Query 004379
Match_columns 758
No_of_seqs 219 out of 1660
Neff 8.6
Searched_HMMs 46136
Date Thu Mar 28 22:26:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004379.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004379hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1132 Helicase of the DEAD s 100.0 2E-112 5E-117 937.2 54.5 710 1-728 5-761 (945)
2 TIGR00604 rad3 DNA repair heli 100.0 3E-104 6E-109 930.0 59.4 640 8-716 1-702 (705)
3 KOG1133 Helicase of the DEAD s 100.0 3E-102 6E-107 834.4 55.2 676 1-727 1-818 (821)
4 KOG1131 RNA polymerase II tran 100.0 5.3E-83 1.1E-87 663.6 45.6 655 2-729 1-725 (755)
5 PRK11747 dinG ATP-dependent DN 100.0 8.1E-83 1.7E-87 741.6 52.0 604 12-706 20-692 (697)
6 PRK08074 bifunctional ATP-depe 100.0 1.2E-81 2.6E-86 753.6 51.4 619 15-723 256-928 (928)
7 TIGR01407 dinG_rel DnaQ family 100.0 3.7E-78 8.1E-83 721.6 48.8 582 13-723 242-850 (850)
8 PRK07246 bifunctional ATP-depe 100.0 1.7E-73 3.7E-78 671.2 51.0 559 14-724 243-820 (820)
9 COG1199 DinG Rad3-related DNA 100.0 6.4E-73 1.4E-77 665.3 46.7 603 9-716 7-645 (654)
10 TIGR03117 cas_csf4 CRISPR-asso 100.0 4.2E-71 9.1E-76 622.1 49.4 573 20-704 1-631 (636)
11 smart00488 DEXDc2 DEAD-like he 100.0 3.3E-46 7.1E-51 391.4 22.0 261 10-275 2-277 (289)
12 smart00489 DEXDc3 DEAD-like he 100.0 3.3E-46 7.1E-51 391.4 22.0 261 10-275 2-277 (289)
13 PF13307 Helicase_C_2: Helicas 100.0 1.8E-41 3.9E-46 327.6 10.6 167 508-705 1-167 (167)
14 smart00491 HELICc2 helicase su 100.0 2.2E-34 4.7E-39 268.3 14.6 141 526-691 1-142 (142)
15 smart00492 HELICc3 helicase su 100.0 1.4E-32 3.1E-37 255.5 14.3 139 526-690 1-140 (141)
16 PF06733 DEAD_2: DEAD_2; Inte 100.0 2.8E-31 6E-36 259.2 2.2 165 99-263 1-174 (174)
17 PRK11192 ATP-dependent RNA hel 99.7 9.2E-14 2E-18 156.1 30.9 88 507-617 235-324 (434)
18 PTZ00110 helicase; Provisional 99.6 2E-13 4.2E-18 156.6 29.1 118 503-687 365-483 (545)
19 TIGR00614 recQ_fam ATP-depende 99.6 2.1E-13 4.5E-18 154.3 28.2 109 514-687 223-332 (470)
20 PRK11776 ATP-dependent RNA hel 99.6 3E-13 6.6E-18 153.0 29.2 80 515-617 241-321 (460)
21 PRK04537 ATP-dependent RNA hel 99.6 4.3E-13 9.3E-18 154.3 29.7 86 509-617 249-336 (572)
22 PRK10590 ATP-dependent RNA hel 99.6 7.3E-13 1.6E-17 149.4 30.6 78 13-116 19-97 (456)
23 PRK01297 ATP-dependent RNA hel 99.6 4.6E-13 1E-17 152.0 28.1 106 516-687 335-441 (475)
24 PLN00206 DEAD-box ATP-dependen 99.6 1.4E-12 3.1E-17 148.9 30.5 79 13-116 139-218 (518)
25 PRK04837 ATP-dependent RNA hel 99.6 1.5E-12 3.3E-17 145.7 29.4 80 515-617 254-334 (423)
26 TIGR01389 recQ ATP-dependent D 99.6 1.4E-12 3E-17 152.0 28.7 80 516-617 224-303 (591)
27 PRK11057 ATP-dependent DNA hel 99.5 1.9E-12 4.1E-17 150.6 28.6 107 515-687 235-342 (607)
28 PRK11634 ATP-dependent RNA hel 99.5 2.2E-12 4.7E-17 149.5 28.9 72 13-116 24-96 (629)
29 PTZ00424 helicase 45; Provisio 99.5 2.6E-12 5.7E-17 143.0 28.3 79 516-617 267-346 (401)
30 TIGR03817 DECH_helic helicase/ 99.5 5.1E-12 1.1E-16 149.3 30.3 72 13-117 32-104 (742)
31 PRK13767 ATP-dependent helicas 99.5 2.8E-12 6.2E-17 154.4 27.6 125 502-687 271-398 (876)
32 PRK01172 ski2-like helicase; P 99.4 1.7E-11 3.7E-16 145.0 25.0 69 13-116 19-87 (674)
33 TIGR00580 mfd transcription-re 99.4 7.4E-11 1.6E-15 141.0 30.3 76 10-116 445-522 (926)
34 PRK10917 ATP-dependent DNA hel 99.4 7.4E-11 1.6E-15 138.8 28.9 78 9-117 254-333 (681)
35 PLN03137 ATP-dependent DNA hel 99.4 1.3E-10 2.7E-15 137.5 29.4 79 516-617 680-759 (1195)
36 PRK02362 ski2-like helicase; P 99.4 6.6E-11 1.4E-15 141.1 26.9 69 14-116 20-89 (737)
37 PRK00254 ski2-like helicase; P 99.3 5.5E-10 1.2E-14 133.0 27.2 70 13-115 19-89 (720)
38 PRK09401 reverse gyrase; Revie 99.3 4.2E-10 9.1E-15 137.8 26.4 70 13-117 77-146 (1176)
39 PHA02558 uvsW UvsW helicase; P 99.3 4.5E-10 9.9E-15 127.9 24.4 118 504-687 333-451 (501)
40 TIGR01587 cas3_core CRISPR-ass 99.2 1.4E-09 3.1E-14 119.1 24.8 51 38-117 2-52 (358)
41 TIGR02621 cas3_GSU0051 CRISPR- 99.2 2.1E-09 4.5E-14 125.4 26.9 72 14-117 13-85 (844)
42 PRK10689 transcription-repair 99.2 7.7E-09 1.7E-13 126.6 29.5 76 10-116 594-671 (1147)
43 PHA02653 RNA helicase NPH-II; 99.2 7E-09 1.5E-13 120.1 27.1 77 14-115 155-243 (675)
44 PF04851 ResIII: Type III rest 99.1 1.3E-10 2.8E-15 114.2 9.0 68 15-116 2-72 (184)
45 PRK14701 reverse gyrase; Provi 99.1 9E-09 2E-13 129.1 27.2 70 13-117 76-145 (1638)
46 PRK09751 putative ATP-dependen 99.1 1.1E-08 2.3E-13 126.3 25.6 92 516-617 244-356 (1490)
47 PF00270 DEAD: DEAD/DEAH box h 99.1 4.4E-10 9.5E-15 109.0 10.7 65 19-116 2-66 (169)
48 TIGR01054 rgy reverse gyrase. 99.1 4.1E-08 8.9E-13 120.8 29.2 87 509-618 319-410 (1171)
49 cd00268 DEADc DEAD-box helicas 99.1 7E-10 1.5E-14 111.2 11.3 74 13-116 17-91 (203)
50 TIGR01970 DEAH_box_HrpB ATP-de 99.1 1.9E-08 4.2E-13 119.3 24.0 169 501-722 194-364 (819)
51 TIGR03714 secA2 accessory Sec 99.0 3.6E-07 7.8E-12 105.9 31.7 138 426-603 351-489 (762)
52 PRK11664 ATP-dependent RNA hel 99.0 2.6E-08 5.6E-13 118.5 21.5 167 502-722 198-367 (812)
53 KOG0345 ATP-dependent RNA heli 99.0 1.7E-07 3.8E-12 99.4 24.6 87 511-623 250-338 (567)
54 TIGR00963 secA preprotein tran 98.9 3.9E-07 8.5E-12 105.0 27.9 150 427-616 333-488 (745)
55 PRK12898 secA preprotein trans 98.9 3.9E-07 8.5E-12 104.3 27.5 151 426-616 400-557 (656)
56 PRK09200 preprotein translocas 98.9 6.7E-07 1.5E-11 104.6 29.8 152 425-616 354-512 (790)
57 smart00487 DEXDc DEAD-like hel 98.8 9.1E-09 2E-13 101.8 8.3 72 13-116 5-76 (201)
58 TIGR00643 recG ATP-dependent D 98.8 2.8E-08 6E-13 116.4 12.5 76 11-117 230-307 (630)
59 KOG0331 ATP-dependent RNA heli 98.6 2.7E-06 5.8E-11 94.0 21.2 94 501-616 326-419 (519)
60 PRK09694 helicase Cas3; Provis 98.6 1.1E-07 2.3E-12 113.2 9.9 70 14-116 284-353 (878)
61 cd00046 DEXDc DEAD-like helica 98.5 5.2E-07 1.1E-11 83.6 9.2 51 36-115 1-51 (144)
62 COG1202 Superfamily II helicas 98.5 2.4E-05 5.2E-10 85.4 22.3 174 437-686 374-550 (830)
63 PRK13104 secA preprotein trans 98.4 3.8E-05 8.1E-10 90.2 21.9 137 426-603 371-509 (896)
64 KOG0335 ATP-dependent RNA heli 98.3 1.2E-06 2.6E-11 95.1 8.9 70 32-119 108-177 (482)
65 cd00079 HELICc Helicase superf 98.3 3.6E-06 7.9E-11 77.4 10.7 116 501-684 14-130 (131)
66 COG1204 Superfamily II helicas 98.3 1.1E-06 2.5E-11 103.4 8.4 67 16-115 31-97 (766)
67 PRK12904 preprotein translocas 98.3 9.7E-05 2.1E-09 86.7 23.5 139 427-605 358-497 (830)
68 PRK13766 Hef nuclease; Provisi 98.3 2.8E-06 6.1E-11 102.7 11.5 92 502-616 350-451 (773)
69 TIGR00348 hsdR type I site-spe 98.3 3.8E-06 8.2E-11 98.9 12.1 72 17-117 239-316 (667)
70 KOG0350 DEAD-box ATP-dependent 98.3 1.5E-06 3.3E-11 93.0 7.7 146 17-250 160-311 (620)
71 COG1110 Reverse gyrase [DNA re 98.3 0.00018 3.9E-09 83.9 24.5 133 434-616 275-416 (1187)
72 KOG0354 DEAD-box like helicase 98.2 7.1E-06 1.5E-10 93.7 11.2 67 15-115 61-127 (746)
73 COG1205 Distinct helicase fami 98.1 6E-06 1.3E-10 98.7 9.3 44 16-63 70-113 (851)
74 PRK12906 secA preprotein trans 98.0 0.0074 1.6E-07 71.0 31.3 151 426-616 367-524 (796)
75 COG1111 MPH1 ERCC4-like helica 98.0 2.3E-05 4.9E-10 84.9 9.8 91 502-613 351-450 (542)
76 COG0556 UvrB Helicase subunit 97.9 0.0017 3.6E-08 71.1 21.0 187 427-707 379-566 (663)
77 KOG0346 RNA helicase [RNA proc 97.8 7.6E-05 1.6E-09 79.1 8.5 62 33-116 54-115 (569)
78 COG0513 SrmB Superfamily II DN 97.7 8E-05 1.7E-09 85.1 8.5 88 507-617 263-352 (513)
79 KOG0348 ATP-dependent RNA heli 97.7 9.4E-05 2E-09 80.2 7.3 76 17-118 160-235 (708)
80 PRK11448 hsdR type I restricti 97.6 0.00016 3.5E-09 89.0 9.2 129 499-687 680-814 (1123)
81 COG4889 Predicted helicase [Ge 97.6 0.00063 1.4E-08 77.8 12.1 76 7-115 152-227 (1518)
82 COG1201 Lhr Lhr-like helicases 97.5 0.00032 6.8E-09 82.4 9.0 72 16-114 22-93 (814)
83 KOG0342 ATP-dependent RNA heli 97.4 0.00015 3.3E-09 78.1 4.7 61 33-117 117-177 (543)
84 PRK05580 primosome assembly pr 97.4 0.00039 8.5E-09 82.1 8.6 72 13-116 141-212 (679)
85 PF13245 AAA_19: Part of AAA d 97.3 0.00096 2.1E-08 55.1 7.5 61 27-114 2-62 (76)
86 PRK12899 secA preprotein trans 97.3 0.00042 9.2E-09 81.6 6.9 139 426-604 495-634 (970)
87 KOG0344 ATP-dependent RNA heli 97.2 0.00057 1.2E-08 75.5 7.0 75 17-118 159-233 (593)
88 TIGR01967 DEAH_box_HrpA ATP-de 97.2 0.0033 7.1E-08 77.8 13.7 170 499-721 262-431 (1283)
89 PRK04914 ATP-dependent helicas 97.2 0.0017 3.7E-08 78.5 10.9 82 516-617 493-575 (956)
90 KOG1803 DNA helicase [Replicat 97.2 0.0012 2.6E-08 73.4 8.3 71 11-115 180-250 (649)
91 PF00176 SNF2_N: SNF2 family N 97.1 0.0021 4.6E-08 68.2 10.1 71 20-117 1-80 (299)
92 TIGR03158 cas3_cyano CRISPR-as 97.1 0.00094 2E-08 73.0 7.1 83 499-605 254-337 (357)
93 COG4581 Superfamily II RNA hel 97.0 0.0012 2.7E-08 78.8 7.7 71 11-116 114-184 (1041)
94 COG1200 RecG RecG-like helicas 97.0 0.0035 7.7E-08 71.2 10.7 86 12-128 258-347 (677)
95 KOG0330 ATP-dependent RNA heli 97.0 0.0017 3.7E-08 68.2 7.5 70 17-118 84-153 (476)
96 COG1061 SSL2 DNA or RNA helica 97.0 0.0016 3.6E-08 73.1 7.4 71 11-115 31-101 (442)
97 KOG1802 RNA helicase nonsense 96.9 0.0062 1.3E-07 68.2 11.2 68 19-120 413-480 (935)
98 PLN03142 Probable chromatin-re 96.9 0.0032 6.8E-08 76.6 9.9 73 16-117 169-241 (1033)
99 TIGR00603 rad25 DNA repair hel 96.9 0.0017 3.8E-08 75.8 7.4 78 514-618 494-572 (732)
100 PRK11448 hsdR type I restricti 96.9 0.012 2.6E-07 72.9 14.5 78 10-116 407-485 (1123)
101 PRK11131 ATP-dependent RNA hel 96.9 0.01 2.2E-07 73.4 13.5 168 498-720 268-437 (1294)
102 PF00271 Helicase_C: Helicase 96.8 0.0021 4.5E-08 53.3 5.3 42 566-617 21-62 (78)
103 PF13086 AAA_11: AAA domain; P 96.7 0.0031 6.6E-08 64.1 6.9 71 19-116 4-75 (236)
104 PF02562 PhoH: PhoH-like prote 96.6 0.0042 9.1E-08 61.6 6.2 42 17-62 4-46 (205)
105 TIGR03158 cas3_cyano CRISPR-as 96.5 0.042 9.2E-07 60.0 14.2 55 28-116 5-61 (357)
106 COG1203 CRISPR-associated heli 96.5 0.0054 1.2E-07 73.3 7.8 74 16-116 195-268 (733)
107 COG1197 Mfd Transcription-repa 96.5 0.014 3.1E-07 70.2 11.0 84 10-124 588-675 (1139)
108 COG0514 RecQ Superfamily II DN 96.4 0.0063 1.4E-07 69.1 6.9 70 11-118 11-81 (590)
109 smart00490 HELICc helicase sup 96.4 0.0059 1.3E-07 50.6 5.0 42 566-617 25-66 (82)
110 COG4096 HsdR Type I site-speci 96.3 0.0092 2E-07 69.0 7.8 73 16-117 165-238 (875)
111 COG1061 SSL2 DNA or RNA helica 96.3 0.036 7.7E-07 62.4 12.4 75 516-614 283-358 (442)
112 PRK11131 ATP-dependent RNA hel 96.3 0.011 2.3E-07 73.2 8.4 32 26-59 80-111 (1294)
113 KOG0334 RNA helicase [RNA proc 96.3 0.0048 1E-07 72.7 5.2 78 12-116 382-460 (997)
114 TIGR00643 recG ATP-dependent D 96.2 0.12 2.6E-06 61.0 16.7 81 515-616 447-536 (630)
115 KOG0339 ATP-dependent RNA heli 96.1 0.011 2.4E-07 64.2 6.8 60 35-117 260-319 (731)
116 KOG0343 RNA Helicase [RNA proc 96.0 0.0082 1.8E-07 65.9 5.0 73 34-130 105-180 (758)
117 TIGR00603 rad25 DNA repair hel 96.0 0.06 1.3E-06 63.3 12.4 44 10-56 249-294 (732)
118 KOG0333 U5 snRNP-like RNA heli 96.0 0.012 2.7E-07 64.2 6.0 78 17-117 268-345 (673)
119 KOG1805 DNA replication helica 95.9 0.052 1.1E-06 63.7 11.3 139 19-248 672-810 (1100)
120 PF13604 AAA_30: AAA domain; P 95.8 0.029 6.2E-07 55.8 7.8 61 19-113 4-65 (196)
121 PRK13103 secA preprotein trans 95.8 0.022 4.8E-07 67.5 7.9 139 425-603 375-514 (913)
122 KOG0952 DNA/RNA helicase MER3/ 95.6 0.031 6.7E-07 66.0 8.1 64 31-115 122-185 (1230)
123 KOG0338 ATP-dependent RNA heli 95.5 0.016 3.5E-07 63.1 4.9 74 13-115 199-273 (691)
124 PRK05298 excinuclease ABC subu 95.5 0.11 2.3E-06 61.5 12.2 74 10-117 6-80 (652)
125 TIGR00595 priA primosomal prot 95.5 0.021 4.6E-07 65.1 6.1 76 567-684 301-376 (505)
126 PRK04914 ATP-dependent helicas 95.5 0.17 3.7E-06 61.7 14.0 70 15-116 151-220 (956)
127 TIGR00376 DNA helicase, putati 95.4 0.052 1.1E-06 63.8 9.3 76 18-129 159-234 (637)
128 TIGR00631 uvrb excinuclease AB 95.3 0.16 3.4E-06 59.9 12.6 74 10-117 3-77 (655)
129 PRK10536 hypothetical protein; 95.2 0.051 1.1E-06 55.6 7.2 39 16-58 58-97 (262)
130 KOG0340 ATP-dependent RNA heli 95.2 0.055 1.2E-06 56.6 7.2 70 15-116 28-97 (442)
131 KOG0336 ATP-dependent RNA heli 95.1 0.017 3.7E-07 61.1 3.3 74 21-116 228-316 (629)
132 PRK15483 type III restriction- 95.0 0.077 1.7E-06 63.8 9.0 50 13-62 3-86 (986)
133 KOG0385 Chromatin remodeling c 95.0 0.1 2.3E-06 59.8 9.3 81 15-124 166-246 (971)
134 PRK13766 Hef nuclease; Provisi 95.0 0.15 3.4E-06 61.9 11.8 69 13-116 12-80 (773)
135 KOG0343 RNA Helicase [RNA proc 94.8 0.8 1.7E-05 50.9 15.1 87 508-616 304-393 (758)
136 PRK13107 preprotein translocas 94.7 0.042 9.2E-07 65.1 5.8 137 426-603 376-514 (908)
137 PF00580 UvrD-helicase: UvrD/R 94.6 0.065 1.4E-06 57.1 6.4 61 19-112 3-63 (315)
138 COG1875 NYN ribonuclease and A 94.4 0.35 7.7E-06 51.3 10.9 44 12-58 223-268 (436)
139 TIGR02640 gas_vesic_GvpN gas v 94.3 0.075 1.6E-06 55.4 6.0 41 17-59 3-43 (262)
140 KOG0352 ATP-dependent DNA heli 94.3 0.091 2E-06 56.2 6.3 45 11-58 13-59 (641)
141 COG0610 Type I site-specific r 94.2 0.39 8.5E-06 59.1 12.6 69 19-116 251-325 (962)
142 COG1204 Superfamily II helicas 93.9 0.85 1.8E-05 54.6 14.3 195 436-687 181-406 (766)
143 PRK09694 helicase Cas3; Provis 93.9 1.2 2.5E-05 54.2 15.6 74 515-603 559-638 (878)
144 PHA02244 ATPase-like protein 93.9 0.11 2.4E-06 55.9 6.3 48 11-60 94-142 (383)
145 COG1111 MPH1 ERCC4-like helica 93.4 1.1 2.3E-05 49.6 12.8 66 15-115 14-79 (542)
146 PRK13531 regulatory ATPase Rav 93.3 0.092 2E-06 58.6 4.5 39 19-59 23-61 (498)
147 PF01695 IstB_IS21: IstB-like 93.1 0.16 3.4E-06 49.6 5.4 45 13-59 22-69 (178)
148 KOG0389 SNF2 family DNA-depend 92.9 0.36 7.9E-06 55.7 8.5 107 501-629 763-870 (941)
149 COG0714 MoxR-like ATPases [Gen 92.9 0.13 2.7E-06 55.7 4.9 41 18-60 26-66 (329)
150 PRK12900 secA preprotein trans 92.8 1.2 2.7E-05 53.6 13.2 97 499-618 582-682 (1025)
151 KOG0353 ATP-dependent DNA heli 92.7 0.18 3.9E-06 52.9 5.3 42 13-58 90-132 (695)
152 KOG0328 Predicted ATP-dependen 92.6 0.062 1.4E-06 54.4 1.8 78 517-616 267-344 (400)
153 KOG0387 Transcription-coupled 92.6 0.77 1.7E-05 53.2 10.5 82 18-128 207-288 (923)
154 KOG0951 RNA helicase BRR2, DEA 92.5 0.31 6.8E-06 58.9 7.5 83 27-129 316-401 (1674)
155 KOG0342 ATP-dependent RNA heli 92.4 1.8 4E-05 47.6 12.7 78 517-623 331-411 (543)
156 PRK06835 DNA replication prote 92.4 0.31 6.8E-06 52.3 7.0 24 34-59 182-205 (329)
157 KOG0351 ATP-dependent DNA heli 92.4 0.077 1.7E-06 64.1 2.6 46 10-59 257-303 (941)
158 COG1205 Distinct helicase fami 92.3 0.83 1.8E-05 55.4 11.2 172 422-617 214-393 (851)
159 PRK08181 transposase; Validate 92.2 0.36 7.8E-06 50.3 6.9 39 19-59 90-128 (269)
160 COG4096 HsdR Type I site-speci 91.8 1.4 3.1E-05 51.6 11.6 128 501-688 406-545 (875)
161 KOG0333 U5 snRNP-like RNA heli 91.8 2 4.4E-05 47.6 12.1 82 501-605 505-586 (673)
162 COG1203 CRISPR-associated heli 91.3 1.3 2.9E-05 53.2 11.4 73 516-605 440-513 (733)
163 COG1484 DnaC DNA replication p 91.3 0.6 1.3E-05 48.3 7.4 42 19-62 89-130 (254)
164 PRK12326 preprotein translocas 91.0 0.57 1.2E-05 54.7 7.4 140 424-603 352-492 (764)
165 KOG0952 DNA/RNA helicase MER3/ 90.8 9.4 0.0002 46.2 17.0 196 434-688 274-490 (1230)
166 PRK13407 bchI magnesium chelat 90.8 0.23 4.9E-06 53.5 3.9 39 12-50 4-44 (334)
167 KOG0926 DEAH-box RNA helicase 90.8 0.81 1.8E-05 53.1 8.2 89 435-541 414-506 (1172)
168 KOG0947 Cytoplasmic exosomal R 90.8 0.51 1.1E-05 55.7 6.7 75 8-117 289-363 (1248)
169 KOG0337 ATP-dependent RNA heli 90.5 0.29 6.4E-06 52.5 4.2 72 15-117 41-113 (529)
170 cd00009 AAA The AAA+ (ATPases 90.3 0.3 6.5E-06 44.9 3.9 37 20-58 2-40 (151)
171 KOG1123 RNA polymerase II tran 89.9 0.27 5.8E-06 53.8 3.4 40 15-57 301-342 (776)
172 COG4098 comFA Superfamily II D 89.8 4.7 0.0001 42.6 12.0 88 503-614 293-380 (441)
173 TIGR00631 uvrb excinuclease AB 89.7 1 2.2E-05 53.2 8.2 89 502-614 429-518 (655)
174 TIGR00595 priA primosomal prot 89.5 2.9 6.4E-05 47.9 11.6 47 39-116 1-47 (505)
175 PF06745 KaiC: KaiC; InterPro 89.4 0.84 1.8E-05 46.3 6.6 21 33-53 17-37 (226)
176 COG1198 PriA Primosomal protei 89.3 1.1 2.5E-05 52.8 8.2 67 19-116 201-267 (730)
177 KOG0989 Replication factor C, 89.2 0.53 1.1E-05 48.9 4.7 37 19-55 39-77 (346)
178 KOG0951 RNA helicase BRR2, DEA 89.1 6.7 0.00014 48.2 14.1 77 583-696 632-709 (1674)
179 KOG0327 Translation initiation 89.0 0.15 3.2E-06 54.2 0.7 85 509-616 257-341 (397)
180 TIGR02030 BchI-ChlI magnesium 88.9 0.54 1.2E-05 50.7 4.9 44 13-58 1-46 (337)
181 COG1201 Lhr Lhr-like helicases 88.9 9.9 0.00021 45.6 15.6 171 437-686 185-361 (814)
182 KOG4150 Predicted ATP-dependen 88.9 11 0.00024 42.3 14.7 182 436-685 452-637 (1034)
183 PF12340 DUF3638: Protein of u 88.8 0.65 1.4E-05 46.7 5.0 49 15-65 22-70 (229)
184 PRK05298 excinuclease ABC subu 88.2 1.4 3.1E-05 52.1 8.3 91 502-616 433-524 (652)
185 KOG0347 RNA helicase [RNA proc 88.1 0.88 1.9E-05 50.6 5.8 85 511-617 458-542 (731)
186 PF06309 Torsin: Torsin; Inte 88.1 0.68 1.5E-05 42.0 4.2 30 23-52 36-70 (127)
187 PF05970 PIF1: PIF1-like helic 87.8 1.1 2.4E-05 49.1 6.6 34 19-52 4-39 (364)
188 PF01078 Mg_chelatase: Magnesi 87.7 0.6 1.3E-05 46.3 3.9 35 17-51 4-38 (206)
189 KOG0328 Predicted ATP-dependen 87.7 2.4 5.2E-05 43.4 8.1 75 12-118 44-119 (400)
190 KOG4284 DEAD box protein [Tran 87.5 0.62 1.4E-05 52.7 4.3 82 9-118 17-117 (980)
191 TIGR01967 DEAH_box_HrpA ATP-de 87.4 0.94 2E-05 56.8 6.3 33 26-60 73-105 (1283)
192 COG4098 comFA Superfamily II D 87.4 2.7 6E-05 44.3 8.6 47 18-65 99-145 (441)
193 PRK08939 primosomal protein Dn 87.4 1.5 3.3E-05 46.6 7.1 39 20-60 135-179 (306)
194 KOG0948 Nuclear exosomal RNA h 87.2 1.1 2.4E-05 51.6 6.1 69 12-115 125-193 (1041)
195 PRK12402 replication factor C 87.0 0.74 1.6E-05 49.7 4.6 34 20-53 19-54 (337)
196 TIGR01650 PD_CobS cobaltochela 87.0 0.91 2E-05 48.4 5.1 34 23-58 52-85 (327)
197 PRK09183 transposase/IS protei 87.0 0.96 2.1E-05 47.0 5.2 27 32-60 99-125 (259)
198 PRK13894 conjugal transfer ATP 86.9 0.89 1.9E-05 48.7 5.0 33 24-58 137-169 (319)
199 TIGR00348 hsdR type I site-spe 86.7 4.3 9.3E-05 48.3 11.1 98 500-614 494-617 (667)
200 COG1474 CDC6 Cdc6-related prot 86.7 0.92 2E-05 49.5 5.1 39 16-54 20-61 (366)
201 TIGR00390 hslU ATP-dependent p 86.6 0.81 1.8E-05 50.3 4.5 38 19-58 15-68 (441)
202 TIGR02562 cas3_yersinia CRISPR 86.4 1.3 2.9E-05 53.7 6.5 46 205-250 558-609 (1110)
203 PRK06921 hypothetical protein; 86.2 2.1 4.4E-05 44.7 7.2 23 34-58 116-138 (266)
204 PRK12901 secA preprotein trans 85.9 2 4.4E-05 51.9 7.6 52 3-60 156-207 (1112)
205 cd01124 KaiC KaiC is a circadi 85.5 1.7 3.8E-05 42.2 6.0 20 38-57 2-21 (187)
206 PLN03142 Probable chromatin-re 85.4 5.1 0.00011 49.5 11.0 85 514-618 485-570 (1033)
207 PF13191 AAA_16: AAA ATPase do 85.3 0.81 1.7E-05 44.4 3.5 42 15-58 2-45 (185)
208 COG4889 Predicted helicase [Ge 85.2 0.51 1.1E-05 55.1 2.3 44 204-248 275-318 (1518)
209 PRK13900 type IV secretion sys 85.1 1.3 2.8E-05 47.8 5.2 34 22-57 147-180 (332)
210 PLN03025 replication factor C 84.9 1.1 2.3E-05 48.2 4.5 34 20-53 17-52 (319)
211 smart00382 AAA ATPases associa 84.9 0.72 1.6E-05 41.8 2.8 19 35-53 2-20 (148)
212 PRK12377 putative replication 84.8 2.2 4.7E-05 44.0 6.5 38 19-58 81-122 (248)
213 KOG0326 ATP-dependent RNA heli 84.8 0.54 1.2E-05 48.7 2.0 41 14-58 104-145 (459)
214 PF00158 Sigma54_activat: Sigm 84.8 1.1 2.4E-05 43.2 4.1 30 21-50 8-37 (168)
215 PRK11331 5-methylcytosine-spec 84.7 1.1 2.3E-05 49.9 4.3 35 23-59 182-216 (459)
216 TIGR00382 clpX endopeptidase C 84.6 1.2 2.6E-05 49.3 4.7 38 19-58 80-137 (413)
217 PRK13833 conjugal transfer pro 84.6 1.3 2.8E-05 47.5 4.8 33 24-58 133-165 (323)
218 PRK06526 transposase; Provisio 84.5 1.1 2.3E-05 46.5 4.1 28 30-59 93-120 (254)
219 PRK07952 DNA replication prote 84.4 2.6 5.7E-05 43.3 6.8 38 19-58 79-120 (244)
220 KOG0347 RNA helicase [RNA proc 84.4 0.92 2E-05 50.5 3.6 84 14-117 200-286 (731)
221 PRK08116 hypothetical protein; 84.1 3.2 7E-05 43.3 7.5 21 37-59 116-136 (268)
222 PF07517 SecA_DEAD: SecA DEAD- 84.1 2.3 5E-05 44.1 6.3 43 13-61 74-116 (266)
223 PRK13851 type IV secretion sys 83.7 1.4 3.1E-05 47.6 4.8 34 23-58 150-183 (344)
224 TIGR02782 TrbB_P P-type conjug 83.5 1.5 3.4E-05 46.5 4.9 28 24-51 121-148 (299)
225 KOG0744 AAA+-type ATPase [Post 83.5 0.67 1.4E-05 48.4 2.0 22 35-58 177-198 (423)
226 PF07726 AAA_3: ATPase family 83.4 0.65 1.4E-05 42.3 1.7 20 37-58 1-20 (131)
227 COG0514 RecQ Superfamily II DN 83.3 8 0.00017 44.6 10.6 140 436-617 167-309 (590)
228 COG1643 HrpA HrpA-like helicas 83.1 4.1 8.9E-05 49.0 8.6 83 437-538 197-281 (845)
229 KOG0991 Replication factor C, 83.1 1.8 3.9E-05 43.2 4.7 36 22-57 33-70 (333)
230 PF02399 Herpes_ori_bp: Origin 83.0 2.3 5.1E-05 50.2 6.4 56 34-119 48-103 (824)
231 TIGR00764 lon_rel lon-related 82.9 2.6 5.7E-05 49.4 6.9 39 18-58 20-58 (608)
232 PRK12903 secA preprotein trans 82.8 4 8.6E-05 48.8 8.1 139 426-604 353-492 (925)
233 PRK05201 hslU ATP-dependent pr 82.5 1.6 3.6E-05 48.0 4.7 38 19-58 18-71 (443)
234 cd01130 VirB11-like_ATPase Typ 82.5 1.8 4E-05 42.4 4.7 27 24-50 14-40 (186)
235 KOG0392 SNF2 family DNA-depend 82.2 3.6 7.8E-05 50.2 7.5 80 514-614 1338-1421(1549)
236 COG1219 ClpX ATP-dependent pro 82.2 1 2.3E-05 47.0 2.8 21 36-58 98-118 (408)
237 PRK06067 flagellar accessory p 82.1 3 6.4E-05 42.5 6.3 26 32-59 22-47 (234)
238 TIGR03877 thermo_KaiC_1 KaiC d 82.0 2.6 5.6E-05 43.2 5.7 22 32-53 18-39 (237)
239 PRK05342 clpX ATP-dependent pr 81.9 1.9 4E-05 48.0 4.9 38 19-58 74-129 (412)
240 KOG0745 Putative ATP-dependent 81.9 2.6 5.7E-05 45.9 5.8 24 34-59 225-248 (564)
241 PRK14961 DNA polymerase III su 81.9 1.7 3.7E-05 47.6 4.6 34 20-53 20-56 (363)
242 KOG0332 ATP-dependent RNA heli 81.6 21 0.00045 38.4 11.9 95 502-622 319-414 (477)
243 COG1643 HrpA HrpA-like helicas 81.4 2.5 5.4E-05 50.9 6.0 36 23-60 53-88 (845)
244 COG0513 SrmB Superfamily II DN 81.3 4.3 9.3E-05 46.7 7.8 74 14-117 48-122 (513)
245 COG2804 PulE Type II secretory 81.3 2.1 4.6E-05 47.8 5.0 35 28-63 250-285 (500)
246 PF09848 DUF2075: Uncharacteri 81.2 2.3 5.1E-05 46.3 5.4 19 36-54 2-20 (352)
247 KOG0330 ATP-dependent RNA heli 81.1 13 0.00027 40.1 10.3 138 434-616 234-378 (476)
248 PF07728 AAA_5: AAA domain (dy 81.1 1.3 2.9E-05 40.9 3.0 23 37-61 1-23 (139)
249 CHL00081 chlI Mg-protoporyphyr 81.1 1.1 2.4E-05 48.4 2.7 44 12-57 13-58 (350)
250 PRK10919 ATP-dependent DNA hel 81.0 2.6 5.7E-05 50.2 6.1 65 18-116 4-69 (672)
251 COG0606 Predicted ATPase with 80.9 1.5 3.2E-05 48.5 3.6 32 19-50 182-213 (490)
252 PF12775 AAA_7: P-loop contain 80.7 1.8 3.8E-05 45.4 4.0 31 22-52 20-50 (272)
253 TIGR03420 DnaA_homol_Hda DnaA 80.6 2.3 4.9E-05 42.9 4.8 32 20-51 21-54 (226)
254 PRK08533 flagellar accessory p 80.6 3.2 6.9E-05 42.3 5.8 21 32-52 21-41 (230)
255 COG4962 CpaF Flp pilus assembl 80.5 2.4 5.1E-05 45.1 4.8 34 23-58 161-194 (355)
256 PF00308 Bac_DnaA: Bacterial d 80.4 4.2 9.1E-05 41.1 6.5 21 36-58 35-55 (219)
257 COG1223 Predicted ATPase (AAA+ 80.1 1.3 2.8E-05 45.0 2.6 21 36-58 152-172 (368)
258 PF02534 T4SS-DNA_transf: Type 80.1 1.6 3.4E-05 49.8 3.7 23 36-58 45-67 (469)
259 cd00984 DnaB_C DnaB helicase C 80.0 2 4.4E-05 43.9 4.2 34 28-61 6-39 (242)
260 TIGR01447 recD exodeoxyribonuc 79.9 6.2 0.00014 46.0 8.5 65 19-113 148-212 (586)
261 PF13401 AAA_22: AAA domain; P 79.9 1.1 2.4E-05 40.7 2.0 20 33-52 2-21 (131)
262 PF02367 UPF0079: Uncharacteri 79.8 1.7 3.6E-05 39.5 3.0 35 22-58 2-36 (123)
263 PF14532 Sigma54_activ_2: Sigm 79.6 2.5 5.4E-05 39.1 4.3 30 22-51 8-37 (138)
264 PRK14955 DNA polymerase III su 79.5 2.3 5E-05 47.2 4.7 35 19-53 19-56 (397)
265 PRK10875 recD exonuclease V su 79.4 7.5 0.00016 45.5 9.0 37 12-52 146-184 (615)
