 52 24-78 337-388 (638)
492 COG3638 ABC-type phosphate/pho 59.5 1.9 4.1E-05 43.4 -1.4 44 1-50 2-45 (258)
493 KOG0738 AAA+-type ATPase [Post 59.5 7.2 0.00016 42.1 2.7 29 231-261 398-426 (491)
494 PRK06620 hypothetical protein; 59.5 10 0.00022 38.2 3.8 16 36-51 45-60 (214)
495 PF05872 DUF853: Bacterial pro 59.4 7.6 0.00017 42.9 3.0 35 35-73 19-53 (502)
496 PF13207 AAA_17: AAA domain; P 58.8 5.5 0.00012 35.5 1.6 13 38-50 2-14 (121)
497 KOG1806 DEAD box containing he 58.3 16 0.00035 44.0 5.6 73 12-89 728-805 (1320)
498 CHL00176 ftsH cell division pr 58.3 10 0.00022 44.7 4.1 39 18-58 188-237 (638)
499 PRK13709 conjugal transfer nic 58.2 27 0.00059 45.8 8.0 62 17-83 968-1032(1747)
500 PRK10646 ADP-binding protein; 58.2 9.4 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=2e-148 Score=1152.18 Aligned_cols=746 Identities=64% Similarity=1.078 Sum_probs=722.1
Q ss_pred CEEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhH
Q 004385 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (757)
Q Consensus 1 m~~~i~~~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~ 80 (757)
|+|.|+|+.|+|||..+||+|.++|.++.++|+.++|+++|+|+|||||.++|+-+++|+.+.|+...|+|||+||.+.+
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 99999999999999999999999999999999999999999999999999999999999999985444999999999999
Q ss_pred HHHHHHHHhhhhhccccCCCccceEEEEecCCcccccchHHhhhcCcccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccc
Q 004385 81 EKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFEN 160 (757)
Q Consensus 81 ~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~~~~~C~~~~~ 160 (757)
+..++||+++..|+.+++|.+.++..+.|.||+|+|+|+.+....++..++.+|+.++++|++++...|++...|.||+|
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 99999999999999999998899999999999999999999988889999999999999999999988888889999999
Q ss_pred hHHhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChh
Q 004385 161 YEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNID 240 (757)
Q Consensus 161 ~~~~~~~~~~~~~~~~ie~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~ 240 (757)
+.. .+..+|.|+|+.+|+.++|.+.++||||.+|+++..|+|||.+||||+||.+.+.+..++.+.++|||||||||+
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 344689999999999999999999999999999999999999999999999999998999999999999999999
Q ss_pred HHHHhhccccccHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHhcCCCc--cccccCCCCChhhhhhccC
Q 004385 241 NVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLP--NAWLSNPALPSDILKEAVP 318 (757)
Q Consensus 241 ~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~ 318 (757)
++|.+.+|+.|+...++++.+++..+.+.+.+++..|.++|+++|++++++|+...... +.|++||.+|++++.|++|
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 99999999999999999999999999988888999999999999999999998876544 6799999999999999999
Q ss_pred cchhchhhHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhccCCCccchhHhH
Q 004385 319 GNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTI 398 (757)
Q Consensus 319 ~~i~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~~~~~l~~~~~~~~~~l~~i 398 (757)
|||+.+++|+.++++++++++.+++..++..|+|.+|++.+.+..+++.++++||.+||++++.+|++.+.++|.+|..+
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 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCeEEEeccCCCCCcchhhhhCCCCccccc
Q 004385 399 CDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRS 478 (757)
Q Consensus 399 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ld~s~~~~~l~~~~~svIltSgTL~p~~~~~~~Lg~~~~~~~~ 478 (757)
++|++++++|.++|.++++|.+.+.++..++.|++.|+|.|.+++++|++++|||+|||||+|.++|.++|+|.|+...+
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 99999999999999999999998888899999999999999999999999999999999999999999999999999999
Q ss_pred ceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHH
Q 004385 479 FKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKE 558 (757)
Q Consensus 479 ~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~ 558 (757)
+.+++.++++.|+++++|.|++.++|.|+.|+++...+++|+.+.+.++.+|||+++|||||-+|+.+...|...|++++
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 HhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHH
Q 004385 559 IMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYL 638 (757)
Q Consensus 559 ~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l 638 (757)
++++|.+|+|.+|..+++.++++|+++|++|+||||++|+||+++|||||.++++|+||+.|+||....+..+++|.+||
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 HHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCcHHHHhhccccccCCCHHHHHHHHHHH
Q 004385 639 RDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALHIAREF 718 (757)
Q Consensus 639 ~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~~~~~~~~F 718 (757)
+++++++.++|.+++|||+..||+||++|+++|||.+|+.|+||.+.+.+..||+|+++++...+.|+++|+++...++|
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 HHHhcCCCCcCCcccccccccHHHHHhhhcc
Q 004385 719 LRKMAQPYDKAGSIGRKTLLSQADLEKMTND 749 (757)
Q Consensus 719 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 749 (757)
++.|+|||.+.|| +|.|+||+|+|++++.+
T Consensus 719 lR~maQp~~k~dq-~G~Sll~~edle~~~~~ 748 (755)
T KOG1131|consen 719 LRLMAQPFDKEDQ-LGVSLLSLEDLEKMQEE 748 (755)
T ss_pred HHHhcCCCCcccc-cccccccHHHHHHHHHH
Confidence 9999999999999 99999999999988653
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=2.7e-113 Score=1006.51 Aligned_cols=688 Identities=47% Similarity=0.836 Sum_probs=535.2
Q ss_pred CeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHH
Q 004385 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 7 ~~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
+++|+|||+++||+|+++|.+|++++++++++++|||||||||+|.|+|+|+|+.+.+... |||||||||+|+.|+++|
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 4689999999999999999999999999999999999999999999999999998765456 999999999999999999
Q ss_pred HHhhhhhccccCCCccceEEEEecCCcccccchHHhhhcCcccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHh-h
Q 004385 87 LKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKA-A 165 (757)
Q Consensus 87 l~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~~~~~C~~~~~~~~~-~ 165 (757)
|+++..++.+..+...++++++|+||+++|+|+.+....+....++.|+.+...|.++......+...|+||++.... .
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 999754332211223468999999999999999887665556678899988765544322211223579999887543 1
Q ss_pred hcCCCCCCCCCHHHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhHHHHh
Q 004385 166 SAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIE 245 (757)
Q Consensus 166 ~~~~~~~~~~~ie~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~~~~~ 245 (757)
....+..+++|+|++++.|+.++.||||.+|+.++.|||||+||||||||.++..+..++ ++.+|||||||||+++|++
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 112345679999999999999999999999999999999999999999999998887766 6899999999999999999
Q ss_pred hccccccHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHhcCCCc--cccccCCCCChhhhhhccCcchhc
Q 004385 246 ALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLP--NAWLSNPALPSDILKEAVPGNIRR 323 (757)
Q Consensus 246 ~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~i~~ 323 (757)
++|++|+..+|..+.+++.++..........+...+.+.+.+++..+.+..... ..+..++..+..+....+++.++.
T Consensus 239 ~~S~~ls~~~l~~a~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 318 (705)
T TIGR00604 239 SLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKLLDELQKLVEGLKQEDLLTDEDIFLANPVLPKEVLPEAVPGNIRI 318 (705)
T ss_pred HHhcccCHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcccchhhhcCcCchhhccHHHhcccCCc
Confidence 999999999999999999887554322111122233345555666654321100 012222222222222334444444
Q ss_pred hhhHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhccCCCccchhHhHHHHHH
Q 004385 324 AEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFAT 403 (757)
Q Consensus 324 ~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~~~~~l~~~~~~~~~~l~~i~~f~~ 403 (757)
...++..+.++++......+......+....+.+.+.+...++. .++++.+++...+..+.......+.....+..+..
T Consensus 319 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 397 (705)
T TIGR00604 319 AEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLEHLKEKTFIDR-PLRFCSERLSNLLRELEITHPEDFSALVLLFTFAT 397 (705)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhcccch-hhhHHHHHHHHHHhhhccccccccccchHHHHHHH
Confidence 44444444444332211111001111122334343444434443 56677778877776665544444443333333333
Q ss_pred Hhcc----cCCCeEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCeEEEeccCCCCCcchhhhhCCCCcccccc
Q 004385 404 LVGT----YTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRSF 479 (757)
Q Consensus 404 ~~~~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~ld~s~~~~~l~~~~~svIltSgTL~p~~~~~~~Lg~~~~~~~~~ 479 (757)
++.. +..++..+.. . +..+..|+++|+||+.+|+.++++++|+|||||||+|.++|.+.||+++....+.
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 2222 2233332221 1 1235789999999999999999999999999999999999999999976555566
Q ss_pred eeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHH
Q 004385 480 KMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEI 559 (757)
Q Consensus 480 ~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~ 559 (757)
+++++++++++++++.++++..++++|..|+++++++.+++.|.++++.+|||+|||||||.+|+++++.|++.+.+.++
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 78888899999999999999999999999999999999999999999999999999999999999999999999988888
Q ss_pred hcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHH
Q 004385 560 MQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLR 639 (757)
Q Consensus 560 ~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~ 639 (757)
...|.||+|+++..+++.++++|++.++.++|+|||||+||+|||||||+|+.||+|||+|||||+|.||.+++|++|++
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-chhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCcHHHHhhccccc
Q 004385 640 DTFQIKEG-DFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAH 703 (757)
Q Consensus 640 ~~~~~~~~-~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD~R~~~~~~~~~lp~w~~~~~~~~~ 703 (757)
++++..++ .||..+|+++++||+||+|||++|||+|+|+|+||.++++++.||+|+++++...+
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 88655567 89999999999999999999999999999999999999999999999999998764
No 3
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=3.9e-103 Score=864.34 Aligned_cols=665 Identities=27% Similarity=0.477 Sum_probs=486.6
Q ss_pred EEEc-CeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC-----------------
Q 004385 3 FKLE-DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----------------- 64 (757)
Q Consensus 3 ~~i~-~~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~----------------- 64 (757)
..|+ |++|+|||+| ||.|+.||..|+.+|+.+.++++|+||||||||++||++|+|+++..
T Consensus 8 ~~i~~Gv~V~fP~qp-Y~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~p 86 (945)
T KOG1132|consen 8 IVINIGVPVEFPFQP-YPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFIP 86 (945)
T ss_pred eEeccCceeeccCCc-chHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccccC
Confidence 4677 9999999997 99999999999999999999999999999999999999999987541
Q ss_pred ---------------------CCCcEEEEEccchhhHHHHHHHHHhhhhhccccCCCccceEEEEecCCcccccchHHhh
Q 004385 65 ---------------------ENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLA 123 (757)
Q Consensus 65 ---------------------~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~ 123 (757)
.+..+|+|+||||+|+.|+++|+++. .| .++.++|+||.|+|+|+.++.
T Consensus 87 ~~~s~~~g~~s~e~~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT-~Y---------~vkmtVLgSReq~Cinpev~k 156 (945)
T KOG1132|consen 87 TQPSDSGGEKSEEAGEPIACYTGIPKIYYASRTHSQLTQVVRELRRT-GY---------RVKMTVLGSREQLCINPEVKK 156 (945)
T ss_pred CCCccCCCCchhhhcCccccccCCceEEEecchHHHHHHHHHHHhhc-CC---------CCceEEeecchhhccCHHHhh
Confidence 01238999999999999999999996 33 267899999999999999987
Q ss_pred hcCcccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhccccCe
Q 004385 124 AENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFAN 203 (757)
Q Consensus 124 ~~~~~~~~~~c~~l~~~w~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~ie~l~~~~~~~~~CpY~~ar~~~~~ad 203 (757)
.......+..|++++. ...|.||...........+..+++|||||++.|+....||||.+|++.++||
T Consensus 157 ~~~~~~~~~~C~k~~~------------~~~C~f~~~~~~~sl~~~l~~~i~DIEDLVk~Gk~~~~CPYfaSR~l~edAd 224 (945)
T KOG1132|consen 157 LEGNALQNHVCKKLVK------------SRSCHFYKIVEEKSLQPRLHDEIFDIEDLVKIGKKSRGCPYFASRELKEDAD 224 (945)
T ss_pred hhcchhhhhHHHhhcc------------cccccccccccccccccccCCCcccHHHHHHhCccCcCCcchhhhhhcccCc
Confidence 7655566889998773 2679999766554444455667999999999999999999999999999999
Q ss_pred EEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhHHHHhhccccccHHHHHHHHHHHHHHHHHHHHhhhhchHHHHH
Q 004385 204 VVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRA 283 (757)
Q Consensus 204 iiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~ 283 (757)
||+||||||+||.+|.+...+| +++|||||||||+|+.|++..|++++..+|.....-...+.+...+-... ...+.+
T Consensus 225 IIF~PYnYLiDp~iR~~~~v~L-knsIVIfDEAHNiEdic~esaS~~lts~~l~~~~~l~~e~~~~~~~~~~~-~~pl~e 302 (945)
T KOG1132|consen 225 IIFCPYNYLIDPKIRRSHKVDL-KNSIVIFDEAHNIEDICRESASFDLTSSDLASGLELINELEQAVTKAAAI-YEPLRE 302 (945)
T ss_pred EEEechhhhcCHhhhccccccc-cccEEEEeccccHHHHHhhcccccccHHHHHHHHHHHHHHHHHHhhhhhh-cCchhh
Confidence 9999999999999999887887 79999999999999999999999999877764322112221111100000 000000
Q ss_pred HHHHHHHHHHhcCCCccccccCCCCChhhhhhccCcchhchhhHHHHHHHHHHHHHh----hhh---cccccccChhHHH
Q 004385 284 EYNRLVEGLALRGNLPNAWLSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRG----RLE---TENVEKEGPVSFV 356 (757)
Q Consensus 284 ~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~l~~----~~~---~~~~~~~~~~~~~ 356 (757)
.-..++. |+. ...+.+ ..++...-.+.. .+. ........+. .+
T Consensus 303 v~~~l~s-----------~l~-----------------~~~e~L-a~l~~~~~~~~~~~d~~~~~~~~~giT~~~~~-~l 352 (945)
T KOG1132|consen 303 VSLDLIS-----------WLE-----------------LELEDL-AKLKEILLFLEEAIDKVLLPLDDSGITRPGSP-IL 352 (945)
T ss_pred hhhccch-----------hhh-----------------cchHHH-HHHHHHHHHhhhhcchhccccccccccCCCcH-HH
Confidence 0000000 000 000000 000000000000 000 0000111110 11
Q ss_pred HHHHhhhccccchhhhhHHHHHHHHHHhhccC----CCccchh---HhHHHHHHHh--c--------------ccC----
Q 004385 357 ASITAHAGIDQKTLRFCYERLHSLMLTLEITD----TDEFLHI---QTICDFATLV--G--------------TYT---- 409 (757)
Q Consensus 357 ~~l~~~~~~~~~~~~~~~~rl~~~~~~l~~~~----~~~~~~l---~~i~~f~~~~--~--------------~~~---- 409 (757)
.........+......+...+...+..|+... ....+.. ..+.++.... . .++
T Consensus 353 ~e~~~~a~~t~e~~~~i~~~~~~~v~~le~~~q~~~t~~~s~~~~~~dlld~~fs~~~~~g~~~~~~~~~~e~s~~~~~~ 432 (945)
T KOG1132|consen 353 YEEFAKALITSETAEKIVDSLDIAVQHLEGEKQGTATNTGSLWCIFADLLDISFSVILQNGSFSSDASFSVEQSYSFGNH 432 (945)
T ss_pred HHHHHHhccCccccccchhhHHHHHHHhhcccccchhcccchHHHHHHHHHHHhhccccCCccccchhhhhhhhhccccc
Confidence 11111111111111111111222222222111 0001111 1111111000 0 000
Q ss_pred -------CC--eEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhc-cCeEEEeccCCCCCcchhhhhCCCCcccccc
Q 004385 410 -------RG--FSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDR-FQSVVITSGTLSPIDLYPRLLNFHPVVSRSF 479 (757)
Q Consensus 410 -------~~--~~~~~~~~~~~~~~~~~~~l~~~~ld~s~~~~~l~~~-~~svIltSgTL~p~~~~~~~Lg~~~~~~~~~ 479 (757)
++ -.+|...... ...+-+.+++||++|+..|++++.+ +++||||||||+|++.|..+||++......-
T Consensus 433 ~d~~~~~~~~~~~v~~~~~s~--~~~~~~vi~~wcf~p~~sf~d~~~k~vrsIiLtSGTLsP~~s~~~El~~~f~~~lEn 510 (945)
T KOG1132|consen 433 LDAPHVINANLGDVWKGKSSR--KLGNYPVINFWCFSPGYSFRDLLGKGVRSIILTSGTLSPMDSFASELGLEFKIQLEN 510 (945)
T ss_pred CCccccccccccccccccccc--ccCcccceeeeecCcchhHHHHhcccceeEEEecccccCchhHHHHhCCccceeeec
Confidence 00 0112111110 0112356999999999999999987 9999999999999999999999987777777
Q ss_pred eeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHH
Q 004385 480 KMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEI 559 (757)
Q Consensus 480 ~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~ 559 (757)
+|.+.+.+++..+|++||+...+.|+|.+|..++|...+|+.|...++++|.|+|||||||.+|+++.+.|+..+.|+++
T Consensus 511 ~hii~~~qv~~~vv~~Gp~~~ql~sty~nr~~~ey~~~lg~~i~~v~rvVp~G~L~FfPSY~vmdk~~tfw~~~~~we~~ 590 (945)
T KOG1132|consen 511 PHIINKSQVWVGVVPKGPDGAQLDSTYGNRFTPEYLSELGEAILNVARVVPYGLLIFFPSYPVMDKLITFWQNRGLWERM 590 (945)
T ss_pred chhccccceEEEeeccCCCccccccccccccCHHHHHHHHHHHHHHHhhcccceEEeccchHHHHHHHHHHHcchHHHHh
Confidence 88888999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCccEEEeCCCchhHHHHHHHHHHhcc--CCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHH
Q 004385 560 MQHKLVFIETQDVVETTLALDNYRKACD--CGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEY 637 (757)
Q Consensus 560 ~~~k~if~E~~~~~~~~~~l~~f~~~~~--~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~ 637 (757)
..-|.+++|++...++.++++.|..++. ...|+++++|||||.|||+||.|+..|+||++|||||+..||.|++|++|
T Consensus 591 ~~vk~l~vEPr~k~~f~e~m~~y~~~i~~pes~ga~~~aVcRGKVSEGlDFsD~~~RaVI~tGlPyP~~~D~~V~lK~~y 670 (945)
T KOG1132|consen 591 EKVKKLVVEPRSKSEFTEVMSRYYNAIADPESSGAVFFAVCRGKVSEGLDFSDDNGRAVIITGLPYPPVMDPRVKLKKQY 670 (945)
T ss_pred hcccCceeccCCccchHHHHHHHHHHhhCccccceEEEEEecccccCCCCccccCCceeEEecCCCCCCCCHHHHHHHHh
Confidence 9989999999988889999999988775 55689999999999999999999999999999999999999999999999
Q ss_pred HHHhcCC--------CccchhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCcHHHHhhccccccCCCHH
Q 004385 638 LRDTFQI--------KEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTD 709 (757)
Q Consensus 638 l~~~~~~--------~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~ 709 (757)
++...+. .+.+||..+|+|+||||+||+|||++|||+++|+|.||.+++....+|+|++.........
T Consensus 671 ~D~~~~~~g~~s~~lsg~eWY~~qA~RAvNQAiGRviRHR~D~Gav~l~D~Rfe~~~~~~~lskw~r~~~~~~~~~---- 746 (945)
T KOG1132|consen 671 LDENSSLKGAKSQLLSGQEWYSQQAYRAVNQAIGRVIRHRNDYGAVILCDDRFENADARSQLSKWIRSVKCDSRYC---- 746 (945)
T ss_pred hhhhccccccccccccchHHHHhhHHHHHHHHHHHHHhhhcccceeeEeechhhcCccccccchhhhccccccccc----
Confidence 9976542 3789999999999999999999999999999999999999888888999999844443322
Q ss_pred HHHHHHHHHHHHhcCCCCc
Q 004385 710 MALHIAREFLRKMAQPYDK 728 (757)
Q Consensus 710 ~~~~~~~~Ff~~~~~~~~~ 728 (757)
+.+..+..+++.+.+....
T Consensus 747 ~~~~~~~r~~r~~~~nn~~ 765 (945)
T KOG1132|consen 747 EVISSLARKFRTHRSNNSA 765 (945)
T ss_pred cccchhhhhhhcccccccc
Confidence 2333444555555544433
No 4
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=2.1e-99 Score=812.92 Aligned_cols=661 Identities=27% Similarity=0.460 Sum_probs=516.3
Q ss_pred cCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC----------------------
Q 004385 6 EDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK---------------------- 63 (757)
Q Consensus 6 ~~~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~---------------------- 63 (757)
...+.+|||.| |..|.++|.++++.|++|+.+++|+||||||||+++|+||.|+..+
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 34678899986 9999999999999999999999999999999999999999997633
Q ss_pred --------------------------------------------------------------------------------
Q 004385 64 -------------------------------------------------------------------------------- 63 (757)
Q Consensus 64 -------------------------------------------------------------------------------- 63 (757)
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 004385 64 -----------------------PENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSR 120 (757)
Q Consensus 64 -----------------------~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~ 120 (757)
.+++.||+||+|||+|+.|++.||++. . .+.++|++.|+||+++|+|+.
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 001269999999999999999999995 2 367799999999999999999
Q ss_pred HhhhcCcccHHHHHHHhhhHHHHHhhhcC------CCCCCCcCccc--hHHhhhcCCCCCCCCCHHHHHHhcccCCCCch
Q 004385 121 VLAAENRDSVDAACRKRTASWVRALAAEN------PNIETCEFFEN--YEKAASAAVLPPGVYTLQDLRAFGKQQGWCPY 192 (757)
Q Consensus 121 ~~~~~~~~~~~~~c~~l~~~w~~~~~~~~------~~~~~C~~~~~--~~~~~~~~~~~~~~~~ie~l~~~~~~~~~CpY 192 (757)
++.+++...+|+.|..+..+-..++.... .....||||+. +....+. .+ .++.|+||++..|+..+.|||
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 99888888899999876532211000000 01246999943 2222222 22 389999999999999999999
Q ss_pred HHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhHHHHhhccccccHHHHHHHHHHHHHHHHHHH-
Q 004385 193 FLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIE- 271 (757)
Q Consensus 193 ~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~- 271 (757)
|.+|+.+..|++|+.||.+||....|.++++.| +++||||||||||.|++.++.|.+||..+|.+|...+..+.....
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 999999999999999999999999999999988 799999999999999999999999999999999998887754332
Q ss_pred HhhhhchHHHHH---HHHHHHHHHHhcCCCccccccCCCCChhhhhhccCcchhchhhHH-------HHHHHHHHHHHhh
Q 004385 272 RFKATDAGRLRA---EYNRLVEGLALRGNLPNAWLSNPALPSDILKEAVPGNIRRAEHFL-------HVLRRLVQYLRGR 341 (757)
Q Consensus 272 ~~~~~~~~~l~~---~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~-------~~l~~~~~~l~~~ 341 (757)
++++.+.-.+.. ..++++.-+..... .++ ..+.+.. .+|+ -.+.++.++++..
T Consensus 394 rl~~~N~~~l~ql~~l~~~ll~fl~~~~~------~~~------~~~~~~~-----~dfl~~~~id~iNL~kl~~Yi~~S 456 (821)
T KOG1133|consen 394 RLKAKNLMYLKQLLSLLRRLLKFLDSNCE------LNG------NGESLMR-----NDFLFSSGIDNINLFKLLDYIEKS 456 (821)
T ss_pred hhCccchhHHHHHHHHHHHHHHHHHhhhh------hCC------cccccch-----hhhhhhcCccceeHHHHHHHHHHh
Confidence 233322222211 11222222211000 000 0000111 1221 1234555555431
Q ss_pred hhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhccCCCcc--chhHhHHHHHHHhcccCCCeEEEEecC
Q 004385 342 LETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEF--LHIQTICDFATLVGTYTRGFSIIIEPF 419 (757)
Q Consensus 342 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~~~~~l~~~~~~~~--~~l~~i~~f~~~~~~~~~~~~~~~~~~ 419 (757)
-- ......|-..+.+. -.+++ ++|.. +..+....+.+ +++..+..|+..+.....+-.++++..
T Consensus 457 ~i-----~rKv~G~~~r~~~~---~s~pl----q~l~~--~~~~~~ee~~~~ps~l~~l~~FL~~LTn~~~dGri~~~k~ 522 (821)
T KOG1133|consen 457 KI-----ARKVDGFGERLSEV---FSQPL----QSLQK--KRVEAEEESQLKPSPLFELSSFLGALTNNNEDGRIFYSKQ 522 (821)
T ss_pred hH-----HHHhcchhhcchhh---ccchh----hHhhh--ccccchhcccCCCchhHHHHHHHHHHhCCCCCCcEEEecc
Confidence 00 00011222222210 00121 11111 11111111122 347888888877766555556777665
Q ss_pred CCCCCCCCCCeEEEEecCccccchHHhhccCeEEEeccCCCCCcchhhhhC--C-CCcccccceeeeccCceeeeEEecC
Q 004385 420 DERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLN--F-HPVVSRSFKMSLTRDCICPMVLTRG 496 (757)
Q Consensus 420 ~~~~~~~~~~~l~~~~ld~s~~~~~l~~~~~svIltSgTL~p~~~~~~~Lg--~-~~~~~~~~~~~~~~~~~~~~vi~~g 496 (757)
. ...|.+..++|+..|..+...+++|||.+|||.|.+.|...|. . +.....++.|.++++++.+++|..|
T Consensus 523 ~-------s~~lky~lL~pA~~f~evv~earavvLAGGTMeP~~e~~e~L~~~~~~~i~~fsc~Hvip~e~il~~vv~~g 595 (821)
T KOG1133|consen 523 G-------SGTLKYMLLNPAKHFAEVVLEARAVVLAGGTMEPVDELREQLFPGCPERISPFSCSHVIPPENILPLVVSSG 595 (821)
T ss_pred C-------CceEEEEecCcHHHHHHHHHHhheeeecCCccccHHHHHHHhcccchhhccceecccccChhheeeeeeccC
Confidence 3 3689999999999999999999999999999999998888774 2 2344567899999999999999999
Q ss_pred CCCccceeccccCCChHHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHH
Q 004385 497 SDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETT 576 (757)
Q Consensus 497 ~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~ 576 (757)
|++.++..+|..|..++.++.++..+..++.++|||++||||||.+|.++++.|.+.|++..|...|.||.|+++. .+
T Consensus 596 psg~p~eftf~~R~s~~~l~~l~~~~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~--~~ 673 (821)
T KOG1133|consen 596 PSGQPLEFTFETRESPEMIKDLGSSISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT--VE 673 (821)
T ss_pred CCCCceEEEeeccCChHHHHHHHHHHHHHHhhCCCcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc--HH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999985 57
Q ss_pred HHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCC--CccchhHHHH
Q 004385 577 LALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQI--KEGDFLTFDA 654 (757)
Q Consensus 577 ~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~--~~~~~~~~~a 654 (757)
.+++.|+.+++.|+||+||+|.|||+||||+|.|+.|||||+||+||||+.|+.++.|+.|++.+... .+++||..-+
T Consensus 674 dvl~~Ya~a~~~g~GaiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyPN~~s~EL~er~k~l~~k~~~~gagke~yEnlC 753 (821)
T KOG1133|consen 674 DVLEGYAEAAERGRGAILLAVVGGKLSEGINFSDDLGRAVVVVGLPYPNIQSVELQERMKHLDGKLPTPGAGKELYENLC 753 (821)
T ss_pred HHHHHHHHHhhcCCCeEEEEEeccccccccccccccccEEEEeecCCCCCCCHHHHHHHHHhhhccCCCCchHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999998763 3789999999
Q ss_pred HHHHHHhcccccccCCCeeEEEEeecccCCccccCCCcHHHHhhccccccCCCHHHHHHHHHHHHHHh
Q 004385 655 LRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALHIAREFLRKM 722 (757)
Q Consensus 655 ~~~~~Q~iGR~IR~~~D~G~villD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~~~~~~~~Ff~~~ 722 (757)
|++|||+|||.|||.+||++|+|+|.||+++..+ .||+|+++.+.. ..++.+++..++.||+..
T Consensus 754 MkAVNQsIGRAIRH~~DYA~i~LlD~RY~~p~~R-KLp~WI~~~v~s---~~~~G~~ir~~~~ff~~k 817 (821)
T KOG1133|consen 754 MKAVNQSIGRAIRHRKDYASIYLLDKRYARPLSR-KLPKWIRKRVHS---KAGFGPAIRATRKFFRAK 817 (821)
T ss_pred HHHHHHHHHHHHhhhccceeEEEehhhhcCchhh-hccHHHHhHhcc---ccCccHHHHHHHHHHHHh
Confidence 9999999999999999999999999999977666 899999765544 457899999999999864
No 5
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=100.00 E-value=2.8e-82 Score=737.26 Aligned_cols=609 Identities=18% Similarity=0.189 Sum_probs=405.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHh-----CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH-HH
Q 004385 14 YDNIYPEQYSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-EL 87 (757)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~-----~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~-el 87 (757)
|++ ||+|.+||.+|.++|.+ +++++||||||||||+|||+|++.|+.+. ++ ||||||.|++||+|+++ ||
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 88
Q ss_pred HhhhhhccccCCCccceEEEEecCCcc-cccchHHhhhcC----ccc-----------HHHHHH---HhhhHHHHHhhhc
Q 004385 88 KLLHNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAEN----RDS-----------VDAACR---KRTASWVRALAAE 148 (757)
Q Consensus 88 ~~l~~~~~~~~~~~~~~~~~~l~gr~~-lC~~~~~~~~~~----~~~-----------~~~~c~---~l~~~w~~~~~~~ 148 (757)
+.+.+. .+.+++++++|||+| +|+++....+.. ... ...... .+...|..+|++|
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 887654 367899999999999 999987653321 110 111121 1222344458888
Q ss_pred CCCCCCCcCccchHHhhhcCCCCCCCCCHH-HHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccC-
Q 004385 149 NPNIETCEFFENYEKAASAAVLPPGVYTLQ-DLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQ- 226 (757)
Q Consensus 149 ~~~~~~C~~~~~~~~~~~~~~~~~~~~~ie-~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~- 226 (757)
|.+ .++.-.. ... +.....+.+ |+...|+.+..|||+.+|+.++.|||||+||+||+.+...+ .+..||
T Consensus 174 D~d--el~~~~~-~~~-----w~~v~~~~~~C~~~~Cp~~~~Cf~~~ar~~a~~AdivVtNH~LLladl~~~-~~~iLp~ 244 (697)
T PRK11747 174 DRD--HWPEPID-DSL-----WQRITTDKHSCLGRNCPYFRECPFFKARREIDEADVVVANHDLVLADLELG-GGVVLPD 244 (697)
T ss_pred cHh--hCcCCCc-HHH-----HHHhhcCccccCCCCCCCCccChHHHHHHHHhhCCEEEECcHHHHhhhhcc-CCcccCC
Confidence 764 2222110 000 111122223 44567999999999999999999999999999999655321 122355
Q ss_pred -CCcEEEEcCCcChhHHHHhhccccccHHHHHHHHHHHHHHHHHHHH-hh---hhchHHH---HHHHHHHHHHHHhcCCC
Q 004385 227 -KESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIER-FK---ATDAGRL---RAEYNRLVEGLALRGNL 298 (757)
Q Consensus 227 -~~~ilI~DEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~-~~---~~~~~~l---~~~~~~l~~~l~~~~~~ 298 (757)
+.+++||||||||+++|.++++.+++...+...++.+.+....+.. +. ......+ ...+..+...+...-..
T Consensus 245 ~~~~~lViDEAH~L~d~A~~~~~~~~s~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 324 (697)
T PRK11747 245 PENLLYVLDEGHHLPDVARDHFAASAELKGTADWLEKLLKLLTKLVALIMEPPLALPERLNAHCEELRELLASLNQILNL 324 (697)
T ss_pred CCCCEEEEECccchHHHHHHHhhhhccHHHHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4789999999999999999999999988877666655432111110 00 0000111 11122222222110000
Q ss_pred ccccccCCCCChhhhhhccCcchh-chhhHHHHHHHHHHHHHhhhhcccccccChhHHHHH-HHhhhcccc-------ch
Q 004385 299 PNAWLSNPALPSDILKEAVPGNIR-RAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVAS-ITAHAGIDQ-------KT 369 (757)
Q Consensus 299 ~~~~~~~~~~~~~~~~~~~~~~i~-~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~-------~~ 369 (757)
........ ....+....++..+. ....+...+..+...+... . +.+.. +.. ...+. ..
T Consensus 325 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l-~----------~~l~~~~~~-~~~~~~~~~~~~~~ 391 (697)
T PRK11747 325 FLPAGGEE-ARYRFEMGELPEELLELAERLAKLTEKLLGLLEKL-L----------NDLSEAMKT-GKIDIVRLERLLLE 391 (697)
T ss_pred hccccccc-ccccccCCCCcHHHHHHHHHHHHHHHHHHHHHHHH-H----------HHHHHHHhc-cccchhhHHHHHHH
Confidence 00000000 000000000000000 0111222222222211110 0 00000 000 00000 01
Q ss_pred hhhhHHHHHHHHHHhhccCCCccchhHhHHHHHHHhcccC---CCeEEEEecCCCCCCCCCCCeEEEEecCccccc-hHH
Q 004385 370 LRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVGTYT---RGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPV 445 (757)
Q Consensus 370 ~~~~~~rl~~~~~~l~~~~~~~~~~l~~i~~f~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~~~ld~s~~~-~~l 445 (757)
+..+..++..+.+.+. .++.... ..++.|++..... ......|+..|+|++..+ +.+
T Consensus 392 l~~~~~~l~~~~~~l~-----------------~~~~~~~~~~~~~v~Wie~~~~~--~~~~~~l~~~Pl~~~~~l~~~l 452 (697)
T PRK11747 392 LGRALGRLEALSKLWR-----------------LAAKEDQESGAPMARWITREERD--GQGDYLFHASPIRVGDQLERLL 452 (697)
T ss_pred HHHHHHHHHHHHHHHH-----------------HHhcccccCCCCceEEEEeccCC--CCceEEEEEecCCHHHHHHHHH
Confidence 1112222222222111 1111111 1457888765321 123567999999999999 688
Q ss_pred hhccCeEEEeccCCCCCc---chhhhhCCCC---cccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHH
Q 004385 446 FDRFQSVVITSGTLSPID---LYPRLLNFHP---VVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 519 (757)
Q Consensus 446 ~~~~~svIltSgTL~p~~---~~~~~Lg~~~---~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~ 519 (757)
|++++++|||||||+|.+ +|.+.+|+++ .....++.+++..+...++++.. .++.+++++|...++
T Consensus 453 ~~~~~~vIltSATL~~~~~f~~~~~~lGL~~~~~~~~~~~~SpF~~~~q~~l~vp~~--------~~~p~~~~~~~~~~~ 524 (697)
T PRK11747 453 WSRAPGAVLTSATLRSLNSFDRFQEQSGLPEKDGDRFLALPSPFDYPNQGKLVIPKM--------RAEPDNEEAHTAEMA 524 (697)
T ss_pred HhhCCEEEEEeeeCCCCCchHHHHHHcCCCCCCCceEEEcCCCCCHHHccEEEeCCC--------CCCCCCcHHHHHHHH
Confidence 999999999999999975 5667899974 33445566665444343455431 112256788999999
Q ss_pred HHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004385 520 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 599 (757)
Q Consensus 520 ~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~ 599 (757)
+.|.+++. ++||+|||||||+.|+++++.|... ....|++|+.+ +...++++|++.++.++++||||+
T Consensus 525 ~~i~~l~~-~~gg~LVlFtSy~~l~~v~~~l~~~-------~~~~ll~Q~~~--~~~~ll~~f~~~~~~~~~~VL~g~-- 592 (697)
T PRK11747 525 EFLPELLE-KHKGSLVLFASRRQMQKVADLLPRD-------LRLMLLVQGDQ--PRQRLLEKHKKRVDEGEGSVLFGL-- 592 (697)
T ss_pred HHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHh-------cCCcEEEeCCc--hHHHHHHHHHHHhccCCCeEEEEe--
Confidence 99999999 8999999999999999999998742 12458888753 567899999998888889999999
Q ss_pred CcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEEee
Q 004385 600 GKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFAD 679 (757)
Q Consensus 600 G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD 679 (757)
|||||||||||+.|++|||+|||||+|+||.+++|.+|++++++.++.+++.|+|+++++||+||+||+++|+|+|+++|
T Consensus 593 ~sf~EGVD~pGd~l~~vII~kLPF~~p~dp~~~ar~~~~~~~g~~~F~~~~lP~A~~kl~Qg~GRlIRs~~D~G~i~ilD 672 (697)
T PRK11747 593 QSFAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLKSRGGNPFMEISVPDASFKLIQAVGRLIRSEQDRGRVTILD 672 (697)
T ss_pred ccccccccCCCCceEEEEEEcCCCCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHhccccccCCceEEEEEEc
Confidence 89999999999999999999999999999999999999999987777778899999999999999999999999999999
Q ss_pred cccCCcccc----CCCcH
Q 004385 680 KRYSRHDKR----SKLPG 693 (757)
Q Consensus 680 ~R~~~~~~~----~~lp~ 693 (757)
+|+.++.|+ ++||+
T Consensus 673 ~R~~~~~Yg~~~l~sLP~ 690 (697)
T PRK11747 673 RRLLTKRYGKRLLDALPP 690 (697)
T ss_pred ccccchhHHHHHHHhCCC
Confidence 999998875 66665
No 6
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=8.3e-81 Score=746.55 Aligned_cols=634 Identities=16% Similarity=0.186 Sum_probs=416.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH-HHHhhhh
Q 004385 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-ELKLLHN 92 (757)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~-el~~l~~ 92 (757)
|++ ||+|.+||..|.++|.++++++||||||||||+|||+|++.|+... ++ ||||||+|++||+|+++ |++.|.+
T Consensus 256 ~e~-R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~--~~-~vvIsT~T~~LQ~Ql~~kDiP~L~~ 331 (928)
T PRK08074 256 YEK-REGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKK--EE-PVVISTYTIQLQQQLLEKDIPLLQK 331 (928)
T ss_pred CcC-CHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhcc--CC-eEEEEcCCHHHHHHHHHhhHHHHHH
Confidence 664 9999999999999999999999999999999999999999888644 57 99999999999999988 7887654
Q ss_pred hccccCCCccceEEEEecCCcc-cccchHHhhhcCcc--cHHHHHHHhhhHHHHHhhhcCCC-CC----CCcCccchHHh
Q 004385 93 YQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRD--SVDAACRKRTASWVRALAAENPN-IE----TCEFFENYEKA 164 (757)
Q Consensus 93 ~~~~~~~~~~~~~~~~l~gr~~-lC~~~~~~~~~~~~--~~~~~c~~l~~~w~~~~~~~~~~-~~----~C~~~~~~~~~ 164 (757)
. .+.+++++++|||+| +|++++........ .....++..+..|+.+|++||.+ ++ ...+|+.+.
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 3 356789999999999 99998765432111 11122333455799999999875 21 122333322
Q ss_pred hhcCCCCCCCCCHH-HHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhHHH
Q 004385 165 ASAAVLPPGVYTLQ-DLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVC 243 (757)
Q Consensus 165 ~~~~~~~~~~~~ie-~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~~~ 243 (757)
.+.+ |+...|+.+..|||+.+|+.++.|||||+||+||+.....+ ...+|+.+++||||||||+++|
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 2222 34567999999999999999999999999999999665322 1237889999999999999999
Q ss_pred HhhccccccHHHHHHHHHHHHHHH-----HHHHHh-hhhc-------------hHHHHHHHHHHHHHHHhcCCCccccc-
Q 004385 244 IEALSVSVRRQTLEGATRNLSRIN-----QEIERF-KATD-------------AGRLRAEYNRLVEGLALRGNLPNAWL- 303 (757)
Q Consensus 244 ~~~~s~~is~~~l~~~~~~l~~~~-----~~~~~~-~~~~-------------~~~l~~~~~~l~~~l~~~~~~~~~~~- 303 (757)
.++++.+++...+....+.+.... ..+... .... ...+..+...+...+..... ...
T Consensus 472 ~~~~~~~~s~~~~~~~l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~---~~~~ 548 (928)
T PRK08074 472 SRHLGEQFSYMSFQLLLSRLGTLEEDGLLSKLAKLFKKSDQASRSSFRDLDESLKELKFEADELFQMLRSFVL---KRKK 548 (928)
T ss_pred HHHhcceecHHHHHHHHHHHhhhccccHHHHHHHHHhhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hccc
Confidence 999999999988887766553211 001000 0000 00011111111111110000 000
Q ss_pred cCCCCC--hhhhhhccCcchhchhhHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHH
Q 004385 304 SNPALP--SDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLM 381 (757)
Q Consensus 304 ~~~~~~--~~~~~~~~~~~i~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~~~ 381 (757)
.+.... ..+..+.-.+. ........+.++...+....... ......+.+. ...........+ ..+
T Consensus 549 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~l~~~l-------~~~~~~l~~~---~~~~~~~~~~~~-~~~ 615 (928)
T PRK08074 549 QEQNGRLIYRYNTESEKGK--LWDAITELANRLCYDLRDLLTLL-------EAQKKELQEK---MESESAFLTGEY-AHL 615 (928)
T ss_pred ccccccceeecccccccch--hhHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhhh---hhhhhhhHHHHH-HHH
Confidence 000000 00000000000 00000011111111110000000 0000000000 000000000000 000
Q ss_pred HHhhccCCCccchhHh-HHHHHHHhcccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccc-hHHhhccCeEEEeccCC
Q 004385 382 LTLEITDTDEFLHIQT-ICDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFDRFQSVVITSGTL 459 (757)
Q Consensus 382 ~~l~~~~~~~~~~l~~-i~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ld~s~~~-~~l~~~~~svIltSgTL 459 (757)
.. +.. ...+..++....+.++.|++..... ......|+..|+|++..+ +.+|++++++|||||||
T Consensus 616 ~~-----------l~~~~~~l~~~~~~~~~~~v~w~e~~~~~--~~~~~~l~~~pld~~~~l~~~l~~~~~~~iltSATL 682 (928)
T PRK08074 616 ID-----------LLEKMAQLLQLLFEEDPDYVTWIEIDAKG--AINATRLYAQPVEVAERLADEFFAKKKSVILTSATL 682 (928)
T ss_pred HH-----------HHHHHHHHHHHHhcCCCCeEEEEEecCCC--CCceEEEEEeeccHHHHHHHHHHhcCCcEEEEeeec
Confidence 00 000 0111222333345678888765321 122456899999999999 66889999999999999
Q ss_pred CCCc---chhhhhCCCCc--ccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHHHhhhccCCcEE
Q 004385 460 SPID---LYPRLLNFHPV--VSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIV 534 (757)
Q Consensus 460 ~p~~---~~~~~Lg~~~~--~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~L 534 (757)
++.+ +|.+.||+++. ....++.+++..+...+++++ .++. ..++++++|...+++.|.+++..++||+|
T Consensus 683 ~~~~~f~~~~~~lGl~~~~~~~~~~~SpF~~~~q~~l~vp~-----d~p~-~~~~~~~~~~~~la~~i~~l~~~~~g~~L 756 (928)
T PRK08074 683 TVNGSFDYIIERLGLEDFYPRTLQIPSPFSYEEQAKLMIPT-----DMPP-IKDVPIEEYIEEVAAYIAKIAKATKGRML 756 (928)
T ss_pred ccCCCcHHHHHhcCCCCCCccEEEeCCCCCHHHhcEEEeec-----CCCC-CCCCChHHHHHHHHHHHHHHHHhCCCCEE
Confidence 9765 56788999742 223444444432222233443 1221 23455678999999999999999999999
Q ss_pred EEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCce
Q 004385 535 CFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGR 614 (757)
Q Consensus 535 v~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r 614 (757)
||||||++|++|++.|+.... .....++.|+.+..+...++++|++ ++++||||+ |+|||||||||+.++
T Consensus 757 VLFtSy~~l~~v~~~l~~~~~----~~~~~ll~Qg~~~~~r~~l~~~F~~----~~~~iLlG~--~sFwEGVD~pg~~l~ 826 (928)
T PRK08074 757 VLFTSYEMLKKTYYNLKNEEE----LEGYVLLAQGVSSGSRARLTKQFQQ----FDKAILLGT--SSFWEGIDIPGDELS 826 (928)
T ss_pred EEECCHHHHHHHHHHHhhccc----ccCceEEecCCCCCCHHHHHHHHHh----cCCeEEEec--CcccCccccCCCceE
Confidence 999999999999999976421 1113477776433467888999987 578999997 899999999999999
Q ss_pred EEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCcHH
Q 004385 615 LVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGW 694 (757)
Q Consensus 615 ~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD~R~~~~~~~~~lp~w 694 (757)
+|||+|||||+|+||.+++|.+|++++++.++.+|..|+|+++++||+||+||+++|+|+|+++|+|+.+++|++.++..
T Consensus 827 ~viI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~v~ilD~R~~~k~Yg~~~l~s 906 (928)
T PRK08074 827 CLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRGTVFVLDRRLTTTSYGKYFLES 906 (928)
T ss_pred EEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceEEEEEecCccccchHHHHHHHh
Confidence 99999999999999999999999999988778888889999999999999999999999999999999999997555554
Q ss_pred HHhhccccccCCCHHHHHHHHHHHH
Q 004385 695 ILSHLRDAHLNLSTDMALHIAREFL 719 (757)
Q Consensus 695 ~~~~~~~~~~~~~~~~~~~~~~~Ff 719 (757)
+.+ ... ...+.+++...++.|+
T Consensus 907 LP~-~~~--~~~~~~~~~~~~~~~~ 928 (928)
T PRK08074 907 LPT-VPV--YEGTLEELLEEVEEFL 928 (928)
T ss_pred CCC-CCc--ccCCHHHHHHHHHhhC
Confidence 432 111 2346788888888874
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=2.5e-76 Score=706.01 Aligned_cols=593 Identities=17% Similarity=0.225 Sum_probs=413.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH-HHHhh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-ELKLL 90 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~-el~~l 90 (757)
-.|++ ||+|.+||.+|.+++.+++++++|||||||||+|||+|++.++. .++ +|||+|+|+++|+|++. |++.+
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 34664 99999999999999999999999999999999999999999876 256 99999999999999987 78887
Q ss_pred hhhccccCCCccceEEEEecCCcc-cccchHHhhhcCcccHHHHH---HHhhhHHHHHhhhcCCC-CCC----CcCccch
Q 004385 91 HNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAAC---RKRTASWVRALAAENPN-IET----CEFFENY 161 (757)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~l~gr~~-lC~~~~~~~~~~~~~~~~~c---~~l~~~w~~~~~~~~~~-~~~----C~~~~~~ 161 (757)
.+. .+.++++++++||+| +|+.+......... .+..| +..+..|+.+|++||.+ ++. -.||+.+
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 543 245689999999999 89887655432211 11223 22345799999999864 211 1122222
Q ss_pred HHhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhH
Q 004385 162 EKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDN 241 (757)
Q Consensus 162 ~~~~~~~~~~~~~~~ie~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~ 241 (757)
. .+. |+.+.|+.++.|||+.+|+.++.||||||||+||+++.... ...+++..++||||||||++
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 HHHhhccccccHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHhcCCCccccccCCCCChhhhhhccCcch
Q 004385 242 VCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPNAWLSNPALPSDILKEAVPGNI 321 (757)
Q Consensus 242 ~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 321 (757)
+|+++++.+++...+..+.+.+..... ..+......+++....... ..+. .
T Consensus 455 ~a~~~~~~~ls~~~~~~~l~~l~~~~~----------~~l~~~l~~~~~~~~~~~~---~~~~------------~---- 505 (850)
T TIGR01407 455 IAENQLQEELDYADIKYQIDLIGKGEN----------EQLLKRIQQLEKQEILEKL---FDFE------------T---- 505 (850)
T ss_pred HHHHHhcceeCHHHHHHHHHHHHhhhh----------HHHHHHHHHHHHHHHHHHH---hhhh------------h----
Confidence 999999999999999887765532110 0111111111111100000 0000 0
Q ss_pred hchhhHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhccCCCccchhHhHHHH
Q 004385 322 RRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDF 401 (757)
Q Consensus 322 ~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~~~~~l~~~~~~~~~~l~~i~~f 401 (757)
......+..+.+.+...+. .+.+ +.... ...+......+. ..+..+.+
T Consensus 506 ---~~~~~~l~~~~~~l~~~l~--------------~~~~---~~~~~----~~~l~~~~~~~~-------~~~~~l~~- 553 (850)
T TIGR01407 506 ---KDILKDLQAILDKLNKLLQ--------------IFSE---LSHKT----VDQLRKFDLALK-------DDFKNIEQ- 553 (850)
T ss_pred ---hhHHHHHHHHHHHHHHHHH--------------HHHh---hhhhh----HHHHHHHHHHHH-------HHHHHHHH-
Confidence 0000011111111111000 0000 00000 001111111100 00111111
Q ss_pred HHHhcccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccc-hHHhhccCeEEEeccCCC---CCcchhhhhCCCCcccc
Q 004385 402 ATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFDRFQSVVITSGTLS---PIDLYPRLLNFHPVVSR 477 (757)
Q Consensus 402 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ld~s~~~-~~l~~~~~svIltSgTL~---p~~~~~~~Lg~~~~~~~ 477 (757)
++ .+.++.|++..... ......|+..|+|++..+ +.+|++++++|||||||+ |.++|.+.||++.....
T Consensus 554 --~~---~~~~~~wi~~~~~~--~~~~~~l~~~pl~~~~~l~~~~~~~~~~~il~SATL~~~~~~~~~~~~lGl~~~~~~ 626 (850)
T TIGR01407 554 --SL---KEGHTSWISIENLQ--QKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTSATLKFSHSFESFPQLLGLTDVHFN 626 (850)
T ss_pred --Hh---ccCCeEEEEecCCC--CCceEEEEeeeCcHHHHHHHHHhccCCeEEEEecccccCCChHHHHHhcCCCccccc
Confidence 11 22345677654321 112346899999999887 789999999999999999 55688999999754333
Q ss_pred cc-eeeec-cCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhccc
Q 004385 478 SF-KMSLT-RDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGI 555 (757)
Q Consensus 478 ~~-~~~~~-~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~ 555 (757)
.+ +.+++ .++.. ++++. .++. +.+++.++|...+++.|.+++...+|++|||||||+.|+++++.|.....
T Consensus 627 ~~~~spf~~~~~~~-l~v~~-----d~~~-~~~~~~~~~~~~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~~~ 699 (850)
T TIGR01407 627 TIEPTPLNYAENQR-VLIPT-----DAPA-IQNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHMVYDMLNELPE 699 (850)
T ss_pred eecCCCCCHHHcCE-EEecC-----CCCC-CCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhhcc
Confidence 33 34444 23333 33332 1221 23455678999999999999999999999999999999999999875321
Q ss_pred HHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHH
Q 004385 556 LKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARL 635 (757)
Q Consensus 556 ~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~ 635 (757)
.....++.|+.+ .++..++++|++ ++++||||+ |+|||||||+|+.+++|||+|||||+|+||.+++|.
T Consensus 700 ----~~~~~~l~q~~~-~~r~~ll~~F~~----~~~~iLlgt--~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~ 768 (850)
T TIGR01407 700 ----FEGYEVLAQGIN-GSRAKIKKRFNN----GEKAILLGT--SSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYW 768 (850)
T ss_pred ----ccCceEEecCCC-ccHHHHHHHHHh----CCCeEEEEc--ceeecccccCCCceEEEEEeCCCCCCCCCHHHHHHH
Confidence 112357877765 467888999986 678999997 899999999999999999999999999999999999
Q ss_pred HHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCcHHHHhhccccccCCCHHHHHHHH
Q 004385 636 EYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALHIA 715 (757)
Q Consensus 636 ~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~~~~~~ 715 (757)
++++++++.++.+|+.|+|+++++||+||+||+++|+|+|+++|+|+.+++|++.++.++.+..... ..+.++....+
T Consensus 769 ~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G~v~ilD~R~~~~~Yg~~~~~sLp~~~~~~--~~~~~~~~~~~ 846 (850)
T TIGR01407 769 QKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYGKRFEKSLPEYLQVK--GDILGELLEAI 846 (850)
T ss_pred HHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceEEEEEEccccccchHHHHHHHhCCCccccc--cCCHHHHHHHH
Confidence 9999887767777788999999999999999999999999999999999999888877776533321 23578888989
Q ss_pred HHHH
Q 004385 716 REFL 719 (757)
Q Consensus 716 ~~Ff 719 (757)
+.||
T Consensus 847 ~~~~ 850 (850)
T TIGR01407 847 KEFL 850 (850)
T ss_pred HhhC
Confidence 8885
No 8
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=2.5e-75 Score=685.80 Aligned_cols=615 Identities=25% Similarity=0.297 Sum_probs=408.6
Q ss_pred CeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHH
Q 004385 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 7 ~~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
...+.||+..+||.|++||.+|.+++.+++++++|||||||||++||+|++.|+... ++ +|||+|+|+.+|+|++++
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 456789999899999999999999999999999999999999999999999999876 46 999999999999999998
Q ss_pred HHhhhhhccccCCCccceEEEEecCCcc-cccchHHhhhcCcccHHHHHHH-------hhhHHHHHhhhcCCCC-CCCcC
Q 004385 87 LKLLHNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAACRK-------RTASWVRALAAENPNI-ETCEF 157 (757)
Q Consensus 87 l~~l~~~~~~~~~~~~~~~~~~l~gr~~-lC~~~~~~~~~~~~~~~~~c~~-------l~~~w~~~~~~~~~~~-~~C~~ 157 (757)
...+..... .....+..++||.| +|+.+.......+......|.. ....|+.++.+++.+. ..+..
T Consensus 83 ~~~~~~~~~-----~~~~~~~~~kgr~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (654)
T COG1199 83 DLPIHKLLK-----KLGGKFALLKGRSNYLCLSRLERLAQLGGDDDDYLQSLALKALADLLVWLTETKTGDLRELTPKAL 157 (654)
T ss_pred hcchhhhhh-----hhhhHHHHHhccccccchHHHHHHHHccCcchhHHhhhhHHHHHHHHHHhhcCCCCChhhcccccc
Confidence 766533321 12224578999999 6666555322222222333332 1346888877766431 11221
Q ss_pred ccchHHhhhcCCCCCCCCCHH-HHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCC
Q 004385 158 FENYEKAASAAVLPPGVYTLQ-DLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEA 236 (757)
Q Consensus 158 ~~~~~~~~~~~~~~~~~~~ie-~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEA 236 (757)
...... ....+.. +....|+.+..|||+.+|+.++.||+||+||++++.....+.....+|++.++|||||
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 0111111 2235699999999999999999999999999999977654432221578999999999
Q ss_pred cChhHHHHhhccccccHHHHHHHHHHHHHHHHHHHHhhhhchHHHH---HHHHHHHHHHHhcCCCccccccCCCCChhhh
Q 004385 237 HNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLR---AEYNRLVEGLALRGNLPNAWLSNPALPSDIL 313 (757)
Q Consensus 237 Hnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~---~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~ 313 (757)
|||++.|++++|..++...|..+..++..+...... +...+. ..+...++.+...... .........
T Consensus 230 H~l~d~a~~~~s~~l~~~~L~~~~~~~~~~~~~~~~----~~~~~~~~~~~L~~~~~~~~~~~~~------~~~~~~~~~ 299 (654)
T COG1199 230 HNLPDIARSALSIRLSERTLERLLKEIQALGETLEK----DLKRLEDLADRLEKALEDLRELLIF------DVDELGNLR 299 (654)
T ss_pred ccchHHHHHHHHHHhhHHHHHHHHHHHHHhhhhhhh----hHHHHHhhHHHHHHHHHHHHHHHhc------chhhhhhHH
Confidence 999999999999999999999998887776521110 001111 1112222222110000 000000000
Q ss_pred hhccCcchhchhhHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhccCCCccc
Q 004385 314 KEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFL 393 (757)
Q Consensus 314 ~~~~~~~i~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~~~~~l~~~~~~~~~ 393 (757)
+...... ..+.....+..+.+.+...++ ....+...... ..+. ......++...+..
T Consensus 300 -~~~~~~~-~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~--~~d~--~~~~~~~~~~~~~~---------- 356 (654)
T COG1199 300 -ERLREQL-SSEEAKEALGKLEEALLEKLK-------NLSELLGLSQN--ELDR--PTSILERLKEELDR---------- 356 (654)
T ss_pred -Hhccccc-hhhHHHHHHHHHHHHHHHHHH-------HHHHHHHhhhh--hccc--hhHHHHHHHHHHHH----------
Confidence 0000000 000000000000000000000 00000000000 0000 00001111111100
Q ss_pred hhHhHHHHHH--HhcccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCeEEEeccCCCCCcchhhhhCC
Q 004385 394 HIQTICDFAT--LVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNF 471 (757)
Q Consensus 394 ~l~~i~~f~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ld~s~~~~~l~~~~~svIltSgTL~p~~~~~~~Lg~ 471 (757)
+.. .......++..|++..+... ...+...|++|+...+++|++++++|||||||+|.++|...+|+
T Consensus 357 -------~~~~~~~~~~~~~~~~w~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~vl~SaTL~~~~~f~~~~~~ 425 (654)
T COG1199 357 -------LLSRELLLSDDPDYSYWLEIEEREG----VLLLVLPLLVPSKLLEELFSKVASVVLTSATLSPLDSFSSLLGL 425 (654)
T ss_pred -------HHhhcccccCCCCceEEEEeccccc----ceeEEeecccHHHHHHHHHhhcCcEEEeeeeccCCCcHHHHHHH
Confidence 000 00122346788888765321 11356677778777799999999999999999999999988876
Q ss_pred CCccccc----ceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHH
Q 004385 472 HPVVSRS----FKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEII 547 (757)
Q Consensus 472 ~~~~~~~----~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~ 547 (757)
....... .+.+++.... . ...+++.|..++++++...++..|.++++..|||+|||||||++|+.++
T Consensus 426 ~~~~~~~~~~~~~spf~~~~~--~-------~~~v~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~lvlF~Sy~~l~~~~ 496 (654)
T COG1199 426 LGLEEKLRFLSLPSPFNYEEQ--G-------QLYVPTDLPEPREPELLAKLAAYLREILKASPGGVLVLFPSYEYLKRVA 496 (654)
T ss_pred cCCccccceeccCCCCChhhc--c-------eEeccccCCCCCChHHHHHHHHHHHHHHhhcCCCEEEEeccHHHHHHHH
Confidence 5432211 1111111110 0 1234555666666789999999999999999999999999999999999
Q ss_pred HHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccC
Q 004385 548 ATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTL 627 (757)
Q Consensus 548 ~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~ 627 (757)
+.|+..... ..++.|+ ..+.+.++++|++. +++ +++|++|+|||||||+|+.+++|||+|||||+|+
T Consensus 497 ~~~~~~~~~------~~v~~q~--~~~~~~~l~~f~~~---~~~--~~lv~~gsf~EGVD~~g~~l~~vvI~~lPfp~p~ 563 (654)
T COG1199 497 ERLKDERST------LPVLTQG--EDEREELLEKFKAS---GEG--LILVGGGSFWEGVDFPGDALRLVVIVGLPFPNPD 563 (654)
T ss_pred HHHhhcCcc------ceeeecC--CCcHHHHHHHHHHh---cCC--eEEEeeccccCcccCCCCCeeEEEEEecCCCCCC
Confidence 999875321 2355444 44567899999985 333 5666789999999999999999999999999999
Q ss_pred cHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCcHHHHhhccccc
Q 004385 628 SKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAH 703 (757)
Q Consensus 628 dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD~R~~~~~~~~~lp~w~~~~~~~~~ 703 (757)
||.+++|.++.++.++.++.+||.++|+++++||+||+|||++|+|+|+|+|+||.+++|+..||.|+.+..+...