266 CHL00122 secA preprotein trans 79.4 3.5 7.6E-05 49.3 6.2 138 426-603 351-491 (870)
267 PRK11773 uvrD DNA-dependent he 79.0 3.3 7.2E-05 49.8 6.2 67 17-116 10-76 (721)
268 PRK05973 replicative DNA helic 79.0 3.6 7.7E-05 42.0 5.5 30 27-56 56-85 (237)
269 cd01126 TraG_VirD4 The TraG/Tr 79.0 1.6 3.4E-05 48.3 3.1 22 37-58 1-22 (384)
270 PRK08903 DnaA regulatory inact 78.8 4.7 0.0001 40.8 6.4 35 23-59 27-64 (227)
271 TIGR02768 TraA_Ti Ti-type conj 78.8 4.6 0.0001 48.6 7.2 34 15-51 351-384 (744)
272 TIGR03880 KaiC_arch_3 KaiC dom 78.8 4.1 8.9E-05 41.2 6.0 20 34-53 15-34 (224)
273 COG3973 Superfamily I DNA and 78.7 4.3 9.3E-05 46.1 6.3 43 496-538 635-677 (747)
274 TIGR01448 recD_rel helicase, p 78.7 6.8 0.00015 47.0 8.6 36 13-52 320-355 (720)
275 PF05673 DUF815: Protein of un 78.5 10 0.00023 38.6 8.5 36 18-53 32-70 (249)
276 PF00437 T2SE: Type II/IV secr 78.1 1.5 3.2E-05 45.8 2.5 30 23-52 115-144 (270)
277 KOG0344 ATP-dependent RNA heli 78.0 10 0.00022 43.0 8.9 78 515-613 386-463 (593)
278 PF00448 SRP54: SRP54-type pro 77.8 4.5 9.7E-05 40.1 5.7 20 36-55 2-21 (196)
279 PRK14952 DNA polymerase III su 77.8 2.5 5.4E-05 49.1 4.4 36 19-54 16-54 (584)
280 PHA00729 NTP-binding motif con 77.7 3.2 6.8E-05 41.9 4.5 33 24-58 4-38 (226)
281 PRK06645 DNA polymerase III su 77.6 2.7 5.9E-05 47.9 4.6 34 20-53 25-61 (507)
282 PRK05580 primosome assembly pr 77.6 4.9 0.00011 47.9 6.9 78 566-685 468-545 (679)
283 TIGR01074 rep ATP-dependent DN 77.4 4.4 9.6E-05 48.3 6.6 37 19-62 4-40 (664)
284 PRK14962 DNA polymerase III su 77.1 3 6.4E-05 47.3 4.7 35 19-53 17-54 (472)
285 TIGR00150 HI0065_YjeE ATPase, 76.9 3.5 7.6E-05 38.0 4.3 35 22-58 9-43 (133)
286 TIGR01075 uvrD DNA helicase II 76.9 3.7 8E-05 49.4 5.7 66 18-116 6-71 (715)
287 KOG0922 DEAH-box RNA helicase 76.8 12 0.00026 43.1 9.2 45 495-539 236-281 (674)
288 TIGR00635 ruvB Holliday juncti 76.8 3.4 7.3E-05 44.0 4.9 33 20-52 8-47 (305)
289 PHA02533 17 large terminase pr 76.8 8.7 0.00019 44.3 8.4 70 13-115 56-125 (534)
290 COG2256 MGS1 ATPase related to 76.4 5.4 0.00012 43.3 6.1 38 19-58 27-69 (436)
291 PRK14956 DNA polymerase III su 76.4 3.2 7E-05 46.7 4.6 35 19-53 21-58 (484)
292 PRK13889 conjugal transfer rel 76.3 7.2 0.00016 48.1 7.9 39 15-57 345-383 (988)
293 PRK04328 hypothetical protein; 76.2 5 0.00011 41.4 5.7 18 33-50 21-38 (249)
294 COG0467 RAD55 RecA-superfamily 76.2 4.8 0.0001 41.8 5.7 25 31-55 19-43 (260)
295 COG3587 Restriction endonuclea 76.1 1.9 4.1E-05 50.6 2.8 28 37-64 76-103 (985)
296 KOG0341 DEAD-box protein abstr 76.1 4.6 0.0001 43.1 5.3 82 508-611 413-494 (610)
297 PF06862 DUF1253: Protein of u 76.0 34 0.00073 38.3 12.3 95 502-617 284-381 (442)
298 TIGR03015 pepcterm_ATPase puta 75.9 4.3 9.2E-05 42.2 5.3 34 19-52 26-60 (269)
299 KOG0949 Predicted helicase, DE 75.4 4.9 0.00011 48.0 5.8 67 15-114 510-576 (1330)
300 COG2874 FlaH Predicted ATPases 75.3 7.4 0.00016 38.7 6.1 27 36-64 29-55 (235)
301 TIGR02928 orc1/cdc6 family rep 75.2 4.1 9E-05 44.5 5.1 36 17-52 19-57 (365)
302 KOG0348 ATP-dependent RNA heli 75.1 7.8 0.00017 43.3 6.9 107 501-618 409-527 (708)
303 KOG0350 DEAD-box ATP-dependent 75.1 13 0.00028 41.4 8.5 111 516-688 429-540 (620)
304 TIGR02902 spore_lonB ATP-depen 75.0 2.8 6E-05 48.4 3.8 34 19-52 68-103 (531)
305 PRK14958 DNA polymerase III su 74.9 3.3 7.1E-05 47.5 4.3 35 19-53 19-56 (509)
306 TIGR02442 Cob-chelat-sub cobal 74.8 2.9 6.4E-05 49.4 4.1 43 13-57 1-45 (633)
307 TIGR02788 VirB11 P-type DNA tr 74.5 4.1 8.8E-05 43.5 4.7 33 24-58 133-165 (308)
308 PRK00440 rfc replication facto 74.4 3.3 7.2E-05 44.2 4.1 34 20-53 21-56 (319)
309 PRK13897 type IV secretion sys 74.2 2.3 5E-05 49.6 2.9 25 34-58 157-181 (606)
310 COG1222 RPT1 ATP-dependent 26S 74.1 2.4 5.2E-05 45.1 2.7 21 36-58 186-206 (406)
311 PF13177 DNA_pol3_delta2: DNA 73.9 5.1 0.00011 38.3 4.8 34 20-53 1-37 (162)
312 smart00763 AAA_PrkA PrkA AAA d 73.8 5.2 0.00011 43.3 5.2 37 20-58 59-99 (361)
313 COG4525 TauB ABC-type taurine 73.7 3.4 7.4E-05 40.3 3.4 47 1-51 1-47 (259)
314 PF00004 AAA: ATPase family as 73.6 3.3 7.1E-05 37.4 3.2 19 38-58 1-19 (132)
315 PRK00080 ruvB Holliday junctio 73.6 3.8 8.3E-05 44.1 4.3 35 19-53 28-69 (328)
316 PRK13822 conjugal transfer cou 73.5 3.1 6.7E-05 48.9 3.8 24 35-58 224-247 (641)
317 PRK13765 ATP-dependent proteas 73.1 4.2 9.1E-05 47.7 4.7 36 17-52 32-67 (637)
318 PRK11034 clpA ATP-dependent Cl 72.6 3.6 7.9E-05 49.3 4.1 33 20-52 462-505 (758)
319 TIGR02688 conserved hypothetic 72.6 5.4 0.00012 44.0 5.0 32 20-51 194-225 (449)
320 PRK14964 DNA polymerase III su 72.2 4.3 9.2E-05 46.1 4.3 35 20-54 17-54 (491)
321 PTZ00112 origin recognition co 72.2 4.9 0.00011 48.2 4.8 38 17-54 759-800 (1164)
322 PRK10436 hypothetical protein; 72.1 5.9 0.00013 44.7 5.4 32 28-60 210-242 (462)
323 TIGR02639 ClpA ATP-dependent C 72.1 3.8 8.2E-05 49.4 4.2 37 20-58 458-505 (731)
324 PRK14954 DNA polymerase III su 71.7 4.3 9.4E-05 47.5 4.3 35 19-53 19-56 (620)
325 PRK08727 hypothetical protein; 71.6 8.4 0.00018 39.3 6.1 22 36-59 42-63 (233)
326 PRK09111 DNA polymerase III su 71.4 4.6 9.9E-05 47.2 4.4 35 20-54 28-65 (598)
327 PRK03992 proteasome-activating 71.1 5.9 0.00013 43.8 5.1 21 36-58 166-186 (389)
328 PRK14960 DNA polymerase III su 71.1 4.8 0.0001 47.0 4.4 35 20-54 19-56 (702)
329 PRK14963 DNA polymerase III su 71.1 4.9 0.00011 46.0 4.5 35 19-53 17-54 (504)
330 PRK14969 DNA polymerase III su 71.1 4.8 0.0001 46.4 4.5 34 20-53 20-56 (527)
331 cd01122 GP4d_helicase GP4d_hel 71.0 4.8 0.00011 41.9 4.2 31 30-60 25-55 (271)
332 KOG4439 RNA polymerase II tran 71.0 1 2.2E-05 51.6 -1.0 45 205-249 427-478 (901)
333 PRK13850 type IV secretion sys 70.9 1.7 3.7E-05 51.2 0.9 25 34-58 138-162 (670)
334 PTZ00361 26 proteosome regulat 70.7 6 0.00013 44.3 5.0 23 35-59 217-239 (438)
335 PF13555 AAA_29: P-loop contai 70.6 5.4 0.00012 31.4 3.3 25 36-62 24-48 (62)
336 TIGR03881 KaiC_arch_4 KaiC dom 70.5 8.7 0.00019 38.9 5.9 22 32-53 17-38 (229)
337 KOG0923 mRNA splicing factor A 70.4 10 0.00022 43.5 6.6 186 436-681 411-600 (902)
338 PRK05642 DNA replication initi 70.3 9.4 0.0002 38.9 6.1 21 36-58 46-66 (234)
339 PRK11608 pspF phage shock prot 70.3 5.6 0.00012 42.9 4.6 37 19-57 13-49 (326)
340 PRK13342 recombination factor 70.3 3.8 8.3E-05 45.7 3.4 35 18-52 14-53 (413)
341 PF05496 RuvB_N: Holliday junc 70.0 5.6 0.00012 40.0 4.1 36 15-50 23-65 (233)
342 COG0630 VirB11 Type IV secreto 70.0 8.2 0.00018 41.3 5.7 30 23-52 131-160 (312)
343 TIGR03346 chaperone_ClpB ATP-d 69.8 4.2 9.2E-05 49.8 3.9 39 19-59 568-617 (852)
344 PRK14949 DNA polymerase III su 69.8 5 0.00011 48.4 4.3 34 20-53 20-56 (944)
345 TIGR02655 circ_KaiC circadian 69.8 8.1 0.00018 44.1 6.0 21 33-53 261-281 (484)
346 PRK14957 DNA polymerase III su 69.7 5.7 0.00012 45.8 4.7 34 20-53 20-56 (546)
347 TIGR02880 cbbX_cfxQ probable R 69.6 3.6 7.9E-05 43.3 2.9 17 36-52 59-75 (284)
348 KOG0341 DEAD-box protein abstr 69.5 2.6 5.6E-05 44.9 1.7 29 35-63 207-235 (610)
349 PRK06893 DNA replication initi 69.4 11 0.00024 38.2 6.4 36 21-58 23-60 (229)
350 TIGR02785 addA_Gpos recombinat 69.4 9.5 0.00021 48.8 7.0 37 18-60 3-39 (1232)
351 KOG0386 Chromatin remodeling c 69.4 18 0.00039 43.6 8.5 138 2-246 387-527 (1157)
352 TIGR02881 spore_V_K stage V sp 69.3 2.9 6.2E-05 43.5 2.1 17 36-52 43-59 (261)
353 TIGR01073 pcrA ATP-dependent D 69.2 8.6 0.00019 46.4 6.3 38 18-62 6-43 (726)
354 KOG0923 mRNA splicing factor A 69.2 3.3 7.2E-05 47.3 2.5 25 26-50 271-295 (902)
355 PF06068 TIP49: TIP49 C-termin 69.1 7.3 0.00016 42.1 5.0 42 20-65 31-76 (398)
356 PF02456 Adeno_IVa2: Adenoviru 68.9 10 0.00023 39.7 5.8 20 37-58 89-108 (369)
357 KOG0336 ATP-dependent RNA heli 68.8 63 0.0014 35.2 11.6 70 515-604 464-533 (629)
358 PF07652 Flavi_DEAD: Flaviviru 68.6 7.9 0.00017 36.1 4.4 56 32-117 1-56 (148)
359 PRK00411 cdc6 cell division co 68.5 6.1 0.00013 43.7 4.6 36 18-53 35-73 (394)
360 TIGR03499 FlhF flagellar biosy 68.4 22 0.00047 37.4 8.5 19 35-53 194-212 (282)
361 PRK12723 flagellar biosynthesi 68.3 24 0.00053 38.8 9.0 21 36-56 175-195 (388)
362 PF10673 DUF2487: Protein of u 68.3 25 0.00055 32.7 7.7 95 499-635 35-130 (142)
363 PRK13876 conjugal transfer cou 68.3 2 4.3E-05 50.6 0.6 25 34-58 143-167 (663)
364 PRK08769 DNA polymerase III su 68.2 7.6 0.00016 41.6 5.0 37 17-53 5-44 (319)
365 TIGR02974 phageshock_pspF psp 68.0 5.7 0.00012 42.8 4.1 33 23-57 10-42 (329)
366 PRK10865 protein disaggregatio 67.9 4.7 0.0001 49.4 3.8 38 19-58 571-619 (857)
367 PRK12902 secA preprotein trans 67.7 12 0.00026 45.1 6.8 138 426-603 366-506 (939)
368 TIGR01241 FtsH_fam ATP-depende 67.7 6.8 0.00015 44.9 4.9 22 36-59 89-110 (495)
369 PRK14722 flhF flagellar biosyn 67.7 7.7 0.00017 42.4 4.9 21 33-53 135-155 (374)
370 CHL00095 clpC Clp protease ATP 67.6 5.2 0.00011 48.9 4.0 39 19-59 512-561 (821)
371 CHL00176 ftsH cell division pr 67.5 6.5 0.00014 46.3 4.7 39 18-58 188-237 (638)
372 PRK14088 dnaA chromosomal repl 67.4 13 0.00028 41.8 6.9 21 36-58 131-151 (440)
373 TIGR02524 dot_icm_DotB Dot/Icm 67.4 6.1 0.00013 43.1 4.2 27 26-52 124-151 (358)
374 KOG0731 AAA+-type ATPase conta 67.4 6 0.00013 46.7 4.3 21 36-58 345-365 (774)
375 TIGR03819 heli_sec_ATPase heli 67.2 7.4 0.00016 42.1 4.7 28 23-50 166-193 (340)
376 PRK14950 DNA polymerase III su 67.0 6 0.00013 46.3 4.2 36 19-54 19-57 (585)
377 PRK09112 DNA polymerase III su 67.0 7.1 0.00015 42.5 4.6 34 20-53 27-63 (351)
378 TIGR02759 TraD_Ftype type IV c 67.0 6.8 0.00015 45.5 4.6 29 35-64 176-204 (566)
379 PTZ00454 26S protease regulato 66.9 6.6 0.00014 43.5 4.3 22 35-58 179-200 (398)
380 KOG0354 DEAD-box like helicase 66.8 61 0.0013 38.4 12.1 126 501-689 397-531 (746)
381 PRK09361 radB DNA repair and r 66.4 11 0.00023 38.1 5.5 26 32-57 20-45 (225)
382 COG1419 FlhF Flagellar GTP-bin 66.3 14 0.00031 40.4 6.5 19 35-53 203-221 (407)
383 PRK05896 DNA polymerase III su 66.1 6.8 0.00015 45.4 4.3 35 20-54 20-57 (605)
384 cd01129 PulE-GspE PulE/GspE Th 66.1 5.9 0.00013 41.3 3.6 26 27-52 71-97 (264)
385 PHA02544 44 clamp loader, smal 65.7 6.1 0.00013 42.2 3.8 33 20-52 25-60 (316)
386 PRK07003 DNA polymerase III su 65.5 7.1 0.00015 46.2 4.4 34 20-53 20-56 (830)
387 TIGR02655 circ_KaiC circadian 65.4 10 0.00022 43.3 5.6 22 32-53 18-39 (484)
388 CHL00181 cbbX CbbX; Provisiona 65.4 4.1 8.9E-05 43.0 2.3 19 35-53 59-77 (287)
389 COG0593 DnaA ATPase involved i 65.1 16 0.00034 40.4 6.6 34 23-58 96-134 (408)
390 PF02562 PhoH: PhoH-like prote 65.1 5.2 0.00011 39.8 2.8 38 203-248 96-133 (205)
391 PRK12323 DNA polymerase III su 65.0 7.4 0.00016 45.4 4.3 34 20-53 20-56 (700)
392 PRK09302 circadian clock prote 65.0 11 0.00023 43.4 5.8 24 31-54 27-50 (509)
393 TIGR02397 dnaX_nterm DNA polym 65.0 7.1 0.00015 42.4 4.2 35 19-53 17-54 (355)
394 CHL00195 ycf46 Ycf46; Provisio 65.0 9.7 0.00021 43.3 5.3 22 36-59 260-281 (489)
395 TIGR02237 recomb_radB DNA repa 64.9 12 0.00026 37.2 5.4 24 34-57 11-34 (209)
396 TIGR03744 traC_PFL_4706 conjug 64.9 22 0.00048 44.0 8.7 20 34-53 474-493 (893)
397 TIGR03878 thermo_KaiC_2 KaiC d 64.7 7 0.00015 40.6 3.8 22 32-53 33-54 (259)
398 TIGR02538 type_IV_pilB type IV 64.7 8.5 0.00019 44.8 4.9 32 28-60 308-340 (564)
399 PRK13880 conjugal transfer cou 64.6 1.8 3.8E-05 51.0 -0.7 24 35-58 175-198 (636)
400 PRK06305 DNA polymerase III su 64.5 7.6 0.00017 43.8 4.3 35 19-53 20-57 (451)
401 PRK14948 DNA polymerase III su 64.5 7.8 0.00017 45.6 4.5 34 20-53 20-56 (620)
402 PF13476 AAA_23: AAA domain; P 64.3 5.5 0.00012 39.0 2.9 25 36-62 20-44 (202)
403 PRK07133 DNA polymerase III su 64.2 7.9 0.00017 45.9 4.5 35 20-54 22-59 (725)
404 KOG0922 DEAH-box RNA helicase 64.1 5.7 0.00012 45.6 3.1 28 23-50 54-81 (674)
405 COG2805 PilT Tfp pilus assembl 63.8 12 0.00026 39.2 5.1 44 19-63 108-152 (353)
406 PRK11054 helD DNA helicase IV; 63.3 18 0.00039 43.1 7.3 66 17-115 197-262 (684)
407 PRK08691 DNA polymerase III su 63.3 8.1 0.00017 45.5 4.3 34 20-53 20-56 (709)
408 PRK09302 circadian clock prote 63.3 13 0.00028 42.9 6.0 20 34-53 272-291 (509)
409 TIGR01817 nifA Nif-specific re 63.2 7.3 0.00016 45.1 4.0 32 24-57 208-239 (534)
410 TIGR02767 TraG-Ti Ti-type conj 63.2 3 6.5E-05 48.8 0.8 24 35-58 211-234 (623)
411 PRK14953 DNA polymerase III su 63.2 9.1 0.0002 43.6 4.6 34 20-53 20-56 (486)
412 PRK08084 DNA replication initi 63.1 19 0.00041 36.7 6.6 31 20-50 28-60 (235)
413 PRK14087 dnaA chromosomal repl 63.0 22 0.00048 40.1 7.7 22 36-59 142-163 (450)
414 COG0470 HolB ATPase involved i 63.0 9.9 0.00022 40.5 4.8 21 35-55 23-44 (325)
415 KOG0351 ATP-dependent DNA heli 62.9 1.1E+02 0.0024 37.7 13.9 140 436-617 421-564 (941)
416 KOG0738 AAA+-type ATPase [Post 62.8 6.9 0.00015 42.2 3.3 21 36-58 246-266 (491)
417 PRK14247 phosphate ABC transpo 62.7 2.8 6E-05 43.2 0.4 50 1-58 1-50 (250)
418 KOG0335 ATP-dependent RNA heli 62.6 25 0.00055 39.3 7.7 78 518-617 339-416 (482)
419 KOG0734 AAA+-type ATPase conta 62.5 8.2 0.00018 43.3 3.9 38 19-58 310-358 (752)
420 PF01580 FtsK_SpoIIIE: FtsK/Sp 62.4 8.5 0.00018 38.2 3.8 29 33-61 36-64 (205)
421 PRK07764 DNA polymerase III su 62.1 8.6 0.00019 46.6 4.4 37 20-56 19-58 (824)
422 PRK07940 DNA polymerase III su 62.1 10 0.00022 42.0 4.6 35 19-53 8-54 (394)
423 PRK07994 DNA polymerase III su 62.0 9.3 0.0002 44.9 4.5 34 20-53 20-56 (647)
424 COG1221 PspF Transcriptional r 61.9 7.4 0.00016 42.8 3.5 21 33-53 99-119 (403)
425 TIGR00362 DnaA chromosomal rep 61.8 17 0.00037 40.4 6.5 21 36-58 137-157 (405)
426 PRK12422 chromosomal replicati 61.8 16 0.00035 41.1 6.3 22 36-59 142-163 (445)
427 TIGR01242 26Sp45 26S proteasom 61.8 10 0.00022 41.6 4.6 21 36-58 157-177 (364)
428 PRK14970 DNA polymerase III su 61.8 9.6 0.00021 41.8 4.5 35 19-53 20-57 (367)
429 TIGR03689 pup_AAA proteasome A 61.6 11 0.00023 43.1 4.8 22 36-59 217-238 (512)
430 PRK14951 DNA polymerase III su 61.4 9.5 0.00021 44.6 4.4 36 19-54 19-57 (618)
431 PRK00149 dnaA chromosomal repl 61.2 18 0.00039 40.9 6.6 21 36-58 149-169 (450)
432 PRK13826 Dtr system oriT relax 61.1 26 0.00056 43.8 8.2 62 15-110 380-441 (1102)
433 TIGR03345 VI_ClpV1 type VI sec 60.9 8.5 0.00018 47.1 4.1 40 19-60 569-619 (852)
434 PF12846 AAA_10: AAA-like doma 60.8 12 0.00026 39.3 4.8 19 35-53 1-19 (304)
435 TIGR00763 lon ATP-dependent pr 60.7 11 0.00024 45.8 5.0 39 20-60 324-370 (775)
436 cd03213 ABCG_EPDR ABCG transpo 60.7 3.5 7.7E-05 40.7 0.7 55 2-58 2-56 (194)
437 TIGR00609 recB exodeoxyribonuc 60.6 12 0.00027 47.2 5.6 24 36-59 10-33 (1087)
438 TIGR02639 ClpA ATP-dependent C 60.6 10 0.00022 45.7 4.7 42 16-59 182-225 (731)
439 KOG0729 26S proteasome regulat 60.3 9.5 0.00021 38.9 3.6 34 19-52 183-228 (435)
440 KOG0743 AAA+-type ATPase [Post 60.3 10 0.00022 41.9 4.1 37 20-58 209-256 (457)
441 PRK15429 formate hydrogenlyase 60.2 9.9 0.00021 45.5 4.5 35 21-57 385-419 (686)
442 KOG0346 RNA helicase [RNA proc 59.9 1.2E+02 0.0025 33.7 11.7 82 434-532 200-284 (569)
443 PF13481 AAA_25: AAA domain; P 59.9 8.1 0.00018 37.7 3.2 28 33-60 30-57 (193)
444 PRK07471 DNA polymerase III su 59.2 13 0.00027 40.8 4.7 35 19-53 22-59 (365)
445 PF07724 AAA_2: AAA domain (Cd 59.1 7.9 0.00017 37.4 2.8 21 36-58 4-24 (171)
446 PRK05563 DNA polymerase III su 58.9 10 0.00022 44.1 4.2 37 19-55 19-58 (559)
447 COG1126 GlnQ ABC-type polar am 58.8 3.6 7.9E-05 40.9 0.4 51 4-62 3-53 (240)
448 TIGR02533 type_II_gspE general 58.6 10 0.00022 43.2 4.0 26 27-52 233-259 (486)
449 cd01131 PilT Pilus retraction 58.3 8.3 0.00018 38.2 2.9 17 36-52 2-18 (198)
450 smart00488 DEXDc2 DEAD-like he 58.3 5.8 0.00013 41.9 1.9 20 95-114 62-81 (289)
451 smart00489 DEXDc3 DEAD-like he 58.3 5.8 0.00013 41.9 1.9 20 95-114 62-81 (289)
452 cd01120 RecA-like_NTPases RecA 58.2 14 0.00031 34.4 4.5 17 37-53 1-17 (165)
453 PRK06871 DNA polymerase III su 57.7 14 0.00031 39.6 4.7 37 17-53 3-42 (325)
454 KOG0742 AAA+-type ATPase [Post 57.7 4.2 9E-05 44.0 0.6 18 36-53 385-402 (630)
455 COG0542 clpA ATP-binding subun 57.7 11 0.00024 44.9 4.1 39 19-59 494-543 (786)
456 TIGR03263 guanyl_kin guanylate 57.6 8.7 0.00019 37.1 2.9 21 35-57 1-21 (180)
457 PRK05703 flhF flagellar biosyn 57.6 14 0.00031 41.2 4.9 20 35-54 221-240 (424)
458 PRK14965 DNA polymerase III su 57.5 12 0.00026 43.6 4.5 36 19-54 19-57 (576)
459 PRK14729 miaA tRNA delta(2)-is 57.4 6.5 0.00014 41.6 2.1 19 34-52 3-21 (300)
460 PRK12900 secA preprotein trans 57.4 14 0.00031 45.0 5.0 52 4-61 126-177 (1025)
461 PRK14253 phosphate ABC transpo 57.2 5.1 0.00011 41.2 1.3 50 1-58 1-50 (249)
462 TIGR02525 plasmid_TraJ plasmid 57.1 12 0.00027 40.9 4.2 41 20-61 133-174 (372)
463 PRK14262 phosphate ABC transpo 57.1 3.7 8E-05 42.3 0.2 50 1-58 1-50 (250)
464 cd01127 TrwB Bacterial conjuga 57.1 14 0.0003 41.3 4.7 28 35-63 42-69 (410)
465 PRK10646 ADP-binding protein; 57.0 15 0.00033 34.6 4.2 37 20-58 13-49 (153)
466 PRK05022 anaerobic nitric oxid 56.9 11 0.00024 43.4 4.0 29 23-51 198-226 (509)
467 TIGR00064 ftsY signal recognit 56.8 20 0.00044 37.5 5.6 24 36-59 73-96 (272)
468 PF13173 AAA_14: AAA domain 56.8 8.5 0.00019 35.0 2.5 20 34-53 1-20 (128)
469 KOG1051 Chaperone HSP104 and r 56.7 11 0.00025 45.4 4.1 39 19-59 565-613 (898)
470 KOG0950 DNA polymerase theta/e 56.6 42 0.00091 40.5 8.5 20 437-456 379-398 (1008)
471 COG1224 TIP49 DNA helicase TIP 56.6 15 0.00033 39.3 4.5 40 22-65 48-91 (450)
472 PRK14086 dnaA chromosomal repl 56.5 27 0.00059 40.7 7.0 22 36-59 315-336 (617)
473 PF01745 IPT: Isopentenyl tran 56.4 8.4 0.00018 38.3 2.5 24 37-64 3-26 (233)
474 PRK06647 DNA polymerase III su 56.4 12 0.00027 43.3 4.3 35 20-54 20-57 (563)
475 PF10236 DAP3: Mitochondrial r 56.3 20 0.00043 38.3 5.6 46 18-64 4-51 (309)
476 KOG2373 Predicted mitochondria 56.0 5.9 0.00013 41.9 1.4 26 25-50 263-288 (514)
477 KOG0327 Translation initiation 56.0 32 0.00069 37.1 6.8 44 12-59 43-87 (397)
478 TIGR03743 SXT_TraD conjugative 56.0 36 0.00078 40.2 8.0 18 35-52 176-193 (634)
479 PRK07399 DNA polymerase III su 55.3 16 0.00035 39.0 4.7 37 17-53 5-44 (314)
480 PF13207 AAA_17: AAA domain; P 55.1 9.9 0.00021 33.9 2.6 19 38-58 2-20 (121)
481 TIGR03600 phage_DnaB phage rep 55.1 16 0.00035 40.9 4.9 31 30-60 189-219 (421)
482 TIGR00368 Mg chelatase-related 55.0 7.2 0.00016 44.5 2.1 38 15-52 191-228 (499)
483 PRK04195 replication factor C 54.9 13 0.00028 42.4 4.2 33 20-52 18-56 (482)
484 PRK13764 ATPase; Provisional 54.9 14 0.00031 42.9 4.4 30 21-50 242-272 (602)
485 PRK06090 DNA polymerase III su 54.7 18 0.00039 38.7 4.9 38 16-53 3-43 (319)
486 PRK14250 phosphate ABC transpo 54.6 5.4 0.00012 40.9 0.9 50 1-58 1-50 (241)
487 KOG0926 DEAH-box RNA helicase 54.5 8.9 0.00019 45.0 2.6 33 26-60 262-294 (1172)
488 KOG1807 Helicases [Replication 54.3 29 0.00063 40.8 6.5 69 35-129 393-461 (1025)
489 PF12774 AAA_6: Hydrolytic ATP 54.3 13 0.00028 37.8 3.6 35 22-58 19-53 (231)
490 PRK14959 DNA polymerase III su 54.1 15 0.00033 42.8 4.5 35 20-54 20-57 (624)
491 PRK13341 recombination factor 54.1 14 0.00031 44.2 4.4 33 20-52 32-69 (725)
492 PF13238 AAA_18: AAA domain; P 54.1 7.2 0.00016 35.0 1.5 18 38-57 1-18 (129)
493 PF10412 TrwB_AAD_bind: Type I 54.1 15 0.00032 40.7 4.2 30 34-64 14-43 (386)
494 cd01394 radB RadB. The archaea 54.0 17 0.00036 36.5 4.3 24 32-55 16-39 (218)
495 PRK10536 hypothetical protein; 54.0 7.8 0.00017 39.9 1.9 32 209-248 159-190 (262)
496 TIGR01547 phage_term_2 phage t 54.0 24 0.00051 39.1 5.9 27 37-63 3-29 (396)
497 PRK10820 DNA-binding transcrip 53.9 13 0.00029 42.8 4.1 34 22-57 214-247 (520)
498 PRK12726 flagellar biosynthesi 53.9 30 0.00065 37.9 6.3 21 34-54 205-225 (407)
499 PHA00547 hypothetical protein 53.7 28 0.0006 35.7 5.6 35 27-61 67-101 (337)
500 PRK06620 hypothetical protein; 53.5 13 0.00028 37.3 3.4 15 36-50 45-59 (214)
No 1
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=2.2e-112 Score=937.19 Aligned_cols=710 Identities=48% Similarity=0.826 Sum_probs=552.1
Q ss_pred CCeeeEc-CeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcc--cccccc-c-
Q 004379 1 MPTYKIR-GIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFST--LGSQVN-N- 75 (758)
Q Consensus 1 ~~~~~i~-~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~--~~~~~~-~- 75 (758)
|+.+.|+ |+.|.|||+||+.|+.||..|.++|+.+.++++|+||||||||++||++|+|++..+.... ..++++ .
T Consensus 5 ~~~~~i~~Gv~V~fP~qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~ 84 (945)
T KOG1132|consen 5 MPKIVINIGVPVEFPFQPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGF 84 (945)
T ss_pred CcceEeccCceeeccCCcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccc
Confidence 7888899 9999999999999999999999999999999999999999999999999999998763211 011111 0
Q ss_pred ------ccCCCCCCCC-CCCCCCCCCCeEEEeCCccchHHHHHHHhhcCCCCCceEEecCCcccccchhhhhccCc-chh
Q 004379 76 ------QISGSQSSVN-SSQSGDSKLPTILYTSRTHSQLRQVIQELKTSNYRPKMVILGSREQLCIHREVSLLRGS-AQN 147 (758)
Q Consensus 76 ------~~~~~~~~~~-~~~~~~~~~~kIi~~trT~sql~Q~i~eLkkl~~~~~~~~l~sr~~lCi~~~~~~~~~~-~~~ 147 (758)
...+..+... .+-......|+|+|+||||+|+.|+++|+++++|++++++||||.++|+|+.++.+.+. ..+
T Consensus 85 ~p~~~s~~~g~~s~e~~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT~Y~vkmtVLgSReq~Cinpev~k~~~~~~~~ 164 (945)
T KOG1132|consen 85 IPTQPSDSGGEKSEEAGEPIACYTGIPKIYYASRTHSQLTQVVRELRRTGYRVKMTVLGSREQLCINPEVKKLEGNALQN 164 (945)
T ss_pred cCCCCccCCCCchhhhcCccccccCCceEEEecchHHHHHHHHHHHhhcCCCCceEEeecchhhccCHHHhhhhcchhhh
Confidence 0000000000 00001125899999999999999999999999999999999999999999999877654 347
Q ss_pred HHHHHHhhcCCCCCCCCCcchhhhhhcCCCCCCCCCChhHHHHhcccCCCcchhhhhhhhcCccEEEecCccccChhhhh
Q 004379 148 NACRFLCKKGTNRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRK 227 (758)
Q Consensus 148 ~~c~~l~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~di~~l~~~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl~~~~~~ 227 (758)
+.|..+.+ ...|.|+..... .+..+.+..+++||||||+.|++...||||.+|++.++||||+||||||+||.+|+
T Consensus 165 ~~C~k~~~---~~~C~f~~~~~~-~sl~~~l~~~i~DIEDLVk~Gk~~~~CPYfaSR~l~edAdIIF~PYnYLiDp~iR~ 240 (945)
T KOG1132|consen 165 HVCKKLVK---SRSCHFYKIVEE-KSLQPRLHDEIFDIEDLVKIGKKSRGCPYFASRELKEDADIIFCPYNYLIDPKIRR 240 (945)
T ss_pred hHHHhhcc---cccccccccccc-cccccccCCCcccHHHHHHhCccCcCCcchhhhhhcccCcEEEechhhhcCHhhhc
Confidence 88988876 789998754432 23344566779999999999999999999999999999999999999999999999
Q ss_pred ccCCCccccEEEEeCCcchHHHHhhhcccccChhhHH---HHHHHHHHHHHHhhhc----cCCCCC-C---CCChhHHHH
Q 004379 228 GLGVEWKNSILIFDEAHNLEGICADAASFDLSSGLLT---ACISEAKNCIDISSTR----RGQSSD-E---TLNPDNFAI 296 (758)
Q Consensus 228 ~~~i~~~~~ilIiDEAHnL~d~~~~~~s~~is~~~l~---~~~~~l~~~~~~~~~~----~~~~~~-~---~~~~~~~~~ 296 (758)
+++++++++|||||||||+|+.|++..|++++..+|. .+.+++.+........ +.-.-+ . ....+.++.
T Consensus 241 ~~~v~LknsIVIfDEAHNiEdic~esaS~~lts~~l~~~~~l~~e~~~~~~~~~~~~~pl~ev~~~l~s~l~~~~e~La~ 320 (945)
T KOG1132|consen 241 SHKVDLKNSIVIFDEAHNIEDICRESASFDLTSSDLASGLELINELEQAVTKAAAIYEPLREVSLDLISWLELELEDLAK 320 (945)
T ss_pred cccccccccEEEEeccccHHHHHhhcccccccHHHHHHHHHHHHHHHHHHhhhhhhcCchhhhhhccchhhhcchHHHHH
Confidence 8899999999999999999999999999999976665 4555555443222110 000000 0 123455666
Q ss_pred HHHHHHHHHHHHHhCCCCcccCCCcCChh-hHHHHHHHcCCChhhHHHHHHHHHHHHHHHHHhhhhcccCcccchHHHHH
Q 004379 297 LRALLLKLEKRIAEVPINSKELGFTKPGP-YIYELLADLNITQETAYKLIDIVEVAAELLQEDKLQNKKSTTACRIESIS 375 (758)
Q Consensus 297 l~~~l~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~l~~~l~~~~~~l~~~~~~~~~~~~~~~l~~l~ 375 (758)
++..+..++..++.+.......+++.++. .+++.+....++.+...++.+.+..+...++...+.... .......-+.
T Consensus 321 l~~~~~~~~~~~d~~~~~~~~~giT~~~~~~l~e~~~~a~~t~e~~~~i~~~~~~~v~~le~~~q~~~t-~~~s~~~~~~ 399 (945)
T KOG1132|consen 321 LKEILLFLEEAIDKVLLPLDDSGITRPGSPILYEEFAKALITSETAEKIVDSLDIAVQHLEGEKQGTAT-NTGSLWCIFA 399 (945)
T ss_pred HHHHHHHhhhhcchhccccccccccCCCcHHHHHHHHHhccCccccccchhhHHHHHHHhhcccccchh-cccchHHHHH
Confidence 66666666677776665555566666666 778888888887777777777776666666554331111 1111222245
Q ss_pred HHHHHHHcc---CCCCCCcc-------eEEEEEEccc----chh--hhccCCC------CceEEEEecCchhhchhhhcc
Q 004379 376 NILKIIFRD---KGTAHSAY-------YRVHVREADA----NAA--DVLKGKA------SRTLSWWCFNPGIAMQEFSRL 433 (758)
Q Consensus 376 ~~l~~~~~~---~~~~~~~~-------y~~~~~~~~~----~~~--~~~~~~~------~~~l~~~~l~p~~~l~~~l~~ 433 (758)
+++..++.. .....+.. |.+.-. ++. +.+ +...++. -+.+.+||++|+..|++++.+
T Consensus 400 dlld~~fs~~~~~g~~~~~~~~~~e~s~~~~~~-~d~~~~~~~~~~~v~~~~~s~~~~~~~vi~~wcf~p~~sf~d~~~k 478 (945)
T KOG1132|consen 400 DLLDISFSVILQNGSFSSDASFSVEQSYSFGNH-LDAPHVINANLGDVWKGKSSRKLGNYPVINFWCFSPGYSFRDLLGK 478 (945)
T ss_pred HHHHHHhhccccCCccccchhhhhhhhhccccc-CCcccccccccccccccccccccCcccceeeeecCcchhHHHHhcc
Confidence 666666552 11101111 111000 000 001 0001111 134789999999999999986
Q ss_pred cccEEEEecccCCChHhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHHhh
Q 004379 434 EVGSIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIAR 513 (758)
Q Consensus 434 ~~~~vil~SaTL~p~~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~~~ 513 (758)
..++||||||||+|++.|..+||+++...+++||++...|+|+.+++.||.+..+.++|.++..++|..++++.|...++
T Consensus 479 ~vrsIiLtSGTLsP~~s~~~El~~~f~~~lEn~hii~~~qv~~~vv~~Gp~~~ql~sty~nr~~~ey~~~lg~~i~~v~r 558 (945)
T KOG1132|consen 479 GVRSIILTSGTLSPMDSFASELGLEFKIQLENPHIINKSQVWVGVVPKGPDGAQLDSTYGNRFTPEYLSELGEAILNVAR 558 (945)
T ss_pred cceeEEEecccccCchhHHHHhCCccceeeecchhccccceEEEeeccCCCccccccccccccCHHHHHHHHHHHHHHHh
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEec
Q 004379 514 IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCR 593 (758)
Q Consensus 514 ~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~ 593 (758)
++|.|+|||||||.+|+++..+|+.. ++|+++...|.+++|++...++.+++..|.+++......|+++|+|||
T Consensus 559 vVp~G~L~FfPSY~vmdk~~tfw~~~------~~we~~~~vk~l~vEPr~k~~f~e~m~~y~~~i~~pes~ga~~~aVcR 632 (945)
T KOG1132|consen 559 VVPYGLLIFFPSYPVMDKLITFWQNR------GLWERMEKVKKLVVEPRSKSEFTEVMSRYYNAIADPESSGAVFFAVCR 632 (945)
T ss_pred hcccceEEeccchHHHHHHHHHHHcc------hHHHHhhcccCceeccCCccchHHHHHHHHHHhhCccccceEEEEEec
Confidence 99999999999999999999999875 789999999999999999889999999999999854457899999999
Q ss_pred CccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCccc
Q 004379 594 GKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVI 673 (758)
Q Consensus 594 g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlI 673 (758)
|+.|||+||.|+..|+||++|||||+..||.|++|++|+|.+.+....+ .+.++|.+||..+|+|+||||+||+|
T Consensus 633 GKVSEGlDFsD~~~RaVI~tGlPyP~~~D~~V~lK~~y~D~~~~~~g~~-----s~~lsg~eWY~~qA~RAvNQAiGRvi 707 (945)
T KOG1132|consen 633 GKVSEGLDFSDDNGRAVIITGLPYPPVMDPRVKLKKQYLDENSSLKGAK-----SQLLSGQEWYSQQAYRAVNQAIGRVI 707 (945)
T ss_pred ccccCCCCccccCCceeEEecCCCCCCCCHHHHHHHHhhhhhccccccc-----cccccchHHHHhhHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999886543221 13589999999999999999999999
Q ss_pred cCCCCeEEEEEeeccCCCccccccchhhhhhhhcccCchhHHHHHHHHHHHHhhh
Q 004379 674 RHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTRFFREERI 728 (758)
Q Consensus 674 R~~~D~g~villD~R~~~~~y~~~l~~~l~~~~~~~~~~~~~~~~~~~Ff~~~~~ 728 (758)
||++|||+++|+|.||.+.+-...+|+|++. ......--+++..+-.++.....
T Consensus 708 RHR~D~Gav~l~D~Rfe~~~~~~~lskw~r~-~~~~~~~~~~~~~~~r~~r~~~~ 761 (945)
T KOG1132|consen 708 RHRNDYGAVILCDDRFENADARSQLSKWIRS-VKCDSRYCEVISSLARKFRTHRS 761 (945)
T ss_pred hhhcccceeeEeechhhcCccccccchhhhc-cccccccccccchhhhhhhcccc
Confidence 9999999999999999998777779999998 33222222333334444444443
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=2.8e-104 Score=930.05 Aligned_cols=640 Identities=32% Similarity=0.520 Sum_probs=478.1
Q ss_pred CeeecCCCCC-CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCC
Q 004379 8 GIDVEFPFEA-YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNS 86 (758)
Q Consensus 8 ~i~~~Fpf~~-r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (758)
+++|.|||++ ||+|+++|++|++++++++++++|||||||||+|.|||||+|+...+
T Consensus 1 ~~~v~FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~---------------------- 58 (705)
T TIGR00604 1 ELLVYFPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKP---------------------- 58 (705)
T ss_pred CCceecCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhcc----------------------
Confidence 3679999998 99999999999999999999999999999999999999999988644
Q ss_pred CCCCCCCCCeEEEeCCccchHHHHHHHhhcCC----------CCCceEEecCCcccccchhhhhccC-cchhHHHHHHhh
Q 004379 87 SQSGDSKLPTILYTSRTHSQLRQVIQELKTSN----------YRPKMVILGSREQLCIHREVSLLRG-SAQNNACRFLCK 155 (758)
Q Consensus 87 ~~~~~~~~~kIi~~trT~sql~Q~i~eLkkl~----------~~~~~~~l~sr~~lCi~~~~~~~~~-~~~~~~c~~l~~ 155 (758)
..+|||||||||+|+.|+++||+++. ..+++++++||+++|+|+.+..... ...++.|+.+..
T Consensus 59 ------~~~kIiy~sRThsQl~q~i~Elk~~~~~~~~~~~~~~~i~~v~L~SR~~lCin~~v~~~~~~~~~~~~C~~l~~ 132 (705)
T TIGR00604 59 ------EVRKIIYASRTHSQLEQATEELRKLMSYRTPRIGEESPVSGLSLASRKNLCLHPEVSKERQGKVVNGKCIKLTV 132 (705)
T ss_pred ------ccccEEEEcccchHHHHHHHHHHhhhhccccccccCCceeEEEechHhhcccChHHHhhcchhhHHHHHHHHHh
Confidence 23699999999999999999999964 1356789999999999998865433 235678987754
Q ss_pred cCC---------CCCCCCCcchhhhhhcCCCCCCCCCChhHHHHhcccCCCcchhhhhhhhcCccEEEecCccccChhhh
Q 004379 156 KGT---------NRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFR 226 (758)
Q Consensus 156 ~~~---------~~~c~~~~~~~~~~~~~~~~~~~~~di~~l~~~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl~~~~~ 226 (758)
... ...|+||.+..........+..+++|+||++++|++++.||||.+|+.++.|||||+|||||||+.+|
T Consensus 133 ~~~~~~~~~~~~~~~C~yy~~~~~~~~~~~~~~~~~~diEdL~~~g~~~~~CPY~~sr~~~~~advIi~pYnyl~dp~~r 212 (705)
T TIGR00604 133 SKIKEQRTEKPNVESCEFYENFDELREVEDLLLSEIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIR 212 (705)
T ss_pred hhhcccccccCCCCCCCCCchhhhhhhhhhhcccCCCCHHHHHHhcccCCCCccHHHHHhhhcCCEEEechHHhcCHHHH
Confidence 211 24599998865420001123456889999999999999999999999999999999999999999999
Q ss_pred hccCCCccccEEEEeCCcchHHHHhhhcccccChhhHHHHHHHHHHHHHHhhhccCCCCCCCCChhHHHHHHHHHHHHHH
Q 004379 227 KGLGVEWKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRALLLKLEK 306 (758)
Q Consensus 227 ~~~~i~~~~~ilIiDEAHnL~d~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~ 306 (758)
+.+++++++.+|||||||||+|+|++++|.+|+...|..+++++.++........ .......++.+..++..+.+
T Consensus 213 ~~~~~~l~~~ivI~DEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~l~~ 287 (705)
T TIGR00604 213 SAVSIELKDSIVIFDEAHNLDNVCISSLSSNLSVRSLKRCSKEIAEYFEKIEERK-----EVDARKLLDELQKLVEGLKQ 287 (705)
T ss_pred HHhhcccccCEEEEECccchHHHHHHHHhcccCHHHHHHHHHHHHHHHHHHHHhh-----ccchHHHHHHHHHHHHHHHH
Confidence 8888888999999999999999999999999999999999999977654321111 00011112223333333322
Q ss_pred HHHhC----CCCcccC--CC--------cCChhhHHHHHHHcCCChhhHHHHHHHHHHHHHHHHH-hhhhc---------
Q 004379 307 RIAEV----PINSKEL--GF--------TKPGPYIYELLADLNITQETAYKLIDIVEVAAELLQE-DKLQN--------- 362 (758)
Q Consensus 307 ~~~~~----~~~~~~~--~~--------~~~~~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~l~~-~~~~~--------- 362 (758)
....- ....... .. ..........+.++........++...+......+.. .....
T Consensus 288 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (705)
T TIGR00604 288 EDLLTDEDIFLANPVLPKEVLPEAVPGNIRIAEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLEHLKEKTFIDRPLRFC 367 (705)
T ss_pred HhhcccchhhhcCcCchhhccHHHhcccCCchHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhcccchhhhHH
Confidence 21100 0000000 00 0000000001100000000000111111000000000 00000
Q ss_pred --------------c--cCcccchHHHHHHHHHHHHccCCCCCCcceEEEEEEcccchhhhccCCCCceEEEEecCchhh
Q 004379 363 --------------K--KSTTACRIESISNILKIIFRDKGTAHSAYYRVHVREADANAADVLKGKASRTLSWWCFNPGIA 426 (758)
Q Consensus 363 --------------~--~~~~~~~l~~l~~~l~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~l~~~~l~p~~~ 426 (758)
. .......+..+..++..... .....+.... . .+..+..|.++|+||+..
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~----~------~~~~~~~l~~~~l~ps~~ 433 (705)
T TIGR00604 368 SERLSNLLRELEITHPEDFSALVLLFTFATLVLTYTN----GFLEGIEPYE----N------KTVPNPILKFMCLDPSIA 433 (705)
T ss_pred HHHHHHHHhhhccccccccccchHHHHHHHHHHHhcc----ccccceeEee----c------CCCCCceEEEEecChHHH
Confidence 0 00000011112222211110 0000010000 0 112346799999999999
Q ss_pred chhhhcccccEEEEecccCCChHhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHH
Q 004379 427 MQEFSRLEVGSIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGN 506 (758)
Q Consensus 427 l~~~l~~~~~~vil~SaTL~p~~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~ 506 (758)
|++++. +++++|||||||+|+++|.+.||++++...+.+|+++++|+++++++.++++.+|+++|.+|++++|.+++++
T Consensus 434 ~~~i~~-~~~svil~SgTL~p~~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~r~~~~~~~~l~~ 512 (705)
T TIGR00604 434 LKPLFE-RVRSVILASGTLSPLDAFPRNLGFNPVSQDSPTHILKRENLLTLIVTRGSDQVPLSSTFEIRNDPSLVRNLGE 512 (705)
T ss_pred HHHHHH-hcCEEEEecccCCcHHHHHHHhCCCCccceecCcccchHHeEEEEEeeCCCCCeeeeehhccCCHHHHHHHHH
Confidence 998887 8999999999999999999999998776667789998899999989999989999999999999999999999
Q ss_pred HHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCe
Q 004379 507 TIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGA 586 (758)
Q Consensus 507 ~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~ 586 (758)
.|.++++.+|||+|||||||++|+++++.|.+. +++++|.+.+.+|+|+++..+..+++++|++.+.. ++|+
T Consensus 513 ~i~~~~~~~pgg~lvfFpSy~~l~~v~~~~~~~------~~~~~i~~~k~i~~E~~~~~~~~~~l~~f~~~~~~--~~ga 584 (705)
T TIGR00604 513 LLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEM------GILENIEKKKLIFVETKDAQETSDALERYKQAVSE--GRGA 584 (705)
T ss_pred HHHHHhhcCCCcEEEEccCHHHHHHHHHHHHhc------CHHHHHhcCCCEEEeCCCcchHHHHHHHHHHHHhc--CCce
Confidence 999999999999999999999999999999975 56778877888999998776789999999987765 3589
Q ss_pred EEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcc-hhHHHHHHHHH
Q 004379 587 VFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGE-DWYNQQASRAV 665 (758)
Q Consensus 587 vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~-~~y~~~a~~~~ 665 (758)
|||||+||+|||||||+|+.||+|||+|||||+|.||.++++.+|+++..+ ..|+ .||..+|++++
T Consensus 585 vL~av~gGk~sEGIDf~~~~~r~ViivGlPf~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~y~~~a~~~v 651 (705)
T TIGR00604 585 VLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESRILLARLEFLRDQYP-------------IRENQDFYEFDAMRAV 651 (705)
T ss_pred EEEEecCCcccCccccCCCCCcEEEEEccCCCCCCCHHHHHHHHHHHhhcC-------------CCccHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999997642 1244 89999999999
Q ss_pred HHhcCccccCCCCeEEEEEeeccCCCccccccchhhhhhhhcccCchhHHH
Q 004379 666 NQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVV 716 (758)
Q Consensus 666 ~QaiGRlIR~~~D~g~villD~R~~~~~y~~~l~~~l~~~~~~~~~~~~~~ 716 (758)
+||+||+|||++|||+|+|+|+||.+.+|.+.||+|+++.+....++++++
T Consensus 652 ~QaiGR~IR~~~D~G~iillD~R~~~~~~~~~lp~W~~~~~~~~~~~~~~i 702 (705)
T TIGR00604 652 NQAIGRVIRHKDDYGSIVLLDKRYARSNKRKKLPKWIQDTIQSSDLNGMAI 702 (705)
T ss_pred HHHhCccccCcCceEEEEEEehhcCCcchhhhcCHHHHhhccccCCCcchh
Confidence 999999999999999999999999999999999999999999877777654
No 3
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=2.9e-102 Score=834.45 Aligned_cols=676 Identities=31% Similarity=0.519 Sum_probs=527.9
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCc-----------cc
Q 004379 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFS-----------TL 69 (758)
Q Consensus 1 ~~~~~i~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~-----------~~ 69 (758)
|.... +.++++|||+||..|+++|.++++.|++|+++|+|+||||||||+++|+||.|+..+++.. ++
T Consensus 1 M~~~~-~~~~F~fPy~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~eek~~t~~~~~l~~v~~ 79 (821)
T KOG1133|consen 1 MANET-GAIEFPFPYTPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDFEEKKRTEEARLLETVTG 79 (821)
T ss_pred CCccc-cccccCCCCCchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHhHHhhhhHHHhhhccCCC
Confidence 44444 6788999999999999999999999999999999999999999999999999999874321 00
Q ss_pred --------cc--------------cccc----------------------c--cCC------------------CCCCCC
Q 004379 70 --------GS--------------QVNN----------------------Q--ISG------------------SQSSVN 85 (758)
Q Consensus 70 --------~~--------------~~~~----------------------~--~~~------------------~~~~~~ 85 (758)
.. +++. . .++ +.+.+.
T Consensus 80 ~~~d~kde~d~~s~wl~~~~~~~~er~~~~r~l~~~qa~~~~re~r~q~~~~~~e~~k~ak~~~~e~~~reyl~~~e~~~ 159 (821)
T KOG1133|consen 80 PLHDEKDESDSSSAWLTQFVQKKEERDLVDRNLKAEQARFKQREERLQQLQHRVQGKKGAKRLRQEEEEREYLLSREMLE 159 (821)
T ss_pred ccccccccccchhHHHHHHHHHHHhhccchHHHHHhhchHHHHHHHHHhhhhHHhhhhhhhccccccccchhcchhhccC
Confidence 00 0000 0 000 000000
Q ss_pred -------------CCC---------CC-CCCCCeEEEeCCccchHHHHHHHhhcC--CCCCceEEecCCcccccchhhhh
Q 004379 86 -------------SSQ---------SG-DSKLPTILYTSRTHSQLRQVIQELKTS--NYRPKMVILGSREQLCIHREVSL 140 (758)
Q Consensus 86 -------------~~~---------~~-~~~~~kIi~~trT~sql~Q~i~eLkkl--~~~~~~~~l~sr~~lCi~~~~~~ 140 (758)
.++ .. ....-||+||||||+|+.|++.||+|+ +.+++++.+|||..+|+|+.++.
T Consensus 160 pg~~eq~e~~~~~e~s~D~e~~~~~~~~e~~p~KI~ycSRTHSQL~Qfv~ELrKt~f~~~vr~vsL~SRk~LCiNe~V~K 239 (821)
T KOG1133|consen 160 PGRLEQLESGEEAESSSDEEKKVASRVDEDAPVKIYYCSRTHSQLAQFVAELKKTPFGKKVRSVSLGSRKNLCINEDVKK 239 (821)
T ss_pred ccchhhhhcccccccccchhhccccCccccCCeeEEEecccchHHHHHHHHHhhcccccCceEEeecchhhcccCHHhcc
Confidence 000 00 112259999999999999999999998 45788999999999999999988
Q ss_pred ccC-cchhHHHHHHhhcCC---------------CCCCCCCcchhhh-hhcCCCCCCCCCChhHHHHhcccCCCcchhhh
Q 004379 141 LRG-SAQNNACRFLCKKGT---------------NRRCNHHSRVADY-MKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMT 203 (758)
Q Consensus 141 ~~~-~~~~~~c~~l~~~~~---------------~~~c~~~~~~~~~-~~~~~~~~~~~~di~~l~~~~~~~~~CpY~~~ 203 (758)
++. ...|+.|-.+.+.+. ...|+|++...-+ ..+ ....+++||||++..|+..+.||||.+
T Consensus 240 lk~~~~iNE~Cldlq~s~~~~~~~~~~~~~~~~~~~~Cpf~~~~q~~~~rd--~~l~e~~DiEdLv~lGk~~~~CPYY~S 317 (821)
T KOG1133|consen 240 LKSVDAINERCLDLQKSKHSLKPSKKMRMTRTKATARCPFYNHTQMEDLRD--EALSEVLDIEDLVALGKELRGCPYYAS 317 (821)
T ss_pred ccchhHHHHHHHHHHhccCcccccccchhcccccccCCCccchhHHHHHHH--HHhhhhccHHHHHHhhhhcCCCCchhh
Confidence 764 456999988876322 2359998432211 111 112378899999999999999999999
Q ss_pred hhhhcCccEEEecCccccChhhhhccCCCccccEEEEeCCcchHHHHhhhcccccChhhHHHHHHHHHHHHHHhhhccCC
Q 004379 204 RELQKTVDIVFAPYNYLIDPWFRKGLGVEWKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQ 283 (758)
Q Consensus 204 r~~~~~AdIIv~ny~yLl~~~~~~~~~i~~~~~ilIiDEAHnL~d~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~ 283 (758)
|+.++.||||+.||.+||+...|.+++|..+++|+||||||||.|++.++.|.+||..++..+...+..+.......
T Consensus 318 R~avp~aqlV~LPYQ~LL~~stR~slgI~LkdsIvIiDEAHNlidti~smhsa~Is~~ql~~a~~~i~~Y~~rf~~r--- 394 (821)
T KOG1133|consen 318 RRAVPQAQLVTLPYQLLLHESTRKSLGISLKDSIVIIDEAHNLIDTICSMHSAEISFSQLCRAHKQIQQYFERFGKR--- 394 (821)
T ss_pred hhccccccEEeccHHHHHhHHHHHhcCccccccEEEEechhHHHHHHHHhhhhheeHHHHHHHHHHHHHHHHHHHHh---
Confidence 99999999999999999999999999999999999999999999999999999999999999999998876543222
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHhCCCCcccCCCcCChhhHHHHHHHcCCChhhHHHHHHHHHHH--HHHHHHhhhh
Q 004379 284 SSDETLNPDNFAILRALLLKLEKRIAEVPINSKELGFTKPGPYIYELLADLNITQETAYKLIDIVEVA--AELLQEDKLQ 361 (758)
Q Consensus 284 ~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~l~~~--~~~l~~~~~~ 361 (758)
....|...+++++.-+.+.+.-+....+..+ ...+-...+++...+++.-++.+|.+.++.. ...++.....
T Consensus 395 -----l~~~N~~~l~ql~~l~~~ll~fl~~~~~~~~-~~~~~~~~dfl~~~~id~iNL~kl~~Yi~~S~i~rKv~G~~~r 468 (821)
T KOG1133|consen 395 -----LKAKNLMYLKQLLSLLRRLLKFLDSNCELNG-NGESLMRNDFLFSSGIDNINLFKLLDYIEKSKIARKVDGFGER 468 (821)
T ss_pred -----hCccchhHHHHHHHHHHHHHHHHHhhhhhCC-cccccchhhhhhhcCccceeHHHHHHHHHHhhHHHHhcchhhc
Confidence 2344544444443333222221111001100 0001112355666677777777777766532 1122211110
Q ss_pred cc-------------------cCccc-chHHHHHHHHHHHHccCCCCCCcceEEEEEEcccchhhhccCCCCceEEEEec
Q 004379 362 NK-------------------KSTTA-CRIESISNILKIIFRDKGTAHSAYYRVHVREADANAADVLKGKASRTLSWWCF 421 (758)
Q Consensus 362 ~~-------------------~~~~~-~~l~~l~~~l~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~l~~~~l 421 (758)
.. ..... +.|-.+..||..+.....++ ++.+. ...+..|++..+
T Consensus 469 ~~~~~s~plq~l~~~~~~~~ee~~~~ps~l~~l~~FL~~LTn~~~dG-----ri~~~-----------k~~s~~lky~lL 532 (821)
T KOG1133|consen 469 LSEVFSQPLQSLQKKRVEAEEESQLKPSPLFELSSFLGALTNNNEDG-----RIFYS-----------KQGSGTLKYMLL 532 (821)
T ss_pred chhhccchhhHhhhccccchhcccCCCchhHHHHHHHHHHhCCCCCC-----cEEEe-----------ccCCceEEEEec
Confidence 00 00011 35777888888776655443 23332 012367999999
Q ss_pred CchhhchhhhcccccEEEEecccCCChHhHHhhhCCCC---CccccCCccccCCCeEEEEeecCCCCcceeeeccccCCH
Q 004379 422 NPGIAMQEFSRLEVGSIILTSGTLSPMDSFAQELKLNF---PLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSI 498 (758)
Q Consensus 422 ~p~~~l~~~l~~~~~~vil~SaTL~p~~~f~~~lGl~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~ 498 (758)
+|+..|.+++. ++++||+.+|||.|.+.|...|+-.- ...+++.|+++++++..+++..||+|.++.++|+.|.++
T Consensus 533 ~pA~~f~evv~-earavvLAGGTMeP~~e~~e~L~~~~~~~i~~fsc~Hvip~e~il~~vv~~gpsg~p~eftf~~R~s~ 611 (821)
T KOG1133|consen 533 NPAKHFAEVVL-EARAVVLAGGTMEPVDELREQLFPGCPERISPFSCSHVIPPENILPLVVSSGPSGQPLEFTFETRESP 611 (821)
T ss_pred CcHHHHHHHHH-HhheeeecCCccccHHHHHHHhcccchhhccceecccccChhheeeeeeccCCCCCceEEEeeccCCh
Confidence 99999999998 99999999999999999988886422 235788999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHh
Q 004379 499 EYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKL 578 (758)
Q Consensus 499 ~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i 578 (758)
..++.++..|.+++.++|||++||||||++|.+|+++|... +++++|...|++|.|+++. ..++++.|...+
T Consensus 612 ~~l~~l~~~~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~~------gil~ri~~kK~vF~E~k~~--~~dvl~~Ya~a~ 683 (821)
T KOG1133|consen 612 EMIKDLGSSISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQN------GILARIVGKKKVFYEPKDT--VEDVLEGYAEAA 683 (821)
T ss_pred HHHHHHHHHHHHHHhhCCCcEEEEeccHHHHHHHHHHHHhc------chHHHhhccchhhccCccc--HHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999976 7899999999999999887 788999999988
Q ss_pred ccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHH
Q 004379 579 KDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYN 658 (758)
Q Consensus 579 ~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~ 658 (758)
..+ .|+|||+|.||++||||+|.|+.|||||+||||||++.|+.++.|+.|++.+..+|. .|+++|.
T Consensus 684 ~~g--~GaiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyPN~~s~EL~er~k~l~~k~~~~g-----------agke~yE 750 (821)
T KOG1133|consen 684 ERG--RGAILLAVVGGKLSEGINFSDDLGRAVVVVGLPYPNIQSVELQERMKHLDGKLPTPG-----------AGKELYE 750 (821)
T ss_pred hcC--CCeEEEEEeccccccccccccccccEEEEeecCCCCCCCHHHHHHHHHhhhccCCCC-----------chHHHHH
Confidence 775 599999999999999999999999999999999999999999999999998866432 3679999
Q ss_pred HHHHHHHHHhcCccccCCCCeEEEEEeeccCCCccccccchhhhhhhhcccCchhHHHHHHHHHHHHhh
Q 004379 659 QQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTRFFREER 727 (758)
Q Consensus 659 ~~a~~~~~QaiGRlIR~~~D~g~villD~R~~~~~y~~~l~~~l~~~~~~~~~~~~~~~~~~~Ff~~~~ 727 (758)
.-+|++|||+|||.|||.+||++|+|||.||..+ ..+.+|+|+.+.+....+++++++.++.||..+.
T Consensus 751 nlCMkAVNQsIGRAIRH~~DYA~i~LlD~RY~~p-~~RKLp~WI~~~v~s~~~~G~~ir~~~~ff~~k~ 818 (821)
T KOG1133|consen 751 NLCMKAVNQSIGRAIRHRKDYASIYLLDKRYARP-LSRKLPKWIRKRVHSKAGFGPAIRATRKFFRAKS 818 (821)
T ss_pred HHHHHHHHHHHHHHHhhhccceeEEEehhhhcCc-hhhhccHHHHhHhccccCccHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999999954 4559999999888888899999999999998764
No 4
>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=5.3e-83 Score=663.57 Aligned_cols=655 Identities=28% Similarity=0.469 Sum_probs=491.0
Q ss_pred CeeeEcCeeecCCCCC-CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCC
Q 004379 2 PTYKIRGIDVEFPFEA-YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGS 80 (758)
Q Consensus 2 ~~~~i~~i~~~Fpf~~-r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~ 80 (758)
+++.|+++.|.|||+. ||+|.++|.++.++|+.++|+++|.|+|||||.++|.-.++|+...+.
T Consensus 1 Mk~~id~l~v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~--------------- 65 (755)
T KOG1131|consen 1 MKFYIDDLLVYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPD--------------- 65 (755)
T ss_pred CeeeecCeeEecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCc---------------
Confidence 5799999999999995 999999999999999999999999999999999999999999988753
Q ss_pred CCCCCCCCCCCCCCCeEEEeCCccchHHHHHHHhhcC--------CCCCce--EEecCCcccccchhhhhcc-CcchhHH
Q 004379 81 QSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELKTS--------NYRPKM--VILGSREQLCIHREVSLLR-GSAQNNA 149 (758)
Q Consensus 81 ~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~eLkkl--------~~~~~~--~~l~sr~~lCi~~~~~~~~-~~~~~~~ 149 (758)
...|+||||||...++..+.||+++ |++... ..+.||..+|+|+.+...+ +...+..
T Consensus 66 ------------~~~KliYCSRTvpEieK~l~El~~l~~y~~k~~g~~~~flglglssRKNlCi~~~v~~~r~g~~VD~~ 133 (755)
T KOG1131|consen 66 ------------EHRKLIYCSRTVPEIEKALEELKRLMDYREKHLGYPEPFLGLGLSSRKNLCIHPEVLKERNGNVVDAA 133 (755)
T ss_pred ------------ccceEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCceeeeeeccccccccCHHHHHHhcCCchhHH
Confidence 2358999999999999999999764 454443 4689999999999987654 3456789
Q ss_pred HHHHhh-----cCC----CCCCCCCcchhhhhhcCCCCCCCCCChhHHHHhcccCCCcchhhhhhhhcCccEEEecCccc
Q 004379 150 CRFLCK-----KGT----NRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYL 220 (758)
Q Consensus 150 c~~l~~-----~~~----~~~c~~~~~~~~~~~~~~~~~~~~~di~~l~~~~~~~~~CpY~~~r~~~~~AdIIv~ny~yL 220 (758)
|+.+.. +.. -..|.|+.++..- ...++.+.++++|+.++|++.+.||||.+|..+..|+|||-+|+||
T Consensus 134 Cr~ltas~vr~~~~ed~~~~~C~f~en~~~~---~~~lp~gvy~~~dL~~~g~~k~~CPYflaR~~I~~~nvivYsYhYl 210 (755)
T KOG1131|consen 134 CRKLTASYVRAKLAEDPNVELCDFFENLEDK---ESLLPVGVYTLEDLKEYGEKKGWCPYFLARRMIPFANVIVYSYHYL 210 (755)
T ss_pred HHHHhHHHHHHHHhcCCCcchhhHHhhhhcc---cccCCcccccHHHHHHhhhcCCcChHHHHHHhhhcccEEEEehhhh
Confidence 987764 111 2489999887651 2235667889999999999999999999999999999999999999
Q ss_pred cChhhhhccC-CCccccEEEEeCCcchHHHHhhhcccccChhhHHHHHHHHHHHHHHhhhccCCCCCCCCChhHHHHHHH
Q 004379 221 IDPWFRKGLG-VEWKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRA 299 (758)
Q Consensus 221 l~~~~~~~~~-i~~~~~ilIiDEAHnL~d~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 299 (758)
+||.|.+-.. -.-++++||||||||+.++|.+.+|..++...++.+.+.+..........+ ..+.....++++++.+
T Consensus 211 lDPkIa~~VSkels~~svVvFDEAHNIDnvCIeslSv~i~r~~l~ra~~~l~~l~~~v~r~k--~~d~~kl~~eY~klve 288 (755)
T KOG1131|consen 211 LDPKIAELVSKELSKESVVVFDEAHNIDNVCIESLSVDITRRTLERASRNLNSLEQLVNRVK--ETDSQKLQDEYEKLVE 288 (755)
T ss_pred cChHHHHHHHHhhCcCcEEEecccccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhh--hcchhHHHHHHHHHHH
Confidence 9999864322 345789999999999999999999999999999998887755432211111 1111111223333322
Q ss_pred HHHHHHHHHHhCCCCcccCCCc----CChhhHHHHHHHcCCChhhHHHHHHHHHHHHHHHHH------------------
Q 004379 300 LLLKLEKRIAEVPINSKELGFT----KPGPYIYELLADLNITQETAYKLIDIVEVAAELLQE------------------ 357 (758)
Q Consensus 300 ~l~~l~~~~~~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~l~~------------------ 357 (758)
.|. .......+..+- -|++.+.+. ..-+......+...++.+.+.+..
T Consensus 289 ---gL~----~~~~~~~~d~~lanPvLP~dvl~Ea---vPGniR~aeHFv~fLkR~~ey~ktrl~~~hv~~Esp~sFl~~ 358 (755)
T KOG1131|consen 289 ---GLK----DASAERDEDQFLANPVLPDDVLKEA---VPGNIRRAEHFVSFLKRLLEYLKTRLKVHHVIQESPASFLKS 358 (755)
T ss_pred ---Hhh----ccccccCccchhcCCCCchhhhhhh---CCcchhhHHHHHHHHHHHHHHHHHhhhheeeeccCcHHHHHH
Confidence 221 111101100000 011111110 111111222222222222221110
Q ss_pred hhh-----hcccCcccchHHHHHHHHH------------------HHHccCCCCCCcceEEEEEEcccchhhhccCCCCc
Q 004379 358 DKL-----QNKKSTTACRIESISNILK------------------IIFRDKGTAHSAYYRVHVREADANAADVLKGKASR 414 (758)
Q Consensus 358 ~~~-----~~~~~~~~~~l~~l~~~l~------------------~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~ 414 (758)
..+ ++..+....||..+...|+ ++.. ++.-|.+.+.+.+.. ...-.++
T Consensus 359 i~~~~~IerKplrFCaeRL~~L~~tLeitd~~df~~l~~v~~faTlVst-----Y~kGF~iIiEPfd~~----~~tv~np 429 (755)
T KOG1131|consen 359 IKSLTFIERKPLRFCAERLSSLVRTLEITDVEDFGALKTVADFATLVST-----YSKGFSIIIEPFDDR----NPTVPNP 429 (755)
T ss_pred HHHhhhhhccchHHHHHHHHHHHHHhccCchhhhhHHHHHHHHHHHHHH-----HhcCcEEEEcccccC----CCCCCCC
Confidence 000 0011222334444333332 2211 122244555322211 1122467
Q ss_pred eEEEEecCchhhchhhhcccccEEEEecccCCChHhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccc
Q 004379 415 TLSWWCFNPGIAMQEFSRLEVGSIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRN 494 (758)
Q Consensus 415 ~l~~~~l~p~~~l~~~l~~~~~~vil~SaTL~p~~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~ 494 (758)
.|++.|+|.+..+++.+. ++++||.|||||+|++.+-+.|.+......+.......+.+..+++.+|.+...+++.|+.
T Consensus 430 il~~sClDaSiAikPVf~-RFqsViITSGTlspldmyPk~lnf~pv~~~s~~mtLaR~c~~PmiitrG~Dqv~iss~fe~ 508 (755)
T KOG1131|consen 430 ILRFSCLDASIAIKPVFE-RFQSVIITSGTLSPLDMYPKILNFGPVVGASFTMTLARNCLLPLIITRGNDQVAISSKFEA 508 (755)
T ss_pred eeEEeecccchhhhHHHH-hhheEEEecCcccccccCchhhccCcccchhhheecccccccceeeecCCcchhhhhhhhh
Confidence 899999999999999998 9999999999999999999998875433222223333344445778899888899999999
Q ss_pred cCCHHHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHH
Q 004379 495 RDSIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDY 574 (758)
Q Consensus 495 r~~~~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~ 574 (758)
|+++....++++.+.+..+.+|+|+++|||||-+|+.+...|... +|++.+-++|.+|+|..+..+..-+++.|
T Consensus 509 r~d~~VvrnyG~llve~sk~vpdG~v~ff~sylYmesiv~~w~~~------gil~ei~k~KL~fIetpD~~ETs~al~ny 582 (755)
T KOG1131|consen 509 RGDPSVVRNYGNLLVEMSKIVPDGIVCFFPSYLYMESIVSRWYEQ------GILDEIMKYKLLFIETPDFRETSLALANY 582 (755)
T ss_pred ccChHHHhhcCcceeeecccCCCceEEEEehHHHHHHHHHHHHHH------hHHHHHhhCceEEEeCCchhhhHHHHHHH
Confidence 999999999999999999999999999999999999999999986 78999999999999999988888899999
Q ss_pred HHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcc
Q 004379 575 MAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGE 654 (758)
Q Consensus 575 ~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~ 654 (758)
++.|+.+ +|+|||+|+||+.+|||||.++++|+||+.|+||.......++++.+|+..+.+ +..+
T Consensus 583 ~~aC~~g--RGavl~sVargkVsEgidF~hhyGR~ViM~gIP~qytesriLkarle~Lrd~~~-------------irE~ 647 (755)
T KOG1131|consen 583 RYACDNG--RGAVLLSVARGKVSEGIDFDHHYGREVIMEGIPYQYTESRILKARLEYLRDQFQ-------------IREN 647 (755)
T ss_pred HHHhcCC--CCceEEEEecCccccCcccccccCceEEEEeccchhhHHHHHHHHHHHHHHHhc-------------cccc
Confidence 9999874 699999999999999999999999999999999999888889999999998865 4556
Q ss_pred hhHHHHHHHHHHHhcCccccCCCCeEEEEEeeccCCCccccccchhhhhhhhcc---cCchhHHHHHHHHHHHHhhhc
Q 004379 655 DWYNQQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQC---YSKFGDVVYTLTRFFREERIC 729 (758)
Q Consensus 655 ~~y~~~a~~~~~QaiGRlIR~~~D~g~villD~R~~~~~y~~~l~~~l~~~~~~---~~~~~~~~~~~~~Ff~~~~~~ 729 (758)
++...+|||...||+||++|.++|||.+|+.|+||....-+..+|+|+++.+.. .-+.++.+.--++|++...+.