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 9999999999999998889999999999999999999999999999999999999999999999999998777654
No 9
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=2.5e-73 Score=669.94 Aligned_cols=564 Identities=15% Similarity=0.177 Sum_probs=392.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHH-HHHHhhhh
Q 004385 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL-AELKLLHN 92 (757)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~-~el~~l~~ 92 (757)
|+. ||+|.+||.+|.++|.+++++++|||||||||+|||+|++.++ .+. +|||+|+|+.+|+|++ ++++.+.+
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-RPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS----DQR-QIIVSVPTKILQDQIMAEEVKAIQE 317 (820)
T ss_pred Ccc-CHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc----CCC-cEEEEeCcHHHHHHHHHHHHHHHHH
Confidence 775 9999999999999999999999999999999999999988754 145 8999999999999997 47887754
Q ss_pred hccccCCCccceEEEEecCCcc-cccchHHhhhc--CcccHHHHHHHhhhHHHHHhhhcCCCCCCCc-------CccchH
Q 004385 93 YQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAE--NRDSVDAACRKRTASWVRALAAENPNIETCE-------FFENYE 162 (757)
Q Consensus 93 ~~~~~~~~~~~~~~~~l~gr~~-lC~~~~~~~~~--~~~~~~~~c~~l~~~w~~~~~~~~~~~~~C~-------~~~~~~ 162 (757)
+ .++++..++|+.| +|++++...+. ............+..|+.+|++||.+ .++ ||+.+.
T Consensus 318 ~--------~~~~~~~~kg~~~ylcl~k~~~~l~~~~~~~~~~~~~~~il~Wl~~T~tGD~~--El~~~~~~~~~w~~i~ 387 (820)
T PRK07246 318 V--------FHIDCHSLKGPQNYLKLDAFYDSLQQNDDNRLVNRYKMQLLVWLTETETGDLD--EIKQKQRYAAYFDQLK 387 (820)
T ss_pred h--------cCCcEEEEECCcccccHHHHHHHhhccCcchHHHHHHHHHHHHHhcCCCCCHh--hccCCccccHHHHHhh
Confidence 3 3456778999999 99998765432 11111222333445699999999864 333 232221
Q ss_pred HhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhHH
Q 004385 163 KAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNV 242 (757)
Q Consensus 163 ~~~~~~~~~~~~~~ie~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~~ 242 (757)
. + .++...|+.++.|+|+.+|+.++.|||||+||+||+.....+ ..+|+.+++||||||||+++
T Consensus 388 ~------------~-~~~~~~cp~~~~cf~~~ar~~a~~AdivItNHall~~~~~~~---~~~p~~~~lIiDEAH~l~~~ 451 (820)
T PRK07246 388 H------------D-GNLSQSSLFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDD---KDFARNKVLVFDEAQKLMLQ 451 (820)
T ss_pred c------------c-CCCCCCCCcchhhHHHHHHHHHHhCCEEEEchHHHHHHHhhc---cCCCCCCEEEEECcchhHHH
Confidence 1 1 113346999999999999999999999999999999755332 23688999999999999999
Q ss_pred HHhhccccccHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHhcCCCccccccCCCCChhhhhhccCcchh
Q 004385 243 CIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPNAWLSNPALPSDILKEAVPGNIR 322 (757)
Q Consensus 243 ~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ 322 (757)
+.+..+..++...+...+..+ ..... ..+. ...++.+.
T Consensus 452 ~~~~~~~~~~~~~~~~~l~~~---~~~~~-------~~~~---~~~~~~~~----------------------------- 489 (820)
T PRK07246 452 LEQLSRHQLNITSFLQTIQKA---LSGPL-------PLLQ---KRLLESIS----------------------------- 489 (820)
T ss_pred HHHHhcceecHHHHHHHHHHH---HHHHH-------HHHh---hhhHHHHH-----------------------------
Confidence 887776667766665433211 00000 0000 00001100
Q ss_pred chhhHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhccCCCccchhHhHHHHH
Q 004385 323 RAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFA 402 (757)
Q Consensus 323 ~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~~~~~l~~~~~~~~~~l~~i~~f~ 402 (757)
..+.++...+.... ........ ..++...++.+.. .....+.
T Consensus 490 ------~~~~~~~~~~~~~~--------~~~~~~~~---------------l~~l~~~l~~l~~---------~~~~~~~ 531 (820)
T PRK07246 490 ------FELLQLSEQFYQGK--------ERQLIHDS---------------LSRLHQYFSELEV---------AGFQELQ 531 (820)
T ss_pred ------HHHHHHHHHHHhhh--------hhHHHHHH---------------HHHHHHHHHHHHH---------HHHHHHH
Confidence 00000000000000 00000000 0111111111110 0000111
Q ss_pred HHhcccCCCeEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCeEEEeccCCCCC--cchhhhhCCCCcccccce
Q 004385 403 TLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPI--DLYPRLLNFHPVVSRSFK 480 (757)
Q Consensus 403 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ld~s~~~~~l~~~~~svIltSgTL~p~--~~~~~~Lg~~~~~~~~~~ 480 (757)
.++.. .+ .++|++..... ......|+..|++++. ++.+|++.+++|||||||+.. -+|.+.||++.....+.+
T Consensus 532 ~~~~~-~~-~~~W~e~~~~~--~~~~~~l~~~pl~v~~-~~~~~~~~~~~i~tSATL~v~~~f~~~~~lGl~~~~~~~~~ 606 (820)
T PRK07246 532 AFFAT-AE-GDYWLESEKQS--EKRVTYLNSASKAFTH-FSQLLPETCKTYFVSATLQISPRVSLADLLGFEEYLFHKIE 606 (820)
T ss_pred HHHhC-CC-CeEEEEecCCC--CcceeEEEeeeCcHHH-HHHHHhcCCeEEEEecccccCCCCcHHHHcCCCccceecCC
Confidence 11111 11 25677764321 1112358999999985 599999999999999999743 368889999754444444
Q ss_pred eeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHh
Q 004385 481 MSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIM 560 (757)
Q Consensus 481 ~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~ 560 (757)
++.+++.. ++++. .++.+ ...++++|...+++.|.+++ .++|++|||||||+.|+++++.+...
T Consensus 607 ~~~~~~~~--~~i~~-----~~p~~-~~~~~~~~~~~~~~~i~~~~-~~~g~~LVLFtS~~~l~~v~~~l~~~------- 670 (820)
T PRK07246 607 KDKKQDQL--VVVDQ-----DMPLV-TETSDEVYAEEIAKRLEELK-QLQQPILVLFNSKKHLLAVSDLLDQW------- 670 (820)
T ss_pred CChHHccE--EEeCC-----CCCCC-CCCChHHHHHHHHHHHHHHH-hcCCCEEEEECcHHHHHHHHHHHhhc-------
Confidence 44443332 33332 12222 22346789899999999988 78999999999999999999988642
Q ss_pred cCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHH
Q 004385 561 QHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRD 640 (757)
Q Consensus 561 ~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~ 640 (757)
..++++|+.+. +...++++|++ ++++||||+ |||||||||||+.+.+|||+|||||+|+||.+++|.+++++
T Consensus 671 -~~~~l~Qg~~~-~~~~l~~~F~~----~~~~vLlG~--~sFwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~ 742 (820)
T PRK07246 671 -QVSHLAQEKNG-TAYNIKKRFDR----GEQQILLGL--GSFWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQ 742 (820)
T ss_pred -CCcEEEeCCCc-cHHHHHHHHHc----CCCeEEEec--chhhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHH
Confidence 14578888654 45668888986 578999999 89999999999888889999999999999999999999999
Q ss_pred hcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEEeecccCCccccCCCcHHHHhhccccccCCCHHHHHHHHHHHHH
Q 004385 641 TFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSRHDKRSKLPGWILSHLRDAHLNLSTDMALHIAREFLR 720 (757)
Q Consensus 641 ~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD~R~~~~~~~~~lp~w~~~~~~~~~~~~~~~~~~~~~~~Ff~ 720 (757)
+++.++.+|..|+|+++++||+||+||+++|+|+|+++|+|+.+++|++.+..++.+.+... ..+.++..+.++.||.
T Consensus 743 ~g~~~F~~~~lP~A~iklkQg~GRLIRs~~D~Gvv~ilD~R~~~k~Yg~~~l~sLP~~~~~~--~~~~~~~~~~~~~f~~ 820 (820)
T PRK07246 743 EGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSAVLILDRRILTKSYGKQILASLAEEFLIS--QQNFSDVLVEIDRFLI 820 (820)
T ss_pred hCCCchhheeHHHHHHHHHHHhcccccCCCCcEEEEEECCcccccHHHHHHHHhCCCCCccc--cCCHHHHHHHHHHhhC
Confidence 88777778888999999999999999999999999999999999999877777776543332 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=2.7e-68 Score=599.51 Aligned_cols=564 Identities=15% Similarity=0.115 Sum_probs=373.6
Q ss_pred HHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh-hhccccC
Q 004385 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH-NYQTRHL 98 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~-~~~~~~~ 98 (757)
+|.+||.+|++++.+++++++|||||||||+|||+|++.|+.... ++ ||+|+|+|++||+|++++++.+. +.
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 004385 99 GPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAACRKRTASWVRALA----------------------AENPNIETC 155 (757)
Q Consensus 99 ~~~~~~~~~~l~gr~~-lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~----------------------~~~~~~~~C 155 (757)
.+.++++++++||+| +|+++.......... +. ...+..|+.+|+ +||.+ ..|
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 223457999884 33322 112
Q ss_pred cCccchHHhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhc---cccCeEEEecCccccCHHHHhHhhhccCCCcEEE
Q 004385 156 EFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHM---VQFANVVVYSYQYLLDPKVAGIISKEMQKESVVV 232 (757)
Q Consensus 156 ~~~~~~~~~~~~~~~~~~~~~ie~l~~~~~~~~~CpY~~ar~~---~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI 232 (757)
...+. . ..-++...|.. ..|+|+.+|+. ++.|||||+||+||+.. .++.. ..+|+.++||
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 99999999999999963 33322 3578899999
Q ss_pred EcCCcChhHHHHhhccccccHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHhcCCCccccccCCCCChhh
Q 004385 233 FDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPNAWLSNPALPSDI 312 (757)
Q Consensus 233 ~DEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~ 312 (757)
|||||||++++.++++.+++...+...++.+....... .. ..........++.++.... +..
T Consensus 212 iDEAH~L~d~A~~~~g~~ls~~~l~~~l~~l~~~~~~~--~~----~~~~~~~~~~~~~l~~~~~-----~~~------- 273 (636)
T TIGR03117 212 VDEAHLFEQNISRVYSNALSLRRLHLYVEKRHTGAGKG--IV----SAAVAAVSHCIQRLRALDV-----FGD------- 273 (636)
T ss_pred EeCCcchHHHHHHHhccEECHHHHHHHHHHHhhcccch--hH----HHHHHHHHHHHHHHHhhhc-----ccc-------
Confidence 99999999999999999999998888776442110000 00 0111122333333322000 000
Q ss_pred hhhccCcchhchhhHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhccCCCcc
Q 004385 313 LKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEF 392 (757)
Q Consensus 313 ~~~~~~~~i~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~~~~~l~~~~~~~~ 392 (757)
+.+.........+.++...+...+.. +.... .......+..|+..+.+.+..
T Consensus 274 ------~~~~~~~~~~~~l~~l~~~L~~l~~~-----------l~~~~-----~~~~~~~~~~rl~~~~~~~~~------ 325 (636)
T TIGR03117 274 ------GQTLCLDAGNKELETLFADLDAALDA-----------CSVGR-----NRDENKKALSVVKDVKKARFI------ 325 (636)
T ss_pred ------cccccHHHHHHHHHHHHHHHHHHHHH-----------Hhhcc-----cchHHHHHHHHHHHHHHHHHH------
Confidence 00000011111111111111111000 00000 001112234455554433221
Q ss_pred chhHhHHHHHHHhcc--cCCCeEEEEecCCCCCCCCCCCeEEEEecCccccchH-HhhccCeEEEeccCCCCC-------
Q 004385 393 LHIQTICDFATLVGT--YTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKP-VFDRFQSVVITSGTLSPI------- 462 (757)
Q Consensus 393 ~~l~~i~~f~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~~ld~s~~~~~-l~~~~~svIltSgTL~p~------- 462 (757)
|...... ....+++|+++.. ....|+..|++++..|+. +++..+++|||||||+..
T Consensus 326 --------~~~~~~~~~~~~~~~~~~~~~~------~~~~L~~~Pl~va~~l~~~~~~~~~~~I~TSATL~v~~~~~~~~ 391 (636)
T TIGR03117 326 --------LDNAITAIQGKASAVLQFSPDR------RFPSLIVGREDLGKVMGGLWKDVTHGAIIVSATLYLPDRFGQMS 391 (636)
T ss_pred --------HhhhccccccccceEEEEecCC------CceEEEEecccHHHHHHHHHhcCCCeEEEEccccccCCcCCCcC
Confidence 1110001 1125788887643 134799999999999955 556677999999999984
Q ss_pred -cchhhhhCCCCcccccceeeec----cCceeeeEEecC-CCCccceec--cccC-C---ChHHHHHHHHHHHHhhhccC
Q 004385 463 -DLYPRLLNFHPVVSRSFKMSLT----RDCICPMVLTRG-SDQLPVSTK--FDMR-S---DPGVARNYGKLLVEMVSIVP 530 (757)
Q Consensus 463 -~~~~~~Lg~~~~~~~~~~~~~~----~~~~~~~vi~~g-~~~~~l~s~--f~~r-~---~~~~~~~~~~~l~~~~~~~~ 530 (757)
++|++.||++.. ....+.+|+ ++.+..++++.. +...+-+.. +... . .+.|...+++.|.+++....
T Consensus 392 F~~f~~~lGL~~~-~l~~~SPFd~~y~~qa~~~LyvP~~~~~~lP~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 470 (636)
T TIGR03117 392 CDYLKRVLSLPLS-RLDTPSPIVAPWVRNAIPHLHVPNAKARFLRPVGKDEQGDANLQEAERTWLENVSLSTAAILRKAQ 470 (636)
T ss_pred cHHHHHhcCCCcc-ceeCCCCCCchhHhcCceEEEEcCccccCCCCCCCCcccchhhhcchhhHHHHHHHHHHHHHHHcC
Confidence 468889999643 333333333 555333445532 011111111 1111 0 25578889999999999999
Q ss_pred CcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccC--
Q 004385 531 DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF-- 608 (757)
Q Consensus 531 gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf-- 608 (757)
||+||+||||+.|+.+++.+... + .-++++|+.+ .....++++|++.++.+.++||||+ ++||||||+
T Consensus 471 G~~lvLfTS~~~~~~~~~~l~~~-----l--~~~~l~qg~~-~~~~~l~~~f~~~~~~~~~~vL~gt--~sfweGvDv~~ 540 (636)
T TIGR03117 471 GGTLVLTTAFSHISAIGQLVELG-----I--PAEIVIQSEK-NRLASAEQQFLALYANGIQPVLIAA--GGAWTGIDLTH 540 (636)
T ss_pred CCEEEEechHHHHHHHHHHHHhh-----c--CCCEEEeCCC-ccHHHHHHHHHHhhcCCCCcEEEeC--CccccccccCC
Confidence 99999999999999999988653 2 1458998854 2457789999997777778999999 699999999
Q ss_pred ------CCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCC--eeEEEEeec
Q 004385 609 ------DRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKAD--YGMMIFADK 680 (757)
Q Consensus 609 ------~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D--~G~villD~ 680 (757)
+|++|++|||++||||+ +||. +|.++++++++..+. ..|+|+.+++||+|||||+++| +|+|+++|+
T Consensus 541 ~~~~p~~G~~Ls~ViI~kLPF~~-~dp~--a~~~~~~~~g~~~f~--~~p~a~i~lkQg~GRLIR~~~D~~~G~i~ilD~ 615 (636)
T TIGR03117 541 KPVSPDKDNLLTDLIITCAPFGL-NRSL--SMLKRIRKTSVRPWE--IINESLMMLRQGLGRLVRHPDMPQNRRIHMLDG 615 (636)
T ss_pred ccCCCCCCCcccEEEEEeCCCCc-CChH--HHHHHHHhcCCChHh--hhHHHHHHHHHhcCceeecCCCcCceEEEEEeC
Confidence 79999999999999995 6886 888999988664333 4689999999999999999999 999999999
Q ss_pred ccCCccccC
Q 004385 681 RYSRHDKRS 689 (757)
Q Consensus 681 R~~~~~~~~ 689 (757)
| .++.|+.
T Consensus 616 R-~~~~yg~ 623 (636)
T TIGR03117 616 R-IHWPYME 623 (636)
T ss_pred C-CCchhHH
Confidence 9 5655654
No 11
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=100.00 E-value=2.6e-48 Score=407.40 Aligned_cols=262 Identities=48% Similarity=0.782 Sum_probs=211.7
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCC--CcEEEEEccchhhHHHHHHH
Q 004385 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~--~~kvi~~T~T~~l~~Q~~~e 86 (757)
+|.|||++ ||+|.+||.+|++++.+++++++|||||||||++||+|+++|+...+.. ..||+|+|+|+++++|++.+
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 12899999999999999999
Q ss_pred HHhhhhh---------------ccccCCCccceEEEEecCCcccccchHHhhhcCc-ccHHHHHHHhhhHHHHHhhhcCC
Q 004385 87 LKLLHNY---------------QTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENR-DSVDAACRKRTASWVRALAAENP 150 (757)
Q Consensus 87 l~~l~~~---------------~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~-~~~~~~c~~l~~~w~~~~~~~~~ 150 (757)
++++... ....-..+.++++++|+||+|+|+++.+...... ...++.|..+...|...+.....
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 9886310 0000001456889999999999999988754322 23347899888777665421112
Q ss_pred CCCCCcCccchHHhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcE
Q 004385 151 NIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (757)
Q Consensus 151 ~~~~C~~~~~~~~~~~~~~~~~~~~~ie~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~i 230 (757)
+...|+|+++............+++|+|++.+.|..++.|||+.+|+.+.+|||||+||+|||++.+++.++..+ ++.+
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 346899998764322122344678999999999999999999999999999999999999999999877665555 6999
Q ss_pred EEEcCCcChhHHHHhhccccccHHHHHHHHHHHHHHHHHHHH
Q 004385 231 VVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIER 272 (757)
Q Consensus 231 lI~DEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~ 272 (757)
|||||||||+++|++++|.+|+...|..+.+++.++...+.+
T Consensus 240 lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~ 281 (289)
T smart00489 240 VIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERIEK 281 (289)
T ss_pred EEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999988887654443
No 12
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=100.00 E-value=2.6e-48 Score=407.40 Aligned_cols=262 Identities=48% Similarity=0.782 Sum_probs=211.7
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCC--CcEEEEEccchhhHHHHHHH
Q 004385 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~--~~kvi~~T~T~~l~~Q~~~e 86 (757)
+|.|||++ ||+|.+||.+|++++.+++++++|||||||||++||+|+++|+...+.. ..||+|+|+|+++++|++.+
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 12899999999999999999
Q ss_pred HHhhhhh---------------ccccCCCccceEEEEecCCcccccchHHhhhcCc-ccHHHHHHHhhhHHHHHhhhcCC
Q 004385 87 LKLLHNY---------------QTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENR-DSVDAACRKRTASWVRALAAENP 150 (757)
Q Consensus 87 l~~l~~~---------------~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~-~~~~~~c~~l~~~w~~~~~~~~~ 150 (757)
++++... ....-..+.++++++|+||+|+|+++.+...... ...++.|..+...|...+.....
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 9886310 0000001456889999999999999988754322 23347899888777665421112
Q ss_pred CCCCCcCccchHHhhhcCCCCCCCCCHHHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcE
Q 004385 151 NIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (757)
Q Consensus 151 ~~~~C~~~~~~~~~~~~~~~~~~~~~ie~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~i 230 (757)
+...|+|+++............+++|+|++.+.|..++.|||+.+|+.+.+|||||+||+|||++.+++.++..+ ++.+
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 346899998764322122344678999999999999999999999999999999999999999999877665555 6999
Q ss_pred EEEcCCcChhHHHHhhccccccHHHHHHHHHHHHHHHHHHHH
Q 004385 231 VVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIER 272 (757)
Q Consensus 231 lI~DEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~ 272 (757)
|||||||||+++|++++|.+|+...|..+.+++.++...+.+
T Consensus 240 lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~ 281 (289)
T smart00488 240 VIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERIEK 281 (289)
T ss_pred EEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999988887654443
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=2.8e-41 Score=326.40 Aligned_cols=166 Identities=31% Similarity=0.571 Sum_probs=135.6
Q ss_pred HHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCc
Q 004385 522 LVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGK 601 (757)
Q Consensus 522 l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~ 601 (757)
|.++++.+|||+|||||||+.|+.+.+.|++... .....+|.|+ ..+...++++|++ ++++|||||+||+
T Consensus 1 i~~l~~~~~g~~lv~f~Sy~~l~~~~~~~~~~~~----~~~~~v~~q~--~~~~~~~l~~~~~----~~~~il~~v~~g~ 70 (167)
T PF13307_consen 1 ILELISAVPGGVLVFFPSYRRLEKVYERLKERLE----EKGIPVFVQG--SKSRDELLEEFKR----GEGAILLAVAGGS 70 (167)
T ss_dssp HHHHHHCCSSEEEEEESSHHHHHHHHTT-TSS-E-----ETSCEEEST--CCHHHHHHHHHCC----SSSEEEEEETTSC
T ss_pred ChHHHhcCCCCEEEEeCCHHHHHHHHHHHHhhcc----cccceeeecC--cchHHHHHHHHHh----ccCeEEEEEeccc
Confidence 5678999999999999999999999999987642 1234689885 3467888999987 6889999999999
Q ss_pred ccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEEeecc
Q 004385 602 VAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKR 681 (757)
Q Consensus 602 ~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD~R 681 (757)
+||||||+|+.||+|||+|||||+|+||.+++|++|++++++..+.+||.++|+++++||+||+|||++|||+|+|+|+|
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 99999999999999999999999999999999999999998888899999999999999999999999999999999999
Q ss_pred cCCccccCCCcHHHHh
Q 004385 682 YSRHDKRSKLPGWILS 697 (757)
Q Consensus 682 ~~~~~~~~~lp~w~~~ 697 (757)
|.++.|++.||+|+++
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=4.8e-36 Score=279.63 Aligned_cols=141 Identities=47% Similarity=0.810 Sum_probs=127.7
Q ss_pred hHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEe
Q 004385 540 YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMF 619 (757)
Q Consensus 540 y~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~ 619 (757)
|++|+++++.|++.+.+ ...++||+|+++..+.+.++++|++.++.+ |+|||||+||+|||||||+|+.||+|||+
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 78999999999987653 235789999998777778999999876555 89999999999999999999999999999
Q ss_pred ccCCcccCcHHHHHHHHHHHHhc-CCCccchhHHHHHHHHHHhcccccccCCCeeEEEEeecccCC
Q 004385 620 GVPFQYTLSKILLARLEYLRDTF-QIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSR 684 (757)
Q Consensus 620 glPfp~~~dp~~~~r~~~l~~~~-~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD~R~~~ 684 (757)
|||||+|+||.+++|++|+++.+ ...+.+||.++|+++++||+||+|||++|||+|+|+|+||.+
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 566778899999999999999999999999999999999863
No 15
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=100.00 E-value=2.3e-33 Score=260.94 Aligned_cols=140 Identities=41% Similarity=0.691 Sum_probs=126.6
Q ss_pred hHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEe
Q 004385 540 YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMF 619 (757)
Q Consensus 540 y~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~ 619 (757)
|++|+++++.|++.+.+.++.++++||+|+++..+.+.++++|++. ++++|||||+ ++||||||+|+.||+|||+
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 7899999999999999999998999999998876778899999985 3348999997 4999999999999999999
Q ss_pred ccCCcccCcHHHHHHHHHHHHhc-CCCccchhHHHHHHHHHHhcccccccCCCeeEEEEeecccCC
Q 004385 620 GVPFQYTLSKILLARLEYLRDTF-QIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFADKRYSR 684 (757)
Q Consensus 620 glPfp~~~dp~~~~r~~~l~~~~-~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD~R~~~ 684 (757)
|||||+|+||.+++|++|+++.+ ..++..++.++|+++++||+||+|||++|||+|+|+|+||..
T Consensus 76 glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~l~D~R~~~ 141 (141)
T smart00492 76 GLPFPYPDSPILKARLELLRDKGQIRPFDFVSLPDAMRTLAQCVGRLIRGANDYGVVVIADKRFAR 141 (141)
T ss_pred ecCCCCCCCHHHHHHHHHHHHhCCCCchhHHHHHHHHHHHHHHhCccccCcCceEEEEEEeccccC
Confidence 99999999999999999999886 444555677999999999999999999999999999999863
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=5.9e-32 Score=263.97 Aligned_cols=173 Identities=31% Similarity=0.663 Sum_probs=130.1
Q ss_pred EEccchhhHHHHHHHHHhhhhhccccCCCccceEEEEecCCcccccchHHhhhcCcccHHHHHHHhhhHHHHHhhhcCCC
Q 004385 72 YCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPN 151 (757)
Q Consensus 72 ~~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~~ 151 (757)
|+||||+|++|+++||+++..+.+. +.++++++|+||+++|+++.+.....++.+++.|..+...|...
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 45689999999999999998887655677888999887544221
Q ss_pred CCCCcCccchHHhhh-cCCCCCCCCCHHHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcE
Q 004385 152 IETCEFFENYEKAAS-AAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (757)
Q Consensus 152 ~~~C~~~~~~~~~~~-~~~~~~~~~~ie~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~i 230 (757)
..|+||.+...... .......++|++++++.|+..+.||||.+|+.+..|||||+||+|||+|.++..+....+++.+
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 47999986522111 1133457899999999999999999999999999999999999999999988766422357899
Q ss_pred EEEcCCcChhHHHHhhccccccHHHH
Q 004385 231 VVFDEAHNIDNVCIEALSVSVRRQTL 256 (757)
Q Consensus 231 lI~DEAHnl~~~~~~~~s~~is~~~l 256 (757)
|||||||||+++|++++|++|+..+|
T Consensus 149 vI~DEAHNL~~~~~~~~s~~is~~~L 174 (174)
T PF06733_consen 149 VIFDEAHNLEDAARDSFSFSISESQL 174 (174)
T ss_dssp EEETTGGGCGGGCHCCC-EEEEHHHH
T ss_pred EEEecccchHHHHHHHhcceechhhC
Confidence 99999999999999999999998765
No 17
>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=99.82 E-value=8e-20 Score=165.63 Aligned_cols=142 Identities=56% Similarity=0.883 Sum_probs=131.6
Q ss_pred HHHhhhhchHHHHHHHHHHHHHHHhcCCCc--cccccCCCCChhhhhhccCcchhchhhHHHHHHHHHHHHHhhhhcccc
Q 004385 270 IERFKATDAGRLRAEYNRLVEGLALRGNLP--NAWLSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENV 347 (757)
Q Consensus 270 ~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~l~~~~~~~~~ 347 (757)
+++++..|.++|+++|++|+++|+..+... +.++.+|.+|++++++++||+||++++|+.++++++++++.+++..++
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 344566788899999999999999876543 678999999999999999999999999999999999999999999999
Q ss_pred cccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhccCCCccchhHhHHHHHHHhcccCCC
Q 004385 348 EKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVGTYTRG 411 (757)
Q Consensus 348 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~rl~~~~~~l~~~~~~~~~~l~~i~~f~~~~~~~~~~ 411 (757)
..++|.+|++.+.+..+++.+++++|.+||++++++|++.+.++|++|..+++|++++++|.+|
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 9999999999999999999999999999999999999999999999999999999999988764
No 18
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.71 E-value=2.8e-15 Score=168.45 Aligned_cols=76 Identities=24% Similarity=0.189 Sum_probs=62.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC---CCCcEEEEEccchhhHHHHHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---ENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~---~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
..|..|+|.|.+.+..+. +++++++.||||+|||++|++|++.+....+ .+..+++|.++|.++..|+.+.+.
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 678888999999877665 5788999999999999999999998764321 122389999999999999999888
Q ss_pred hhh
Q 004385 89 LLH 91 (757)
Q Consensus 89 ~l~ 91 (757)
.+.
T Consensus 95 ~l~ 97 (434)
T PRK11192 95 ELA 97 (434)
T ss_pred HHH
Confidence 764
No 19
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.68 E-value=1.3e-14 Score=164.04 Aligned_cols=75 Identities=19% Similarity=0.159 Sum_probs=63.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
..|..|+|.|.+.+..+. +++++++.||||||||++|++|++.......... +++|.+||.++..|+.++++++.
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 578878999999877655 6889999999999999999999988765433234 79999999999999999998864
No 20
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.68 E-value=1.4e-14 Score=163.38 Aligned_cols=76 Identities=17% Similarity=0.172 Sum_probs=62.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCC-----CCcEEEEEccchhhHHHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-----NPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~-----~~~kvi~~T~T~~l~~Q~~~e 86 (757)
+.|..|+|.|.+.+..+. +++++++.||||+|||++|++|++........ ...+++|.++|.+|..|+.++
T Consensus 19 ~g~~~pt~iQ~~ai~~il----~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~ 94 (456)
T PRK10590 19 QGYREPTPIQQQAIPAVL----EGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGEN 94 (456)
T ss_pred CCCCCCCHHHHHHHHHHh----CCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHH
Confidence 577778999999877655 57899999999999999999999877643211 122799999999999999999
Q ss_pred HHhhh
Q 004385 87 LKLLH 91 (757)
Q Consensus 87 l~~l~ 91 (757)
++.+.
T Consensus 95 ~~~~~ 99 (456)
T PRK10590 95 VRDYS 99 (456)
T ss_pred HHHHh
Confidence 88764
No 21
>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=161.69 Aligned_cols=70 Identities=20% Similarity=0.291 Sum_probs=59.7
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.-.|+|..+||.|.+.+..+. +++++++.||||+|||++|++|++.. ++ .++|.+||.+|+.|.++.+.
T Consensus 4 ~~~~g~~~~r~~Q~~ai~~~l----~g~dvlv~apTGsGKTl~y~lp~l~~------~~-~~lVi~P~~~L~~dq~~~l~ 72 (470)
T TIGR00614 4 KTVFGLSSFRPVQLEVINAVL----LGRDCFVVMPTGGGKSLCYQLPALCS------DG-ITLVISPLISLMEDQVLQLK 72 (470)
T ss_pred HhhcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCCcHhHHHHHHHHHc------CC-cEEEEecHHHHHHHHHHHHH
Confidence 457999999999999877665 57899999999999999999998742 35 78999999999999888776
Q ss_pred h
Q 004385 89 L 89 (757)
Q Consensus 89 ~ 89 (757)
.
T Consensus 73 ~ 73 (470)
T TIGR00614 73 A 73 (470)
T ss_pred H
Confidence 4
No 22
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.67 E-value=1.2e-14 Score=162.63 Aligned_cols=76 Identities=26% Similarity=0.251 Sum_probs=62.8
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC-------CCCcEEEEEccchhhHHHH
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-------ENPVKLIYCTRTVHEMEKT 83 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~-------~~~~kvi~~T~T~~l~~Q~ 83 (757)
.+.|..|+|.|.+.+..+ -+|+++++.||||||||++|++|++......+ .+. +++|.+||.++..|+
T Consensus 25 ~~g~~~pt~iQ~~aip~i----l~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~-~~lil~PtreLa~Qi 99 (423)
T PRK04837 25 KKGFHNCTPIQALALPLT----LAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQP-RALIMAPTRELAVQI 99 (423)
T ss_pred HCCCCCCCHHHHHHHHHH----hCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCc-eEEEECCcHHHHHHH
Confidence 367888899999977654 46899999999999999999999987654321 124 899999999999999
Q ss_pred HHHHHhhh
Q 004385 84 LAELKLLH 91 (757)
Q Consensus 84 ~~el~~l~ 91 (757)
.+++..+.
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=99.67 E-value=2.1e-14 Score=165.14 Aligned_cols=76 Identities=22% Similarity=0.240 Sum_probs=62.9
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC-------CCCcEEEEEccchhhHHHH
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-------ENPVKLIYCTRTVHEMEKT 83 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~-------~~~~kvi~~T~T~~l~~Q~ 83 (757)
.+.|..|+|.|.+.+..++ +++++++.||||||||++||+|++......+ ... +++|.++|++|..|+
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 3678888999999876544 6899999999999999999999987653321 124 899999999999999
Q ss_pred HHHHHhhh
Q 004385 84 LAELKLLH 91 (757)
Q Consensus 84 ~~el~~l~ 91 (757)
.+++.++.
T Consensus 101 ~~~~~~l~ 108 (572)
T PRK04537 101 HKDAVKFG 108 (572)
T ss_pred HHHHHHHh
Confidence 99888763
No 24
>PTZ00110 helicase; Provisional
Probab=99.66 E-value=2.2e-14 Score=164.40 Aligned_cols=74 Identities=16% Similarity=0.097 Sum_probs=61.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC-----CCCCcEEEEEccchhhHHHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-----PENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~-----~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
..|..|+|.|.+.+..+. .++.+++.||||+|||++|++|++...... ..++ .++|.+||.+|..|+.++
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 458888999999765544 688999999999999999999998775432 1245 799999999999999998
Q ss_pred HHhh
Q 004385 87 LKLL 90 (757)
Q Consensus 87 l~~l 90 (757)
++++
T Consensus 223 ~~~~ 226 (545)
T PTZ00110 223 CNKF 226 (545)
T ss_pred HHHH
Confidence 8876
No 25
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.65 E-value=8.3e-14 Score=158.07 Aligned_cols=75 Identities=23% Similarity=0.219 Sum_probs=62.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCC-------CCcEEEEEccchhhHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-------NPVKLIYCTRTVHEMEKTL 84 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~-------~~~kvi~~T~T~~l~~Q~~ 84 (757)
+.|..++|.|.+.+..+ .+|+++++.||||||||++|++|++.-....+. .. +++|.++|++|..|+.
T Consensus 105 ~g~~~~~~iQ~~ai~~~----~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~-~aLil~PtreLa~Q~~ 179 (475)
T PRK01297 105 LGFPYCTPIQAQVLGYT----LAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEP-RALIIAPTRELVVQIA 179 (475)
T ss_pred CCCCCCCHHHHHHHHHH----hCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCc-eEEEEeCcHHHHHHHH
Confidence 67887899999977654 478999999999999999999999876554321 24 8999999999999999
Q ss_pred HHHHhhh
Q 004385 85 AELKLLH 91 (757)
Q Consensus 85 ~el~~l~ 91 (757)
++++.+.
T Consensus 180 ~~~~~l~ 186 (475)
T PRK01297 180 KDAAALT 186 (475)
T ss_pred HHHHHhh
Confidence 9888764
No 26
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.65 E-value=2.6e-14 Score=165.46 Aligned_cols=77 Identities=17% Similarity=0.148 Sum_probs=63.7
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.+.|+.|+|.|.+.+..+. +++.+++.||||||||++|++|++.........+ +++|.+||.+|..|+.+++..+
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 3578888999999766554 6789999999999999999999887654433345 8999999999999999988876
Q ss_pred hh
Q 004385 91 HN 92 (757)
Q Consensus 91 ~~ 92 (757)
..
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=99.64 E-value=3.6e-14 Score=162.11 Aligned_cols=74 Identities=24% Similarity=0.199 Sum_probs=61.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC-------CCCCcEEEEEccchhhHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-------PENPVKLIYCTRTVHEMEKTL 84 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~-------~~~~~kvi~~T~T~~l~~Q~~ 84 (757)
.+|..|+|.|.+.+..+. .|+++++.||||+|||++|++|++...... ..+. +++|.+||.+|..|+.
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 578888999999876654 689999999999999999999998765321 1245 8999999999999998
Q ss_pred HHHHhh
Q 004385 85 AELKLL 90 (757)
Q Consensus 85 ~el~~l 90 (757)
++++.+
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=99.64 E-value=9.1e-14 Score=154.76 Aligned_cols=75 Identities=11% Similarity=0.038 Sum_probs=62.3
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.|+|..|+|.|.+.+..+. ++.+.++.||||+|||++|++|++........+. +++|.+||.++..|+.+.++.+
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 3678878999999777655 6788999999999999999999998765433345 8999999999999988877665
No 29
>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=2e-13 Score=159.00 Aligned_cols=70 Identities=20% Similarity=0.289 Sum_probs=59.5
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.-.|+|..+||.|.+.+..+. +|+++++.||||+|||++|++|++.. ++ .++|.+||.+++.|.++.++
T Consensus 6 ~~~fg~~~fr~~Q~~~i~~il----~g~dvlv~~PTG~GKTl~y~lpal~~------~g-~~lVisPl~sL~~dq~~~l~ 74 (591)
T TIGR01389 6 KRTFGYDDFRPGQEEIISHVL----DGRDVLVVMPTGGGKSLCYQVPALLL------KG-LTVVISPLISLMKDQVDQLR 74 (591)
T ss_pred HHhcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCccHhHHHHHHHHHc------CC-cEEEEcCCHHHHHHHHHHHH
Confidence 346999999999999887765 67899999999999999999998841 34 67888999999999888776
Q ss_pred h
Q 004385 89 L 89 (757)
Q Consensus 89 ~ 89 (757)
.
T Consensus 75 ~ 75 (591)
T TIGR01389 75 A 75 (591)
T ss_pred H
Confidence 5
No 30
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.60 E-value=5.2e-13 Score=160.75 Aligned_cols=72 Identities=21% Similarity=0.265 Sum_probs=57.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC-----CCCcEEEEEccchhhHHHHHHHHH
Q 004385 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~-----~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
|..++|.|.+.+..+ .+|+++++.||||+|||++|++|++....... ....+++|.+||+++..|+.+.+.
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 555799999987665 46899999999999999999999987654321 122389999999999999887655
Q ss_pred h
Q 004385 89 L 89 (757)
Q Consensus 89 ~ 89 (757)
.
T Consensus 106 ~ 106 (876)
T PRK13767 106 E 106 (876)
T ss_pred H
Confidence 4
No 31
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.59 E-value=3.8e-13 Score=156.41 Aligned_cols=69 Identities=20% Similarity=0.313 Sum_probs=59.4
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
-.|+|+.+||.|.+.+..+. +++++++.||||+|||++|++|++.. .. .++|.+||+++..|.++.++.
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 46999999999999877665 68899999999999999999998842 34 688999999999999887765
No 32
>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=99.59 E-value=1.2e-12 Score=154.51 Aligned_cols=73 Identities=18% Similarity=0.170 Sum_probs=62.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
..|+.|||.|.+.+..+ .+|+++++.||||||||++|++|++......+ +. +++|.+||++|..|+.++++.+
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 45777899999876654 47899999999999999999999998775433 34 8999999999999999988875
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=1.2e-12 Score=156.39 Aligned_cols=78 Identities=19% Similarity=0.228 Sum_probs=67.6
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHH
Q 004385 9 TVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
.-.|||++ +|.|.+.+..|.+.+..+ .+.++.||||+|||.+++.|++..+.. +. +++|.+||..|..|..+.
T Consensus 445 ~~~~~f~~-T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~---g~-qvlvLvPT~~LA~Q~~~~ 519 (926)
T TIGR00580 445 EDSFPFEE-TPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD---GK-QVAVLVPTTLLAQQHFET 519 (926)
T ss_pred HHhCCCCC-CHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHh---CC-eEEEEeCcHHHHHHHHHH
Confidence 34699985 999999999999988776 478999999999999999998765542 45 899999999999999999
Q ss_pred HHhhh
Q 004385 87 LKLLH 91 (757)
Q Consensus 87 l~~l~ 91 (757)
++++.
T Consensus 520 f~~~~ 524 (926)
T TIGR00580 520 FKERF 524 (926)
T ss_pred HHHHh
Confidence 88753
No 34
>PRK02362 ski2-like helicase; Provisional
Probab=99.53 E-value=2.4e-12 Score=153.44 Aligned_cols=72 Identities=18% Similarity=0.223 Sum_probs=60.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.+|..+||.|.+.+.. .+.+++++++.||||+|||++|++|++.... .+. +++|.+||+++..|..++++++
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 3567789999998754 3567899999999999999999999886553 246 8999999999999999998864
No 35
>PRK01172 ski2-like helicase; Provisional
Probab=99.52 E-value=1.4e-12 Score=154.38 Aligned_cols=70 Identities=24% Similarity=0.305 Sum_probs=58.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.+|+ +||.|.+.+.. +.+++++++.||||+|||++++.+++..... +. +++|.+||+++..|..++++++
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 4677 59999998765 4678999999999999999999887765432 45 8999999999999999998875
No 36
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.52 E-value=6.2e-12 Score=147.93 Aligned_cols=92 Identities=18% Similarity=0.132 Sum_probs=75.4
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH
Q 004385 8 VTVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 8 ~~v~FPy~~~r~~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
+.-.|||++ ++.|.+.+.+|...+..+ .+.++.||||+|||++|+.|++.... .+. +++|.+||..+..|..+
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 445699985 999999999999988765 47899999999999999999887654 245 99999999999999999
Q ss_pred HHHhhhhhccccCCCccceEEEEecCC
Q 004385 86 ELKLLHNYQTRHLGPAAKILAIGLSSR 112 (757)
Q Consensus 86 el~~l~~~~~~~~~~~~~~~~~~l~gr 112 (757)
.++++.+ +.++++..+.|.
T Consensus 329 ~l~~l~~--------~~~i~v~ll~G~ 347 (681)
T PRK10917 329 NLKKLLE--------PLGIRVALLTGS 347 (681)
T ss_pred HHHHHHh--------hcCcEEEEEcCC
Confidence 9998743 234566666654
No 37
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.50 E-value=6.9e-12 Score=148.01 Aligned_cols=69 Identities=16% Similarity=0.154 Sum_probs=56.6
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
-.|+|..+||.|.+.+..+. .|+++++.||||+|||++|++|+|.. +. .+||.+||++|+.+.+..|..
T Consensus 454 ~~FG~~sFRp~Q~eaI~aiL----~GrDVLVimPTGSGKSLcYQLPAL~~------~G-iTLVISPLiSLmqDQV~~L~~ 522 (1195)
T PLN03137 454 KVFGNHSFRPNQREIINATM----SGYDVFVLMPTGGGKSLTYQLPALIC------PG-ITLVISPLVSLIQDQIMNLLQ 522 (1195)
T ss_pred HHcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCccHHHHHHHHHHHc------CC-cEEEEeCHHHHHHHHHHHHHh
Confidence 36889999999999776654 68999999999999999999999852 35 799999999998755554443
No 38
>PRK09401 reverse gyrase; Reviewed
Probab=99.48 E-value=6e-12 Score=153.83 Aligned_cols=72 Identities=19% Similarity=0.166 Sum_probs=56.4
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.+.++ |+|.|.+.+..+. .|+++++.||||+|||..++ +++.+... .+. +++|.+||.+|..|+.+.++.+
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 35676 5999998766554 78999999999999997544 44445433 256 9999999999999999999886
Q ss_pred h
Q 004385 91 H 91 (757)
Q Consensus 91 ~ 91 (757)
.
T Consensus 147 ~ 147 (1176)
T PRK09401 147 G 147 (1176)
T ss_pred h
Confidence 4
No 39
>PRK00254 ski2-like helicase; Provisional
Probab=99.48 E-value=7.5e-12 Score=148.85 Aligned_cols=73 Identities=21% Similarity=0.281 Sum_probs=61.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
..|..++|.|.+.+.. .+.+++++++.||||+|||+++++|++...... +. +++|.+||+++..|..++++.+
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 5677789999997654 456789999999999999999999988765432 46 9999999999999999988764
No 40
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.39 E-value=1.8e-10 Score=131.22 Aligned_cols=108 Identities=15% Similarity=0.137 Sum_probs=74.8
Q ss_pred ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCc-hhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004385 528 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 606 (757)
Q Consensus 528 ~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~-~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGi 606 (757)
..+++++|||.+-+..+.+++.+++.+. +..++.+... .++..+++.|+. ++..||++.. +-++||+
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 3567899999999999999998887542 3345555432 345555666653 5666888653 5799999
Q ss_pred cCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEEee
Q 004385 607 DFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIFAD 679 (757)
Q Consensus 607 Df~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~villD 679 (757)
|+|+ +.+||+...| .+ ...+.|.+||+.|-..+...+.++|
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 6777765422 11 1334599999999888777666665
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=4.4e-12 Score=127.24 Aligned_cols=75 Identities=19% Similarity=0.166 Sum_probs=64.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC--CCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~--~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
+++..+|+.|.+.+..+.+ +++++++||||+|||++|+.|++...... ..+. +++|.++|.++..|..+.++.
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 5777789999998877775 89999999999999999999998877654 2345 899999999999999998887
Q ss_pred hh
Q 004385 90 LH 91 (757)
Q Consensus 90 l~ 91 (757)
+.
T Consensus 92 ~~ 93 (203)
T cd00268 92 LG 93 (203)
T ss_pred Hh
Confidence 63
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=3e-10 Score=132.38 Aligned_cols=74 Identities=19% Similarity=0.244 Sum_probs=56.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCC-cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 13 PYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~~~~-~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
.|+ |+|.|.+.+..+. .|+ ..++.||||||||.++.++.+.........+ ++||+++|..+..|+.+++.++.
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 566 5999999988754 454 6888999999999976554443322222235 88899999999999999999875
Q ss_pred h
Q 004385 92 N 92 (757)
Q Consensus 92 ~ 92 (757)
+
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=5.1e-10 Score=136.85 Aligned_cols=77 Identities=14% Similarity=0.100 Sum_probs=65.4
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHH
Q 004385 9 TVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
.-.|||++ .|.|.+.+..|...+... ...++.||||+|||.+++.++..... .+. +++|.+||..+..|+.+.
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 45799985 999999999999988765 57999999999999999887665433 256 999999999999999998
Q ss_pred HHhh
Q 004385 87 LKLL 90 (757)
Q Consensus 87 l~~l 90 (757)
+++.
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=6e-10 Score=139.54 Aligned_cols=72 Identities=14% Similarity=0.146 Sum_probs=59.9
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.++|+ |+|.|.+.+..+. +|+.+++.||||+|||+.++.+++..+. .+. +++|.+||.+|..|+.+.++.+
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 6999999877666 5789999999999999977777765532 245 8999999999999999999886
Q ss_pred h
Q 004385 91 H 91 (757)
Q Consensus 91 ~ 91 (757)
.
T Consensus 146 ~ 146 (1638)
T PRK14701 146 C 146 (1638)
T ss_pred H
Confidence 4
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=1.3e-11 Score=121.23 Aligned_cols=67 Identities=28% Similarity=0.426 Sum_probs=57.6
Q ss_pred CCHHHHHHHHHHHHHHHhC---CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 17 IYPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~---~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
+||.|.+.+.++.+.+... ++++++||||+|||..++..+.... . +++|.++|.++.+|..+++..+
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 5999999999999999976 8999999999999999886544432 3 8999999999999999998664
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=6.8e-10 Score=136.26 Aligned_cols=87 Identities=23% Similarity=0.391 Sum_probs=64.5
Q ss_pred HHHhhhccCCcEEEEecCh---HHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee
Q 004385 522 LVEMVSIVPDGIVCFFVSY---SYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 598 (757)
Q Consensus 522 l~~~~~~~~gg~Lv~f~Sy---~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~ 598 (757)
+.++++..++|.|||+++- +..+.+.+.++..|+ +...+.+.. . ...+++|++ |+--||+|++
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 3444455568899999998 999999999887653 223333322 1 357899986 6777999974
Q ss_pred --cCcccccccCCCCCceEEEEeccCC
Q 004385 599 --RGKVAEGIDFDRHYGRLVIMFGVPF 623 (757)
Q Consensus 599 --~G~~~EGiDf~~~~~r~Vii~glPf 623 (757)
.|-++.|||+|+ ..|.||-.|+|-
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=1.5e-11 Score=119.25 Aligned_cols=67 Identities=19% Similarity=0.298 Sum_probs=57.8
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
|.|.+.+..+. +++++++.||||+|||++|+.|++....+. ... +++|.+||.++.+|..++++...
T Consensus 2 ~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~~-~~~-~~lii~P~~~l~~q~~~~~~~~~ 68 (169)
T PF00270_consen 2 PLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQEG-KDA-RVLIIVPTRALAEQQFERLRKFF 68 (169)
T ss_dssp HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHTT-SSS-EEEEEESSHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhccC-CCc-eEEEEeecccccccccccccccc
Confidence 78888877766 678999999999999999999999877654 345 89999999999999999988763
No 48
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.27 E-value=5.4e-09 Score=119.34 Aligned_cols=78 Identities=19% Similarity=0.069 Sum_probs=59.9
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhhhccc
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTR 96 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~ 96 (757)
|||.|..-+-.+. .|+ +.||.||+|||+++++|++..+. .++ .+.|.|+|..|..|..+++..+..+
T Consensus 104 p~~VQ~~~~~~ll----~G~--Iae~~TGeGKTla~~lp~~~~al---~G~-~v~VvTptreLA~qdae~~~~l~~~--- 170 (656)
T PRK12898 104 HFDVQLMGGLALL----SGR--LAEMQTGEGKTLTATLPAGTAAL---AGL-PVHVITVNDYLAERDAELMRPLYEA--- 170 (656)
T ss_pred CChHHHHHHHHHh----CCC--eeeeeCCCCcHHHHHHHHHHHhh---cCC-eEEEEcCcHHHHHHHHHHHHHHHhh---
Confidence 4788887665554 444 99999999999999999887654 256 8999999999999999999887532
Q ss_pred cCCCccceEEEEecCC
Q 004385 97 HLGPAAKILAIGLSSR 112 (757)
Q Consensus 97 ~~~~~~~~~~~~l~gr 112 (757)
..+++..+.|.
T Consensus 171 -----lGlsv~~i~gg 181 (656)
T PRK12898 171 -----LGLTVGCVVED 181 (656)
T ss_pred -----cCCEEEEEeCC
Confidence 23555555544
No 49
>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=99.27 E-value=5.5e-09 Score=120.00 Aligned_cols=152 Identities=13% Similarity=0.124 Sum_probs=91.3
Q ss_pred ccchHHhhccCeEEEeccCCCCC-cchhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHH
Q 004385 440 LAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNY 518 (757)
Q Consensus 440 ~~~~~l~~~~~svIltSgTL~p~-~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~ 518 (757)
..++.+|..++.+--|+||.... +.|.+.-|++.+. +|.+. . ..--+-++. -| +...+-+..+
T Consensus 331 It~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY~l~vv~-------IPtnk-p-~~R~d~~d~-----i~--~t~~~k~~ai 394 (745)
T TIGR00963 331 ITYQNFFRLYEKLSGMTGTAKTEEEEFEKIYNLEVVV-------VPTNR-P-VIRKDLSDL-----VY--KTEEEKWKAV 394 (745)
T ss_pred eeHHHHHhhCchhhccCCCcHHHHHHHHHHhCCCEEE-------eCCCC-C-eeeeeCCCe-----EE--cCHHHHHHHH
Confidence 44578888888999999999653 2455555654221 11111 0 000001111 12 2233344566
Q ss_pred HHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee
Q 004385 519 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 598 (757)
Q Consensus 519 ~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~ 598 (757)
.+.+.+.. ..+..+|||+.|-..-+.+...+.+.++ +.....+. ..+....+..|+ +++|+|++|+
T Consensus 395 ~~~i~~~~-~~grpvLV~t~si~~se~ls~~L~~~gi-------~~~~Lna~-q~~rEa~ii~~a----g~~g~VtIAT- 460 (745)
T TIGR00963 395 VDEIKERH-AKGQPVLVGTTSVEKSELLSNLLKERGI-------PHNVLNAK-NHEREAEIIAQA----GRKGAVTIAT- 460 (745)
T ss_pred HHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHcCC-------CeEEeeCC-hHHHHHHHHHhc----CCCceEEEEe-
Confidence 66565554 4678999999999999999999987664 22222233 234455555555 3689999988
Q ss_pred cCcccccccCCCCCce-----EEEEeccC
Q 004385 599 RGKVAEGIDFDRHYGR-----LVIMFGVP 622 (757)
Q Consensus 599 ~G~~~EGiDf~~~~~r-----~Vii~glP 622 (757)
.-...|+|++.+..+ .||.+-+|
T Consensus 461 -nmAgRGtDI~l~~V~~~GGl~VI~t~~p 488 (745)
T TIGR00963 461 -NMAGRGTDIKLEEVKELGGLYVIGTERH 488 (745)
T ss_pred -ccccCCcCCCccchhhcCCcEEEecCCC
Confidence 378999999984433 55555544
No 50
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.26 E-value=3.1e-09 Score=123.11 Aligned_cols=78 Identities=17% Similarity=0.044 Sum_probs=63.8
Q ss_pred CCC--CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHH---------HHHHHHHHHHc---CCCCCcEEEEEccchh
Q 004385 13 PYD--NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA---------LLSLITSYVLS---KPENPVKLIYCTRTVH 78 (757)
Q Consensus 13 Py~--~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla---------~L~~al~~~~~---~~~~~~kvi~~T~T~~ 78 (757)
||. +.++.|.++-.++...+.+++.+++.|+||+|||.+ ||.|.+..+.. ..... +|++++||.+
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 56666665432 11235 8999999999
Q ss_pred hHHHHHHHHHhhh
Q 004385 79 EMEKTLAELKLLH 91 (757)
Q Consensus 79 l~~Q~~~el~~l~ 91 (757)
+..|+..++....
T Consensus 234 La~qi~~~i~~~v 246 (675)
T PHA02653 234 LVRLHSITLLKSL 246 (675)
T ss_pred HHHHHHHHHHHHh
Confidence 9999888777653
No 51
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=99.24 E-value=1.8e-09 Score=118.28 Aligned_cols=51 Identities=27% Similarity=0.293 Sum_probs=44.0
Q ss_pred EEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 38 ~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
+++.||||+|||++++.|++...... .+. +++|..||.++..|..+.++.+
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 346 9999999999999999988875
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=99.24 E-value=1.4e-08 Score=117.42 Aligned_cols=68 Identities=18% Similarity=0.205 Sum_probs=53.1
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~ 92 (757)
+||.|.+++..+. +.+| .++|++||+|||+++++|++..+. .++ .|+|.|+|..|..|..+++..+..
T Consensus 69 lrpydVQlig~l~--l~~G--~Iaem~TGeGKTLta~Lpa~l~aL---~g~-~V~VVTpn~yLA~Rdae~m~~l~~ 136 (762)
T TIGR03714 69 MFPYDVQVLGAIV--LHQG--NIAEMKTGEGKTLTATMPLYLNAL---TGK-GAMLVTTNDYLAKRDAEEMGPVYE 136 (762)
T ss_pred CCccHHHHHHHHH--hcCC--ceeEecCCcchHHHHHHHHHHHhh---cCC-ceEEeCCCHHHHHHHHHHHHHHHh
Confidence 3666777766663 3333 699999999999999999765543 246 799999999999999998877643
No 53
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.20 E-value=1.3e-08 Score=118.80 Aligned_cols=65 Identities=22% Similarity=0.206 Sum_probs=50.1
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhh
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~ 92 (757)
|+.| ++..+ ++.+|. ++||.||+|||+++++|++..+.. ++ .|.|.|+|..|..|..+++..+..
T Consensus 80 ~~vQ--l~~~~--~l~~G~--Iaem~TGeGKTL~a~lp~~l~al~---G~-~v~VvTpt~~LA~qd~e~~~~l~~ 144 (790)
T PRK09200 80 YDVQ--LIGAL--VLHEGN--IAEMQTGEGKTLTATMPLYLNALE---GK-GVHLITVNDYLAKRDAEEMGQVYE 144 (790)
T ss_pred chHH--HHhHH--HHcCCc--eeeecCCCcchHHHHHHHHHHHHc---CC-CeEEEeCCHHHHHHHHHHHHHHHh
Confidence 4555 44433 333444 999999999999999998765542 56 899999999999999998888753
No 54
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.17 E-value=6.5e-09 Score=128.22 Aligned_cols=51 Identities=18% Similarity=0.290 Sum_probs=41.1
Q ss_pred EEcCCCCcHHHHHHHHHHHHHHcCC---------CCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 40 LEMPTGTGKTIALLSLITSYVLSKP---------ENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 40 iEaPTGtGKTla~L~~al~~~~~~~---------~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
|.||||+|||++|++|+|.-....+ .+..+++|.|||+++..|+.++|+..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~p 60 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIP 60 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHH
Confidence 4699999999999999987654321 12249999999999999999988763
No 55
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.09 E-value=5.2e-10 Score=130.84 Aligned_cols=90 Identities=18% Similarity=0.174 Sum_probs=72.8
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCC--cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHH
Q 004385 10 VYFPYDNIYPEQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (757)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~~l~~~~--~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el 87 (757)
-.+||+ +++.|.+.+.+|...+.... +.++.||||+|||++|+.|++.... .+. +++|.+||..+..|+.+++
T Consensus 230 ~~lpf~-lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~---~g~-qvlilaPT~~LA~Q~~~~~ 304 (630)
T TIGR00643 230 ASLPFK-LTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE---AGY-QVALMAPTEILAEQHYNSL 304 (630)
T ss_pred HhCCCC-CCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH---cCC-cEEEECCHHHHHHHHHHHH
Confidence 468997 49999999999998886553 6899999999999999999877654 245 8999999999999999999
Q ss_pred HhhhhhccccCCCccceEEEEecCC
Q 004385 88 KLLHNYQTRHLGPAAKILAIGLSSR 112 (757)
Q Consensus 88 ~~l~~~~~~~~~~~~~~~~~~l~gr 112 (757)
+++.+ +.++++..+.|.
T Consensus 305 ~~l~~--------~~gi~v~lltg~ 321 (630)
T TIGR00643 305 RNLLA--------PLGIEVALLTGS 321 (630)
T ss_pred HHHhc--------ccCcEEEEEecC
Confidence 98743 234566666554
No 56
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.04 E-value=4.1e-08 Score=116.77 Aligned_cols=63 Identities=25% Similarity=0.221 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 23 ~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
+...+|.+++.+++++++.||||+|||.+|..+.+... . .+. +|++..||..+..|+.+.+..
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 46678999999999999999999999999998877532 1 235 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=8.3e-08 Score=114.01 Aligned_cols=130 Identities=13% Similarity=0.116 Sum_probs=80.1
Q ss_pred HHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCC-CchhHHHHHHHHHHhccCCCCeEE
Q 004385 516 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVF 594 (757)
Q Consensus 516 ~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~avL 594 (757)
..+...+..+.+..+|.+|||+|+...++.+.+.+++... .+.+.+-..+. ...+...+++.|+. |+..|+
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 3444556666666679999999999999999998875210 01122222222 22334556666654 566799
Q ss_pred EEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccC
Q 004385 595 FSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSK 669 (757)
Q Consensus 595 ~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~ 669 (757)
+++. -..-|||++| .+.||=.|+|--...||.. .+..| ...|... -...|..||.=|..
T Consensus 267 VATn--IAErgItIp~--V~~VID~Gl~r~~~yd~~~--g~~~L-------~~~~iSk---asa~QR~GRAGR~~ 325 (819)
T TIGR01970 267 LATN--IAETSLTIEG--IRVVIDSGLARVARFDPKT--GITRL-------ETVRISQ---ASATQRAGRAGRLE 325 (819)
T ss_pred Eecc--hHhhcccccC--ceEEEEcCccccccccccc--CCcee-------eEEEECH---HHHHhhhhhcCCCC
Confidence 9874 7889999998 7899999999654334321 00111 0123221 23458889988874
No 58
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.98 E-value=1.6e-09 Score=115.32 Aligned_cols=149 Identities=19% Similarity=0.301 Sum_probs=106.5
Q ss_pred CCHHHHHHHHHHHHHHHh-----CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 17 IYPEQYSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~-----~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
..|.|...+--+.+.+.. .+.+++.||||+|||+||-+|++..+.+.+-..+|.+|..+|..+..|+..++.++.
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 467888888888888873 468999999999999999999998877665556799999999999999999999875
Q ss_pred hhccccCCCccceEEEEecCCcccccchHHhhhcCcccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHhhhcCCCC
Q 004385 92 NYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLP 171 (757)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~ 171 (757)
. +..+.++.+.|.. .+ ..+.+.|.
T Consensus 240 ~--------~tgL~V~~~sgq~---------sl------~~E~~qL~--------------------------------- 263 (620)
T KOG0350|consen 240 S--------GTGLAVCSLSGQN---------SL------EDEARQLA--------------------------------- 263 (620)
T ss_pred c--------CCceEEEeccccc---------ch------HHHHHHHh---------------------------------
Confidence 3 3445443333321 11 01111211
Q ss_pred CCCCCHHHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhHHHHh
Q 004385 172 PGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIE 245 (757)
Q Consensus 172 ~~~~~ie~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~~~~~ 245 (757)
.....| .+||+|++-.-|+|+... .-+..|..-..+|||||..|.+...+
T Consensus 264 -------------~~~~~~----------~~DIlVaTPGRLVDHl~~-~k~f~Lk~LrfLVIDEADRll~qsfQ 313 (620)
T KOG0350|consen 264 -------------SDPPEC----------RIDILVATPGRLVDHLNN-TKSFDLKHLRFLVIDEADRLLDQSFQ 313 (620)
T ss_pred -------------cCCCcc----------ccceEEcCchHHHHhccC-CCCcchhhceEEEechHHHHHHHHHH
Confidence 112223 689999999999988642 11334556678999999999876643
No 59
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.94 E-value=5.3e-09 Score=103.49 Aligned_cols=74 Identities=27% Similarity=0.317 Sum_probs=59.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
+++.+++|.|.+++..+.... +++++.+|||+|||.+++.+++......+ .. +++|.++|.++..|+.+++...
T Consensus 4 ~~~~~~~~~Q~~~~~~~~~~~---~~~~i~~~~GsGKT~~~~~~~~~~~~~~~-~~-~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 4 FGFEPLRPYQKEAIEALLSGL---RDVILAAPTGSGKTLAALLPALEALKRGK-GK-RVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred cCCCCCCHHHHHHHHHHHcCC---CcEEEECCCCCchhHHHHHHHHHHhcccC-CC-cEEEEeCCHHHHHHHHHHHHHH
Confidence 445557999999887666322 89999999999999998888776554332 35 8999999999999999887765
No 60
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.88 E-value=1.2e-06 Score=101.17 Aligned_cols=131 Identities=24% Similarity=0.358 Sum_probs=89.8
Q ss_pred CeEEEeccCCCCCc----chhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHHHh
Q 004385 450 QSVVITSGTLSPID----LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEM 525 (757)
Q Consensus 450 ~svIltSgTL~p~~----~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~ 525 (757)
...|++|||..|-+ .|...|||+.-. ....-++-.. .|... ...+.+.++
T Consensus 277 g~LvvsSATg~~rg~R~~LfReLlgFevG~----~~~~LRNIvD---------------~y~~~-------~~~e~~~el 330 (1187)
T COG1110 277 GILVVSSATGKPRGSRLKLFRELLGFEVGS----GGEGLRNIVD---------------IYVES-------ESLEKVVEL 330 (1187)
T ss_pred ceEEEeeccCCCCCchHHHHHHHhCCccCc----cchhhhheee---------------eeccC-------ccHHHHHHH
Confidence 45799999999987 678889997531 1111111111 11111 122345667
Q ss_pred hhccCCcEEEEecC---hHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee--cC
Q 004385 526 VSIVPDGIVCFFVS---YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA--RG 600 (757)
Q Consensus 526 ~~~~~gg~Lv~f~S---y~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~--~G 600 (757)
++..+.|.|||.|. .+..+.++++++..|+.. ..++ .. ....++.|.+ |+=.+|+||+ -|
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--AE----KEEALEDFEE----GEVDVLVGVASYYG 395 (1187)
T ss_pred HHHhCCCeEEEEEcHHhHHHHHHHHHHHHhcCceE-----EEee--cc----chhhhhhhcc----CceeEEEEeccccc
Confidence 77788899999999 899999999999887521 1122 21 1455788876 7778998886 46
Q ss_pred cccccccCCCCCceEEEEeccC
Q 004385 601 KVAEGIDFDRHYGRLVIMFGVP 622 (757)
Q Consensus 601 ~~~EGiDf~~~~~r~Vii~glP 622 (757)
.+-.|||+|. ..|-+|-.|+|
T Consensus 396 ~lVRGlDLP~-rirYaIF~GvP 416 (1187)
T COG1110 396 VLVRGLDLPH-RIRYAVFYGVP 416 (1187)
T ss_pred ceeecCCchh-heeEEEEecCC
Confidence 6889999995 67999999999
No 61
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.88 E-value=2e-07 Score=101.13 Aligned_cols=179 Identities=19% Similarity=0.209 Sum_probs=104.1
Q ss_pred eEEEeccCCCCCcchhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHH--Hhhhc
Q 004385 451 SVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLV--EMVSI 528 (757)
Q Consensus 451 svIltSgTL~p~~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~--~~~~~ 528 (757)
..|..|||......+++.||.+.+....-|.++++. ++++++ ..+....+..+++.=. +-.+.
T Consensus 374 Q~i~LSATVgNp~elA~~l~a~lV~y~~RPVplErH----lvf~~~-----------e~eK~~ii~~L~k~E~~~~sskg 438 (830)
T COG1202 374 QFIYLSATVGNPEELAKKLGAKLVLYDERPVPLERH----LVFARN-----------ESEKWDIIARLVKREFSTESSKG 438 (830)
T ss_pred eEEEEEeecCChHHHHHHhCCeeEeecCCCCChhHe----eeeecC-----------chHHHHHHHHHHHHHHhhhhccC
Confidence 347889999888889999998766554444444432 222210 0112222333322111 11223
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccC
Q 004385 529 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 608 (757)
Q Consensus 529 ~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf 608 (757)
-.|.++||..|.+.-+.+++.+...|+-. ++ |--+-.-.++..+=..|.. +.=++.+.++ .++-||||
T Consensus 439 ~rGQtIVFT~SRrr~h~lA~~L~~kG~~a-----~p-YHaGL~y~eRk~vE~~F~~----q~l~~VVTTA--AL~AGVDF 506 (830)
T COG1202 439 YRGQTIVFTYSRRRCHELADALTGKGLKA-----AP-YHAGLPYKERKSVERAFAA----QELAAVVTTA--ALAAGVDF 506 (830)
T ss_pred cCCceEEEecchhhHHHHHHHhhcCCccc-----cc-ccCCCcHHHHHHHHHHHhc----CCcceEeehh--hhhcCCCC
Confidence 45899999999999999999998765311 11 1001111223333344543 4555666554 78899999
Q ss_pred CCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccC-CCeeEEEEe---ecccCC
Q 004385 609 DRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSK-ADYGMMIFA---DKRYSR 684 (757)
Q Consensus 609 ~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~-~D~G~vill---D~R~~~ 684 (757)
|-.. | +... | . .|++|..+ +.+.|-+||.=|-. .|+|.|+++ +++|..
T Consensus 507 PASQ---V-------------IFEs----L--a---MG~~WLs~---~EF~QM~GRAGRp~yHdrGkVyllvepg~~Y~~ 558 (830)
T COG1202 507 PASQ---V-------------IFES----L--A---MGIEWLSV---REFQQMLGRAGRPDYHDRGKVYLLVEPGKKYHA 558 (830)
T ss_pred chHH---H-------------HHHH----H--H---cccccCCH---HHHHHHhcccCCCCcccCceEEEEecCChhhcc
Confidence 8532 1 1111 1 1 36899875 77889999988754 699999886 556644
No 62
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=98.79 E-value=3.4e-08 Score=112.55 Aligned_cols=76 Identities=24% Similarity=0.208 Sum_probs=62.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcE-EEEEccchhhHHHHHHHHHhhh
Q 004385 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVK-LIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~k-vi~~T~T~~l~~Q~~~el~~l~ 91 (757)
.|+.|.|.|.+.+-.+. .|+.++..|+||||||+||++|.+............ ++|.+||..|..|+.++++.+.
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 56777899999877666 569999999999999999999999886521112212 8999999999999999999875
Q ss_pred h
Q 004385 92 N 92 (757)
Q Consensus 92 ~ 92 (757)
.
T Consensus 124 ~ 124 (513)
T COG0513 124 K 124 (513)
T ss_pred h
Confidence 3
No 63
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=98.78 E-value=1.9e-06 Score=103.42 Aligned_cols=113 Identities=18% Similarity=0.295 Sum_probs=76.6
Q ss_pred HHHhhhc-cCCcEEEEecChHHHHHHHHHHhh-cccHHHHhcCcc-EEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee
Q 004385 522 LVEMVSI-VPDGIVCFFVSYSYMDEIIATWND-SGILKEIMQHKL-VFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 598 (757)
Q Consensus 522 l~~~~~~-~~gg~Lv~f~Sy~~l~~v~~~~~~-~~~~~~~~~~k~-if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~ 598 (757)
|.++++. .+..+|||+.+......+.+.++. .|+ +. +|-.+....++...++.|+.. .+...||++.
T Consensus 484 L~~~L~~~~~~KvLVF~~~~~t~~~L~~~L~~~~Gi-------~~~~ihG~~s~~eR~~~~~~F~~~--~~~~~VLIsT- 553 (956)
T PRK04914 484 LIDFLKSHRSEKVLVICAKAATALQLEQALREREGI-------RAAVFHEGMSIIERDRAAAYFADE--EDGAQVLLCS- 553 (956)
T ss_pred HHHHHHhcCCCeEEEEeCcHHHHHHHHHHHhhccCe-------eEEEEECCCCHHHHHHHHHHHhcC--CCCccEEEec-
Confidence 3344443 367899999999999999998853 332 22 344444456678889999862 1233477765
Q ss_pred cCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEE
Q 004385 599 RGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIF 677 (757)
Q Consensus 599 ~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~vil 677 (757)
...+||+||+. +..||..-+|.-+ . ...|++||+=|-.....+.|.
T Consensus 554 -dvgseGlNlq~--a~~VInfDlP~nP----~--------------------------~~eQRIGR~~RiGQ~~~V~i~ 599 (956)
T PRK04914 554 -EIGSEGRNFQF--ASHLVLFDLPFNP----D--------------------------LLEQRIGRLDRIGQKHDIQIH 599 (956)
T ss_pred -hhhccCCCccc--ccEEEEecCCCCH----H--------------------------HHHHHhcccccCCCCceEEEE
Confidence 47889999976 5679999988632 1 123899999997776554443
No 64
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.77 E-value=1.6e-08 Score=118.85 Aligned_cols=138 Identities=20% Similarity=0.158 Sum_probs=97.7
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhhhcc
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQT 95 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~ 95 (757)
..+|.|.+...+.+ ..+++++|.||||+|||+..+++++.-.... +. |+||.+|+++|.++..++++++.
T Consensus 31 el~~~qq~av~~~~---~~~~N~li~aPTgsGKTlIA~lai~~~l~~~--~~-k~vYivPlkALa~Ek~~~~~~~~---- 100 (766)
T COG1204 31 ELFNPQQEAVEKGL---LSDENVLISAPTGSGKTLIALLAILSTLLEG--GG-KVVYIVPLKALAEEKYEEFSRLE---- 100 (766)
T ss_pred HhhHHHHHHhhccc---cCCCcEEEEcCCCCchHHHHHHHHHHHHHhc--CC-cEEEEeChHHHHHHHHHHhhhHH----
Confidence 35888888665554 3489999999999999999998888776643 45 99999999999999999999653
Q ss_pred ccCCCccceEEEEecCCcccccchHHhhhcCcccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHhhhcCCCCCCCC
Q 004385 96 RHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPPGVY 175 (757)
Q Consensus 96 ~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~ 175 (757)
...+++....|-...|.
T Consensus 101 -----~~GirV~~~TgD~~~~~---------------------------------------------------------- 117 (766)
T COG1204 101 -----ELGIRVGISTGDYDLDD---------------------------------------------------------- 117 (766)
T ss_pred -----hcCCEEEEecCCcccch----------------------------------------------------------
Confidence 23355555443322211
Q ss_pred CHHHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhHHHHhhccc
Q 004385 176 TLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSV 249 (757)
Q Consensus 176 ~ie~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~~~~~~~s~ 249 (757)
+.+..+||||+++-=+. ...|..-. ...+-+.||+||+|-+.|.-|...-.
T Consensus 118 ---------------------~~l~~~~ViVtT~EK~D-sl~R~~~~-~~~~V~lvViDEiH~l~d~~RG~~lE 168 (766)
T COG1204 118 ---------------------ERLARYDVIVTTPEKLD-SLTRKRPS-WIEEVDLVVIDEIHLLGDRTRGPVLE 168 (766)
T ss_pred ---------------------hhhccCCEEEEchHHhh-HhhhcCcc-hhhcccEEEEeeeeecCCcccCceeh
Confidence 11446899999988653 33343221 12367899999999999876655433
No 65
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.76 E-value=1.5e-06 Score=101.68 Aligned_cols=139 Identities=14% Similarity=0.145 Sum_probs=81.5
Q ss_pred cccchHHhhccCeEEEeccCCCCCc-chhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHH
Q 004385 439 SLAVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 517 (757)
Q Consensus 439 s~~~~~l~~~~~svIltSgTL~p~~-~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~ 517 (757)
+..++.+|..++.+--|+||..... .|.+.-+++-+ .+|.+ . |.+-.+-++. - +....+-+..
T Consensus 369 sIT~Qn~Fr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv-------~IPtn-k-p~~R~d~~d~-----v--~~t~~~k~~a 432 (896)
T PRK13104 369 SITFQNFFRMYNKLSGMTGTADTEAYEFQQIYNLEVV-------VIPTN-R-SMIRKDEADL-----V--YLTQADKFQA 432 (896)
T ss_pred eehHHHHHHhcchhccCCCCChhHHHHHHHHhCCCEE-------ECCCC-C-CcceecCCCe-----E--EcCHHHHHHH
Confidence 3456888888888888899986542 45555555421 11111 1 1110011111 1 2223344556
Q ss_pred HHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCC-chhHHHHHHHHHHhccCCCCeEEEE
Q 004385 518 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFS 596 (757)
Q Consensus 518 ~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~avL~g 596 (757)
+.+.+.++. ..+..+|||++|-..-+.+...++..++ +....-.+. ..+...+.+.++ +|+|++|
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-VRKQPVLVGTVSIEASEFLSQLLKKENI-------KHQVLNAKFHEKEAQIIAEAGR------PGAVTIA 498 (896)
T ss_pred HHHHHHHHH-hCCCCEEEEeCcHHHHHHHHHHHHHcCC-------CeEeecCCCChHHHHHHHhCCC------CCcEEEe
Confidence 666665543 4778999999999999999999988764 212222222 233344444443 5689988
Q ss_pred eecCcccccccCC
Q 004385 597 VARGKVAEGIDFD 609 (757)
Q Consensus 597 v~~G~~~EGiDf~ 609 (757)
+ .-...|+|+.
T Consensus 499 T--NmAGRGtDI~ 509 (896)
T PRK13104 499 T--NMAGRGTDIV 509 (896)
T ss_pred c--cCccCCccee
Confidence 7 4788999995
No 66
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.74 E-value=7.3e-08 Score=102.23 Aligned_cols=74 Identities=18% Similarity=0.186 Sum_probs=57.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHc-C-C--CCCcEEEEEccchhhHHHHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS-K-P--ENPVKLIYCTRTVHEMEKTLAEL 87 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~-~-~--~~~~kvi~~T~T~~l~~Q~~~el 87 (757)
++|+.+.|.|...+-. |-.++.+++|||||+|||+|||+|.+..... . . .+.+-.+|.|||..+-.|+.+=+
T Consensus 24 ~GF~~mTpVQa~tIPl----ll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~ 99 (567)
T KOG0345|consen 24 SGFEKMTPVQAATIPL----LLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVA 99 (567)
T ss_pred cCCcccCHHHHhhhHH----HhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHH
Confidence 5677789999886554 4478999999999999999999999988722 1 1 12235799999999999998844
Q ss_pred Hh
Q 004385 88 KL 89 (757)
Q Consensus 88 ~~ 89 (757)
..
T Consensus 100 ~~ 101 (567)
T KOG0345|consen 100 QP 101 (567)
T ss_pred HH
Confidence 43
No 67
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=98.74 E-value=1.7e-08 Score=107.75 Aligned_cols=79 Identities=24% Similarity=0.254 Sum_probs=64.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC---CCCcEEEEEccchhhHHHHHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---ENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~---~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
-.|+.+.+.|...+..+. .|+.+++-|-||||||+|+|+||+.+....+ ..++.++|+++|..+.-|+..|++
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 356667788877655544 5789999999999999999999999977542 234489999999999999999999
Q ss_pred hhhhhc
Q 004385 89 LLHNYQ 94 (757)
Q Consensus 89 ~l~~~~ 94 (757)
.|+++.
T Consensus 176 ~Ll~~h 181 (543)
T KOG0342|consen 176 ELLKYH 181 (543)
T ss_pred HHHhhC
Confidence 998764
No 68
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.72 E-value=2.4e-08 Score=110.03 Aligned_cols=139 Identities=19% Similarity=0.174 Sum_probs=99.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHc------CCCCCcEEEEEccchhhHHHHHHH
Q 004385 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS------KPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~------~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
.|+.|.|.|.+...-++ .|+.++.-|-||+|||||||+|++.++.. .+.++ +++|.+||..+..|+-.+
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 35556788988655444 68999999999999999999999999886 23456 899999999999999998
Q ss_pred HHhhhhhccccCCCccceEEEEecCCcccccchHHhhhcCcccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHhhh
Q 004385 87 LKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAAS 166 (757)
Q Consensus 87 l~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~~~~~C~~~~~~~~~~~ 166 (757)
.+.+.. ... .++.|++..... -.
T Consensus 185 ~~~~~~--------~~~--------~~~~cvyGG~~~----------------------------------~~------- 207 (519)
T KOG0331|consen 185 AREFGK--------SLR--------LRSTCVYGGAPK----------------------------------GP------- 207 (519)
T ss_pred HHHHcC--------CCC--------ccEEEEeCCCCc----------------------------------cH-------
Confidence 887631 222 223565522110 00
Q ss_pred cCCCCCCCCCHHHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhHH
Q 004385 167 AAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNV 242 (757)
Q Consensus 167 ~~~~~~~~~~ie~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~~ 242 (757)
..+..-+.+||||++---|+|..-.. ..+|.+-.++|+|||..+.|.
T Consensus 208 ---------------------------Q~~~l~~gvdiviaTPGRl~d~le~g--~~~l~~v~ylVLDEADrMldm 254 (519)
T KOG0331|consen 208 ---------------------------QLRDLERGVDVVIATPGRLIDLLEEG--SLNLSRVTYLVLDEADRMLDM 254 (519)
T ss_pred ---------------------------HHHHHhcCCcEEEeCChHHHHHHHcC--CccccceeEEEeccHHhhhcc
Confidence 01222346999999999888876444 344668899999999887664
No 69
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.68 E-value=3.2e-06 Score=98.88 Aligned_cols=140 Identities=14% Similarity=0.171 Sum_probs=83.6
Q ss_pred ccchHHhhccCeEEEeccCCCCC-cchhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHH
Q 004385 440 LAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNY 518 (757)
Q Consensus 440 ~~~~~l~~~~~svIltSgTL~p~-~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~ 518 (757)
..++.+|..++.+--|+||.... +.|.+.-|++-+ .+|.+. |.+--+-++.+ | ....+-+..+
T Consensus 356 It~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY~l~vv-------~IPtnk--p~~r~d~~d~i-----~--~t~~~K~~aI 419 (830)
T PRK12904 356 ITFQNYFRMYEKLAGMTGTADTEAEEFREIYNLDVV-------VIPTNR--PMIRIDHPDLI-----Y--KTEKEKFDAV 419 (830)
T ss_pred eeHHHHHHhcchhcccCCCcHHHHHHHHHHhCCCEE-------EcCCCC--CeeeeeCCCeE-----E--ECHHHHHHHH
Confidence 44578888888899999999653 244444455422 112111 11111111111 1 1233334556
Q ss_pred HHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee
Q 004385 519 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 598 (757)
Q Consensus 519 ~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~ 598 (757)
.+.+.+.. ..+..+|||+.|-..-+.+...+...++ +.....++ ..+....+..|+. ++++|++|+.
T Consensus 420 ~~~I~~~~-~~grpVLIft~Si~~se~Ls~~L~~~gi-------~~~vLnak-q~eREa~Iia~Ag----~~g~VtIATN 486 (830)
T PRK12904 420 VEDIKERH-KKGQPVLVGTVSIEKSELLSKLLKKAGI-------PHNVLNAK-NHEREAEIIAQAG----RPGAVTIATN 486 (830)
T ss_pred HHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCC-------ceEeccCc-hHHHHHHHHHhcC----CCceEEEecc
Confidence 55555443 3567899999999999999999987653 11222222 2344555666654 7899999884
Q ss_pred cCcccccccCCC
Q 004385 599 RGKVAEGIDFDR 610 (757)
Q Consensus 599 ~G~~~EGiDf~~ 610 (757)
-.+.|+|++=
T Consensus 487 --mAGRGtDI~L 496 (830)
T PRK12904 487 --MAGRGTDIKL 496 (830)
T ss_pred --cccCCcCccC
Confidence 7899999964
No 70
>PRK09694 helicase Cas3; Provisional
Probab=98.68 E-value=9.7e-08 Score=113.52 Aligned_cols=69 Identities=23% Similarity=0.179 Sum_probs=54.4
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.|||.|..++.. ..+.+..+||||||+|||.++|..+...+... ... +|+|+.||.+..+|+.+.++..
T Consensus 286 ~p~p~Q~~~~~~----~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~-~~~-gi~~aLPT~Atan~m~~Rl~~~ 354 (878)
T PRK09694 286 QPRQLQTLVDAL----PLQPGLTIIEAPTGSGKTEAALAYAWRLIDQG-LAD-SIIFALPTQATANAMLSRLEAL 354 (878)
T ss_pred CChHHHHHHHhh----ccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhC-CCC-eEEEECcHHHHHHHHHHHHHHH
Confidence 469999987432 12568899999999999999998876544332 245 8999999999999999987764
No 71
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.67 E-value=1e-07 Score=102.63 Aligned_cols=67 Identities=16% Similarity=0.089 Sum_probs=54.4
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
+|..|..++.+.. .++.++..|||-|||+...+-+..+.... ++ |+++..||++|..|-.+-++++.
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 4778887765554 34999999999999998777666677665 46 89999999999999998888764
No 72
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.66 E-value=4.5e-08 Score=106.05 Aligned_cols=73 Identities=23% Similarity=0.285 Sum_probs=59.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCC----------CCcEEEEEccchhhHHH
Q 004385 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE----------NPVKLIYCTRTVHEMEK 82 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~----------~~~kvi~~T~T~~l~~Q 82 (757)
.|..|.|.|+.-+..| ..|..++++||||+|||.|+|+|++.++..... .+ +++|.++|+.|..|
T Consensus 93 ~~~~ptpvQk~sip~i----~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P-~~lIlapTReL~~Q 167 (482)
T KOG0335|consen 93 GYTKPTPVQKYSIPII----SGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYP-RALILAPTRELVDQ 167 (482)
T ss_pred cccCCCcceeecccee----ecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCC-ceEEEeCcHHHhhH
Confidence 3455567776654443 467889999999999999999999999886521 24 89999999999999
Q ss_pred HHHHHHhh
Q 004385 83 TLAELKLL 90 (757)
Q Consensus 83 ~~~el~~l 90 (757)
+.+|.+++
T Consensus 168 i~nea~k~ 175 (482)
T KOG0335|consen 168 IYNEARKF 175 (482)
T ss_pred HHHHHHhh
Confidence 99999986
No 73
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=98.64 E-value=1.1e-07 Score=108.22 Aligned_cols=67 Identities=19% Similarity=0.342 Sum_probs=57.4
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
++|..|.++. ..|| +++.+|.+|||.|||+.+..-++.|.+..+. . |||+.++|..+..|-...+..
T Consensus 62 ~lR~YQ~eiv---q~AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-~-KiVF~aP~~pLv~QQ~a~~~~ 128 (746)
T KOG0354|consen 62 ELRNYQEELV---QPAL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK-G-KVVFLAPTRPLVNQQIACFSI 128 (746)
T ss_pred cccHHHHHHh---HHhh--cCCeEEEeecCCCccchHHHHHHHHHhcCCc-c-eEEEeeCCchHHHHHHHHHhh
Confidence 4699999874 5677 9999999999999999998888999988874 4 899999999999998865554
No 74
>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=1.5e-07 Score=87.27 Aligned_cols=53 Identities=30% Similarity=0.330 Sum_probs=43.4
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
+++++.+|||+|||..++..+....... ..+ +++|++++..+.+|..+++.+.
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~-~~~-~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSL-KGG-QVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcc-cCC-CEEEEcCcHHHHHHHHHHHHHH
Confidence 4689999999999999988876655432 346 8999999999999998877764
No 75
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.61 E-value=2.6e-07 Score=113.11 Aligned_cols=72 Identities=19% Similarity=0.205 Sum_probs=58.2
Q ss_pred CCHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 17 IYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~-~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
+||.|.+.+.++.+++.++ +.+++.+|||||||+..+..+....+. ...+ ||++.+.+..|.+|..++++..
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 578999999999998765433333322 2346 9999999999999999988763
No 76
>PRK13766 Hef nuclease; Provisional
Probab=98.60 E-value=2.3e-07 Score=112.12 Aligned_cols=69 Identities=20% Similarity=0.184 Sum_probs=55.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
+++ +|+.|.++...+. . +++++.+|||+|||+.+++++..... . .++ +++|.++|.++..|..+++++.
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--KNTLVVLPTGLGKTAIALLVIAERLH-K-KGG-KVLILAPTKPLVEQHAEFFRKF 81 (773)
T ss_pred cCC-ccHHHHHHHHHHh---c--CCeEEEcCCCccHHHHHHHHHHHHHH-h-CCC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 344 4999999876554 3 38999999999999998887665553 2 246 8999999999999999988875
No 77
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.59 E-value=3.3e-07 Score=107.84 Aligned_cols=72 Identities=22% Similarity=0.265 Sum_probs=59.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
|+. +++.|.+.++.+.+.+ .+...++.||||+|||.+|+.++...... ++ +++|.+||+++..|+.+.++..
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 5999999988887765 45789999999999999999876554432 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=98.55 E-value=4.1e-07 Score=108.57 Aligned_cols=69 Identities=20% Similarity=0.258 Sum_probs=58.3
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
+|+.|.+.+..+ .+|+++||.+|||+|||.+|++|++..+...+ .. +.+|.-||++|.+--.+.++++.
T Consensus 71 lY~HQ~~A~~~~----~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~-~a-~AL~lYPtnALa~DQ~~rl~~~~ 139 (851)
T COG1205 71 LYSHQVDALRLI----REGRNVVVTTGTGSGKTESFLLPILDHLLRDP-SA-RALLLYPTNALANDQAERLRELI 139 (851)
T ss_pred ccHHHHHHHHHH----HCCCCEEEECCCCCchhHHHHHHHHHHHhhCc-Cc-cEEEEechhhhHhhHHHHHHHHH
Confidence 699999976555 47899999999999999999999998877654 33 79999999999887777777764
No 79
>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=98.53 E-value=2e-05 Score=96.78 Aligned_cols=156 Identities=13% Similarity=0.119 Sum_probs=90.0
Q ss_pred HHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEE-EeCC-CchhHHHHHHHHHHhccCCC
Q 004385 513 GVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVF-IETQ-DVVETTLALDNYRKACDCGR 590 (757)
Q Consensus 513 ~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if-~E~~-~~~~~~~~l~~f~~~~~~~~ 590 (757)
.+...+...+.+++...+|.+|||+|+...++.+.+.++..+. ....|+ .-+. ...+...+ |+.. +.
T Consensus 262 ~~~~~i~~~I~~l~~~~~GdILVFLpg~~EI~~l~~~L~~~~~-----~~~~VlpLhg~Ls~~eQ~~v---f~~~---~~ 330 (1283)
T TIGR01967 262 DQLEAILDAVDELFAEGPGDILIFLPGEREIRDAAEILRKRNL-----RHTEILPLYARLSNKEQQRV---FQPH---SG 330 (1283)
T ss_pred hHHHHHHHHHHHHHhhCCCCEEEeCCCHHHHHHHHHHHHhcCC-----CCcEEEeccCCCCHHHHHHH---hCCC---CC
Confidence 3556677777777777789999999999999999999876432 011122 1121 11122222 4331 22
Q ss_pred CeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCC
Q 004385 591 GAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA 670 (757)
Q Consensus 591 ~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~ 670 (757)
..|++++ .-..-|||++| .+.||=.|+|-....||... ++-+ .-.+. .--...|..||+=|..
T Consensus 331 rkIVLAT--NIAEtSLTIpg--V~yVIDsGl~r~~~yd~~~~--~~~L-------~~~~I---Skasa~QRaGRAGR~~- 393 (1283)
T TIGR01967 331 RRIVLAT--NVAETSLTVPG--IHYVIDTGTARISRYSYRTK--VQRL-------PIEPI---SQASANQRKGRCGRVA- 393 (1283)
T ss_pred ceEEEec--cHHHhccccCC--eeEEEeCCCccccccccccC--cccc-------CCccC---CHHHHHHHhhhhCCCC-
Confidence 4688887 36778999998 78899999885433333211 0000 01121 1234579999998875
Q ss_pred CeeEEEEeecccCCccccCCCcHHHHhhccc
Q 004385 671 DYGMMIFADKRYSRHDKRSKLPGWILSHLRD 701 (757)
Q Consensus 671 D~G~villD~R~~~~~~~~~lp~w~~~~~~~ 701 (757)
-|..+ |+.+......+|.+..+.|..
T Consensus 394 -~G~cy----RLyte~~~~~~~~~~~PEIlR 419 (1283)
T TIGR01967 394 -PGICI----RLYSEEDFNSRPEFTDPEILR 419 (1283)
T ss_pred -CceEE----EecCHHHHHhhhhccCccccc
Confidence 56554 333322223355555444443
No 80
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.50 E-value=1.4e-05 Score=97.62 Aligned_cols=136 Identities=14% Similarity=0.109 Sum_probs=79.6
Q ss_pred hHHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEE-EeCC-CchhHHHHHHHHHHhccCC
Q 004385 512 PGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVF-IETQ-DVVETTLALDNYRKACDCG 589 (757)
Q Consensus 512 ~~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if-~E~~-~~~~~~~~l~~f~~~~~~~ 589 (757)
.++...+.+.+..+....+|.+|||+|+...++.+.+.++..++ . ...|+ ..+. ...+...+ |+. .+
T Consensus 268 ~d~l~~ll~~V~~l~~~~~GdILVFLpg~~EIe~lae~L~~~~~----~-~~~VlpLhg~Ls~~eQ~~V---f~~---~g 336 (1294)
T PRK11131 268 RDQLQAIFDAVDELGREGPGDILIFMSGEREIRDTADALNKLNL----R-HTEILPLYARLSNSEQNRV---FQS---HS 336 (1294)
T ss_pred HHHHHHHHHHHHHHhcCCCCCEEEEcCCHHHHHHHHHHHHhcCC----C-cceEeecccCCCHHHHHHH---hcc---cC
Confidence 34556666666666666778999999999999999999986542 0 01121 1121 11222233 332 24
Q ss_pred CCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccC
Q 004385 590 RGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSK 669 (757)
Q Consensus 590 ~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~ 669 (757)
...|++++ .-..-|||++| .+.||=.|+.--...||... .+.+ ...|. ..-..+|..||+=|..
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 78899888653222222110 0000 01121 1234579999998874
Q ss_pred CCeeEEE
Q 004385 670 ADYGMMI 676 (757)
Q Consensus 670 ~D~G~vi 676 (757)
-|..+
T Consensus 401 --~G~c~ 405 (1294)
T PRK11131 401 --EGICI 405 (1294)
T ss_pred --CcEEE
Confidence 36544
No 81
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=98.49 E-value=7.5e-07 Score=103.82 Aligned_cols=73 Identities=22% Similarity=0.263 Sum_probs=61.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC----CCCcEEEEEccchhhHHHHHHHHHh
Q 004385 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~----~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
|..|+|.|++.+..|. +|+|++|-||||+|||+|.++|++.-....+ ..++.++|.||=++|-.-+.+.|+.
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 6778999999988877 8999999999999999999999998877662 2235899999999998887776665
Q ss_pred h
Q 004385 90 L 90 (757)
Q Consensus 90 l 90 (757)
.
T Consensus 96 ~ 96 (814)
T COG1201 96 P 96 (814)
T ss_pred H
Confidence 4
No 82
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.48 E-value=6.3e-07 Score=100.38 Aligned_cols=72 Identities=21% Similarity=0.274 Sum_probs=58.1
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
+.|.++ +||.|.+.++++...+.+++.+++.+|||+|||+..+..+ .. . .. +++|.++|..+++|..+.+.+
T Consensus 31 ~~~~~~-lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~-~~---~--~~-~~Lvlv~~~~L~~Qw~~~~~~ 102 (442)
T COG1061 31 VAFEFE-LRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAI-AE---L--KR-STLVLVPTKELLDQWAEALKK 102 (442)
T ss_pred cccCCC-CcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHH-HH---h--cC-CEEEEECcHHHHHHHHHHHHH
Confidence 445555 5999999999999988888899999999999998765432 21 1 24 699999999999999876665
No 83
>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=98.48 E-value=1.1e-06 Score=103.52 Aligned_cols=72 Identities=18% Similarity=0.213 Sum_probs=59.7
Q ss_pred CCHHHHHHHHHHHHHHHh------CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 17 IYPEQYSYMLELKRALDA------KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~------~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
+|+.|...+.++.+.+.+ ++.++|.+|||||||+..+..+...... ...+ +|++.|.+..|.+|+.+++...
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 589999999999999976 3579999999999999887665443332 2346 9999999999999999988874
No 84
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.47 E-value=3.5e-07 Score=98.45 Aligned_cols=75 Identities=19% Similarity=0.149 Sum_probs=62.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC------CCCcEEEEEccchhhHHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP------ENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~------~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
.-+..|...|.+-+-.|++ |+.++|+|+||+|||||||+|.+.-+.... +|. =.+|..+|..+..|+.+
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 MKISAPTSVQKQAIPVLLE----GRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGP-YALVIVPTRELALQIYE 229 (708)
T ss_pred hccCccchHhhcchhhhhc----CcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCc-eEEEEechHHHHHHHHH
Confidence 4455678889988877775 999999999999999999999998776542 344 67888999999999999
Q ss_pred HHHhhh
Q 004385 86 ELKLLH 91 (757)
Q Consensus 86 el~~l~ 91 (757)
-+.+|+
T Consensus 230 ~~qKLl 235 (708)
T KOG0348|consen 230 TVQKLL 235 (708)
T ss_pred HHHHHh
Confidence 888874
No 85
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.46 E-value=1e-06 Score=103.05 Aligned_cols=66 Identities=15% Similarity=0.116 Sum_probs=55.3
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
+|.|.+.+..+. .+...++||+||+|||++|++|++.-+.. +. .+.|.|+|.-|..|..+.+..+.
T Consensus 94 tp~qvQ~I~~i~----l~~gvIAeaqTGeGKTLAf~LP~l~~aL~---g~-~v~IVTpTrELA~Qdae~m~~L~ 159 (970)
T PRK12899 94 VPYDVQILGAIA----MHKGFITEMQTGEGKTLTAVMPLYLNALT---GK-PVHLVTVNDYLAQRDCEWVGSVL 159 (970)
T ss_pred ChHHHHHhhhhh----cCCCeEEEeCCCCChHHHHHHHHHHHHhh---cC-CeEEEeCCHHHHHHHHHHHHHHH
Confidence 999999887665 45679999999999999999999876542 34 58888999999999999888874
No 86
>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=102.11 Aligned_cols=69 Identities=13% Similarity=0.198 Sum_probs=53.0
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.+.++ +||.|.+.+.+. +.++ +.++|.+|||+|||+..+..+... ++ +++|.++|..+.+|..+|+.
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 33455 599999976554 4455 479999999999999887654321 35 78888899999999999988
Q ss_pred hh
Q 004385 89 LL 90 (757)
Q Consensus 89 ~l 90 (757)
+.
T Consensus 320 ~~ 321 (732)
T TIGR00603 320 MW 321 (732)
T ss_pred Hh
Confidence 74
No 87
>COG4889 Predicted helicase [General function prediction only]
Probab=98.42 E-value=1.6e-06 Score=97.99 Aligned_cols=168 Identities=19% Similarity=0.281 Sum_probs=110.7
Q ss_pred cCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH
Q 004385 6 EDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 6 ~~~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
+++++.-|+++ ||.|.+.+.+..+.|.....+=+-+.+|||||+..|--+=+.+ .. +|++.+|+++++.|.++
T Consensus 152 ~nl~l~~~kk~-R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala-----~~-~iL~LvPSIsLLsQTlr 224 (1518)
T COG4889 152 DNLPLKKPKKP-RPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALA-----AA-RILFLVPSISLLSQTLR 224 (1518)
T ss_pred cccccCCCCCC-ChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHh-----hh-heEeecchHHHHHHHHH
Confidence 45777889986 9999999999999999888888888999999998775433222 14 89999999999999999
Q ss_pred HHHhhhhhccccCCCccceEEEEecCCcccccchHHhhhcCcccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHhh
Q 004385 86 ELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAA 165 (757)
Q Consensus 86 el~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~~~~~C~~~~~~~~~~ 165 (757)
|...= ...+++... .|-...+... .+++ ..
T Consensus 225 ew~~~---------~~l~~~a~a------VcSD~kvsrs--~eDi----------------------k~----------- 254 (1518)
T COG4889 225 EWTAQ---------KELDFRASA------VCSDDKVSRS--AEDI----------------------KA----------- 254 (1518)
T ss_pred HHhhc---------cCccceeEE------EecCcccccc--cccc----------------------cc-----------
Confidence 87652 133455443 3655444321 0100 00
Q ss_pred hcCCCCCCCCCHHHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhHH
Q 004385 166 SAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNV 242 (757)
Q Consensus 166 ~~~~~~~~~~~ie~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~~ 242 (757)
.+..+| ..-+.+++.+.- ..|+.+..--||+++|+-+.. +.+.....+++.+.||.||||.--.+
T Consensus 255 sdl~~p-~sT~~~~il~~~---------~~~~k~~~~~vvFsTYQSl~~--i~eAQe~G~~~fDliicDEAHRTtGa 319 (1518)
T COG4889 255 SDLPIP-VSTDLEDILSEM---------EHRQKANGLTVVFSTYQSLPR--IKEAQEAGLDEFDLIICDEAHRTTGA 319 (1518)
T ss_pred ccCCCC-CcccHHHHHHHH---------HHhhccCCcEEEEEcccchHH--HHHHHHcCCCCccEEEecchhccccc
Confidence 000111 223445544321 224567778899999998753 22222233678999999999986543
No 88
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.40 E-value=7.6e-07 Score=95.39 Aligned_cols=76 Identities=20% Similarity=0.155 Sum_probs=61.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCC--CcEEEEEccchhhHHHHHHHHHh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~--~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
.+|..|.|.|...+--.. -|+.++..|-||||||.||.+|+|.-+.+.|.+ .+||+|.+||..|.-|+..=.++
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 468878899988764322 478889999999999999999999988877643 23999999999999998886666
Q ss_pred hh
Q 004385 90 LH 91 (757)
Q Consensus 90 l~ 91 (757)
|.
T Consensus 275 la 276 (691)
T KOG0338|consen 275 LA 276 (691)
T ss_pred HH
Confidence 64
No 89
>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=98.33 E-value=3.9e-06 Score=91.62 Aligned_cols=57 Identities=26% Similarity=0.255 Sum_probs=45.5
Q ss_pred HHHHHHhCC--cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 28 LKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 28 v~~~l~~~~--~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
+.+++.+++ ++++.||||+|||.++++|++. . .. +.+|.+||.++.+|..+.++...
T Consensus 5 ~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~---~---~~-~~~~~~P~~aL~~~~~~~~~~~~ 63 (357)
T TIGR03158 5 TFEALQSKDADIIFNTAPTGAGKTLAWLTPLLH---G---EN-DTIALYPTNALIEDQTEAIKEFV 63 (357)
T ss_pred HHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH---c---CC-CEEEEeChHHHHHHHHHHHHHHH
Confidence 445555564 5889999999999999998773 1 24 78999999999999998887754
No 90
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=98.31 E-value=1.1e-06 Score=92.82 Aligned_cols=76 Identities=21% Similarity=0.221 Sum_probs=56.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC------CCCcEEEEEccchhhHHHHHHH
Q 004385 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP------ENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~------~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
.++.|.-.|...+-- +| +|+.++.-|-||+|||+|||+|.+.-..+.. .+. ..+|..||+.+.+|+...
T Consensus 38 G~ekpTlIQs~aIpl---aL-EgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~-sa~iLvPTkEL~qQvy~v 112 (569)
T KOG0346|consen 38 GWEKPTLIQSSAIPL---AL-EGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGP-SAVILVPTKELAQQVYKV 112 (569)
T ss_pred CcCCcchhhhcccch---hh-cCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccc-eeEEEechHHHHHHHHHH
Confidence 345445555554332 22 5779999999999999999999886544321 234 899999999999999999
Q ss_pred HHhhhhh
Q 004385 87 LKLLHNY 93 (757)
Q Consensus 87 l~~l~~~ 93 (757)
+.+|..+
T Consensus 113 iekL~~~ 119 (569)
T KOG0346|consen 113 IEKLVEY 119 (569)
T ss_pred HHHHHHH
Confidence 8887654
No 91
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.24 E-value=0.0003 Score=82.63 Aligned_cols=53 Identities=19% Similarity=0.110 Sum_probs=43.9
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhh
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~ 92 (757)
+--+.|++||+|||+++.+|++..+. .++ .|.|.|+|.-|..|..+.+..+..
T Consensus 96 ~G~IaEm~TGEGKTL~a~lp~~l~al---~g~-~VhIvT~ndyLA~RD~e~m~~l~~ 148 (908)
T PRK13107 96 SNRIAEMRTGEGKTLTATLPAYLNAL---TGK-GVHVITVNDYLARRDAENNRPLFE 148 (908)
T ss_pred CCccccccCCCCchHHHHHHHHHHHh---cCC-CEEEEeCCHHHHHHHHHHHHHHHH
Confidence 34588999999999999999876554 245 799999999999999888877654
No 92
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.23 E-value=3.7e-06 Score=87.59 Aligned_cols=86 Identities=17% Similarity=0.082 Sum_probs=72.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhhh
Q 004385 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (757)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~ 93 (757)
+..|.+.|.+.|-.+. +|++++.-|.||+|||.||++|.+..+...+... ..+|.|||..+..|+-+....+
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 5667899999877665 6899999999999999999999999888877554 9999999999999998877765
Q ss_pred ccccCCCccceEEEEecCC
Q 004385 94 QTRHLGPAAKILAIGLSSR 112 (757)
Q Consensus 94 ~~~~~~~~~~~~~~~l~gr 112 (757)
|.+..+++.+|-|.
T Consensus 153 -----g~~iglr~~~lvGG 166 (476)
T KOG0330|consen 153 -----GSGIGLRVAVLVGG 166 (476)
T ss_pred -----ccccCeEEEEEecC
Confidence 34667787777665
No 93
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.22 E-value=3.8e-06 Score=94.59 Aligned_cols=71 Identities=21% Similarity=0.291 Sum_probs=58.3
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHH
Q 004385 8 VTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (757)
Q Consensus 8 ~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el 87 (757)
+.-.|.|+..||+|.+.+ +++-+++++++-.|||.|||++|-+||+.. .+ -.+|.+|=.+|++--+..|
T Consensus 9 L~~~fGy~~FR~gQ~evI----~~~l~g~d~lvvmPTGgGKSlCyQiPAll~------~G-~TLVVSPLiSLM~DQV~~l 77 (590)
T COG0514 9 LKQVFGYASFRPGQQEII----DALLSGKDTLVVMPTGGGKSLCYQIPALLL------EG-LTLVVSPLISLMKDQVDQL 77 (590)
T ss_pred HHHHhCccccCCCHHHHH----HHHHcCCcEEEEccCCCCcchHhhhHHHhc------CC-CEEEECchHHHHHHHHHHH
Confidence 345799999999999754 455577999999999999999999999864 23 5888899999988777766
Q ss_pred Hh
Q 004385 88 KL 89 (757)
Q Consensus 88 ~~ 89 (757)
+.
T Consensus 78 ~~ 79 (590)
T COG0514 78 EA 79 (590)
T ss_pred HH
Confidence 65
No 94
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=98.20 E-value=0.00097 Score=78.21 Aligned_cols=152 Identities=13% Similarity=0.164 Sum_probs=85.6
Q ss_pred ccchHHhhccCeEEEeccCCCCC-cchhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHH
Q 004385 440 LAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNY 518 (757)
Q Consensus 440 ~~~~~l~~~~~svIltSgTL~p~-~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~ 518 (757)
..++.+|..++.+--++||.... +.|.+.-|++.+. +|.+ . |.+--+-++. -| +...+-...+
T Consensus 366 It~qnfFr~Y~kl~GmTGTa~~e~~Ef~~iY~l~vv~-------IPtn-k-p~~r~d~~d~-----i~--~t~~~K~~al 429 (796)
T PRK12906 366 ITYQNFFRMYKKLSGMTGTAKTEEEEFREIYNMEVIT-------IPTN-R-PVIRKDSPDL-----LY--PTLDSKFNAV 429 (796)
T ss_pred ehHHHHHHhcchhhccCCCCHHHHHHHHHHhCCCEEE-------cCCC-C-CeeeeeCCCe-----EE--cCHHHHHHHH
Confidence 44577888888899999999653 2455555554221 1111 1 1110011111 11 1223334455
Q ss_pred HHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee
Q 004385 519 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 598 (757)
Q Consensus 519 ~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~ 598 (757)
.+.+.+.. ..+..+|||+.|-..-+.+...+.+.++ +.....++. .+.+..+ ..++ ..+|+|++|+
T Consensus 430 ~~~i~~~~-~~g~pvLI~t~si~~se~ls~~L~~~gi-------~~~~Lna~~-~~~Ea~i--i~~a--g~~g~VtIAT- 495 (796)
T PRK12906 430 VKEIKERH-AKGQPVLVGTVAIESSERLSHLLDEAGI-------PHAVLNAKN-HAKEAEI--IMNA--GQRGAVTIAT- 495 (796)
T ss_pred HHHHHHHH-hCCCCEEEEeCcHHHHHHHHHHHHHCCC-------CeeEecCCc-HHHHHHH--HHhc--CCCceEEEEe-
Confidence 55554433 4678999999999999999999987764 111222222 1222211 1222 3567899987
Q ss_pred cCcccccccCC-CCCce-----EEEEeccC
Q 004385 599 RGKVAEGIDFD-RHYGR-----LVIMFGVP 622 (757)
Q Consensus 599 ~G~~~EGiDf~-~~~~r-----~Vii~glP 622 (757)
.-...|.|++ |+..+ .||.+-+|
T Consensus 496 -nmAGRGtDI~l~~~V~~~GGLhVI~te~p 524 (796)
T PRK12906 496 -NMAGRGTDIKLGPGVKELGGLAVIGTERH 524 (796)
T ss_pred -ccccCCCCCCCCcchhhhCCcEEEeeecC
Confidence 4789999996 44445 66666655
No 95
>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=91.54 Aligned_cols=48 Identities=25% Similarity=0.250 Sum_probs=38.7
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 39 LLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 39 liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
++.||||+|||..|+..+. .+.. .++ +++|.+||.++..|+.+.++..
T Consensus 1 LL~g~TGsGKT~v~l~~i~-~~l~--~g~-~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIE-KVLA--LGK-SVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHHHH-HHHH--cCC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 4789999999999986543 3332 256 8999999999999999988763
No 96
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.05 E-value=1.5e-05 Score=91.09 Aligned_cols=72 Identities=15% Similarity=0.184 Sum_probs=59.5
Q ss_pred CCHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 17 IYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~-~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
+|+.|...+..|.+|+.+| ..+++.+.||||||..+..- +--+...+..+ ||++.+-+++|.+|..++..+.
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 5999999999999999998 46999999999999986542 22233444567 9999999999999999887764
No 97
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=98.04 E-value=1.5e-05 Score=93.03 Aligned_cols=77 Identities=17% Similarity=0.194 Sum_probs=65.5
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC-----CCCcEEEEEccchhhHHHHHH
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~-----~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
.+.|.+|+|.|.+++-.|. .|..+|-.|-||+|||++||+|.+......+ +|+ =.+|.++|..|..|+-+
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 4678999999999988776 6888999999999999999999986654332 455 78999999999999999
Q ss_pred HHHhhhh
Q 004385 86 ELKLLHN 92 (757)
Q Consensus 86 el~~l~~ 92 (757)
+++++..
T Consensus 457 ~~~kf~k 463 (997)
T KOG0334|consen 457 EVRKFLK 463 (997)
T ss_pred HHHHHHh
Confidence 9998754
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=98.02 E-value=3.8e-05 Score=70.55 Aligned_cols=114 Identities=24% Similarity=0.350 Sum_probs=78.3
Q ss_pred HHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCC-chhHHHHHHHHHHhccCCCCeEEE
Q 004385 517 NYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFF 595 (757)
Q Consensus 517 ~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~avL~ 595 (757)
.+.+.+.+..+ ..+.+|||+++...++.+...+++.+ ....++.+.. ..+....+++|++ +...||+
T Consensus 16 ~i~~~i~~~~~-~~~~~lvf~~~~~~~~~~~~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~f~~----~~~~ili 83 (131)
T cd00079 16 ALLELLKEHLK-KGGKVLIFCPSKKMLDELAELLRKPG-------IKVAALHGDGSQEEREEVLKDFRE----GEIVVLV 83 (131)
T ss_pred HHHHHHHhccc-CCCcEEEEeCcHHHHHHHHHHHHhcC-------CcEEEEECCCCHHHHHHHHHHHHc----CCCcEEE
Confidence 34444444332 46899999999999999999987532 1233444432 2345566777775 4567888
Q ss_pred EeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEE
Q 004385 596 SVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMM 675 (757)
Q Consensus 596 gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~v 675 (757)
++ ..++||+|+++ +..||+.+.|+. ...+.|++||+.|..+ .|.+
T Consensus 84 ~t--~~~~~G~d~~~--~~~vi~~~~~~~------------------------------~~~~~Q~~GR~~R~~~-~~~~ 128 (131)
T cd00079 84 AT--DVIARGIDLPN--VSVVINYDLPWS------------------------------PSSYLQRIGRAGRAGQ-KGTA 128 (131)
T ss_pred Ec--ChhhcCcChhh--CCEEEEeCCCCC------------------------------HHHheecccccccCCC-CceE
Confidence 76 58999999986 778888887443 2334699999999876 5655
Q ss_pred EE
Q 004385 676 IF 677 (757)
Q Consensus 676 il 677 (757)
++
T Consensus 129 ~~ 130 (131)
T cd00079 129 IL 130 (131)
T ss_pred Ee
Confidence 44
No 99
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=98.01 E-value=6e-06 Score=89.49 Aligned_cols=58 Identities=21% Similarity=0.215 Sum_probs=47.6
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcC---CCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK---PENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~---~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
+|..++--|-||+|||||+|+|+|..+... +..++-.+|.|||..+.-|+++-|.++-
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 366778889999999999999999876543 2223478999999999999999999874
No 100
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=97.99 E-value=2.1e-05 Score=84.93 Aligned_cols=74 Identities=23% Similarity=0.169 Sum_probs=62.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC---------CCCcEEEEEccchhhHHHH
Q 004385 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---------ENPVKLIYCTRTVHEMEKT 83 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~---------~~~~kvi~~T~T~~l~~Q~ 83 (757)
.|..|.|.|++.+- ...+.+..+.-|-||+|||+|+++|.+.|....| .++ ..++..+|..+.+|+
T Consensus 264 ~y~eptpIqR~aip----l~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gp-yaiilaptReLaqqI 338 (673)
T KOG0333|consen 264 GYKEPTPIQRQAIP----LGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGP-YAIILAPTRELAQQI 338 (673)
T ss_pred CCCCCchHHHhhcc----chhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCc-eeeeechHHHHHHHH
Confidence 46667888888765 3446788899999999999999999999987765 356 899999999999999
Q ss_pred HHHHHhhh
Q 004385 84 LAELKLLH 91 (757)
Q Consensus 84 ~~el~~l~ 91 (757)
.+|-.++.
T Consensus 339 eeEt~kf~ 346 (673)
T KOG0333|consen 339 EEETNKFG 346 (673)
T ss_pred HHHHHHhc
Confidence 99988764
No 101
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.89 E-value=2.1e-05 Score=86.42 Aligned_cols=75 Identities=20% Similarity=0.193 Sum_probs=61.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC----CCCcEEEEEccchhhHHHHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAEL 87 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~----~~~~kvi~~T~T~~l~~Q~~~el 87 (757)
-+|..|.|.|++. .-.+-++..++..||||+|||+||++|.+..++... ..+++.+|+.+|..+..|+..|.
T Consensus 154 ~~F~~Pt~iq~~a----ipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~ 229 (593)
T KOG0344|consen 154 LGFDEPTPIQKQA----IPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREM 229 (593)
T ss_pred CCCCCCCcccchh----hhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHH
Confidence 3566678999854 345557899999999999999999999998877553 23459999999999999999998
Q ss_pred Hhh
Q 004385 88 KLL 90 (757)
Q Consensus 88 ~~l 90 (757)
+++
T Consensus 230 ~k~ 232 (593)
T KOG0344|consen 230 RKY 232 (593)
T ss_pred Hhc
Confidence 886
No 102
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.87 E-value=1e-05 Score=84.67 Aligned_cols=73 Identities=23% Similarity=0.128 Sum_probs=53.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC------CCCcEEEEEccchhhHHHHHHH
Q 004385 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP------ENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~------~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
.|++|.|.|-++=-- +-+|..++-.|.||||||++||.|.+....+.+ .+. .+++.|+|..|.-|+-.|
T Consensus 239 GFqKPtPIqSQaWPI----~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p-~~lvl~ptreLalqie~e 313 (629)
T KOG0336|consen 239 GFQKPTPIQSQAWPI----LLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGP-GVLVLTPTRELALQIEGE 313 (629)
T ss_pred cCCCCCcchhcccce----eecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCC-ceEEEeccHHHHHHHHhH
Confidence 455566666654333 235778899999999999999999887655432 234 899999999988887777
Q ss_pred HHhh
Q 004385 87 LKLL 90 (757)
Q Consensus 87 l~~l 90 (757)
.++.
T Consensus 314 ~~ky 317 (629)
T KOG0336|consen 314 VKKY 317 (629)
T ss_pred HhHh
Confidence 6653
No 103
>PF13245 AAA_19: Part of AAA domain
Probab=97.81 E-value=8.4e-05 Score=61.44 Aligned_cols=59 Identities=24% Similarity=0.379 Sum_probs=42.8
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHH--cCCCCCcEEEEEccchhhHHHHHHHH
Q 004385 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVL--SKPENPVKLIYCTRTVHEMEKTLAEL 87 (757)
Q Consensus 27 ~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~--~~~~~~~kvi~~T~T~~l~~Q~~~el 87 (757)
.|..++.++..++|.||+|||||...+-.+..+.. ..+ ++ +|+++|.|+...+.+.+.+
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 45567775566777999999999765554444442 222 56 8999999999988887766
No 104
>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=97.80 E-value=0.00015 Score=77.07 Aligned_cols=84 Identities=17% Similarity=0.143 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHHH---------HhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCC--CCcEEEEEccchhhHHHHHHHHH
Q 004385 20 EQYSYMLELKRAL---------DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE--NPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 20 ~Q~~~~~~v~~~l---------~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~--~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.|++.+.-+.+.. ...+.+++--.+|+|||+..+..+.......+. .+ +++|.+|+ +++.|..+|+.
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~-~~LIv~P~-~l~~~W~~E~~ 78 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEK-KTLIVVPS-SLLSQWKEEIE 78 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S--EEEEE-T-TTHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhcccccccc-ceeEeecc-chhhhhhhhhc
Confidence 3777777777766 455788889999999999887654433222221 12 48888999 78899999999
Q ss_pred hhhhhccccCCCccceEEEEecCCc
Q 004385 89 LLHNYQTRHLGPAAKILAIGLSSRK 113 (757)
Q Consensus 89 ~l~~~~~~~~~~~~~~~~~~l~gr~ 113 (757)
+... +..+++.+..|..