T Consensus 648 dflTFDAmRhaAQC~GrvLr~K~dYg~mI~aDkRf~R~dKR~klp~wi~~~l~~~~~nlstd~a~~varrflR~maQp 725 (755)
T KOG1131|consen 648 DFLTFDAMRHAAQCLGRVLRGKTDYGLMIFADKRFSRGDKRSKLPKWIRNHLFDAKLNLSTDMANQVARRFLRLMAQP 725 (755)
T ss_pred ceechHhHHHHHHHHHHHHhccccceeeEeeehhhccccchhhhhHHHHhhhhhhccCCCcchhHHHHHHHHHHhcCC
Confidence 778899999999999999999999999999999999977778999999998764 234467777788888887763
No 5
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=100.00 E-value=8.1e-83 Score=741.60 Aligned_cols=604 Identities=18% Similarity=0.209 Sum_probs=408.1
Q ss_pred cCC-CCCCHHHHHHHHHHHHHHhc-----CCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCC
Q 004379 12 EFP-FEAYDCQLVYMEKVIQSLQN-----KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVN 85 (758)
Q Consensus 12 ~Fp-f~~r~~Q~~~~~~i~~al~~-----~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (758)
.+| |++|++|.+||..|+++|.+ ++++++|||||||||+|||+||+.|+..+++
T Consensus 20 ~~~~~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k-------------------- 79 (697)
T PRK11747 20 QLPGFIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKK-------------------- 79 (697)
T ss_pred hCCCCCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCC--------------------
Confidence 345 99999999999999999998 5899999999999999999999999987664
Q ss_pred CCCCCCCCCCeEEEeCCccchHHHHHH----Hhhc-CCCCCceEEecCC-cccccchhhhhccCcch-------------
Q 004379 86 SSQSGDSKLPTILYTSRTHSQLRQVIQ----ELKT-SNYRPKMVILGSR-EQLCIHREVSLLRGSAQ------------- 146 (758)
Q Consensus 86 ~~~~~~~~~~kIi~~trT~sql~Q~i~----eLkk-l~~~~~~~~l~sr-~~lCi~~~~~~~~~~~~------------- 146 (758)
+|||+|.|+++|+|++. .|++ ++..+++++++|| ||+|++++...+.....
T Consensus 80 ----------~vVIST~T~~LQeQL~~kDlP~l~~~l~~~~~~~llKGr~nYlCl~r~~~~l~~~~~~~~~~~~~~~~~~ 149 (697)
T PRK11747 80 ----------KLVISTATVALQEQLVSKDLPLLLKISGLDFKFTLAKGRGRYVCPRKLAALASDEGTQQDLLLFLDDELT 149 (697)
T ss_pred ----------eEEEEcCCHHHHHHHHhhhhhHHHHHcCCCceEEEEcCccccccHHHHHHHhccccccchhhhhcccccc
Confidence 79999999999999974 3455 4778888876666 99999998764421100
Q ss_pred ---hHHHHHHhhcCC-CCCCCCCcchhhhhhcCCCCCCCCCChhHHHHh---------cccCCCcchhhhhhhhcCccEE
Q 004379 147 ---NNACRFLCKKGT-NRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNI---------GRTFGPCPYFMTRELQKTVDIV 213 (758)
Q Consensus 147 ---~~~c~~l~~~~~-~~~c~~~~~~~~~~~~~~~~~~~~~di~~l~~~---------~~~~~~CpY~~~r~~~~~AdII 213 (758)
......+..... -..-.|.++++++.. .. ...+|+.++. |..+..|||+.+|+.++.||||
T Consensus 150 ~~~~~~~~~l~~l~~~~~~~t~tGD~del~~-----~~-~~~~w~~v~~~~~~C~~~~Cp~~~~Cf~~~ar~~a~~Adiv 223 (697)
T PRK11747 150 PPDEEEQKLLARLAKALATGKWDGDRDHWPE-----PI-DDSLWQRITTDKHSCLGRNCPYFRECPFFKARREIDEADVV 223 (697)
T ss_pred CCCHHHHHHHHHHHHHHhcCCCcCcHhhCcC-----CC-cHHHHHHhhcCccccCCCCCCCCccChHHHHHHHHhhCCEE
Confidence 011111111000 001135566666521 00 1134554432 3346789999999999999999
Q ss_pred EecCccccChhhhhccCCCc--cccEEEEeCCcchHHHHhhhcccccChhhHHHHHHHHHHHHHHhhhccCCCCCCCCCh
Q 004379 214 FAPYNYLIDPWFRKGLGVEW--KNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNP 291 (758)
Q Consensus 214 v~ny~yLl~~~~~~~~~i~~--~~~ilIiDEAHnL~d~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 291 (758)
|+||+||+.+...+.-.++| +.+++||||||||+|+|+++++.+++...+..+++.+.+.......... .......
T Consensus 224 VtNH~LLladl~~~~~~iLp~~~~~~lViDEAH~L~d~A~~~~~~~~s~~~~~~~l~~l~~~~~~~~~~~~--~~~~~~~ 301 (697)
T PRK11747 224 VANHDLVLADLELGGGVVLPDPENLLYVLDEGHHLPDVARDHFAASAELKGTADWLEKLLKLLTKLVALIM--EPPLALP 301 (697)
T ss_pred EECcHHHHhhhhccCCcccCCCCCCEEEEECccchHHHHHHHhhhhccHHHHHHHHHHHHHHHHHHHHhhc--ccccccH
Confidence 99999998665321223554 5889999999999999999999999998888877777543221111000 0000010
Q ss_pred hH----HHHHHHHHHHHHHHHHhCCCC---cccCCCcC-C-hhhHHHHHHHcCCChhhHHHHHHHHHHHHHHHHHhhh--
Q 004379 292 DN----FAILRALLLKLEKRIAEVPIN---SKELGFTK-P-GPYIYELLADLNITQETAYKLIDIVEVAAELLQEDKL-- 360 (758)
Q Consensus 292 ~~----~~~l~~~l~~l~~~~~~~~~~---~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~l~~~~~-- 360 (758)
.. ...+.+++..+...+...... .....+.. . ..........+ ...+..+...+..+.+.+.+...
T Consensus 302 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~l~~l~~~l~~l~~~l~~~~~~~ 378 (697)
T PRK11747 302 ERLNAHCEELRELLASLNQILNLFLPAGGEEARYRFEMGELPEELLELAERL---AKLTEKLLGLLEKLLNDLSEAMKTG 378 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccccccccccccCCCCcHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 11 122333333333333321100 00000000 0 00001100000 11112222222222222221000
Q ss_pred ----------hcccCcccchHHHHHHHHHHHHccCCCCCCcceEEEEEEcccchhhhccCCCCceEEEEecCchhhchhh
Q 004379 361 ----------QNKKSTTACRIESISNILKIIFRDKGTAHSAYYRVHVREADANAADVLKGKASRTLSWWCFNPGIAMQEF 430 (758)
Q Consensus 361 ----------~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~l~~~~l~p~~~l~~~ 430 (758)
..+......+++.+.+.+..+......+.. .+..|+. .... .+..+..|...|++|+..|++.
T Consensus 379 ~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~-~~v~Wie-~~~~-----~~~~~~~l~~~Pl~~~~~l~~~ 451 (697)
T PRK11747 379 KIDIVRLERLLLELGRALGRLEALSKLWRLAAKEDQESGA-PMARWIT-REER-----DGQGDYLFHASPIRVGDQLERL 451 (697)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCC-CceEEEE-eccC-----CCCceEEEEEecCCHHHHHHHH
Confidence 001122345666677777776644322111 1223332 1110 0112456889999999999877
Q ss_pred hcccccEEEEecccCCCh---HhHHhhhCCCC---C--ccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHH
Q 004379 431 SRLEVGSIILTSGTLSPM---DSFAQELKLNF---P--LRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQ 502 (758)
Q Consensus 431 l~~~~~~vil~SaTL~p~---~~f~~~lGl~~---~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~ 502 (758)
++.+++++|||||||+|. ++|.+.||++. . ..+++||++. +|.. +++|..+ +..+++++|.+
T Consensus 452 l~~~~~~vIltSATL~~~~~f~~~~~~lGL~~~~~~~~~~~~SpF~~~-~q~~-l~vp~~~--------~~p~~~~~~~~ 521 (697)
T PRK11747 452 LWSRAPGAVLTSATLRSLNSFDRFQEQSGLPEKDGDRFLALPSPFDYP-NQGK-LVIPKMR--------AEPDNEEAHTA 521 (697)
T ss_pred HHhhCCEEEEEeeeCCCCCchHHHHHHcCCCCCCCceEEEcCCCCCHH-HccE-EEeCCCC--------CCCCCcHHHHH
Confidence 776999999999999974 67789999973 1 2456777764 4443 3455432 11246788999
Q ss_pred HHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCC
Q 004379 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTS 582 (758)
Q Consensus 503 ~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~ 582 (758)
.+++.|.+++. ++||+|||||||+.|++|++.|.... ...++.++ . ....+++++|++.+..
T Consensus 522 ~~~~~i~~l~~-~~gg~LVlFtSy~~l~~v~~~l~~~~-------------~~~ll~Q~-~-~~~~~ll~~f~~~~~~-- 583 (697)
T PRK11747 522 EMAEFLPELLE-KHKGSLVLFASRRQMQKVADLLPRDL-------------RLMLLVQG-D-QPRQRLLEKHKKRVDE-- 583 (697)
T ss_pred HHHHHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHhc-------------CCcEEEeC-C-chHHHHHHHHHHHhcc--
Confidence 99999999999 89999999999999999999886421 13455554 3 3578899999988775
Q ss_pred CCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHH
Q 004379 583 TSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQAS 662 (758)
Q Consensus 583 ~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~ 662 (758)
++++||||+ |||||||||||+.|++|||+|||||+|+||+++++.+|++++|+++|. ++++|+|+
T Consensus 584 ~~~~VL~g~--~sf~EGVD~pGd~l~~vII~kLPF~~p~dp~~~ar~~~~~~~g~~~F~-------------~~~lP~A~ 648 (697)
T PRK11747 584 GEGSVLFGL--QSFAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLKSRGGNPFM-------------EISVPDAS 648 (697)
T ss_pred CCCeEEEEe--ccccccccCCCCceEEEEEEcCCCCCCCCHHHHHHHHHHHHhcCCcHH-------------HHHHHHHH
Confidence 358999999 999999999999999999999999999999999999999999998885 34899999
Q ss_pred HHHHHhcCccccCCCCeEEEEEeeccCCCccccccchhhhhhhh
Q 004379 663 RAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHI 706 (758)
Q Consensus 663 ~~~~QaiGRlIR~~~D~g~villD~R~~~~~y~~~l~~~l~~~~ 706 (758)
++++||+|||||+++|+|+|+|+|+|+.+++||+.|.++||+..
T Consensus 649 ~kl~Qg~GRlIRs~~D~G~i~ilD~R~~~~~Yg~~~l~sLP~~~ 692 (697)
T PRK11747 649 FKLIQAVGRLIRSEQDRGRVTILDRRLLTKRYGKRLLDALPPFK 692 (697)
T ss_pred HHHHHHhccccccCCceEEEEEEcccccchhHHHHHHHhCCCCc
Confidence 99999999999999999999999999999999999999999854
No 6
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=1.2e-81 Score=753.56 Aligned_cols=619 Identities=18% Similarity=0.199 Sum_probs=412.6
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCC
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (758)
|++||+|.+||+.|.++|.+++++++|||||||||+|||+||+.|+...++
T Consensus 256 ~e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~----------------------------- 306 (928)
T PRK08074 256 YEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEE----------------------------- 306 (928)
T ss_pred CcCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCC-----------------------------
Confidence 899999999999999999999999999999999999999999998876543
Q ss_pred CeEEEeCCccchHHHHHH----Hhhc-CCCCCceEEec-CCcccccchhhhhccCcchhHHHHHHhhcCCCCCC-----C
Q 004379 95 PTILYTSRTHSQLRQVIQ----ELKT-SNYRPKMVILG-SREQLCIHREVSLLRGSAQNNACRFLCKKGTNRRC-----N 163 (758)
Q Consensus 95 ~kIi~~trT~sql~Q~i~----eLkk-l~~~~~~~~l~-sr~~lCi~~~~~~~~~~~~~~~c~~l~~~~~~~~c-----~ 163 (758)
+|||+|.|+++|+|+++ .|++ +++++++++++ .+||+|++++...+.....+..-. +.+ +... .
T Consensus 307 -~vvIsT~T~~LQ~Ql~~kDiP~L~~~~~~~~~~~~lKGr~nYlcl~k~~~~l~~~~~~~~~~-~~~---~~ll~Wl~~T 381 (928)
T PRK08074 307 -PVVISTYTIQLQQQLLEKDIPLLQKIFPFPVEAALLKGRSHYLCLRKFEQALQEEDDNYDVA-LTK---AQLLVWLTET 381 (928)
T ss_pred -eEEEEcCCHHHHHHHHHhhHHHHHHHcCCCceEEEEEcccccccHHHHHHHHhccCCCHHHH-HHH---HHHHHHHccC
Confidence 79999999999999975 3555 46678887655 459999999876543222121111 111 1111 2
Q ss_pred CCcchhhhhhcCCCCCCCCCChhHHHH---------hcccCCCcchhhhhhhhcCccEEEecCccccChhhhhccCCCcc
Q 004379 164 HHSRVADYMKNNPHLGDEPIDIEDLVN---------IGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWK 234 (758)
Q Consensus 164 ~~~~~~~~~~~~~~~~~~~~di~~l~~---------~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl~~~~~~~~~i~~~ 234 (758)
+.++++++. .......+|+.++ -|..+..|||+.+|+.++.|||||+||+||+.+... ...+.|+
T Consensus 382 ~tGD~dEl~-----~~~~~~~~w~~i~~~~~~c~~~~cp~~~~Cf~~~ar~~a~~AdivItNHalLl~dl~~-~~~ilp~ 455 (928)
T PRK08074 382 ETGDLDELN-----LPSGGKLLWNRIASDGESDGGKQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDLTS-EEPLLPS 455 (928)
T ss_pred CCCCHHHcc-----CCCCCcchHHHhhccCcccCCCCCCcccccHHHHHHHHHhcCCEEEECHHHHHHHHhh-hcccCCC
Confidence 356777652 1111123455333 133466799999999999999999999999976533 2246789
Q ss_pred ccEEEEeCCcchHHHHhhhcccccChhhHHHHHHHHHHHHHH----hhhccCCCCC--C-CCChhHHHHHHHHHHHHHHH
Q 004379 235 NSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDI----SSTRRGQSSD--E-TLNPDNFAILRALLLKLEKR 307 (758)
Q Consensus 235 ~~ilIiDEAHnL~d~~~~~~s~~is~~~l~~~~~~l~~~~~~----~~~~~~~~~~--~-~~~~~~~~~l~~~l~~l~~~ 307 (758)
++++||||||||+|+|+++++.++|...+..+++.+...... .......... . ....+....+..+...+++.
T Consensus 456 ~~~lViDEAH~l~d~A~~~~~~~~s~~~~~~~l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 535 (928)
T PRK08074 456 YEHIIIDEAHHFEEAASRHLGEQFSYMSFQLLLSRLGTLEEDGLLSKLAKLFKKSDQASRSSFRDLDESLKELKFEADEL 535 (928)
T ss_pred CCeEEEECCchHHHHHHHHhcceecHHHHHHHHHHHhhhccccHHHHHHHHHhhcchhhhhHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999988887776321100 0000000000 0 00000001111111111111
Q ss_pred -------HHhCCCCcc--c--CCCcC---ChhhHHHHHHHcCCChhhHHHHHHHHHHHHHHHHHhhhhc-----ccCccc
Q 004379 308 -------IAEVPINSK--E--LGFTK---PGPYIYELLADLNITQETAYKLIDIVEVAAELLQEDKLQN-----KKSTTA 368 (758)
Q Consensus 308 -------~~~~~~~~~--~--~~~~~---~~~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~l~~~~~~~-----~~~~~~ 368 (758)
+........ . ..+.. .+.........+......+..+.+.+..+...+++..... ......
T Consensus 536 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~l~~~~~~~~~~~~~~~~~~ 615 (928)
T PRK08074 536 FQMLRSFVLKRKKQEQNGRLIYRYNTESEKGKLWDAITELANRLCYDLRDLLTLLEAQKKELQEKMESESAFLTGEYAHL 615 (928)
T ss_pred HHHHHHHHhhcccccccccceeecccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHHH
Confidence 111100000 0 00000 0000000000000000111222222222111111110000 000112
Q ss_pred chHHHHHHHHHHHHccCCCCCCcceEEEEEEcccchhhhccCCCCceEEEEecCchhhchhhhcccccEEEEecccCCC-
Q 004379 369 CRIESISNILKIIFRDKGTAHSAYYRVHVREADANAADVLKGKASRTLSWWCFNPGIAMQEFSRLEVGSIILTSGTLSP- 447 (758)
Q Consensus 369 ~~l~~l~~~l~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~l~~~~l~p~~~l~~~l~~~~~~vil~SaTL~p- 447 (758)
.++.+..+.+..++.... ..+..|+. .... .......|...|++++..+++.++.+++++|||||||++
T Consensus 616 ~~l~~~~~~l~~~~~~~~----~~~v~w~e-~~~~-----~~~~~~~l~~~pld~~~~l~~~l~~~~~~~iltSATL~~~ 685 (928)
T PRK08074 616 IDLLEKMAQLLQLLFEED----PDYVTWIE-IDAK-----GAINATRLYAQPVEVAERLADEFFAKKKSVILTSATLTVN 685 (928)
T ss_pred HHHHHHHHHHHHHHhcCC----CCeEEEEE-ecCC-----CCCceEEEEEeeccHHHHHHHHHHhcCCcEEEEeeecccC
Confidence 233444444444443322 12223332 1110 011234678899999999998887789999999999995
Q ss_pred --hHhHHhhhCCCC-C---ccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHHhhhcCCcEEE
Q 004379 448 --MDSFAQELKLNF-P---LRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIVPDGLLI 521 (758)
Q Consensus 448 --~~~f~~~lGl~~-~---~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~~~~~~g~~lv 521 (758)
+++|.+.||++. . ..+++||++. +|..++ +|.+.+. ...+++++|.+.+++.|.+++..++||+||
T Consensus 686 ~~f~~~~~~lGl~~~~~~~~~~~SpF~~~-~q~~l~-vp~d~p~------~~~~~~~~~~~~la~~i~~l~~~~~g~~LV 757 (928)
T PRK08074 686 GSFDYIIERLGLEDFYPRTLQIPSPFSYE-EQAKLM-IPTDMPP------IKDVPIEEYIEEVAAYIAKIAKATKGRMLV 757 (928)
T ss_pred CCcHHHHHhcCCCCCCccEEEeCCCCCHH-HhcEEE-eecCCCC------CCCCChHHHHHHHHHHHHHHHHhCCCCEEE
Confidence 667889999963 2 3567777774 455454 4443211 123556789999999999999999999999
Q ss_pred EeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEecCcccccc
Q 004379 522 FFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGL 600 (758)
Q Consensus 522 ~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGi 600 (758)
|||||++|++|++.|.+... .....++.|+ +..+..+++++|++ .+++||||+ |||||||
T Consensus 758 LFtSy~~l~~v~~~l~~~~~-----------~~~~~ll~Qg~~~~~r~~l~~~F~~------~~~~iLlG~--~sFwEGV 818 (928)
T PRK08074 758 LFTSYEMLKKTYYNLKNEEE-----------LEGYVLLAQGVSSGSRARLTKQFQQ------FDKAILLGT--SSFWEGI 818 (928)
T ss_pred EECCHHHHHHHHHHHhhccc-----------ccCceEEecCCCCCCHHHHHHHHHh------cCCeEEEec--CcccCcc
Confidence 99999999999999975421 1123344443 33568889999986 468999998 9999999
Q ss_pred ccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCccccCCCCeE
Q 004379 601 DFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYG 680 (758)
Q Consensus 601 D~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlIR~~~D~g 680 (758)
||||+.|++|||+|||||+|+||.++++.+|++++|+++|++| ++|+|+++++||+||+||+++|+|
T Consensus 819 D~pg~~l~~viI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~-------------~lP~A~~~lkQg~GRlIRs~~D~G 885 (928)
T PRK08074 819 DIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQEL-------------SLPQAVLRFKQGFGRLIRTETDRG 885 (928)
T ss_pred ccCCCceEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhhh-------------hhHHHHHHHHhhhhhhcccCCceE
Confidence 9999999999999999999999999999999999999998644 789999999999999999999999
Q ss_pred EEEEeeccCCCccccccchhhhhhhhcccCchhHHHHHHHHHH
Q 004379 681 AIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTRFF 723 (758)
Q Consensus 681 ~villD~R~~~~~y~~~l~~~l~~~~~~~~~~~~~~~~~~~Ff 723 (758)
+|+|+|+|+.+++||+.|+++||+......++.++...++.|+
T Consensus 886 ~v~ilD~R~~~k~Yg~~~l~sLP~~~~~~~~~~~~~~~~~~~~ 928 (928)
T PRK08074 886 TVFVLDRRLTTTSYGKYFLESLPTVPVYEGTLEELLEEVEEFL 928 (928)
T ss_pred EEEEecCccccchHHHHHHHhCCCCCcccCCHHHHHHHHHhhC
Confidence 9999999999999999999999986555678999999999884
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=3.7e-78 Score=721.63 Aligned_cols=582 Identities=18% Similarity=0.205 Sum_probs=404.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
..|++||.|.+||+.|.+++.+++++++|||||||||+|||+||+.|+. .+
T Consensus 242 ~~~~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~~---------------------------- 292 (850)
T TIGR01407 242 LGLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-TE---------------------------- 292 (850)
T ss_pred cCCccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-CC----------------------------
Confidence 4589999999999999999999999999999999999999999999876 22
Q ss_pred CCCeEEEeCCccchHHHHHH-Hhh---c-CCCCCceEE-ecCCcccccchhhhhccCcchhHHHHHHhhcCCCCCCCCC-
Q 004379 93 KLPTILYTSRTHSQLRQVIQ-ELK---T-SNYRPKMVI-LGSREQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCNHH- 165 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~-eLk---k-l~~~~~~~~-l~sr~~lCi~~~~~~~~~~~~~~~c~~l~~~~~~~~c~~~- 165 (758)
.+|+|+|+|+++++|++. ++. + ++.++++++ +|++||+|+.++...+.....+..|.. .+ +..|.|+
T Consensus 293 --~~vvi~t~t~~Lq~Ql~~~~~~~l~~~~~~~~~~~~~kG~~~ylcl~k~~~~l~~~~~~~~~~~-~~---~~~~~wl~ 366 (850)
T TIGR01407 293 --KPVVISTNTKVLQSQLLEKDIPLLNEILNFKINAALIKGKSNYLSLGKFSQILKDNTDNYEFNI-FK---MQVLVWLT 366 (850)
T ss_pred --CeEEEEeCcHHHHHHHHHHHHHHHHHHcCCCceEEEEEcchhhccHHHHHHHHhcCCCcHHHHH-HH---HHHHHHhc
Confidence 379999999999999875 443 3 355677775 566699999988765543333444542 22 3456664
Q ss_pred ----cchhhhhhcCCCCCCCCCChhHHHH-------hcccCCCcchhhhhhhhcCccEEEecCccccChhhhhccCCCcc
Q 004379 166 ----SRVADYMKNNPHLGDEPIDIEDLVN-------IGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWK 234 (758)
Q Consensus 166 ----~~~~~~~~~~~~~~~~~~di~~l~~-------~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl~~~~~~~~~i~~~ 234 (758)
++++++.. .......|+.++ .|..++.|||+.+|+.+++||||||||+||+++.... ..+.++
T Consensus 367 ~T~tGD~~el~~-----~~~~~~~~~~i~~~~~l~~~c~~~~~Cf~~~ar~~a~~AdivItNHa~L~~~~~~~-~~ilp~ 440 (850)
T TIGR01407 367 ETETGDLDELNL-----KGGNKMFFAQVRHDGNLSKKDLFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDN-PELFPS 440 (850)
T ss_pred cCCccCHhhccC-----CCcchhhHHHhhcCCCCCCCCCCccccHHHHHHHHHhcCCEEEecHHHHHHHhhcc-cccCCC
Confidence 55555411 111112344322 2445788999999999999999999999999886542 236678
Q ss_pred ccEEEEeCCcchHHHHhhhcccccChhhHHHHHHHHHHHHHHhhhccCCCCCCCCChhHHHHHHHHHHHHHHHHHhCCCC
Q 004379 235 NSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRALLLKLEKRIAEVPIN 314 (758)
Q Consensus 235 ~~ilIiDEAHnL~d~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~ 314 (758)
+.++||||||||+|+|+++++.+++...+..+++++..... ......+.+++..........
T Consensus 441 ~~~lIiDEAH~L~d~a~~~~~~~ls~~~~~~~l~~l~~~~~---------------~~l~~~l~~~~~~~~~~~~~~--- 502 (850)
T TIGR01407 441 FRDLIIDEAHHLPDIAENQLQEELDYADIKYQIDLIGKGEN---------------EQLLKRIQQLEKQEILEKLFD--- 502 (850)
T ss_pred CCEEEEECcchHHHHHHHHhcceeCHHHHHHHHHHHHhhhh---------------HHHHHHHHHHHHHHHHHHHhh---
Confidence 88999999999999999999999999999888777632110 011112222222111110000
Q ss_pred cccCCCcCChhhHHHHHHHcCCChhhHHHHHHHHHHHHHHHHHhhh--hcccCcccchHHHHHHHHHHHHccCCCCCCcc
Q 004379 315 SKELGFTKPGPYIYELLADLNITQETAYKLIDIVEVAAELLQEDKL--QNKKSTTACRIESISNILKIIFRDKGTAHSAY 392 (758)
Q Consensus 315 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~l~~~~~--~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~ 392 (758)
+. .... ...+...++.+...+..... ..........+..+...+..+....... ..
T Consensus 503 -----~~-----~~~~----------~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~--~~ 560 (850)
T TIGR01407 503 -----FE-----TKDI----------LKDLQAILDKLNKLLQIFSELSHKTVDQLRKFDLALKDDFKNIEQSLKEG--HT 560 (850)
T ss_pred -----hh-----hhhH----------HHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHhccC--Ce
Confidence 00 0000 00111111111111110000 0000000111122122221111111111 12
Q ss_pred eEEEEEEcccchhhhccCCCCceEEEEecCchhhchhhhcccccEEEEecccCC---ChHhHHhhhCCCCCc--cc-cCC
Q 004379 393 YRVHVREADANAADVLKGKASRTLSWWCFNPGIAMQEFSRLEVGSIILTSGTLS---PMDSFAQELKLNFPL--RV-ENP 466 (758)
Q Consensus 393 y~~~~~~~~~~~~~~~~~~~~~~l~~~~l~p~~~l~~~l~~~~~~vil~SaTL~---p~~~f~~~lGl~~~~--~~-~~~ 466 (758)
+|+.. ... .......+...|++|+..+.+.++.+.+++|||||||+ |+++|.+.||++... .+ ++|
T Consensus 561 ~wi~~---~~~-----~~~~~~~l~~~pl~~~~~l~~~~~~~~~~~il~SATL~~~~~~~~~~~~lGl~~~~~~~~~~sp 632 (850)
T TIGR01407 561 SWISI---ENL-----QQKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTSATLKFSHSFESFPQLLGLTDVHFNTIEPTP 632 (850)
T ss_pred EEEEe---cCC-----CCCceEEEEeeeCcHHHHHHHHHhccCCeEEEEecccccCCChHHHHHhcCCCccccceecCCC
Confidence 33332 110 00123467889999999987777668999999999999 788999999997432 33 466
Q ss_pred ccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchh
Q 004379 467 HVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTT 546 (758)
Q Consensus 467 ~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~ 546 (758)
+.+. +|..++ +|...+ .+..++.++|.+.+++.|.+++...+|++|||||||+.|+++++.|......
T Consensus 633 f~~~-~~~~l~-v~~d~~------~~~~~~~~~~~~~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~~~~---- 700 (850)
T TIGR01407 633 LNYA-ENQRVL-IPTDAP------AIQNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHMVYDMLNELPEF---- 700 (850)
T ss_pred CCHH-HcCEEE-ecCCCC------CCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhhccc----
Confidence 6553 454444 443321 1223556789999999999999999999999999999999999998753210
Q ss_pred HHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHH
Q 004379 547 IWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVR 626 (758)
Q Consensus 547 i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~ 626 (758)
....++.++. ..+..+++++|++ ++++||||+ |+|||||||+|+.+++|||+|||||+|+||.++
T Consensus 701 ------~~~~~l~q~~-~~~r~~ll~~F~~------~~~~iLlgt--~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~ 765 (850)
T TIGR01407 701 ------EGYEVLAQGI-NGSRAKIKKRFNN------GEKAILLGT--SSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTK 765 (850)
T ss_pred ------cCceEEecCC-CccHHHHHHHHHh------CCCeEEEEc--ceeecccccCCCceEEEEEeCCCCCCCCCHHHH
Confidence 1122333333 3468889999986 568999998 999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCccccCCCCeEEEEEeeccCCCccccccchhhhhhhh
Q 004379 627 LKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHI 706 (758)
Q Consensus 627 ~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlIR~~~D~g~villD~R~~~~~y~~~l~~~l~~~~ 706 (758)
++.+|++++++++|. +|++|+|+++++||+||+||+++|+|+|+|+|+|+.+++||+.|+++||+..
T Consensus 766 a~~~~~~~~g~~~f~-------------~~~lP~A~~~l~Qa~GRlIRs~~D~G~v~ilD~R~~~~~Yg~~~~~sLp~~~ 832 (850)
T TIGR01407 766 KYWQKLEQEGKNPFY-------------DYVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYGKRFEKSLPEYL 832 (850)
T ss_pred HHHHHHHHhcCCchH-------------HhhHHHHHHHHHHhhccccccCCceEEEEEEccccccchHHHHHHHhCCCcc
Confidence 999999999988885 3478999999999999999999999999999999999999999999999876
Q ss_pred cccC-chhHHHHHHHHHH
Q 004379 707 QCYS-KFGDVVYTLTRFF 723 (758)
Q Consensus 707 ~~~~-~~~~~~~~~~~Ff 723 (758)
.... +++++..+++.|+
T Consensus 833 ~~~~~~~~~~~~~~~~~~ 850 (850)
T TIGR01407 833 QVKGDILGELLEAIKEFL 850 (850)
T ss_pred ccccCCHHHHHHHHHhhC
Confidence 6544 5999999999985
No 8
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=1.7e-73 Score=671.16 Aligned_cols=559 Identities=17% Similarity=0.158 Sum_probs=379.0
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCC
Q 004379 14 PFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSK 93 (758)
Q Consensus 14 pf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (758)
.|++|++|.+||+.|+++|.+++++++|||||||||+|||+|++.+..
T Consensus 243 ~~e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~~-------------------------------- 290 (820)
T PRK07246 243 GLEERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQSD-------------------------------- 290 (820)
T ss_pred CCccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhcC--------------------------------
Confidence 389999999999999999999999999999999999999999887531
Q ss_pred CCeEEEeCCccchHHHHH-HHhhcCC--CCCce-EEecCCcccccchhhhhccCcchhHHHHHHhhcCCCCCCCC-----
Q 004379 94 LPTILYTSRTHSQLRQVI-QELKTSN--YRPKM-VILGSREQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCNH----- 164 (758)
Q Consensus 94 ~~kIi~~trT~sql~Q~i-~eLkkl~--~~~~~-~~l~sr~~lCi~~~~~~~~~~~~~~~c~~l~~~~~~~~c~~----- 164 (758)
.++|+++|.|..+++|++ +++..+. ..+++ +++|+.||+|++++...+.....+..-. +.+ +....|
T Consensus 291 ~~~vvI~t~T~~Lq~Ql~~~~i~~l~~~~~~~~~~~kg~~~ylcl~k~~~~l~~~~~~~~~~-~~~---~~il~Wl~~T~ 366 (820)
T PRK07246 291 QRQIIVSVPTKILQDQIMAEEVKAIQEVFHIDCHSLKGPQNYLKLDAFYDSLQQNDDNRLVN-RYK---MQLLVWLTETE 366 (820)
T ss_pred CCcEEEEeCcHHHHHHHHHHHHHHHHHhcCCcEEEEECCcccccHHHHHHHhhccCcchHHH-HHH---HHHHHHHhcCC
Confidence 147999999999999996 4444321 23444 4677779999999876543221121111 111 111122
Q ss_pred CcchhhhhhcCCCCCCCCCChhHHHH-------hcccCCCcchhhhhhhhcCccEEEecCccccChhhhhccCCCccccE
Q 004379 165 HSRVADYMKNNPHLGDEPIDIEDLVN-------IGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWKNSI 237 (758)
Q Consensus 165 ~~~~~~~~~~~~~~~~~~~di~~l~~-------~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl~~~~~~~~~i~~~~~i 237 (758)
.++++++. ........|+.++ -|..++.|+|+.+|+.++.|||||+||+||++....+ +..|+.++
T Consensus 367 tGD~~El~-----~~~~~~~~w~~i~~~~~~~~~cp~~~~cf~~~ar~~a~~AdivItNHall~~~~~~~--~~~p~~~~ 439 (820)
T PRK07246 367 TGDLDEIK-----QKQRYAAYFDQLKHDGNLSQSSLFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDD--KDFARNKV 439 (820)
T ss_pred CCCHhhcc-----CCccccHHHHHhhccCCCCCCCCcchhhHHHHHHHHHHhCCEEEEchHHHHHHHhhc--cCCCCCCE
Confidence 35555541 1111112355433 2344678999999999999999999999998765332 24578999
Q ss_pred EEEeCCcchHHHHhhhcccccChhhHHHHHHHHHHHHHHhhhccCCCCCCCCChhHHHHHHHHHHHHHHHHHhCCCCccc
Q 004379 238 LIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRALLLKLEKRIAEVPINSKE 317 (758)
Q Consensus 238 lIiDEAHnL~d~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~ 317 (758)
+||||||||++++.+.++..++...+...+..+...... . .....+..+...+..+ ...+..
T Consensus 440 lIiDEAH~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~--------~~~~~~~~~~~~~~~~---~~~~~~---- 501 (820)
T PRK07246 440 LVFDEAQKLMLQLEQLSRHQLNITSFLQTIQKALSGPLP---L--------LQKRLLESISFELLQL---SEQFYQ---- 501 (820)
T ss_pred EEEECcchhHHHHHHHhcceecHHHHHHHHHHHHHHHHH---H--------HhhhhHHHHHHHHHHH---HHHHHh----
Confidence 999999999999887777778877776555433111000 0 0000111111111111 111100
Q ss_pred CCCcCChhhHHHHHHHcCCChhhHHHHHHHHHHHHHHHHHhhhhcccCcccchHHHHHHHHHHHHccCCCCCCcceEEEE
Q 004379 318 LGFTKPGPYIYELLADLNITQETAYKLIDIVEVAAELLQEDKLQNKKSTTACRIESISNILKIIFRDKGTAHSAYYRVHV 397 (758)
Q Consensus 318 ~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~l~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~y~~~~ 397 (758)
.. . . ..+...+..+...++.... .....+..++.... ..||+..
T Consensus 502 ------~~-~------~-------~~~~~~l~~l~~~l~~l~~------------~~~~~~~~~~~~~~----~~~W~e~ 545 (820)
T PRK07246 502 ------GK-E------R-------QLIHDSLSRLHQYFSELEV------------AGFQELQAFFATAE----GDYWLES 545 (820)
T ss_pred ------hh-h------h-------HHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHhCCC----CeEEEEe
Confidence 00 0 0 0001111111111111000 01111222222211 1244432
Q ss_pred EEcccchhhhccCCCCceEEEEecCchhhchhhhcccccEEEEecccCCC--hHhHHhhhCCCCCccccCCccccCCCeE
Q 004379 398 READANAADVLKGKASRTLSWWCFNPGIAMQEFSRLEVGSIILTSGTLSP--MDSFAQELKLNFPLRVENPHVITSKQIW 475 (758)
Q Consensus 398 ~~~~~~~~~~~~~~~~~~l~~~~l~p~~~l~~~l~~~~~~vil~SaTL~p--~~~f~~~lGl~~~~~~~~~~~~~~~~~~ 475 (758)
...+ ......|...|++++. ++.++. +.+++|||||||+. .-+|.+.||++.......|+++.. |..
T Consensus 546 ---~~~~-----~~~~~~l~~~pl~v~~-~~~~~~-~~~~~i~tSATL~v~~~f~~~~~lGl~~~~~~~~~~~~~~-~~~ 614 (820)
T PRK07246 546 ---EKQS-----EKRVTYLNSASKAFTH-FSQLLP-ETCKTYFVSATLQISPRVSLADLLGFEEYLFHKIEKDKKQ-DQL 614 (820)
T ss_pred ---cCCC-----CcceeEEEeeeCcHHH-HHHHHh-cCCeEEEEecccccCCCCcHHHHcCCCccceecCCCChHH-ccE
Confidence 1100 0111357888999985 466665 88999999999973 235899999975444455666653 432
Q ss_pred EEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCC
Q 004379 476 AGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHK 555 (758)
Q Consensus 476 ~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k 555 (758)
+ +++.+.+ .+..+++++|.+.+++.|..++ .++|++|||||||++|++|++.+... ..
T Consensus 615 ~-~i~~~~p------~~~~~~~~~~~~~~~~~i~~~~-~~~g~~LVLFtS~~~l~~v~~~l~~~--------------~~ 672 (820)
T PRK07246 615 V-VVDQDMP------LVTETSDEVYAEEIAKRLEELK-QLQQPILVLFNSKKHLLAVSDLLDQW--------------QV 672 (820)
T ss_pred E-EeCCCCC------CCCCCChHHHHHHHHHHHHHHH-hcCCCEEEEECcHHHHHHHHHHHhhc--------------CC
Confidence 3 3443221 1123456789999999999988 78999999999999999999888532 12
Q ss_pred CCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHH
Q 004379 556 KPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQ 635 (758)
Q Consensus 556 ~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~ 635 (758)
.++.++.+ .....++++|++ ++++||||+ |||||||||||+.+.+|||+|||||+|+||.++++.+|++++
T Consensus 673 ~~l~Qg~~-~~~~~l~~~F~~------~~~~vLlG~--~sFwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~ 743 (820)
T PRK07246 673 SHLAQEKN-GTAYNIKKRFDR------GEQQILLGL--GSFWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQE 743 (820)
T ss_pred cEEEeCCC-ccHHHHHHHHHc------CCCeEEEec--chhhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHh
Confidence 34444433 346678888875 468999999 999999999988888899999999999999999999999999
Q ss_pred hhccCCCccccccccCCcchhHHHHHHHHHHHhcCccccCCCCeEEEEEeeccCCCccccccchhhhhhhhcc-cCchhH
Q 004379 636 AQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQC-YSKFGD 714 (758)
Q Consensus 636 ~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlIR~~~D~g~villD~R~~~~~y~~~l~~~l~~~~~~-~~~~~~ 714 (758)
|+++|++| .+|+|+++++||+|||||+++|+|+|+|+|+|+.+++||+.|++|||+.+.. ..++++
T Consensus 744 g~~~F~~~-------------~lP~A~iklkQg~GRLIRs~~D~Gvv~ilD~R~~~k~Yg~~~l~sLP~~~~~~~~~~~~ 810 (820)
T PRK07246 744 GKNPFYDY-------------FLPMTILRLKQAIGRTMRREDQKSAVLILDRRILTKSYGKQILASLAEEFLISQQNFSD 810 (820)
T ss_pred CCCchhhe-------------eHHHHHHHHHHHhcccccCCCCcEEEEEECCcccccHHHHHHHHhCCCCCccccCCHHH
Confidence 99999655 6899999999999999999999999999999999999999999999986443 678999
Q ss_pred HHHHHHHHHH
Q 004379 715 VVYTLTRFFR 724 (758)
Q Consensus 715 ~~~~~~~Ff~ 724 (758)
+.+++++||.
T Consensus 811 ~~~~~~~f~~ 820 (820)
T PRK07246 811 VLVEIDRFLI 820 (820)
T ss_pred HHHHHHHhhC
Confidence 9999999983
No 9
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=6.4e-73 Score=665.34 Aligned_cols=603 Identities=24% Similarity=0.308 Sum_probs=389.2
Q ss_pred eeecCC-CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCC
Q 004379 9 IDVEFP-FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSS 87 (758)
Q Consensus 9 i~~~Fp-f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (758)
..+.|| |+||+.|++||..|.+++.+++++++|||||||||++||+|||.|+...++
T Consensus 7 ~~~~~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~---------------------- 64 (654)
T COG1199 7 LAVAFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGK---------------------- 64 (654)
T ss_pred HHhhCCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCC----------------------
Confidence 345666 679999999999999999999999999999999999999999999987653
Q ss_pred CCCCCCCCeEEEeCCccchHHHHHHHhhcCC--C---CCceEEecCC-cccccchhhhh-ccCcchhHHHHHH----hhc
Q 004379 88 QSGDSKLPTILYTSRTHSQLRQVIQELKTSN--Y---RPKMVILGSR-EQLCIHREVSL-LRGSAQNNACRFL----CKK 156 (758)
Q Consensus 88 ~~~~~~~~kIi~~trT~sql~Q~i~eLkkl~--~---~~~~~~l~sr-~~lCi~~~~~~-~~~~~~~~~c~~l----~~~ 156 (758)
+|||+|+|+.|++|++++...+. . ..+...++|| ||+|+.+.... ..+......|... +..
T Consensus 65 --------~viist~t~~lq~q~~~~~~~~~~~~~~~~~~~~~~kgr~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 136 (654)
T COG1199 65 --------KVIISTRTKALQEQLLEEDLPIHKLLKKLGGKFALLKGRSNYLCLSRLERLAQLGGDDDDYLQSLALKALAD 136 (654)
T ss_pred --------cEEEECCCHHHHHHHHHhhcchhhhhhhhhhHHHHHhccccccchHHHHHHHHccCcchhHHhhhhHHHHHH
Confidence 79999999999999999876541 1 1134555566 89999887742 2222223344431 000
Q ss_pred CCCCCCCC-CcchhhhhhcCCCCCCCCCC-hh---H--HHHhcccCCCcchhhhhhhhcCccEEEecCccccChhhhhcc
Q 004379 157 GTNRRCNH-HSRVADYMKNNPHLGDEPID-IE---D--LVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGL 229 (758)
Q Consensus 157 ~~~~~c~~-~~~~~~~~~~~~~~~~~~~d-i~---~--l~~~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl~~~~~~~~ 229 (758)
.....|.+ .++..+... .......+. .+ + ....|..+..|||+.+|+.++.||++|+||++++.....+..
T Consensus 137 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~cp~~~~c~~~~~~~~~~~ad~vv~nh~~~~~~~~~~~~ 214 (654)
T COG1199 137 LLVWLTETKTGDLRELTP--KALDDPLWTLVTDDKDSCLGEDCPYYTECFYFPARKEAENADLVVTNHALLLADVALEES 214 (654)
T ss_pred HHHHhhcCCCCChhhccc--cccccchhhhhhcccccccccCCcchhhhHHHHHHHHHhhCCEEEEccHHHHhHHHhhhh
Confidence 00011111 112221100 001111111 11 1 112355678899999999999999999999999987766333
Q ss_pred CC-CccccEEEEeCCcchHHHHhhhcccccChhhHHHHHHHHHHHHHHhhhccCCCCCCCCChhHHHHHHHHHHHHHHHH
Q 004379 230 GV-EWKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRALLLKLEKRI 308 (758)
Q Consensus 230 ~i-~~~~~ilIiDEAHnL~d~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~ 308 (758)
.. .|++.++||||||||++.|++++|..++...|..++.++....... ......+......|...+
T Consensus 215 ~~~~p~~~v~v~DEAH~l~d~a~~~~s~~l~~~~L~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~L~~~~ 281 (654)
T COG1199 215 RILLPENDVVVFDEAHNLPDIARSALSIRLSERTLERLLKEIQALGETL-------------EKDLKRLEDLADRLEKAL 281 (654)
T ss_pred hccCCcccEEEEeccccchHHHHHHHHHHhhHHHHHHHHHHHHHhhhhh-------------hhhHHHHHhhHHHHHHHH
Confidence 22 5789999999999999999999999999999999888876543210 000011111111122221
Q ss_pred HhCCC---CcccCCCc----CChhhHHHHHHHcCCChhhHHHHHHHHHHHHHHHHHhhhhcccCcccchHHHHHHHHHHH
Q 004379 309 AEVPI---NSKELGFT----KPGPYIYELLADLNITQETAYKLIDIVEVAAELLQEDKLQNKKSTTACRIESISNILKII 381 (758)
Q Consensus 309 ~~~~~---~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~l~~~~~~~~~~~~~~~l~~l~~~l~~~ 381 (758)
..... ........ .......+.... ........+...++.+...+..... ........+..+...+..+
T Consensus 282 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~--~~d~~~~~~~~~~~~~~~~ 357 (654)
T COG1199 282 EDLRELLIFDVDELGNLRERLREQLSSEEAKE--ALGKLEEALLEKLKNLSELLGLSQN--ELDRPTSILERLKEELDRL 357 (654)
T ss_pred HHHHHHHhcchhhhhhHHHhccccchhhHHHH--HHHHHHHHHHHHHHHHHHHHHhhhh--hccchhHHHHHHHHHHHHH
Confidence 11110 00000000 000000000000 0000001111111111111111100 0010113445555555544
Q ss_pred Hc--cCCCCCCcceEEEEEEcccchhhhccCCCCc-eEEEEecCchhhchhhhcccccEEEEecccCCChHhHHhhhCCC
Q 004379 382 FR--DKGTAHSAYYRVHVREADANAADVLKGKASR-TLSWWCFNPGIAMQEFSRLEVGSIILTSGTLSPMDSFAQELKLN 458 (758)
Q Consensus 382 ~~--~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~-~l~~~~l~p~~~l~~~l~~~~~~vil~SaTL~p~~~f~~~lGl~ 458 (758)
.. .... ....|..|+... ..... .+...|.+|+...++++. +++++|||||||+|.++|...+|+.
T Consensus 358 ~~~~~~~~-~~~~~~~w~~~~---------~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~vl~SaTL~~~~~f~~~~~~~ 426 (654)
T COG1199 358 LSRELLLS-DDPDYSYWLEIE---------EREGVLLLVLPLLVPSKLLEELFS-KVASVVLTSATLSPLDSFSSLLGLL 426 (654)
T ss_pred Hhhccccc-CCCCceEEEEec---------ccccceeEEeecccHHHHHHHHHh-hcCcEEEeeeeccCCCcHHHHHHHc
Confidence 42 1111 112244444211 11112 245667777877778876 8999999999999999887666654
Q ss_pred C---C---ccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHHH
Q 004379 459 F---P---LRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQC 532 (758)
Q Consensus 459 ~---~---~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v 532 (758)
. . ..+.+|+.+. .+..+ .+|. .|.+++++.+.+.++..|.+++...|||+|||||||++|+.+
T Consensus 427 ~~~~~~~~~~~~spf~~~-~~~~~-~v~~---------~~~~~~~~~~~~~~~~~i~~~~~~~~~~~lvlF~Sy~~l~~~ 495 (654)
T COG1199 427 GLEEKLRFLSLPSPFNYE-EQGQL-YVPT---------DLPEPREPELLAKLAAYLREILKASPGGVLVLFPSYEYLKRV 495 (654)
T ss_pred CCccccceeccCCCCChh-hcceE-eccc---------cCCCCCChHHHHHHHHHHHHHHhhcCCCEEEEeccHHHHHHH
Confidence 2 1 2234454443 23322 2332 334455578899999999999999999999999999999999
Q ss_pred HHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEE
Q 004379 533 IACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVI 612 (758)
Q Consensus 533 ~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii 612 (758)
++.|..... ...++.+ +..+...++++|+.. .++ +++|++|+|||||||+|+.|++|||
T Consensus 496 ~~~~~~~~~------------~~~v~~q--~~~~~~~~l~~f~~~-----~~~--~~lv~~gsf~EGVD~~g~~l~~vvI 554 (654)
T COG1199 496 AERLKDERS------------TLPVLTQ--GEDEREELLEKFKAS-----GEG--LILVGGGSFWEGVDFPGDALRLVVI 554 (654)
T ss_pred HHHHhhcCc------------cceeeec--CCCcHHHHHHHHHHh-----cCC--eEEEeeccccCcccCCCCCeeEEEE
Confidence 999986421 0112223 333466899999873 222 4445559999999999999999999
Q ss_pred EccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCccccCCCCeEEEEEeeccCCCc
Q 004379 613 TGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHP 692 (758)
Q Consensus 613 ~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlIR~~~D~g~villD~R~~~~ 692 (758)
+|||||+|+||.+++|.+|.++.|+++|. +||+|+|+++++||+||+||+++|+|+|+|||+|+.++
T Consensus 555 ~~lPfp~p~dp~~~~r~~~~~~~g~~~f~-------------~~~l~~A~~~l~QavGRlIR~~~D~G~ivllD~R~~~~ 621 (654)
T COG1199 555 VGLPFPNPDDPLLKARLEFLKRLGGDPFE-------------EFYLPPAVIKLRQAVGRLIRSEDDRGVIVLLDKRYATK 621 (654)
T ss_pred EecCCCCCCCHHHHHHHHHHHHhcCCCce-------------EeehHHHHHHHHHhhccccccCCCceEEEEecccchhh
Confidence 99999999999999999999999998884 56999999999999999999999999999999999999
Q ss_pred cccccchhhhhhhhcccCchhHHH
Q 004379 693 SRKSQISLWIQPHIQCYSKFGDVV 716 (758)
Q Consensus 693 ~y~~~l~~~l~~~~~~~~~~~~~~ 716 (758)
+|++.||+|+|+..+.........
T Consensus 622 ~y~~~l~~~l~~~~~~~~~~~~~~ 645 (654)
T COG1199 622 RYGKLLLDSLPPFPKSKDLNPSAI 645 (654)
T ss_pred hHHHHHHHhCCCCcccccchhhHH
Confidence 999999999999888665544433
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=4.2e-71 Score=622.05 Aligned_cols=573 Identities=18% Similarity=0.145 Sum_probs=378.9
Q ss_pred HHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEE
Q 004379 20 CQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILY 99 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~ 99 (758)
+|.+||+.|+++|.+++++++|||||||||+|||+|++.|+.... .++|+|
T Consensus 1 ~Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~-----------------------------~~rvlI 51 (636)
T TIGR03117 1 EQALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERP-----------------------------DQKIAI 51 (636)
T ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhcc-----------------------------CceEEE
Confidence 599999999999999999999999999999999999999986422 158999
Q ss_pred eCCccchHHHHHHHhhcCC-----CCCceEE-ecCCcccccchhhhhccCcchhHH---HHHHhhcC---C---CCCCC-
Q 004379 100 TSRTHSQLRQVIQELKTSN-----YRPKMVI-LGSREQLCIHREVSLLRGSAQNNA---CRFLCKKG---T---NRRCN- 163 (758)
Q Consensus 100 ~trT~sql~Q~i~eLkkl~-----~~~~~~~-l~sr~~lCi~~~~~~~~~~~~~~~---c~~l~~~~---~---~~~c~- 163 (758)
+|+|+.+++|++++++.+. ..+++++ +|++||+|++++...+.....+.. -.++.+-. + ...|-
T Consensus 52 stpT~~Lq~Ql~~~l~~l~~~~l~~~i~~~~lkGr~nYlCl~rl~~~l~~~~~~~~~~i~~W~~~T~~~~~~~~~~~~~~ 131 (636)
T TIGR03117 52 AVPTLALMGQLWSELERLTAEGLAGPVQAGFFPGSQEFVSPGALQELLDQSGYDKDPAVQLWIGQGGPLIHEAALIRCMS 131 (636)
T ss_pred ECCcHHHHHHHHHHHHHHHHhhcCCCeeEEEEECCcccccHHHHHHHhcccchhHHHHHHHHHhcCCccccccchhcccc
Confidence 9999999999998776543 4666665 566699999998764432211111 01111100 0 00010
Q ss_pred -------C-CcchhhhhhcCCCCCCCCCChhHHHHhcccCCCcchhhhhhh---hcCccEEEecCccccChhhhhccCCC
Q 004379 164 -------H-HSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTREL---QKTVDIVFAPYNYLIDPWFRKGLGVE 232 (758)
Q Consensus 164 -------~-~~~~~~~~~~~~~~~~~~~di~~l~~~~~~~~~CpY~~~r~~---~~~AdIIv~ny~yLl~~~~~~~~~i~ 232 (758)
| .++++++.. ......+.+ + ...+.+..|+|+.+|+. ++.|||||+||+||+.. .++..+++
T Consensus 132 ~~~~~~~~~tGD~~el~~----~~~~~~~~~-~-~~~~~~~~~~~~~aR~~~~~a~~AdivItNHalL~~~-~~~~~~iL 204 (636)
T TIGR03117 132 DAPTKMHWMTHDLKAVAT----LLNRQDDVT-L-AIREDDEDKRLVESREYEAEARRCRILFCTHAMLGLA-FRDKWGLL 204 (636)
T ss_pred chhhccCCCCCCHhhccC----CcCcchhhh-c-cccCCCcccHHHHHHHHhhccccCCEEEECHHHHHHH-hhhhcCCC
Confidence 0 122222200 000000111 0 01112345899999998 99999999999999864 45455688
Q ss_pred ccccEEEEeCCcchHHHHhhhcccccChhhHHHHHHHHHHHHHHhhhccCCCCCCCCChhHHHHHHHHHHHHHHHHHhCC
Q 004379 233 WKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRALLLKLEKRIAEVP 312 (758)
Q Consensus 233 ~~~~ilIiDEAHnL~d~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~~~ 312 (758)
|+.++|||||||||+++|+++++.++|...+...++.+.... ...........+.+.+..+.... +.
T Consensus 205 P~~~~lIiDEAH~L~d~A~~~~g~~ls~~~l~~~l~~l~~~~-----------~~~~~~~~~~~~~~~~~~l~~~~--~~ 271 (636)
T TIGR03117 205 PQPDILIVDEAHLFEQNISRVYSNALSLRRLHLYVEKRHTGA-----------GKGIVSAAVAAVSHCIQRLRALD--VF 271 (636)
T ss_pred CCCCEEEEeCCcchHHHHHHHhccEECHHHHHHHHHHHhhcc-----------cchhHHHHHHHHHHHHHHHHhhh--cc
Confidence 999999999999999999999999999998888777552110 00000011122222222221100 00
Q ss_pred CCcccCCCcCChhhHHHHHHHcCCChhhHHHHHHHHHHHHHHHHHhhhhcccCcccchHHHHHHHHHHHHcc-CCCCCCc
Q 004379 313 INSKELGFTKPGPYIYELLADLNITQETAYKLIDIVEVAAELLQEDKLQNKKSTTACRIESISNILKIIFRD-KGTAHSA 391 (758)
Q Consensus 313 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~l~~~~~~~~~~~~~~~l~~l~~~l~~~~~~-~~~~~~~ 391 (758)
. ..+. .. +.+. ...+..+.+.+..+.+.+.......+......+++.+.+.+..+... .......
T Consensus 272 ~-~~~~-----~~-~~~~-------~~~l~~l~~~L~~l~~~l~~~~~~~~~~~~~~rl~~~~~~~~~~~~~~~~~~~~~ 337 (636)
T TIGR03117 272 G-DGQT-----LC-LDAG-------NKELETLFADLDAALDACSVGRNRDENKKALSVVKDVKKARFILDNAITAIQGKA 337 (636)
T ss_pred c-cccc-----cc-HHHH-------HHHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHHHHHHhhhcccccccc
Confidence 0 0000 00 0000 01112222222222222211111011122456777777776555321 1110111
Q ss_pred ceEEEEEEcccchhhhccCCCCceEEEEecCchhhchhhhcccccEEEEecccCCC--------hHhHHhhhCCCCC-cc
Q 004379 392 YYRVHVREADANAADVLKGKASRTLSWWCFNPGIAMQEFSRLEVGSIILTSGTLSP--------MDSFAQELKLNFP-LR 462 (758)
Q Consensus 392 ~y~~~~~~~~~~~~~~~~~~~~~~l~~~~l~p~~~l~~~l~~~~~~vil~SaTL~p--------~~~f~~~lGl~~~-~~ 462 (758)
.+++|+.. .+....|...|++++..|++.++...+++|||||||+. |++|++.|||+.. ..
T Consensus 338 ~~~~~~~~----------~~~~~~L~~~Pl~va~~l~~~~~~~~~~~I~TSATL~v~~~~~~~~F~~f~~~lGL~~~~l~ 407 (636)
T TIGR03117 338 SAVLQFSP----------DRRFPSLIVGREDLGKVMGGLWKDVTHGAIIVSATLYLPDRFGQMSCDYLKRVLSLPLSRLD 407 (636)
T ss_pred ceEEEEec----------CCCceEEEEecccHHHHHHHHHhcCCCeEEEEccccccCCcCCCcCcHHHHHhcCCCcccee
Confidence 35555520 11223788999999999999998777899999999997 5789999999743 34
Q ss_pred ccCCcc--ccCCCeEEEEeecC-----CCCcceeeeccccC----CHHHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHH
Q 004379 463 VENPHV--ITSKQIWAGIVPVG-----PSGYLLNSSYRNRD----SIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQ 531 (758)
Q Consensus 463 ~~~~~~--~~~~~~~~~~~~~~-----~~~~~l~~~y~~r~----~~~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~ 531 (758)
+.+||+ |..+....+++|.. |++.. ..+.+.. .+.|.+.+++.|.+++....||+|||||||+.|+.
T Consensus 408 ~~SPFd~~y~~qa~~~LyvP~~~~~~lP~p~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~lvLfTS~~~~~~ 485 (636)
T TIGR03117 408 TPSPIVAPWVRNAIPHLHVPNAKARFLRPVGK--DEQGDANLQEAERTWLENVSLSTAAILRKAQGGTLVLTTAFSHISA 485 (636)
T ss_pred CCCCCCchhHhcCceEEEEcCccccCCCCCCC--CcccchhhhcchhhHHHHHHHHHHHHHHHcCCCEEEEechHHHHHH
Confidence 578888 54433223456633 21110 0011110 15688899999999999999999999999999999
Q ss_pred HHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecCcccccccc--------C
Q 004379 532 CIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDF--------A 603 (758)
Q Consensus 532 v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~--------~ 603 (758)
+++.+.... ...++.|++.....+++++|++.++. ++++||||+ +|||||||+ +
T Consensus 486 ~~~~l~~~l--------------~~~~l~qg~~~~~~~l~~~f~~~~~~--~~~~vL~gt--~sfweGvDv~~~~~~p~~ 547 (636)
T TIGR03117 486 IGQLVELGI--------------PAEIVIQSEKNRLASAEQQFLALYAN--GIQPVLIAA--GGAWTGIDLTHKPVSPDK 547 (636)
T ss_pred HHHHHHhhc--------------CCCEEEeCCCccHHHHHHHHHHhhcC--CCCcEEEeC--CccccccccCCccCCCCC
Confidence 999887542 12344444443467899999987654 358999999 999999999 7
Q ss_pred CCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCccccCCCC--eEE
Q 004379 604 DHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHD--YGA 681 (758)
Q Consensus 604 ~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlIR~~~D--~g~ 681 (758)
|+.|++|||++||||+ +||+ ++.++++++|+++|. .+|+|+++++||+|||||+++| +|+
T Consensus 548 G~~Ls~ViI~kLPF~~-~dp~--a~~~~~~~~g~~~f~---------------~~p~a~i~lkQg~GRLIR~~~D~~~G~ 609 (636)
T TIGR03117 548 DNLLTDLIITCAPFGL-NRSL--SMLKRIRKTSVRPWE---------------IINESLMMLRQGLGRLVRHPDMPQNRR 609 (636)
T ss_pred CCcccEEEEEeCCCCc-CChH--HHHHHHHhcCCChHh---------------hhHHHHHHHHHhcCceeecCCCcCceE
Confidence 9999999999999995 6886 889999999988773 3699999999999999999999 999
Q ss_pred EEEeeccCCCccccccchhhhhh
Q 004379 682 IIFCDERFAHPSRKSQISLWIQP 704 (758)
Q Consensus 682 villD~R~~~~~y~~~l~~~l~~ 704 (758)
|+|||+| .++.||+.+...++.
T Consensus 610 i~ilD~R-~~~~yg~~~~~~~~~ 631 (636)
T TIGR03117 610 IHMLDGR-IHWPYMESWQESVKT 631 (636)
T ss_pred EEEEeCC-CCchhHHHHHHHHHH
Confidence 9999999 788999988777654
No 11
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=100.00 E-value=3.3e-46 Score=391.38 Aligned_cols=261 Identities=32% Similarity=0.518 Sum_probs=199.1
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCC----cccccccccccCCCCCCCC
Q 004379 10 DVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSF----STLGSQVNNQISGSQSSVN 85 (758)
Q Consensus 10 ~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~----~~~~~~~~~~~~~~~~~~~ 85 (758)
+|.|||+|||+|++||+.|++++.+|+++++|||||||||+|||+|||+|+...+.. ....+.++..... . .
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~-q---~ 77 (289)
T smart00488 2 LFYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIE-K---R 77 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHH-H---H
Confidence 688999999999999999999999999999999999999999999999998875541 0000000000000 0 0
Q ss_pred CCCCCCCCCCeEEEeCCccchHHHHHHHhhcCCCCCceEEecCCcccccchhhhhccCcc-h-hHHHHHHhhcC------
Q 004379 86 SSQSGDSKLPTILYTSRTHSQLRQVIQELKTSNYRPKMVILGSREQLCIHREVSLLRGSA-Q-NNACRFLCKKG------ 157 (758)
Q Consensus 86 ~~~~~~~~~~kIi~~trT~sql~Q~i~eLkkl~~~~~~~~l~sr~~lCi~~~~~~~~~~~-~-~~~c~~l~~~~------ 157 (758)
..+......+++++++|||+|+.|+++|+++.+.++++++++||+.+|+++.+..+.... . ++.|..+.+..
T Consensus 78 i~~l~~~~~~~~~~~~~t~sq~~q~~~el~~~~~~~~~~~l~sR~~lCin~~v~~~~~~~~~~~~~C~~l~~~~~~~~~~ 157 (289)
T smart00488 78 LEELRKLMQKVEYESDEESEKQAQLLHELGREKPKVLGLSLTSRKNLCLNPEVRTLKQNGLVVDEVCRSLTASKARKYRY 157 (289)
T ss_pred HHHHHhcccccceecccchhHHHHHHHHHhccCCCcceeEeechhhcCCChHHhhcccccchHHHHHHHHHhhccccccc
Confidence 000000112457888888888888888888878888899999998899999987543221 2 36798765411
Q ss_pred ---CCCCCCCCcchhhhhhcCCCCCCCCCChhHHHHhcccCCCcchhhhhhhhcCccEEEecCccccChhhhhccCCCcc
Q 004379 158 ---TNRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWK 234 (758)
Q Consensus 158 ---~~~~c~~~~~~~~~~~~~~~~~~~~~di~~l~~~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl~~~~~~~~~i~~~ 234 (758)
+...|+|+.+...... ......+++|++++++.|+.++.||||.+|+.+++|||||+||+|||++.+++.+++.++
T Consensus 158 ~~~~~~~c~~~~~~~~~~~-~~~~~~~~~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l~ 236 (289)
T smart00488 158 ENPKVERCPFYENTEFLLV-RDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIELK 236 (289)
T ss_pred cccCCCCCCccchhhhhhh-hhhcccCCCCHHHHHHhcccCCCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhccccc
Confidence 1246887765432110 111234678999999999999999999999999999999999999999998866666678
Q ss_pred ccEEEEeCCcchHHHHhhhcccccChhhHHHHHHHHHHHHH
Q 004379 235 NSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCID 275 (758)
Q Consensus 235 ~~ilIiDEAHnL~d~~~~~~s~~is~~~l~~~~~~l~~~~~ 275 (758)
+.+|||||||||+|+|++++|.+++...|..++.++.++..
T Consensus 237 ~~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~ 277 (289)
T smart00488 237 DSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFE 277 (289)
T ss_pred ccEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999877654
No 12
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=100.00 E-value=3.3e-46 Score=391.38 Aligned_cols=261 Identities=32% Similarity=0.518 Sum_probs=199.1
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCC----cccccccccccCCCCCCCC
Q 004379 10 DVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSF----STLGSQVNNQISGSQSSVN 85 (758)
Q Consensus 10 ~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~----~~~~~~~~~~~~~~~~~~~ 85 (758)
+|.|||+|||+|++||+.|++++.+|+++++|||||||||+|||+|||+|+...+.. ....+.++..... . .
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~-q---~ 77 (289)
T smart00489 2 LFYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIE-K---R 77 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHH-H---H
Confidence 688999999999999999999999999999999999999999999999998875541 0000000000000 0 0
Q ss_pred CCCCCCCCCCeEEEeCCccchHHHHHHHhhcCCCCCceEEecCCcccccchhhhhccCcc-h-hHHHHHHhhcC------
Q 004379 86 SSQSGDSKLPTILYTSRTHSQLRQVIQELKTSNYRPKMVILGSREQLCIHREVSLLRGSA-Q-NNACRFLCKKG------ 157 (758)
Q Consensus 86 ~~~~~~~~~~kIi~~trT~sql~Q~i~eLkkl~~~~~~~~l~sr~~lCi~~~~~~~~~~~-~-~~~c~~l~~~~------ 157 (758)
..+......+++++++|||+|+.|+++|+++.+.++++++++||+.+|+++.+..+.... . ++.|..+.+..
T Consensus 78 i~~l~~~~~~~~~~~~~t~sq~~q~~~el~~~~~~~~~~~l~sR~~lCin~~v~~~~~~~~~~~~~C~~l~~~~~~~~~~ 157 (289)
T smart00489 78 LEELRKLMQKVEYESDEESEKQAQLLHELGREKPKVLGLSLTSRKNLCLNPEVRTLKQNGLVVDEVCRSLTASKARKYRY 157 (289)
T ss_pred HHHHHhcccccceecccchhHHHHHHHHHhccCCCcceeEeechhhcCCChHHhhcccccchHHHHHHHHHhhccccccc
Confidence 000000112457888888888888888888878888899999998899999987543221 2 36798765411
Q ss_pred ---CCCCCCCCcchhhhhhcCCCCCCCCCChhHHHHhcccCCCcchhhhhhhhcCccEEEecCccccChhhhhccCCCcc
Q 004379 158 ---TNRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWK 234 (758)
Q Consensus 158 ---~~~~c~~~~~~~~~~~~~~~~~~~~~di~~l~~~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl~~~~~~~~~i~~~ 234 (758)
+...|+|+.+...... ......+++|++++++.|+.++.||||.+|+.+++|||||+||+|||++.+++.+++.++
T Consensus 158 ~~~~~~~c~~~~~~~~~~~-~~~~~~~~~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l~ 236 (289)
T smart00489 158 ENPKVERCPFYENTEFLLV-RDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIELK 236 (289)
T ss_pred cccCCCCCCccchhhhhhh-hhhcccCCCCHHHHHHhcccCCCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhccccc
Confidence 1246887765432110 111234678999999999999999999999999999999999999999998866666678
Q ss_pred ccEEEEeCCcchHHHHhhhcccccChhhHHHHHHHHHHHHH
Q 004379 235 NSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCID 275 (758)
Q Consensus 235 ~~ilIiDEAHnL~d~~~~~~s~~is~~~l~~~~~~l~~~~~ 275 (758)
+.+|||||||||+|+|++++|.+++...|..++.++.++..
T Consensus 237 ~~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~ 277 (289)
T smart00489 237 DSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFE 277 (289)
T ss_pred ccEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999877654
No 13
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=100.00 E-value=1.8e-41 Score=327.61 Aligned_cols=167 Identities=38% Similarity=0.645 Sum_probs=131.6
Q ss_pred HHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeE
Q 004379 508 IVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAV 587 (758)
Q Consensus 508 i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~v 587 (758)
|.++++.+|||+|||||||+.|+.+++.|++... .....++.+. ..+..+++++|++ ++++|
T Consensus 1 i~~l~~~~~g~~lv~f~Sy~~l~~~~~~~~~~~~----------~~~~~v~~q~--~~~~~~~l~~~~~------~~~~i 62 (167)
T PF13307_consen 1 ILELISAVPGGVLVFFPSYRRLEKVYERLKERLE----------EKGIPVFVQG--SKSRDELLEEFKR------GEGAI 62 (167)
T ss_dssp HHHHHHCCSSEEEEEESSHHHHHHHHTT-TSS-E-----------ETSCEEEST--CCHHHHHHHHHCC------SSSEE
T ss_pred ChHHHhcCCCCEEEEeCCHHHHHHHHHHHHhhcc----------cccceeeecC--cchHHHHHHHHHh------ccCeE
Confidence 5678999999999999999999999999987532 1223566663 4568888999986 57899
Q ss_pred EEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHH
Q 004379 588 FFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQ 667 (758)
Q Consensus 588 L~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~Q 667 (758)
||||+||+|||||||+|+.||+|||+|||||+|+||.+++|++|++++++++| ..||.|+|+++++|
T Consensus 63 l~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~-------------~~~~~~~a~~~l~Q 129 (167)
T PF13307_consen 63 LLAVAGGSFSEGIDFPGDLLRAVIIVGLPFPPPSDPLVQAKREYLDKQGKNPF-------------RDWYLPPAIRKLKQ 129 (167)
T ss_dssp EEEETTSCCGSSS--ECESEEEEEEES-----TTCHHHHHHHHHHHHCCTTCH-------------HHHTHHHHHHHHHH
T ss_pred EEEEecccEEEeecCCCchhheeeecCCCCCCCCCHHHHHHHHHHHHHhccch-------------hhHhhHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999876543 57899999999999
Q ss_pred hcCccccCCCCeEEEEEeeccCCCccccccchhhhhhh
Q 004379 668 AVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPH 705 (758)
Q Consensus 668 aiGRlIR~~~D~g~villD~R~~~~~y~~~l~~~l~~~ 705 (758)
|+||+|||++|+|+|+|+|+||.++.|++.||+|+|++
T Consensus 130 a~GR~iR~~~D~g~i~llD~R~~~~~y~~~l~~~l~~~ 167 (167)
T PF13307_consen 130 AIGRLIRSEDDYGVIILLDSRFLSKRYGKYLPKWLPPY 167 (167)
T ss_dssp HHHCC--STT-EEEEEEESGGGGGHHHHHH-T------
T ss_pred hcCcceeccCCcEEEEEEcCccccchhhhcCccccccC
Confidence 99999999999999999999999999999999999874
No 14
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=100.00 E-value=2.2e-34 Score=268.34 Aligned_cols=141 Identities=39% Similarity=0.673 Sum_probs=122.4
Q ss_pred HHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecCccccccccCCC
Q 004379 526 YYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADH 605 (758)
Q Consensus 526 y~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~ 605 (758)
|++|+++++.|++... + ...+.+|+|+++..+..+++++|++.+.. .|+|||||+||+|||||||+|+
T Consensus 1 y~~m~~v~~~~~~~~~------~---~~~~~i~~e~~~~~~~~~~l~~f~~~~~~---~g~iL~~v~~G~~~EGiD~~g~ 68 (142)
T smart00491 1 YRYLEQVVEYWKENGI------L---EINKPVFIEGKDSGETEELLEKYSAACEA---RGALLLAVARGKVSEGIDFPDD 68 (142)
T ss_pred ChHHHHHHHHHHhcCc------c---ccCceEEEECCCCchHHHHHHHHHHhcCC---CCEEEEEEeCCeeecceecCCC
Confidence 7899999999987531 1 23467888888776678999999985432 2799999999999999999999
Q ss_pred CceEEEEEccCCCCCCCHHHHHHHHHHHHHh-hccCCCccccccccCCcchhHHHHHHHHHHHhcCccccCCCCeEEEEE
Q 004379 606 AGRAVVITGMPFATMTDPKVRLKREYLDLQA-QSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIF 684 (758)
Q Consensus 606 ~~r~vii~glPfp~~~dp~~~~k~~~l~~~~-~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlIR~~~D~g~vil 684 (758)
.||+|||+|||||+|+||.++++++|+++.+ .++| ..||.|+|+++++||+||+|||++|||+|+|
T Consensus 69 ~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~-------------~~~~~~~a~~~~~Qa~GR~iR~~~D~g~i~l 135 (142)
T smart00491 69 LGRAVIIVGIPFPNPDSPILRARLEYLDEKGGIRPF-------------DEVYLFDAMRALAQAIGRAIRHKNDYGVVVL 135 (142)
T ss_pred ccEEEEEEecCCCCCCCHHHHHHHHHHHHhcCCCcH-------------HHHHHHHHHHHHHHHhCccccCccceEEEEE
Confidence 9999999999999999999999999999886 4433 4789999999999999999999999999999
Q ss_pred eeccCCC
Q 004379 685 CDERFAH 691 (758)
Q Consensus 685 lD~R~~~ 691 (758)
+|+||.+
T Consensus 136 ~D~R~~~ 142 (142)
T smart00491 136 LDKRYAR 142 (142)
T ss_pred EeccccC
Confidence 9999863
No 15
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=100.00 E-value=1.4e-32 Score=255.48 Aligned_cols=139 Identities=31% Similarity=0.498 Sum_probs=122.7
Q ss_pred HHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecCccccccccCCC
Q 004379 526 YYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADH 605 (758)
Q Consensus 526 y~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~ 605 (758)
|++|+++++.|++. +.+.+|.+++.+++|+.++.+..+++++|++. .+++|||||+ +|||||||+|+
T Consensus 1 y~~m~~v~~~~~~~------~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~-----~~~~iL~~~~--~~~EGiD~~g~ 67 (141)
T smart00492 1 YQYMESFVQYWKEN------GILENINKNLLLLVQGEDGKETGKLLEKYVEA-----CENAILLATA--RFSEGVDFPGD 67 (141)
T ss_pred CHHHHHHHHHHHHc------CchhhHhcCCeEEEeCCChhHHHHHHHHHHHc-----CCCEEEEEcc--ceecceecCCC
Confidence 68999999999876 46688888888999987776688999999972 2249999994 59999999999
Q ss_pred CceEEEEEccCCCCCCCHHHHHHHHHHHHHh-hccCCCccccccccCCcchhHHHHHHHHHHHhcCccccCCCCeEEEEE
Q 004379 606 AGRAVVITGMPFATMTDPKVRLKREYLDLQA-QSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIF 684 (758)
Q Consensus 606 ~~r~vii~glPfp~~~dp~~~~k~~~l~~~~-~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlIR~~~D~g~vil 684 (758)
.||+|||+|||||+|+||.+++|++|+++.+ +++| ..+++|+|+++++||+||+|||++|+|+|+|
T Consensus 68 ~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~-------------~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~l 134 (141)
T smart00492 68 YLRAVIIDGLPFPYPDSPILKARLELLRDKGQIRPF-------------DFVSLPDAMRTLAQCVGRLIRGANDYGVVVI 134 (141)
T ss_pred CeeEEEEEecCCCCCCCHHHHHHHHHHHHhCCCCch-------------hHHHHHHHHHHHHHHhCccccCcCceEEEEE
Confidence 9999999999999999999999999999876 4444 2457899999999999999999999999999
Q ss_pred eeccCC
Q 004379 685 CDERFA 690 (758)
Q Consensus 685 lD~R~~ 690 (758)
+|+||.