T Consensus 79 ~~~~--------~~~~~v~~~~~~~ 95 (299)
T PF00176_consen 79 KWFD--------PDSLRVIIYDGDS 95 (299)
T ss_dssp HHSG--------T-TS-EEEESSSC
T ss_pred cccc--------ccccccccccccc
Confidence 8631 1234555555554
No 105
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.78 E-value=0.00011 Score=83.03 Aligned_cols=89 Identities=18% Similarity=0.144 Sum_probs=74.5
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCC--cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~--~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.-||+. ...|+..+.+|..-+.... +=++.+-.|+|||+..+++++.... .|. ++....||--+.+|..+.+.
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 9999999999999998885 5589999999999999988776543 245 99999999999999999999
Q ss_pred hhhhhccccCCCccceEEEEecCC
Q 004385 89 LLHNYQTRHLGPAAKILAIGLSSR 112 (757)
Q Consensus 89 ~l~~~~~~~~~~~~~~~~~~l~gr 112 (757)
++.+ +.++++..|.|+
T Consensus 333 ~~l~--------~~~i~V~lLtG~ 348 (677)
T COG1200 333 KWLE--------PLGIRVALLTGS 348 (677)
T ss_pred HHhh--------hcCCeEEEeecc
Confidence 8753 345777888776
No 106
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.73 E-value=8.5e-05 Score=82.20 Aligned_cols=71 Identities=21% Similarity=0.420 Sum_probs=51.7
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.+||.. .-++|++. |.-++..+...+|.+|+|||||..+-- .+.-+.. .++ +|++|.||+.-.+-+++.|-
T Consensus 180 ~~~~~~-ln~SQk~A---v~~~~~~k~l~~I~GPPGTGKT~TlvE-iI~qlvk--~~k-~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 180 TFFNKN-LNSSQKAA---VSFAINNKDLLIIHGPPGTGKTRTLVE-IISQLVK--QKK-RVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred ccCCcc-ccHHHHHH---HHHHhccCCceEeeCCCCCCceeeHHH-HHHHHHH--cCC-eEEEEcCchHHHHHHHHHhc
Confidence 456665 36888874 455666678899999999999986433 3333332 257 99999999999999998544
No 107
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.71 E-value=7.2e-05 Score=80.51 Aligned_cols=56 Identities=21% Similarity=0.248 Sum_probs=46.1
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCC-----CCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~-----~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
+..++=-|-||+|||.|++.|.+......+ +++ =.+|+++|.++..|+..|.+++-
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 445666799999999999999988765432 345 68999999999999999999874
No 108
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=97.68 E-value=0.00017 Score=80.15 Aligned_cols=81 Identities=16% Similarity=0.315 Sum_probs=57.4
Q ss_pred CCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhhhc
Q 004385 15 DNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQ 94 (757)
Q Consensus 15 ~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~ 94 (757)
+..-..|....+.|+ ++..-+|.+|+|||||.. ++++-|......+. +|++|.++..-.+|+.+.+.+.
T Consensus 409 pkLN~SQ~~AV~~VL----~rplsLIQGPPGTGKTvt--sa~IVyhl~~~~~~-~VLvcApSNiAVDqLaeKIh~t---- 477 (935)
T KOG1802|consen 409 PKLNASQSNAVKHVL----QRPLSLIQGPPGTGKTVT--SATIVYHLARQHAG-PVLVCAPSNIAVDQLAEKIHKT---- 477 (935)
T ss_pred hhhchHHHHHHHHHH----cCCceeeecCCCCCceeh--hHHHHHHHHHhcCC-ceEEEcccchhHHHHHHHHHhc----
Confidence 334567776554444 567889999999999986 45555544333345 8999999999999999877763
Q ss_pred cccCCCccceEEEEecCCcc
Q 004385 95 TRHLGPAAKILAIGLSSRKN 114 (757)
Q Consensus 95 ~~~~~~~~~~~~~~l~gr~~ 114 (757)
+ ++++.+-+|+.
T Consensus 478 ------g--LKVvRl~aksR 489 (935)
T KOG1802|consen 478 ------G--LKVVRLCAKSR 489 (935)
T ss_pred ------C--ceEeeeehhhh
Confidence 2 56666655544
No 109
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=97.56 E-value=0.00029 Score=85.32 Aligned_cols=72 Identities=17% Similarity=0.159 Sum_probs=55.6
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC-CCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~-~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.+||.|.+-+.-+.....++.++|+--..|.|||+-.++. +++.... +..+ +++|.+|. +++.|..+|+.+.
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIal-L~~L~~~~~~~g-p~LIVvP~-SlL~nW~~Ei~kw 241 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISL-LGYLHEYRGITG-PHMVVAPK-STLGNWMNEIRRF 241 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHH-HHHHHHhcCCCC-CEEEEeCh-HHHHHHHHHHHHH
Confidence 3699999999998888888999999999999999976543 4554432 2234 67777775 5678999999885
No 110
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.42 E-value=0.001 Score=79.70 Aligned_cols=88 Identities=19% Similarity=0.207 Sum_probs=72.4
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCCc--EEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHH
Q 004385 9 TVYFPYDNIYPEQYSYMLELKRALDAKGH--CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~--~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
.-.|||+. .|-|...+++|.+-+..++. =+|++-.|-|||-.++=+|-... .+|+ .|.+.+||.-|.+|-.+.
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 45799997 99999999999999999985 49999999999999887766543 3467 999999999999999998
Q ss_pred HHhhhhhccccCCCccceEEEEe
Q 004385 87 LKLLHNYQTRHLGPAAKILAIGL 109 (757)
Q Consensus 87 l~~l~~~~~~~~~~~~~~~~~~l 109 (757)
++.-- .+.++++-+|
T Consensus 663 FkeRF--------~~fPV~I~~L 677 (1139)
T COG1197 663 FKERF--------AGFPVRIEVL 677 (1139)
T ss_pred HHHHh--------cCCCeeEEEe
Confidence 77521 3566766554
No 111
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=97.34 E-value=0.00077 Score=79.38 Aligned_cols=140 Identities=13% Similarity=0.134 Sum_probs=80.7
Q ss_pred cccchHHhhccCeEEEeccCCCCCc-chhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHH
Q 004385 439 SLAVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 517 (757)
Q Consensus 439 s~~~~~l~~~~~svIltSgTL~p~~-~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~ 517 (757)
+..++.+|..++.+--|+||..... .|.+.-|++-+. +|.+ . |.+--+-++ .- +....+-+.+
T Consensus 374 sIT~QnfFr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~-------IPTn-k-P~~R~D~~d-----~v--y~t~~eK~~A 437 (913)
T PRK13103 374 STTFQNYFRLYNKLSGMTGTADTEAFEFRQIYGLDVVV-------IPPN-K-PLARKDFND-----LV--YLTAEEKYAA 437 (913)
T ss_pred eehHHHHHHhcchhccCCCCCHHHHHHHHHHhCCCEEE-------CCCC-C-CcccccCCC-----eE--EcCHHHHHHH
Confidence 3456788888888888999986542 455555554221 1111 1 010000011 11 2233444566
Q ss_pred HHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004385 518 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 597 (757)
Q Consensus 518 ~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv 597 (757)
+.+.+.++. ..+..+||-.+|-+.=+.+...++..++-.++...| ....+ ..++. ++ ...|+|-+|+
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 666666654 467899999999999999999998877543332211 11111 11222 22 3478999887
Q ss_pred ecCcccccccCC
Q 004385 598 ARGKVAEGIDFD 609 (757)
Q Consensus 598 ~~G~~~EGiDf~ 609 (757)
.-...|-|+.
T Consensus 505 --NMAGRGTDIk 514 (913)
T PRK13103 505 --NMAGRGTDIL 514 (913)
T ss_pred --cCCCCCCCEe
Confidence 3677999984
No 112
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=97.27 E-value=0.00052 Score=81.96 Aligned_cols=72 Identities=19% Similarity=0.269 Sum_probs=59.2
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
-.|||+. .|-|++.+ .+|+++..++++||||.|||...-.+ ++++... +. |+||.||.+++-+|...|+..
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 3589996 89999864 56678999999999999999977654 5555543 67 899999999999999998775
Q ss_pred h
Q 004385 90 L 90 (757)
Q Consensus 90 l 90 (757)
.
T Consensus 185 ~ 185 (1041)
T COG4581 185 K 185 (1041)
T ss_pred H
Confidence 4
No 113
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.27 E-value=0.00017 Score=73.59 Aligned_cols=73 Identities=19% Similarity=0.103 Sum_probs=52.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhH---HHHHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM---EKTLAELK 88 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~---~Q~~~el~ 88 (757)
-+|+.|.|.|.+-+--+. .|+.+++-|-.|||||.||.+|.|.-....... ...+|.++|..+. .|+..++.
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 367777899988654433 478899999999999999999999865543323 3778888887754 44555555
Q ss_pred h
Q 004385 89 L 89 (757)
Q Consensus 89 ~ 89 (757)
+
T Consensus 178 k 178 (459)
T KOG0326|consen 178 K 178 (459)
T ss_pred c
Confidence 4
No 114
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.24 E-value=0.0007 Score=68.90 Aligned_cols=67 Identities=27% Similarity=0.376 Sum_probs=44.8
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHH------HcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV------LSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~------~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
-+.|.+.+ ..++......+|.+|+|||||... +.++... .....+. +|+++++|+.-.+.+++.+.+
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 46777754 445555456999999999999543 3334443 1123456 999999999999999998777
No 115
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=97.24 E-value=0.00045 Score=75.40 Aligned_cols=88 Identities=20% Similarity=0.175 Sum_probs=60.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC-----------CCCcE--EEEEccchhh
Q 004385 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----------ENPVK--LIYCTRTVHE 79 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~-----------~~~~k--vi~~T~T~~l 79 (757)
.|..|.|.|.-.+ -.|+..+..++=-|-||+||||||=+|.++-..... ... + .+|.|||..+
T Consensus 200 gFs~Pt~IQsl~l---p~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~-k~~~LV~tPTREL 275 (731)
T KOG0347|consen 200 GFSRPTEIQSLVL---PAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYV-KPIALVVTPTREL 275 (731)
T ss_pred CCCCCccchhhcc---cHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccC-cceeEEecChHHH
Confidence 5666667776543 233444467777899999999999999987322110 122 5 8999999999
Q ss_pred HHHHHHHHHhhhhhccccCCCccceEEEEecCC
Q 004385 80 MEKTLAELKLLHNYQTRHLGPAAKILAIGLSSR 112 (757)
Q Consensus 80 ~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr 112 (757)
.-|+..-|..+.. ...++++.+.|.
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 9999998887643 245666666554
No 116
>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=96.97 E-value=0.0016 Score=64.58 Aligned_cols=57 Identities=26% Similarity=0.229 Sum_probs=40.4
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchh
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~ 78 (757)
|..+.|..+++.+. +....++.+|.|||||+..+..|+..... +.-. ||||+-++.+
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 34689999988877 67899999999999999999998887765 3345 8888877764
No 117
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=96.95 E-value=0.0055 Score=70.73 Aligned_cols=140 Identities=14% Similarity=0.185 Sum_probs=82.2
Q ss_pred cccchHHhhccCeEEEeccCCCCC-cchhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHH
Q 004385 439 SLAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 517 (757)
Q Consensus 439 s~~~~~l~~~~~svIltSgTL~p~-~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~ 517 (757)
+..++.+|..++.+--|+||.... +.|.+..+++-+ .+|.+. |.+--+.++. - ++...+-+.+
T Consensus 352 sIT~QnfFr~Y~kLsGMTGTa~t~~~Ef~~iY~l~Vv-------~IPtnk--p~~R~d~~d~-----i--y~t~~~k~~A 415 (764)
T PRK12326 352 TITVQALIGRYPTVCGMTGTAVAAGEQLRQFYDLGVS-------VIPPNK--PNIREDEADR-----V--YATAAEKNDA 415 (764)
T ss_pred hhhHHHHHHhcchheeecCCChhHHHHHHHHhCCcEE-------ECCCCC--CceeecCCCc-----e--EeCHHHHHHH
Confidence 345688898888999999999654 355555565421 112111 1111111111 1 2223445667
Q ss_pred HHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004385 518 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 597 (757)
Q Consensus 518 ~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv 597 (757)
+.+.+.++. ..+..+||.++|-..-+.+...+++.++- + .++- .++...-..++ .++ ...|+|-+|+
T Consensus 416 ii~ei~~~~-~~GrPVLVgt~sI~~SE~ls~~L~~~gI~-----h-~vLN-Ak~~~~EA~II---a~A--G~~gaVTIAT 482 (764)
T PRK12326 416 IVEHIAEVH-ETGQPVLVGTHDVAESEELAERLRAAGVP-----A-VVLN-AKNDAEEARII---AEA--GKYGAVTVST 482 (764)
T ss_pred HHHHHHHHH-HcCCCEEEEeCCHHHHHHHHHHHHhCCCc-----c-eeec-cCchHhHHHHH---Hhc--CCCCcEEEEe
Confidence 777776654 46789999999999999999999877641 1 1332 22211111122 232 3468999988
Q ss_pred ecCcccccccCC
Q 004385 598 ARGKVAEGIDFD 609 (757)
Q Consensus 598 ~~G~~~EGiDf~ 609 (757)
. -...|.|+.
T Consensus 483 N--MAGRGTDIk 492 (764)
T PRK12326 483 Q--MAGRGTDIR 492 (764)
T ss_pred c--CCCCccCee
Confidence 3 677999985
No 118
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=96.95 E-value=0.007 Score=70.69 Aligned_cols=139 Identities=21% Similarity=0.236 Sum_probs=88.8
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhhhcccc
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRH 97 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~ 97 (757)
-..|++. +.+++....+++|.+=+|||||-. ++.++..+.+. ++ +|+.++-||+-.+-++--|+.
T Consensus 671 N~dQr~A---~~k~L~aedy~LI~GMPGTGKTTt-I~~LIkiL~~~--gk-kVLLtsyThsAVDNILiKL~~-------- 735 (1100)
T KOG1805|consen 671 NNDQRQA---LLKALAAEDYALILGMPGTGKTTT-ISLLIKILVAL--GK-KVLLTSYTHSAVDNILIKLKG-------- 735 (1100)
T ss_pred CHHHHHH---HHHHHhccchheeecCCCCCchhh-HHHHHHHHHHc--CC-eEEEEehhhHHHHHHHHHHhc--------
Confidence 4578774 567778899999999999999864 23333333332 67 999999999998888765543
Q ss_pred CCCccceEEEEecCCcccccchHHhhhcCcccHHHHHHHhhhHHHHHhhhcCCCCCCCcCccchHHhhhcCCCCCCCCCH
Q 004385 98 LGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPPGVYTL 177 (757)
Q Consensus 98 ~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~i 177 (757)
..+.++-|++... +++.+.. .|.
T Consensus 736 ----~~i~~lRLG~~~k--ih~~v~e---------~~~------------------------------------------ 758 (1100)
T KOG1805|consen 736 ----FGIYILRLGSEEK--IHPDVEE---------FTL------------------------------------------ 758 (1100)
T ss_pred ----cCcceeecCCccc--cchHHHH---------Hhc------------------------------------------
Confidence 2233343443321 2332211 110
Q ss_pred HHHHHhcccCCCCchHHHHhccccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChh
Q 004385 178 QDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNID 240 (757)
Q Consensus 178 e~l~~~~~~~~~CpY~~ar~~~~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~ 240 (757)
+.....|.|..-++....-.||.|+=.-+-+|.... ..++++|||||-.+.
T Consensus 759 ------~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~plf~~------R~FD~cIiDEASQI~ 809 (1100)
T KOG1805|consen 759 ------TNETSEKSYADLKKFLDQTSIVACTCLGINHPLFVN------RQFDYCIIDEASQIL 809 (1100)
T ss_pred ------ccccchhhHHHHHHHhCCCcEEEEEccCCCchhhhc------cccCEEEEccccccc
Confidence 222344666666777888899998866665665422 258899999997764
No 119
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.95 E-value=0.0022 Score=66.70 Aligned_cols=70 Identities=20% Similarity=0.148 Sum_probs=60.1
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.|.|.|..-+-+|+ +|..++=.|-||+|||.++-+|.+.-+...|.+. =.+|.|||+.+.-|+-+.+..+
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 35899998777776 6889999999999999999999998777777665 7889999999999999887765
No 120
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=96.92 E-value=0.0023 Score=75.05 Aligned_cols=59 Identities=19% Similarity=0.283 Sum_probs=46.8
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC------CCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK------PENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 31 ~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~------~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
|...+++.+|.||||+|||-.+++..|.-.+.. ..+..||||..|+++|..-+++...+
T Consensus 122 aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~k 186 (1230)
T KOG0952|consen 122 AYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSK 186 (1230)
T ss_pred hhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhh
Confidence 445678999999999999999998888766531 01234999999999999999887554
No 121
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=96.91 E-value=0.0022 Score=76.73 Aligned_cols=73 Identities=25% Similarity=0.172 Sum_probs=59.4
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHc-CCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS-KPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~-~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.++.|....+.+.+--..+...+++||||.|||.+.+.++..-... ..... |+||..++++..++..+.++..
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 3788888887777666555599999999999999999988776654 22345 9999999999999999987765
No 122
>KOG4284 consensus DEAD box protein [Transcription]
Probab=96.77 E-value=0.001 Score=73.95 Aligned_cols=75 Identities=17% Similarity=0.122 Sum_probs=56.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhC-------------------CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 15 DNIYPEQYSYMLELKRALDAK-------------------GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 15 ~~~r~~Q~~~~~~v~~~l~~~-------------------~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
.++-++|..+-..|...|... =.++|.|-.|||||+.|-+.|+.-........ .++|.|+
T Consensus 23 ~~~~fe~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~-q~~Iv~P 101 (980)
T KOG4284|consen 23 CTPGFEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHI-QKVIVTP 101 (980)
T ss_pred CCCCHHHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcc-eeEEEec
Confidence 344677777777777777632 25899999999999999887776544333344 8999999
Q ss_pred chhhHHHHHHHHHhh
Q 004385 76 TVHEMEKTLAELKLL 90 (757)
Q Consensus 76 T~~l~~Q~~~el~~l 90 (757)
|....-|+-+-+.++
T Consensus 102 TREiaVQI~~tv~~v 116 (980)
T KOG4284|consen 102 TREIAVQIKETVRKV 116 (980)
T ss_pred chhhhhHHHHHHHHh
Confidence 999999988877765
No 123
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.70 E-value=0.0016 Score=69.12 Aligned_cols=74 Identities=20% Similarity=0.162 Sum_probs=60.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.|..|.|.|+..|.-|+ +++.++--|-||+|||.|+++|++..+........|.++.++|..+..|.++=++.+
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 46667899998887766 567788889999999999999999887765433459999999999999998855554
No 124
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=96.60 E-value=0.014 Score=68.23 Aligned_cols=70 Identities=21% Similarity=0.236 Sum_probs=58.4
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.-+.|......|...+..-...++.+-||+|||-.||-.+-.... .|+ .+++..|-+++..|+++.++..
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 468899999999888833478999999999999999976544443 367 9999999999999999988864
No 125
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=96.58 E-value=0.0074 Score=68.71 Aligned_cols=73 Identities=14% Similarity=0.159 Sum_probs=56.2
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCC-CCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~-~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
.+|+.|.+=++=++.-..+|-++++----|-|||+--+ +.|+|...... .+ +-+|++|--. +...++|+++..
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtI-s~l~yl~~~~~~~G-PfLVi~P~St-L~NW~~Ef~rf~ 240 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTI-SLLGYLKGRKGIPG-PFLVIAPKST-LDNWMNEFKRFT 240 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHH-HHHHHHHHhcCCCC-CeEEEeeHhh-HHHHHHHHHHhC
Confidence 36999999999999999999999999999999999754 45677765322 34 5666666544 568899999864
No 126
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=96.54 E-value=0.0056 Score=56.53 Aligned_cols=54 Identities=20% Similarity=0.232 Sum_probs=36.1
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
.+|+.-+|...+|+|||--.|--.+.-+... +. |++++.+|....+-+-+.|+.
T Consensus 2 ~kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~--~~-rvLvL~PTRvva~em~~aL~~ 55 (148)
T PF07652_consen 2 RKGELTVLDLHPGAGKTRRVLPEIVREAIKR--RL-RVLVLAPTRVVAEEMYEALKG 55 (148)
T ss_dssp STTEEEEEE--TTSSTTTTHHHHHHHHHHHT--T---EEEEESSHHHHHHHHHHTTT
T ss_pred CCCceeEEecCCCCCCcccccHHHHHHHHHc--cC-eEEEecccHHHHHHHHHHHhc
Confidence 3566778999999999998775544433322 45 999999999988777665543
No 127
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=96.52 E-value=0.0017 Score=65.42 Aligned_cols=75 Identities=11% Similarity=0.069 Sum_probs=57.5
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.++|+.|...|...+..|. .|..+++.|.+|||||.+|-++.+.-..-.. ..+.+++.|||..+..|+-+-+..|
T Consensus 44 ~yGfekPS~IQqrAi~~Il----kGrdViaQaqSGTGKTa~~si~vlq~~d~~~-r~tQ~lilsPTRELa~Qi~~vi~al 118 (400)
T KOG0328|consen 44 AYGFEKPSAIQQRAIPQIL----KGRDVIAQAQSGTGKTATFSISVLQSLDISV-RETQALILSPTRELAVQIQKVILAL 118 (400)
T ss_pred HhccCCchHHHhhhhhhhh----cccceEEEecCCCCceEEEEeeeeeeccccc-ceeeEEEecChHHHHHHHHHHHHHh
Confidence 3688888888888766665 6899999999999999998877664322211 2248999999999999988766655
No 128
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.45 E-value=0.011 Score=58.68 Aligned_cols=61 Identities=20% Similarity=0.194 Sum_probs=42.5
Q ss_pred CHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH
Q 004385 18 YPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~-~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
.++|++++..+. ..+ +..+|.+|.|||||..+ ..+....... +. +|+++++|+.....+-+
T Consensus 3 ~~~Q~~a~~~~l---~~~~~~~~l~G~aGtGKT~~l-~~~~~~~~~~--g~-~v~~~apT~~Aa~~L~~ 64 (196)
T PF13604_consen 3 NEEQREAVRAIL---TSGDRVSVLQGPAGTGKTTLL-KALAEALEAA--GK-RVIGLAPTNKAAKELRE 64 (196)
T ss_dssp -HHHHHHHHHHH---HCTCSEEEEEESTTSTHHHHH-HHHHHHHHHT--T---EEEEESSHHHHHHHHH
T ss_pred CHHHHHHHHHHH---hcCCeEEEEEECCCCCHHHHH-HHHHHHHHhC--CC-eEEEECCcHHHHHHHHH
Confidence 578999887764 344 57899999999999864 3334443333 45 99999999998776554
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=96.23 E-value=0.016 Score=68.07 Aligned_cols=67 Identities=25% Similarity=0.348 Sum_probs=50.2
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
.+-+.|++.+ ..++..+...+|.+|+|||||-..... +..+.. .+. +|+++++|+.-.+++++.|..
T Consensus 157 ~ln~~Q~~Av---~~~l~~~~~~lI~GpPGTGKT~t~~~i-i~~~~~--~g~-~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 157 NLNESQKEAV---SFALSSKDLFLIHGPPGTGKTRTLVEL-IRQLVK--RGL-RVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCHHHHHHH---HHHhcCCCeEEEEcCCCCCHHHHHHHH-HHHHHH--cCC-CEEEEcCcHHHHHHHHHHHHh
Confidence 4578898854 556666789999999999999654433 332222 256 899999999999999987765
No 130
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.22 E-value=0.016 Score=69.40 Aligned_cols=72 Identities=22% Similarity=0.149 Sum_probs=57.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC----------------------------------CcEEEEcCCCCcHHHHHHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAK----------------------------------GHCLLEMPTGTGKTIALLSLIT 57 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~----------------------------------~~~liEaPTGtGKTla~L~~al 57 (757)
|-|+. =|.|.+...+|..+|..= .++.++++||||||.+||...+
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 55676 699999999999988531 3789999999999999998876
Q ss_pred HHHHcCCCCCcEEEEEccchhhHHHHHHH
Q 004385 58 SYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 58 ~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
......+ -. ++||.+|+.+-.+.+.+-
T Consensus 82 ~l~~~~~-~~-~fii~vp~~aI~egv~~~ 108 (986)
T PRK15483 82 ELHQKYG-LF-KFIIVVPTPAIKEGTRNF 108 (986)
T ss_pred HHHHHcC-Cc-EEEEEeCCHHHHHHHHHH
Confidence 6655543 24 899999999887777653
No 131
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=96.19 E-value=0.0084 Score=63.80 Aligned_cols=71 Identities=18% Similarity=0.152 Sum_probs=52.0
Q ss_pred eeCCCCC-CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 10 VYFPYDN-IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 10 v~FPy~~-~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
-.|+|.+ -.|-|.+... -++..+..+.+.+|||.||||+|-+|+|.. +. =.|+.++-.+++.--++-|.
T Consensus 13 K~FGh~kFKs~LQE~A~~---c~VK~k~DVyVsMPTGaGKSLCyQLPaL~~------~g-ITIV~SPLiALIkDQiDHL~ 82 (641)
T KOG0352|consen 13 KLFGHKKFKSRLQEQAIN---CIVKRKCDVYVSMPTGAGKSLCYQLPALVH------GG-ITIVISPLIALIKDQIDHLK 82 (641)
T ss_pred HHhCchhhcChHHHHHHH---HHHhccCcEEEeccCCCchhhhhhchHHHh------CC-eEEEehHHHHHHHHHHHHHH
Confidence 3577764 2577887544 445677899999999999999999999863 23 35566788888777677676
Q ss_pred hh
Q 004385 89 LL 90 (757)
Q Consensus 89 ~l 90 (757)
+|
T Consensus 83 ~L 84 (641)
T KOG0352|consen 83 RL 84 (641)
T ss_pred hc
Confidence 64
No 132
>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=96.16 E-value=0.012 Score=48.76 Aligned_cols=43 Identities=26% Similarity=0.470 Sum_probs=34.5
Q ss_pred hhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCC
Q 004385 573 VETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPF 623 (757)
Q Consensus 573 ~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPf 623 (757)
.....++++|+. ++..||++. ..+++|||+|+ ++.||..+.|+
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 445677888886 567899887 58999999995 88899999754
No 133
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=96.14 E-value=0.071 Score=60.03 Aligned_cols=77 Identities=21% Similarity=0.267 Sum_probs=55.3
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccC
Q 004385 529 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 608 (757)
Q Consensus 529 ~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf 608 (757)
-..++++|..+-.....+...+...++ ...+.- .....++..++++|++ +.--+|+++ .-+.||||+
T Consensus 282 ~~~~~lif~~~~~~a~~i~~~~~~~~~------~~~it~-~t~~~eR~~il~~fr~----g~~~~lv~~--~vl~EGvDi 348 (442)
T COG1061 282 RGDKTLIFASDVEHAYEIAKLFLAPGI------VEAITG-ETPKEEREAILERFRT----GGIKVLVTV--KVLDEGVDI 348 (442)
T ss_pred CCCcEEEEeccHHHHHHHHHHhcCCCc------eEEEEC-CCCHHHHHHHHHHHHc----CCCCEEEEe--eeccceecC
Confidence 356999999999999999888765542 112222 2233578889999997 344577766 369999999
Q ss_pred CCCCceEEEEec
Q 004385 609 DRHYGRLVIMFG 620 (757)
Q Consensus 609 ~~~~~r~Vii~g 620 (757)
|+ +.++|+++
T Consensus 349 P~--~~~~i~~~ 358 (442)
T COG1061 349 PD--ADVLIILR 358 (442)
T ss_pred CC--CcEEEEeC
Confidence 98 66788887
No 134
>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=95.82 E-value=0.021 Score=60.92 Aligned_cols=65 Identities=25% Similarity=0.328 Sum_probs=44.5
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC--CCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~--~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.++|.+++.. ..++++|.|+.|||||.+++.-++ |+.... ... +|++.|-|+.....+.+.+...
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 3677776543 479999999999999998766543 433332 234 8999999998776666655543
No 135
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=95.80 E-value=0.024 Score=46.83 Aligned_cols=43 Identities=23% Similarity=0.499 Sum_probs=33.2
Q ss_pred hhHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCC
Q 004385 573 VETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPF 623 (757)
Q Consensus 573 ~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPf 623 (757)
.+....++.|++ +...||+++ ..+++|+|+++ ++.||+.+.|+
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 345667777875 456788876 58999999987 88999999754
No 136
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=95.72 E-value=0.015 Score=60.79 Aligned_cols=69 Identities=22% Similarity=0.258 Sum_probs=52.3
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
-|..+..||-|++.++.+. .++.+++-.|||-||+|+|-+|||.. .. =.++.+|-+++++.-+-.|+.|
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 3556678999999877665 68899999999999999999999862 23 3556667888776555456654
No 137
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=95.70 E-value=0.15 Score=56.46 Aligned_cols=75 Identities=19% Similarity=0.209 Sum_probs=61.4
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHH
Q 004385 8 VTVYFPYDNIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 8 ~~v~FPy~~~r~~Q~~~~~~v~~~l~~~-~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
..++=||+| -.-|-+.+.++.+.+.+| ++-++-+-||||||++.- -.++ . -++ +.+|..+.+++..|+..|
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 456678986 899999999999999998 578889999999998732 2222 1 135 789999999999999999
Q ss_pred HHhh
Q 004385 87 LKLL 90 (757)
Q Consensus 87 l~~l 90 (757)
++.+
T Consensus 77 fk~f 80 (663)
T COG0556 77 FKEF 80 (663)
T ss_pred HHHh
Confidence 9986
No 138
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=95.61 E-value=0.036 Score=62.73 Aligned_cols=28 Identities=21% Similarity=0.298 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHH
Q 004385 23 SYMLELKRALDAKGHCLLEMPTGTGKTI 50 (757)
Q Consensus 23 ~~~~~v~~~l~~~~~~liEaPTGtGKTl 50 (757)
++..+|..++.+.+.++|-+.||+|||-
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKST 81 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKST 81 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCccc
Confidence 6788999999999999999999999995
No 139
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=95.60 E-value=0.034 Score=66.74 Aligned_cols=77 Identities=22% Similarity=0.283 Sum_probs=58.8
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCC-------CCcEEEEEccchhhHHHHHHHHHhhhhhccccCCCccc
Q 004385 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-------NPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAK 103 (757)
Q Consensus 31 ~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~-------~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~ 103 (757)
++...+|+++.||||.|||-..+..+|.-+..+.. ...||+|-.++++|.+-+++.+.+-+ .+.+
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 44556899999999999999998888876654321 23499999999999999999876532 2456
Q ss_pred eEEEEecCCccc
Q 004385 104 ILAIGLSSRKNL 115 (757)
Q Consensus 104 ~~~~~l~gr~~l 115 (757)
++++-+.|-.++
T Consensus 393 I~V~ElTgD~~l 404 (1674)
T KOG0951|consen 393 ITVLELTGDSQL 404 (1674)
T ss_pred cEEEEecccccc
Confidence 777778777553
No 140
>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=95.60 E-value=0.13 Score=60.64 Aligned_cols=96 Identities=23% Similarity=0.284 Sum_probs=64.7
Q ss_pred ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCC-chhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004385 528 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 606 (757)
Q Consensus 528 ~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGi 606 (757)
..++.+|||+.+-..++.+...+. . -++.+.. ..++..++++|+.. +.-.+|+.+. -..|||
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 355689999988888777766542 1 2333432 35688899999852 3334666553 457999
Q ss_pred cCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCC
Q 004385 607 DFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKAD 671 (757)
Q Consensus 607 Df~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D 671 (757)
|+|+ +.+||++..|+-++ +...|.+||+.|-+.+
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 77889888775432 2234888999997654
No 141
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=95.57 E-value=0.0091 Score=71.84 Aligned_cols=69 Identities=19% Similarity=0.260 Sum_probs=53.5
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHH
Q 004385 8 VTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (757)
Q Consensus 8 ~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el 87 (757)
....|.+...||.|.+++. +...|+..++.+|||-||+++|-+||+.+ ++ -.++.+|-.+|++-.+.-|
T Consensus 256 l~~~Fg~~~FR~~Q~eaI~----~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~------~g-itvVISPL~SLm~DQv~~L 324 (941)
T KOG0351|consen 256 LKEVFGHKGFRPNQLEAIN----ATLSGKDCFVLMPTGGGKSLCYQLPALLL------GG-VTVVISPLISLMQDQVTHL 324 (941)
T ss_pred HHHHhccccCChhHHHHHH----HHHcCCceEEEeecCCceeeEeecccccc------CC-ceEEeccHHHHHHHHHHhh
Confidence 3456999999999999866 55579999999999999999999998864 24 4566678888765444333
No 142
>PRK10536 hypothetical protein; Provisional
Probab=95.56 E-value=0.039 Score=56.47 Aligned_cols=55 Identities=22% Similarity=0.207 Sum_probs=36.3
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~ 78 (757)
....|..++..+ .+...+++.+|+|||||+..++.++..... + .++.+|.||..-
T Consensus 60 ~n~~Q~~~l~al----~~~~lV~i~G~aGTGKT~La~a~a~~~l~~-~--~~~kIiI~RP~v 114 (262)
T PRK10536 60 RNEAQAHYLKAI----ESKQLIFATGEAGCGKTWISAAKAAEALIH-K--DVDRIIVTRPVL 114 (262)
T ss_pred CCHHHHHHHHHH----hcCCeEEEECCCCCCHHHHHHHHHHHHHhc-C--CeeEEEEeCCCC
Confidence 456777777644 456799999999999999877766643322 2 234444455544
No 143
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=95.50 E-value=0.1 Score=61.78 Aligned_cols=140 Identities=15% Similarity=0.162 Sum_probs=79.0
Q ss_pred ccchHHhhccCeEEEeccCCCCCc-chhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHH
Q 004385 440 LAVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNY 518 (757)
Q Consensus 440 ~~~~~l~~~~~svIltSgTL~p~~-~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~ 518 (757)
..++.+|..++.+--|+||..... .|.+.-|++-+. +|.+ . |..--+-++. - ++...+-+.++
T Consensus 365 IT~QnfFr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~-------IPTn-k-P~~R~d~~d~-----v--y~t~~~K~~Ai 428 (939)
T PRK12902 365 ITYQNFFLLYPKLAGMTGTAKTEEVEFEKTYKLEVTV-------IPTN-R-PRRRQDWPDQ-----V--YKTEIAKWRAV 428 (939)
T ss_pred eeHHHHHhhCchhcccCCCCHHHHHHHHHHhCCcEEE-------cCCC-C-CeeeecCCCe-----E--EcCHHHHHHHH
Confidence 446888888888999999986543 355555554221 1111 1 0100011111 1 22233445666
Q ss_pred HHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeC-CCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004385 519 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVFFSV 597 (757)
Q Consensus 519 ~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~-~~~~~~~~~l~~f~~~~~~~~~avL~gv 597 (757)
.+.+.++. ..+..+||-..|-+.=+.+...+...|+-.+ |+--. .+...-..++. ++ ...|+|-+|+
T Consensus 429 ~~ei~~~~-~~GrPVLIgT~SVe~SE~ls~~L~~~gi~h~------vLNAk~~~~~~EA~IIa---~A--G~~GaVTIAT 496 (939)
T PRK12902 429 ANETAEMH-KQGRPVLVGTTSVEKSELLSALLQEQGIPHN------LLNAKPENVEREAEIVA---QA--GRKGAVTIAT 496 (939)
T ss_pred HHHHHHHH-hCCCCEEEeeCCHHHHHHHHHHHHHcCCchh------eeeCCCcchHhHHHHHH---hc--CCCCcEEEec
Confidence 66666654 4678999999999999999999988775322 33211 12111112222 22 3468888877
Q ss_pred ecCcccccccCC
Q 004385 598 ARGKVAEGIDFD 609 (757)
Q Consensus 598 ~~G~~~EGiDf~ 609 (757)
.-...|-|+.
T Consensus 497 --NMAGRGTDIk 506 (939)
T PRK12902 497 --NMAGRGTDII 506 (939)
T ss_pred --cCCCCCcCEe
Confidence 3567888873
No 144
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=95.46 E-value=0.18 Score=62.86 Aligned_cols=114 Identities=11% Similarity=0.102 Sum_probs=74.0
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhccc--HHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004385 529 VPDGIVCFFVSYSYMDEIIATWNDSGI--LKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 606 (757)
Q Consensus 529 ~~gg~Lv~f~Sy~~l~~v~~~~~~~~~--~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGi 606 (757)
.++.++||+.|-...+.+.+.+.+..- +........+.+.+ +......++++|+.. ....|+++| +-+++||
T Consensus 697 ~~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~~~~~~v~~itg-~~~~~~~li~~Fk~~---~~p~IlVsv--dmL~TG~ 770 (1123)
T PRK11448 697 GEGKTLIFAATDAHADMVVRLLKEAFKKKYGQVEDDAVIKITG-SIDKPDQLIRRFKNE---RLPNIVVTV--DLLTTGI 770 (1123)
T ss_pred CCCcEEEEEcCHHHHHHHHHHHHHHHHhhcCCcCccceEEEeC-CccchHHHHHHHhCC---CCCeEEEEe--cccccCC
Confidence 458999999999998888877654200 00010001111222 223456789999862 223578877 6899999
Q ss_pred cCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCC--CeeEEEEeec
Q 004385 607 DFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA--DYGMMIFADK 680 (757)
Q Consensus 607 Df~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~--D~G~villD~ 680 (757)
|+|. +.+||+.+-| .+ .....|.+||..|-.. |.-.++++|-
T Consensus 771 DvP~--v~~vVf~rpv----kS--------------------------~~lf~QmIGRgtR~~~~~~K~~f~I~D~ 814 (1123)
T PRK11448 771 DVPS--ICNLVFLRRV----RS--------------------------RILYEQMLGRATRLCPEIGKTHFRIFDA 814 (1123)
T ss_pred Cccc--ccEEEEecCC----CC--------------------------HHHHHHHHhhhccCCccCCCceEEEEeh
Confidence 9995 7888988843 11 2334589999999766 4667788884
No 145
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=95.43 E-value=0.45 Score=56.19 Aligned_cols=106 Identities=11% Similarity=0.190 Sum_probs=67.0
Q ss_pred cCCcEEEEecChH--------HHHHHHHHHhhcccHHHHhcCccEEEeCC-CchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004385 529 VPDGIVCFFVSYS--------YMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSVAR 599 (757)
Q Consensus 529 ~~gg~Lv~f~Sy~--------~l~~v~~~~~~~~~~~~~~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~avL~gv~~ 599 (757)
.+..++||+|... ..+.+++.|.+. +...+..++.++ ...++..++++|++ |+..||+|+.
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 3567899998753 333444444431 112233444443 23456778899986 6778999884
Q ss_pred CcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEE
Q 004385 600 GKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIF 677 (757)
Q Consensus 600 G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~vil 677 (757)
-+.+|||+|+ .+.||+...|--. +..+.|..||+=|.... |..++
T Consensus 517 -vie~GvDiP~--v~~VIi~~~~r~g-----------------------------ls~lhQ~~GRvGR~g~~-g~~il 561 (630)
T TIGR00643 517 -VIEVGVDVPN--ATVMVIEDAERFG-----------------------------LSQLHQLRGRVGRGDHQ-SYCLL 561 (630)
T ss_pred -eeecCcccCC--CcEEEEeCCCcCC-----------------------------HHHHHHHhhhcccCCCC-cEEEE
Confidence 8999999998 5678877654210 12456899999887544 54444
No 146
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=95.33 E-value=0.076 Score=62.84 Aligned_cols=140 Identities=12% Similarity=0.160 Sum_probs=79.4
Q ss_pred cccchHHhhccCeEEEeccCCCCCc-chhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHH
Q 004385 439 SLAVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 517 (757)
Q Consensus 439 s~~~~~l~~~~~svIltSgTL~p~~-~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~ 517 (757)
+..++.+|..++.+.-|+||..... .|.+.-|++-+. +|.+. |..-.+-++. - +.+..+-+..
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-----I--YKDELSKWRA 412 (870)
T ss_pred eeeHHHHHHhCchhcccCCCCHHHHHHHHHHhCCCEEE-------CCCCC--CccceeCCCe-----E--EeCHHHHHHH
Confidence 3456888998899999999997642 455455554221 11110 0000000111 1 2223333456
Q ss_pred HHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCC--chhHHHHHHHHHHhccCCCCeEEE
Q 004385 518 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD--VVETTLALDNYRKACDCGRGAVFF 595 (757)
Q Consensus 518 ~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~--~~~~~~~l~~f~~~~~~~~~avL~ 595 (757)
+.+.+.+.. ..+..+||-..|-..=+.+...+.+.++-.+ |+ -.++ ...-..++. ++ ..+|+|-+
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 666665543 4678999999999999999988887764221 32 1221 111122232 22 34688988
Q ss_pred EeecCcccccccCC
Q 004385 596 SVARGKVAEGIDFD 609 (757)
Q Consensus 596 gv~~G~~~EGiDf~ 609 (757)
|+ .-...|.|+.
T Consensus 480 AT--NMAGRGTDI~ 491 (870)
T CHL00122 480 AT--NMAGRGTDII 491 (870)
T ss_pred ec--cccCCCcCee
Confidence 87 3678999973
No 147
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=95.30 E-value=0.038 Score=60.85 Aligned_cols=174 Identities=16% Similarity=0.276 Sum_probs=101.6
Q ss_pred cchHHhhccCeEEEeccCCCCCcchhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHH
Q 004385 441 AVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGK 520 (757)
Q Consensus 441 ~~~~l~~~~~svIltSgTL~p~~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~ 520 (757)
-|.++......+|+.|||=.+.+. +..-..+ ..-.+.+.++. +-.-.-|.....++.+..
T Consensus 378 ~feEf~~~~~q~i~VSATPg~~E~---e~s~~~v----veQiIRPTGLl-------------DP~ievRp~~~QvdDL~~ 437 (663)
T COG0556 378 KFEEFEAKIPQTIYVSATPGDYEL---EQSGGNV----VEQIIRPTGLL-------------DPEIEVRPTKGQVDDLLS 437 (663)
T ss_pred CHHHHHHhcCCEEEEECCCChHHH---HhccCce----eEEeecCCCCC-------------CCceeeecCCCcHHHHHH
Confidence 357777888999999999776431 1100000 00111122211 111111222223344444
Q ss_pred HHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCC-CchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004385 521 LLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSVAR 599 (757)
Q Consensus 521 ~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~avL~gv~~ 599 (757)
.|..-+. ...++||-.-..++-+.+.+++.+.|+ |.-|..+. +.-++.+++...|. |.=-||+|+.
T Consensus 438 EI~~r~~-~~eRvLVTtLTKkmAEdLT~Yl~e~gi-------kv~YlHSdidTlER~eIirdLR~----G~~DvLVGIN- 504 (663)
T COG0556 438 EIRKRVA-KNERVLVTTLTKKMAEDLTEYLKELGI-------KVRYLHSDIDTLERVEIIRDLRL----GEFDVLVGIN- 504 (663)
T ss_pred HHHHHHh-cCCeEEEEeehHHHHHHHHHHHHhcCc-------eEEeeeccchHHHHHHHHHHHhc----CCccEEEeeh-
Confidence 4544333 348999999999999999999998874 33343321 22355667777665 6667999994
Q ss_pred CcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEE
Q 004385 600 GKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIF 677 (757)
Q Consensus 600 G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~vil 677 (757)
=+-||+|+|.- ..|.|.-- | |--+| ..-+.+.|-+||.-|+.+ |-||+
T Consensus 505 -LLREGLDiPEV--sLVAIlDA------D-----KeGFL--------------Rse~SLIQtIGRAARN~~--GkvIl 552 (663)
T COG0556 505 -LLREGLDLPEV--SLVAILDA------D-----KEGFL--------------RSERSLIQTIGRAARNVN--GKVIL 552 (663)
T ss_pred -hhhccCCCcce--eEEEEeec------C-----ccccc--------------cccchHHHHHHHHhhccC--CeEEE
Confidence 79999999983 44444321 1 11111 134678899999999554 66666
No 148
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=95.18 E-value=0.25 Score=58.15 Aligned_cols=75 Identities=19% Similarity=0.164 Sum_probs=60.6
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHHhCC-cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHH
Q 004385 9 TVYFPYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (757)
Q Consensus 9 ~v~FPy~~~r~~Q~~~~~~v~~~l~~~~-~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el 87 (757)
.+.=||+| .-.|.+.+.++.+.+.++. +.++-+-||+|||+.+ +.+ ++. .++ +++|.|++..+..|+.+||
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---VNR-PTLVIAHNKTLAAQLYNEF 74 (655)
T ss_pred eeccCCCC-ChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHH--HHH-HHH---hCC-CEEEEECCHHHHHHHHHHH
Confidence 45669996 8999999999999998773 6779999999999863 222 222 145 8999999999999999999
Q ss_pred Hhhh
Q 004385 88 KLLH 91 (757)
Q Consensus 88 ~~l~ 91 (757)
+.+.
T Consensus 75 ~~f~ 78 (655)
T TIGR00631 75 KEFF 78 (655)
T ss_pred HHhC
Confidence 9863
No 149
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=95.14 E-value=0.013 Score=62.00 Aligned_cols=73 Identities=15% Similarity=0.157 Sum_probs=55.2
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.|+|+.|...|...+--+. .|.++.+.|++|||||.+++++++.-. ..+.....+++..||+.+..|+.+-..
T Consensus 43 ~yGFekPSaIQqraI~p~i----~G~dv~~qaqsgTgKt~af~i~iLq~i-D~~~ke~qalilaPtreLa~qi~~v~~ 115 (397)
T KOG0327|consen 43 AYGFEKPSAIQQRAILPCI----KGHDVIAQAQSGTGKTAAFLISILQQI-DMSVKETQALILAPTRELAQQIQKVVR 115 (397)
T ss_pred hhccCCchHHHhccccccc----cCCceeEeeeccccchhhhHHHHHhhc-CcchHHHHHHHhcchHHHHHHHHHHHH
Confidence 4789988888877554443 579999999999999999999987643 122233379999999999888885333
No 150
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=95.01 E-value=0.35 Score=57.22 Aligned_cols=76 Identities=20% Similarity=0.185 Sum_probs=61.0
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhCC-cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHH
Q 004385 8 VTVYFPYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 8 ~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~-~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
..+.=||.+ ++.|.....++.+++.++. ..++.+.||+|||+.+. .+. ... ++ +++|.|++..+.+|+.++
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 346678986 9999999999999997763 66799999999998642 222 221 45 899999999999999999
Q ss_pred HHhhh
Q 004385 87 LKLLH 91 (757)
Q Consensus 87 l~~l~ 91 (757)
|+.+.
T Consensus 77 L~~~~ 81 (652)
T PRK05298 77 FKEFF 81 (652)
T ss_pred HHHhc
Confidence 98763
No 151
>PRK13766 Hef nuclease; Provisional
Probab=94.82 E-value=0.31 Score=59.27 Aligned_cols=91 Identities=24% Similarity=0.309 Sum_probs=63.5
Q ss_pred HHHHHHHHHhhh-ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCC---------CchhHHHHHHHHHHh
Q 004385 516 RNYGKLLVEMVS-IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ---------DVVETTLALDNYRKA 585 (757)
Q Consensus 516 ~~~~~~l~~~~~-~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~---------~~~~~~~~l~~f~~~ 585 (757)
..+.+.|.++.. ..++.+|||+.+.+..+.+.+.+...++ +...+.++ ...+...++++|+.
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 3557899999999999999998866542 22223332 11244567888886
Q ss_pred ccCCCCeEEEEeecCcccccccCCCCCceEEEEecc
Q 004385 586 CDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGV 621 (757)
Q Consensus 586 ~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~gl 621 (757)
++..||+++. -.+||+|++ .++.||+...
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 5677999885 688999997 4888888764
No 152
>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=94.80 E-value=0.066 Score=53.76 Aligned_cols=68 Identities=18% Similarity=0.250 Sum_probs=55.5
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
+||.|.+++.++.+. ..+++.+.+.-.|-|||-+ ++|.++++.+. +. +++...=-++|.+|..+-|+.
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 699999999998865 5678999999999999976 67988888765 45 677776677888888876664
No 153
>PRK08181 transposase; Validated
Probab=94.22 E-value=0.12 Score=53.83 Aligned_cols=52 Identities=17% Similarity=0.165 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
+.|........+.++++.++++-+|+|||||-- +.+++..... .+. +|+|.+
T Consensus 90 ~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHL--a~Aia~~a~~-~g~-~v~f~~ 141 (269)
T PRK08181 90 KAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHL--AAAIGLALIE-NGW-RVLFTR 141 (269)
T ss_pred HHHHHHHHHHHHHHhcCceEEEEecCCCcHHHH--HHHHHHHHHH-cCC-ceeeee
Confidence 555555444445677888999999999999963 3344332211 244 787776
No 154
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=94.20 E-value=0.12 Score=59.59 Aligned_cols=89 Identities=20% Similarity=0.315 Sum_probs=61.4
Q ss_pred CeEEEeccCCCCCcchhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHHHhhhcc
Q 004385 450 QSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIV 529 (757)
Q Consensus 450 ~svIltSgTL~p~~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~ 529 (757)
=..|+|||||...++-..-.-|+ + ++ | +|.-..++.+++--|+.|...+|+..-....+.+.+..
T Consensus 415 LKLIIMSATLRVsDFtenk~LFp--------i--~p----P-likVdARQfPVsIHF~krT~~DYi~eAfrKtc~IH~kL 479 (1172)
T KOG0926|consen 415 LKLIIMSATLRVSDFTENKRLFP--------I--PP----P-LIKVDARQFPVSIHFNKRTPDDYIAEAFRKTCKIHKKL 479 (1172)
T ss_pred eeEEEEeeeEEecccccCceecC--------C--CC----c-eeeeecccCceEEEeccCCCchHHHHHHHHHHHHhhcC
Confidence 46899999998865432221121 1 11 1 11223456778888988887777766666667777666
Q ss_pred C-CcEEEEecChHHHHHHHHHHhhc
Q 004385 530 P-DGIVCFFVSYSYMDEIIATWNDS 553 (757)
Q Consensus 530 ~-gg~Lv~f~Sy~~l~~v~~~~~~~ 553 (757)
| ||+|||.|--...++....+++.
T Consensus 480 P~G~ILVFvTGQqEV~qL~~kLRK~ 504 (1172)
T KOG0926|consen 480 PPGGILVFVTGQQEVDQLCEKLRKR 504 (1172)
T ss_pred CCCcEEEEEeChHHHHHHHHHHHhh
Confidence 5 89999999999999999988865
No 155
>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=94.09 E-value=0.67 Score=50.70 Aligned_cols=82 Identities=12% Similarity=0.127 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHhhhc-cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCe
Q 004385 514 VARNYGKLLVEMVSI-VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGA 592 (757)
Q Consensus 514 ~~~~~~~~l~~~~~~-~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~a 592 (757)
....+.+.+.+..+. .++.+||||++....+.++..+++.+. ..+.....+ .... .. +-+ .++..
T Consensus 255 ~l~~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l~~~L~~~~~-----~~~~~~l~g-~~~~-~~---R~~----~~~~~ 320 (357)
T TIGR03158 255 ELSELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQQGL-----GDDIGRITG-FAPK-KD---RER----AMQFD 320 (357)
T ss_pred HHHHHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHhhhCC-----CceEEeeec-CCCH-HH---HHH----hccCC
Confidence 345555556555543 346799999999999999999876421 011111112 1111 11 111 13556
Q ss_pred EEEEeecCcccccccCCCC
Q 004385 593 VFFSVARGKVAEGIDFDRH 611 (757)
Q Consensus 593 vL~gv~~G~~~EGiDf~~~ 611 (757)
||+|.. -+..|||++++
T Consensus 321 iLVaTd--v~~rGiDi~~~ 337 (357)
T TIGR03158 321 ILLGTS--TVDVGVDFKRD 337 (357)
T ss_pred EEEEec--HHhcccCCCCc
Confidence 888874 89999999985
No 156
>PHA02244 ATPase-like protein
Probab=93.86 E-value=0.14 Score=55.13 Aligned_cols=49 Identities=12% Similarity=0.044 Sum_probs=38.1
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004385 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV 60 (757)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~ 60 (757)
+.|||...-|........+.+.+..+.+++|.+|||||||.. +-++++.
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 567776556777667778889999999999999999999963 4455554
No 157
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=93.82 E-value=0.24 Score=58.39 Aligned_cols=77 Identities=17% Similarity=0.339 Sum_probs=55.0
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeC-CCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccc
Q 004385 529 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 607 (757)
Q Consensus 529 ~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~-~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiD 607 (757)
.+..+|||+++.+..+.+.+.+.+.++ +..++.+ .+..++...++.|+. |+-.||+|+ |.+++|+|
T Consensus 441 ~g~~vLIf~~tk~~ae~L~~~L~~~gi-------~~~~lh~~~~~~eR~~~l~~fr~----G~i~VLV~t--~~L~rGfD 507 (655)
T TIGR00631 441 RNERVLVTTLTKKMAEDLTDYLKELGI-------KVRYLHSEIDTLERVEIIRDLRL----GEFDVLVGI--NLLREGLD 507 (655)
T ss_pred CCCEEEEEECCHHHHHHHHHHHhhhcc-------ceeeeeCCCCHHHHHHHHHHHhc----CCceEEEEc--ChhcCCee
Confidence 456799999999999999999887653 2233333 233456777888875 555677665 79999999
Q ss_pred CCCCCceEEEEec
Q 004385 608 FDRHYGRLVIMFG 620 (757)
Q Consensus 608 f~~~~~r~Vii~g 620 (757)
+|+ .+.||+..
T Consensus 508 iP~--v~lVvi~D 518 (655)
T TIGR00631 508 LPE--VSLVAILD 518 (655)
T ss_pred eCC--CcEEEEeC
Confidence 998 45566654
No 158
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.64 E-value=0.11 Score=51.80 Aligned_cols=90 Identities=11% Similarity=0.062 Sum_probs=66.4
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.-+|+.|...|-+-+-... -|-.++..|-+|.|||..+.+++|--..-. .+.+.|++.+.|..+.-|+-+|..+.
T Consensus 59 dcgfehpsevqhecipqai----lgmdvlcqaksgmgktavfvl~tlqqiepv-~g~vsvlvmchtrelafqi~~ey~rf 133 (387)
T KOG0329|consen 59 DCGFEHPSEVQHECIPQAI----LGMDVLCQAKSGMGKTAVFVLATLQQIEPV-DGQVSVLVMCHTRELAFQISKEYERF 133 (387)
T ss_pred hccCCCchHhhhhhhhHHh----hcchhheecccCCCceeeeehhhhhhcCCC-CCeEEEEEEeccHHHHHHHHHHHHHH
Confidence 3456666777776554332 256789999999999999988877543322 35568999999999999999999988
Q ss_pred hhhccccCCCccceEEEEecCC
Q 004385 91 HNYQTRHLGPAAKILAIGLSSR 112 (757)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~l~gr 112 (757)
.+|.+ .+++++.-|.
T Consensus 134 skymP-------~vkvaVFfGG 148 (387)
T KOG0329|consen 134 SKYMP-------SVKVSVFFGG 148 (387)
T ss_pred HhhCC-------CceEEEEEcc
Confidence 77753 3666776665
No 159
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=93.48 E-value=0.82 Score=48.06 Aligned_cols=109 Identities=19% Similarity=0.370 Sum_probs=73.7
Q ss_pred ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccc
Q 004385 528 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 607 (757)
Q Consensus 528 ~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiD 607 (757)
.....+|+|||+...|+++.+.+++. +...+..++.+.+. .+.+-++.||. |+-.+|+..- -+-.||-
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-----LPKETIASVHSEDQ-HRKEKVEAFRD----GKITLLITTT--ILERGVT 370 (441)
T ss_pred hcCCcEEEEecchHHHHHHHHHHHhh-----CCccceeeeeccCc-cHHHHHHHHHc----CceEEEEEee--hhhcccc
Confidence 46678999999999999999999653 22234456656553 44566788886 7888999873 6778888
Q ss_pred CCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEEE
Q 004385 608 FDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMIF 677 (757)
Q Consensus 608 f~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~vil 677 (757)
||. --|+++|-- ..-|+..|+.++.=++||-+++++ |-|++
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 346666621 122334577666666777766654 55554
No 160
>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=93.46 E-value=0.14 Score=53.46 Aligned_cols=36 Identities=25% Similarity=0.161 Sum_probs=32.6
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHH
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL 53 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L 53 (757)
.|..+++.+.+..++..+.++++++|+|||||...-
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 588899999999999999999999999999998544
No 161
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=93.38 E-value=0.39 Score=55.61 Aligned_cols=83 Identities=14% Similarity=0.080 Sum_probs=57.5
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHH--HHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhhh
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLS--LITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~--~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~ 93 (757)
..+|.|++=.+=+.+--.++.-+||-=--|-|||+-.++ ++|.+.. ...+ +++|.+|+ +.+.|.++|+.+.