T Consensus 135 ~D~R~~ 140 (141)
T smart00492 135 ADKRFA 140 (141)
T ss_pred Eecccc
Confidence 999986
No 16
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=99.96 E-value=2.8e-31 Score=259.18 Aligned_cols=165 Identities=46% Similarity=0.712 Sum_probs=122.6
Q ss_pred EeCCccchHHHHHHHhhcCC------CCCceEEecCCcccccchhhhhccC-cchhHHHHHHhhcCC-CCCCCCCcchhh
Q 004379 99 YTSRTHSQLRQVIQELKTSN------YRPKMVILGSREQLCIHREVSLLRG-SAQNNACRFLCKKGT-NRRCNHHSRVAD 170 (758)
Q Consensus 99 ~~trT~sql~Q~i~eLkkl~------~~~~~~~l~sr~~lCi~~~~~~~~~-~~~~~~c~~l~~~~~-~~~c~~~~~~~~ 170 (758)
|+||||+|++|+++||+++. ..+++++++||+.+|+++.+..... ...++.|..+.+... ...|+|+.+..+
T Consensus 1 y~~RThsQl~q~i~El~~~~~~~~~~~~~~~~~l~gR~~~C~~~~v~~~~~~~~~~~~C~~l~~~~~~~~~C~~~~~~~~ 80 (174)
T PF06733_consen 1 YASRTHSQLSQVIRELKKINKYRPKGESIKAVILKGRQNLCINSKVKRLANNEDINEFCRELRKSGKRKESCPYYNNFDE 80 (174)
T ss_dssp EEESSHHHHHHHHHHHCCHCCCS-------EEEE--CCCC-TTCHHHTT-SHHHHHHHHHHHHHHHHCTCCSTTTTGGGG
T ss_pred CCCcCHHHHHHHHHHHHHHHhhcccccceeeeEeccccccccCchhhhhhhhhhHHHHHHHhhcccccccccchhHHHHh
Confidence 79999999999999999884 2578999999999999998765432 345678988776211 137999976532
Q ss_pred hhhcCCCCCCCCCChhHHHHhcccCCCcchhhhhhhhcCccEEEecCccccChhhhhccC-CCccccEEEEeCCcchHHH
Q 004379 171 YMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLG-VEWKNSILIFDEAHNLEGI 249 (758)
Q Consensus 171 ~~~~~~~~~~~~~di~~l~~~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl~~~~~~~~~-i~~~~~ilIiDEAHnL~d~ 249 (758)
...........++|++++++.|+.++.||||.+|+.+..|||||+||+|||++.++..+. +++++.+|||||||||+++
T Consensus 81 ~~~~~~~~~~~~~d~~~l~~~~~~~~~CPY~~~r~~~~~adivi~~y~yl~~~~~~~~~~~~~~~~~ivI~DEAHNL~~~ 160 (174)
T PF06733_consen 81 IEELSDLSNEEVWDIEELVEIGKKHGVCPYYLARELAKNADIVICNYNYLFDPSIRKSLFGIDLKDNIVIFDEAHNLEDA 160 (174)
T ss_dssp -HHHHHHHCHCHHHHHHHHHHHHHCT--HHHHHHHCGGG-SEEEEETHHHHSHHHHHHHCT--CCCEEEEETTGGGCGGG
T ss_pred HHHhhhhcccccccHHHHHHhcCCCCCChhHHHHHhcccCCEEEeCHHHHhhHHHHhhhccccccCcEEEEecccchHHH
Confidence 211001123355699999999999999999999999999999999999999999886664 7889999999999999999
Q ss_pred HhhhcccccChhhH
Q 004379 250 CADAASFDLSSGLL 263 (758)
Q Consensus 250 ~~~~~s~~is~~~l 263 (758)
|++++|.+|+..+|
T Consensus 161 ~~~~~s~~is~~~L 174 (174)
T PF06733_consen 161 ARDSFSFSISESQL 174 (174)
T ss_dssp CHCCC-EEEEHHHH
T ss_pred HHHHhcceechhhC
Confidence 99999999998765
No 17
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.65 E-value=9.2e-14 Score=156.13 Aligned_cols=88 Identities=14% Similarity=0.123 Sum_probs=62.6
Q ss_pred HHHHHhhh-cCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCC-CCChHHHHHHHHHHhccCCCC
Q 004379 507 TIVNIARI-VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIEDYMAKLKDTSTS 584 (758)
Q Consensus 507 ~i~~~~~~-~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~-~~~~~~~i~~~~~~i~~~~~~ 584 (758)
.+..+++. ..+.+|||++|.+..+.+++.+..... ...++...- ..+....++.|++ ++
T Consensus 235 ~l~~l~~~~~~~~~lVF~~s~~~~~~l~~~L~~~~~-------------~~~~l~g~~~~~~R~~~l~~f~~------G~ 295 (434)
T PRK11192 235 LLCHLLKQPEVTRSIVFVRTRERVHELAGWLRKAGI-------------NCCYLEGEMVQAKRNEAIKRLTD------GR 295 (434)
T ss_pred HHHHHHhcCCCCeEEEEeCChHHHHHHHHHHHhCCC-------------CEEEecCCCCHHHHHHHHHHHhC------CC
Confidence 34444443 456899999999999999998875421 112333222 2346677788875 56
Q ss_pred CeEEEEEecCccccccccCCCCceEEEEEccCC
Q 004379 585 GAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 585 ~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPf 617 (758)
-.||+|+ ..+++|||+++ ++.||..++|.
T Consensus 296 ~~vLVaT--d~~~~GiDip~--v~~VI~~d~p~ 324 (434)
T PRK11192 296 VNVLVAT--DVAARGIDIDD--VSHVINFDMPR 324 (434)
T ss_pred CcEEEEc--cccccCccCCC--CCEEEEECCCC
Confidence 7899998 89999999987 78899988874
No 18
>PTZ00110 helicase; Provisional
Probab=99.62 E-value=2e-13 Score=156.58 Aligned_cols=118 Identities=17% Similarity=0.184 Sum_probs=81.1
Q ss_pred HHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeC-CCCCCChHHHHHHHHHHhccC
Q 004379 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVE-PRQSSLFPLAIEDYMAKLKDT 581 (758)
Q Consensus 503 ~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e-~~~~~~~~~~i~~~~~~i~~~ 581 (758)
.+.+.+..+.. ..+.+|||+++....+.++..+..... ....+. .....+...++++|++
T Consensus 365 ~L~~ll~~~~~-~~~k~LIF~~t~~~a~~l~~~L~~~g~-------------~~~~ihg~~~~~eR~~il~~F~~----- 425 (545)
T PTZ00110 365 KLKMLLQRIMR-DGDKILIFVETKKGADFLTKELRLDGW-------------PALCIHGDKKQEERTWVLNEFKT----- 425 (545)
T ss_pred HHHHHHHHhcc-cCCeEEEEecChHHHHHHHHHHHHcCC-------------cEEEEECCCcHHHHHHHHHHHhc-----
Confidence 34444444332 456899999999999999988864321 111222 2223456778888885
Q ss_pred CCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHH
Q 004379 582 STSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQA 661 (758)
Q Consensus 582 ~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a 661 (758)
++..||+|+ ..+++|||+++ +++||..++|.. +
T Consensus 426 -G~~~ILVaT--dv~~rGIDi~~--v~~VI~~d~P~s----~-------------------------------------- 458 (545)
T PTZ00110 426 -GKSPIMIAT--DVASRGLDVKD--VKYVINFDFPNQ----I-------------------------------------- 458 (545)
T ss_pred -CCCcEEEEc--chhhcCCCccc--CCEEEEeCCCCC----H--------------------------------------
Confidence 456799998 89999999998 789999887742 1
Q ss_pred HHHHHHhcCccccCCCCeEEEEEeec
Q 004379 662 SRAVNQAVGRVIRHRHDYGAIIFCDE 687 (758)
Q Consensus 662 ~~~~~QaiGRlIR~~~D~g~villD~ 687 (758)
....|.+||.=|....--++.++++
T Consensus 459 -~~yvqRiGRtGR~G~~G~ai~~~~~ 483 (545)
T PTZ00110 459 -EDYVHRIGRTGRAGAKGASYTFLTP 483 (545)
T ss_pred -HHHHHHhcccccCCCCceEEEEECc
Confidence 2335999999998765444556665
No 19
>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=99.61 E-value=2.1e-13 Score=154.33 Aligned_cols=109 Identities=17% Similarity=0.103 Sum_probs=77.7
Q ss_pred hcCCc-EEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEe
Q 004379 514 IVPDG-LLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVC 592 (758)
Q Consensus 514 ~~~g~-~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~ 592 (758)
..++. ++||++|.+..+.++..++..... -..+.-.-...+....++.|++ ++-.||+|+
T Consensus 223 ~~~~~~~IIF~~s~~~~e~la~~L~~~g~~------------~~~~H~~l~~~eR~~i~~~F~~------g~~~vLVaT- 283 (470)
T TIGR00614 223 EFKGKSGIIYCPSRKKSEQVTASLQNLGIA------------AGAYHAGLEISARDDVHHKFQR------DEIQVVVAT- 283 (470)
T ss_pred hcCCCceEEEECcHHHHHHHHHHHHhcCCC------------eeEeeCCCCHHHHHHHHHHHHc------CCCcEEEEe-
Confidence 34454 499999999999999988754211 0112111122346677788875 467899999
Q ss_pred cCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCcc
Q 004379 593 RGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRV 672 (758)
Q Consensus 593 ~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRl 672 (758)
..|.+|||+|+ .+.||..++|.. +....|.+||.
T Consensus 284 -~~~~~GID~p~--V~~VI~~~~P~s-------------------------------------------~~~y~Qr~GRa 317 (470)
T TIGR00614 284 -VAFGMGINKPD--VRFVIHYSLPKS-------------------------------------------MESYYQESGRA 317 (470)
T ss_pred -chhhccCCccc--ceEEEEeCCCCC-------------------------------------------HHHHHhhhcCc
Confidence 79999999998 789999998852 12345999999
Q ss_pred ccCCCCeEEEEEeec
Q 004379 673 IRHRHDYGAIIFCDE 687 (758)
Q Consensus 673 IR~~~D~g~villD~ 687 (758)
=|...+--++++.++
T Consensus 318 GR~G~~~~~~~~~~~ 332 (470)
T TIGR00614 318 GRDGLPSECHLFYAP 332 (470)
T ss_pred CCCCCCceEEEEech
Confidence 998877666666654
No 20
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.61 E-value=3e-13 Score=152.99 Aligned_cols=80 Identities=13% Similarity=0.130 Sum_probs=60.1
Q ss_pred cCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCC-CCCCChHHHHHHHHHHhccCCCCCeEEEEEec
Q 004379 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEP-RQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCR 593 (758)
Q Consensus 515 ~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~-~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~ 593 (758)
.++.+|||+++....+.+++.+...... ...+.. -...+...+++.|++ ++-.||+|+
T Consensus 241 ~~~~~lVF~~t~~~~~~l~~~L~~~~~~-------------v~~~hg~~~~~eR~~~l~~F~~------g~~~vLVaT-- 299 (460)
T PRK11776 241 QPESCVVFCNTKKECQEVADALNAQGFS-------------ALALHGDLEQRDRDQVLVRFAN------RSCSVLVAT-- 299 (460)
T ss_pred CCCceEEEECCHHHHHHHHHHHHhCCCc-------------EEEEeCCCCHHHHHHHHHHHHc------CCCcEEEEe--
Confidence 4567999999999999999988764321 112222 222456778888875 457899999
Q ss_pred CccccccccCCCCceEEEEEccCC
Q 004379 594 GKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 594 g~~~EGiD~~~~~~r~vii~glPf 617 (758)
..+++|||+++ ++.||..++|.
T Consensus 300 dv~~rGiDi~~--v~~VI~~d~p~ 321 (460)
T PRK11776 300 DVAARGLDIKA--LEAVINYELAR 321 (460)
T ss_pred cccccccchhc--CCeEEEecCCC
Confidence 89999999998 67999999886
No 21
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.60 E-value=4.3e-13 Score=154.33 Aligned_cols=86 Identities=9% Similarity=0.147 Sum_probs=61.6
Q ss_pred HHHhhhc-CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhccCCCCCe
Q 004379 509 VNIARIV-PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGA 586 (758)
Q Consensus 509 ~~~~~~~-~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~~~~~~~ 586 (758)
..++... ...+|||+++-...+.+++.|.+... ...++..+ ...+...+++.|++ ++-.
T Consensus 249 ~~ll~~~~~~k~LVF~nt~~~ae~l~~~L~~~g~-------------~v~~lhg~l~~~eR~~il~~Fr~------G~~~ 309 (572)
T PRK04537 249 LGLLSRSEGARTMVFVNTKAFVERVARTLERHGY-------------RVGVLSGDVPQKKRESLLNRFQK------GQLE 309 (572)
T ss_pred HHHHhcccCCcEEEEeCCHHHHHHHHHHHHHcCC-------------CEEEEeCCCCHHHHHHHHHHHHc------CCCe
Confidence 3344333 45799999999999999998875421 11222222 12346678888875 4678
Q ss_pred EEEEEecCccccccccCCCCceEEEEEccCC
Q 004379 587 VFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 587 vL~~v~~g~~~EGiD~~~~~~r~vii~glPf 617 (758)
||+++ .-+++|||+++ ++.||...+|+
T Consensus 310 VLVaT--dv~arGIDip~--V~~VInyd~P~ 336 (572)
T PRK04537 310 ILVAT--DVAARGLHIDG--VKYVYNYDLPF 336 (572)
T ss_pred EEEEe--hhhhcCCCccC--CCEEEEcCCCC
Confidence 99999 79999999998 78999998886
No 22
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.59 E-value=7.3e-13 Score=149.37 Aligned_cols=78 Identities=17% Similarity=0.121 Sum_probs=58.4
Q ss_pred CCC-CCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCC
Q 004379 13 FPF-EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (758)
Q Consensus 13 Fpf-~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (758)
..| +|++.|.+.+..+ .+++.+++.||||||||++|++|++......... ...
T Consensus 19 ~g~~~pt~iQ~~ai~~i----l~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~----------------------~~~ 72 (456)
T PRK10590 19 QGYREPTPIQQQAIPAV----LEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPH----------------------AKG 72 (456)
T ss_pred CCCCCCCHHHHHHHHHH----hCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccc----------------------ccc
Confidence 455 4899999987765 4578999999999999999999998765432210 000
Q ss_pred CCCCeEEEeCCccchHHHHHHHhhc
Q 004379 92 SKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 92 ~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
...++++|.++|..+..|+.+++++
T Consensus 73 ~~~~~aLil~PtreLa~Qi~~~~~~ 97 (456)
T PRK10590 73 RRPVRALILTPTRELAAQIGENVRD 97 (456)
T ss_pred CCCceEEEEeCcHHHHHHHHHHHHH
Confidence 1235799999999999999887765
No 23
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.59 E-value=4.6e-13 Score=151.95 Aligned_cols=106 Identities=12% Similarity=0.074 Sum_probs=75.5
Q ss_pred CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEecC
Q 004379 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (758)
Q Consensus 516 ~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g 594 (758)
.+.+|||++|....+.+++.+..... +...+... ...+..+.++.|++ ++-.||+++ .
T Consensus 335 ~~~~IVF~~s~~~~~~l~~~L~~~~~-------------~~~~~~g~~~~~~R~~~~~~Fr~------G~~~vLvaT--~ 393 (475)
T PRK01297 335 WERVMVFANRKDEVRRIEERLVKDGI-------------NAAQLSGDVPQHKRIKTLEGFRE------GKIRVLVAT--D 393 (475)
T ss_pred CCeEEEEeCCHHHHHHHHHHHHHcCC-------------CEEEEECCCCHHHHHHHHHHHhC------CCCcEEEEc--c
Confidence 35799999999999999988865321 11111111 12345677788875 456789988 8
Q ss_pred ccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCcccc
Q 004379 595 KVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIR 674 (758)
Q Consensus 595 ~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlIR 674 (758)
.+++|||+++ +++||..++|.. ...+.|.+||.=|
T Consensus 394 ~l~~GIDi~~--v~~VI~~~~P~s-------------------------------------------~~~y~Qr~GRaGR 428 (475)
T PRK01297 394 VAGRGIHIDG--ISHVINFTLPED-------------------------------------------PDDYVHRIGRTGR 428 (475)
T ss_pred ccccCCcccC--CCEEEEeCCCCC-------------------------------------------HHHHHHhhCccCC
Confidence 9999999998 889999998852 1345799999999
Q ss_pred CCCCeEEEEEeec
Q 004379 675 HRHDYGAIIFCDE 687 (758)
Q Consensus 675 ~~~D~g~villD~ 687 (758)
...+--++.+++.
T Consensus 429 ~g~~g~~i~~~~~ 441 (475)
T PRK01297 429 AGASGVSISFAGE 441 (475)
T ss_pred CCCCceEEEEecH
Confidence 9887445555543
No 24
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.57 E-value=1.4e-12 Score=148.94 Aligned_cols=79 Identities=19% Similarity=0.210 Sum_probs=58.8
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCC
Q 004379 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (758)
Q Consensus 13 Fpf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (758)
.+|. |+|.|.+.+..+ ..|+.+++.||||+|||++|++|+|......... ....
T Consensus 139 ~g~~~ptpiQ~~aip~i----l~g~dviv~ApTGSGKTlayllPil~~l~~~~~~---------------------~~~~ 193 (518)
T PLN00206 139 AGYEFPTPIQMQAIPAA----LSGRSLLVSADTGSGKTASFLVPIISRCCTIRSG---------------------HPSE 193 (518)
T ss_pred cCCCCCCHHHHHHHHHH----hcCCCEEEEecCCCCccHHHHHHHHHHHHhhccc---------------------cccc
Confidence 4565 899999887665 3789999999999999999999999765432110 0001
Q ss_pred CCCCeEEEeCCccchHHHHHHHhhc
Q 004379 92 SKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 92 ~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
...|+++|.++|..+..|+.++++.
T Consensus 194 ~~~~~aLIL~PTreLa~Qi~~~~~~ 218 (518)
T PLN00206 194 QRNPLAMVLTPTRELCVQVEDQAKV 218 (518)
T ss_pred cCCceEEEEeCCHHHHHHHHHHHHH
Confidence 1347899999999999998776654
No 25
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.56 E-value=1.5e-12 Score=145.65 Aligned_cols=80 Identities=14% Similarity=0.153 Sum_probs=60.3
Q ss_pred cCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEec
Q 004379 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVCR 593 (758)
Q Consensus 515 ~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~ 593 (758)
.++.+|||+++....+.+++.+..... +..++... ...+....++.|++ ++-.||+|+
T Consensus 254 ~~~~~lVF~~t~~~~~~l~~~L~~~g~-------------~v~~lhg~~~~~~R~~~l~~F~~------g~~~vLVaT-- 312 (423)
T PRK04837 254 WPDRAIIFANTKHRCEEIWGHLAADGH-------------RVGLLTGDVAQKKRLRILEEFTR------GDLDILVAT-- 312 (423)
T ss_pred CCCeEEEEECCHHHHHHHHHHHHhCCC-------------cEEEecCCCChhHHHHHHHHHHc------CCCcEEEEe--
Confidence 367899999999999999988875421 11222221 22456778888875 567899999
Q ss_pred CccccccccCCCCceEEEEEccCC
Q 004379 594 GKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 594 g~~~EGiD~~~~~~r~vii~glPf 617 (758)
.-+++|||+|+ +++||..++|.
T Consensus 313 dv~~rGiDip~--v~~VI~~d~P~ 334 (423)
T PRK04837 313 DVAARGLHIPA--VTHVFNYDLPD 334 (423)
T ss_pred chhhcCCCccc--cCEEEEeCCCC
Confidence 89999999998 78999999885
No 26
>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=99.55 E-value=1.4e-12 Score=151.96 Aligned_cols=80 Identities=15% Similarity=0.116 Sum_probs=57.9
Q ss_pred CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecCc
Q 004379 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGK 595 (758)
Q Consensus 516 ~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~ 595 (758)
.+.++||++|....+.+++.+...... -..+...-...+...+++.|++ ++-.||+|+ ..
T Consensus 224 ~~~~IIf~~sr~~~e~la~~L~~~g~~------------~~~~H~~l~~~~R~~i~~~F~~------g~~~vlVaT--~a 283 (591)
T TIGR01389 224 GQSGIIYASSRKKVEELAERLESQGIS------------ALAYHAGLSNKVRAENQEDFLY------DDVKVMVAT--NA 283 (591)
T ss_pred CCCEEEEECcHHHHHHHHHHHHhCCCC------------EEEEECCCCHHHHHHHHHHHHc------CCCcEEEEe--ch
Confidence 457899999999999999988754211 0112222223346667778875 457899999 79
Q ss_pred cccccccCCCCceEEEEEccCC
Q 004379 596 VSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 596 ~~EGiD~~~~~~r~vii~glPf 617 (758)
|.+|||+|+ .+.||..++|-
T Consensus 284 ~~~GID~p~--v~~VI~~~~p~ 303 (591)
T TIGR01389 284 FGMGIDKPN--VRFVIHYDMPG 303 (591)
T ss_pred hhccCcCCC--CCEEEEcCCCC
Confidence 999999998 78999998774
No 27
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.54 E-value=1.9e-12 Score=150.58 Aligned_cols=107 Identities=16% Similarity=0.137 Sum_probs=77.0
Q ss_pred cCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEec
Q 004379 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVCR 593 (758)
Q Consensus 515 ~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~ 593 (758)
.++.++||++|....+.++..|+..... -..+-.+ ...+..++++.|++ ++-.||+|+
T Consensus 235 ~~~~~IIFc~tr~~~e~la~~L~~~g~~-------------v~~~Ha~l~~~~R~~i~~~F~~------g~~~VLVaT-- 293 (607)
T PRK11057 235 RGKSGIIYCNSRAKVEDTAARLQSRGIS-------------AAAYHAGLDNDVRADVQEAFQR------DDLQIVVAT-- 293 (607)
T ss_pred CCCCEEEEECcHHHHHHHHHHHHhCCCC-------------EEEecCCCCHHHHHHHHHHHHC------CCCCEEEEe--
Confidence 3457999999999999999988764211 1122211 22346677788875 456899999
Q ss_pred CccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCccc
Q 004379 594 GKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVI 673 (758)
Q Consensus 594 g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlI 673 (758)
..+.+|||+|+ .+.||..++|.. +....|.+||.=
T Consensus 294 ~a~~~GIDip~--V~~VI~~d~P~s-------------------------------------------~~~y~Qr~GRaG 328 (607)
T PRK11057 294 VAFGMGINKPN--VRFVVHFDIPRN-------------------------------------------IESYYQETGRAG 328 (607)
T ss_pred chhhccCCCCC--cCEEEEeCCCCC-------------------------------------------HHHHHHHhhhcc
Confidence 79999999998 789999988752 122348899999
Q ss_pred cCCCCeEEEEEeec
Q 004379 674 RHRHDYGAIIFCDE 687 (758)
Q Consensus 674 R~~~D~g~villD~ 687 (758)
|...+--+++++|+
T Consensus 329 R~G~~~~~ill~~~ 342 (607)
T PRK11057 329 RDGLPAEAMLFYDP 342 (607)
T ss_pred CCCCCceEEEEeCH
Confidence 98776556777765
No 28
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.54 E-value=2.2e-12 Score=149.50 Aligned_cols=72 Identities=24% Similarity=0.203 Sum_probs=57.3
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCC
Q 004379 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (758)
Q Consensus 13 Fpf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (758)
.+|+ |+|.|.+.+..+ .+++.+|+.||||||||++|++|++.......
T Consensus 24 ~G~~~ptpiQ~~ai~~l----l~g~dvl~~ApTGsGKT~af~lpll~~l~~~~--------------------------- 72 (629)
T PRK11634 24 LGYEKPSPIQAECIPHL----LNGRDVLGMAQTGSGKTAAFSLPLLHNLDPEL--------------------------- 72 (629)
T ss_pred CCCCCCCHHHHHHHHHH----HcCCCEEEEcCCCCcHHHHHHHHHHHHhhhcc---------------------------
Confidence 4675 789999876554 46789999999999999999999886543211
Q ss_pred CCCCeEEEeCCccchHHHHHHHhhc
Q 004379 92 SKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 92 ~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
..|+++|.++|..+..|+.+++++
T Consensus 73 -~~~~~LIL~PTreLa~Qv~~~l~~ 96 (629)
T PRK11634 73 -KAPQILVLAPTRELAVQVAEAMTD 96 (629)
T ss_pred -CCCeEEEEeCcHHHHHHHHHHHHH
Confidence 236899999999999999887764
No 29
>PTZ00424 helicase 45; Provisional
Probab=99.54 E-value=2.6e-12 Score=143.00 Aligned_cols=79 Identities=11% Similarity=0.148 Sum_probs=57.3
Q ss_pred CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEecC
Q 004379 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (758)
Q Consensus 516 ~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g 594 (758)
...++||+++....+.+.+.+..... +...+..+ ...+....++.|+. ++-.||+|+ .
T Consensus 267 ~~~~ivF~~t~~~~~~l~~~l~~~~~-------------~~~~~h~~~~~~~R~~i~~~f~~------g~~~vLvaT--~ 325 (401)
T PTZ00424 267 ITQAIIYCNTRRKVDYLTKKMHERDF-------------TVSCMHGDMDQKDRDLIMREFRS------GSTRVLITT--D 325 (401)
T ss_pred CCeEEEEecCcHHHHHHHHHHHHCCC-------------cEEEEeCCCCHHHHHHHHHHHHc------CCCCEEEEc--c
Confidence 46799999999999999888865421 11122222 22345667777875 456899999 7
Q ss_pred ccccccccCCCCceEEEEEccCC
Q 004379 595 KVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 595 ~~~EGiD~~~~~~r~vii~glPf 617 (758)
.+++|||+|+ +++||..++|.
T Consensus 326 ~l~~GiDip~--v~~VI~~~~p~ 346 (401)
T PTZ00424 326 LLARGIDVQQ--VSLVINYDLPA 346 (401)
T ss_pred cccCCcCccc--CCEEEEECCCC
Confidence 9999999998 77899988775
No 30
>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=99.52 E-value=5.1e-12 Score=149.30 Aligned_cols=72 Identities=15% Similarity=0.138 Sum_probs=58.5
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCC
Q 004379 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (758)
Q Consensus 13 Fpf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (758)
..|+ ||+.|.+.+.. +.+|+++++.||||||||+||++|+|.......
T Consensus 32 ~g~~~p~~~Q~~ai~~----il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~--------------------------- 80 (742)
T TIGR03817 32 AGIHRPWQHQARAAEL----AHAGRHVVVATGTASGKSLAYQLPVLSALADDP--------------------------- 80 (742)
T ss_pred cCCCcCCHHHHHHHHH----HHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCC---------------------------
Confidence 3454 89999887665 467899999999999999999999997654321
Q ss_pred CCCCeEEEeCCccchHHHHHHHhhcC
Q 004379 92 SKLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 92 ~~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
.++++|.++|+.+..|....++++
T Consensus 81 --~~~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 81 --RATALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred --CcEEEEEcChHHHHHHHHHHHHHh
Confidence 258999999999999998887754
No 31
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.51 E-value=2.8e-12 Score=154.43 Aligned_cols=125 Identities=16% Similarity=0.121 Sum_probs=82.3
Q ss_pred HHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhcc
Q 004379 502 QELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKD 580 (758)
Q Consensus 502 ~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~ 580 (758)
..+.+.|.++++ ..+.+|||++|.+..+.++..+.+.... ........++... ...+...+.+.|++
T Consensus 271 ~~l~~~L~~~i~-~~~~~LVF~nTr~~ae~la~~L~~~~~~-------~~~~~~i~~hHg~ls~~~R~~ve~~fk~---- 338 (876)
T PRK13767 271 EALYETLHELIK-EHRTTLIFTNTRSGAERVLYNLRKRFPE-------EYDEDNIGAHHSSLSREVRLEVEEKLKR---- 338 (876)
T ss_pred HHHHHHHHHHHh-cCCCEEEEeCCHHHHHHHHHHHHHhchh-------hccccceeeeeCCCCHHHHHHHHHHHHc----
Confidence 344555666554 3567999999999999999888753210 0000111111211 12335566677765
Q ss_pred CCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHH
Q 004379 581 TSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQ 660 (758)
Q Consensus 581 ~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~ 660 (758)
+.-.||+|+ ..+..|||+++ ++.||..+.|..
T Consensus 339 --G~i~vLVaT--s~Le~GIDip~--Vd~VI~~~~P~s------------------------------------------ 370 (876)
T PRK13767 339 --GELKVVVSS--TSLELGIDIGY--IDLVVLLGSPKS------------------------------------------ 370 (876)
T ss_pred --CCCeEEEEC--ChHHhcCCCCC--CcEEEEeCCCCC------------------------------------------
Confidence 456788888 89999999988 789999887741
Q ss_pred HHHHHHHhcCccccCCC--CeEEEEEeec
Q 004379 661 ASRAVNQAVGRVIRHRH--DYGAIIFCDE 687 (758)
Q Consensus 661 a~~~~~QaiGRlIR~~~--D~g~villD~ 687 (758)
+..+.|.+||.=|... -.|.++..|.
T Consensus 371 -v~~ylQRiGRaGR~~g~~~~g~ii~~~~ 398 (876)
T PRK13767 371 -VSRLLQRIGRAGHRLGEVSKGRIIVVDR 398 (876)
T ss_pred -HHHHHHhcccCCCCCCCCCcEEEEEcCc
Confidence 2456799999988755 3688888764
No 32
>PRK01172 ski2-like helicase; Provisional
Probab=99.42 E-value=1.7e-11 Score=145.02 Aligned_cols=69 Identities=29% Similarity=0.339 Sum_probs=55.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
.+|++|+.|.+.+.. +.+++++++.||||+|||++++.+.+..... +
T Consensus 19 ~~~~l~~~Q~~ai~~----l~~~~nvlv~apTGSGKTl~a~lail~~l~~-~---------------------------- 65 (674)
T PRK01172 19 NDFELYDHQRMAIEQ----LRKGENVIVSVPTAAGKTLIAYSAIYETFLA-G---------------------------- 65 (674)
T ss_pred CCCCCCHHHHHHHHH----HhcCCcEEEECCCCchHHHHHHHHHHHHHHh-C----------------------------
Confidence 468899999998765 4678999999999999999999887653322 1
Q ss_pred CCCeEEEeCCccchHHHHHHHhhc
Q 004379 93 KLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
.+++|.++|.++..|..+++++
T Consensus 66 --~k~v~i~P~raLa~q~~~~~~~ 87 (674)
T PRK01172 66 --LKSIYIVPLRSLAMEKYEELSR 87 (674)
T ss_pred --CcEEEEechHHHHHHHHHHHHH
Confidence 3788889999999998887764
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=99.42 E-value=7.4e-11 Score=141.03 Aligned_cols=76 Identities=21% Similarity=0.218 Sum_probs=64.9
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCC
Q 004379 10 DVEFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSS 87 (758)
Q Consensus 10 ~~~Fpf~~r~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (758)
.-.|||+|.+.|.+.+..|.+.+..+ ...++.||||+|||.+++.|++.-...
T Consensus 445 ~~~~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~------------------------- 499 (926)
T TIGR00580 445 EDSFPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD------------------------- 499 (926)
T ss_pred HHhCCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHh-------------------------
Confidence 34699999999999999999998776 468999999999999999998754332
Q ss_pred CCCCCCCCeEEEeCCccchHHHHHHHhhc
Q 004379 88 QSGDSKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 88 ~~~~~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
.+++++.++|..+..|..+.+++
T Consensus 500 ------g~qvlvLvPT~~LA~Q~~~~f~~ 522 (926)
T TIGR00580 500 ------GKQVAVLVPTTLLAQQHFETFKE 522 (926)
T ss_pred ------CCeEEEEeCcHHHHHHHHHHHHH
Confidence 14799999999999999988875
No 34
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.41 E-value=7.4e-11 Score=138.84 Aligned_cols=78 Identities=24% Similarity=0.249 Sum_probs=66.2
Q ss_pred eeecCCCCCCHHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCC
Q 004379 9 IDVEFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNS 86 (758)
Q Consensus 9 i~~~Fpf~~r~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (758)
+.-.+||++++.|.+.+..|.+.+..+ ...++.||||||||++|+.|++.....
T Consensus 254 ~~~~l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~------------------------ 309 (681)
T PRK10917 254 FLASLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEA------------------------ 309 (681)
T ss_pred HHHhCCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHc------------------------
Confidence 344689999999999999999998765 468999999999999999998875532
Q ss_pred CCCCCCCCCeEEEeCCccchHHHHHHHhhcC
Q 004379 87 SQSGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 87 ~~~~~~~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
..++++.++|..+..|..+.++++
T Consensus 310 -------g~q~lilaPT~~LA~Q~~~~l~~l 333 (681)
T PRK10917 310 -------GYQAALMAPTEILAEQHYENLKKL 333 (681)
T ss_pred -------CCeEEEEeccHHHHHHHHHHHHHH
Confidence 247999999999999999888764
No 35
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.40 E-value=1.3e-10 Score=137.49 Aligned_cols=79 Identities=13% Similarity=0.128 Sum_probs=58.7
Q ss_pred CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEecC
Q 004379 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (758)
Q Consensus 516 ~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g 594 (758)
.+..+||+.|....+.++..+...+. +-.++-.+ ...+....++.|+. ++-.||+|+ .