T Consensus 205 ~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~--k~~~-paLIVCP~-Tii~qW~~E~~~w--- 277 (923)
T KOG0387|consen 205 KLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSG--KLTK-PALIVCPA-TIIHQWMKEFQTW--- 277 (923)
T ss_pred HhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcc--cccC-ceEEEccH-HHHHHHHHHHHHh---
Confidence 457889888888888888888889988899999984332 2333321 1123 45555443 3678999999986
Q ss_pred ccccCCCccceEEEEecCC
Q 004385 94 QTRHLGPAAKILAIGLSSR 112 (757)
Q Consensus 94 ~~~~~~~~~~~~~~~l~gr 112 (757)
..++++.++.|-
T Consensus 278 -------~p~~rv~ilh~t 289 (923)
T KOG0387|consen 278 -------WPPFRVFILHGT 289 (923)
T ss_pred -------CcceEEEEEecC
Confidence 456787777654
No 162
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=93.21 E-value=1.4 Score=48.87 Aligned_cols=119 Identities=22% Similarity=0.298 Sum_probs=74.6
Q ss_pred HHHHHHHHHhhhccC-CcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeC------CCc--hhHHHHHHHHHHhc
Q 004385 516 RNYGKLLVEMVSIVP-DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET------QDV--VETTLALDNYRKAC 586 (757)
Q Consensus 516 ~~~~~~l~~~~~~~~-gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~------~~~--~~~~~~l~~f~~~~ 586 (757)
..+-+.+.+..+..+ .+++||.......+.+.+.+.+.+.. -+..|+=+ .|+ .+..+.+++|++
T Consensus 351 ~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~-----~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~-- 423 (542)
T COG1111 351 EKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIK-----ARVRFIGQASREGDKGMSQKEQKEIIDQFRK-- 423 (542)
T ss_pred HHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCc-----ceeEEeeccccccccccCHHHHHHHHHHHhc--
Confidence 445566667675555 47777777778888999998876531 11256631 111 234568899987
Q ss_pred cCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhccccc
Q 004385 587 DCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVI 666 (757)
Q Consensus 587 ~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~I 666 (757)
|...||+|+. ---||+|+|+-. .||. ==|-|++ ++..|+.||-=
T Consensus 424 --Ge~nVLVaTS--VgEEGLDIp~vD--lVif-YEpvpSe-----------------------------IR~IQR~GRTG 467 (542)
T COG1111 424 --GEYNVLVATS--VGEEGLDIPEVD--LVIF-YEPVPSE-----------------------------IRSIQRKGRTG 467 (542)
T ss_pred --CCceEEEEcc--cccccCCCCccc--EEEE-ecCCcHH-----------------------------HHHHHhhCccc
Confidence 7888999883 334999999832 3333 2233321 34458889998
Q ss_pred ccCCCeeEEEE
Q 004385 667 RSKADYGMMIF 677 (757)
Q Consensus 667 R~~~D~G~vil 677 (757)
|...-+-+|++
T Consensus 468 R~r~Grv~vLv 478 (542)
T COG1111 468 RKRKGRVVVLV 478 (542)
T ss_pred cCCCCeEEEEE
Confidence 87665544443
No 163
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=93.19 E-value=0.96 Score=54.50 Aligned_cols=155 Identities=12% Similarity=0.145 Sum_probs=88.1
Q ss_pred ccchHHhhccCeEEEeccCCCCCc-chhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHH
Q 004385 440 LAVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNY 518 (757)
Q Consensus 440 ~~~~~l~~~~~svIltSgTL~p~~-~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~ 518 (757)
..++.+|..++.+--|.||..... .|...-+++-+ .+|.+ . |.+-.+-++ .-| ....+-+..+
T Consensus 524 IT~QnfFr~Y~kLaGMTGTA~te~~Ef~~iY~L~Vv-------~IPTn-r-P~~R~D~~d-----~vy--~t~~eK~~Al 587 (1025)
T PRK12900 524 ITIQNFFRLYKKLAGMTGTAETEASEFFEIYKLDVV-------VIPTN-K-PIVRKDMDD-----LVY--KTRREKYNAI 587 (1025)
T ss_pred eeHHHHHHhchhhcccCCCChhHHHHHHHHhCCcEE-------ECCCC-C-CcceecCCC-----eEe--cCHHHHHHHH
Confidence 345777777777777888875532 34444444321 11111 1 111111111 112 2233334555
Q ss_pred HHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee
Q 004385 519 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 598 (757)
Q Consensus 519 ~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~ 598 (757)
.+.|.+.. ..+..+|||++|-...+.+...++..++- +. ++ ..+ .......+-.|+. ++|+|++|+.
T Consensus 588 i~~I~~~~-~~grpVLIft~Sve~sE~Ls~~L~~~gI~-----h~-vL-nak-q~~REa~Iia~AG----~~g~VtIATN 654 (1025)
T PRK12900 588 VLKVEELQ-KKGQPVLVGTASVEVSETLSRMLRAKRIA-----HN-VL-NAK-QHDREAEIVAEAG----QKGAVTIATN 654 (1025)
T ss_pred HHHHHHHh-hCCCCEEEEeCcHHHHHHHHHHHHHcCCC-----ce-ee-cCC-HHHhHHHHHHhcC----CCCeEEEecc
Confidence 55555543 35789999999999999999998876642 11 22 122 2234555555553 6899999884
Q ss_pred cCcccccccCCC-CCce---EEEEeccCCcc
Q 004385 599 RGKVAEGIDFDR-HYGR---LVIMFGVPFQY 625 (757)
Q Consensus 599 ~G~~~EGiDf~~-~~~r---~Vii~glPfp~ 625 (757)
-...|+|++- +... ++.++|.+.|.
T Consensus 655 --MAGRGtDIkl~~~V~~vGGL~VIgterhe 683 (1025)
T PRK12900 655 --MAGRGTDIKLGEGVRELGGLFILGSERHE 683 (1025)
T ss_pred --CcCCCCCcCCccchhhhCCceeeCCCCCc
Confidence 6789999983 2222 34777877654
No 164
>PRK09694 helicase Cas3; Provisional
Probab=93.08 E-value=1.9 Score=52.36 Aligned_cols=75 Identities=9% Similarity=0.166 Sum_probs=47.6
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCc-hhH----HHHHHHHHHhccCCCCeEEEEeecCccc
Q 004385 529 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VET----TLALDNYRKACDCGRGAVFFSVARGKVA 603 (757)
Q Consensus 529 ~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~-~~~----~~~l~~f~~~~~~~~~avL~gv~~G~~~ 603 (757)
.++.+|||+++-+..+.+++.+++.+. ...+..++.++-. ..+ ..+++.|.+.-...++.||+++. -+-
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 345689999999999999999886421 0113344545421 122 34677774431111257998885 788
Q ss_pred ccccCC
Q 004385 604 EGIDFD 609 (757)
Q Consensus 604 EGiDf~ 609 (757)
.|+|+.
T Consensus 633 ~GLDId 638 (878)
T PRK09694 633 QSLDLD 638 (878)
T ss_pred heeecC
Confidence 999995
No 165
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=93.07 E-value=0.24 Score=51.34 Aligned_cols=51 Identities=20% Similarity=0.253 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 21 QYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 21 Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
+.+-+....+.+.+++++++-+|+|||||. |+.|++.... ..+. +|+|.|-
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 333444445567778999999999999996 5555555443 2345 7777653
No 166
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=93.07 E-value=0.17 Score=49.46 Aligned_cols=59 Identities=19% Similarity=0.259 Sum_probs=25.7
Q ss_pred CCCCCCCHHHHHHHHHHH--HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 12 FPYDNIYPEQYSYMLELK--RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~--~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
|.|...++.+...+..+. +.++++.++++-+|||||||.... +++...-. .+. +|.|.+
T Consensus 22 ~d~~~~~~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKThLa~--ai~~~~~~-~g~-~v~f~~ 82 (178)
T PF01695_consen 22 FDFSNERGIDKAQIAQLAALEFIENGENLILYGPPGTGKTHLAV--AIANEAIR-KGY-SVLFIT 82 (178)
T ss_dssp ------------HHHHHHHH-S-SC--EEEEEESTTSSHHHHHH--HHHHHHHH-TT---EEEEE
T ss_pred ccccchhhHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHHHHH--HHHHHhcc-CCc-ceeEee
Confidence 445444455555555542 234556899999999999997543 44332111 244 777764
No 167
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=92.96 E-value=0.21 Score=45.93 Aligned_cols=32 Identities=38% Similarity=0.407 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHH
Q 004385 20 EQYSYMLELKRALDA--KGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~--~~~~liEaPTGtGKTla 51 (757)
+|......+...+.. +.++++-+|+|+|||..
T Consensus 2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l 35 (151)
T cd00009 2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTTL 35 (151)
T ss_pred chHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHH
Confidence 566777888888877 68999999999999963
No 168
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=92.93 E-value=0.2 Score=54.09 Aligned_cols=57 Identities=33% Similarity=0.346 Sum_probs=43.4
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhh
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l 79 (757)
+-++.+.+..+..++..++|+++|+|+|||||. |+-+++.... .++..|-||+...-
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 4556655443 24466677766543
No 169
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=92.92 E-value=0.24 Score=53.00 Aligned_cols=50 Identities=22% Similarity=0.244 Sum_probs=31.2
Q ss_pred HHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccch
Q 004385 26 LELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (757)
Q Consensus 26 ~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~ 77 (757)
..+..++..+++++|-+|||+||| .++-+.+.+....+... ++++.-.+.
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 345667778899999999999999 44444443322223234 666544333
No 170
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=92.83 E-value=0.63 Score=50.97 Aligned_cols=68 Identities=21% Similarity=0.196 Sum_probs=43.1
Q ss_pred CHHHHHHHHHHHHHHH-hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 18 YPEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~-~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
-|-|++...=....=. .-.-+++--.-|.|||+-.++..|+ ..++. +.++..||.++. |..+|+.+..
T Consensus 186 L~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLlla----e~~ra-~tLVvaP~VAlm-QW~nEI~~~T 254 (791)
T KOG1002|consen 186 LPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLA----EVDRA-PTLVVAPTVALM-QWKNEIERHT 254 (791)
T ss_pred hhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHh----ccccC-CeeEEccHHHHH-HHHHHHHHhc
Confidence 4567776543322111 1133555566799999876655554 23445 788999999875 8889988863
No 171
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=92.74 E-value=0.44 Score=50.55 Aligned_cols=77 Identities=21% Similarity=0.355 Sum_probs=59.8
Q ss_pred HHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEe-CCCchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004385 521 LLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIE-TQDVVETTLALDNYRKACDCGRGAVFFSVAR 599 (757)
Q Consensus 521 ~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E-~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~ 599 (757)
++++..+.++..+|+|.-.......+++++.-.|. ..+-+. ++|..+++..++.|+. |+.-||++..
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 35667778889999999999999999998864432 123333 4555677889999997 6888999885
Q ss_pred CcccccccCCC
Q 004385 600 GKVAEGIDFDR 610 (757)
Q Consensus 600 G~~~EGiDf~~ 610 (757)
-.|.|+|||+
T Consensus 480 -VASKGLDFp~ 489 (610)
T KOG0341|consen 480 -VASKGLDFPD 489 (610)
T ss_pred -chhccCCCcc
Confidence 7899999998
No 172
>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=92.73 E-value=0.82 Score=47.43 Aligned_cols=70 Identities=21% Similarity=0.176 Sum_probs=48.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
..+.| |+.|.--+-.+ .+|. ++|+.||=|||+...+||...+. .|+ +|-|.|.+.-|.++=.+++..+-
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-YDVQLLGALAL----HKGR--LAEMKTGEGKTLIAALPAALNAL---QGK-GVHVVTSNDYLAKRDAEEMRPFY 142 (266)
T ss_dssp TS-----HHHHHHHHHH----HTTS--EEEESTTSHHHHHHHHHHHHHHT---TSS--EEEEESSHHHHHHHHHHHHHHH
T ss_pred cCCcc-cHHHHhhhhhc----ccce--eEEecCCCCcHHHHHHHHHHHHH---hcC-CcEEEeccHHHhhccHHHHHHHH
Confidence 34443 77776544332 3333 99999999999998888766654 256 89999999999988888877765
Q ss_pred h
Q 004385 92 N 92 (757)
Q Consensus 92 ~ 92 (757)
.
T Consensus 143 ~ 143 (266)
T PF07517_consen 143 E 143 (266)
T ss_dssp H
T ss_pred H
Confidence 4
No 173
>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=92.62 E-value=0.4 Score=57.94 Aligned_cols=87 Identities=17% Similarity=0.067 Sum_probs=51.7
Q ss_pred CCHHHHHHHHHHHHHHHh----CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhh
Q 004385 17 IYPEQYSYMLELKRALDA----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~----~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~ 92 (757)
.+..|-.....+...-++ |-.++==|.||+|||++=. =+.|+.+.+...+|..|+-.=.+|--|.=.+++.-+.
T Consensus 409 rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNA--RImyaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL~ 486 (1110)
T TIGR02562 409 RFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANA--RAMYALRDDKQGARFAIALGLRSLTLQTGHALKTRLN 486 (1110)
T ss_pred CcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHH--HHHHHhCCCCCCceEEEEccccceeccchHHHHHhcC
Confidence 467787766555442222 2244456999999999843 3455555544445888886665555566667776432
Q ss_pred hccccCCCccceEEEEecCC
Q 004385 93 YQTRHLGPAAKILAIGLSSR 112 (757)
Q Consensus 93 ~~~~~~~~~~~~~~~~l~gr 112 (757)
++.+=-+|+++|.
T Consensus 487 -------L~~ddLAVlIGs~ 499 (1110)
T TIGR02562 487 -------LSDDDLAVLIGGT 499 (1110)
T ss_pred -------CCccceEEEECHH
Confidence 2333335666655
No 174
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=92.45 E-value=0.49 Score=55.97 Aligned_cols=119 Identities=19% Similarity=0.315 Sum_probs=76.9
Q ss_pred HHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeC-CCchhHHHHHHHHHHhccCCCCeEEE
Q 004385 517 NYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVFF 595 (757)
Q Consensus 517 ~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~-~~~~~~~~~l~~f~~~~~~~~~avL~ 595 (757)
.+.+.|.+.. ..+..++||+++....+.+.+.+...++ +..++.+ .+..++...++.|+. |+-.|++
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 3434444433 2355799999999999999999887653 2233423 334456777888875 5555666
Q ss_pred EeecCcccccccCCCCCceEEEEeccCCcc-cCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCee-
Q 004385 596 SVARGKVAEGIDFDRHYGRLVIMFGVPFQY-TLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYG- 673 (757)
Q Consensus 596 gv~~G~~~EGiDf~~~~~r~Vii~glPfp~-~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G- 673 (757)
|+ |.+++|+|+|+ .+.||+...+... |.+ .....|.+||.=|..+ |
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 4578887765211 111 1223589999999743 5
Q ss_pred EEEEee
Q 004385 674 MMIFAD 679 (757)
Q Consensus 674 ~villD 679 (757)
++.++|
T Consensus 550 ~i~~~~ 555 (652)
T PRK05298 550 VILYAD 555 (652)
T ss_pred EEEEec
Confidence 455566
No 175
>PRK08939 primosomal protein DnaI; Reviewed
Probab=92.30 E-value=0.37 Score=51.29 Aligned_cols=51 Identities=16% Similarity=0.105 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHH------hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 20 EQYSYMLELKRALD------AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~------~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
.+.+++..+.+.+. .++.+++-+|+|||||. |+.|++..... .+. +|.|.+
T Consensus 135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKTh--La~Aia~~l~~-~g~-~v~~~~ 191 (306)
T PRK08939 135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSY--LLAAIANELAK-KGV-SSTLLH 191 (306)
T ss_pred HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHH--HHHHHHHHHHH-cCC-CEEEEE
Confidence 56666666655555 24579999999999996 45555443322 234 565553
No 176
>PRK13531 regulatory ATPase RavA; Provisional
Probab=92.21 E-value=0.12 Score=57.65 Aligned_cols=34 Identities=18% Similarity=0.051 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHH
Q 004385 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~ 52 (757)
.+|.+.++.+..++..++|+++++|+|||||...
T Consensus 23 ~gre~vI~lll~aalag~hVLL~GpPGTGKT~LA 56 (498)
T PRK13531 23 YERSHAIRLCLLAALSGESVFLLGPPGIAKSLIA 56 (498)
T ss_pred cCcHHHHHHHHHHHccCCCEEEECCCChhHHHHH
Confidence 5688899999999999999999999999999854
No 177
>PRK14873 primosome assembly protein PriA; Provisional
Probab=91.76 E-value=0.95 Score=53.37 Aligned_cols=49 Identities=10% Similarity=0.118 Sum_probs=39.0
Q ss_pred EEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 38 ~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.+..+.+|+|||-.||-.+-..+. .++ .++|..+++++..|+++.++..
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 455565799999999987544443 267 8999999999999999988864
No 178
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=91.74 E-value=0.64 Score=48.81 Aligned_cols=58 Identities=21% Similarity=0.189 Sum_probs=50.5
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~ 78 (757)
..|+|+...+.+.+.+++++..++.|=||.|||-- +.++++++... |. +|-++||-..
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 46999999999999999999999999999999985 56778887755 56 8999998765
No 179
>PRK06835 DNA replication protein DnaC; Validated
Probab=91.61 E-value=0.48 Score=50.97 Aligned_cols=38 Identities=29% Similarity=0.250 Sum_probs=25.1
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
.+.++++-+|||||||.-.. |++..... .+. +|+|.|.
T Consensus 182 ~~~~Lll~G~~GtGKThLa~--aIa~~l~~-~g~-~V~y~t~ 219 (329)
T PRK06835 182 NNENLLFYGNTGTGKTFLSN--CIAKELLD-RGK-SVIYRTA 219 (329)
T ss_pred cCCcEEEECCCCCcHHHHHH--HHHHHHHH-CCC-eEEEEEH
Confidence 35789999999999997433 33332221 245 7888764
No 180
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=91.57 E-value=0.75 Score=50.25 Aligned_cols=71 Identities=14% Similarity=0.103 Sum_probs=45.5
Q ss_pred CHHHHHHHHHHHHHHHhC---CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 18 YPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~---~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
|..|.+-+..+....-.+ .+++|-+|||||||...-.-+=......+... -+.|=+..+...-|++.++-+
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 888887666665544444 47999999999999876653322222211111 356667777777888876544
No 181
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=91.53 E-value=0.34 Score=57.04 Aligned_cols=76 Identities=13% Similarity=0.199 Sum_probs=60.7
Q ss_pred cCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH
Q 004385 6 EDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 6 ~~~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
...-..|||+. =+-|++.+ -+|..|..+++-|+|-.|||+.+=.+ ++.+.++ +. |.||.||-+++-.|=++
T Consensus 288 pe~a~~~pFel-D~FQk~Ai----~~lerg~SVFVAAHTSAGKTvVAEYA-ialaq~h--~T-R~iYTSPIKALSNQKfR 358 (1248)
T KOG0947|consen 288 PEMALIYPFEL-DTFQKEAI----YHLERGDSVFVAAHTSAGKTVVAEYA-IALAQKH--MT-RTIYTSPIKALSNQKFR 358 (1248)
T ss_pred hhHHhhCCCCc-cHHHHHHH----HHHHcCCeEEEEecCCCCcchHHHHH-HHHHHhh--cc-ceEecchhhhhccchHH
Confidence 34456799996 79999864 46778999999999999999976654 3333333 45 99999999999999999
Q ss_pred HHHhh
Q 004385 86 ELKLL 90 (757)
Q Consensus 86 el~~l 90 (757)
|++..
T Consensus 359 DFk~t 363 (1248)
T KOG0947|consen 359 DFKET 363 (1248)
T ss_pred HHHHh
Confidence 99875
No 182
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=91.53 E-value=1.4 Score=52.97 Aligned_cols=105 Identities=13% Similarity=0.219 Sum_probs=63.9
Q ss_pred cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCc-hhHHHHHHHHHHhccCCCCeEEEEeecCccccccc
Q 004385 529 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 607 (757)
Q Consensus 529 ~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~-~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiD 607 (757)
.++.+||.+.+-.....++..++..+. +.+++.++=. ..+....++.++.+..+.+.|++|+. -+--|+|
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 346899999999999999999987642 3455555532 22334444444322335677888775 4555666
Q ss_pred CCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCC-eeEEEE
Q 004385 608 FDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKAD-YGMMIF 677 (757)
Q Consensus 608 f~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D-~G~vil 677 (757)
+.=|. +|+- +.-+..+.|++|||-||..+ -|.+++
T Consensus 510 idfd~----mITe-------------------------------~aPidSLIQR~GRv~R~g~~~~~~~~v 545 (733)
T COG1203 510 IDFDV----LITE-------------------------------LAPIDSLIQRAGRVNRHGKKENGKIYV 545 (733)
T ss_pred cccCe----eeec-------------------------------CCCHHHHHHHHHHHhhcccccCCceeE
Confidence 55322 1111 11256778999999999933 343333
No 183
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=91.46 E-value=3.7 Score=49.41 Aligned_cols=192 Identities=19% Similarity=0.177 Sum_probs=108.0
Q ss_pred CeEEEeccCCCCCcchhhhhCCCCcc-cccceeeeccCceeeeEEecCCCCccceeccc-cCCChH-HHHHHHHHHHHhh
Q 004385 450 QSVVITSGTLSPIDLYPRLLNFHPVV-SRSFKMSLTRDCICPMVLTRGSDQLPVSTKFD-MRSDPG-VARNYGKLLVEMV 526 (757)
Q Consensus 450 ~svIltSgTL~p~~~~~~~Lg~~~~~-~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~-~r~~~~-~~~~~~~~l~~~~ 526 (757)
-.+|-.||||......+.-|+.++.. -.+|...+ .|+.++.+. +..++. ++.+.. +-....+.+.+.+
T Consensus 276 IRivgLSATlPN~eDvA~fL~vn~~~glfsFd~~y-----RPvpL~~~~----iG~k~~~~~~~~~~~d~~~~~kv~e~~ 346 (1230)
T KOG0952|consen 276 IRIVGLSATLPNYEDVARFLRVNPYAGLFSFDQRY-----RPVPLTQGF----IGIKGKKNRQQKKNIDEVCYDKVVEFL 346 (1230)
T ss_pred eEEEEeeccCCCHHHHHHHhcCCCccceeeecccc-----cccceeeeE----EeeecccchhhhhhHHHHHHHHHHHHH
Confidence 45899999998888888889886421 12222211 122111111 111111 122222 2222233344444
Q ss_pred hccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchh-------------------HHHHHHHHHHhcc
Q 004385 527 SIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVE-------------------TTLALDNYRKACD 587 (757)
Q Consensus 527 ~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~-------------------~~~~l~~f~~~~~ 587 (757)
. -+..++||.+|...--+.+..+.+... ....+..|.-++..+. ...+.++. +.
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 Q-EGHQVLVFVHSRNETIRTAKKLRERAE---TNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVEKE---FK 419 (1230)
T ss_pred H-cCCeEEEEEecChHHHHHHHHHHHHHH---hcCcccccCCChhhHHHHHHHHhhhhhcccccchhhHHHHHHH---Hh
Confidence 2 356799999999988888887765432 1123334433221110 01122211 12
Q ss_pred CCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccc
Q 004385 588 CGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIR 667 (757)
Q Consensus 588 ~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR 667 (757)
.|.-.||++.+ .+.=|+++|. -+|||=|-|+-.+. ++ .+.++ .+.-|-|-+||.=|
T Consensus 420 ~G~i~vL~cTa--TLAwGVNLPA---~aViIKGT~~ydss-------------kg--~f~dl----gilDVlQifGRAGR 475 (1230)
T KOG0952|consen 420 EGHIKVLCCTA--TLAWGVNLPA---YAVIIKGTQVYDSS-------------KG--SFVDL----GILDVLQIFGRAGR 475 (1230)
T ss_pred cCCceEEEecc--eeeeccCCcc---eEEEecCCcccccc-------------cC--ceeee----hHHHHHHHHhccCC
Confidence 35556888775 8999999998 56999998765431 22 12232 45667899999988
Q ss_pred cC-CCeeEEEEeecc
Q 004385 668 SK-ADYGMMIFADKR 681 (757)
Q Consensus 668 ~~-~D~G~villD~R 681 (757)
-. ++.|..+++-.|
T Consensus 476 PqFd~~G~giIiTt~ 490 (1230)
T KOG0952|consen 476 PQFDSSGEGIIITTR 490 (1230)
T ss_pred CCCCCCceEEEEecc
Confidence 76 678988887665
No 184
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=91.33 E-value=2.2 Score=46.99 Aligned_cols=76 Identities=20% Similarity=0.255 Sum_probs=53.0
Q ss_pred CcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEE-EeC-CCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccccC
Q 004385 531 DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVF-IET-QDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 608 (757)
Q Consensus 531 gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if-~E~-~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf 608 (757)
-.++||||+-..-.-+++.++...+ +|+ +.+ +....+..+..+|+++ +..||+|.. -.+.|+||
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 7899999999888888877764321 121 111 1223456678999985 667999874 68899999
Q ss_pred CCCCceEEEEeccC
Q 004385 609 DRHYGRLVIMFGVP 622 (757)
Q Consensus 609 ~~~~~r~Vii~glP 622 (757)
|+ ...||=.|.|
T Consensus 397 P~--V~~VvQ~~~P 408 (543)
T KOG0342|consen 397 PD--VDWVVQYDPP 408 (543)
T ss_pred CC--ceEEEEeCCC
Confidence 98 5567777754
No 185
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=91.31 E-value=0.15 Score=55.66 Aligned_cols=41 Identities=22% Similarity=0.345 Sum_probs=30.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSL 55 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~L~~ 55 (757)
-|-..+||.|..-.. +.|.+| ..++|.-|+|.||||.-..+
T Consensus 298 KPst~iRpYQEksL~---KMFGNgRARSGiIVLPCGAGKtLVGvTA 340 (776)
T KOG1123|consen 298 KPSTQIRPYQEKSLS---KMFGNGRARSGIIVLPCGAGKTLVGVTA 340 (776)
T ss_pred CcccccCchHHHHHH---HHhCCCcccCceEEEecCCCCceeeeee
Confidence 355567999998654 445666 47899999999999875544
No 186
>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=91.09 E-value=0.44 Score=48.18 Aligned_cols=63 Identities=21% Similarity=0.359 Sum_probs=34.4
Q ss_pred CCCCCCCHHH-HHHHHHHHHHHHhC-----CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 12 FPYDNIYPEQ-YSYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 12 FPy~~~r~~Q-~~~~~~v~~~l~~~-----~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
|.|+..-++. -+.+.+..+++.++ ..++|.+|+|+|||- +|.++.........+. +|+|.+..
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 4555433332 34444555555443 358999999999998 3444333333222245 89998754
No 187
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=91.01 E-value=0.41 Score=52.22 Aligned_cols=52 Identities=25% Similarity=0.260 Sum_probs=37.4
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
..++|++..|||||+.++.-+-... ....+. +++|.+.++++...+-+.+..
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 899999999998877665554
No 188
>COG1204 Superfamily II helicase [General function prediction only]
Probab=90.99 E-value=2.5 Score=50.70 Aligned_cols=192 Identities=22% Similarity=0.162 Sum_probs=100.3
Q ss_pred CeEEEeccCCCCCcchhhhhCCCCcccccceeeeccCcee-eeEEecCCCCccceeccccCCChHHHHHHHHHHHHhhhc
Q 004385 450 QSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCIC-PMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSI 528 (757)
Q Consensus 450 ~svIltSgTL~p~~~~~~~Lg~~~~~~~~~~~~~~~~~~~-~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~ 528 (757)
-.+|-.||||...+.++..|+-+.+...-.|.++-+.... ..+.. .....+..+.-..+....+..-+-.
T Consensus 181 ~rivgLSATlpN~~evA~wL~a~~~~~~~rp~~l~~~v~~~~~~~~---------~~~~~k~~~~~~~~~~~~~v~~~~~ 251 (766)
T COG1204 181 IRIVGLSATLPNAEEVADWLNAKLVESDWRPVPLRRGVPYVGAFLG---------ADGKKKTWPLLIDNLALELVLESLA 251 (766)
T ss_pred eEEEEEeeecCCHHHHHHHhCCcccccCCCCcccccCCccceEEEE---------ecCccccccccchHHHHHHHHHHHh
Confidence 5799999999999999999987755222112221111110 01111 1111111111112222222233335
Q ss_pred cCCcEEEEecChHHHHHHHHHHhh--cccHHHHh------cCccEEE-eCCCc----------------------hhHHH
Q 004385 529 VPDGIVCFFVSYSYMDEIIATWND--SGILKEIM------QHKLVFI-ETQDV----------------------VETTL 577 (757)
Q Consensus 529 ~~gg~Lv~f~Sy~~l~~v~~~~~~--~~~~~~~~------~~k~if~-E~~~~----------------------~~~~~ 577 (757)
..|.+|||.+|.+.-..++..+.. .+...... ...++.. ++... ..+..
T Consensus 252 ~~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHhAGL~~~~R~~ 331 (766)
T COG1204 252 EGGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPREDRQL 331 (766)
T ss_pred cCCeEEEEEecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccccCCCHHHHHH
Confidence 568999999999999988888773 00000000 0011221 11000 00111
Q ss_pred HHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHH
Q 004385 578 ALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQ 657 (757)
Q Consensus 578 ~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~ 657 (757)
+=+.|++ |+=.||+++ .+++.||++|. |+|||-+.=.-.| . .+.... -..-
T Consensus 332 vE~~Fr~----g~ikVlv~T--pTLA~GVNLPA---~~VIIk~~~~y~~--------------~---~g~~~i---~~~d 382 (766)
T COG1204 332 VEDAFRK----GKIKVLVST--PTLAAGVNLPA---RTVIIKDTRRYDP--------------K---GGIVDI---PVLD 382 (766)
T ss_pred HHHHHhc----CCceEEEec--hHHhhhcCCcc---eEEEEeeeEEEcC--------------C---CCeEEC---chhh
Confidence 1223433 454566665 69999999995 8999988543221 0 121111 2356
Q ss_pred HHHhcccccccC-CCeeEEEEee
Q 004385 658 AAQCVGRVIRSK-ADYGMMIFAD 679 (757)
Q Consensus 658 ~~Q~iGR~IR~~-~D~G~villD 679 (757)
+.|.+||.=|-. +|+|..+++.
T Consensus 383 v~QM~GRAGRPg~d~~G~~~i~~ 405 (766)
T COG1204 383 VLQMAGRAGRPGYDDYGEAIILA 405 (766)
T ss_pred HhhccCcCCCCCcCCCCcEEEEe
Confidence 679999998866 6788766666
No 189
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.96 E-value=2.5 Score=46.31 Aligned_cols=86 Identities=16% Similarity=0.300 Sum_probs=56.1
Q ss_pred hhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEE-eCCCc-hhHHHHHHHHHHhccCCCCeEEEEeecCcc
Q 004385 525 MVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFI-ETQDV-VETTLALDNYRKACDCGRGAVFFSVARGKV 602 (757)
Q Consensus 525 ~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~-E~~~~-~~~~~~l~~f~~~~~~~~~avL~gv~~G~~ 602 (757)
+....-..++||||+=...+-+...+.. +.....||. .++-. ..+...+++|++. ..++||+.. -.
T Consensus 250 L~~~~~kK~iVFF~TCasVeYf~~~~~~------~l~~~~i~~iHGK~~q~~R~k~~~~F~~~----~~~vl~~TD--Va 317 (567)
T KOG0345|consen 250 LNNNKDKKCIVFFPTCASVEYFGKLFSR------LLKKREIFSIHGKMSQKARAKVLEAFRKL----SNGVLFCTD--VA 317 (567)
T ss_pred HhccccccEEEEecCcchHHHHHHHHHH------HhCCCcEEEecchhcchhHHHHHHHHHhc----cCceEEeeh--hh
Confidence 3445668999999998886666555443 222233443 33322 3467889999984 667999874 79
Q ss_pred cccccCCCCCceEEEEeccCCcccCc
Q 004385 603 AEGIDFDRHYGRLVIMFGVPFQYTLS 628 (757)
Q Consensus 603 ~EGiDf~~~~~r~Vii~glPfp~~~d 628 (757)
+.|||+||= ..|| -|.+|.|
T Consensus 318 ARGlDip~i--D~Vv----Q~DpP~~ 337 (567)
T KOG0345|consen 318 ARGLDIPGI--DLVV----QFDPPKD 337 (567)
T ss_pred hccCCCCCc--eEEE----ecCCCCC
Confidence 999999993 3343 3455554
No 190
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=90.39 E-value=0.24 Score=57.21 Aligned_cols=66 Identities=20% Similarity=0.285 Sum_probs=45.6
Q ss_pred HHHHhcccCCCCchHHHH---h----cc----ccCeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhHHHHh
Q 004385 179 DLRAFGKQQGWCPYFLAR---H----MV----QFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIE 245 (757)
Q Consensus 179 ~l~~~~~~~~~CpY~~ar---~----~~----~~adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~~~~~ 245 (757)
++..+||...+=|||.+. + .+ ..-||+|++|++.-...-...+.... +.+++|+||||-|-+...+
T Consensus 466 Ef~kwCPsl~Ve~YyGSq~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~-~~n~viyDEgHmLKN~~Se 542 (941)
T KOG0389|consen 466 EFAKWCPSLKVEPYYGSQDERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQ-KFNYVIYDEGHMLKNRTSE 542 (941)
T ss_pred HHHHhCCceEEEeccCcHHHHHHHHHHHhccCCCccEEEEEeecccCChHHHHHHHhc-cccEEEecchhhhhccchH
Confidence 567889998888887542 1 11 25799999999887433222333443 7899999999999765433
No 191
>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=90.19 E-value=0.3 Score=48.38 Aligned_cols=33 Identities=36% Similarity=0.307 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004385 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla 51 (757)
.+|.+.-.++.-|...+.|+++.+|.|||||+.
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 578888888888888889999999999999975
No 192
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=90.05 E-value=2.1 Score=52.09 Aligned_cols=169 Identities=14% Similarity=0.154 Sum_probs=86.1
Q ss_pred CccccchHHhhccC------eEEEeccCCCCCcchhhhh-CCCCcccccceeeeccCceeeeEEecCCCCccceeccccC
Q 004385 437 DASLAVKPVFDRFQ------SVVITSGTLSPIDLYPRLL-NFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMR 509 (757)
Q Consensus 437 d~s~~~~~l~~~~~------svIltSgTL~p~~~~~~~L-g~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r 509 (757)
+++..++.+...++ .+|+||||++....+...+ |.+.... +.-.-.+.....+++..-+.. .... . -+
T Consensus 214 ~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np~e~~~~l~~~~f~~~--v~~~g~~~~~~~~~~~~p~~~-~~~~-~-~r 288 (851)
T COG1205 214 EVALLLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFGRDFEVP--VDEDGSPRGLRYFVRREPPIR-ELAE-S-IR 288 (851)
T ss_pred HHHHHHHHHHHHHhccCCCceEEEEeccccChHHHHHHhcCCcceee--ccCCCCCCCceEEEEeCCcch-hhhh-h-cc
Confidence 45566676665444 7999999999988777665 4332110 000001111111111110000 0000 0 11
Q ss_pred CChHHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHH--HHhcCccEEEeCCCc--hhHHHHHHHHHHh
Q 004385 510 SDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILK--EIMQHKLVFIETQDV--VETTLALDNYRKA 585 (757)
Q Consensus 510 ~~~~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~--~~~~~k~if~E~~~~--~~~~~~l~~f~~~ 585 (757)
.+ ....... +....-...-.+||||-|....+.++...+..-... .+. ..|-.-..+. .++..+...++.
T Consensus 289 ~s--~~~~~~~-~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~--~~v~~~~~~~~~~er~~ie~~~~~- 362 (851)
T COG1205 289 RS--ALAELAT-LAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLL--DAVSTYRAGLHREERRRIEAEFKE- 362 (851)
T ss_pred cc--hHHHHHH-HHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcchhhh--hheeeccccCCHHHHHHHHHHHhc-
Confidence 22 1222322 333333456689999999999999974332211000 010 0111111121 234455566664
Q ss_pred ccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCC
Q 004385 586 CDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPF 623 (757)
Q Consensus 586 ~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPf 623 (757)
|+..+++++. .+-=|||+-+ +-+||+.|+|-
T Consensus 363 ---g~~~~~~st~--AlelgidiG~--ldavi~~g~P~ 393 (851)
T COG1205 363 ---GELLGVIATN--ALELGIDIGS--LDAVIAYGYPG 393 (851)
T ss_pred ---CCccEEecch--hhhhceeehh--hhhHhhcCCCC
Confidence 6767777764 7888999986 66789999885
No 193
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=89.90 E-value=0.67 Score=50.80 Aligned_cols=57 Identities=23% Similarity=0.285 Sum_probs=40.8
Q ss_pred CHHHHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchh
Q 004385 18 YPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~--~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~ 78 (757)
-+.|++....|.+++.. +.+++|.+|-|||||..+=+ ...+... .++ +|+++.+|-.
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 46889999999999986533 2333332 234 6777766654
No 194
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=89.25 E-value=0.57 Score=48.72 Aligned_cols=36 Identities=39% Similarity=0.422 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~L~~ 55 (757)
+|......+..++..+ -|.++-+|.|||||-+.|+.
T Consensus 40 gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalaf 77 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAF 77 (346)
T ss_pred chHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHH
Confidence 6777777778888774 48999999999999887654
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=89.23 E-value=0.83 Score=46.34 Aligned_cols=52 Identities=21% Similarity=0.298 Sum_probs=31.3
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
.+...+|++|+|||||.-.+--+...+... +. +++|.|-..+ -+++++.++.
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 346899999999999986554444444431 34 6666653333 3677776664
No 196
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=88.89 E-value=0.32 Score=52.31 Aligned_cols=40 Identities=28% Similarity=0.348 Sum_probs=31.2
Q ss_pred eCCCCCCCHHHHHHHHHHHHH-HHhC-CcEEEEcCCCCcHHHH
Q 004385 11 YFPYDNIYPEQYSYMLELKRA-LDAK-GHCLLEMPTGTGKTIA 51 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~-l~~~-~~~liEaPTGtGKTla 51 (757)
.|||.- -.+|.+....+.-+ +..+ +|+++++|.|||||..
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 466665 57899998887754 4455 7999999999999964
No 197
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=88.65 E-value=0.3 Score=57.00 Aligned_cols=46 Identities=24% Similarity=0.214 Sum_probs=34.7
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHH
Q 004385 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (757)
Q Consensus 37 ~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~ 84 (757)
++=|++-||||||.+||=...+.-+++ |-.|.||.+||.+--+-+.
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 3449999999988655533
No 198
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=88.54 E-value=0.79 Score=47.58 Aligned_cols=51 Identities=22% Similarity=0.340 Sum_probs=35.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHcC
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSK 63 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~-~~~liEaPTGtGKTla~L~~al~~~~~~ 63 (757)
-|.+.|.-.|..+=..+.+.+... +-+++.+|||+|||-. |++.+.|...+
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 355555666776666666644443 6788899999999976 56677777654
No 199
>PRK06921 hypothetical protein; Provisional
Probab=88.39 E-value=1.8 Score=45.10 Aligned_cols=38 Identities=24% Similarity=0.251 Sum_probs=24.1
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
+..+++-+|||+|||.-+. |++.......+. +|+|.+.
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 5689999999999996433 333221111134 7888774
No 200
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=88.38 E-value=2 Score=49.30 Aligned_cols=70 Identities=14% Similarity=0.014 Sum_probs=44.8
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
-+.|..=..=+....++|-++++--.-|-|||.-.+ +.|+++....+--.+.+|.|+.-.+ .-...|+.+
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 345666677777788889999999999999998654 4566655442211156666665443 334445444
No 201
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=88.14 E-value=3 Score=47.04 Aligned_cols=95 Identities=25% Similarity=0.386 Sum_probs=69.0
Q ss_pred HHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeC-CCchhHHHHHHHHHHhccCCCC
Q 004385 513 GVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRG 591 (757)
Q Consensus 513 ~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~-~~~~~~~~~l~~f~~~~~~~~~ 591 (757)
+-...+...|..+....++.++||+...+..+.+...++..++ +.+-+.+ ....++..+|+.|+. |+-
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 3446677777777777789999999999999999888775431 2122222 223567788999886 788
Q ss_pred eEEEEeecCcccccccCCCCCceEEEEeccC
Q 004385 592 AVFFSVARGKVAEGIDFDRHYGRLVIMFGVP 622 (757)
Q Consensus 592 avL~gv~~G~~~EGiDf~~~~~r~Vii~glP 622 (757)
.||+|+ .-.+.|+|++| .+.||-.-.|
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 5667766544
No 202
>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=88.01 E-value=1.5 Score=46.49 Aligned_cols=49 Identities=18% Similarity=0.189 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 24 YMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 24 ~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
++..+..++..+++++|.+|||+|||-.+ -+.+.+....+... +|++.-
T Consensus 121 ~~~~L~~~v~~~~~ilI~G~tGSGKTTll-~al~~~i~~~~~~~-ri~tiE 169 (299)
T TIGR02782 121 QRDVLREAVLARKNILVVGGTGSGKTTLA-NALLAEIAKNDPTD-RVVIIE 169 (299)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHhhccCCCc-eEEEEC
Confidence 34456667778899999999999999743 33333332222234 666543
No 203
>PRK06526 transposase; Provisional
Probab=87.93 E-value=0.58 Score=48.42 Aligned_cols=43 Identities=19% Similarity=0.253 Sum_probs=27.5
Q ss_pred HHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 29 KRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 29 ~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
.+.++++.++++.+|+|||||...- +++..... .+. +|+|.|.
T Consensus 92 ~~fi~~~~nlll~Gp~GtGKThLa~--al~~~a~~-~g~-~v~f~t~ 134 (254)
T PRK06526 92 LDFVTGKENVVFLGPPGTGKTHLAI--GLGIRACQ-AGH-RVLFATA 134 (254)
T ss_pred CchhhcCceEEEEeCCCCchHHHHH--HHHHHHHH-CCC-chhhhhH
Confidence 3456677899999999999997433 33332221 244 7776433
No 204
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=87.91 E-value=0.85 Score=50.85 Aligned_cols=41 Identities=37% Similarity=0.400 Sum_probs=28.0
Q ss_pred CHHHHHHHHHHHHHHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHc
Q 004385 18 YPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLS 62 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~-~~~liEaPTGtGKTla~L~~al~~~~~ 62 (757)
.|.|.+- +.+.+.+. +.+++.+|||+|||-+ |.++|.++..
T Consensus 243 ~~~~~~~---~~~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~ 284 (500)
T COG2804 243 SPFQLAR---LLRLLNRPQGLILVTGPTGSGKTTT-LYAALSELNT 284 (500)
T ss_pred CHHHHHH---HHHHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcC
Confidence 4455443 34444444 6888999999999987 5677877653
No 205
>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=87.75 E-value=1.2 Score=43.41 Aligned_cols=47 Identities=23% Similarity=0.244 Sum_probs=29.5
Q ss_pred EEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 38 ~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
.+|.+|+|||||.-.+--+...++ .+. +++|.|-. .-.+++++.+..
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~---~g~-~v~~~s~e-~~~~~~~~~~~~ 48 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLA---RGE-PGLYVTLE-ESPEELIENAES 48 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHH---CCC-cEEEEECC-CCHHHHHHHHHH
Confidence 689999999999866554444443 245 67666533 335566654443
No 206
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=87.67 E-value=1.2 Score=52.88 Aligned_cols=66 Identities=17% Similarity=0.170 Sum_probs=47.1
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC-C-CCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~-~-~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
..|.|++.+.. ..++++|-|+.|||||.++. .-++|+... + ... +|++.|-|..-...+-+-+..+
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------VTGPCLVLAGAGSGKTRVIT-NKIAHLIRGCGYQAR-HIAAVTFTNKAAREMKERVAQT 70 (672)
T ss_pred CCHHHHHHHhC------CCCCEEEEecCCCCHHHHHH-HHHHHHHHhcCCCHH-HeeeEechHHHHHHHHHHHHHH
Confidence 35788775432 35889999999999999854 446665532 2 234 8999999998887766656554
No 207
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=87.63 E-value=2.6 Score=49.25 Aligned_cols=74 Identities=16% Similarity=0.114 Sum_probs=45.2
Q ss_pred eCCCCC-CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 11 YFPYDN-IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 11 ~FPy~~-~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.||... .-+.|++.+ ..++. ++..+|-+|+|||||...-.-.-.+....+....+|.++++|..-...+-+.+.
T Consensus 146 lf~~~~~~~d~Qk~Av---~~a~~-~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~ 220 (615)
T PRK10875 146 LFGPVTDEVDWQKVAA---AVALT-RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLG 220 (615)
T ss_pred hcCcCCCCCHHHHHHH---HHHhc-CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence 465542 137888754 34443 589999999999999764222111222111122389999999987777666444
No 208
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=87.60 E-value=1.5 Score=47.02 Aligned_cols=50 Identities=20% Similarity=0.333 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEE
Q 004385 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~ 73 (757)
+.|.++ +..++..+++++|.+|||+|||-.+ -+.+.+....+.+. +++..
T Consensus 131 ~~~~~~---L~~~v~~~~nilI~G~tGSGKTTll-~aL~~~i~~~~~~~-rivti 180 (323)
T PRK13833 131 EAQASV---IRSAIDSRLNIVISGGTGSGKTTLA-NAVIAEIVASAPED-RLVIL 180 (323)
T ss_pred HHHHHH---HHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHHhcCCCCc-eEEEe
Confidence 444444 5567778899999999999999642 33333332223334 66653
No 209
>PRK12377 putative replication protein; Provisional
Probab=87.53 E-value=2 Score=44.30 Aligned_cols=54 Identities=19% Similarity=0.107 Sum_probs=30.7
Q ss_pred CHHHHHHHHHHHH---HHHhC-CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 18 YPEQYSYMLELKR---ALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 18 r~~Q~~~~~~v~~---~l~~~-~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
.++|..++..+.+ .+..+ ..+++-+|+|||||.. +.|++..... .+. +|+|.|-
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThL--a~AIa~~l~~-~g~-~v~~i~~ 137 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHL--AAAIGNRLLA-KGR-SVIVVTV 137 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHH--HHHHHHHHHH-cCC-CeEEEEH
Confidence 3677655544433 33333 5789999999999964 3333332222 234 6666543
No 210
>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=87.51 E-value=0.64 Score=50.12 Aligned_cols=40 Identities=28% Similarity=0.343 Sum_probs=33.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~--~~~~liEaPTGtGKTla~ 52 (757)
|||.- --+|.++..++.-++-. .++++|++|+|+|||..+
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 57999999888766655 589999999999999743
No 211
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=87.11 E-value=1.2 Score=51.51 Aligned_cols=70 Identities=21% Similarity=0.269 Sum_probs=53.3
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
.|||.- =|-|.+. ..++++++.+++-|-|-.|||..+=.+ ++.+. .++. ||||.+|-+++-.|=.+||..
T Consensus 125 ~YPF~L-DpFQ~~a----I~Cidr~eSVLVSAHTSAGKTVVAeYA-IA~sL--r~kQ-RVIYTSPIKALSNQKYREl~~ 194 (1041)
T KOG0948|consen 125 TYPFTL-DPFQSTA----IKCIDRGESVLVSAHTSAGKTVVAEYA-IAMSL--REKQ-RVIYTSPIKALSNQKYRELLE 194 (1041)
T ss_pred CCCccc-CchHhhh----hhhhcCCceEEEEeecCCCcchHHHHH-HHHHH--HhcC-eEEeeChhhhhcchhHHHHHH
Confidence 356663 5667654 568889999999999999999876543 33332 3457 999999999999998887664
No 212
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=86.97 E-value=1.5 Score=47.21 Aligned_cols=45 Identities=24% Similarity=0.155 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEE
Q 004385 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIY 72 (757)
Q Consensus 23 ~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~ 72 (757)
.++.-+..++..+++++|.+|||+|||-.+ -+.+.+ .+... ||+.
T Consensus 148 ~~~~~L~~~v~~~~nili~G~tgSGKTTll-~aL~~~---ip~~~-ri~t 192 (332)
T PRK13900 148 KIKEFLEHAVISKKNIIISGGTSTGKTTFT-NAALRE---IPAIE-RLIT 192 (332)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHH-HHHHhh---CCCCC-eEEE
Confidence 455556667788999999999999999743 333332 24445 6655
No 213
>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=86.92 E-value=2.6 Score=49.12 Aligned_cols=65 Identities=22% Similarity=0.255 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCC-CCcEEEEEccchhhHHHHHHHH
Q 004385 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAEL 87 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~-~~~kvi~~T~T~~l~~Q~~~el 87 (757)
+.|++. +..++. +...+|.+|.|||||...-.-...+....+. ++.+|.++++|+.-...+-+-+
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 566653 444444 5899999999999998543222222222211 1138999999998766655533
No 214
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=86.82 E-value=1.7 Score=52.35 Aligned_cols=68 Identities=16% Similarity=0.187 Sum_probs=49.2
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC-C-CCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~-~-~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
...|.|++.+. ...++++|-|+.|||||.++.. -++|+... . ... +|+..|=|+.-...+-+.+.++.
T Consensus 9 ~Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~vl~~-Ria~Li~~~~v~p~-~IL~lTFT~kAA~Em~~Rl~~~~ 78 (721)
T PRK11773 9 SLNDKQREAVA------APLGNMLVLAGAGSGKTRVLVH-RIAWLMQVENASPY-SIMAVTFTNKAAAEMRHRIEQLL 78 (721)
T ss_pred hcCHHHHHHHh------CCCCCEEEEecCCCCHHHHHHH-HHHHHHHcCCCChh-HeEeeeccHHHHHHHHHHHHHHh
Confidence 35788888654 2358999999999999998544 45665532 1 234 89999999998877776666653
No 215
>PRK07952 DNA replication protein DnaC; Validated
Probab=86.73 E-value=2.4 Score=43.59 Aligned_cols=52 Identities=13% Similarity=0.148 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHh---C-CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 19 PEQYSYMLELKRALDA---K-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~---~-~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
+.|......+.+..++ + ..+++-+|+|||||.-+. +++..... .+. +|+|.|
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~--aia~~l~~-~g~-~v~~it 134 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAA--AICNELLL-RGK-SVLIIT 134 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHH--HHHHHHHh-cCC-eEEEEE
Confidence 5676666555554432 2 478999999999997433 33322211 245 787774
No 216
>PRK09183 transposase/IS protein; Provisional
Probab=86.69 E-value=1.2 Score=46.30 Aligned_cols=39 Identities=23% Similarity=0.357 Sum_probs=26.4
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
+.++.++++-+|+|+|||.- +.+++.... ..+. +|.|.+
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 67788999999999999964 334433221 1244 777765
No 217
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=86.65 E-value=3.1 Score=50.41 Aligned_cols=67 Identities=18% Similarity=0.076 Sum_probs=43.2
Q ss_pred EcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHH
Q 004385 5 LEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (757)
Q Consensus 5 i~~~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q 82 (757)
..|-++.....+ |+.|.-=.-. |. .--+.|+.||=||||+.-+|+..-+.. |+ .|-+.|-.-=|...
T Consensus 128 ~~g~~~~wdm~~-ydVQLiGgiv----Lh--~G~IAEM~TGEGKTLvatlp~yLnAL~---G~-gVHvVTvNDYLA~R 194 (1025)
T PRK12900 128 VMGREMTWDMVP-YDVQLIGGIV----LH--SGKISEMATGEGKTLVSTLPTFLNALT---GR-GVHVVTVNDYLAQR 194 (1025)
T ss_pred ccccccccCccc-cchHHhhhHH----hh--cCCccccCCCCCcchHhHHHHHHHHHc---CC-CcEEEeechHhhhh
Confidence 346667777775 7887643222 22 334689999999999988887655543 44 56666655544443
No 218
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=86.63 E-value=5.9 Score=44.20 Aligned_cols=78 Identities=19% Similarity=0.338 Sum_probs=56.7
Q ss_pred HHHhhhc-cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcc-EEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeec
Q 004385 522 LVEMVSI-VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKL-VFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 599 (757)
Q Consensus 522 l~~~~~~-~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~-if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~ 599 (757)
|.++++. ....++||.+-.+-.+.+++.+.+.|+ +. .+--+++..++...|+.|+. +.+.||+|+.
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 3444433 356899999999999999999887653 22 33223444567778999997 6788999874
Q ss_pred CcccccccCCCCC
Q 004385 600 GKVAEGIDFDRHY 612 (757)
Q Consensus 600 G~~~EGiDf~~~~ 612 (757)
-...|||+|+-.
T Consensus 576 -vAgRGIDIpnVS 587 (673)
T KOG0333|consen 576 -VAGRGIDIPNVS 587 (673)
T ss_pred -ccccCCCCCccc
Confidence 788999999843
No 219
>PRK05580 primosome assembly protein PriA; Validated
Probab=86.63 E-value=4 Score=48.69 Aligned_cols=135 Identities=16% Similarity=0.150 Sum_probs=77.0
Q ss_pred hHHHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHH
Q 004385 574 ETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFD 653 (757)
Q Consensus 574 ~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~ 653 (757)
+.+.++++|++ |+-.||+|+. -++.|+||++ ..+|+|.....+- .-|-.++ ...
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 35667888875 6778999986 5999999997 4667777755431 1111111 114
Q ss_pred HHHHHHHhcccccccCCCeeEEEEeeccc--------CCccc------------cCCCcHHHHhhccccccCCCHHHHHH
Q 004385 654 ALRQAAQCVGRVIRSKADYGMMIFADKRY--------SRHDK------------RSKLPGWILSHLRDAHLNLSTDMALH 713 (757)
Q Consensus 654 a~~~~~Q~iGR~IR~~~D~G~villD~R~--------~~~~~------------~~~lp~w~~~~~~~~~~~~~~~~~~~ 713 (757)
++..+.|.+||.=|... .|.+++.=..- ...++ .-.+||+.+--.... .....+.+.+
T Consensus 522 ~~~~l~q~~GRagR~~~-~g~viiqT~~p~~~~~~~~~~~d~~~f~~~El~~R~~~~~PPf~~l~~i~~-~~~~~~~~~~ 599 (679)
T PRK05580 522 TFQLLTQVAGRAGRAEK-PGEVLIQTYHPEHPVIQALLAQDYDAFAEQELEERRAAGYPPFGRLALLRA-SAKDEEKAEK 599 (679)
T ss_pred HHHHHHHHHhhccCCCC-CCEEEEEeCCCCCHHHHHHHhCCHHHHHHHHHHHHHhcCCCCHHHhhEeEE-ecCCHHHHHH
Confidence 57778899999888644 47666532111 01111 145788775422211 1224455566
Q ss_pred HHHHHHHHhcCCC-CcCCcccccc
Q 004385 714 IAREFLRKMAQPY-DKAGSIGRKT 736 (757)
Q Consensus 714 ~~~~Ff~~~~~~~-~~~~~~~~~~ 736 (757)
.+..+...+...+ ..+-+++|+.
T Consensus 600 ~~~~~~~~l~~~~~~~~~~vlGp~ 623 (679)
T PRK05580 600 FAQQLAALLPNLLPLLDVEVLGPA 623 (679)
T ss_pred HHHHHHHHHHhhcccCCeEEeCCc
Confidence 6666666665544 2233566644
No 220
>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=86.62 E-value=1.6 Score=52.51 Aligned_cols=59 Identities=17% Similarity=0.150 Sum_probs=41.2
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHH
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q 82 (757)
..+.|++.+..+. ..++..+|.+|+|||||.. |-+++..+... +. +|+.+++|......
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 4689999776654 3357899999999999965 33333333332 45 89999999875433
No 221
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=86.21 E-value=1.1 Score=44.66 Aligned_cols=34 Identities=26% Similarity=0.368 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHH
Q 004385 23 SYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLI 56 (757)
Q Consensus 23 ~~~~~v~~~l~~~--~~~liEaPTGtGKTla~L~~a 56 (757)
+.++.+.-...+| -|+++.+|+|||||-+.+|-|
T Consensus 34 ~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LA 69 (333)
T KOG0991|consen 34 DTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLA 69 (333)
T ss_pred HHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHH
Confidence 3444444444455 489999999999999988754
No 222
>PRK08116 hypothetical protein; Validated
Probab=86.18 E-value=2.3 Score=44.36 Aligned_cols=53 Identities=19% Similarity=0.144 Sum_probs=29.7
Q ss_pred CHHHHHHHHHHH---HHHHh--CC--cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 18 YPEQYSYMLELK---RALDA--KG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 18 r~~Q~~~~~~v~---~~l~~--~~--~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
.+.|..++..+. +.+.+ .. .+++.+|+|||||.- +.+++...... +. +|+|.+
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 356655444333 34332 22 489999999999964 43444322211 34 677765
No 223
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=86.16 E-value=2.1 Score=43.65 Aligned_cols=53 Identities=19% Similarity=0.224 Sum_probs=34.2
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
+..+...++.+|+|+|||...+-.+...+. .+. +++|.+ +..-.+++++.+..
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 445788999999999999864333222222 245 777777 44444677766544
No 224
>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=86.15 E-value=2.8 Score=50.28 Aligned_cols=64 Identities=16% Similarity=0.016 Sum_probs=43.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q 82 (757)
+++. ..+.|++.+..+. .++..+|.++.|||||...- ..+..+....... +|+.+++|..-..+
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 4789999776653 56799999999999997543 3333333321114 89999999886654
No 225
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=86.15 E-value=0.79 Score=46.97 Aligned_cols=46 Identities=13% Similarity=0.224 Sum_probs=31.3
Q ss_pred HHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 28 LKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 28 v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
+...+..|...+|.||||+|||.-.+--+..++... +. +|+|.|--
T Consensus 6 ~~~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~--g~-~vly~s~E 51 (242)
T cd00984 6 LTGGLQPGDLIIIAARPSMGKTAFALNIAENIAKKQ--GK-PVLFFSLE 51 (242)
T ss_pred hhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhC--CC-ceEEEeCC
Confidence 333556678899999999999986665555555432 45 67776643
No 226
>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=86.11 E-value=1.7 Score=55.52 Aligned_cols=62 Identities=21% Similarity=0.237 Sum_probs=44.8
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
+.+.|.+.+. ..+++++|.|+-|||||.++..-++.......... +|++.|=|..-...+-+
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 3688888775 35789999999999999987766655443221224 79999999876655443
No 227
>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=86.09 E-value=1.2 Score=52.50 Aligned_cols=51 Identities=20% Similarity=0.335 Sum_probs=39.1
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcC--CCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~--~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
.++..+|-||.|||||-+++- |.+.. ..+. +|++.|...++.+++.+.++.
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 357889999999999988643 43332 2245 899999999999999886664
No 228
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=85.86 E-value=1.7 Score=52.23 Aligned_cols=67 Identities=19% Similarity=0.190 Sum_probs=48.5
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC-C-CCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~-~-~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
+.|.|++.+. ...++++|-|+.|||||.++.. =++|+... + ... +|+..|=|+.-...+-+-+.++.
T Consensus 5 Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~~L~~-Ria~Li~~~~v~p~-~IL~lTFTnkAA~em~~Rl~~~~ 73 (715)
T TIGR01075 5 LNDKQREAVA------APPGNLLVLAGAGSGKTRVLTH-RIAWLLSVENASPH-SIMAVTFTNKAAAEMRHRIGALL 73 (715)
T ss_pred cCHHHHHHHc------CCCCCEEEEecCCCCHHHHHHH-HHHHHHHcCCCCHH-HeEeeeccHHHHHHHHHHHHHHh
Confidence 5788888553 2358999999999999998544 45665543 1 234 89999999988777666666653
No 229
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=85.82 E-value=1.9 Score=51.41 Aligned_cols=65 Identities=18% Similarity=0.256 Sum_probs=46.0
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC-C-CCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~-~-~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
.|.|++.+.. ..++++|-|+.|||||.+++.- ++|+... + ..+ +|++.|-|..-...+-+.+.+.
T Consensus 3 n~~Q~~av~~------~~~~~~V~Ag~GSGKT~~L~~r-i~~ll~~~~~~p~-~IL~vTFt~~Aa~em~~Rl~~~ 69 (664)
T TIGR01074 3 NPQQQEAVEY------VTGPCLVLAGAGSGKTRVITNK-IAYLIQNCGYKAR-NIAAVTFTNKAAREMKERVAKT 69 (664)
T ss_pred CHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHH-HHHHHHhcCCCHH-HeEEEeccHHHHHHHHHHHHHH
Confidence 5778774432 3589999999999999986665 4444432 2 234 8999999988777776666554
No 230
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=85.70 E-value=0.93 Score=48.94 Aligned_cols=35 Identities=37% Similarity=0.524 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHhCC--cEEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~liEaPTGtGKTla~L~ 54 (757)
+|.+....+..++..+. ++++.+|+|||||.....
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~ 55 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRA 55 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHH
Confidence 56777788888888887 899999999999976543
No 231
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.68 E-value=0.7 Score=53.56 Aligned_cols=36 Identities=39% Similarity=0.394 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~~ 55 (757)
+|......+..++..++ |+ ++.+|.|||||....+-
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 89999999999876654
No 232
>PRK05973 replicative DNA helicase; Provisional
Probab=85.64 E-value=0.96 Score=46.14 Aligned_cols=58 Identities=22% Similarity=0.217 Sum_probs=36.7
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 27 ~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
++...+..|...+|-|++|+|||.-.+--+...+. .+. +++|.|--.+ -+|+++.+..
T Consensus 56 ~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~---~Ge-~vlyfSlEes-~~~i~~R~~s 113 (237)
T PRK05973 56 ELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMK---SGR-TGVFFTLEYT-EQDVRDRLRA 113 (237)
T ss_pred HhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh---cCC-eEEEEEEeCC-HHHHHHHHHH
Confidence 34445566778999999999999876654444332 256 7777654443 3566654443
No 233
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.41 E-value=0.88 Score=50.54 Aligned_cols=35 Identities=23% Similarity=0.227 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L~ 54 (757)
+|......+..++.+++ | .++.+|.|+|||..+.+
T Consensus 20 Gq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~ 57 (397)
T PRK14955 20 AQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARV 57 (397)
T ss_pred ChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHH
Confidence 89999999999998873 5 77899999999987554
No 234
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=85.36 E-value=2.2 Score=52.42 Aligned_cols=60 Identities=15% Similarity=0.072 Sum_probs=42.4
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHH
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~ 83 (757)
..++|++.+..+ +..++..+|.++.|||||.. |-++...+... +. +|+.+++|......+
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 478999876544 44456889999999999985 44444444332 45 899999998755433
No 235
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=85.24 E-value=2 Score=47.89 Aligned_cols=83 Identities=17% Similarity=0.291 Sum_probs=56.1
Q ss_pred hhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCC-CchhHHHHHHHHHHhccCCCCeEEEEeecCccc
Q 004385 525 MVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSVARGKVA 603 (757)
Q Consensus 525 ~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~ 603 (757)
++..-||.+|||++|.....+++..+...++ .++-.... ....+-.-+++|++ ...+||+|.. -.+
T Consensus 458 fl~ryPGrTlVF~NsId~vKRLt~~L~~L~i-------~p~~LHA~M~QKqRLknLEkF~~----~~~~VLiaTD--VAA 524 (731)
T KOG0347|consen 458 FLTRYPGRTLVFCNSIDCVKRLTVLLNNLDI-------PPLPLHASMIQKQRLKNLEKFKQ----SPSGVLIATD--VAA 524 (731)
T ss_pred EEeecCCceEEEechHHHHHHHHHHHhhcCC-------CCchhhHHHHHHHHHHhHHHHhc----CCCeEEEeeh--hhh
Confidence 4456799999999999999999998876542 11111111 11233456889998 4778999885 788
Q ss_pred ccccCCCCCceEEEEeccC
Q 004385 604 EGIDFDRHYGRLVIMFGVP 622 (757)
Q Consensus 604 EGiDf~~~~~r~Vii~glP 622 (757)
.|+|+|| ..-||=.-+|
T Consensus 525 RGLDIp~--V~HVIHYqVP 541 (731)
T KOG0347|consen 525 RGLDIPG--VQHVIHYQVP 541 (731)
T ss_pred ccCCCCC--cceEEEeecC
Confidence 9999998 2334444443
No 236
>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=85.04 E-value=1.7 Score=44.56 Aligned_cols=52 Identities=17% Similarity=0.128 Sum_probs=32.3
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
-.+...+|.+|+|+|||.-.+--+...+. .+. +++|.| +-.-.+|+++.+..
T Consensus 19 ~~gs~~lI~G~pGsGKT~la~~~l~~~~~---~ge-~~lyvs-~ee~~~~i~~~~~~ 70 (237)
T TIGR03877 19 PERNVVLLSGGPGTGKSIFSQQFLWNGLQ---MGE-PGIYVA-LEEHPVQVRRNMAQ 70 (237)
T ss_pred cCCeEEEEEcCCCCCHHHHHHHHHHHHHH---cCC-cEEEEE-eeCCHHHHHHHHHH
Confidence 34568999999999999854432222222 255 676666 33445567775554
No 237
>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=84.95 E-value=1.8 Score=47.20 Aligned_cols=47 Identities=19% Similarity=0.266 Sum_probs=29.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHH-hCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004385 13 PYDNIYPEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIALLSLITSYV 60 (757)
Q Consensus 13 Py~~~r~~Q~~~~~~v~~~l~-~~~~~liEaPTGtGKTla~L~~al~~~ 60 (757)
|-.++.-.|.-+-..+.+.+. .++.++|.+|||+|||-.+ .+.+.+.
T Consensus 111 ~~~~~~l~~l~~~~~~~~~~~~~~glilI~GpTGSGKTTtL-~aLl~~i 158 (358)
T TIGR02524 111 PAEPPKLSKLDLPAAIIDAIAPQEGIVFITGATGSGKSTLL-AAIIREL 158 (358)
T ss_pred CCCCCCHHHcCCCHHHHHHHhccCCEEEEECCCCCCHHHHH-HHHHHHH
Confidence 333334444443334555555 5689999999999999753 4444444
No 238
>PLN03025 replication factor C subunit; Provisional
Probab=84.94 E-value=1.1 Score=48.06 Aligned_cols=35 Identities=26% Similarity=0.328 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~L~ 54 (757)
+|.+.+..+...+..+ .|+++.+|+|||||..+.+
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~ 53 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILA 53 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHH
Confidence 6777777777777665 4899999999999976554
No 239
>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=84.89 E-value=0.81 Score=41.47 Aligned_cols=19 Identities=32% Similarity=0.340 Sum_probs=16.2
Q ss_pred CCcEEEEcCCCCcHHHHHH
Q 004385 35 KGHCLLEMPTGTGKTIALL 53 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L 53 (757)
+.++++.+|+|||||....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~ 20 (148)
T smart00382 2 GEVILIVGPPGSGKTTLAR 20 (148)
T ss_pred CCEEEEECCCCCcHHHHHH
Confidence 5689999999999998654
No 240
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=84.89 E-value=2.8 Score=46.47 Aligned_cols=37 Identities=32% Similarity=0.370 Sum_probs=24.1
Q ss_pred CHHHHHH-HHHHHHHHHhC--CcEEEEcCCCCcHHHHHHH
Q 004385 18 YPEQYSY-MLELKRALDAK--GHCLLEMPTGTGKTIALLS 54 (757)
Q Consensus 18 r~~Q~~~-~~~v~~~l~~~--~~~liEaPTGtGKTla~L~ 54 (757)
|..|.+- ...+..++..+ .+++|-+|+|||||...-.
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~ 74 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKK 74 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHH
Confidence 4555444 33333444432 5799999999999987554
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=84.86 E-value=1.2 Score=46.91 Aligned_cols=17 Identities=35% Similarity=0.313 Sum_probs=14.8
Q ss_pred CcEEEEcCCCCcHHHHH
Q 004385 36 GHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~ 52 (757)
.++++.+|+|||||..+
T Consensus 59 ~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVA 75 (284)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 37999999999999754
No 242
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=84.85 E-value=2.4 Score=49.64 Aligned_cols=56 Identities=18% Similarity=0.161 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCC-cEEEEEccchh
Q 004385 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENP-VKLIYCTRTVH 78 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~-~kvi~~T~T~~ 78 (757)
-+|.+....+..++..+.++++.+|+|||||...- +++. ..+... .+++|..++..
T Consensus 21 iG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~la~--~la~--~l~~~~~~~~~~~~n~~~ 77 (608)
T TIGR00764 21 IGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSMLAK--AMAE--LLPDEELEDILVYPNPED 77 (608)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEECCCCCCHHHHHH--HHHH--HcCchhheeEEEEeCCCC
Confidence 57899999999999999999999999999997533 3332 222221 26666666643
No 243
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=84.69 E-value=5.5 Score=40.59 Aligned_cols=67 Identities=21% Similarity=0.269 Sum_probs=44.9
Q ss_pred CHHHHHHHHHHHHHHHhC---CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccch-hhHHHHHHHHH
Q 004385 18 YPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV-HEMEKTLAELK 88 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~---~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~-~l~~Q~~~el~ 88 (757)
+..|++.+.+-.+++-+| .|+++.++-|||||-..-...-.|+. .++|+|-..+.. ..+..+++.|+
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 IERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYAD----QGLRLIEVSKEDLGDLPELLDLLR 102 (249)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhh----cCceEEEECHHHhccHHHHHHHHh
Confidence 567888777777777776 59999999999999765544333332 235888876654 33444555444
No 244
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=84.39 E-value=6.1 Score=44.36 Aligned_cols=88 Identities=15% Similarity=0.231 Sum_probs=58.6
Q ss_pred HHHHhhhcc-CCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCc--hhHHHHHHHHHHhccCCCCeEEEEe
Q 004385 521 LLVEMVSIV-PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV--VETTLALDNYRKACDCGRGAVFFSV 597 (757)
Q Consensus 521 ~l~~~~~~~-~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~--~~~~~~l~~f~~~~~~~~~avL~gv 597 (757)
.|..+++.. ...++|||+|-....-+++.+.. +...-+++.-...+ ..+..+..+|-+ .+.+||||+
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 355555554 46899999999999888887654 33334455433332 223445566655 477999988
Q ss_pred ecCcccccccCCCCCceEEEEeccC
Q 004385 598 ARGKVAEGIDFDRHYGRLVIMFGVP 622 (757)
Q Consensus 598 ~~G~~~EGiDf~~~~~r~Vii~glP 622 (757)
. -.+.|+||| +...||=+--|
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 5 789999999 56666665544
No 245
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=84.24 E-value=1.2 Score=49.55 Aligned_cols=36 Identities=25% Similarity=0.406 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004385 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV 60 (757)
Q Consensus 23 ~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~ 60 (757)
...+.+..++..++++++.+|+|||||... -.++..
T Consensus 182 ~~le~l~~~L~~~~~iil~GppGtGKT~lA--~~la~~ 217 (459)
T PRK11331 182 TTIETILKRLTIKKNIILQGPPGVGKTFVA--RRLAYL 217 (459)
T ss_pred HHHHHHHHHHhcCCCEEEECCCCCCHHHHH--HHHHHH
Confidence 345667888889999999999999999644 344443
No 246
>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=84.12 E-value=3.5 Score=37.50 Aligned_cols=30 Identities=23% Similarity=0.177 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHhC---CcEE--EEcCCCCcHHHH
Q 004385 22 YSYMLELKRALDAK---GHCL--LEMPTGTGKTIA 51 (757)
Q Consensus 22 ~~~~~~v~~~l~~~---~~~l--iEaPTGtGKTla 51 (757)
..++.+|...+.+. +.++ +-+|||||||..
T Consensus 35 ~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v 69 (127)
T PF06309_consen 35 EVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFV 69 (127)
T ss_pred HHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHH
Confidence 34555555555443 4455 689999999974
No 247
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=84.12 E-value=1.2 Score=46.59 Aligned_cols=35 Identities=34% Similarity=0.454 Sum_probs=24.5
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccch
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~ 77 (757)
.++++-+|||+|||+ |+-+|+-.. +- +.-++-.|.
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 455555332 22 677776664
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=83.85 E-value=4.3 Score=39.12 Aligned_cols=55 Identities=20% Similarity=0.117 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC-CCCCcEEEEEccchh
Q 004385 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVH 78 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~-~~~~~kvi~~T~T~~ 78 (757)
.=.++.+.+.++.....+++|++++||||++. +-++ +.... ..++ =|.|-+++.+
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 33455666666666678999999999999973 3333 33222 2234 3555555554
No 249
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=83.81 E-value=3.9 Score=49.63 Aligned_cols=139 Identities=12% Similarity=0.139 Sum_probs=76.4
Q ss_pred ccchHHhhccCeEEEeccCCCCC-cchhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHH
Q 004385 440 LAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNY 518 (757)
Q Consensus 440 ~~~~~l~~~~~svIltSgTL~p~-~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~ 518 (757)
..++.+|..++..--|+||.... +.|...-+++-+ .+|.+ . |.+--+-++ .-| +...+-+.++
T Consensus 554 IT~QnyFR~Y~kLsGMTGTA~tea~Ef~~IY~L~Vv-------~IPTn-r-P~~R~D~~D-----~vy--~t~~eK~~Ai 617 (1112)
T PRK12901 554 ITLQNYFRMYHKLAGMTGTAETEAGEFWDIYKLDVV-------VIPTN-R-PIARKDKED-----LVY--KTKREKYNAV 617 (1112)
T ss_pred eeHHHHHhhCchhcccCCCCHHHHHHHHHHhCCCEE-------ECCCC-C-CcceecCCC-----eEe--cCHHHHHHHH
Confidence 44567777777777777887553 234444444321 11111 1 111001111 112 2233334666
Q ss_pred HHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEee
Q 004385 519 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 598 (757)
Q Consensus 519 ~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~ 598 (757)
.+.+.++. ..+..+||-.+|-+.=+.+...++..|+-.+...-| +...+ ..++ .++ ..+|+|-+|+.
T Consensus 618 i~ei~~~~-~~GrPVLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK------~h~~E-AeIV---A~A--G~~GaVTIATN 684 (1112)
T PRK12901 618 IEEITELS-EAGRPVLVGTTSVEISELLSRMLKMRKIPHNVLNAK------LHQKE-AEIV---AEA--GQPGTVTIATN 684 (1112)
T ss_pred HHHHHHHH-HCCCCEEEEeCcHHHHHHHHHHHHHcCCcHHHhhcc------chhhH-HHHH---Hhc--CCCCcEEEecc
Confidence 66666665 367899999999999988888888776533332111 11111 1122 222 34788998873
Q ss_pred cCcccccccCC
Q 004385 599 RGKVAEGIDFD 609 (757)
Q Consensus 599 ~G~~~EGiDf~ 609 (757)
-...|-|+.
T Consensus 685 --MAGRGTDIk 693 (1112)
T PRK12901 685 --MAGRGTDIK 693 (1112)
T ss_pred --CcCCCcCcc
Confidence 667999996
No 250
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=83.74 E-value=1.5 Score=46.80 Aligned_cols=31 Identities=13% Similarity=0.164 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCCcHHHHH
Q 004385 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 22 ~~~~~~v~~~l~~~~~~liEaPTGtGKTla~ 52 (757)
.+....|..++..++++++++|+|||||...
T Consensus 51 ~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla 81 (327)
T TIGR01650 51 KATTKAICAGFAYDRRVMVQGYHGTGKSTHI 81 (327)
T ss_pred HHHHHHHHHHHhcCCcEEEEeCCCChHHHHH
Confidence 3455668888988999999999999999743
No 251
>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=83.65 E-value=1.7 Score=43.21 Aligned_cols=43 Identities=28% Similarity=0.377 Sum_probs=25.9
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
+..|++|-++||+|||..+-..+.+.+..+.....+++++-..
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 4469999999999999987665555554322234477777554
No 252
>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=83.50 E-value=1.4 Score=50.08 Aligned_cols=70 Identities=21% Similarity=0.105 Sum_probs=40.9
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhhhccccCCCccceEEEEecCCcc-
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN- 114 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~- 114 (757)
.|+++-||||+|||.++.+|.+.- . .. .+||.-+.-.+......-+++ .+.++.+.-..+..+
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 455555554443333322332 133454444444444
Q ss_pred cccchHH
Q 004385 115 LCVNSRV 121 (757)
Q Consensus 115 lC~~~~~ 121 (757)
.|-|+..
T Consensus 109 ~~~NPL~ 115 (469)
T PF02534_consen 109 HRWNPLD 115 (469)
T ss_pred cccCCcc
Confidence 3666543
No 253
>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=83.40 E-value=2.6 Score=46.15 Aligned_cols=51 Identities=24% Similarity=0.180 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHH-hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEE
Q 004385 20 EQYSYMLELKRALD-AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIY 72 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~-~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~ 72 (757)
.|.-+...+.+.+. .++.++|.+|||+|||-.+ .+.+.+....+... +|+.
T Consensus 133 ~~lgl~~~~~~~l~~~~GlilI~G~TGSGKTT~l-~al~~~i~~~~~~~-~Ivt 184 (372)
T TIGR02525 133 KQMGIEPDLFNSLLPAAGLGLICGETGSGKSTLA-ASIYQHCGETYPDR-KIVT 184 (372)
T ss_pred HHcCCCHHHHHHHHhcCCEEEEECCCCCCHHHHH-HHHHHHHHhcCCCc-eEEE
Confidence 44444444444443 4578899999999999753 44455544332233 5553
No 254
>PRK05642 DNA replication initiation factor; Validated
Probab=83.40 E-value=2.5 Score=43.16 Aligned_cols=37 Identities=11% Similarity=0.104 Sum_probs=23.5
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
..+++-+|+|+|||-- +-|++..... .+. +++|.+..
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 4688999999999964 3333332221 245 78887753
No 255
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=83.39 E-value=3.8 Score=50.67 Aligned_cols=77 Identities=23% Similarity=0.344 Sum_probs=56.9
Q ss_pred eeCCCCCCCHHHHHHHHHHHH-HHHhC-----CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHH
Q 004385 10 VYFPYDNIYPEQYSYMLELKR-ALDAK-----GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (757)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~-~l~~~-----~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~ 83 (757)
+.=||. +..|...+....+ ++... +.++|.=-||||||++.+..|-- +...+..+ +|++.|-...|-.|+
T Consensus 244 ~~k~~~--~~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~~-l~~~~~~~-~v~fvvDR~dLd~Q~ 319 (962)
T COG0610 244 VKKKYQ--RYAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARL-LLELPKNP-KVLFVVDRKDLDDQT 319 (962)
T ss_pred cchhHH--HHHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHHH-HHhccCCC-eEEEEechHHHHHHH
Confidence 444553 5677777774433 33333 36999999999999998887643 34445567 999999999999999
Q ss_pred HHHHHhh
Q 004385 84 LAELKLL 90 (757)
Q Consensus 84 ~~el~~l 90 (757)
.+++...
T Consensus 320 ~~~f~~~ 326 (962)
T COG0610 320 SDEFQSF 326 (962)
T ss_pred HHHHHHH
Confidence 9998875
No 256
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=83.38 E-value=2.3 Score=45.25 Aligned_cols=51 Identities=24% Similarity=0.355 Sum_probs=34.3
Q ss_pred HHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhH
Q 004385 25 MLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (757)
Q Consensus 25 ~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~ 80 (757)
+.-+..++....++++.++||+|||-. |-+.+++. +... |||.+=-|-.+|
T Consensus 163 a~~L~~av~~r~NILisGGTGSGKTTl-LNal~~~i---~~~e-RvItiEDtaELq 213 (355)
T COG4962 163 AKFLRRAVGIRCNILISGGTGSGKTTL-LNALSGFI---DSDE-RVITIEDTAELQ 213 (355)
T ss_pred HHHHHHHHhhceeEEEeCCCCCCHHHH-HHHHHhcC---CCcc-cEEEEeehhhhc
Confidence 334455666668999999999999963 33333322 3356 899887777665
No 257
>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=83.09 E-value=2.9 Score=42.13 Aligned_cols=33 Identities=18% Similarity=0.210 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHHH
Q 004385 20 EQYSYMLELKRALDA--KGHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~--~~~~liEaPTGtGKTla~ 52 (757)
.+.+.+..+.+.+.. +.++++.+|+|||||...
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la 55 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLL 55 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHH
Confidence 466666666665433 368999999999999743
No 258
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=83.06 E-value=1.9 Score=46.95 Aligned_cols=41 Identities=39% Similarity=0.428 Sum_probs=25.7
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
++++.+-+|||+|||-.+-=-|-.|....+..+ --+|+|-|
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~k-VaiITtDt 243 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKK-VAIITTDT 243 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcc-eEEEEecc
Confidence 788999999999999764322323331122223 45777776
No 259
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.03 E-value=1.2 Score=50.57 Aligned_cols=34 Identities=29% Similarity=0.314 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L 53 (757)
+|......+..++..+. | .++.+|+|||||..+.
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 260
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=82.97 E-value=21 Score=44.31 Aligned_cols=70 Identities=26% Similarity=0.322 Sum_probs=49.0
Q ss_pred CCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhccccccc
Q 004385 589 GRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRS 668 (757)
Q Consensus 589 ~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~ 668 (757)
|.--||++.+ .+.-||++|+|. |||-|----+|+ .+.|-.. .-+-+.|.+||.=|.
T Consensus 632 g~iqvlvsta--tlawgvnlpaht---Viikgtqvy~pe------------------kg~w~el-sp~dv~qmlgragrp 687 (1674)
T KOG0951|consen 632 GHIQVLVSTA--TLAWGVNLPAHT---VIIKGTQVYDPE------------------KGRWTEL-SPLDVMQMLGRAGRP 687 (1674)
T ss_pred CceeEEEeeh--hhhhhcCCCcce---EEecCccccCcc------------------cCccccC-CHHHHHHHHhhcCCC
Confidence 5667888876 899999999864 888884433332 1344321 225677999999998
Q ss_pred CCC-eeEEEEeeccc
Q 004385 669 KAD-YGMMIFADKRY 682 (757)
Q Consensus 669 ~~D-~G~villD~R~ 682 (757)
..| +|-+++.+.+-
T Consensus 688 ~~D~~gegiiit~~s 702 (1674)
T KOG0951|consen 688 QYDTCGEGIIITDHS 702 (1674)
T ss_pred ccCcCCceeeccCch
Confidence 865 78888887764
No 261
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=82.84 E-value=2.4 Score=45.22 Aligned_cols=62 Identities=24% Similarity=0.175 Sum_probs=40.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~ 78 (757)
|.-.| |-.+..|+- ++|-.. +.+.+-++-|||||+-+|+++|.-....+.-+ |||++-+|.+
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 333333 45677899999999999999887654443335 7777766655
No 262
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=82.79 E-value=4.9 Score=45.37 Aligned_cols=46 Identities=20% Similarity=0.172 Sum_probs=27.7
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHH-HHcCCCCCcEEEEEccchhhHHHHHH
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSY-VLSKPENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~-~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
+.++|-+|+|+|||. |+-|++. +.....+. +|+|.|.. .....++.
T Consensus 142 npl~i~G~~G~GKTH--Ll~Ai~~~l~~~~~~~-~v~yv~~~-~f~~~~~~ 188 (450)
T PRK14087 142 NPLFIYGESGMGKTH--LLKAAKNYIESNFSDL-KVSYMSGD-EFARKAVD 188 (450)
T ss_pred CceEEECCCCCcHHH--HHHHHHHHHHHhCCCC-eEEEEEHH-HHHHHHHH
Confidence 468999999999994 3334433 22222244 88888764 33344443
No 263
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=82.75 E-value=3.1 Score=41.27 Aligned_cols=38 Identities=26% Similarity=0.277 Sum_probs=22.9
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccch
Q 004385 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (757)
Q Consensus 37 ~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~ 77 (757)
.+++-+|||+|||-...=-|..+... ..+ -.++|+-|.
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~--~~~-v~lis~D~~ 40 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLK--GKK-VALISADTY 40 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT--T---EEEEEESTS
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhc--ccc-ceeecCCCC
Confidence 57889999999998754433333332 233 456665554
No 264
>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=82.63 E-value=14 Score=42.42 Aligned_cols=75 Identities=20% Similarity=0.280 Sum_probs=49.6
Q ss_pred HHHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHH
Q 004385 576 TLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDAL 655 (757)
Q Consensus 576 ~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~ 655 (757)
...++.|++ |+-.||+|+. -++.|+||++ .++|+|+..-..- ..|-.++ ...++
T Consensus 302 ~~~l~~f~~----g~~~ILVgT~--~i~kG~d~~~--v~lV~vl~aD~~l-~~pd~ra-----------------~E~~~ 355 (505)
T TIGR00595 302 EALLNQFAN----GKADILIGTQ--MIAKGHHFPN--VTLVGVLDADSGL-HSPDFRA-----------------AERGF 355 (505)
T ss_pred HHHHHHHhc----CCCCEEEeCc--ccccCCCCCc--ccEEEEEcCcccc-cCcccch-----------------HHHHH
Confidence 567788875 6778999985 6999999997 5567777654321 0111111 11367
Q ss_pred HHHHHhcccccccCCCeeEEEE
Q 004385 656 RQAAQCVGRVIRSKADYGMMIF 677 (757)
Q Consensus 656 ~~~~Q~iGR~IR~~~D~G~vil 677 (757)
..+.|.+||.=|... .|-+++
T Consensus 356 ~ll~q~~GRagR~~~-~g~vii 376 (505)
T TIGR00595 356 QLLTQVAGRAGRAED-PGQVII 376 (505)
T ss_pred HHHHHHHhccCCCCC-CCEEEE
Confidence 778899999988654 466654
No 265
>PRK08727 hypothetical protein; Validated
Probab=82.58 E-value=2.7 Score=42.96 Aligned_cols=36 Identities=25% Similarity=0.253 Sum_probs=22.5
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
..+++-+|+|||||-- +-|++..... .+. +++|.+-
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 2233322221 245 7888763
No 266
>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=82.44 E-value=4.6 Score=44.11 Aligned_cols=35 Identities=29% Similarity=0.296 Sum_probs=23.1
Q ss_pred CHHHHHHHHHHHHH-HHhC--CcEEEEcCCCCcHHHHH
Q 004385 18 YPEQYSYMLELKRA-LDAK--GHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 18 r~~Q~~~~~~v~~~-l~~~--~~~liEaPTGtGKTla~ 52 (757)
|..|.+-+...... +..+ .+++|-+|+|||||...
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 56666544444333 3322 57999999999999764
No 267
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.41 E-value=1.2 Score=50.05 Aligned_cols=35 Identities=29% Similarity=0.271 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L~ 54 (757)
+|......+..++..++ | .++.+|.|||||-.+.+
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 88999999999999885 4 59999999999976543
No 268
>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=82.37 E-value=1.7 Score=45.49 Aligned_cols=35 Identities=31% Similarity=0.347 Sum_probs=24.8
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHH
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~ 52 (757)
...-..+..-+...+..+.++++.+|||||||...
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 33444444445556677889999999999999853
No 269
>PRK11054 helD DNA helicase IV; Provisional
Probab=82.30 E-value=3.8 Score=48.72 Aligned_cols=66 Identities=15% Similarity=0.273 Sum_probs=45.7
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC--CCCcEEEEEccchhhHHHHHHHHHh
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~--~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
+..+.|++... ...++++|-|+.|||||.++.. -++|+.... .+. +|++.|-|....+-+-+-+..
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 45788887653 2346789999999999998654 455544321 234 899999999877666554443
No 270
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=82.17 E-value=1.4 Score=47.75 Aligned_cols=28 Identities=32% Similarity=0.294 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004385 24 YMLELKRALDAKGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 24 ~~~~v~~~l~~~~~~liEaPTGtGKTla 51 (757)
++.-+..++..+++++|.+|||+|||-.
T Consensus 151 ~~~~l~~~v~~~~nilI~G~tGSGKTTl 178 (344)
T PRK13851 151 LEAFLHACVVGRLTMLLCGPTGSGKTTM 178 (344)
T ss_pred HHHHHHHHHHcCCeEEEECCCCccHHHH
Confidence 4455566777889999999999999964
No 271
>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=82.13 E-value=1.8 Score=47.59 Aligned_cols=40 Identities=25% Similarity=0.152 Sum_probs=30.7
Q ss_pred CHHHHHHHHHHHHHHHhC----------------CcEEEEcCCCCcHHHHHHHHHHHH
Q 004385 18 YPEQYSYMLELKRALDAK----------------GHCLLEMPTGTGKTIALLSLITSY 59 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~----------------~~~liEaPTGtGKTla~L~~al~~ 59 (757)
--+|.+....+.-|+.++ +++++.+|||+|||.. +-+|+-
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 457888888888888753 6899999999999974 334443
No 272
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=82.13 E-value=1.3 Score=48.98 Aligned_cols=33 Identities=33% Similarity=0.278 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004385 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla 51 (757)
.+|.+.=.++.-|...+.++++.+|+|||||+.
T Consensus 182 ~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTml 214 (490)
T COG0606 182 KGQEQAKRALEIAAAGGHNLLLVGPPGTGKTML 214 (490)
T ss_pred cCcHHHHHHHHHHHhcCCcEEEecCCCCchHHh
Confidence 467777777777888889999999999999973
No 273
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=81.96 E-value=39 Score=40.75 Aligned_cols=118 Identities=17% Similarity=0.223 Sum_probs=76.9
Q ss_pred HHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCc--hhHHHHHHHHHHhccCCCCeE
Q 004385 516 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV--VETTLALDNYRKACDCGRGAV 593 (757)
Q Consensus 516 ~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~--~~~~~~l~~f~~~~~~~~~av 593 (757)
......|.++++... .+|||.++...-+.+...+++.+. +++.+..... ..+..+-+++|+ |+=..
T Consensus 240 ~~~~~~i~~~v~~~~-ttLIF~NTR~~aE~l~~~L~~~~~-------~~i~~HHgSlSre~R~~vE~~lk~----G~lra 307 (814)
T COG1201 240 AALYERIAELVKKHR-TTLIFTNTRSGAERLAFRLKKLGP-------DIIEVHHGSLSRELRLEVEERLKE----GELKA 307 (814)
T ss_pred HHHHHHHHHHHhhcC-cEEEEEeChHHHHHHHHHHHHhcC-------CceeeecccccHHHHHHHHHHHhc----CCceE
Confidence 344455666666544 999999999999999998876431 4455544332 123334455665 44445
Q ss_pred EEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhccccccc--CCC
Q 004385 594 FFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRS--KAD 671 (757)
Q Consensus 594 L~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~--~~D 671 (757)
++|+ -++.=|||..+ ...||-.|=| ..+-++-|.+||.=+. ...
T Consensus 308 vV~T--SSLELGIDiG~--vdlVIq~~SP------------------------------~sV~r~lQRiGRsgHr~~~~S 353 (814)
T COG1201 308 VVAT--SSLELGIDIGD--IDLVIQLGSP------------------------------KSVNRFLQRIGRAGHRLGEVS 353 (814)
T ss_pred EEEc--cchhhccccCC--ceEEEEeCCc------------------------------HHHHHHhHhccccccccCCcc
Confidence 5555 58999999987 4557766633 2345667889988433 346
Q ss_pred eeEEEEee
Q 004385 672 YGMMIFAD 679 (757)
Q Consensus 672 ~G~villD 679 (757)
.|.+|-.|
T Consensus 354 kg~ii~~~ 361 (814)
T COG1201 354 KGIIIAED 361 (814)
T ss_pred cEEEEecC
Confidence 88888888
No 274
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.71 E-value=1.9 Score=47.28 Aligned_cols=35 Identities=26% Similarity=0.261 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~ 54 (757)
+|......+..++..++ |+ ++.+|.|+|||..+..
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 8999999999976543
No 275
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=81.57 E-value=3 Score=49.90 Aligned_cols=60 Identities=15% Similarity=0.190 Sum_probs=39.0
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCC-CCcEEEEEccchh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVH 78 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~-~~~kvi~~T~T~~ 78 (757)
.++.|+.-.+=+.....+.=++++-=-+|.|||..-+. .+.|....+. .+ +-.|.+|+-.
T Consensus 395 Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIs-LitYLmE~K~~~G-P~LvivPlst 455 (1157)
T KOG0386|consen 395 LKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTIS-LITYLMEHKQMQG-PFLIIVPLST 455 (1157)
T ss_pred CchhhhhhhHHHhhccCCCcccccchhcccchHHHHHH-HHHHHHHHcccCC-CeEEeccccc
Confidence 46777777777776667777889988999999997654 3555554432 22 4444444443
No 276
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=81.53 E-value=7.5 Score=44.73 Aligned_cols=88 Identities=19% Similarity=0.374 Sum_probs=63.7
Q ss_pred HHHHHhhhcc-CCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCC-CchhHHHHHHHHHHhccCCCCeEEEEe
Q 004385 520 KLLVEMVSIV-PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSV 597 (757)
Q Consensus 520 ~~l~~~~~~~-~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~avL~gv 597 (757)
..|..+++.. ++.++||+.+-...+.+...|...|+ +..-+.+. ....+...++.|++ |+-.||+|.
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 4456666544 34699999999999999999987763 32333332 33567788999995 677899988
Q ss_pred ecCcccccccCCCCCceEEEEeccC
Q 004385 598 ARGKVAEGIDFDRHYGRLVIMFGVP 622 (757)
Q Consensus 598 ~~G~~~EGiDf~~~~~r~Vii~glP 622 (757)
. -.++|||+++ ...||=.-+|
T Consensus 331 D--vaaRGiDi~~--v~~VinyD~p 351 (513)
T COG0513 331 D--VAARGLDIPD--VSHVINYDLP 351 (513)
T ss_pred c--hhhccCCccc--cceeEEccCC
Confidence 4 7889999998 5566666666
No 277
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=81.49 E-value=5 Score=48.34 Aligned_cols=83 Identities=12% Similarity=0.155 Sum_probs=53.8
Q ss_pred eEEEeccCCCCCcchhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCC-ChH-HHHHHHHHHHHhhhc
Q 004385 451 SVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRS-DPG-VARNYGKLLVEMVSI 528 (757)
Q Consensus 451 svIltSgTL~p~~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~-~~~-~~~~~~~~l~~~~~~ 528 (757)
.+|+|||||.. +-|...+|--|+... .-.+.++.-.|.... ... ....+...+......
T Consensus 197 KiIimSATld~-~rfs~~f~~apvi~i------------------~GR~fPVei~Y~~~~~~d~~l~~ai~~~v~~~~~~ 257 (845)
T COG1643 197 KLIIMSATLDA-ERFSAYFGNAPVIEI------------------EGRTYPVEIRYLPEAEADYILLDAIVAAVDIHLRE 257 (845)
T ss_pred eEEEEecccCH-HHHHHHcCCCCEEEe------------------cCCccceEEEecCCCCcchhHHHHHHHHHHHhccC
Confidence 57999999976 446655653222110 011223444442211 111 456677777777777
Q ss_pred cCCcEEEEecChHHHHHHHHHHhh
Q 004385 529 VPDGIVCFFVSYSYMDEIIATWND 552 (757)
Q Consensus 529 ~~gg~Lv~f~Sy~~l~~v~~~~~~ 552 (757)
-+|.+|||+|.-+.++++.+.+.+
T Consensus 258 ~~GdILvFLpG~~EI~~~~~~L~~ 281 (845)
T COG1643 258 GSGSILVFLPGQREIERTAEWLEK 281 (845)
T ss_pred CCCCEEEECCcHHHHHHHHHHHHh
Confidence 899999999999999999999876
No 278
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=81.48 E-value=0.72 Score=44.75 Aligned_cols=34 Identities=26% Similarity=0.293 Sum_probs=20.4
Q ss_pred CHHHHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHH
Q 004385 18 YPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~--~~~~liEaPTGtGKTla 51 (757)
|..|.+.+....++... +.+++|.+|+|+|||.-
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 77777766666652222 36899999999999974
No 279
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=81.35 E-value=1.1 Score=48.49 Aligned_cols=41 Identities=24% Similarity=0.303 Sum_probs=34.3
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHH
Q 004385 10 VYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIA 51 (757)
Q Consensus 10 v~FPy~~~r~~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla 51 (757)
-.|||.- =-+|.++..++..++.+. +.+++.+|+|||||..
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 4799987 589999999998887664 5688999999999963
No 280
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=81.29 E-value=0.49 Score=50.16 Aligned_cols=50 Identities=18% Similarity=0.185 Sum_probs=37.0
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcC--------CCCCcEEEEEccchhhHHHHHH
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSK--------PENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~--------~~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
|...+=-|-||+|||+.+.+|.+.++... .+++ =-+|.+++..+..|..+
T Consensus 207 GRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP-~gLiicPSRELArQt~~ 264 (610)
T KOG0341|consen 207 GRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGP-YGLIICPSRELARQTHD 264 (610)
T ss_pred cCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCC-eeEEEcCcHHHHHHHHH
Confidence 34456678999999999999999887643 3566 44555678888888765
No 281
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=81.23 E-value=2.3 Score=46.47 Aligned_cols=24 Identities=38% Similarity=0.444 Sum_probs=18.6
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHH
Q 004385 33 DAKGHCLLEMPTGTGKTIALLSLI 56 (757)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~a 56 (757)
.+++++++-+|||+|||....--+
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA 158 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLA 158 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHH
Confidence 346789999999999998654433
No 282
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=81.21 E-value=3.8 Score=40.11 Aligned_cols=54 Identities=20% Similarity=0.330 Sum_probs=33.1
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcC-------CCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK-------PENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~-------~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
.|...++-||+|+|||...+--+.+++... ..+. +|+|.+--.+ -.++.+-+..
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 7777765554 3344444443
No 283
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=81.11 E-value=0.36 Score=55.07 Aligned_cols=91 Identities=14% Similarity=0.250 Sum_probs=47.8
Q ss_pred HHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEE--eCC-CchhHHHHHHHHHHhccCCCCeEE
Q 004385 518 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFI--ETQ-DVVETTLALDNYRKACDCGRGAVF 594 (757)
Q Consensus 518 ~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~--E~~-~~~~~~~~l~~f~~~~~~~~~avL 594 (757)
.-+.+..+.......++|.-.=-.+|+-+..++++.|. .|. -++ ....+..+++.|... +|..-|+
T Consensus 734 ~l~~le~i~~~skeK~viVSQwtsvLniv~~hi~~~g~---------~y~si~Gqv~vK~Rq~iv~~FN~~--k~~~rVm 802 (901)
T KOG4439|consen 734 VLEILETILTSSKEKVVIVSQWTSVLNIVRKHIQKGGH---------IYTSITGQVLVKDRQEIVDEFNQE--KGGARVM 802 (901)
T ss_pred HHHHHHHHhhcccceeeehhHHHHHHHHHHHHHhhCCe---------eeeeecCccchhHHHHHHHHHHhc--cCCceEE
Confidence 33444444444556666554444556666677666542 221 121 124677889999764 2222233
Q ss_pred -EEeecCcccccccCCCCCceEEEEeccCC
Q 004385 595 -FSVARGKVAEGIDFDRHYGRLVIMFGVPF 623 (757)
Q Consensus 595 -~gv~~G~~~EGiDf~~~~~r~Vii~glPf 623 (757)
++..-| .=|+++-| +.-+|++++=.
T Consensus 803 LlSLtAG--GVGLNL~G--aNHlilvDlHW 828 (901)
T KOG4439|consen 803 LLSLTAG--GVGLNLIG--ANHLILVDLHW 828 (901)
T ss_pred EEEEccC--cceeeecc--cceEEEEeccc
Confidence 332111 12555554 66789999854
No 284
>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=81.10 E-value=1.9 Score=44.93 Aligned_cols=42 Identities=19% Similarity=0.197 Sum_probs=28.0
Q ss_pred HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 30 ~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
..+..+...+|-||||+|||.-.+--+..++... +. +|+|.|
T Consensus 25 gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~--g~-~vl~iS 66 (271)
T cd01122 25 KGLRKGELIILTAGTGVGKTTFLREYALDLITQH--GV-RVGTIS 66 (271)
T ss_pred EEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhc--Cc-eEEEEE
Confidence 3455678899999999999976554444444322 44 676655
No 285
>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=81.09 E-value=2 Score=42.06 Aligned_cols=31 Identities=35% Similarity=0.468 Sum_probs=24.0
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla 51 (757)
-+.|.+++ ..++..+++.++-+|||+|||-.
T Consensus 11 ~~~~~~~l---~~~v~~g~~i~I~G~tGSGKTTl 41 (186)
T cd01130 11 SPLQAAYL---WLAVEARKNILISGGTGSGKTTL 41 (186)
T ss_pred CHHHHHHH---HHHHhCCCEEEEECCCCCCHHHH
Confidence 35555554 45677899999999999999964
No 286
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=81.07 E-value=2.9 Score=50.33 Aligned_cols=35 Identities=20% Similarity=0.173 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHH
Q 004385 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSY 59 (757)
Q Consensus 23 ~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~ 59 (757)
+...+|.+++.+...++|.||||+|||-. +|-..+
T Consensus 53 ~~~~~i~~ai~~~~vvii~getGsGKTTq--lP~~ll 87 (845)
T COG1643 53 AVRDEILKAIEQNQVVIIVGETGSGKTTQ--LPQFLL 87 (845)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCChHHH--HHHHHH
Confidence 34567888899999999999999999974 454433
No 287
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=81.00 E-value=3.7 Score=49.52 Aligned_cols=66 Identities=20% Similarity=0.221 Sum_probs=46.4
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC-C-CCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~-~-~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
..|.|++.+. ...++++|-|+.|||||.++..= ++|+... + ... +|+..|=|..-...+.+-+.++
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 5688888654 23589999999999999986554 4555432 1 224 8999999987666665555554
No 288
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=80.96 E-value=1.9 Score=51.49 Aligned_cols=46 Identities=22% Similarity=0.306 Sum_probs=29.1
Q ss_pred EcCeeeeCCCCCCCHHHHHHH-HHHHHHHHhC--Cc-EEEEcCCCCcHHHHHH
Q 004385 5 LEDVTVYFPYDNIYPEQYSYM-LELKRALDAK--GH-CLLEMPTGTGKTIALL 53 (757)
Q Consensus 5 i~~~~v~FPy~~~r~~Q~~~~-~~v~~~l~~~--~~-~liEaPTGtGKTla~L 53 (757)
.+-++...|. |..|.+-+ ..+..++... .. ++|-+|||||||++..
T Consensus 750 ~DYVPD~LPh---REeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK 799 (1164)
T PTZ00112 750 LDVVPKYLPC---REKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVY 799 (1164)
T ss_pred cccCCCcCCC---hHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHH
Confidence 3445555665 55665544 4445566543 23 4699999999998754
No 289
>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=80.77 E-value=2.8 Score=43.80 Aligned_cols=44 Identities=27% Similarity=0.490 Sum_probs=28.2
Q ss_pred HHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCC-CcEEEEEc
Q 004385 26 LELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN-PVKLIYCT 74 (757)
Q Consensus 26 ~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~-~~kvi~~T 74 (757)
+.+..++..++++++-+|||+|||-.+ .+.+.+. +.. . +|++.=
T Consensus 118 ~~l~~~v~~~~~ili~G~tGSGKTT~l-~all~~i---~~~~~-~iv~iE 162 (270)
T PF00437_consen 118 EFLRSAVRGRGNILISGPTGSGKTTLL-NALLEEI---PPEDE-RIVTIE 162 (270)
T ss_dssp HHHHHCHHTTEEEEEEESTTSSHHHHH-HHHHHHC---HTTTS-EEEEEE
T ss_pred HHHhhccccceEEEEECCCccccchHH-HHHhhhc---ccccc-ceEEec
Confidence 334445566789999999999999764 3334333 223 4 666543
No 290
>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=80.73 E-value=1.1 Score=40.80 Aligned_cols=17 Identities=47% Similarity=0.515 Sum_probs=11.2
Q ss_pred cEEEEcCCCCcHHHHHH
Q 004385 37 HCLLEMPTGTGKTIALL 53 (757)
Q Consensus 37 ~~liEaPTGtGKTla~L 53 (757)
|+++|+++|+|||...-
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 291
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=80.65 E-value=1 Score=40.95 Aligned_cols=20 Identities=25% Similarity=0.488 Sum_probs=12.6
Q ss_pred HhCCcEEEEcCCCCcHHHHH
Q 004385 33 DAKGHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~ 52 (757)
+++++++|.+|+|+|||...
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 292
>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=80.62 E-value=1.8 Score=47.98 Aligned_cols=38 Identities=32% Similarity=0.253 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHh--------------------CCcEEEEcCCCCcHHHHHHHHHHH
Q 004385 19 PEQYSYMLELKRALDA--------------------KGHCLLEMPTGTGKTIALLSLITS 58 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~--------------------~~~~liEaPTGtGKTla~L~~al~ 58 (757)
-+|.+....+..++.+ +.++++.+|||+|||.. +-+++
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 4677777777666621 25799999999999974 34444
No 293
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=80.53 E-value=5.8 Score=43.69 Aligned_cols=53 Identities=21% Similarity=0.219 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHh-----CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccch
Q 004385 23 SYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (757)
Q Consensus 23 ~~~~~v~~~l~~-----~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~ 77 (757)
+++.++..++.+ ...++|-+|+|.|||--+- ++-.++.....+. +|+|.|.-.
T Consensus 96 ~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~-Aign~~~~~~~~a-~v~y~~se~ 153 (408)
T COG0593 96 RLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQ-AIGNEALANGPNA-RVVYLTSED 153 (408)
T ss_pred HHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHH-HHHHHHHhhCCCc-eEEeccHHH
Confidence 345556666655 4689999999999997432 3333333333344 899987654
No 294
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=80.45 E-value=2 Score=45.94 Aligned_cols=35 Identities=40% Similarity=0.481 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHhCC--cEEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~liEaPTGtGKTla~L~ 54 (757)
+|.+.+..+...+..+. ++++.+|+|+|||...-.
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~ 57 (319)
T PRK00440 21 GQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALA 57 (319)
T ss_pred CcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHH
Confidence 67788888888888763 699999999999976543
No 295
>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=80.02 E-value=3.2 Score=38.25 Aligned_cols=23 Identities=39% Similarity=0.379 Sum_probs=16.5
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHH
Q 004385 37 HCLLEMPTGTGKTIALLSLITSYVL 61 (757)
Q Consensus 37 ~~liEaPTGtGKTla~L~~al~~~~ 61 (757)
++++.+|+|+|||..+ -.+++..
T Consensus 1 ~vlL~G~~G~GKt~l~--~~la~~~ 23 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLA--RELAALL 23 (139)
T ss_dssp EEEEEESSSSSHHHHH--HHHHHHH
T ss_pred CEEEECCCCCCHHHHH--HHHHHHh
Confidence 5799999999999743 3344443
No 296
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=80.01 E-value=5.4 Score=49.58 Aligned_cols=61 Identities=11% Similarity=0.017 Sum_probs=44.8
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHH
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~ 84 (757)
..++|++.+..|. ..++..+|.++.|||||..+=. +...+... +. +|+-+.+|......+-
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 4799999877663 4568999999999999986544 33333332 45 8999999988765553
No 297
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=80.00 E-value=1.7 Score=50.57 Aligned_cols=36 Identities=31% Similarity=0.289 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~~ 55 (757)
+|......+..++.+++ |+ ++.+|.|+|||..+.+-
T Consensus 19 GQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriL 57 (702)
T PRK14960 19 GQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARIL 57 (702)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 88889899999998884 55 89999999999876543
No 298
>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=79.79 E-value=1.6 Score=39.70 Aligned_cols=52 Identities=17% Similarity=0.054 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhH
Q 004385 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (757)
Q Consensus 22 ~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~ 80 (757)
++++..+.+.+..+..++++++-|+|||- |+=+++ +.. +. +-.+++||-+++
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 36788899999999999999999999996 343333 333 22 347888988864
No 299
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=79.44 E-value=1.9 Score=47.97 Aligned_cols=16 Identities=50% Similarity=0.717 Sum_probs=14.5
Q ss_pred CcEEEEcCCCCcHHHH
Q 004385 36 GHCLLEMPTGTGKTIA 51 (757)
Q Consensus 36 ~~~liEaPTGtGKTla 51 (757)
.++++.+|||||||..
T Consensus 109 ~~iLl~Gp~GtGKT~l 124 (412)
T PRK05342 109 SNILLIGPTGSGKTLL 124 (412)
T ss_pred ceEEEEcCCCCCHHHH
Confidence 6799999999999974
No 300
>PRK08084 DNA replication initiation factor; Provisional
Probab=79.13 E-value=4.4 Score=41.41 Aligned_cols=53 Identities=23% Similarity=0.223 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHh--CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccch
Q 004385 21 QYSYMLELKRALDA--KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (757)
Q Consensus 21 Q~~~~~~v~~~l~~--~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~ 77 (757)
+......+.+.... +.++++-+|+|+|||--.- +++..... .+. +++|.+-..
T Consensus 29 n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~--a~~~~~~~-~~~-~v~y~~~~~ 83 (235)
T PRK08084 29 NDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLH--AACAELSQ-RGR-AVGYVPLDK 83 (235)
T ss_pred cHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHH--HHHHHHHh-CCC-eEEEEEHHH
Confidence 44444444444332 2589999999999996432 22221111 245 788876543
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=79.07 E-value=3.8 Score=42.79 Aligned_cols=41 Identities=24% Similarity=0.306 Sum_probs=27.4
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhh
Q 004385 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (757)
Q Consensus 37 ~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l 79 (757)
.++|-+|||+|||-- |=..++...-.|..+ .|++.|+++.-
T Consensus 89 I~~VYGPTG~GKSqL-lRNLis~~lI~P~PE-TVfFItP~~~m 129 (369)
T PF02456_consen 89 IGVVYGPTGSGKSQL-LRNLISCQLIQPPPE-TVFFITPQKDM 129 (369)
T ss_pred EEEEECCCCCCHHHH-HHHhhhcCcccCCCC-ceEEECCCCCC
Confidence 578899999999962 222333333334456 89999998643
No 302
>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=78.99 E-value=3.1 Score=43.29 Aligned_cols=36 Identities=22% Similarity=0.221 Sum_probs=27.7
Q ss_pred CHHHHHHHHHHHHHHHhCC-cEEEEcCCCCcHHHHHH
Q 004385 18 YPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALL 53 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~-~~liEaPTGtGKTla~L 53 (757)
.+.+.+....+...+..+. .+++.+|+|+|||...-
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~ 61 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIR 61 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 4667777777777777654 68899999999997543
No 303
>COG4889 Predicted helicase [General function prediction only]
Probab=78.98 E-value=1.1 Score=52.61 Aligned_cols=45 Identities=33% Similarity=0.555 Sum_probs=34.6
Q ss_pred cccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccC--CCeeEEEE
Q 004385 601 KVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSK--ADYGMMIF 677 (757)
Q Consensus 601 ~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~--~D~G~vil 677 (757)
=+|||||+|- +.+||.. +|. .+|.-+.|++||+.|.. .|||.|||
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 4999999995 5555533 332 36778899999999976 69999997
No 304
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=78.90 E-value=3.3 Score=44.33 Aligned_cols=41 Identities=32% Similarity=0.286 Sum_probs=34.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004385 14 YDNIYPEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (757)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L~ 54 (757)
|...||.|......+..++..++ | .++.+|.|+||+...+.
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 67899999999976554
No 305
>PRK10436 hypothetical protein; Provisional
Probab=78.78 E-value=3.9 Score=46.15 Aligned_cols=26 Identities=35% Similarity=0.511 Sum_probs=20.5
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYV 60 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~ 60 (757)
.++.+++.+|||+|||-.+ .+++.+.
T Consensus 217 ~~GliLvtGpTGSGKTTtL-~a~l~~~ 242 (462)
T PRK10436 217 PQGLILVTGPTGSGKTVTL-YSALQTL 242 (462)
T ss_pred cCCeEEEECCCCCChHHHH-HHHHHhh
Confidence 4578999999999999874 5566654
No 306
>PRK04328 hypothetical protein; Provisional
Probab=78.70 E-value=4.5 Score=41.71 Aligned_cols=51 Identities=16% Similarity=0.149 Sum_probs=28.7
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
.|...+|.+|+|+|||.-.+--+...+. .+. +++|.| |..--+++++.++.
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 22223346665554
No 307
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=78.68 E-value=4.6 Score=41.16 Aligned_cols=52 Identities=17% Similarity=0.192 Sum_probs=32.9
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
-.+...++.+|+|+|||.-.+--+...+. .+. +++|.|--.+. +++++.+..
T Consensus 23 ~~g~~~~i~G~~GsGKt~l~~~~~~~~~~---~g~-~~~y~~~e~~~-~~~~~~~~~ 74 (234)
T PRK06067 23 PFPSLILIEGDHGTGKSVLSQQFVYGALK---QGK-KVYVITTENTS-KSYLKQMES 74 (234)
T ss_pred cCCcEEEEECCCCCChHHHHHHHHHHHHh---CCC-EEEEEEcCCCH-HHHHHHHHH
Confidence 34568899999999999754433333232 356 78777765443 466665554
No 308
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=78.61 E-value=10 Score=43.01 Aligned_cols=80 Identities=20% Similarity=0.267 Sum_probs=55.3
Q ss_pred ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCccccccc
Q 004385 528 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 607 (757)
Q Consensus 528 ~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiD 607 (757)
-.+..+|||..|++.-.+++..+. .++++. .-+..-.+...++.+.+++|+. |+=-||++ .+-+..|||
T Consensus 385 g~~PP~lIfVQs~eRak~L~~~L~---~~~~i~--v~vIh~e~~~~qrde~~~~FR~----g~IwvLic--Tdll~RGiD 453 (593)
T KOG0344|consen 385 GFKPPVLIFVQSKERAKQLFEELE---IYDNIN--VDVIHGERSQKQRDETMERFRI----GKIWVLIC--TDLLARGID 453 (593)
T ss_pred cCCCCeEEEEecHHHHHHHHHHhh---hccCcc--eeeEecccchhHHHHHHHHHhc----cCeeEEEe--hhhhhcccc
Confidence 467899999999999999988774 222231 1122222344567889999996 45456664 579999999
Q ss_pred CCCCCceEEEEec
Q 004385 608 FDRHYGRLVIMFG 620 (757)
Q Consensus 608 f~~~~~r~Vii~g 620 (757)
|.| ..+||..-
T Consensus 454 f~g--vn~VInyD 464 (593)
T KOG0344|consen 454 FKG--VNLVINYD 464 (593)
T ss_pred ccC--cceEEecC
Confidence 998 45677633
No 309
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=78.56 E-value=5.4 Score=40.32 Aligned_cols=51 Identities=22% Similarity=0.159 Sum_probs=31.8
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
.+...++.+|+|+|||.-.+--+...+. .+. +++|.|-..+ .+|+++.+..
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 3567899999999998754433333232 256 7777655443 4666665544
No 310
>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=78.32 E-value=3.1 Score=44.23 Aligned_cols=34 Identities=32% Similarity=0.321 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHh-----C--CcEEEEcCCCCcHHHHHH
Q 004385 20 EQYSYMLELKRALDA-----K--GHCLLEMPTGTGKTIALL 53 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~-----~--~~~liEaPTGtGKTla~L 53 (757)
+|.+....+...+.. + .++++.+|+|||||....
T Consensus 8 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~ 48 (305)
T TIGR00635 8 GQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAH 48 (305)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHH
Confidence 566666666666642 2 479999999999996543
No 311
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=78.01 E-value=3.5 Score=49.20 Aligned_cols=68 Identities=18% Similarity=0.204 Sum_probs=49.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
|.| -..|+++ ...++.++.++|.|||-.|||..=-.+.=...+.. +.. -|||+.||+++..|+-.++.
T Consensus 510 F~P-d~WQ~el----LDsvDr~eSavIVAPTSaGKTfisfY~iEKVLRes-D~~-VVIyvaPtKaLVnQvsa~Vy 577 (1330)
T KOG0949|consen 510 FCP-DEWQREL----LDSVDRNESAVIVAPTSAGKTFISFYAIEKVLRES-DSD-VVIYVAPTKALVNQVSANVY 577 (1330)
T ss_pred cCC-cHHHHHH----hhhhhcccceEEEeeccCCceeccHHHHHHHHhhc-CCC-EEEEecchHHHhhhhhHHHH
Confidence 444 4778876 45667899999999999999985333322223333 456 89999999999999977644
No 312
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=77.88 E-value=1.9 Score=46.90 Aligned_cols=44 Identities=34% Similarity=0.468 Sum_probs=29.5
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
+.++++-+|||+|||+ |.-.|+-.. + +++.||--|.--|.-.|.
T Consensus 226 KSNvLllGPtGsGKTl--laqTLAr~l----d-VPfaIcDcTtLTQAGYVG 269 (564)
T KOG0745|consen 226 KSNVLLLGPTGSGKTL--LAQTLARVL----D-VPFAICDCTTLTQAGYVG 269 (564)
T ss_pred cccEEEECCCCCchhH--HHHHHHHHh----C-CCeEEecccchhhccccc
Confidence 3589999999999997 444554332 2 379999777654433333
No 313
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=77.87 E-value=3.3 Score=45.68 Aligned_cols=33 Identities=30% Similarity=0.210 Sum_probs=27.8
Q ss_pred CHHHHHHHHHHHHHHHh----------------CCcEEEEcCCCCcHHH
Q 004385 18 YPEQYSYMLELKRALDA----------------KGHCLLEMPTGTGKTI 50 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~----------------~~~~liEaPTGtGKTl 50 (757)
-.+|.+....+..++.+ ..++++.+|||+|||.
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 314
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=77.80 E-value=20 Score=44.46 Aligned_cols=85 Identities=13% Similarity=0.189 Sum_probs=51.0
Q ss_pred ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCC-chhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004385 528 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 606 (757)
Q Consensus 528 ~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGi 606 (757)
..+..+|||...-.+|..+.+++...+ .+.+-+.+.. ...+..++++|... +.+...+|++. ....+||
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 345577776665555665555554433 2334444433 24577789999652 11112344544 5789999
Q ss_pred cCCCCCceEEEEeccCCc
Q 004385 607 DFDRHYGRLVIMFGVPFQ 624 (757)
Q Consensus 607 Df~~~~~r~Vii~glPfp 624 (757)
|+.. +..||+.-.|+-
T Consensus 555 NLt~--Ad~VIiyD~dWN 570 (1033)
T PLN03142 555 NLAT--ADIVILYDSDWN 570 (1033)
T ss_pred chhh--CCEEEEeCCCCC
Confidence 9987 788999877753
No 315
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=77.75 E-value=34 Score=40.76 Aligned_cols=127 Identities=16% Similarity=0.139 Sum_probs=81.6
Q ss_pred HHHHHHHHHhhhc--c---CCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCC
Q 004385 516 RNYGKLLVEMVSI--V---PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGR 590 (757)
Q Consensus 516 ~~~~~~l~~~~~~--~---~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~ 590 (757)
+.++..+.+.++. . .|.+|||..+...-+.+.+.+.+.-. +. +++.+-+=..+...-...++.|.. ...-
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 3344445554544 2 36799999999999999998876421 11 112222213333455667888876 2334
Q ss_pred CeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCC
Q 004385 591 GAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKA 670 (757)
Q Consensus 591 ~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~ 670 (757)
..|-.+| +-+.-|||.|- |.++|..+ .+ ..+.++.|-+||.-|--.
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 5687877 58999999995 44444333 11 245777899999999888
Q ss_pred Cee-------EEEEeecc
Q 004385 671 DYG-------MMIFADKR 681 (757)
Q Consensus 671 D~G-------~villD~R 681 (757)
|+| -+.++|-.