T Consensus 680 ~esgIIYC~SRke~E~LAe~L~~~Gi-------------ka~~YHAGLs~eeR~~vqe~F~~------Gei~VLVAT--d 738 (1195)
T PLN03137 680 DECGIIYCLSRMDCEKVAERLQEFGH-------------KAAFYHGSMDPAQRAFVQKQWSK------DEINIICAT--V 738 (1195)
T ss_pred CCCceeEeCchhHHHHHHHHHHHCCC-------------CeeeeeCCCCHHHHHHHHHHHhc------CCCcEEEEe--c
Confidence 34579999999999999998876432 11222222 22346667788875 456899998 7
Q ss_pred ccccccccCCCCceEEEEEccCC
Q 004379 595 KVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 595 ~~~EGiD~~~~~~r~vii~glPf 617 (758)
.|..|||+|+ .|.||-.++|.
T Consensus 739 AFGMGIDkPD--VR~VIHydlPk 759 (1195)
T PLN03137 739 AFGMGINKPD--VRFVIHHSLPK 759 (1195)
T ss_pred hhhcCCCccC--CcEEEEcCCCC
Confidence 9999999999 78999999886
No 36
>PRK02362 ski2-like helicase; Provisional
Probab=99.39 E-value=6.6e-11 Score=141.14 Aligned_cols=69 Identities=26% Similarity=0.208 Sum_probs=56.3
Q ss_pred CC-CCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 14 PF-EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 14 pf-~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
+| ++||.|.+.+.. .+.+++++++.||||+|||++++.|.+.....
T Consensus 20 g~~~l~p~Q~~ai~~---~~~~g~nvlv~APTGSGKTlia~lail~~l~~------------------------------ 66 (737)
T PRK02362 20 GIEELYPPQAEAVEA---GLLDGKNLLAAIPTASGKTLIAELAMLKAIAR------------------------------ 66 (737)
T ss_pred CCCcCCHHHHHHHHH---HHhCCCcEEEECCCcchHHHHHHHHHHHHHhc------------------------------
Confidence 44 479999998754 36678999999999999999999998754431
Q ss_pred CCCeEEEeCCccchHHHHHHHhhc
Q 004379 93 KLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
..+++|.++|.++..|..+++++
T Consensus 67 -~~kal~i~P~raLa~q~~~~~~~ 89 (737)
T PRK02362 67 -GGKALYIVPLRALASEKFEEFER 89 (737)
T ss_pred -CCcEEEEeChHHHHHHHHHHHHH
Confidence 14799999999999999888764
No 37
>PRK00254 ski2-like helicase; Provisional
Probab=99.30 E-value=5.5e-10 Score=132.98 Aligned_cols=70 Identities=21% Similarity=0.193 Sum_probs=55.9
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCC
Q 004379 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (758)
Q Consensus 13 Fpf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (758)
.+|+ ++|.|.+.+.. .+.+|+++++.||||+|||+++++|.+......+
T Consensus 19 ~g~~~l~~~Q~~ai~~---~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~--------------------------- 68 (720)
T PRK00254 19 RGIEELYPPQAEALKS---GVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREG--------------------------- 68 (720)
T ss_pred CCCCCCCHHHHHHHHH---HHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcC---------------------------
Confidence 4554 79999987654 4667899999999999999999999886443222
Q ss_pred CCCCeEEEeCCccchHHHHHHHhh
Q 004379 92 SKLPTILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 92 ~~~~kIi~~trT~sql~Q~i~eLk 115 (758)
.+++|.++|.++..|..++++
T Consensus 69 ---~~~l~l~P~~aLa~q~~~~~~ 89 (720)
T PRK00254 69 ---GKAVYLVPLKALAEEKYREFK 89 (720)
T ss_pred ---CeEEEEeChHHHHHHHHHHHH
Confidence 479999999999998887665
No 38
>PRK09401 reverse gyrase; Reviewed
Probab=99.29 E-value=4.2e-10 Score=137.84 Aligned_cols=70 Identities=17% Similarity=0.117 Sum_probs=54.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
++++|++.|.+.+..+ ..|+.+++-||||+|||..++ +.+.|....
T Consensus 77 ~G~~pt~iQ~~~i~~i----l~g~dv~i~ApTGsGKT~f~l-~~~~~l~~~----------------------------- 122 (1176)
T PRK09401 77 TGSKPWSLQRTWAKRL----LLGESFAIIAPTGVGKTTFGL-VMSLYLAKK----------------------------- 122 (1176)
T ss_pred cCCCCcHHHHHHHHHH----HCCCcEEEEcCCCCCHHHHHH-HHHHHHHhc-----------------------------
Confidence 5789999999766554 477899999999999997544 545555432
Q ss_pred CCCeEEEeCCccchHHHHHHHhhcC
Q 004379 93 KLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
.++++|.++|..+..|+.+.+++.
T Consensus 123 -g~~alIL~PTreLa~Qi~~~l~~l 146 (1176)
T PRK09401 123 -GKKSYIIFPTRLLVEQVVEKLEKF 146 (1176)
T ss_pred -CCeEEEEeccHHHHHHHHHHHHHH
Confidence 258999999999999999988764
No 39
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.28 E-value=4.5e-10 Score=127.94 Aligned_cols=118 Identities=16% Similarity=0.125 Sum_probs=78.1
Q ss_pred HHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCC-CChHHHHHHHHHHhccCC
Q 004379 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTS 582 (758)
Q Consensus 504 l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~-~~~~~~i~~~~~~i~~~~ 582 (758)
+.+.+..+. ..+++++|||.+-+..+.+++.+++... +-.++.++.+ .+...+++.++.
T Consensus 333 I~~~~~~~~-~~~~~~lV~~~~~~h~~~L~~~L~~~g~-------------~v~~i~G~~~~~eR~~i~~~~~~------ 392 (501)
T PHA02558 333 IANLALKLA-KKGENTFVMFKYVEHGKPLYEMLKKVYD-------------KVYYVSGEVDTEDRNEMKKIAEG------ 392 (501)
T ss_pred HHHHHHHHH-hcCCCEEEEEEEHHHHHHHHHHHHHcCC-------------CEEEEeCCCCHHHHHHHHHHHhC------
Confidence 344444443 3567899999999999999988876421 1223333322 234455555543
Q ss_pred CCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHH
Q 004379 583 TSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQAS 662 (758)
Q Consensus 583 ~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~ 662 (758)
++..||+++. +-++||+|+|+ +.+||+...| .+ .
T Consensus 393 ~~~~vLvaT~-~~l~eG~Dip~--ld~vIl~~p~----~s---------------------------------------~ 426 (501)
T PHA02558 393 GKGIIIVASY-GVFSTGISIKN--LHHVIFAHPS----KS---------------------------------------K 426 (501)
T ss_pred CCCeEEEEEc-ceecccccccc--ccEEEEecCC----cc---------------------------------------h
Confidence 3456888763 68999999998 7888876422 11 1
Q ss_pred HHHHHhcCccccCCCCeEEEEEeec
Q 004379 663 RAVNQAVGRVIRHRHDYGAIIFCDE 687 (758)
Q Consensus 663 ~~~~QaiGRlIR~~~D~g~villD~ 687 (758)
..+.|.+||+.|-..+...+.++|-
T Consensus 427 ~~~~QriGR~~R~~~~K~~~~i~D~ 451 (501)
T PHA02558 427 IIVLQSIGRVLRKHGSKSIATVWDI 451 (501)
T ss_pred hhhhhhhhccccCCCCCceEEEEEe
Confidence 3456999999999888877888874
No 40
>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=1.4e-09 Score=119.06 Aligned_cols=51 Identities=27% Similarity=0.303 Sum_probs=41.8
Q ss_pred eEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHHHHhhcC
Q 004379 38 ALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 38 ~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
+++.||||+|||++++.|++.-.... ...+++|..+|.++..|..+.++.+
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~-----------------------------~~~~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQ-----------------------------KADRVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhC-----------------------------CCCeEEEEeehHHHHHHHHHHHHHH
Confidence 68999999999999999988643321 2258999999999999999887763
No 41
>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=99.24 E-value=2.1e-09 Score=125.35 Aligned_cols=72 Identities=22% Similarity=0.294 Sum_probs=53.5
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCC-ceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 14 PFEAYDCQLVYMEKVIQSLQNKC-NALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 14 pf~~r~~Q~~~~~~i~~al~~~~-~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
+|+|+|.|.+.+..+. +|+ ..++.||||||||.++.++.+.... + ..
T Consensus 13 G~~PtpiQ~~~i~~il----~G~~~v~~~apTGSGKTaa~aafll~~~~--~--------------------------~~ 60 (844)
T TIGR02621 13 GYSPFPWQLSLAERFV----AGQPPESCSTPTGLGKTSIIAAWLLAVEI--G--------------------------AK 60 (844)
T ss_pred CCCCCHHHHHHHHHHH----cCCCcceEecCCCCcccHHHHHhhccccc--c--------------------------cc
Confidence 5779999999998754 554 6888999999999976544442211 1 01
Q ss_pred CCCeEEEeCCccchHHHHHHHhhcC
Q 004379 93 KLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
...++||++.|..+..|+.++++++
T Consensus 61 ~~~rLv~~vPtReLa~Qi~~~~~~~ 85 (844)
T TIGR02621 61 VPRRLVYVVNRRTVVDQVTEEAEKI 85 (844)
T ss_pred ccceEEEeCchHHHHHHHHHHHHHH
Confidence 2347888999999999999888764
No 42
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.19 E-value=7.7e-09 Score=126.65 Aligned_cols=76 Identities=18% Similarity=0.158 Sum_probs=63.5
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCC
Q 004379 10 DVEFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSS 87 (758)
Q Consensus 10 ~~~Fpf~~r~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (758)
.-.|||+|.+.|.+.+..|..-+..+ ...++.||||+|||.+++.+|..... .
T Consensus 594 ~~~~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~-~------------------------ 648 (1147)
T PRK10689 594 CDSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE-N------------------------ 648 (1147)
T ss_pred HHhCCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH-c------------------------
Confidence 45699999999999999999988765 56899999999999999988765332 1
Q ss_pred CCCCCCCCeEEEeCCccchHHHHHHHhhc
Q 004379 88 QSGDSKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 88 ~~~~~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
.+++++.++|..+..|..+.+++
T Consensus 649 ------g~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 649 ------HKQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred ------CCeEEEEeCcHHHHHHHHHHHHH
Confidence 25799999999999999987764
No 43
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.18 E-value=7e-09 Score=120.14 Aligned_cols=77 Identities=18% Similarity=0.135 Sum_probs=58.1
Q ss_pred CCC---CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHH---------HHHHHHHHHHhhCCCcccccccccccCCCC
Q 004379 14 PFE---AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLC---------LLCATLAWRKSLGSFSTLGSQVNNQISGSQ 81 (758)
Q Consensus 14 pf~---~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTla---------yL~pal~~~~~~~~~~~~~~~~~~~~~~~~ 81 (758)
||. -++.|.++-+++..++.+++.+++.|+||+|||.+ ||.|++.+......
T Consensus 155 ~~~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~---------------- 218 (675)
T PHA02653 155 PFSKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDP---------------- 218 (675)
T ss_pred ccccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhccc----------------
Confidence 665 36899999999999999999999999999999997 66777765542110
Q ss_pred CCCCCCCCCCCCCCeEEEeCCccchHHHHHHHhh
Q 004379 82 SSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 82 ~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~eLk 115 (758)
....++|+++++|..+..|+..++.
T Consensus 219 ---------~~~~~~ilvt~PrreLa~qi~~~i~ 243 (675)
T PHA02653 219 ---------NFIERPIVLSLPRVALVRLHSITLL 243 (675)
T ss_pred ---------ccCCcEEEEECcHHHHHHHHHHHHH
Confidence 0012478888888888777665553
No 44
>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=99.14 E-value=1.3e-10 Score=114.21 Aligned_cols=68 Identities=31% Similarity=0.428 Sum_probs=55.3
Q ss_pred CCCCHHHHHHHHHHHHHHhcC---CceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCC
Q 004379 15 FEAYDCQLVYMEKVIQSLQNK---CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~---~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (758)
|++|+.|.+.+..+.+.+... ++++++||||+|||+.++..+....
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~------------------------------- 50 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA------------------------------- 50 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH-------------------------------
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc-------------------------------
Confidence 678999999999999999876 9999999999999999885433222
Q ss_pred CCCCeEEEeCCccchHHHHHHHhhc
Q 004379 92 SKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 92 ~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
.++++.+++.++.+|...++..
T Consensus 51 ---~~~l~~~p~~~l~~Q~~~~~~~ 72 (184)
T PF04851_consen 51 ---RKVLIVAPNISLLEQWYDEFDD 72 (184)
T ss_dssp ---CEEEEEESSHHHHHHHHHHHHH
T ss_pred ---cceeEecCHHHHHHHHHHHHHH
Confidence 1688888999999999988743
No 45
>PRK14701 reverse gyrase; Provisional
Probab=99.13 E-value=9e-09 Score=129.13 Aligned_cols=70 Identities=16% Similarity=0.172 Sum_probs=56.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
++|+|++.|.+.+..+. .|+.+++-||||+|||+.++.+++..+. .
T Consensus 76 ~G~~pt~iQ~~~i~~il----~G~d~li~APTGsGKTl~~~~~al~~~~-~----------------------------- 121 (1638)
T PRK14701 76 TGFEFWSIQKTWAKRIL----RGKSFSIVAPTGMGKSTFGAFIALFLAL-K----------------------------- 121 (1638)
T ss_pred hCCCCCHHHHHHHHHHH----cCCCEEEEEcCCCCHHHHHHHHHHHHHh-c-----------------------------
Confidence 78899999999887654 4788999999999999987777765432 1
Q ss_pred CCCeEEEeCCccchHHHHHHHhhcC
Q 004379 93 KLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
.+++++.++|..+..|+...++.+
T Consensus 122 -g~~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 122 -GKKCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred -CCeEEEEECHHHHHHHHHHHHHHH
Confidence 247899999999999999888753
No 46
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.11 E-value=1.1e-08 Score=126.32 Aligned_cols=92 Identities=11% Similarity=0.084 Sum_probs=55.2
Q ss_pred CCcEEEEeccHHHHHHHHHHHhcCCCCC---c---hh---HHHHHh--------cCC-C-C-eeCCC-CCCChHHHHHHH
Q 004379 516 PDGLLIFFPSYYLMDQCIACWKNTSHGN---L---TT---IWERIC--------KHK-K-P-VVEPR-QSSLFPLAIEDY 574 (758)
Q Consensus 516 ~g~~lv~f~Sy~~l~~v~~~~~~~~~~~---~---~~---i~~~l~--------~~k-~-~-~~e~~-~~~~~~~~i~~~ 574 (758)
.+.+|||++|.+..+.+...+++..... . .. -+..+. ... . + ++... ..++...+.+.|
T Consensus 244 ~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~f 323 (1490)
T PRK09751 244 HRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQAL 323 (1490)
T ss_pred CCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHHH
Confidence 4679999999999999998887532100 0 00 000000 000 0 1 11111 123345555677
Q ss_pred HHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCC
Q 004379 575 MAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 575 ~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPf 617 (758)
++ ++-.+|+|+ .++.-|||+++ ...||.++.|+
T Consensus 324 K~------G~LrvLVAT--ssLELGIDIg~--VDlVIq~gsP~ 356 (1490)
T PRK09751 324 KS------GELRCVVAT--SSLELGIDMGA--VDLVIQVATPL 356 (1490)
T ss_pred Hh------CCceEEEeC--cHHHccCCccc--CCEEEEeCCCC
Confidence 65 455788887 89999999987 68899999875
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=99.10 E-value=4.4e-10 Score=108.96 Aligned_cols=65 Identities=26% Similarity=0.347 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEE
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTIL 98 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi 98 (758)
|.|.+.+..+. +++++++.||||+|||++|+.|++....+.+. .+++
T Consensus 2 ~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~~~~-----------------------------~~~l 48 (169)
T PF00270_consen 2 PLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQEGKD-----------------------------ARVL 48 (169)
T ss_dssp HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHTTSS-----------------------------SEEE
T ss_pred HHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhccCCC-----------------------------ceEE
Confidence 57888777766 67889999999999999999999976654321 4899
Q ss_pred EeCCccchHHHHHHHhhc
Q 004379 99 YTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 99 ~~trT~sql~Q~i~eLkk 116 (758)
|.++|.++.+|...++++
T Consensus 49 ii~P~~~l~~q~~~~~~~ 66 (169)
T PF00270_consen 49 IIVPTRALAEQQFERLRK 66 (169)
T ss_dssp EEESSHHHHHHHHHHHHH
T ss_pred EEeecccccccccccccc
Confidence 999999999999887754
No 48
>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=99.08 E-value=4.1e-08 Score=120.79 Aligned_cols=87 Identities=17% Similarity=0.236 Sum_probs=61.2
Q ss_pred HHHhhhcCCcEEEEeccH---HHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCC
Q 004379 509 VNIARIVPDGLLIFFPSY---YLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSG 585 (758)
Q Consensus 509 ~~~~~~~~g~~lv~f~Sy---~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~ 585 (758)
.++++..++|+|||+++- +..+.+++.|.+.+. +-..+..+. ..+.+++|++ ++-
T Consensus 319 ~~ll~~l~~~~IVFv~t~~~~~~a~~l~~~L~~~g~-------------~a~~lhg~~---~~~~l~~Fr~------G~~ 376 (1171)
T TIGR01054 319 LEIVKKLGTGGIVYVSIDYGKEKAEEIAEFLENHGV-------------KAVAYHATK---PKEDYEKFAE------GEI 376 (1171)
T ss_pred HHHHHHcCCCEEEEEeccccHHHHHHHHHHHHhCCc-------------eEEEEeCCC---CHHHHHHHHc------CCC
Confidence 344444567899999998 999999988876421 111122111 1467899986 456
Q ss_pred eEEEEEe--cCccccccccCCCCceEEEEEccCCC
Q 004379 586 AVFFAVC--RGKVSEGLDFADHAGRAVVITGMPFA 618 (758)
Q Consensus 586 ~vL~~v~--~g~~~EGiD~~~~~~r~vii~glPfp 618 (758)
-||+|+. .+-++.|||+|+ ..|.||-+|+|--
T Consensus 377 ~vLVata~~tdv~aRGIDip~-~V~~vI~~~~P~~ 410 (1171)
T TIGR01054 377 DVLIGVASYYGTLVRGLDLPE-RVRYAVFLGVPKF 410 (1171)
T ss_pred CEEEEeccccCcccccCCCCc-cccEEEEECCCCE
Confidence 7999963 467899999999 4589999999953
No 49
>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=99.07 E-value=7e-10 Score=111.19 Aligned_cols=74 Identities=19% Similarity=0.197 Sum_probs=59.6
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCC
Q 004379 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (758)
Q Consensus 13 Fpf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (758)
++++ |++.|.+.+..+.+ +++++++||||+|||++|+.|++........
T Consensus 17 ~~~~~~~~~Q~~~~~~~~~----~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~-------------------------- 66 (203)
T cd00268 17 LGFEKPTPIQARAIPPLLS----GRDVIGQAQTGSGKTAAFLIPILEKLDPSPK-------------------------- 66 (203)
T ss_pred cCCCCCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHhhcc--------------------------
Confidence 4565 79999998887765 8899999999999999999998876554310
Q ss_pred CCCCeEEEeCCccchHHHHHHHhhc
Q 004379 92 SKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 92 ~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
...++++|.++|..+..|....+++
T Consensus 67 ~~~~~viii~p~~~L~~q~~~~~~~ 91 (203)
T cd00268 67 KDGPQALILAPTRELALQIAEVARK 91 (203)
T ss_pred cCCceEEEEcCCHHHHHHHHHHHHH
Confidence 1246899999999999998877654
No 50
>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=99.05 E-value=1.9e-08 Score=119.29 Aligned_cols=169 Identities=14% Similarity=0.152 Sum_probs=97.6
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCe-eCCC-CCCChHHHHHHHHHHh
Q 004379 501 KQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPV-VEPR-QSSLFPLAIEDYMAKL 578 (758)
Q Consensus 501 ~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~-~e~~-~~~~~~~~i~~~~~~i 578 (758)
...+...|..++...+|.+|||+|+....+.+++.+.+.... .-.++ +-.. ...+....++.|+.
T Consensus 194 ~~~v~~~l~~~l~~~~g~iLVFlpg~~eI~~l~~~L~~~~~~-----------~~~v~pLHg~L~~~eq~~~~~~~~~-- 260 (819)
T TIGR01970 194 EDAVSRAVEHALASETGSILVFLPGQAEIRRVQEQLAERLDS-----------DVLICPLYGELSLAAQDRAIKPDPQ-- 260 (819)
T ss_pred HHHHHHHHHHHHHhcCCcEEEEECCHHHHHHHHHHHHhhcCC-----------CcEEEEecCCCCHHHHHHHHhhccc--
Confidence 344556666777666789999999999999999988753110 00111 1111 11223445555543
Q ss_pred ccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHH
Q 004379 579 KDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYN 658 (758)
Q Consensus 579 ~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~ 658 (758)
++..|++++ .-..-|||++| .+.||=.|+|-....||... ... +. ..|..
T Consensus 261 ----G~rkVlVAT--nIAErgItIp~--V~~VID~Gl~r~~~yd~~~g--~~~-------------------L~-~~~iS 310 (819)
T TIGR01970 261 ----GRRKVVLAT--NIAETSLTIEG--IRVVIDSGLARVARFDPKTG--ITR-------------------LE-TVRIS 310 (819)
T ss_pred ----CCeEEEEec--chHhhcccccC--ceEEEEcCcccccccccccC--Cce-------------------ee-EEEEC
Confidence 356799998 78889999999 78999999997655554210 000 10 11211
Q ss_pred HHHHHHHHHhcCccccCCCCeEEEEEeeccCCCccccccchhhhhhhhcccCchhHHHHHHHHH
Q 004379 659 QQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTRF 722 (758)
Q Consensus 659 ~~a~~~~~QaiGRlIR~~~D~g~villD~R~~~~~y~~~l~~~l~~~~~~~~~~~~~~~~~~~F 722 (758)
--...|..||.=|.. -|..+ |+.++.-...+++...|.+. ..++..++-.+..+
T Consensus 311 ---kasa~QR~GRAGR~~--~G~cy----rL~t~~~~~~l~~~~~PEI~-r~~L~~~~L~l~~~ 364 (819)
T TIGR01970 311 ---QASATQRAGRAGRLE--PGVCY----RLWSEEQHQRLPAQDEPEIL-QADLSGLALELAQW 364 (819)
T ss_pred ---HHHHHhhhhhcCCCC--CCEEE----EeCCHHHHHhhhcCCCccee-ccCcHHHHHHHHHc
Confidence 123569999998874 34443 33332222334444444443 34555555555544
No 51
>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=99.02 E-value=3.6e-07 Score=105.87 Aligned_cols=138 Identities=13% Similarity=0.091 Sum_probs=74.1
Q ss_pred hchhhhcccccEEEEecccCCC-hHhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHH
Q 004379 426 AMQEFSRLEVGSIILTSGTLSP-MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQEL 504 (758)
Q Consensus 426 ~l~~~l~~~~~~vil~SaTL~p-~~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l 504 (758)
.++.++. .+..+.-|+||... -+.|....|++... .|.-- |. .. . +.++ .-|.+ ..+-...+
T Consensus 351 t~qn~Fr-~Y~kl~GmTGTa~~~~~Ef~~iY~l~v~~---IPt~k-p~---~r-~-d~~d-----~i~~~--~~~K~~ai 413 (762)
T TIGR03714 351 TYQNLFK-MFNKLSGMTGTGKVAEKEFIETYSLSVVK---IPTNK-PI---IR-I-DYPD-----KIYAT--LPEKLMAT 413 (762)
T ss_pred eHHHHHh-hCchhcccCCCChhHHHHHHHHhCCCEEE---cCCCC-Ce---ee-e-eCCC-----eEEEC--HHHHHHHH
Confidence 3444444 66788899999765 24566777775311 11100 10 00 0 1110 11211 22334556
Q ss_pred HHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCC
Q 004379 505 GNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTS 584 (758)
Q Consensus 505 ~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~ 584 (758)
.+.+.+.. ..+..+|||++|-+..+.+...|.+.+. +..++..+.. .....+ +......
T Consensus 414 ~~~i~~~~-~~~~pvLIft~s~~~se~ls~~L~~~gi-------------~~~~L~a~~~-~~E~~i------i~~ag~~ 472 (762)
T TIGR03714 414 LEDVKEYH-ETGQPVLLITGSVEMSEIYSELLLREGI-------------PHNLLNAQNA-AKEAQI------IAEAGQK 472 (762)
T ss_pred HHHHHHHh-hCCCCEEEEECcHHHHHHHHHHHHHCCC-------------CEEEecCCCh-HHHHHH------HHHcCCC
Confidence 66555543 2456799999999999999888875421 1122222221 111111 1111246
Q ss_pred CeEEEEEecCccccccccC
Q 004379 585 GAVFFAVCRGKVSEGLDFA 603 (758)
Q Consensus 585 ~~vL~~v~~g~~~EGiD~~ 603 (758)
|.|++++ .-.+.|+|++
T Consensus 473 g~VlIAT--dmAgRGtDI~ 489 (762)
T TIGR03714 473 GAVTVAT--SMAGRGTDIK 489 (762)
T ss_pred CeEEEEc--cccccccCCC
Confidence 7999998 6778999998
No 52
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.99 E-value=2.6e-08 Score=118.49 Aligned_cols=167 Identities=17% Similarity=0.163 Sum_probs=95.2
Q ss_pred HHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCe-eCCCCC-CChHHHHHHHHHHhc
Q 004379 502 QELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPV-VEPRQS-SLFPLAIEDYMAKLK 579 (758)
Q Consensus 502 ~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~-~e~~~~-~~~~~~i~~~~~~i~ 579 (758)
..+...|..++...+|.+|||+|+...++.+++.+...... .-.++ +...-+ .+....++.|+.
T Consensus 198 ~~v~~~l~~~l~~~~g~iLVFlpg~~ei~~l~~~L~~~~~~-----------~~~v~~Lhg~l~~~eq~~~~~~~~~--- 263 (812)
T PRK11664 198 EAVARATAELLRQESGSLLLFLPGVGEIQRVQEQLASRVAS-----------DVLLCPLYGALSLAEQQKAILPAPA--- 263 (812)
T ss_pred HHHHHHHHHHHHhCCCCEEEEcCCHHHHHHHHHHHHHhccC-----------CceEEEeeCCCCHHHHHHHhccccC---
Confidence 44556677777666789999999999999999988752110 00111 111111 122333444432
Q ss_pred cCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHH
Q 004379 580 DTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQ 659 (758)
Q Consensus 580 ~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~ 659 (758)
++..|++++ .-..-|||++| .+.||=.|+|-....||.. +-. .+. ..|..
T Consensus 264 ---G~rkVlvAT--nIAErsLtIp~--V~~VID~Gl~r~~~yd~~~----------g~~-----------~L~-~~~iS- 313 (812)
T PRK11664 264 ---GRRKVVLAT--NIAETSLTIEG--IRLVVDSGLERVARFDPKT----------GLT-----------RLV-TQRIS- 313 (812)
T ss_pred ---CCeEEEEec--chHHhcccccC--ceEEEECCCcccccccccC----------Ccc-----------eeE-EEeec-
Confidence 456899998 78888999999 7899999998544334321 000 000 01111
Q ss_pred HHHHHHHHhcCccccCCCCeEEEEEeeccCCCc-cccccchhhhhhhhcccCchhHHHHHHHHH
Q 004379 660 QASRAVNQAVGRVIRHRHDYGAIIFCDERFAHP-SRKSQISLWIQPHIQCYSKFGDVVYTLTRF 722 (758)
Q Consensus 660 ~a~~~~~QaiGRlIR~~~D~g~villD~R~~~~-~y~~~l~~~l~~~~~~~~~~~~~~~~~~~F 722 (758)
--...|..||.=|.. -|..+-| .++ .| ..++..-.|.+. ..++.+++-.+..+
T Consensus 314 --kasa~QR~GRaGR~~--~G~cyrL----~t~~~~-~~l~~~~~PEI~-r~dL~~~~L~l~~~ 367 (812)
T PRK11664 314 --QASMTQRAGRAGRLE--PGICLHL----YSKEQA-ERAAAQSEPEIL-HSDLSGLLLELLQW 367 (812)
T ss_pred --hhhhhhhccccCCCC--CcEEEEe----cCHHHH-hhCccCCCCcee-ccchHHHHHHHHHc
Confidence 134679999998874 4555432 222 23 234555444443 44555555555443
No 53
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.98 E-value=1.7e-07 Score=99.40 Aligned_cols=87 Identities=20% Similarity=0.321 Sum_probs=58.2
Q ss_pred HhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCe-eCCCCC-CChHHHHHHHHHHhccCCCCCeEE
Q 004379 511 IARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPV-VEPRQS-SLFPLAIEDYMAKLKDTSTSGAVF 588 (758)
Q Consensus 511 ~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~-~e~~~~-~~~~~~i~~~~~~i~~~~~~~~vL 588 (758)
+....-..++||||+=...+.++..+.. +.+...++ +.++-. ...+..++.|++ ...++|
T Consensus 250 L~~~~~kK~iVFF~TCasVeYf~~~~~~------------~l~~~~i~~iHGK~~q~~R~k~~~~F~~------~~~~vl 311 (567)
T KOG0345|consen 250 LNNNKDKKCIVFFPTCASVEYFGKLFSR------------LLKKREIFSIHGKMSQKARAKVLEAFRK------LSNGVL 311 (567)
T ss_pred HhccccccEEEEecCcchHHHHHHHHHH------------HhCCCcEEEecchhcchhHHHHHHHHHh------ccCceE
Confidence 3345667899999999997777665543 32212222 223322 237788899986 467999
Q ss_pred EEEecCccccccccCCCCceEEEEEccCCCCCCCH
Q 004379 589 FAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDP 623 (758)
Q Consensus 589 ~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp 623 (758)
|++ .-.+.|||+|| ...|| -|.+|.||
T Consensus 312 ~~T--DVaARGlDip~--iD~Vv----Q~DpP~~~ 338 (567)
T KOG0345|consen 312 FCT--DVAARGLDIPG--IDLVV----QFDPPKDP 338 (567)
T ss_pred Eee--hhhhccCCCCC--ceEEE----ecCCCCCh
Confidence 999 79999999999 44555 35566665
No 54
>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=98.94 E-value=3.9e-07 Score=104.95 Aligned_cols=150 Identities=16% Similarity=0.077 Sum_probs=87.0
Q ss_pred chhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHH
Q 004379 427 MQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELG 505 (758)
Q Consensus 427 l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~ 505 (758)
++.++. .+..+.-|+||.... +.|....|++... .| ++.-... . +.++ .-|.+ ..+-...+.
T Consensus 333 ~qn~Fr-~Y~kl~GmTGTa~te~~E~~~iY~l~vv~---IP----tnkp~~R-~-d~~d-----~i~~t--~~~k~~ai~ 395 (745)
T TIGR00963 333 YQNFFR-LYEKLSGMTGTAKTEEEEFEKIYNLEVVV---VP----TNRPVIR-K-DLSD-----LVYKT--EEEKWKAVV 395 (745)
T ss_pred HHHHHh-hCchhhccCCCcHHHHHHHHHHhCCCEEE---eC----CCCCeee-e-eCCC-----eEEcC--HHHHHHHHH
Confidence 344444 567788999999753 4677777776321 11 1110000 0 1110 11222 223346677
Q ss_pred HHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCC
Q 004379 506 NTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSG 585 (758)
Q Consensus 506 ~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~ 585 (758)
+.|.+... .+..+|||+.|-..-+.+.+.|.+.+. ...++..+ ..+....+..+. +..+
T Consensus 396 ~~i~~~~~-~grpvLV~t~si~~se~ls~~L~~~gi-------------~~~~Lna~-q~~rEa~ii~~a------g~~g 454 (745)
T TIGR00963 396 DEIKERHA-KGQPVLVGTTSVEKSELLSNLLKERGI-------------PHNVLNAK-NHEREAEIIAQA------GRKG 454 (745)
T ss_pred HHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHcCC-------------CeEEeeCC-hHHHHHHHHHhc------CCCc
Confidence 76666653 566899999999999999988876531 11222222 222344444443 2579
Q ss_pred eEEEEEecCccccccccCCCCce-----EEEEEccC
Q 004379 586 AVFFAVCRGKVSEGLDFADHAGR-----AVVITGMP 616 (758)
Q Consensus 586 ~vL~~v~~g~~~EGiD~~~~~~r-----~vii~glP 616 (758)
.|++|+ .-.+.|+|++.+... .||.+-+|
T Consensus 455 ~VtIAT--nmAgRGtDI~l~~V~~~GGl~VI~t~~p 488 (745)
T TIGR00963 455 AVTIAT--NMAGRGTDIKLEEVKELGGLYVIGTERH 488 (745)
T ss_pred eEEEEe--ccccCCcCCCccchhhcCCcEEEecCCC
Confidence 999999 788999999995433 55555444
No 55
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=98.93 E-value=3.9e-07 Score=104.28 Aligned_cols=151 Identities=15% Similarity=0.105 Sum_probs=83.6
Q ss_pred hchhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHH
Q 004379 426 AMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQEL 504 (758)
Q Consensus 426 ~l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l 504 (758)
.++.++. .+..+--+|||+... +.|...+|++... . |..- +.+. ...+. . -| .+..+-...+
T Consensus 400 t~q~~Fr-~Y~kl~GmTGTa~~~~~El~~~y~l~vv~-I--Pt~k-p~~r--~~~~~-----~---v~--~t~~~K~~aL 462 (656)
T PRK12898 400 TYQRFFR-RYLRLAGMTGTAREVAGELWSVYGLPVVR-I--PTNR-PSQR--RHLPD-----E---VF--LTAAAKWAAV 462 (656)
T ss_pred hHHHHHH-hhHHHhcccCcChHHHHHHHHHHCCCeEE-e--CCCC-Cccc--eecCC-----E---EE--eCHHHHHHHH
Confidence 3444544 667888999999863 4677888876311 1 1100 0100 00000 0 01 1122223556
Q ss_pred HHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCC
Q 004379 505 GNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTS 584 (758)
Q Consensus 505 ~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~ 584 (758)
.+.|.+... .+..+|||++|-...+.+.+.+.+.+. +...+..+.. ..+..+..++ ..+
T Consensus 463 ~~~i~~~~~-~~~pvLIft~t~~~se~L~~~L~~~gi-------------~~~~Lhg~~~-~rE~~ii~~a------g~~ 521 (656)
T PRK12898 463 AARVRELHA-QGRPVLVGTRSVAASERLSALLREAGL-------------PHQVLNAKQD-AEEAAIVARA------GQR 521 (656)
T ss_pred HHHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHCCC-------------CEEEeeCCcH-HHHHHHHHHc------CCC
Confidence 666555332 356799999999999999998876431 1122222221 1222222222 245
Q ss_pred CeEEEEEecCccccccccC-CCCce-----EEEEEccC
Q 004379 585 GAVFFAVCRGKVSEGLDFA-DHAGR-----AVVITGMP 616 (758)
Q Consensus 585 ~~vL~~v~~g~~~EGiD~~-~~~~r-----~vii~glP 616 (758)
+.|++|+ .-.+.|+|++ ++..+ .||..-+|
T Consensus 522 g~VlVAT--dmAgRGtDI~l~~~V~~~GGLhVI~~d~P 557 (656)
T PRK12898 522 GRITVAT--NMAGRGTDIKLEPGVAARGGLHVILTERH 557 (656)
T ss_pred CcEEEEc--cchhcccCcCCccchhhcCCCEEEEcCCC
Confidence 7899998 7889999998 33333 66666555
No 56
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=98.93 E-value=6.7e-07 Score=104.62 Aligned_cols=152 Identities=14% Similarity=0.054 Sum_probs=81.4
Q ss_pred hhchhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHH
Q 004379 425 IAMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQE 503 (758)
Q Consensus 425 ~~l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~ 503 (758)
..++.++. .+..+.-|+||.... +.|....|++... .|.-- |.+. . +.++ .-|. +..+-...