T Consensus 528 ~~~~~~~dK~~F~ifDf~ 545 (875)
T COG4096 528 DLGGPEQDKEFFTIFDFV 545 (875)
T ss_pred cccCccccceeEEEEEhh
Confidence 887 67777754
No 316
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=77.70 E-value=7.8 Score=42.69 Aligned_cols=40 Identities=23% Similarity=0.315 Sum_probs=23.8
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcC-CCCCcEEE-EEccc
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLI-YCTRT 76 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~-~~~~~kvi-~~T~T 76 (757)
.++++-+|||+|||-...--|..+.... ..+. +|. +++-|
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~-~V~lit~Dt 216 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSL-NIKIITIDN 216 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCC-eEEEEeccC
Confidence 5788999999999987644333333221 1234 554 55555
No 317
>PHA02533 17 large terminase protein; Provisional
Probab=77.61 E-value=10 Score=43.66 Aligned_cols=73 Identities=11% Similarity=0.051 Sum_probs=55.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
-||+. +|.|++++..+. .++..+++.|=..|||.....-++.++...+ +. .|+++.+|..|...+++.++.+.
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----KNRFNACNLSRQLGKTTVVAIFLLHYVCFNK-DK-NVGILAHKASMAAEVLDRTKQAI 128 (534)
T ss_pred eecCC-cHHHHHHHHHHh----cCeEEEEEEcCcCChHHHHHHHHHHHHHhCC-CC-EEEEEeCCHHHHHHHHHHHHHHH
Confidence 47774 899999987763 4567789999999999976655555554333 45 89999999999888888777653
No 318
>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=77.51 E-value=2.1 Score=39.41 Aligned_cols=52 Identities=19% Similarity=0.057 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhH
Q 004385 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (757)
Q Consensus 22 ~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~ 80 (757)
.+++..+.+.+..+..+++.++.|+|||. |+-.++- .. +. .--+.+||-+++
T Consensus 9 ~~l~~~l~~~l~~~~~i~l~G~lGaGKTt--l~~~l~~--~l--g~-~~~v~SPTf~lv 60 (133)
T TIGR00150 9 DKFGKAFAKPLDFGTVVLLKGDLGAGKTT--LVQGLLQ--GL--GI-QGNVTSPTFTLV 60 (133)
T ss_pred HHHHHHHHHhCCCCCEEEEEcCCCCCHHH--HHHHHHH--Hc--CC-CCcccCCCeeee
Confidence 35667777788888999999999999996 3333332 22 12 335788887654
No 319
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=77.50 E-value=2.9 Score=43.47 Aligned_cols=53 Identities=25% Similarity=0.335 Sum_probs=32.1
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 31 ~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.+..+...+|.+|+|||||.-.+=-+...+.. +. +++|.|-..+ -+.+.+.++
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 35567899999999999998655544444432 45 5555543222 234444444
No 320
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=77.21 E-value=6.2 Score=45.95 Aligned_cols=52 Identities=25% Similarity=0.399 Sum_probs=38.2
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcC---CCCCcEEEEEccchhhHHHHHHH
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK---PENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~---~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
..+..+|.+|+|||||+.-|-+.=...... .... +|.+.+-|..-++|++.-
T Consensus 392 tyelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~e-pIlvvC~Tnhavdq~lig 446 (1025)
T KOG1807|consen 392 TYELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPE-PILVVCLTNHAVDQYLIG 446 (1025)
T ss_pred hhhhheeecCCCCCceeehHHHHHHHHhccccccccc-ceeeeehhhHHHHHHHHH
Confidence 357899999999999997776533322211 2234 899999999999998863
No 321
>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=77.03 E-value=4.2 Score=38.89 Aligned_cols=35 Identities=29% Similarity=0.390 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L~ 54 (757)
+|.+..+.+.+.+.+++ | .++++|.|+||+...+.
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 58889999999999884 5 59999999999876543
No 322
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=76.72 E-value=3.8 Score=37.92 Aligned_cols=31 Identities=23% Similarity=0.304 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004385 21 QYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 21 Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla 51 (757)
=+++...+.+....+.+++|.+++||||+..
T Consensus 7 ~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 7 MRRLRRQLERLAKSSSPVLITGEPGTGKSLL 37 (138)
T ss_dssp HHHHHHHHHHHHCSSS-EEEECCTTSSHHHH
T ss_pred HHHHHHHHHHHhCCCCcEEEEcCCCCCHHHH
Confidence 3445555555666678999999999999974
No 323
>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=76.68 E-value=4.5 Score=46.16 Aligned_cols=51 Identities=18% Similarity=0.163 Sum_probs=33.8
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
|...+|.+|+|||||.-.+--+...++ .+. +++|.+ +..-.+|+++....+
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~---~ge-~~~y~s-~eEs~~~i~~~~~~l 313 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACA---NKE-RAILFA-YEESRAQLLRNAYSW 313 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHH---CCC-eEEEEE-eeCCHHHHHHHHHHc
Confidence 457899999999999855544333332 356 888876 444456777765553
No 324
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=76.64 E-value=2.1 Score=50.16 Aligned_cols=36 Identities=31% Similarity=0.375 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~~ 55 (757)
+|......+..++..++ |+ ++.+|.|+|||....+-
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 78888888988888874 43 89999999999876543
No 325
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=76.64 E-value=3.6 Score=46.00 Aligned_cols=39 Identities=36% Similarity=0.402 Sum_probs=24.1
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
++.+++-+|||+|||-....-|..+.... .+. +|.+.|-
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 45778889999999986554443333111 234 6666553
No 326
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=76.63 E-value=5 Score=40.62 Aligned_cols=38 Identities=13% Similarity=-0.008 Sum_probs=23.1
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
+..+++.+|+|||||-. +-+++...... +. +++|.+..
T Consensus 42 ~~~~~l~G~~G~GKT~L--a~ai~~~~~~~-~~-~~~~i~~~ 79 (227)
T PRK08903 42 DRFFYLWGEAGSGRSHL--LQALVADASYG-GR-NARYLDAA 79 (227)
T ss_pred CCeEEEECCCCCCHHHH--HHHHHHHHHhC-CC-cEEEEehH
Confidence 46899999999999953 33333322122 34 56666543
No 327
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=76.57 E-value=4.6 Score=47.45 Aligned_cols=64 Identities=14% Similarity=0.177 Sum_probs=44.4
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCC--CcEEEEEccchhhHHHHHHH
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~--~~kvi~~T~T~~l~~Q~~~e 86 (757)
-.+|.+.+..+..++.++.++++.+|+|||||...-. ++- ..+.. . .+++...+......+++.
T Consensus 33 vigq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla~~--l~~--~l~~~~~~-~~~~~~np~~~~~~~~~~ 98 (637)
T PRK13765 33 VIGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLAKA--MAE--LLPKEELQ-DILVYPNPEDPNNPKIRT 98 (637)
T ss_pred cCChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHH--HHH--HcChHhHH-HheEeeCCCcchHHHHHH
Confidence 3579999999999999999999999999999975433 221 11211 2 566666665555555554
No 328
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=76.56 E-value=3.2 Score=47.33 Aligned_cols=35 Identities=23% Similarity=0.103 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~liEaPTGtGKTla~L~ 54 (757)
+|..+...+..++.+++ ..++.+|.|||||..+.+
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 89999999988888875 578999999999986554
No 329
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=76.43 E-value=3.3 Score=44.64 Aligned_cols=34 Identities=35% Similarity=0.309 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHh----C---CcEEEEcCCCCcHHHHHH
Q 004385 20 EQYSYMLELKRALDA----K---GHCLLEMPTGTGKTIALL 53 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~----~---~~~liEaPTGtGKTla~L 53 (757)
+|.+.+..+...+.. + .++++.+|+|||||....
T Consensus 29 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 29 GQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred CcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence 677777766665542 2 589999999999997544
No 330
>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=76.31 E-value=6.6 Score=42.00 Aligned_cols=47 Identities=21% Similarity=0.331 Sum_probs=34.7
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchh
Q 004385 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (757)
Q Consensus 27 ~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~ 78 (757)
-+..+++.++++++.+|||+|||-. |.+.+... +... |++..-.|..
T Consensus 135 yL~~~ie~~~siii~G~t~sGKTt~-lnall~~I---p~~~-rivtIEdt~E 181 (312)
T COG0630 135 YLWLAIEARKSIIICGGTASGKTTL-LNALLDFI---PPEE-RIVTIEDTPE 181 (312)
T ss_pred HHHHHHHcCCcEEEECCCCCCHHHH-HHHHHHhC---Cchh-cEEEEecccc
Confidence 3788899999999999999999975 33434332 3344 8888877665
No 331
>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=75.83 E-value=2.6 Score=46.64 Aligned_cols=43 Identities=19% Similarity=0.148 Sum_probs=31.4
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH
Q 004385 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 37 ~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
|+++-||||+|||.++++|.+.. . .. .+||.-+.-.+.+....
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 23 57777766666554443
No 332
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=75.81 E-value=4.3 Score=41.54 Aligned_cols=25 Identities=36% Similarity=0.376 Sum_probs=20.4
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHH
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYV 60 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~ 60 (757)
...++-||.|+|||...|.-+++.+
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va 26 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMA 26 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHh
Confidence 4678999999999998887766654
No 333
>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=75.78 E-value=3.7 Score=40.80 Aligned_cols=32 Identities=31% Similarity=0.387 Sum_probs=19.4
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 37 ~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
..+|-+|||||||-..+ +.++.+ +. +||+.-+
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 46889999999997533 344444 34 7887733
No 334
>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=75.71 E-value=11 Score=44.44 Aligned_cols=94 Identities=11% Similarity=0.053 Sum_probs=49.1
Q ss_pred hhccCCcEEEEecChHHHHHHHH-HHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEE-----Eeec
Q 004385 526 VSIVPDGIVCFFVSYSYMDEIIA-TWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFF-----SVAR 599 (757)
Q Consensus 526 ~~~~~gg~Lv~f~Sy~~l~~v~~-~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~-----gv~~ 599 (757)
.+..+-.+.+.+.|...|+..+. .=....+..+. ..+ ++.-.++ .+ ..+.+.+.+ |+..|.- |+..
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-IMLRVRD-TE---TAELLSEQL--PEVAIRTKMVSSGSSD 579 (634)
T ss_pred HHhCCcEEEEEEecHHHHHHHhCCHhHHHHHHhhc-CcE-EEEeCCC-HH---HHHHHHHhc--CCeEEEEEEEeeccCC
Confidence 44455678899999999987762 11111112222 123 4444444 22 234444543 4444432 1111
Q ss_pred CcccccccCCCCCceEEEEeccCCcccC
Q 004385 600 GKVAEGIDFDRHYGRLVIMFGVPFQYTL 627 (757)
Q Consensus 600 G~~~EGiDf~~~~~r~Vii~glPfp~~~ 627 (757)
+.-..|.+|.+..-+.+=..+-|.-.|+
T Consensus 580 ~~~~~g~~fs~s~s~s~~~~~~~Li~p~ 607 (634)
T TIGR03743 580 TSEDPGTEFSSSVSERVSEEEVPMIPPS 607 (634)
T ss_pred CcccccccccCCcceeeeeeeeeccCHH
Confidence 1124688888877777767777765553
No 335
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=75.51 E-value=3.8 Score=41.57 Aligned_cols=40 Identities=25% Similarity=0.250 Sum_probs=25.6
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
+..|...+|.+|+|+|||.-.+.-+...+. .+. +++|.+-
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 336
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=75.47 E-value=10 Score=40.82 Aligned_cols=57 Identities=16% Similarity=0.154 Sum_probs=37.0
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccch
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~ 77 (757)
-|.-.++.+.+..+...+.+++|.+++||||+.. +-++........++ =|.+-+.+.
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 3566677777777888889999999999999974 33343332222334 445555554
No 337
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=75.44 E-value=3.3 Score=48.30 Aligned_cols=43 Identities=23% Similarity=0.308 Sum_probs=31.0
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHH
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~ 83 (757)
..|+++-||||+|||.++.+|.|... +. .+||.-+.-.+.+..
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnLL~~-----~~-S~VV~DpKGEl~~~T 200 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNLLFW-----ED-SVVVHDIKLENYELT 200 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhHHhC-----CC-CEEEEeCcHHHHHHH
Confidence 46899999999999999999987632 23 466665555554333
No 338
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=75.25 E-value=2.3 Score=49.12 Aligned_cols=36 Identities=25% Similarity=0.191 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhC--Cc-EEEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAK--GH-CLLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~--~~-~liEaPTGtGKTla~L~~ 55 (757)
+|......+..++..+ .| .++.+|.|+|||..+.+-
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 8889999999999776 34 578999999999876654
No 339
>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=75.23 E-value=10 Score=46.79 Aligned_cols=73 Identities=16% Similarity=0.220 Sum_probs=44.1
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhhhccccCCCccceEEEEecCCcc
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN 114 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~ 114 (757)
..|.+|-+|||+|||...-.-+..+.... +. +|+|.=.-.+ ...+.+-.+. .+..+..+.++..+.
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 8999877665 2222211122 234444466666666
Q ss_pred cccchHH
Q 004385 115 LCVNSRV 121 (757)
Q Consensus 115 lC~~~~~ 121 (757)
.|+||+.
T Consensus 541 ~~lNPf~ 547 (893)
T TIGR03744 541 VSLPPFA 547 (893)
T ss_pred cccCchh
Confidence 8888874
No 340
>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=75.15 E-value=5 Score=50.60 Aligned_cols=53 Identities=25% Similarity=0.348 Sum_probs=37.8
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcC--CCCCcEEEEEccchhhHHHHHHHHH
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~--~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.+..+|||.-|||||.+.-.-.+...... -..+ +|++.|=|.+--+.+-+-++
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 46899999999999997655544444432 1235 89999999887766665554
No 341
>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=75.11 E-value=6.1 Score=46.04 Aligned_cols=32 Identities=31% Similarity=0.528 Sum_probs=22.8
Q ss_pred HHHHHH-hCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004385 28 LKRALD-AKGHCLLEMPTGTGKTIALLSLITSYV 60 (757)
Q Consensus 28 v~~~l~-~~~~~liEaPTGtGKTla~L~~al~~~ 60 (757)
+.+++. .++.+++.+|||+|||-.+ .+++.+.
T Consensus 308 l~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~ 340 (564)
T TIGR02538 308 FLEAIHKPQGMVLVTGPTGSGKTVSL-YTALNIL 340 (564)
T ss_pred HHHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhh
Confidence 344444 3578899999999999874 5566654
No 342
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=74.95 E-value=4.8 Score=43.69 Aligned_cols=45 Identities=20% Similarity=0.367 Sum_probs=30.9
Q ss_pred EEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH
Q 004385 39 LLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 39 liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
++.+|.|.|||.....-++.++...+... .|+++ +|..++...+.
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 58899999999998888888877665334 56666 88888777544
No 343
>PRK06893 DNA replication initiation factor; Validated
Probab=74.91 E-value=8.1 Score=39.27 Aligned_cols=51 Identities=16% Similarity=0.193 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 22 YSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 22 ~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
..++..+.+.+... ..+++-+|+|||||--.-+.+-.+... +. +++|.+-+
T Consensus 24 ~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~---~~-~~~y~~~~ 76 (229)
T PRK06893 24 LLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLN---QR-TAIYIPLS 76 (229)
T ss_pred HHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc---CC-CeEEeeHH
Confidence 33445555555433 246899999999996433222222221 34 67776654
No 344
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=74.83 E-value=3.9 Score=41.33 Aligned_cols=37 Identities=27% Similarity=0.293 Sum_probs=24.8
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
.|....+.+|+|+|||.-.+--+...+.. +. +++|.+
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 34678999999999998766555444432 34 555554
No 345
>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=74.83 E-value=4.3 Score=42.14 Aligned_cols=37 Identities=14% Similarity=0.175 Sum_probs=24.0
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
.+...+|.+|+|+|||.-.+--+...+. .+. +++|.|
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~---~Ge-~vlyis 71 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAVTQAS---RGN-PVLFVT 71 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHh---CCC-cEEEEE
Confidence 4567899999999999865543333332 245 555554
No 346
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.67 E-value=3.6 Score=47.14 Aligned_cols=35 Identities=31% Similarity=0.301 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~ 54 (757)
+|......+..++.+++ |+ ++.+|.|||||....+
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 89999999999998873 54 8999999999976544
No 347
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=74.59 E-value=4.5 Score=42.58 Aligned_cols=50 Identities=26% Similarity=0.169 Sum_probs=34.8
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCC---C-CCcEEEEEccchhhHHHHHHHHH
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKP---E-NPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~---~-~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
+.+++.+|+|||||- ||-||+--..-. . .+ -++|=-+.|++-...+.|=-
T Consensus 178 RliLlhGPPGTGKTS--LCKaLaQkLSIR~~~~y~~-~~liEinshsLFSKWFsESg 231 (423)
T KOG0744|consen 178 RLILLHGPPGTGKTS--LCKALAQKLSIRTNDRYYK-GQLIEINSHSLFSKWFSESG 231 (423)
T ss_pred eEEEEeCCCCCChhH--HHHHHHHhheeeecCcccc-ceEEEEehhHHHHHHHhhhh
Confidence 458899999999996 788876322110 0 12 57888888988888877633
No 348
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=74.49 E-value=5.8 Score=41.74 Aligned_cols=46 Identities=24% Similarity=0.243 Sum_probs=30.3
Q ss_pred HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHc-------CCCCCcEEEEEccc
Q 004385 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLS-------KPENPVKLIYCTRT 76 (757)
Q Consensus 30 ~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~-------~~~~~~kvi~~T~T 76 (757)
+.+.++-..++-++.|+|||+.+|.-.++.+.. .++.+ +|+|.|--
T Consensus 84 ~~fr~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epG-kvlyvslE 136 (402)
T COG3598 84 EFFRKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPG-KVLYVSLE 136 (402)
T ss_pred HHhhcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCC-eEEEEEec
Confidence 344555556777999999999877665554331 23445 88888654
No 349
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=74.49 E-value=4.5 Score=42.61 Aligned_cols=38 Identities=39% Similarity=0.497 Sum_probs=22.5
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
++.+++-+|||+|||-...--+..+.... .+. +|.+.|
T Consensus 194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~-g~~-~V~li~ 231 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLAKLAARFVLEH-GNK-KVALIT 231 (282)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHHc-CCC-eEEEEE
Confidence 34778889999999976543333333221 124 565554
No 350
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=74.43 E-value=11 Score=42.47 Aligned_cols=48 Identities=21% Similarity=0.228 Sum_probs=27.0
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHH
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
+.+++-+|+|+|||..+-+-+-......+ +. +++|.+... ....++..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~-~~-~v~yi~~~~-~~~~~~~~ 196 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNP-NA-KVVYVTSEK-FTNDFVNA 196 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCC-CC-eEEEEEHHH-HHHHHHHH
Confidence 46899999999999743322222222211 34 788876643 23444443
No 351
>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=74.28 E-value=4.5 Score=41.98 Aligned_cols=47 Identities=19% Similarity=0.244 Sum_probs=33.6
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 27 ~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
++...+..|...+|-|+||.|||.-.+--|..++... +. +|+|.|-=
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 3444556678899999999999999888888777643 34 77777653
No 352
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=74.27 E-value=8.9 Score=44.57 Aligned_cols=39 Identities=21% Similarity=0.244 Sum_probs=23.8
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
+.++|-+|+|+|||.-+ .++..++.....+. +|+|.+..
T Consensus 315 NpL~LyG~sGsGKTHLL-~AIa~~a~~~~~g~-~V~Yitae 353 (617)
T PRK14086 315 NPLFIYGESGLGKTHLL-HAIGHYARRLYPGT-RVRYVSSE 353 (617)
T ss_pred CcEEEECCCCCCHHHHH-HHHHHHHHHhCCCC-eEEEeeHH
Confidence 35899999999999732 22222232221244 78888753
No 353
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=74.19 E-value=3.8 Score=43.85 Aligned_cols=33 Identities=24% Similarity=0.195 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHhCC--cEEE-EcCCCCcHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HCLL-EMPTGTGKTIAL 52 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~li-EaPTGtGKTla~ 52 (757)
+|.+....+...+..+. ++++ .+|+|+|||...
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la 60 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVA 60 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHH
Confidence 78888888888887774 4555 999999999753
No 354
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=74.16 E-value=6.8 Score=42.57 Aligned_cols=65 Identities=25% Similarity=0.281 Sum_probs=41.6
Q ss_pred HHHHHHH---HHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEE---ccchhhHHHHHHHHHhh
Q 004385 19 PEQYSYM---LELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC---TRTVHEMEKTLAELKLL 90 (757)
Q Consensus 19 ~~Q~~~~---~~v~~~l~~~--~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~---T~T~~l~~Q~~~el~~l 90 (757)
-+|..+. .-+.++++.+ .+.++-+|+|||||-. .-+++. .. +. .+.-. |.++..+.+++++.++.
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 3356677766 4799999999999963 333432 21 12 34433 55567788888877664
No 355
>CHL00181 cbbX CbbX; Provisional
Probab=74.13 E-value=4.6 Score=42.61 Aligned_cols=20 Identities=35% Similarity=0.403 Sum_probs=16.1
Q ss_pred CcEEEEcCCCCcHHHHHHHH
Q 004385 36 GHCLLEMPTGTGKTIALLSL 55 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~ 55 (757)
-|+++.+|+|||||..+-+-
T Consensus 60 ~~ill~G~pGtGKT~lAr~l 79 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALKM 79 (287)
T ss_pred ceEEEECCCCCCHHHHHHHH
Confidence 46899999999999865543
No 356
>PRK04296 thymidine kinase; Provisional
Probab=74.01 E-value=5.3 Score=39.35 Aligned_cols=35 Identities=17% Similarity=0.150 Sum_probs=24.4
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEE
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~ 73 (757)
|...++.+|+|+|||..++--+..+..+ +. +|+|.
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~~~---g~-~v~i~ 36 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYEER---GM-KVLVF 36 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHc---CC-eEEEE
Confidence 3467889999999998776655544332 45 77766
No 357
>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=73.95 E-value=5.4 Score=37.35 Aligned_cols=38 Identities=29% Similarity=0.351 Sum_probs=23.6
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchh
Q 004385 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (757)
Q Consensus 37 ~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~ 78 (757)
+.+|.+|+|+|||.-...-+...+. .+. +|+|.+....
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 4688999999999865443333222 245 6766655433
No 358
>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=73.89 E-value=9.3 Score=41.34 Aligned_cols=33 Identities=21% Similarity=0.191 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHhC----CcEEEEcCCCCcHHHH
Q 004385 19 PEQYSYMLELKRALDAK----GHCLLEMPTGTGKTIA 51 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~----~~~liEaPTGtGKTla 51 (757)
...++.+.-|.+.+.++ +.+++-+|+|||||.-
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 34567777788888876 4688999999999963
No 359
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=73.89 E-value=3.2 Score=47.93 Aligned_cols=34 Identities=35% Similarity=0.338 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHH
Q 004385 19 PEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~ 52 (757)
.+|...|..+..++... .++++.+|+|||||..+
T Consensus 68 iGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lA 103 (531)
T TIGR02902 68 IGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAA 103 (531)
T ss_pred eCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHH
Confidence 37888888888777654 68999999999999753
No 360
>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=73.87 E-value=4.2 Score=42.30 Aligned_cols=18 Identities=33% Similarity=0.370 Sum_probs=15.1
Q ss_pred CcEEEEcCCCCcHHHHHH
Q 004385 36 GHCLLEMPTGTGKTIALL 53 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L 53 (757)
.++++.+|+|||||...-
T Consensus 43 ~~vll~GppGtGKTtlA~ 60 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVAR 60 (261)
T ss_pred ceEEEEcCCCCCHHHHHH
Confidence 478999999999997543
No 361
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=73.86 E-value=12 Score=41.61 Aligned_cols=39 Identities=23% Similarity=0.343 Sum_probs=23.4
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
..+++-+|+|+|||..+-+- ...+.....+. +|+|.+..
T Consensus 137 n~l~l~G~~G~GKThL~~ai-~~~l~~~~~~~-~v~yi~~~ 175 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAI-GNEILENNPNA-KVVYVSSE 175 (405)
T ss_pred CeEEEECCCCCcHHHHHHHH-HHHHHHhCCCC-cEEEEEHH
Confidence 35889999999999754322 22222221134 78887643
No 362
>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=73.60 E-value=8 Score=40.29 Aligned_cols=25 Identities=40% Similarity=0.708 Sum_probs=18.7
Q ss_pred HHHHHHh-CCcEEEEcCCCCcHHHHH
Q 004385 28 LKRALDA-KGHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 28 v~~~l~~-~~~~liEaPTGtGKTla~ 52 (757)
+.+++.. ++.++|-+|||+|||-.+
T Consensus 72 l~~~~~~~~GlilisG~tGSGKTT~l 97 (264)
T cd01129 72 FRKLLEKPHGIILVTGPTGSGKTTTL 97 (264)
T ss_pred HHHHHhcCCCEEEEECCCCCcHHHHH
Confidence 3444543 468999999999999764
No 363
>PF12846 AAA_10: AAA-like domain
Probab=73.43 E-value=4.3 Score=42.69 Aligned_cols=37 Identities=27% Similarity=0.451 Sum_probs=24.4
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
+.|.+|-++||+|||..+..- +...... +. ++++.=+
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 5666633
No 364
>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=73.39 E-value=4.4 Score=47.08 Aligned_cols=38 Identities=21% Similarity=0.444 Sum_probs=27.0
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
..|.++-||||+|||.+ +-..|.|..+. +. ++||-=++
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 47999999999999964 44456665544 45 67776544
No 365
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=73.36 E-value=4.8 Score=49.27 Aligned_cols=72 Identities=15% Similarity=0.159 Sum_probs=46.0
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC-CCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~-~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
..|.-|.+=++=++-...+++++|+-=--|-|||+--.+ .|.|..... -.+ +.++.++-+..+ ...+|+...
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 368889998988899999999999988899999974332 233333221 123 455555544432 333455543
No 366
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=73.35 E-value=35 Score=39.54 Aligned_cols=139 Identities=16% Similarity=0.217 Sum_probs=84.8
Q ss_pred CeEEEeccCCCCC--cchhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHHHhhh
Q 004385 450 QSVVITSGTLSPI--DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVS 527 (757)
Q Consensus 450 ~svIltSgTL~p~--~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~ 527 (757)
-.++.+.||=+|. ......|++... ..+...+.+.|+..-++.+ .+....+. .|.+...
T Consensus 167 ~p~~AlTATA~~~v~~DI~~~L~l~~~--~~~~~sfdRpNi~~~v~~~----------------~~~~~q~~-fi~~~~~ 227 (590)
T COG0514 167 PPVLALTATATPRVRDDIREQLGLQDA--NIFRGSFDRPNLALKVVEK----------------GEPSDQLA-FLATVLP 227 (590)
T ss_pred CCEEEEeCCCChHHHHHHHHHhcCCCc--ceEEecCCCchhhhhhhhc----------------ccHHHHHH-HHHhhcc
Confidence 3567777888775 466777887653 1233334444543222211 11122333 3333334
Q ss_pred ccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCC-CchhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004385 528 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 606 (757)
Q Consensus 528 ~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGi 606 (757)
...++.+|++.|.+.-+.+++++.+.|+ +..+..+. +..++..+-+.|. .++..|++|+. -|.=||
T Consensus 228 ~~~~~GIIYc~sRk~~E~ia~~L~~~g~-------~a~~YHaGl~~~eR~~~q~~f~----~~~~~iiVAT~--AFGMGI 294 (590)
T COG0514 228 QLSKSGIIYCLTRKKVEELAEWLRKNGI-------SAGAYHAGLSNEERERVQQAFL----NDEIKVMVATN--AFGMGI 294 (590)
T ss_pred ccCCCeEEEEeeHHhHHHHHHHHHHCCC-------ceEEecCCCCHHHHHHHHHHHh----cCCCcEEEEec--cccCcc
Confidence 4556689999999999999999987653 22333222 2223334444554 46778888875 799999
Q ss_pred cCCCCCceEEEEeccC
Q 004385 607 DFDRHYGRLVIMFGVP 622 (757)
Q Consensus 607 Df~~~~~r~Vii~glP 622 (757)
|=|| .|.||=..+|
T Consensus 295 dKpd--VRfViH~~lP 308 (590)
T COG0514 295 DKPD--VRFVIHYDLP 308 (590)
T ss_pred CCCC--ceEEEEecCC
Confidence 9998 7899998887
No 367
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=73.12 E-value=55 Score=37.17 Aligned_cols=170 Identities=17% Similarity=0.146 Sum_probs=92.5
Q ss_pred eEEEeccCCCCCc-chhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHHHHHHHHHhhhcc
Q 004385 451 SVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIV 529 (757)
Q Consensus 451 svIltSgTL~p~~-~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~~~~~l~~~~~~~ 529 (757)
.++=.|+|+.... ......|++.+... ..+-++..-..+|+=. ...++ -..++...++.+.+..+.+++. .
T Consensus 453 ~~~~~~~~~K~~~~~~~~~~~~~E~~Li--~~DGSPs~~K~~V~WN---P~~~P--~~~~~~~~~i~E~s~~~~~~i~-~ 524 (1034)
T KOG4150|consen 453 GVYDGDTPYKDRTRLRSELANLSELELV--TIDGSPSSEKLFVLWN---PSAPP--TSKSEKSSKVVEVSHLFAEMVQ-H 524 (1034)
T ss_pred ceEeCCCCcCCHHHHHHHhcCCcceEEE--EecCCCCccceEEEeC---CCCCC--cchhhhhhHHHHHHHHHHHHHH-c
Confidence 4677788885543 33445577653211 1111122211222211 11112 1234556688889998888874 4
Q ss_pred CCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHH------------HhccCCCCeEEEEe
Q 004385 530 PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYR------------KACDCGRGAVFFSV 597 (757)
Q Consensus 530 ~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~------------~~~~~~~~avL~gv 597 (757)
.-+++.|+||.+.-+-+...-++ ||+|..- ..-..+-.|+ +..-.|+ |.|+
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--HLVEAITSYRGGYIAEDRRKIESDLFGGK---LCGI 587 (1034)
T ss_pred CCcEEEeccHHHHHHHHHHHHHH------------HHHHhhH--HHHHHHHhhcCccchhhHHHHHHHhhCCe---eeEE
Confidence 56899999999998877765432 3333211 0011111221 1111122 3333
Q ss_pred -ecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccccccCCCeeEEE
Q 004385 598 -ARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRVIRSKADYGMMI 676 (757)
Q Consensus 598 -~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~IR~~~D~G~vi 676 (757)
+...+-=|||+-+ +.+|+.+|.|+. +-.+.|-.||.=|..+|-=+++
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 1235677999976 789999999874 2334577788888877765555
Q ss_pred E
Q 004385 677 F 677 (757)
Q Consensus 677 l 677 (757)
+
T Consensus 636 v 636 (1034)
T KOG4150|consen 636 V 636 (1034)
T ss_pred E
Confidence 5
No 368
>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=73.06 E-value=8.5 Score=38.28 Aligned_cols=37 Identities=22% Similarity=0.258 Sum_probs=24.4
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
|....|.+|+|+|||.-.+-.+...+.. +. +++|.+-
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~---g~-~v~yi~~ 48 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQ---GK-KVVYIDT 48 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhC---CC-eEEEEEC
Confidence 4678899999999998766554443332 34 5555544
No 369
>PHA00729 NTP-binding motif containing protein
Probab=72.86 E-value=5.3 Score=40.32 Aligned_cols=27 Identities=22% Similarity=0.343 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhCC--cEEEEcCCCCcHHH
Q 004385 24 YMLELKRALDAKG--HCLLEMPTGTGKTI 50 (757)
Q Consensus 24 ~~~~v~~~l~~~~--~~liEaPTGtGKTl 50 (757)
++..+.+.+.+++ +++|.+|+|||||-
T Consensus 4 ~~k~~~~~l~~~~f~nIlItG~pGvGKT~ 32 (226)
T PHA00729 4 LAKKIVSAYNNNGFVSAVIFGKQGSGKTT 32 (226)
T ss_pred HHHHHHHHHhcCCeEEEEEECCCCCCHHH
Confidence 5666777777764 79999999999995
No 370
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=72.80 E-value=9.3 Score=43.04 Aligned_cols=38 Identities=26% Similarity=0.324 Sum_probs=23.8
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
..+++-+|+|+|||.-+-+-+-......+ +. +|+|.|.
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 46999999999999754322222222222 34 7888875
No 371
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=72.54 E-value=10 Score=43.21 Aligned_cols=44 Identities=5% Similarity=0.097 Sum_probs=37.2
Q ss_pred ChHHHHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcc
Q 004385 511 DPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSG 554 (757)
Q Consensus 511 ~~~~~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~ 554 (757)
+.++.+...+.+-++.+.-.+.+.|.++.+....++.+.+++..
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 45677888888888888888999999999999999999987543
No 372
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=72.10 E-value=5.5 Score=46.87 Aligned_cols=69 Identities=13% Similarity=0.092 Sum_probs=42.1
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhhhhhccccCCCccceEEEEecCCcc
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN 114 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~ 114 (757)
..|+++-||||+|||.++.+|.+. .. +. .+|+.-+ +.+.-.+..+.++- .+.++...-..+...
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnLL---~~--~g-S~VV~Dp-KgEl~~~Ta~~R~~---------~G~~V~vfdP~~~~~ 287 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTAL---KW--GG-PLVVLDP-STEVAPMVSEHRRD---------AGREVIVLDPTNPGT 287 (641)
T ss_pred CceEEEEeCCCCCccceEehhhhh---cC--CC-CEEEEeC-cHHHHHHHHHHHHH---------CCCeEEEEeCCCCcc
Confidence 469999999999999999999864 22 23 4555544 44444455544432 233444444444444
Q ss_pred cccchH
Q 004385 115 LCVNSR 120 (757)
Q Consensus 115 lC~~~~ 120 (757)
|-|++
T Consensus 288 -~~NPL 292 (641)
T PRK13822 288 -GFNVL 292 (641)
T ss_pred -CCCch
Confidence 66665
No 373
>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=71.99 E-value=6.3 Score=39.08 Aligned_cols=17 Identities=47% Similarity=0.792 Sum_probs=14.7
Q ss_pred CcEEEEcCCCCcHHHHH
Q 004385 36 GHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~ 52 (757)
+.++|-+|||+|||-.+
T Consensus 2 GlilI~GptGSGKTTll 18 (198)
T cd01131 2 GLVLVTGPTGSGKSTTL 18 (198)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 56889999999999864
No 374
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.74 E-value=4.7 Score=48.63 Aligned_cols=36 Identities=28% Similarity=0.297 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~~ 55 (757)
+|......+..++..++ |+ |+.+|.|||||....+-
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiL 58 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLF 58 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHH
Confidence 78888888888888874 66 89999999999876543
No 375
>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=71.74 E-value=4.1 Score=48.20 Aligned_cols=40 Identities=28% Similarity=0.310 Sum_probs=32.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~ 52 (757)
|||.. --+|..+...+.-++-.. ++++|++|+|||||...
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 89987 578998888887766653 57999999999999753
No 376
>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=71.73 E-value=5.4 Score=44.03 Aligned_cols=35 Identities=17% Similarity=0.198 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHH
Q 004385 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL 53 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L 53 (757)
..+...+......++++.|+++-+|+|||||-.+-
T Consensus 193 r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~ 227 (449)
T TIGR02688 193 RQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYN 227 (449)
T ss_pred HHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHH
Confidence 34444444555678888999999999999995443
No 377
>PRK13342 recombination factor protein RarA; Reviewed
Probab=71.57 E-value=3.7 Score=45.89 Aligned_cols=34 Identities=32% Similarity=0.347 Sum_probs=26.5
Q ss_pred HHHHHHHH---HHHHHHhCC--cEEEEcCCCCcHHHHHH
Q 004385 20 EQYSYMLE---LKRALDAKG--HCLLEMPTGTGKTIALL 53 (757)
Q Consensus 20 ~Q~~~~~~---v~~~l~~~~--~~liEaPTGtGKTla~L 53 (757)
+|...+.. +.+.+.++. ++++.+|+|||||...-
T Consensus 16 Gq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~ 54 (413)
T PRK13342 16 GQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLAR 54 (413)
T ss_pred CcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHH
Confidence 67777665 777787764 79999999999997543
No 378
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=71.48 E-value=5.4 Score=42.62 Aligned_cols=80 Identities=19% Similarity=0.341 Sum_probs=57.6
Q ss_pred CCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCc--hhHHHHHHHHHHhccCCCCeEEEEeecCccccccc
Q 004385 530 PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV--VETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 607 (757)
Q Consensus 530 ~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~--~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGiD 607 (757)
=|..++|+...+..+-++..+...|. . |-+-..+. .++..++++||+ |+..||+... -++.|||
T Consensus 330 igqsiIFc~tk~ta~~l~~~m~~~Gh-------~-V~~l~G~l~~~~R~~ii~~Fr~----g~~kVLitTn--V~ARGiD 395 (477)
T KOG0332|consen 330 IGQSIIFCHTKATAMWLYEEMRAEGH-------Q-VSLLHGDLTVEQRAAIIDRFRE----GKEKVLITTN--VCARGID 395 (477)
T ss_pred hhheEEEEeehhhHHHHHHHHHhcCc-------e-eEEeeccchhHHHHHHHHHHhc----CcceEEEEec--hhhcccc
Confidence 37889999999998888888887652 2 21212232 456778999997 6788999874 7999999
Q ss_pred CCCCCceEEEEeccCCcc
Q 004385 608 FDRHYGRLVIMFGVPFQY 625 (757)
Q Consensus 608 f~~~~~r~Vii~glPfp~ 625 (757)
.+- ...||=.-||--.
T Consensus 396 v~q--Vs~VvNydlP~~~ 411 (477)
T KOG0332|consen 396 VAQ--VSVVVNYDLPVKY 411 (477)
T ss_pred cce--EEEEEecCCcccc
Confidence 984 4556666666543
No 379
>PRK13764 ATPase; Provisional
Probab=71.41 E-value=9.2 Score=44.48 Aligned_cols=49 Identities=20% Similarity=0.294 Sum_probs=30.5
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHH-hCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004385 11 YFPYDNIYPEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIALLSLITSYV 60 (757)
Q Consensus 11 ~FPy~~~r~~Q~~~~~~v~~~l~-~~~~~liEaPTGtGKTla~L~~al~~~ 60 (757)
.-|...+.-.+..+...+.+.+. .++++++-+|||+|||-.+ .+.+.+.
T Consensus 232 rrp~~~~~Le~l~l~~~l~~~l~~~~~~ILIsG~TGSGKTTll-~AL~~~i 281 (602)
T PRK13764 232 VRPVVKLSLEDYNLSEKLKERLEERAEGILIAGAPGAGKSTFA-QALAEFY 281 (602)
T ss_pred EccCCCCCHHHhCCCHHHHHHHHhcCCEEEEECCCCCCHHHHH-HHHHHHH
Confidence 34554444455554445555554 4678999999999999743 4444443
No 380
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=71.39 E-value=6.7 Score=43.99 Aligned_cols=50 Identities=30% Similarity=0.379 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 20 EQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~-----------~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
+=++=.++|.+.|++- +-+++.+|+|||||+ |+-|++ ++..++.+|++-.
T Consensus 311 EAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTl--LARAvA-----GEA~VPFF~~sGS 371 (752)
T KOG0734|consen 311 EAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTL--LARAVA-----GEAGVPFFYASGS 371 (752)
T ss_pred HHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhH--HHHHhh-----cccCCCeEecccc
Confidence 3345567777777652 458999999999997 444443 2334477877654
No 381
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=71.20 E-value=54 Score=38.85 Aligned_cols=124 Identities=23% Similarity=0.284 Sum_probs=71.7
Q ss_pred HHHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCc---------hhHHHHHHHHHHh
Q 004385 515 ARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV---------VETTLALDNYRKA 585 (757)
Q Consensus 515 ~~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~---------~~~~~~l~~f~~~ 585 (757)
+..+.+.|.+..+..++.-.+.|+-++.--.....|-.... ...-+..+|+ +++. ....+++++|+.
T Consensus 397 le~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~--~~~ir~~~fi-Gq~~s~~~~gmtqk~Q~evl~~Fr~- 472 (746)
T KOG0354|consen 397 LEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLH--ELGIKAEIFI-GQGKSTQSTGMTQKEQKEVLDKFRD- 472 (746)
T ss_pred HHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhhh--hcccccceee-eccccccccccCHHHHHHHHHHHhC-
Confidence 46677778888877777666666666443333333332100 0100122554 3221 234568899986
Q ss_pred ccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHhcccc
Q 004385 586 CDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIKEGDFLTFDALRQAAQCVGRV 665 (757)
Q Consensus 586 ~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~~~~~~~~~a~~~~~Q~iGR~ 665 (757)
|+--||+|+. ---||+|++. |..||..+. ..+ -++.-|+.||
T Consensus 473 ---G~~NvLVATS--V~EEGLDI~e--c~lVIcYd~----~sn--------------------------pIrmIQrrGR- 514 (746)
T KOG0354|consen 473 ---GEINVLVATS--VAEEGLDIGE--CNLVICYDY----SSN--------------------------PIRMVQRRGR- 514 (746)
T ss_pred ---CCccEEEEec--chhccCCccc--ccEEEEecC----Ccc--------------------------HHHHHHHhcc-
Confidence 7777999883 3559999997 666776653 111 1445699999
Q ss_pred cccCCCeeEEEEeec
Q 004385 666 IRSKADYGMMIFADK 680 (757)
Q Consensus 666 IR~~~D~G~villD~ 680 (757)
=|-++-+-+++.-+.
T Consensus 515 gRa~ns~~vll~t~~ 529 (746)
T KOG0354|consen 515 GRARNSKCVLLTTGS 529 (746)
T ss_pred ccccCCeEEEEEcch
Confidence 576655555544433
No 382
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=71.19 E-value=6.2 Score=42.34 Aligned_cols=38 Identities=18% Similarity=0.329 Sum_probs=31.9
Q ss_pred CCHHHHHHHHHHHHHHHhCC--cEE-EEcCCCCcHHHHHHH
Q 004385 17 IYPEQYSYMLELKRALDAKG--HCL-LEMPTGTGKTIALLS 54 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~--~~l-iEaPTGtGKTla~L~ 54 (757)
.||.|...-..+..++.+++ |++ +++|.|+||+..+..
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 48999999999999999874 655 799999999976554
No 383
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=71.16 E-value=3.8 Score=47.58 Aligned_cols=37 Identities=35% Similarity=0.375 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHhC--Cc-EEEEcCCCCcHHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAK--GH-CLLEMPTGTGKTIALLSLI 56 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~--~~-~liEaPTGtGKTla~L~~a 56 (757)
+|......+..++..+ .| .++.+|.|||||...-+-|
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 8999999999999887 46 4679999999998766543
No 384
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.04 E-value=5.1 Score=46.95 Aligned_cols=35 Identities=23% Similarity=0.245 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L~ 54 (757)
+|......+..++.+++ | .++.+|.|+|||..+.+
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 4 67999999999987654
No 385
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.91 E-value=5.2 Score=46.15 Aligned_cols=35 Identities=29% Similarity=0.304 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~ 54 (757)
+|......+..++..++ |+ ++.+|.|+|||....+
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 386
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=70.71 E-value=1.6 Score=51.41 Aligned_cols=42 Identities=19% Similarity=0.148 Sum_probs=30.9
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHH
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q 82 (757)
..|+++-||||+|||.++.+|.|.- . +. .+||.-+.-...+.
T Consensus 139 ~~hvlviApTgSGKgvg~VIPnLL~---~--~g-S~VV~DpKGE~~~~ 180 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPTLLT---F--KG-SVIALDVKGELFEL 180 (670)
T ss_pred CceEEEEecCCCCceeeehHhHHhc---C--CC-CEEEEeCCchHHHH
Confidence 3699999999999999999998752 2 23 57776666554443
No 387
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.66 E-value=5.2 Score=45.39 Aligned_cols=35 Identities=26% Similarity=0.206 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~liEaPTGtGKTla~L~ 54 (757)
+|..+...+..++..++ ..++.+|.|||||-...+
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 78888888888888874 588999999999986554
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=70.56 E-value=7.1 Score=44.51 Aligned_cols=30 Identities=37% Similarity=0.472 Sum_probs=20.1
Q ss_pred HHHHHh-CCcEEEEcCCCCcHHHHHHHHHHHH
Q 004385 29 KRALDA-KGHCLLEMPTGTGKTIALLSLITSY 59 (757)
Q Consensus 29 ~~~l~~-~~~~liEaPTGtGKTla~L~~al~~ 59 (757)
.+.+.. ++.+++.+|||+|||-.+ .+++..
T Consensus 235 ~~~~~~~~GlilitGptGSGKTTtL-~a~L~~ 265 (486)
T TIGR02533 235 ERLIRRPHGIILVTGPTGSGKTTTL-YAALSR 265 (486)
T ss_pred HHHHhcCCCEEEEEcCCCCCHHHHH-HHHHhc
Confidence 334443 357889999999999864 334443
No 389
>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=70.53 E-value=11 Score=39.59 Aligned_cols=66 Identities=14% Similarity=0.011 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHh----CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 22 YSYMLELKRALDA----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 22 ~~~~~~v~~~l~~----~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
...+++|.+.|.. .+.+.|.++.|+|||-.+.-.+-....... -...+++...+.....++.+.+-
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 12145555555544455555443
No 390
>PF05729 NACHT: NACHT domain
Probab=70.51 E-value=7.7 Score=36.48 Aligned_cols=25 Identities=20% Similarity=0.203 Sum_probs=17.6
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHH
Q 004385 37 HCLLEMPTGTGKTIALLSLITSYVL 61 (757)
Q Consensus 37 ~~liEaPTGtGKTla~L~~al~~~~ 61 (757)
.++|.+++|+|||..+-.-+-.|..
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~ 26 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAE 26 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHh
Confidence 5789999999999865433334443
No 391
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=70.39 E-value=13 Score=41.93 Aligned_cols=36 Identities=25% Similarity=0.309 Sum_probs=23.7
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
+.+++-+|+|+|||-- +-+++..... .+. +|+|.+.
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 4689999999999974 3333332221 145 8888875
No 392
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=70.33 E-value=4.9 Score=48.43 Aligned_cols=32 Identities=31% Similarity=0.365 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHH
Q 004385 20 EQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIA 51 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~-----------~~~liEaPTGtGKTla 51 (757)
+|.+.++.|.+++... +++++.+|||||||..
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 2578999999999953
No 393
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=70.23 E-value=4.9 Score=48.27 Aligned_cols=33 Identities=33% Similarity=0.400 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHH
Q 004385 20 EQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~-----------~~~liEaPTGtGKTla~ 52 (757)
+|.+.+..|.+++... +.+++.+|||+|||...
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 36899999999999754
No 394
>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=70.20 E-value=12 Score=43.25 Aligned_cols=51 Identities=16% Similarity=0.245 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccch
Q 004385 24 YMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (757)
Q Consensus 24 ~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~ 77 (757)
+.+.+..+...+.+++|.++||||||.. +-++........++ =|.+-+...
T Consensus 208 ~~~~~~~~a~~~~pvli~Ge~GtGK~~l--A~~ih~~s~r~~~p-fv~i~c~~~ 258 (534)
T TIGR01817 208 VVDQARVVARSNSTVLLRGESGTGKELI--AKAIHYLSPRAKRP-FVKVNCAAL 258 (534)
T ss_pred HHHHHHHHhCcCCCEEEECCCCccHHHH--HHHHHHhCCCCCCC-eEEeecCCC
Confidence 3444444445668999999999999974 33343332222234 344444443
No 395
>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=70.16 E-value=5.6 Score=44.37 Aligned_cols=41 Identities=20% Similarity=0.246 Sum_probs=27.8
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhh
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l 79 (757)
..|++|-||||+|||..+ ...+.+..+. +. ++||.=++-..
T Consensus 42 ~~h~~i~g~tGsGKt~~i-~~l~~~~~~~--~~-~~vi~D~kg~~ 82 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQI-RELLASIRAR--GD-RAIIYDPNGGF 82 (410)
T ss_pred hccEEEEcCCCCCHHHHH-HHHHHHHHhc--CC-CEEEEeCCcch
Confidence 369999999999999863 3344444433 35 67777666543
No 396
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.12 E-value=5.3 Score=45.73 Aligned_cols=35 Identities=31% Similarity=0.258 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~ 54 (757)
+|......+..++..++ |+ ++.+|+|||||....+
T Consensus 18 Gq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~ 55 (504)
T PRK14963 18 GQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARL 55 (504)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 68888888888888874 55 9999999999987654
No 397
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.88 E-value=6 Score=45.60 Aligned_cols=36 Identities=31% Similarity=0.289 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L~~ 55 (757)
+|......+..++..++ | .++.+|.|+|||....+-
T Consensus 20 Gq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~l 58 (546)
T PRK14957 20 GQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLL 58 (546)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 88898888999998874 4 678999999999865543
No 398
>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=69.52 E-value=4.9 Score=45.19 Aligned_cols=46 Identities=15% Similarity=0.243 Sum_probs=30.1
Q ss_pred HHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 28 LKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 28 v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
+...+..|...+|-|+||+|||.-.+--+...+... +. +|+|.|-=
T Consensus 188 ~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~--g~-~vl~~SlE 233 (434)
T TIGR00665 188 LTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKE--GK-PVAFFSLE 233 (434)
T ss_pred hcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhC--CC-eEEEEeCc
Confidence 333455566789999999999987765555444322 45 67666443
No 399
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=69.15 E-value=7.2 Score=40.54 Aligned_cols=46 Identities=26% Similarity=0.317 Sum_probs=34.4
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 37 ~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
-+++-+|+||||| ||.-|++- +.. ..+++.++..+....+.|=.+|
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 56665542 123 5889999999998888865544
No 400
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=69.09 E-value=28 Score=39.27 Aligned_cols=101 Identities=19% Similarity=0.322 Sum_probs=65.7
Q ss_pred HHHHHHHHHhhhccC-CcEEEEecChHHHHHHHHHHhhcccH--------------HH-HhcCccEEEeCCCc--hhHHH
Q 004385 516 RNYGKLLVEMVSIVP-DGIVCFFVSYSYMDEIIATWNDSGIL--------------KE-IMQHKLVFIETQDV--VETTL 577 (757)
Q Consensus 516 ~~~~~~l~~~~~~~~-gg~Lv~f~Sy~~l~~v~~~~~~~~~~--------------~~-~~~~k~if~E~~~~--~~~~~ 577 (757)
-.++..|.+.++..+ ..++|||++-+..+-=++.+.....- .. ....| +|--..++ .++..
T Consensus 410 V~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k-~~rLHGsm~QeeRts 488 (708)
T KOG0348|consen 410 VALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLK-FYRLHGSMEQEERTS 488 (708)
T ss_pred HHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcce-EEEecCchhHHHHHH
Confidence 456777888777654 48999999988887777766532110 00 11112 33222222 34566
Q ss_pred HHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcc
Q 004385 578 ALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQY 625 (757)
Q Consensus 578 ~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~ 625 (757)
+++.|+. .+.+||||.. -.+.|+|||+ .++||=.--||..
T Consensus 489 ~f~~Fs~----~~~~VLLcTD--VAaRGLDlP~--V~~vVQYd~P~s~ 528 (708)
T KOG0348|consen 489 VFQEFSH----SRRAVLLCTD--VAARGLDLPH--VGLVVQYDPPFST 528 (708)
T ss_pred HHHhhcc----ccceEEEehh--hhhccCCCCC--cCeEEEeCCCCCH
Confidence 7888887 4778999874 7899999997 5677777777653
No 401
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.05 E-value=4.3 Score=47.37 Aligned_cols=35 Identities=29% Similarity=0.286 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~ 54 (757)
+|......+..++..++ |+ ++.+|.|+|||....+
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 88999999999998874 55 8999999999987654
No 402
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=68.97 E-value=11 Score=45.32 Aligned_cols=141 Identities=13% Similarity=0.159 Sum_probs=80.1
Q ss_pred cccchHHhhccCeEEEeccCCCCCc-chhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceeccccCCChHHHHH
Q 004385 439 SLAVKPVFDRFQSVVITSGTLSPID-LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARN 517 (757)
Q Consensus 439 s~~~~~l~~~~~svIltSgTL~p~~-~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f~~r~~~~~~~~ 517 (757)
+..++.+|..++.+--|+||..... .|.+.-|++-+. +|.+ . |..--+-++. -| +...+-+.+
T Consensus 351 sIT~QnfFr~Y~kLsGMTGTA~te~~Ef~~iY~l~Vv~-------IPTn-k-P~~R~D~~d~-----iy--~t~~~K~~A 414 (925)
T PRK12903 351 TITYQNFFRLFKKLSGMTGTAKTEEQEFIDIYNMRVNV-------VPTN-K-PVIRKDEPDS-----IF--GTKHAKWKA 414 (925)
T ss_pred eehHHHHHHhcchhhccCCCCHHHHHHHHHHhCCCEEE-------CCCC-C-CeeeeeCCCc-----EE--EcHHHHHHH
Confidence 4456788888888889999976532 444445554221 1111 1 1111111111 11 223334456
Q ss_pred HHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEe
Q 004385 518 YGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 597 (757)
Q Consensus 518 ~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv 597 (757)
+.+.+.+.. ..+..+||.+.|-..-+.+...+.+.|+-.+ ++- .+....-..++ .++ ..+|+|-+|+
T Consensus 415 ii~ei~~~~-~~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~------vLN-Ak~~e~EA~II---a~A--G~~GaVTIAT 481 (925)
T PRK12903 415 VVKEVKRVH-KKGQPILIGTAQVEDSETLHELLLEANIPHT------VLN-AKQNAREAEII---AKA--GQKGAITIAT 481 (925)
T ss_pred HHHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCCCce------eec-ccchhhHHHHH---HhC--CCCCeEEEec
Confidence 666666655 3577999999999999999999988764221 321 12111111122 222 3478999887
Q ss_pred ecCcccccccCCC
Q 004385 598 ARGKVAEGIDFDR 610 (757)
Q Consensus 598 ~~G~~~EGiDf~~ 610 (757)
.-...|.|+.-
T Consensus 482 --NMAGRGTDI~L 492 (925)
T PRK12903 482 --NMAGRGTDIKL 492 (925)
T ss_pred --ccccCCcCccC
Confidence 47889999963
No 403
>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=68.91 E-value=5.9 Score=44.38 Aligned_cols=42 Identities=14% Similarity=0.241 Sum_probs=29.0
Q ss_pred HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 30 ~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
..+..|...+|-|+||+|||.-.|--+...+... +. +|+|.+
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 3455567889999999999997776655554322 45 666665
No 404
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=68.90 E-value=5.8 Score=42.39 Aligned_cols=25 Identities=28% Similarity=0.388 Sum_probs=20.7
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHH
Q 004385 27 ELKRALDAKGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 27 ~v~~~l~~~~~~liEaPTGtGKTla 51 (757)
-+..++..++++++-+|||+|||-.
T Consensus 136 ~l~~~v~~~~~ili~G~tGsGKTTl 160 (308)
T TIGR02788 136 FLRLAIASRKNIIISGGTGSGKTTF 160 (308)
T ss_pred HHHHHhhCCCEEEEECCCCCCHHHH
Confidence 3445677889999999999999974
No 405
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=68.80 E-value=3.9 Score=49.29 Aligned_cols=104 Identities=12% Similarity=0.134 Sum_probs=0.0
Q ss_pred EEEeccCCCCCcchhhhhCCCCcccccceeeeccCceeeeEEecCCCCccceecc----------------ccCCChHHH
Q 004385 452 VVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKF----------------DMRSDPGVA 515 (757)
Q Consensus 452 vIltSgTL~p~~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~vi~~g~~~~~l~s~f----------------~~r~~~~~~ 515 (757)
|||||||+. .+.|.+.+|-.++....-...--....+--++.+-.....-.+++ .+.-+.+.+
T Consensus 322 vILMSAT~d-ae~fs~YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~id~~Li 400 (924)
T KOG0920|consen 322 VILMSATLD-AELFSDYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRLARLKLWEPEIDYDLI 400 (924)
T ss_pred EEEeeeecc-hHHHHHHhCCCceEeecCCCcchHHHHHHHHHHHhcccccccccccccccCccccccchhccccccHHHH
Q ss_pred HHHHHHHHHhhhccCCcEEEEecChHHHHHHHHHHhhcccHHH
Q 004385 516 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKE 558 (757)
Q Consensus 516 ~~~~~~l~~~~~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~ 558 (757)
..+...|.+- ..+|.+|||.|.|..+.++++.+.....+.+
T Consensus 401 ~~li~~I~~~--~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~ 441 (924)
T KOG0920|consen 401 EDLIEYIDER--EFEGAILVFLPGWEEILQLKELLEVNLPFAD 441 (924)
T ss_pred HHHHHhcccC--CCCceEEEEcCCHHHHHHHHHHhhhcccccc
No 406
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=68.75 E-value=4.6 Score=36.45 Aligned_cols=14 Identities=57% Similarity=0.740 Sum_probs=12.3
Q ss_pred EEEEcCCCCcHHHH
Q 004385 38 CLLEMPTGTGKTIA 51 (757)
Q Consensus 38 ~liEaPTGtGKTla 51 (757)
+++.+|+|||||..
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 407
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.69 E-value=6.2 Score=46.01 Aligned_cols=35 Identities=29% Similarity=0.299 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~ 54 (757)
+|..+...+.+++.+++ |+ |+.+|.|+|||....+
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 408
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=68.64 E-value=6.1 Score=46.17 Aligned_cols=35 Identities=23% Similarity=0.218 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~liEaPTGtGKTla~L~ 54 (757)
+|..+...+..++..++ ..++.+|.|+|||....+
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 478899999999986554
No 409
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=68.50 E-value=16 Score=35.88 Aligned_cols=39 Identities=23% Similarity=0.267 Sum_probs=29.3
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEE
Q 004385 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (757)
Q Consensus 31 ~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~ 73 (757)
+-.+++.+++-.|+|.|||-+.+.-++..+. .+. +|.+.
T Consensus 18 ~~~~~g~v~v~~g~GkGKtt~a~g~a~ra~g---~G~-~V~iv 56 (191)
T PRK05986 18 AQEEKGLLIVHTGNGKGKSTAAFGMALRAVG---HGK-KVGVV 56 (191)
T ss_pred hhccCCeEEEECCCCCChHHHHHHHHHHHHH---CCC-eEEEE
Confidence 3346789999999999999998887776553 244 67665
No 410
>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=68.47 E-value=5.3 Score=49.04 Aligned_cols=40 Identities=25% Similarity=0.208 Sum_probs=30.5
Q ss_pred CHHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHHHHHHHHH
Q 004385 18 YPEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSY 59 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~-----------~~~liEaPTGtGKTla~L~~al~~ 59 (757)
-.+|.+.+..|.+++... ..+++.+|||||||.. +-+|+.
T Consensus 567 v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~l--A~~La~ 617 (852)
T TIGR03346 567 VVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTEL--AKALAE 617 (852)
T ss_pred cCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHH--HHHHHH
Confidence 468899999999988752 3588999999999964 334443
No 411
>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=68.41 E-value=8.3 Score=41.86 Aligned_cols=25 Identities=36% Similarity=0.663 Sum_probs=18.8
Q ss_pred HHHHHH-hCCcEEEEcCCCCcHHHHH
Q 004385 28 LKRALD-AKGHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 28 v~~~l~-~~~~~liEaPTGtGKTla~ 52 (757)
+.+.+. .++.++|.+|||+|||-.+
T Consensus 114 l~~~~~~~~g~ili~G~tGSGKTT~l 139 (343)
T TIGR01420 114 LRELAERPRGLILVTGPTGSGKSTTL 139 (343)
T ss_pred HHHHHhhcCcEEEEECCCCCCHHHHH
Confidence 334443 4689999999999999764
No 412
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=68.27 E-value=1.8 Score=51.02 Aligned_cols=47 Identities=19% Similarity=0.080 Sum_probs=31.7
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.+|+++-||||+|||.++.+|.|.-. .. .+||.-..-. .-++....+
T Consensus 144 ~~hvLviApTrSGKgvg~VIPnLL~~-----~~-S~VV~D~KGE-l~~~Ta~~R 190 (663)
T PRK13876 144 PEHVLCFAPTRSGKGVGLVVPTLLTW-----PG-SAIVHDIKGE-NWQLTAGFR 190 (663)
T ss_pred CceEEEEecCCCCcceeEehhhHHhC-----CC-CEEEEeCcch-HHHHHHHHH
Confidence 47999999999999999999987531 13 4555544444 334444333
No 413
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=68.21 E-value=22 Score=38.30 Aligned_cols=40 Identities=20% Similarity=0.213 Sum_probs=29.1
Q ss_pred CCHHHHHHHHHHHHHHHhCCc-EEEEcCCCCcHHHHHHHHH
Q 004385 17 IYPEQYSYMLELKRALDAKGH-CLLEMPTGTGKTIALLSLI 56 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~-~liEaPTGtGKTla~L~~a 56 (757)
.||.|.+.-..+.....+-.| .++.+|.|+|||..+..-|
T Consensus 2 ~yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~~a 42 (325)
T PRK08699 2 IYPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARFAA 42 (325)
T ss_pred CCCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHHHH
Confidence 378888887777777443356 5689999999998665543
No 414
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=68.18 E-value=15 Score=42.31 Aligned_cols=149 Identities=13% Similarity=0.145 Sum_probs=80.6
Q ss_pred cceeccccCCChHHHHHHHHHHHHhhhc-cCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCcc--EE-EeCCCchhHH
Q 004385 501 PVSTKFDMRSDPGVARNYGKLLVEMVSI-VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKL--VF-IETQDVVETT 576 (757)
Q Consensus 501 ~l~s~f~~r~~~~~~~~~~~~l~~~~~~-~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~--if-~E~~~~~~~~ 576 (757)
++.--|......+|..+....+.++... -||.+|||.|.-+..+.+.+.+.+.. ..+....+ ++ +.+ .-+..
T Consensus 228 PVei~y~~~p~~dYv~a~~~tv~~Ih~~E~~GDILvFLtGqeEIe~~~~~l~e~~--~~~~~~~~~~~lply~--aL~~e 303 (674)
T KOG0922|consen 228 PVEILYLKEPTADYVDAALITVIQIHLTEPPGDILVFLTGQEEIEAACELLRERA--KSLPEDCPELILPLYG--ALPSE 303 (674)
T ss_pred ceeEEeccCCchhhHHHHHHHHHHHHccCCCCCEEEEeCCHHHHHHHHHHHHHHh--hhccccCcceeeeecc--cCCHH
Confidence 3444455555677888877777777754 56899999999999999999887641 11111110 11 111 11112
Q ss_pred HHHHHHHHhccCCCCeEEEEeecCcccccccCCCCCceEEEEeccCCcccCcHHHHHHHHHHHHhcCCC--ccchhHHHH
Q 004385 577 LALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSKILLARLEYLRDTFQIK--EGDFLTFDA 654 (757)
Q Consensus 577 ~~l~~f~~~~~~~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~glPfp~~~dp~~~~r~~~l~~~~~~~--~~~~~~~~a 654 (757)
.-..-|... ..|...|.++. .++| +.+-|.|+=|-- +.=.++.| . ++.+.+.. ..-|. .
T Consensus 304 ~Q~rvF~p~-p~g~RKvIlsT---NIAE---------TSlTI~GI~YVV-DsG~vK~~-~-y~p~~g~~~L~v~~I---S 364 (674)
T KOG0922|consen 304 EQSRVFDPA-PPGKRKVILST---NIAE---------TSLTIDGIRYVV-DSGFVKQK-K-YNPRTGLDSLIVVPI---S 364 (674)
T ss_pred HhhccccCC-CCCcceEEEEc---ceee---------eeEEecceEEEE-cCCceEEE-e-eccccCccceeEEec---h
Confidence 222333332 22455688887 4666 667777776643 22222222 1 11111110 01122 2
Q ss_pred HHHHHHhcccccccCCCe
Q 004385 655 LRQAAQCVGRVIRSKADY 672 (757)
Q Consensus 655 ~~~~~Q~iGR~IR~~~D~ 672 (757)
--.++|+.||.=|+..-.
T Consensus 365 kasA~QRaGRAGRt~pGk 382 (674)
T KOG0922|consen 365 KASANQRAGRAGRTGPGK 382 (674)
T ss_pred HHHHhhhcccCCCCCCce
Confidence 345689999999965443
No 415
>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=68.05 E-value=29 Score=38.81 Aligned_cols=85 Identities=18% Similarity=0.196 Sum_probs=58.2
Q ss_pred hccCCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCchhHHHHHHHHHHhccCCCCeEEEEeecCcccccc
Q 004385 527 SIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 606 (757)
Q Consensus 527 ~~~~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~avL~gv~~G~~~EGi 606 (757)
....+|+|||.|||-..=++.+++++.++ .. ....|-....+.+.+...|. .|+..||+=+-|--|..=.
T Consensus 297 ~~~~~~~LIfIPSYfDfVRlRN~lk~~~~-----sF-~~i~EYts~~~isRAR~~F~----~G~~~iLL~TER~HFfrRy 366 (442)
T PF06862_consen 297 DSKMSGTLIFIPSYFDFVRLRNYLKKENI-----SF-VQISEYTSNSDISRARSQFF----HGRKPILLYTERFHFFRRY 366 (442)
T ss_pred ccCCCcEEEEecchhhhHHHHHHHHhcCC-----eE-EEecccCCHHHHHHHHHHHH----cCCceEEEEEhHHhhhhhc
Confidence 45668999999999999999999886532 00 12233333233334444444 4888999977666677777
Q ss_pred cCCCCCceEEEEeccCC
Q 004385 607 DFDRHYGRLVIMFGVPF 623 (757)
Q Consensus 607 Df~~~~~r~Vii~glPf 623 (757)
.+.| .+-||..|+|-
T Consensus 367 ~irG--i~~viFY~~P~ 381 (442)
T PF06862_consen 367 RIRG--IRHVIFYGPPE 381 (442)
T ss_pred eecC--CcEEEEECCCC
Confidence 7777 88999999984
No 416
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=67.79 E-value=12 Score=44.94 Aligned_cols=31 Identities=26% Similarity=0.401 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHhCCcEEEEcCCCCcHHH
Q 004385 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTl 50 (757)
.-..+.+.+..+...+.+++|.++||||||+
T Consensus 384 ~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~ 414 (686)
T PRK15429 384 AMYSVLKQVEMVAQSDSTVLILGETGTGKEL 414 (686)
T ss_pred HHHHHHHHHHHHhCCCCCEEEECCCCcCHHH
Confidence 3334444445455556799999999999997
No 417
>PRK11823 DNA repair protein RadA; Provisional
Probab=67.78 E-value=10 Score=42.84 Aligned_cols=50 Identities=16% Similarity=0.226 Sum_probs=32.1
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHH
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~ 88 (757)
.+...+|.+|+|+|||.-.+--+..++. .+. +++|.+--.+ .+|+.....
T Consensus 79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a~---~g~-~vlYvs~Ees-~~qi~~ra~ 128 (446)
T PRK11823 79 PGSVVLIGGDPGIGKSTLLLQVAARLAA---AGG-KVLYVSGEES-ASQIKLRAE 128 (446)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHHh---cCC-eEEEEEcccc-HHHHHHHHH
Confidence 3467899999999999876665554442 245 8888775333 345544333
No 418
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=67.47 E-value=7.5 Score=39.02 Aligned_cols=38 Identities=24% Similarity=0.250 Sum_probs=25.5
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
..+...+|.+|+|+|||.-.+.-+...+. .+. +++|.+
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 34567889999999999876655443332 245 676654
No 419
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=67.17 E-value=7 Score=45.99 Aligned_cols=36 Identities=36% Similarity=0.356 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L~~ 55 (757)
+|..+...+..++..++ | +|+.+|.|+|||....+-
T Consensus 20 GQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriL 58 (709)
T PRK08691 20 GQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARIL 58 (709)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHH
Confidence 89999999999999885 4 589999999999765543
No 420
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=67.15 E-value=13 Score=40.08 Aligned_cols=30 Identities=20% Similarity=0.248 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004385 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 22 ~~~~~~v~~~l~~~~~~liEaPTGtGKTla 51 (757)
+++...+..+...+.+++|.+++||||++.
T Consensus 9 ~~~~~~~~~~a~~~~pVLI~GE~GtGK~~l 38 (329)
T TIGR02974 9 LEVLEQVSRLAPLDRPVLIIGERGTGKELI 38 (329)
T ss_pred HHHHHHHHHHhCCCCCEEEECCCCChHHHH
Confidence 344555566666678999999999999973
No 421
>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=67.01 E-value=12 Score=47.83 Aligned_cols=53 Identities=25% Similarity=0.280 Sum_probs=38.1
Q ss_pred HHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHH
Q 004385 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (757)
Q Consensus 30 ~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~ 83 (757)
.|.+....++|.|+-|||||..+.--.+.......... +|++.|-|+.-...+
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 35667788999999999999986665554443322345 899999998654443
No 422
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=66.87 E-value=1.5 Score=43.56 Aligned_cols=61 Identities=10% Similarity=0.209 Sum_probs=40.2
Q ss_pred EEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEE
Q 004385 2 IFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (757)
Q Consensus 2 ~~~i~~~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~ 73 (757)
-+.|.++.-.|. +.+....|--.+..|..++|-+|+|+|||-- +=.+..+.. ++.. .|.|-
T Consensus 2 mi~i~~l~K~fg-------~~~VLkgi~l~v~~Gevv~iiGpSGSGKSTl--LRclN~LE~-~~~G-~I~i~ 62 (240)
T COG1126 2 MIEIKNLSKSFG-------DKEVLKGISLSVEKGEVVVIIGPSGSGKSTL--LRCLNGLEE-PDSG-SITVD 62 (240)
T ss_pred eEEEEeeeEEeC-------CeEEecCcceeEcCCCEEEEECCCCCCHHHH--HHHHHCCcC-CCCc-eEEEC
Confidence 355666666665 3445556666778899999999999999964 334554443 3344 56664
No 423
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=66.78 E-value=5.3 Score=40.71 Aligned_cols=34 Identities=35% Similarity=0.386 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHH------------HhCCcEEEEcCCCCcHHHHH
Q 004385 19 PEQYSYMLELKRAL------------DAKGHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l------------~~~~~~liEaPTGtGKTla~ 52 (757)
..|.+-+.+|.+.= +.-+-+++-+|+||||||+.
T Consensus 183 keqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~a 228 (435)
T KOG0729|consen 183 KEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCA 228 (435)
T ss_pred HHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHH
Confidence 57888888887631 22356889999999999863
No 424
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=66.60 E-value=12 Score=44.67 Aligned_cols=67 Identities=24% Similarity=0.270 Sum_probs=50.2
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCC--CCCcEEEEEccchhhHHHHHHHHHhhh
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~--~~~~kvi~~T~T~~l~~Q~~~el~~l~ 91 (757)
..|.|++..... .+.++|.|+.|||||-+.. --++|+.... ... .|+..|=|+.-...+.+.+.++.
T Consensus 3 Ln~~Q~~av~~~------~gp~lV~AGaGsGKT~vlt-~Ria~li~~~~v~p~-~Il~vTFTnkAA~em~~Rl~~~~ 71 (655)
T COG0210 3 LNPEQREAVLHP------DGPLLVLAGAGSGKTRVLT-ERIAYLIAAGGVDPE-QILAITFTNKAAAEMRERLLKLL 71 (655)
T ss_pred CCHHHHHHHhcC------CCCeEEEECCCCCchhhHH-HHHHHHHHcCCcChH-HeeeeechHHHHHHHHHHHHHHh
Confidence 468888876654 7999999999999999754 4456665542 123 79999999888887777777764
No 425
>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=66.58 E-value=57 Score=38.93 Aligned_cols=83 Identities=11% Similarity=-0.003 Sum_probs=47.2
Q ss_pred CCcEEEEecChHHHHHHHHHHhhcccHHHHhcCccEEEeCCCch---------------------hHHHHHHHHHHhccC
Q 004385 530 PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVV---------------------ETTLALDNYRKACDC 588 (757)
Q Consensus 530 ~gg~Lv~f~Sy~~l~~v~~~~~~~~~~~~~~~~k~if~E~~~~~---------------------~~~~~l~~f~~~~~~ 588 (757)
+++.+|+..|.......++.+.+..... ......++....+.. ....++++|++.
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 5788999999888777776664321000 000111111111100 112456666642
Q ss_pred CCCeEEEEeecCcccccccCCCCCceEEEEec
Q 004385 589 GRGAVFFSVARGKVAEGIDFDRHYGRLVIMFG 620 (757)
Q Consensus 589 ~~~avL~gv~~G~~~EGiDf~~~~~r~Vii~g 620 (757)
+.--||+.| ..+.+|+|.|. +.++++.+
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 69999999996 66777777
No 426
>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=66.42 E-value=15 Score=49.04 Aligned_cols=63 Identities=13% Similarity=0.100 Sum_probs=44.3
Q ss_pred CCHHHHHHHHHHHHHHHh-CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHH
Q 004385 17 IYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~-~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
+-++|++.+.. .+.. ....+|.++.|||||-..= .++..+... +. +|+.+++|..-..++-++
T Consensus 430 Ls~~Q~~Av~~---il~s~~~v~ii~G~aGTGKTt~l~-~l~~~~~~~--G~-~V~~lAPTgrAA~~L~e~ 493 (1960)
T TIGR02760 430 LSPSNKDAVST---LFTSTKRFIIINGFGGTGSTEIAQ-LLLHLASEQ--GY-EIQIITAGSLSAQELRQK 493 (1960)
T ss_pred CCHHHHHHHHH---HHhCCCCeEEEEECCCCCHHHHHH-HHHHHHHhc--CC-eEEEEeCCHHHHHHHHHH
Confidence 46889986554 4444 4799999999999997643 333434333 56 999999998766666554
No 427
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=66.26 E-value=8.1 Score=42.05 Aligned_cols=34 Identities=24% Similarity=0.201 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALL 53 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~liEaPTGtGKTla~L 53 (757)
+|.+....+..++..++ ..++.+|+|+|||....
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 38889999999997544
No 428
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=66.20 E-value=8 Score=41.29 Aligned_cols=39 Identities=38% Similarity=0.393 Sum_probs=25.1
Q ss_pred CHHHHHHHHHHHHHHHh--CCc-EEEEcCCCCcHHHHHHHHH
Q 004385 18 YPEQYSYMLELKRALDA--KGH-CLLEMPTGTGKTIALLSLI 56 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~--~~~-~liEaPTGtGKTla~L~~a 56 (757)
++.|............. ..| +++.+|.|+|||.+.++-|
T Consensus 4 ~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA 45 (325)
T COG0470 4 VPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALA 45 (325)
T ss_pred ccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHH
Confidence 34444444444444433 367 8999999999999876543
No 429
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=66.03 E-value=2.7 Score=50.91 Aligned_cols=63 Identities=21% Similarity=0.267 Sum_probs=40.7
Q ss_pred HHHHhcccCCCCchHHHHhc-------c--cc-CeEEEecCccccCHHHHhHhhhccCCCcEEEEcCCcChhHHHHh
Q 004385 179 DLRAFGKQQGWCPYFLARHM-------V--QF-ANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIE 245 (757)
Q Consensus 179 ~l~~~~~~~~~CpY~~ar~~-------~--~~-adiiv~ny~yll~~~~~~~~~~~l~~~~ilI~DEAHnl~~~~~~ 245 (757)
+++.+|+...+--||.+-+. + .+ -+|.|+.|..++...... .. .....+|+||||||-+.-..
T Consensus 683 ElKRwcPglKILTYyGs~kErkeKRqgW~kPnaFHVCItSYklv~qd~~AF--kr--krWqyLvLDEaqnIKnfksq 755 (1958)
T KOG0391|consen 683 ELKRWCPGLKILTYYGSHKERKEKRQGWAKPNAFHVCITSYKLVFQDLTAF--KR--KRWQYLVLDEAQNIKNFKSQ 755 (1958)
T ss_pred HHhhhCCcceEeeecCCHHHHHHHhhcccCCCeeEEeehhhHHHHhHHHHH--Hh--hccceeehhhhhhhcchhHH
Confidence 46677777777677754221 1 12 489999999998543211 11 24668999999999765433
No 430
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=65.93 E-value=11 Score=38.42 Aligned_cols=16 Identities=44% Similarity=0.642 Sum_probs=14.6
Q ss_pred CcEEEEcCCCCcHHHH
Q 004385 36 GHCLLEMPTGTGKTIA 51 (757)
Q Consensus 36 ~~~liEaPTGtGKTla 51 (757)
+++++-+|||||||+.
T Consensus 152 knVLFyGppGTGKTm~ 167 (368)
T COG1223 152 KNVLFYGPPGTGKTMM 167 (368)
T ss_pred ceeEEECCCCccHHHH
Confidence 6899999999999974
No 431
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=65.91 E-value=4.1 Score=43.08 Aligned_cols=18 Identities=28% Similarity=0.320 Sum_probs=15.0
Q ss_pred CCcEEEEcCCCCcHHHHH
Q 004385 35 KGHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~ 52 (757)
++.++|-+|||+|||-..
T Consensus 4 ~~ii~I~GpTasGKS~LA 21 (300)
T PRK14729 4 NKIVFIFGPTAVGKSNIL 21 (300)
T ss_pred CcEEEEECCCccCHHHHH
Confidence 457899999999999743
No 432
>PRK10865 protein disaggregation chaperone; Provisional
Probab=65.75 E-value=6 Score=48.47 Aligned_cols=35 Identities=29% Similarity=0.279 Sum_probs=27.9
Q ss_pred CHHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHH
Q 004385 18 YPEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~-----------~~~liEaPTGtGKTla~ 52 (757)
..+|...+..|..++... +.+++.+|||||||...
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 35789999999999854
No 433
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=65.50 E-value=10 Score=36.48 Aligned_cols=34 Identities=24% Similarity=0.181 Sum_probs=22.1
Q ss_pred cEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 37 ~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
..++.+|+|+|||.....-+..+... +. +|++..
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~---g~-~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKK---GK-KVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHC---CC-cEEEEE
Confidence 46789999999998765544444332 34 665543
No 434
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=65.24 E-value=20 Score=38.95 Aligned_cols=33 Identities=24% Similarity=0.202 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHH----hCCcEEEEcCCCCcHHHH
Q 004385 19 PEQYSYMLELKRALD----AKGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~----~~~~~liEaPTGtGKTla 51 (757)
....+++..+..+.. .++.+++.+|+|+|||..
T Consensus 58 ~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStl 94 (361)
T smart00763 58 EAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSL 94 (361)
T ss_pred HHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHH
Confidence 344455544444443 136789999999999974
No 435
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=65.12 E-value=7.7 Score=43.47 Aligned_cols=17 Identities=41% Similarity=0.542 Sum_probs=14.5
Q ss_pred CcEEEEcCCCCcHHHHH
Q 004385 36 GHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~ 52 (757)
..+++.+|+|||||+..
T Consensus 218 ~gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLA 234 (438)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 57899999999999753
No 436
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=65.06 E-value=7.8 Score=41.88 Aligned_cols=38 Identities=21% Similarity=0.290 Sum_probs=32.0
Q ss_pred CCHHHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004385 17 IYPEQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~ 54 (757)
.||.|...-+.+..++..++ |+ ++.+|.|+||+..++.
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 48999999999999999874 55 4899999999986554
No 437
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=65.04 E-value=7.7 Score=42.16 Aligned_cols=35 Identities=34% Similarity=0.358 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHH
Q 004385 19 PEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L 53 (757)
-+|.+..+.+.+++.+++ | .++.+|+|+|||....
T Consensus 17 ig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~ 54 (355)
T TIGR02397 17 IGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIAR 54 (355)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 478888899999998874 3 5889999999997543
No 438
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=64.60 E-value=6.4 Score=40.27 Aligned_cols=31 Identities=26% Similarity=0.468 Sum_probs=22.7
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHc
Q 004385 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLS 62 (757)
Q Consensus 31 ~l~~~~~~liEaPTGtGKTla~L~~al~~~~~ 62 (757)
++...+.+++.+|||+|||-++ .+.+.|-.+
T Consensus 123 a~~kRGLviiVGaTGSGKSTtm-AaMi~yRN~ 153 (375)
T COG5008 123 ALAKRGLVIIVGATGSGKSTTM-AAMIGYRNK 153 (375)
T ss_pred hcccCceEEEECCCCCCchhhH-HHHhccccc
Confidence 4556688999999999999873 445666433
No 439
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=64.57 E-value=12 Score=41.25 Aligned_cols=42 Identities=19% Similarity=0.183 Sum_probs=25.9
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcC-CCCCcEEEEEccchh
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVH 78 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~-~~~~~kvi~~T~T~~ 78 (757)
.+.+++|.++|||||++..-. |.+.... .+++ -|-+-+...+
T Consensus 100 ~~~~vLi~GetGtGKel~A~~--iH~~s~r~~~~P-FI~~NCa~~~ 142 (403)
T COG1221 100 SGLPVLIIGETGTGKELFARL--IHALSARRAEAP-FIAFNCAAYS 142 (403)
T ss_pred CCCcEEEecCCCccHHHHHHH--HHHhhhcccCCC-EEEEEHHHhC
Confidence 467999999999999985443 2222222 2344 5555555544
No 440
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=64.53 E-value=8.2 Score=45.77 Aligned_cols=36 Identities=31% Similarity=0.391 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~~ 55 (757)
+|......+..++..++ |+ ++.+|.|+|||..+.+-
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 441
>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=64.49 E-value=8.8 Score=43.85 Aligned_cols=53 Identities=13% Similarity=0.199 Sum_probs=31.5
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
-.+...+|.+|+|||||.-.+--+..-+... +. +++|.|-- .-.+++++....
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 3456899999999999985554333323321 35 66666532 334556655444
No 442
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.32 E-value=8.4 Score=45.08 Aligned_cols=36 Identities=31% Similarity=0.317 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~~ 55 (757)
+|..+...+..++..++ |+ ++.+|.|+|||....+-
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 89999999999999884 55 89999999999876553
No 443
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=64.16 E-value=17 Score=46.95 Aligned_cols=63 Identities=13% Similarity=0.134 Sum_probs=41.8
Q ss_pred CCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHH--HHHHHHHHcCCCCCcEEEEEccchhhHHHH
Q 004385 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL--SLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L--~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~ 83 (757)
..++|++.+..+..+ .++..+|.++.|||||..+- +.++..... ..+. +|+.+++|+.....+
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 478999976665422 34789999999999998632 222211111 1234 899999999876655
No 444
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=64.14 E-value=7.8 Score=46.11 Aligned_cols=35 Identities=29% Similarity=0.248 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHHH
Q 004385 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALL 53 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~liEaPTGtGKTla~L 53 (757)
-+|.+....|.+++... +..++-+|||+|||-...
T Consensus 494 iGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAk 539 (786)
T COG0542 494 IGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAK 539 (786)
T ss_pred eChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHH
Confidence 37899999999998753 468889999999998543
No 445
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=63.98 E-value=8.5 Score=45.68 Aligned_cols=35 Identities=31% Similarity=0.300 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~ 54 (757)
+|..+...+..++..++ |+ |+.+|.|||||....+
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 446
>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=63.89 E-value=10 Score=38.77 Aligned_cols=39 Identities=21% Similarity=0.227 Sum_probs=25.8
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchh
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~ 78 (757)
-.++|-||+|+|||.-.+. .+...... -. .|++.|++.+
T Consensus 14 fr~viIG~sGSGKT~li~~-lL~~~~~~--f~-~I~l~t~~~n 52 (241)
T PF04665_consen 14 FRMVIIGKSGSGKTTLIKS-LLYYLRHK--FD-HIFLITPEYN 52 (241)
T ss_pred ceEEEECCCCCCHHHHHHH-HHHhhccc--CC-EEEEEecCCc
Confidence 4789999999999975443 34433322 14 7888888444
No 447
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=63.87 E-value=9.9 Score=41.61 Aligned_cols=36 Identities=22% Similarity=0.197 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHH
Q 004385 19 PEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L~ 54 (757)
.+|.+....+.+++.+++ | .++.+|.|+||+...+.
T Consensus 22 iGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~ 60 (365)
T PRK07471 22 FGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYR 60 (365)
T ss_pred cChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 389999999999999984 5 67899999999976443
No 448
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=63.84 E-value=9.5 Score=30.02 Aligned_cols=25 Identities=32% Similarity=0.375 Sum_probs=18.8
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHc
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLS 62 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~ 62 (757)
...+|-+|+|+|||- |+=|+.|+..
T Consensus 24 ~~tli~G~nGsGKST--llDAi~~~L~ 48 (62)
T PF13555_consen 24 DVTLITGPNGSGKST--LLDAIQTVLY 48 (62)
T ss_pred cEEEEECCCCCCHHH--HHHHHHHHHc
Confidence 478999999999996 4455655543
No 449
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=63.71 E-value=11 Score=43.10 Aligned_cols=22 Identities=41% Similarity=0.563 Sum_probs=17.4
Q ss_pred HHhCCcEEEEcCCCCcHHHHHH
Q 004385 32 LDAKGHCLLEMPTGTGKTIALL 53 (757)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L 53 (757)
+..++.+++-+|||+|||-..-
T Consensus 347 l~~G~vIaLVGPtGvGKTTtaa 368 (559)
T PRK12727 347 LERGGVIALVGPTGAGKTTTIA 368 (559)
T ss_pred ccCCCEEEEECCCCCCHHHHHH
Confidence 3456788889999999997653
No 450
>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=63.66 E-value=7.6 Score=42.08 Aligned_cols=26 Identities=31% Similarity=0.308 Sum_probs=20.5
Q ss_pred HHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004385 26 LELKRALDAKGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 26 ~~v~~~l~~~~~~liEaPTGtGKTla 51 (757)
.-+..++..++++++-+|||+|||-.
T Consensus 169 ~~L~~~v~~~~~ili~G~tGsGKTTl 194 (340)
T TIGR03819 169 RLLRAIVAARLAFLISGGTGSGKTTL 194 (340)
T ss_pred HHHHHHHhCCCeEEEECCCCCCHHHH
Confidence 33445567789999999999999863
No 451
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=63.59 E-value=1.7 Score=51.29 Aligned_cols=39 Identities=18% Similarity=0.099 Sum_probs=28.2
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhh
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l 79 (757)
..|+++-||||+|||.++.+|.|.- . +. .+||.=+.-..
T Consensus 175 ~~HvlviapTgSGKgvg~ViPnLL~---~--~~-S~VV~D~KGE~ 213 (636)
T PRK13880 175 PEHVLTYAPTRSGKGVGLVVPTLLS---W--GH-SSVITDLKGEL 213 (636)
T ss_pred CceEEEEecCCCCCceEEEccchhh---C--CC-CEEEEeCcHHH
Confidence 3699999999999999999998752 1 23 45555444433
No 452
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=63.31 E-value=13 Score=42.91 Aligned_cols=50 Identities=14% Similarity=0.126 Sum_probs=31.5
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
+...+|.+|+|+|||.-.+--+...+. .+. +++|.|-..+ .+|+.+.+..
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 457888999999999855443333222 256 7777765444 4566665543
No 453
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=63.24 E-value=10 Score=40.56 Aligned_cols=47 Identities=26% Similarity=0.222 Sum_probs=28.6
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHhh
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
+-+++-+|+|||||| |+=|++. +. . -.+|=..--.+.+..+.|=.++
T Consensus 186 KGVLLYGPPGTGKTL--LAkAVA~--~T---~-AtFIrvvgSElVqKYiGEGaRl 232 (406)
T COG1222 186 KGVLLYGPPGTGKTL--LAKAVAN--QT---D-ATFIRVVGSELVQKYIGEGARL 232 (406)
T ss_pred CceEeeCCCCCcHHH--HHHHHHh--cc---C-ceEEEeccHHHHHHHhccchHH
Confidence 568999999999997 3444432 22 2 2344444455666666664443
No 454
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=63.21 E-value=11 Score=40.16 Aligned_cols=52 Identities=25% Similarity=0.244 Sum_probs=34.2
Q ss_pred CHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccc
Q 004385 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T 76 (757)
.+.|..|+++|. +....+--+|-|||||.-.-..|.....+ +..+=|++||=
T Consensus 130 t~~Q~~y~eai~----~~di~fGiGpAGTGKTyLava~av~al~~---~~v~rIiLtRP 181 (348)
T COG1702 130 TPGQNMYPEAIE----EHDIVFGIGPAGTGKTYLAVAKAVDALGA---GQVRRIILTRP 181 (348)
T ss_pred ChhHHHHHHHHH----hcCeeeeecccccCChhhhHHhHhhhhhh---cccceeeecCc
Confidence 689999988776 44555667799999997655555544432 22344555554
No 455
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.17 E-value=8.5 Score=45.24 Aligned_cols=36 Identities=36% Similarity=0.339 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~liEaPTGtGKTla~L~~ 55 (757)
+|.+....+..++..++ ..++.+|.|+|||....+-
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 88888888888988874 4589999999999876543
No 456
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=63.16 E-value=7.6 Score=41.84 Aligned_cols=38 Identities=34% Similarity=0.412 Sum_probs=27.9
Q ss_pred CCCHHHHHHHHHHHHHHHhCCc-EEEEcCCCCcHHHHHHH
Q 004385 16 NIYPEQYSYMLELKRALDAKGH-CLLEMPTGTGKTIALLS 54 (757)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~-~liEaPTGtGKTla~L~ 54 (757)
+.||.|......+.+. .+-.| .++.+|.|+|||..+..
T Consensus 3 ~~yPWl~~~~~~~~~~-~r~~ha~Lf~G~~G~GK~~~A~~ 41 (328)
T PRK05707 3 EIYPWQQSLWQQLAGR-GRHPHAYLLHGPAGIGKRALAER 41 (328)
T ss_pred cCCCCcHHHHHHHHHC-CCcceeeeeECCCCCCHHHHHHH
Confidence 3589999988888765 22245 56899999999976543
No 457
>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=63.08 E-value=2.9 Score=48.86 Aligned_cols=48 Identities=15% Similarity=0.117 Sum_probs=32.2
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
..|+++-||||+|||.++.+|.+. .. +. .+|+.-+ +-+.-.+....++
T Consensus 211 ~~H~lv~ApTgsGKgvg~VIPnLL---~~--~g-S~VV~Dp-KgE~~~~Ta~~R~ 258 (623)
T TIGR02767 211 STHMIFFAGSGGFKTTSVVVPTAL---KY--GG-PLVCLDP-STEVAPMVCEHRR 258 (623)
T ss_pred CceEEEEeCCCCCccceeehhhhh---cC--CC-CEEEEEC-hHHHHHHHHHHHH
Confidence 369999999999999999999764 22 23 3544444 4444555544443
No 458
>PRK05748 replicative DNA helicase; Provisional
Probab=62.91 E-value=7.9 Score=43.76 Aligned_cols=41 Identities=12% Similarity=0.199 Sum_probs=27.5
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 31 ~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
.+..|...+|-|+||+|||.-.|--+...+... +. +|+|.|
T Consensus 199 G~~~G~livIaarpg~GKT~~al~ia~~~a~~~--g~-~v~~fS 239 (448)
T PRK05748 199 GLQPNDLIIVAARPSVGKTAFALNIAQNVATKT--DK-NVAIFS 239 (448)
T ss_pred CCCCCceEEEEeCCCCCchHHHHHHHHHHHHhC--CC-eEEEEe
Confidence 344456789999999999987765544444322 45 676664
No 459
>PRK08760 replicative DNA helicase; Provisional
Probab=62.87 E-value=8.4 Score=43.80 Aligned_cols=41 Identities=15% Similarity=0.179 Sum_probs=28.0
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 31 ~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
.+..|...+|-|+||+|||.-.|--|...+... +. +|+|.|
T Consensus 225 G~~~G~LivIaarPg~GKTafal~iA~~~a~~~--g~-~V~~fS 265 (476)
T PRK08760 225 GLQPTDLIILAARPAMGKTTFALNIAEYAAIKS--KK-GVAVFS 265 (476)
T ss_pred CCCCCceEEEEeCCCCChhHHHHHHHHHHHHhc--CC-ceEEEe
Confidence 344556789999999999998776655544332 34 565554
No 460
>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=62.74 E-value=20 Score=38.21 Aligned_cols=45 Identities=20% Similarity=0.285 Sum_probs=32.6
Q ss_pred CHHHHHHHHHHHHHHHhC--CcEEEEcCCCCcHHHHHHHHHHHHHHcC
Q 004385 18 YPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSK 63 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~--~~~liEaPTGtGKTla~L~~al~~~~~~ 63 (757)
|+.=.++++.+.++-..+ ...++-++.|+|||.++ +-+++|+..+
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 555566677776663333 47899999999999985 4567888754
No 461
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=62.71 E-value=9.4 Score=44.85 Aligned_cols=36 Identities=33% Similarity=0.327 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L~~ 55 (757)
+|......+..++.+++ | .++.+|.|+|||....+-
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 462
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=62.64 E-value=19 Score=36.81 Aligned_cols=24 Identities=25% Similarity=0.326 Sum_probs=18.0
Q ss_pred CCcEEEEEccchhhHHHHHHHHHhh
Q 004385 66 NPVKLIYCTRTVHEMEKTLAELKLL 90 (757)
Q Consensus 66 ~~~kvi~~T~T~~l~~Q~~~el~~l 90 (757)
+. .+++-++|..|.+.+++.|+..
T Consensus 188 gg-~~~~y~P~veQv~kt~~~l~~~ 211 (256)
T COG2519 188 GG-VVVVYSPTVEQVEKTVEALRER 211 (256)
T ss_pred Cc-EEEEEcCCHHHHHHHHHHHHhc
Confidence 44 7888888888888888777663
No 463
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=62.59 E-value=11 Score=47.97 Aligned_cols=51 Identities=24% Similarity=0.264 Sum_probs=36.2
Q ss_pred HHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcC--CCCCcEEEEEccchhhHHH
Q 004385 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEK 82 (757)
Q Consensus 31 ~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~--~~~~~kvi~~T~T~~l~~Q 82 (757)
+...++.++|||..|||||.++-.-.+...... -+.. +|++.|=|+.--.-
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 445567999999999999998655555554442 1334 89999999864433
No 464
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=62.52 E-value=11 Score=41.78 Aligned_cols=35 Identities=31% Similarity=0.462 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHhCC-----------c-EEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG-----------H-CLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~-----------~-~liEaPTGtGKTla~L~ 54 (757)
+|......+..++..+. | .++.+|.|+|||.....
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 78888888888888753 4 67899999999976543
No 465
>CHL00095 clpC Clp protease ATP binding subunit
Probab=62.46 E-value=8.2 Score=47.22 Aligned_cols=39 Identities=23% Similarity=0.260 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHHHHHHHHH
Q 004385 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSY 59 (757)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~liEaPTGtGKTla~L~~al~~ 59 (757)
.+|.+.+..|.+++... ...++.+|||+|||.. +-+|+.
T Consensus 512 ~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~l--A~~LA~ 561 (821)
T CHL00095 512 IGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTEL--TKALAS 561 (821)
T ss_pred cChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHH--HHHHHH
Confidence 58999999999998642 2468999999999964 434443
No 466
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=62.43 E-value=20 Score=38.52 Aligned_cols=50 Identities=22% Similarity=0.222 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHH-----------hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 21 QYSYMLELKRALD-----------AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 21 Q~~~~~~v~~~l~-----------~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
+..+.+.+.+.+. .+..+++-+|+|+|||-....-|..+. +.+. +|.+.+
T Consensus 89 ~~~l~~~l~~~l~~~~~~~~~~~~~~~vi~lvGpnGsGKTTt~~kLA~~l~---~~g~-~V~Li~ 149 (318)
T PRK10416 89 KELLKEELAEILEPVEKPLNIEEKKPFVILVVGVNGVGKTTTIGKLAHKYK---AQGK-KVLLAA 149 (318)
T ss_pred HHHHHHHHHHHhCcCCccccccCCCCeEEEEECCCCCcHHHHHHHHHHHHH---hcCC-eEEEEe
Confidence 4445555555553 234677889999999976544333222 2245 666554
No 467
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=62.21 E-value=12 Score=40.16 Aligned_cols=30 Identities=23% Similarity=0.216 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHhC----CcEEEEcCCCCcHHHH
Q 004385 22 YSYMLELKRALDAK----GHCLLEMPTGTGKTIA 51 (757)
Q Consensus 22 ~~~~~~v~~~l~~~----~~~liEaPTGtGKTla 51 (757)
++.+--|.+.+++| +-+++-+|+|||||.-
T Consensus 48 ReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAl 81 (450)
T COG1224 48 REAAGVIVKMIKQGKMAGRGILIVGPPGTGKTAL 81 (450)
T ss_pred HHhhhHHHHHHHhCcccccEEEEECCCCCcHHHH
Confidence 34566677777776 4678899999999963
No 468
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=62.19 E-value=16 Score=40.01 Aligned_cols=48 Identities=19% Similarity=0.214 Sum_probs=30.8
Q ss_pred HhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHH
Q 004385 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (757)
Q Consensus 33 ~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~ 85 (757)
..+...++-+|+|+|||.-.+--+...+. .+. +|+|.+...+ .+|+..
T Consensus 80 ~~GslvLI~G~pG~GKStLllq~a~~~a~---~g~-~VlYvs~EEs-~~qi~~ 127 (372)
T cd01121 80 VPGSVILIGGDPGIGKSTLLLQVAARLAK---RGG-KVLYVSGEES-PEQIKL 127 (372)
T ss_pred cCCeEEEEEeCCCCCHHHHHHHHHHHHHh---cCC-eEEEEECCcC-HHHHHH
Confidence 34567899999999999876654443332 245 8888765433 344443
No 469
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=62.14 E-value=9.5 Score=43.06 Aligned_cols=36 Identities=33% Similarity=0.284 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L~~ 55 (757)
+|......+..++..++ | .++.+|+|+|||....+-
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 470
>PRK09165 replicative DNA helicase; Provisional
Probab=62.03 E-value=8.8 Score=43.96 Aligned_cols=30 Identities=17% Similarity=0.107 Sum_probs=22.4
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHH
Q 004385 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVL 61 (757)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~al~~~~ 61 (757)
+..|...+|-|+||+|||.-.|--|...+.
T Consensus 214 ~~~g~livIaarpg~GKT~~al~ia~~~a~ 243 (497)
T PRK09165 214 LHPSDLIILAGRPSMGKTALATNIAFNAAK 243 (497)
T ss_pred CCCCceEEEEeCCCCChHHHHHHHHHHHHH
Confidence 344556899999999999877766655554
No 471
>PRK05595 replicative DNA helicase; Provisional
Probab=61.98 E-value=9.1 Score=43.21 Aligned_cols=46 Identities=13% Similarity=0.127 Sum_probs=30.2
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 27 ~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
++...+..|...+|-|+||.|||.-.+--+..++... +. +|+|.+-
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 3334455567789999999999987776554444332 45 6766643
No 472
>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=61.81 E-value=8.3 Score=37.81 Aligned_cols=45 Identities=13% Similarity=0.262 Sum_probs=35.9
Q ss_pred EEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHH
Q 004385 2 IFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (757)
Q Consensus 2 ~~~i~~~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla 51 (757)
..+++++...|+=.+ +...+.|--.+..|+.+++-+|+|+|||--
T Consensus 3 ~l~~~~~sl~y~g~~-----~~~le~vsL~ia~ge~vv~lGpSGcGKTTL 47 (259)
T COG4525 3 MLNVSHLSLSYEGKP-----RSALEDVSLTIASGELVVVLGPSGCGKTTL 47 (259)
T ss_pred eeehhheEEecCCcc-----hhhhhccceeecCCCEEEEEcCCCccHHHH
Confidence 356788888888765 456666777788899999999999999964
No 473
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=61.64 E-value=17 Score=41.21 Aligned_cols=39 Identities=31% Similarity=0.338 Sum_probs=24.6
Q ss_pred hCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 34 ~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
.++..++-+|||+|||-....-+-.+....+ +. +|.+.+
T Consensus 255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G-~~-kV~LI~ 293 (484)
T PRK06995 255 RGGVFALMGPTGVGKTTTTAKLAARCVMRHG-AS-KVALLT 293 (484)
T ss_pred CCcEEEEECCCCccHHHHHHHHHHHHHHhcC-CC-eEEEEe
Confidence 3567889999999999876655444433321 23 565444
No 474
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=61.58 E-value=10 Score=43.57 Aligned_cols=54 Identities=19% Similarity=0.199 Sum_probs=33.2
Q ss_pred HHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHHHHh
Q 004385 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (757)
Q Consensus 32 l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~el~~ 89 (757)
+-.|...+|.+|+|+|||.-.+--+...+... +. +++|.|=..+ -+|+++.+..
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 44567889999999999986554444444321 45 6666644433 3466665444
No 475
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=61.49 E-value=23 Score=40.74 Aligned_cols=53 Identities=13% Similarity=0.165 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchh
Q 004385 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (757)
Q Consensus 23 ~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~ 78 (757)
++.+.+..+-..+.+++|.+++|||||.. +-++........++ =|.|-+...+
T Consensus 198 ~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~--A~~ih~~s~r~~~p-~v~v~c~~~~ 250 (509)
T PRK05022 198 QLKKEIEVVAASDLNVLILGETGVGKELV--ARAIHAASPRADKP-LVYLNCAALP 250 (509)
T ss_pred HHHHHHHHHhCCCCcEEEECCCCccHHHH--HHHHHHhCCcCCCC-eEEEEcccCC
Confidence 34444444445568999999999999974 33444332222233 3444444443
No 476
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=61.45 E-value=31 Score=38.72 Aligned_cols=38 Identities=24% Similarity=0.178 Sum_probs=23.4
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEE-EEccch
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLI-YCTRTV 77 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi-~~T~T~ 77 (757)
..+++-+|+|+|||....--|..+.. . +. +|. +++.|.
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~~L~~-~--g~-kV~lV~~D~~ 134 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLARYFKK-K--GL-KVGLVAADTY 134 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHH-c--CC-eEEEecCCCC
Confidence 35788999999999876554443332 2 33 444 555443
No 477
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.37 E-value=10 Score=43.19 Aligned_cols=35 Identities=31% Similarity=0.330 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhCC--cE-EEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-liEaPTGtGKTla~L~ 54 (757)
+|...+..+..++..+. |+ ++.+|.|+|||....+
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 478
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=61.14 E-value=8.5 Score=42.59 Aligned_cols=21 Identities=38% Similarity=0.466 Sum_probs=16.1
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHH
Q 004385 36 GHCLLEMPTGTGKTIALLSLITS 58 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~ 58 (757)
+.+++.+|+|||||+. +-+++
T Consensus 166 ~gvLL~GppGtGKT~l--Akaia 186 (389)
T PRK03992 166 KGVLLYGPPGTGKTLL--AKAVA 186 (389)
T ss_pred CceEEECCCCCChHHH--HHHHH
Confidence 4689999999999974 33444
No 479
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.10 E-value=11 Score=41.36 Aligned_cols=35 Identities=26% Similarity=0.219 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHhCC---cEEEEcCCCCcHHHHHHH
Q 004385 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~liEaPTGtGKTla~L~ 54 (757)
+|......+...+..+. +.++.+|+|+|||.....
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~ 58 (367)
T PRK14970 21 GQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARI 58 (367)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 88888999999998874 688999999999975543
No 480
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=61.01 E-value=19 Score=37.68 Aligned_cols=35 Identities=17% Similarity=0.235 Sum_probs=22.2
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEc
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T 74 (757)
+.+++-+|+|+|||-...--|..++. .+. +|.+.+
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~---~g~-~V~li~ 107 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKK---QGK-SVLLAA 107 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHh---cCC-EEEEEe
Confidence 35666799999999876555544432 245 665544
No 481
>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=60.80 E-value=17 Score=36.63 Aligned_cols=33 Identities=30% Similarity=0.314 Sum_probs=22.6
Q ss_pred CHHHHHHHHHHHHHHH---h-C---CcEEEEcCCCCcHHH
Q 004385 18 YPEQYSYMLELKRALD---A-K---GHCLLEMPTGTGKTI 50 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~---~-~---~~~liEaPTGtGKTl 50 (757)
+-+|..+.....-.++ . + .|+++-+|+|+|||-
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 5689888877543332 2 2 489999999999995
No 482
>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]
Probab=60.71 E-value=3.9 Score=43.21 Aligned_cols=26 Identities=27% Similarity=0.360 Sum_probs=20.8
Q ss_pred HHHHHHHHHhCCcEEEEcCCCCcHHH
Q 004385 25 MLELKRALDAKGHCLLEMPTGTGKTI 50 (757)
Q Consensus 25 ~~~v~~~l~~~~~~liEaPTGtGKTl 50 (757)
.+++.+....|+.-++.+|||+|||-
T Consensus 263 LNk~LkGhR~GElTvlTGpTGsGKTT 288 (514)
T KOG2373|consen 263 LNKYLKGHRPGELTVLTGPTGSGKTT 288 (514)
T ss_pred HHHHhccCCCCceEEEecCCCCCcee
Confidence 45556666677889999999999995
No 483
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=60.67 E-value=6.1 Score=46.68 Aligned_cols=18 Identities=44% Similarity=0.510 Sum_probs=15.0
Q ss_pred CcEEEEcCCCCcHHHHHH
Q 004385 36 GHCLLEMPTGTGKTIALL 53 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L 53 (757)
+-+++.+|+||||||.+-
T Consensus 345 kGvLL~GPPGTGKTLLAK 362 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTLLAK 362 (774)
T ss_pred CceEEECCCCCcHHHHHH
Confidence 458999999999998544
No 484
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=60.54 E-value=14 Score=39.66 Aligned_cols=37 Identities=27% Similarity=0.221 Sum_probs=31.5
Q ss_pred CCHHHHHHHHHHHHHHHhCC--c-EEEEcCCCCcHHHHHH
Q 004385 17 IYPEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~--~-~liEaPTGtGKTla~L 53 (757)
+||.|...-..+.+++.+++ | .++.+|.|+||+..+.
T Consensus 4 ~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~ 43 (319)
T PRK06090 4 DYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVE 43 (319)
T ss_pred CcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHH
Confidence 58999999999999998885 4 6789999999996544
No 485
>PHA00547 hypothetical protein
Probab=60.54 E-value=18 Score=36.95 Aligned_cols=34 Identities=24% Similarity=0.174 Sum_probs=26.3
Q ss_pred HHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHH
Q 004385 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV 60 (757)
Q Consensus 27 ~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~ 60 (757)
+..+.+...-.-++++|-|+|||+.+-.-|..|.
T Consensus 67 k~VK~ik~spis~i~G~LGsGKTlLMT~LA~~~K 100 (337)
T PHA00547 67 RLVNFIWDNPLSVIIGKLGTGKTLLLTYLSQTMK 100 (337)
T ss_pred HHHHHHhcCCceEEeccCCCchhHHHHHHHHHHH
Confidence 4556777788999999999999997655555554
No 486
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=60.32 E-value=14 Score=41.05 Aligned_cols=37 Identities=27% Similarity=0.393 Sum_probs=23.1
Q ss_pred CcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEcc
Q 004385 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (757)
Q Consensus 36 ~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~ 75 (757)
..+++-+|||+|||-...--|..+... .+. +|.+.|-
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 457788999999998654433333222 245 6766653
No 487
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=60.29 E-value=20 Score=40.99 Aligned_cols=16 Identities=44% Similarity=0.571 Sum_probs=14.2
Q ss_pred CcEEEEcCCCCcHHHH
Q 004385 36 GHCLLEMPTGTGKTIA 51 (757)
Q Consensus 36 ~~~liEaPTGtGKTla 51 (757)
+.+++.+|+|||||+.
T Consensus 217 ~GILLyGPPGTGKT~L 232 (512)
T TIGR03689 217 KGVLLYGPPGCGKTLI 232 (512)
T ss_pred cceEEECCCCCcHHHH
Confidence 5699999999999984
No 488
>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=60.06 E-value=6.7 Score=45.75 Aligned_cols=60 Identities=18% Similarity=0.268 Sum_probs=41.7
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEE
Q 004385 8 VTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (757)
Q Consensus 8 ~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~ 73 (757)
-.|.|-|+. ||... .++.+-=++..|++..+.+|.|.|||-.. .|.-..+.|... +|.+=
T Consensus 469 ~~VsFaYP~-Rp~~~-Vlk~lsfti~pGe~vALVGPSGsGKSTia---sLL~rfY~PtsG-~IllD 528 (716)
T KOG0058|consen 469 EDVSFAYPT-RPDVP-VLKNLSFTIRPGEVVALVGPSGSGKSTIA---SLLLRFYDPTSG-RILLD 528 (716)
T ss_pred EEeeeecCC-CCCch-hhcCceeeeCCCCEEEEECCCCCCHHHHH---HHHHHhcCCCCC-eEEEC
Confidence 357788876 77643 45566667788999999999999999642 233344666666 66653
No 489
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=60.06 E-value=11 Score=45.90 Aligned_cols=38 Identities=34% Similarity=0.357 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhC--Cc-EEEEcCCCCcHHHHHHHHHH
Q 004385 20 EQYSYMLELKRALDAK--GH-CLLEMPTGTGKTIALLSLIT 57 (757)
Q Consensus 20 ~Q~~~~~~v~~~l~~~--~~-~liEaPTGtGKTla~L~~al 57 (757)
+|......+..++..+ .| .|+.+|.|+|||...++-+-
T Consensus 19 Gqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr 59 (824)
T PRK07764 19 GQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILAR 59 (824)
T ss_pred CcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHH
Confidence 7888888899999887 36 58999999999988776543
No 490
>PRK04195 replication factor C large subunit; Provisional
Probab=59.93 E-value=15 Score=41.99 Aligned_cols=18 Identities=44% Similarity=0.445 Sum_probs=15.3
Q ss_pred CCcEEEEcCCCCcHHHHH
Q 004385 35 KGHCLLEMPTGTGKTIAL 52 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~ 52 (757)
..++++-+|+|||||...
T Consensus 39 ~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLA 56 (482)
T ss_pred CCeEEEECCCCCCHHHHH
Confidence 368999999999999754
No 491
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=59.84 E-value=24 Score=41.83 Aligned_cols=52 Identities=13% Similarity=0.072 Sum_probs=30.2
Q ss_pred HHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchh
Q 004385 24 YMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (757)
Q Consensus 24 ~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~ 78 (757)
+...+..+...+.+++|.++|||||++. +-++........++ =|.+-+...+
T Consensus 337 ~~~~~~~~a~~~~pvli~Ge~GtGK~~~--A~~ih~~s~r~~~p-fv~vnc~~~~ 388 (638)
T PRK11388 337 LIHFGRQAAKSSFPVLLCGEEGVGKALL--AQAIHNESERAAGP-YIAVNCQLYP 388 (638)
T ss_pred HHHHHHHHhCcCCCEEEECCCCcCHHHH--HHHHHHhCCccCCC-eEEEECCCCC
Confidence 4444455555678999999999999974 33333222222234 4555555544
No 492
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=59.54 E-value=1.9 Score=43.35 Aligned_cols=44 Identities=14% Similarity=0.368 Sum_probs=36.8
Q ss_pred CEEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEcCCCCcHHH
Q 004385 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (757)
Q Consensus 1 m~~~i~~~~v~FPy~~~r~~Q~~~~~~v~~~l~~~~~~liEaPTGtGKTl 50 (757)
|.+.+.++...|| .+...+.+|--.+..|+++.|-+|.|.|||-
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 5678888888777 4456777888888899999999999999996
No 493
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=59.48 E-value=7.2 Score=42.13 Aligned_cols=29 Identities=14% Similarity=0.281 Sum_probs=20.3
Q ss_pred EEEcCCcChhHHHHhhccccccHHHHHHHHH
Q 004385 231 VVFDEAHNIDNVCIEALSVSVRRQTLEGATR 261 (757)
Q Consensus 231 lI~DEAHnl~~~~~~~~s~~is~~~l~~~~~ 261 (757)
+..|+--|+++.++..-+ .|..+|..+-+
T Consensus 398 ~~~~~~~~~~~lae~~eG--ySGaDI~nvCr 426 (491)
T KOG0738|consen 398 VELDDPVNLEDLAERSEG--YSGADITNVCR 426 (491)
T ss_pred ccCCCCccHHHHHHHhcC--CChHHHHHHHH
Confidence 678888899999887544 45666655544
No 494
>PRK06620 hypothetical protein; Validated
Probab=59.47 E-value=10 Score=38.17 Aligned_cols=16 Identities=31% Similarity=0.395 Sum_probs=13.7
Q ss_pred CcEEEEcCCCCcHHHH
Q 004385 36 GHCLLEMPTGTGKTIA 51 (757)
Q Consensus 36 ~~~liEaPTGtGKTla 51 (757)
..+++.+|+|+|||--
T Consensus 45 ~~l~l~Gp~G~GKThL 60 (214)
T PRK06620 45 FTLLIKGPSSSGKTYL 60 (214)
T ss_pred ceEEEECCCCCCHHHH
Confidence 3489999999999974
No 495
>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=59.39 E-value=7.6 Score=42.95 Aligned_cols=35 Identities=31% Similarity=0.420 Sum_probs=25.0
Q ss_pred CCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEE
Q 004385 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (757)
Q Consensus 35 ~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~ 73 (757)
+.|++|-+.||||||.++=+-|=.+.. ..++|+.+
T Consensus 19 NRHGLIaGATGTGKTvTLqvlAE~fS~----~GVPVfla 53 (502)
T PF05872_consen 19 NRHGLIAGATGTGKTVTLQVLAEQFSD----AGVPVFLA 53 (502)
T ss_pred cccceeeccCCCCceehHHHHHHHhhh----cCCcEEEe
Confidence 589999999999999987665444332 23367665
No 496
>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=58.79 E-value=5.5 Score=35.54 Aligned_cols=13 Identities=31% Similarity=0.710 Sum_probs=11.9
Q ss_pred EEEEcCCCCcHHH
Q 004385 38 CLLEMPTGTGKTI 50 (757)
Q Consensus 38 ~liEaPTGtGKTl 50 (757)
++|.+|+|+|||-
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 6889999999996
No 497
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=58.32 E-value=16 Score=44.03 Aligned_cols=73 Identities=21% Similarity=0.352 Sum_probs=47.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhC---CcEEEEcCCCCcHHHHH--HHHHHHHHHcCCCCCcEEEEEccchhhHHHHHHH
Q 004385 12 FPYDNIYPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIAL--LSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (757)
Q Consensus 12 FPy~~~r~~Q~~~~~~v~~~l~~~---~~~liEaPTGtGKTla~--L~~al~~~~~~~~~~~kvi~~T~T~~l~~Q~~~e 86 (757)
+||. |..-|...--.-.+++..| +...+.+|+|||||-.. ++. ..|. ..+ .. +.+|+|...+-+.|+.+-
T Consensus 728 y~y~-p~~n~v~ft~~qveai~sg~qpgltmvvgppgtgktd~avqil~-~lyh-n~p-~q-rTlivthsnqaln~lfeK 802 (1320)
T KOG1806|consen 728 YPYN-PKKNQVKFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAVQILS-VLYH-NSP-NQ-RTLIVTHSNQALNQLFEK 802 (1320)
T ss_pred CCcC-cccchhccCHHHHHHHHhcCCCCceeeecCCCCCCcchhhhhhh-hhhh-cCC-Cc-ceEEEEecccchhHHHHH
Confidence 5565 3556666555555555555 67788899999999743 222 2232 223 45 899999999888888774
Q ss_pred HHh
Q 004385 87 LKL 89 (757)
Q Consensus 87 l~~ 89 (757)
+-+
T Consensus 803 i~~ 805 (1320)
T KOG1806|consen 803 IMA 805 (1320)
T ss_pred HHh
Confidence 433
No 498
>CHL00176 ftsH cell division protein; Validated
Probab=58.29 E-value=10 Score=44.70 Aligned_cols=39 Identities=28% Similarity=0.263 Sum_probs=26.5
Q ss_pred CHHHHHHHHHHHHHHHhC-----------CcEEEEcCCCCcHHHHHHHHHHH
Q 004385 18 YPEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITS 58 (757)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~-----------~~~liEaPTGtGKTla~L~~al~ 58 (757)
...+.+-+.++...+.+. +.+++.+|+|||||+. +-+++
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 355556666666666543 3589999999999974 44554
No 499
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=58.18 E-value=27 Score=45.84 Aligned_cols=62 Identities=16% Similarity=0.172 Sum_probs=41.6
Q ss_pred CCHHHHHHHHHHHHHHHh-CCcEEEEcCCCCcHHHHHHHHHHHHHHcC--CCCCcEEEEEccchhhHHHH
Q 004385 17 IYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKT 83 (757)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~-~~~~liEaPTGtGKTla~L~~al~~~~~~--~~~~~kvi~~T~T~~l~~Q~ 83 (757)
..++|++.+..+. .. ++..+|.++.|||||..+= +++...... ..+. +|+.+.+|+.-...+
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 4789999765554 43 4799999999999997642 333322211 1234 899999999876554
No 500
>PRK10646 ADP-binding protein; Provisional
Probab=58.18 E-value=9.4 Score=36.09 Aligned_cols=52 Identities=19% Similarity=0.004 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHhCCcEEEEcCCCCcHHHHHHHHHHHHHHcCCCCCcEEEEEccchhhH
Q 004385 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (757)
Q Consensus 22 ~~~~~~v~~~l~~~~~~liEaPTGtGKTla~L~~al~~~~~~~~~~~kvi~~T~T~~l~ 80 (757)
.+++..+.+.+..+..++++++-|+|||- |+=+++-+. . . +-.|.+||-+++
T Consensus 15 ~~l~~~la~~l~~g~vi~L~GdLGaGKTt--f~rgl~~~L--g--~-~~~V~SPTFtlv 66 (153)
T PRK10646 15 LDLGARVAKACDGATVIYLYGDLGAGKTT--FSRGFLQAL--G--H-QGNVKSPTYTLV 66 (153)
T ss_pred HHHHHHHHHhCCCCcEEEEECCCCCCHHH--HHHHHHHHc--C--C-CCCCCCCCEeeE
Confidence 46677788888888899999999999996 444443322 2 2 334788988865
Done!