T Consensus 354 It~q~~fr-~Y~kl~GmTGTa~t~~~e~~~~Y~l~v~~---IPt~k-p~~r----~-d~~~-----~i~~--~~~~K~~a 416 (790)
T PRK09200 354 ITIQNLFR-MFPKLSGMTGTAKTEEKEFFEVYNMEVVQ---IPTNR-PIIR----I-DYPD-----KVFV--TLDEKYKA 416 (790)
T ss_pred hhHHHHHH-HhHHHhccCCCChHHHHHHHHHhCCcEEE---CCCCC-Cccc----c-cCCC-----eEEc--CHHHHHHH
Confidence 34444444 667788999998763 3567777775311 11111 1100 0 0000 0111 12233455
Q ss_pred HHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCC
Q 004379 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTST 583 (758)
Q Consensus 504 l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~ 583 (758)
+.+.+.+.. ..+..+|||+.|-+..+.+...+.+.+.. ...+..+.. .....+... .+ .
T Consensus 417 l~~~i~~~~-~~~~pvLIf~~t~~~se~l~~~L~~~gi~-------------~~~L~~~~~-~~e~~~i~~-----ag-~ 475 (790)
T PRK09200 417 VIEEVKERH-ETGRPVLIGTGSIEQSETFSKLLDEAGIP-------------HNLLNAKNA-AKEAQIIAE-----AG-Q 475 (790)
T ss_pred HHHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCCC-------------EEEecCCcc-HHHHHHHHH-----cC-C
Confidence 666655543 24567999999999999999888764211 112222211 111111111 12 3
Q ss_pred CCeEEEEEecCccccccccC-CCCce-----EEEEEccC
Q 004379 584 SGAVFFAVCRGKVSEGLDFA-DHAGR-----AVVITGMP 616 (758)
Q Consensus 584 ~~~vL~~v~~g~~~EGiD~~-~~~~r-----~vii~glP 616 (758)
.|.|++|+ .-.+.|+|++ |+..+ .||..-+|
T Consensus 476 ~g~VlIAT--dmAgRG~DI~l~~~V~~~GGL~VI~~d~p 512 (790)
T PRK09200 476 KGAVTVAT--NMAGRGTDIKLGEGVHELGGLAVIGTERM 512 (790)
T ss_pred CCeEEEEc--cchhcCcCCCcccccccccCcEEEeccCC
Confidence 57999998 7889999995 33344 66666555
No 57
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.82 E-value=9.1e-09 Score=101.77 Aligned_cols=72 Identities=28% Similarity=0.211 Sum_probs=55.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
.++++++.|.+++..+.... +++++.+|||||||.+++.+++......+
T Consensus 5 ~~~~~~~~Q~~~~~~~~~~~---~~~~i~~~~GsGKT~~~~~~~~~~~~~~~---------------------------- 53 (201)
T smart00487 5 GFEPLRPYQKEAIEALLSGL---RDVILAAPTGSGKTLAALLPALEALKRGK---------------------------- 53 (201)
T ss_pred CCCCCCHHHHHHHHHHHcCC---CcEEEECCCCCchhHHHHHHHHHHhcccC----------------------------
Confidence 45678999999887765433 89999999999999999888775443321
Q ss_pred CCCeEEEeCCccchHHHHHHHhhc
Q 004379 93 KLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
..++++++.|..+..|+.+++++
T Consensus 54 -~~~~l~~~p~~~~~~~~~~~~~~ 76 (201)
T smart00487 54 -GKRVLVLVPTRELAEQWAEELKK 76 (201)
T ss_pred -CCcEEEEeCCHHHHHHHHHHHHH
Confidence 24688999999999888877654
No 58
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.79 E-value=2.8e-08 Score=116.40 Aligned_cols=76 Identities=25% Similarity=0.300 Sum_probs=64.0
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCC
Q 004379 11 VEFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQ 88 (758)
Q Consensus 11 ~~Fpf~~r~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (758)
-.+||++++.|.+.+.+|...+... .+.++.||||+|||++|+.|++.....
T Consensus 230 ~~lpf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~-------------------------- 283 (630)
T TIGR00643 230 ASLPFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEA-------------------------- 283 (630)
T ss_pred HhCCCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHc--------------------------
Confidence 3689999999999999999988665 357999999999999999998764431
Q ss_pred CCCCCCCeEEEeCCccchHHHHHHHhhcC
Q 004379 89 SGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 89 ~~~~~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
..+++|.++|..+..|..+.++++
T Consensus 284 -----g~qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 284 -----GYQVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred -----CCcEEEECCHHHHHHHHHHHHHHH
Confidence 247999999999999999888764
No 59
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.64 E-value=2.7e-06 Score=94.02 Aligned_cols=94 Identities=16% Similarity=0.221 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhcc
Q 004379 501 KQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKD 580 (758)
Q Consensus 501 ~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~ 580 (758)
...+.+.|..+....+|.++||+......+++...++..... -..+.-.+...+....|++|++
T Consensus 326 ~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~~~------------a~~iHGd~sQ~eR~~~L~~Fre---- 389 (519)
T KOG0331|consen 326 LRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKGWP------------AVAIHGDKSQSERDWVLKGFRE---- 389 (519)
T ss_pred HHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcCcc------------eeeecccccHHHHHHHHHhccc----
Confidence 355666666666667889999999999999998887753211 0112222333567788899986
Q ss_pred CCCCCeEEEEEecCccccccccCCCCceEEEEEccC
Q 004379 581 TSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (758)
Q Consensus 581 ~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glP 616 (758)
++-.||+|+ .-.+.|+|++| .+.||-.-.|
T Consensus 390 --G~~~vLVAT--dVAaRGLDi~d--V~lVInydfP 419 (519)
T KOG0331|consen 390 --GKSPVLVAT--DVAARGLDVPD--VDLVINYDFP 419 (519)
T ss_pred --CCcceEEEc--ccccccCCCcc--ccEEEeCCCC
Confidence 678999999 78899999999 6788876544
No 60
>PRK09694 helicase Cas3; Provisional
Probab=98.61 E-value=1.1e-07 Score=113.16 Aligned_cols=70 Identities=17% Similarity=0.210 Sum_probs=53.6
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCC
Q 004379 14 PFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSK 93 (758)
Q Consensus 14 pf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (758)
.|+|||.|..++... .+++.+++|||||+|||.|+|..|...+...+
T Consensus 284 ~~~p~p~Q~~~~~~~----~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~----------------------------- 330 (878)
T PRK09694 284 GYQPRQLQTLVDALP----LQPGLTIIEAPTGSGKTEAALAYAWRLIDQGL----------------------------- 330 (878)
T ss_pred CCCChHHHHHHHhhc----cCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCC-----------------------------
Confidence 478999999874321 35688999999999999999987665443221
Q ss_pred CCeEEEeCCccchHHHHHHHhhc
Q 004379 94 LPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 94 ~~kIi~~trT~sql~Q~i~eLkk 116 (758)
..+|+|+.+|....+|+.+.+++
T Consensus 331 ~~gi~~aLPT~Atan~m~~Rl~~ 353 (878)
T PRK09694 331 ADSIIFALPTQATANAMLSRLEA 353 (878)
T ss_pred CCeEEEECcHHHHHHHHHHHHHH
Confidence 25899999999988888877653
No 61
>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=98.49 E-value=5.2e-07 Score=83.63 Aligned_cols=51 Identities=39% Similarity=0.462 Sum_probs=38.0
Q ss_pred CceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHHHHhh
Q 004379 36 CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~eLk 115 (758)
+++++.+|||+|||..++..+....... ..+++++++++..+.+|....+.
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~-----------------------------~~~~~lv~~p~~~l~~~~~~~~~ 51 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSL-----------------------------KGGQVLVLAPTRELANQVAERLK 51 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcc-----------------------------cCCCEEEEcCcHHHHHHHHHHHH
Confidence 4689999999999999987766533321 12578999999888888766554
No 62
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.48 E-value=2.4e-05 Score=85.36 Aligned_cols=174 Identities=16% Similarity=0.181 Sum_probs=98.5
Q ss_pred EEEEecccCCChHhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHH--hhh
Q 004379 437 SIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNI--ARI 514 (758)
Q Consensus 437 ~vil~SaTL~p~~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~--~~~ 514 (758)
..|..|||....+.+++.||.+....-.-|.++. .-.+ +..+ ..+..+.+..+++.=... ..-
T Consensus 374 Q~i~LSATVgNp~elA~~l~a~lV~y~~RPVplE--rHlv--f~~~-----------e~eK~~ii~~L~k~E~~~~sskg 438 (830)
T COG1202 374 QFIYLSATVGNPEELAKKLGAKLVLYDERPVPLE--RHLV--FARN-----------ESEKWDIIARLVKREFSTESSKG 438 (830)
T ss_pred eEEEEEeecCChHHHHHHhCCeeEeecCCCCChh--Heee--eecC-----------chHHHHHHHHHHHHHHhhhhccC
Confidence 3478999999999999999986422222333332 2112 2111 111122333333321111 112
Q ss_pred cCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecC
Q 004379 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (758)
Q Consensus 515 ~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g 594 (758)
-.|.++||..|.+.-+.++..+...+.. ..++.-+-...+...+=..|.. +.=++.+.+ .
T Consensus 439 ~rGQtIVFT~SRrr~h~lA~~L~~kG~~------------a~pYHaGL~y~eRk~vE~~F~~------q~l~~VVTT--A 498 (830)
T COG1202 439 YRGQTIVFTYSRRRCHELADALTGKGLK------------AAPYHAGLPYKERKSVERAFAA------QELAAVVTT--A 498 (830)
T ss_pred cCCceEEEecchhhHHHHHHHhhcCCcc------------cccccCCCcHHHHHHHHHHHhc------CCcceEeeh--h
Confidence 3478999999999999999988754321 0111111111112222234433 334566666 6
Q ss_pred ccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCcccc
Q 004379 595 KVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIR 674 (758)
Q Consensus 595 ~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlIR 674 (758)
.++-|||||... ++ -+- ...|.+|..| +.+.|.+||.=|
T Consensus 499 AL~AGVDFPASQ-----------------VI---FEs------------------LaMG~~WLs~---~EF~QM~GRAGR 537 (830)
T COG1202 499 ALAAGVDFPASQ-----------------VI---FES------------------LAMGIEWLSV---REFQQMLGRAGR 537 (830)
T ss_pred hhhcCCCCchHH-----------------HH---HHH------------------HHcccccCCH---HHHHHHhcccCC
Confidence 999999998632 11 011 1346788775 778899999988
Q ss_pred CC-CCeEEEEEee
Q 004379 675 HR-HDYGAIIFCD 686 (758)
Q Consensus 675 ~~-~D~g~villD 686 (758)
-. .|+|.|+++=
T Consensus 538 p~yHdrGkVyllv 550 (830)
T COG1202 538 PDYHDRGKVYLLV 550 (830)
T ss_pred CCcccCceEEEEe
Confidence 65 6999999983
No 63
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.36 E-value=3.8e-05 Score=90.25 Aligned_cols=137 Identities=16% Similarity=0.111 Sum_probs=77.5
Q ss_pred hchhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHH
Q 004379 426 AMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQEL 504 (758)
Q Consensus 426 ~l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l 504 (758)
.++.++. .+..+--|+||.... +.|....|++... .| ++.-... .+.+ +.-|.+ ..+-..++
T Consensus 371 T~Qn~Fr-~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~---IP----tnkp~~R--~d~~-----d~v~~t--~~~k~~av 433 (896)
T PRK13104 371 TFQNFFR-MYNKLSGMTGTADTEAYEFQQIYNLEVVV---IP----TNRSMIR--KDEA-----DLVYLT--QADKFQAI 433 (896)
T ss_pred hHHHHHH-hcchhccCCCCChhHHHHHHHHhCCCEEE---CC----CCCCcce--ecCC-----CeEEcC--HHHHHHHH
Confidence 4445544 567778888888663 4677777775311 11 1100000 0111 011222 23334667
Q ss_pred HHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCC-CChHHHHHHHHHHhccCCC
Q 004379 505 GNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTST 583 (758)
Q Consensus 505 ~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~-~~~~~~i~~~~~~i~~~~~ 583 (758)
.+.|.++.. .+..+|||++|-+.-+.+...|.+.+.. ..++..+.. .+...+.+.+ .
T Consensus 434 ~~~i~~~~~-~g~PVLVgt~Sie~sE~ls~~L~~~gi~-------------h~vLnak~~q~Ea~iia~Ag--------~ 491 (896)
T PRK13104 434 IEDVRECGV-RKQPVLVGTVSIEASEFLSQLLKKENIK-------------HQVLNAKFHEKEAQIIAEAG--------R 491 (896)
T ss_pred HHHHHHHHh-CCCCEEEEeCcHHHHHHHHHHHHHcCCC-------------eEeecCCCChHHHHHHHhCC--------C
Confidence 777766543 5668999999999999999988765321 122222222 1122222222 3
Q ss_pred CCeEEEEEecCccccccccC
Q 004379 584 SGAVFFAVCRGKVSEGLDFA 603 (758)
Q Consensus 584 ~~~vL~~v~~g~~~EGiD~~ 603 (758)
.|+|++|+ .-.+.|+|+.
T Consensus 492 ~G~VtIAT--NmAGRGtDI~ 509 (896)
T PRK13104 492 PGAVTIAT--NMAGRGTDIV 509 (896)
T ss_pred CCcEEEec--cCccCCccee
Confidence 57999999 7888999986
No 64
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.35 E-value=1.2e-06 Score=95.09 Aligned_cols=70 Identities=21% Similarity=0.316 Sum_probs=53.3
Q ss_pred HhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHH
Q 004379 32 LQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVI 111 (758)
Q Consensus 32 l~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i 111 (758)
+.+|.-++++||||+|||.|+|+|++.++...+..... .......|.+++.++|+.+..|+.
T Consensus 108 i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~------------------~~~~~~~P~~lIlapTReL~~Qi~ 169 (482)
T KOG0335|consen 108 ISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRG------------------ESGGGVYPRALILAPTRELVDQIY 169 (482)
T ss_pred eecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCc------------------ccCCCCCCceEEEeCcHHHhhHHH
Confidence 45677899999999999999999999998876531100 000113489999999999999999
Q ss_pred HHhhcCCC
Q 004379 112 QELKTSNY 119 (758)
Q Consensus 112 ~eLkkl~~ 119 (758)
+|.+|..+
T Consensus 170 nea~k~~~ 177 (482)
T KOG0335|consen 170 NEARKFSY 177 (482)
T ss_pred HHHHhhcc
Confidence 98887543
No 65
>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=98.34 E-value=3.6e-06 Score=77.41 Aligned_cols=116 Identities=18% Similarity=0.271 Sum_probs=79.5
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhc
Q 004379 501 KQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLK 579 (758)
Q Consensus 501 ~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~ 579 (758)
...+.+.+.+..+ ..+.+|||+++...++.+...+.+... ...++... ...+....++.|+.
T Consensus 14 ~~~i~~~i~~~~~-~~~~~lvf~~~~~~~~~~~~~l~~~~~-------------~~~~~~~~~~~~~~~~~~~~f~~--- 76 (131)
T cd00079 14 LEALLELLKEHLK-KGGKVLIFCPSKKMLDELAELLRKPGI-------------KVAALHGDGSQEEREEVLKDFRE--- 76 (131)
T ss_pred HHHHHHHHHhccc-CCCcEEEEeCcHHHHHHHHHHHHhcCC-------------cEEEEECCCCHHHHHHHHHHHHc---
Confidence 3455555555443 467899999999999999998875211 11222222 12335556666664
Q ss_pred cCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHH
Q 004379 580 DTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQ 659 (758)
Q Consensus 580 ~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~ 659 (758)
+...||+++ ..++||+|+++ +..||+.+.|+.
T Consensus 77 ---~~~~ili~t--~~~~~G~d~~~--~~~vi~~~~~~~----------------------------------------- 108 (131)
T cd00079 77 ---GEIVVLVAT--DVIARGIDLPN--VSVVINYDLPWS----------------------------------------- 108 (131)
T ss_pred ---CCCcEEEEc--ChhhcCcChhh--CCEEEEeCCCCC-----------------------------------------
Confidence 346799988 89999999987 788998887542
Q ss_pred HHHHHHHHhcCccccCCCCeEEEEE
Q 004379 660 QASRAVNQAVGRVIRHRHDYGAIIF 684 (758)
Q Consensus 660 ~a~~~~~QaiGRlIR~~~D~g~vil 684 (758)
...+.|++||+.|..+ .|.+++
T Consensus 109 --~~~~~Q~~GR~~R~~~-~~~~~~ 130 (131)
T cd00079 109 --PSSYLQRIGRAGRAGQ-KGTAIL 130 (131)
T ss_pred --HHHheecccccccCCC-CceEEe
Confidence 2456899999999886 566554
No 66
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.32 E-value=1.1e-06 Score=103.38 Aligned_cols=67 Identities=30% Similarity=0.355 Sum_probs=53.5
Q ss_pred CCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCC
Q 004379 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLP 95 (758)
Q Consensus 16 ~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (758)
+-++.|.+..... +..++++++.||||+|||+-.+++.+.-..+.+ .
T Consensus 31 el~~~qq~av~~~---~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~------------------------------~ 77 (766)
T COG1204 31 ELFNPQQEAVEKG---LLSDENVLISAPTGSGKTLIALLAILSTLLEGG------------------------------G 77 (766)
T ss_pred HhhHHHHHHhhcc---ccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcC------------------------------C
Confidence 4577887765554 444899999999999999999988886555432 3
Q ss_pred eEEEeCCccchHHHHHHHhh
Q 004379 96 TILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 96 kIi~~trT~sql~Q~i~eLk 115 (758)
+++|.+++.++.++.+++++
T Consensus 78 k~vYivPlkALa~Ek~~~~~ 97 (766)
T COG1204 78 KVVYIVPLKALAEEKYEEFS 97 (766)
T ss_pred cEEEEeChHHHHHHHHHHhh
Confidence 79999999999999888776
No 67
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.30 E-value=9.7e-05 Score=86.70 Aligned_cols=139 Identities=17% Similarity=0.129 Sum_probs=80.1
Q ss_pred chhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHH
Q 004379 427 MQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELG 505 (758)
Q Consensus 427 l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~ 505 (758)
++.++. .+..+--|+||.... +.|....|++... .| ++.-.... +.++ .-|. +..+-...+.
T Consensus 358 ~qn~Fr-~Y~kl~GmTGTa~te~~E~~~iY~l~vv~---IP----tnkp~~r~--d~~d-----~i~~--t~~~K~~aI~ 420 (830)
T PRK12904 358 FQNYFR-MYEKLAGMTGTADTEAEEFREIYNLDVVV---IP----TNRPMIRI--DHPD-----LIYK--TEKEKFDAVV 420 (830)
T ss_pred HHHHHH-hcchhcccCCCcHHHHHHHHHHhCCCEEE---cC----CCCCeeee--eCCC-----eEEE--CHHHHHHHHH
Confidence 344443 566788999999753 4577777775321 11 11100110 1110 1122 2233346677
Q ss_pred HHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCC
Q 004379 506 NTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSG 585 (758)
Q Consensus 506 ~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~ 585 (758)
+.|.+... .+..+|||+.|-+.-+.+...+.+.+.. ...+..+ ..+....+..|.. .++
T Consensus 421 ~~I~~~~~-~grpVLIft~Si~~se~Ls~~L~~~gi~-------------~~vLnak-q~eREa~Iia~Ag------~~g 479 (830)
T PRK12904 421 EDIKERHK-KGQPVLVGTVSIEKSELLSKLLKKAGIP-------------HNVLNAK-NHEREAEIIAQAG------RPG 479 (830)
T ss_pred HHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHCCCc-------------eEeccCc-hHHHHHHHHHhcC------CCc
Confidence 76665543 4557999999999999999988765311 1122222 1234444554542 579
Q ss_pred eEEEEEecCccccccccCCC
Q 004379 586 AVFFAVCRGKVSEGLDFADH 605 (758)
Q Consensus 586 ~vL~~v~~g~~~EGiD~~~~ 605 (758)
+|++|+ .-.+.|+|++=.
T Consensus 480 ~VtIAT--NmAGRGtDI~Lg 497 (830)
T PRK12904 480 AVTIAT--NMAGRGTDIKLG 497 (830)
T ss_pred eEEEec--ccccCCcCccCC
Confidence 999999 788999999654
No 68
>PRK13766 Hef nuclease; Provisional
Probab=98.30 E-value=2.8e-06 Score=102.70 Aligned_cols=92 Identities=10% Similarity=0.062 Sum_probs=62.3
Q ss_pred HHHHHHHHHHhh-hcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC---------CCCChHHHH
Q 004379 502 QELGNTIVNIAR-IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR---------QSSLFPLAI 571 (758)
Q Consensus 502 ~~l~~~i~~~~~-~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~---------~~~~~~~~i 571 (758)
+.+.+.|.++.. ..++.+|||+.+....+.+++.+...... ...+.+. ...+....+
T Consensus 350 ~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~~~~-------------~~~~~g~~~~~~~~~~~~~~r~~~~ 416 (773)
T PRK13766 350 EKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGIK-------------AVRFVGQASKDGDKGMSQKEQIEIL 416 (773)
T ss_pred HHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhCCCc-------------eEEEEccccccccCCCCHHHHHHHH
Confidence 556666666664 34567999999999999999988543211 1111111 112344577
Q ss_pred HHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccC
Q 004379 572 EDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (758)
Q Consensus 572 ~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glP 616 (758)
+.|+. ++..||+++ ...+||+|+++ ++.||+...|
T Consensus 417 ~~F~~------g~~~vLvaT--~~~~eGldi~~--~~~VI~yd~~ 451 (773)
T PRK13766 417 DKFRA------GEFNVLVST--SVAEEGLDIPS--VDLVIFYEPV 451 (773)
T ss_pred HHHHc------CCCCEEEEC--ChhhcCCCccc--CCEEEEeCCC
Confidence 77875 457899998 68899999985 8899998754
No 69
>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=98.29 E-value=3.8e-06 Score=98.86 Aligned_cols=72 Identities=22% Similarity=0.311 Sum_probs=57.7
Q ss_pred CCHHHHHHHHHHHHHHhc------CCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCC
Q 004379 17 AYDCQLVYMEKVIQSLQN------KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~------~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (758)
+|+.|...++++.+++.+ ++.+++..|||||||+..+..|.......
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~--------------------------- 291 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELL--------------------------- 291 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhc---------------------------
Confidence 688999999999999976 35799999999999998876654333221
Q ss_pred CCCCCeEEEeCCccchHHHHHHHhhcC
Q 004379 91 DSKLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 91 ~~~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
..++|++.+.+..+.+|+.+++++.
T Consensus 292 --~~~~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 292 --KNPKVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred --CCCeEEEEECcHHHHHHHHHHHHhh
Confidence 2368999999999999999888754
No 70
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.29 E-value=1.5e-06 Score=93.04 Aligned_cols=146 Identities=20% Similarity=0.261 Sum_probs=93.1
Q ss_pred CCHHHHHHHHHHHHHHhc-----CCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCC
Q 004379 17 AYDCQLVYMEKVIQSLQN-----KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~-----~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (758)
.+|.|...+-.+.+.+.. .+-+.+-||||+||||||-+|.+.-......
T Consensus 160 ~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v-------------------------- 213 (620)
T KOG0350|consen 160 LFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPV-------------------------- 213 (620)
T ss_pred ccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCc--------------------------
Confidence 467899999888888873 3668999999999999999998764433211
Q ss_pred CCCCeEEEeCCccchHHHHHHHhhcCCCCCceEEecCCcccccchhhhhccCcchhHHHHHHhhcCCCCCCCCCcchhhh
Q 004379 92 SKLPTILYTSRTHSQLRQVIQELKTSNYRPKMVILGSREQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCNHHSRVADY 171 (758)
Q Consensus 92 ~~~~kIi~~trT~sql~Q~i~eLkkl~~~~~~~~l~sr~~lCi~~~~~~~~~~~~~~~c~~l~~~~~~~~c~~~~~~~~~ 171 (758)
+.-+.++..+|..+..|+...++++.... .=.+|.......++
T Consensus 214 -~~LRavVivPtr~L~~QV~~~f~~~~~~t-------gL~V~~~sgq~sl~----------------------------- 256 (620)
T KOG0350|consen 214 -KRLRAVVIVPTRELALQVYDTFKRLNSGT-------GLAVCSLSGQNSLE----------------------------- 256 (620)
T ss_pred -cceEEEEEeeHHHHHHHHHHHHHHhccCC-------ceEEEecccccchH-----------------------------
Confidence 12356666778889999998887642110 00123222211111
Q ss_pred hhcCCCCCCCCCChhHHHHhcccCCCcchhhhhhhhcCccEEEecCccccChhhh-hccCCCccccEEEEeCCcchHHHH
Q 004379 172 MKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFR-KGLGVEWKNSILIFDEAHNLEGIC 250 (758)
Q Consensus 172 ~~~~~~~~~~~~di~~l~~~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl~~~~~-~~~~i~~~~~ilIiDEAHnL~d~~ 250 (758)
.|..++......| .+||+|++-.=|.|+.-. .++.+ -.=.++|||||..|.+..
T Consensus 257 --------------~E~~qL~~~~~~~----------~~DIlVaTPGRLVDHl~~~k~f~L-k~LrfLVIDEADRll~qs 311 (620)
T KOG0350|consen 257 --------------DEARQLASDPPEC----------RIDILVATPGRLVDHLNNTKSFDL-KHLRFLVIDEADRLLDQS 311 (620)
T ss_pred --------------HHHHHHhcCCCcc----------ccceEEcCchHHHHhccCCCCcch-hhceEEEechHHHHHHHH
Confidence 0111222233446 899999999888887632 23321 133579999999998875
No 71
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.28 E-value=0.00018 Score=83.90 Aligned_cols=133 Identities=22% Similarity=0.270 Sum_probs=85.5
Q ss_pred cccEEEEecccCCChH----hHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHH
Q 004379 434 EVGSIILTSGTLSPMD----SFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIV 509 (758)
Q Consensus 434 ~~~~vil~SaTL~p~~----~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~ 509 (758)
+...+|++|||..|-+ -|...||++... +..+ -.|+.-. |... ...+.+.
T Consensus 275 k~g~LvvsSATg~~rg~R~~LfReLlgFevG~----~~~~-LRNIvD~--------------y~~~-------~~~e~~~ 328 (1187)
T COG1110 275 KLGILVVSSATGKPRGSRLKLFRELLGFEVGS----GGEG-LRNIVDI--------------YVES-------ESLEKVV 328 (1187)
T ss_pred CCceEEEeeccCCCCCchHHHHHHHhCCccCc----cchh-hhheeee--------------eccC-------ccHHHHH
Confidence 3456799999999954 578888876421 1111 1222111 1111 1223345
Q ss_pred HHhhhcCCcEEEEecc---HHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCe
Q 004379 510 NIARIVPDGLLIFFPS---YYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGA 586 (758)
Q Consensus 510 ~~~~~~~g~~lv~f~S---y~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~ 586 (758)
++++..+.|.|||.|. .+..++++++++.++.+ -..+.- .....++.|.+ ++=.
T Consensus 329 elvk~lG~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~------------a~~~~a-----~~~~~le~F~~------Geid 385 (1187)
T COG1110 329 ELVKKLGDGGLIFVPIDYGREKAEELAEYLRSHGIN------------AELIHA-----EKEEALEDFEE------GEVD 385 (1187)
T ss_pred HHHHHhCCCeEEEEEcHHhHHHHHHHHHHHHhcCce------------EEEeec-----cchhhhhhhcc------Ccee
Confidence 5666677899999999 89999999999876422 001111 12456777765 4567
Q ss_pred EEEEEe--cCccccccccCCCCceEEEEEccC
Q 004379 587 VFFAVC--RGKVSEGLDFADHAGRAVVITGMP 616 (758)
Q Consensus 587 vL~~v~--~g~~~EGiD~~~~~~r~vii~glP 616 (758)
+|+||+ -|.+-.|||+|. ..|-+|-.|+|
T Consensus 386 vLVGvAsyYG~lVRGlDLP~-rirYaIF~GvP 416 (1187)
T COG1110 386 VLVGVASYYGVLVRGLDLPH-RIRYAVFYGVP 416 (1187)
T ss_pred EEEEecccccceeecCCchh-heeEEEEecCC
Confidence 788774 466779999997 57999999999
No 72
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=98.21 E-value=7.1e-06 Score=93.67 Aligned_cols=67 Identities=19% Similarity=0.228 Sum_probs=53.8
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCC
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (758)
++.|.-|.++.. .|| +++.++-+|||.|||+.+..-++.|.+...+
T Consensus 61 ~~lR~YQ~eivq---~AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~----------------------------- 106 (746)
T KOG0354|consen 61 LELRNYQEELVQ---PAL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK----------------------------- 106 (746)
T ss_pred ccccHHHHHHhH---Hhh--cCCeEEEeecCCCccchHHHHHHHHHhcCCc-----------------------------
Confidence 667899988654 567 8999999999999999998888888776543
Q ss_pred CeEEEeCCccchHHHHHHHhh
Q 004379 95 PTILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 95 ~kIi~~trT~sql~Q~i~eLk 115 (758)
-|||+.++|.-+..|-+..++
T Consensus 107 ~KiVF~aP~~pLv~QQ~a~~~ 127 (746)
T KOG0354|consen 107 GKVVFLAPTRPLVNQQIACFS 127 (746)
T ss_pred ceEEEeeCCchHHHHHHHHHh
Confidence 489999999888777555443
No 73
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=98.14 E-value=6e-06 Score=98.74 Aligned_cols=44 Identities=23% Similarity=0.265 Sum_probs=36.9
Q ss_pred CCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhh
Q 004379 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSL 63 (758)
Q Consensus 16 ~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~ 63 (758)
.+|+.|.+.+.. +.+|+++||-+|||+|||.+|++|.+.-....
T Consensus 70 ~lY~HQ~~A~~~----~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~ 113 (851)
T COG1205 70 RLYSHQVDALRL----IREGRNVVVTTGTGSGKTESFLLPILDHLLRD 113 (851)
T ss_pred cccHHHHHHHHH----HHCCCCEEEECCCCCchhHHHHHHHHHHHhhC
Confidence 378999987655 56789999999999999999999988765543
No 74
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=98.02 E-value=0.0074 Score=70.99 Aligned_cols=151 Identities=14% Similarity=0.088 Sum_probs=83.6
Q ss_pred hchhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHH
Q 004379 426 AMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQEL 504 (758)
Q Consensus 426 ~l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l 504 (758)
.++.++. .+..+--|+||...- +.|....|++... .|.-- .. .. .+.++ .-|.+ ..+-...+
T Consensus 367 t~qnfFr-~Y~kl~GmTGTa~~e~~Ef~~iY~l~vv~---IPtnk---p~-~r--~d~~d-----~i~~t--~~~K~~al 429 (796)
T PRK12906 367 TYQNFFR-MYKKLSGMTGTAKTEEEEFREIYNMEVIT---IPTNR---PV-IR--KDSPD-----LLYPT--LDSKFNAV 429 (796)
T ss_pred hHHHHHH-hcchhhccCCCCHHHHHHHHHHhCCCEEE---cCCCC---Ce-ee--eeCCC-----eEEcC--HHHHHHHH
Confidence 3444444 667788899998653 4567777775311 11110 00 00 01110 11222 23334566
Q ss_pred HHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCC
Q 004379 505 GNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTS 584 (758)
Q Consensus 505 ~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~ 584 (758)
.+.|.+.. ..+..+|||+.|-..-+.+.+.+.+... ...++..+.. ..+.. .+.....+
T Consensus 430 ~~~i~~~~-~~g~pvLI~t~si~~se~ls~~L~~~gi-------------~~~~Lna~~~-~~Ea~------ii~~ag~~ 488 (796)
T PRK12906 430 VKEIKERH-AKGQPVLVGTVAIESSERLSHLLDEAGI-------------PHAVLNAKNH-AKEAE------IIMNAGQR 488 (796)
T ss_pred HHHHHHHH-hCCCCEEEEeCcHHHHHHHHHHHHHCCC-------------CeeEecCCcH-HHHHH------HHHhcCCC
Confidence 66665544 3567899999999999999998876531 1122222211 11111 11112256
Q ss_pred CeEEEEEecCccccccccC-CCCce-----EEEEEccC
Q 004379 585 GAVFFAVCRGKVSEGLDFA-DHAGR-----AVVITGMP 616 (758)
Q Consensus 585 ~~vL~~v~~g~~~EGiD~~-~~~~r-----~vii~glP 616 (758)
|.|++|+ .-...|.|++ |+... .||.+-+|
T Consensus 489 g~VtIAT--nmAGRGtDI~l~~~V~~~GGLhVI~te~p 524 (796)
T PRK12906 489 GAVTIAT--NMAGRGTDIKLGPGVKELGGLAVIGTERH 524 (796)
T ss_pred ceEEEEe--ccccCCCCCCCCcchhhhCCcEEEeeecC
Confidence 8999999 7889999996 44455 66666554
No 75
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.01 E-value=2.3e-05 Score=84.89 Aligned_cols=91 Identities=13% Similarity=0.134 Sum_probs=60.9
Q ss_pred HHHHHHHHHHhhhcCC-cEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCC--------CChHHHHH
Q 004379 502 QELGNTIVNIARIVPD-GLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS--------SLFPLAIE 572 (758)
Q Consensus 502 ~~l~~~i~~~~~~~~g-~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~--------~~~~~~i~ 572 (758)
+.+-+.+.+..+..++ +++||.......+.+.+.+.+.... .+-.|+-|.+. .+..++|+
T Consensus 351 ~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~-----------~~~rFiGQa~r~~~~GMsQkeQ~eiI~ 419 (542)
T COG1111 351 EKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIK-----------ARVRFIGQASREGDKGMSQKEQKEIID 419 (542)
T ss_pred HHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCc-----------ceeEEeeccccccccccCHHHHHHHHH
Confidence 5566677777765554 6888888888889999999876432 01145543332 23456788
Q ss_pred HHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEE
Q 004379 573 DYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVIT 613 (758)
Q Consensus 573 ~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~ 613 (758)
+|++ +..-||+|+ .---||+|+|. +..||..
T Consensus 420 ~Fr~------Ge~nVLVaT--SVgEEGLDIp~--vDlVifY 450 (542)
T COG1111 420 QFRK------GEYNVLVAT--SVGEEGLDIPE--VDLVIFY 450 (542)
T ss_pred HHhc------CCceEEEEc--ccccccCCCCc--ccEEEEe
Confidence 8886 678999998 34459999998 3444443
No 76
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=97.88 E-value=0.0017 Score=71.08 Aligned_cols=187 Identities=20% Similarity=0.207 Sum_probs=109.3
Q ss_pred chhhhcccccEEEEecccCCChHhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHH
Q 004379 427 MQEFSRLEVGSIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGN 506 (758)
Q Consensus 427 l~~~l~~~~~~vil~SaTL~p~~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~ 506 (758)
|.++.. ....+|+.|||=.+.+-=. +..+++ +|+ +=|+|..+..+..+ .....++.+..
T Consensus 379 feEf~~-~~~q~i~VSATPg~~E~e~-----------s~~~vv--eQi---IRPTGLlDP~ievR----p~~~QvdDL~~ 437 (663)
T COG0556 379 FEEFEA-KIPQTIYVSATPGDYELEQ-----------SGGNVV--EQI---IRPTGLLDPEIEVR----PTKGQVDDLLS 437 (663)
T ss_pred HHHHHH-hcCCEEEEECCCChHHHHh-----------ccCcee--EEe---ecCCCCCCCceeee----cCCCcHHHHHH
Confidence 455554 7889999999976643211 111222 221 12344332222222 11123455666
Q ss_pred HHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCC-CCCCChHHHHHHHHHHhccCCCCC
Q 004379 507 TIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEP-RQSSLFPLAIEDYMAKLKDTSTSG 585 (758)
Q Consensus 507 ~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~-~~~~~~~~~i~~~~~~i~~~~~~~ 585 (758)
.|...+. ...++||-.-..++.+.+.+++.+.+- |--++.. =+.-+..++|...+. +.=
T Consensus 438 EI~~r~~-~~eRvLVTtLTKkmAEdLT~Yl~e~gi-------------kv~YlHSdidTlER~eIirdLR~------G~~ 497 (663)
T COG0556 438 EIRKRVA-KNERVLVTTLTKKMAEDLTEYLKELGI-------------KVRYLHSDIDTLERVEIIRDLRL------GEF 497 (663)
T ss_pred HHHHHHh-cCCeEEEEeehHHHHHHHHHHHHhcCc-------------eEEeeeccchHHHHHHHHHHHhc------CCc
Confidence 6666554 457999999999999999999987631 1111111 112235566666654 456
Q ss_pred eEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHH
Q 004379 586 AVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAV 665 (758)
Q Consensus 586 ~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~ 665 (758)
-||+|+ .=+-||+|+|. +..|.|.- -| | ..| ...-+.+
T Consensus 498 DvLVGI--NLLREGLDiPE--VsLVAIlD------AD-----K---------eGF------------------LRse~SL 535 (663)
T COG0556 498 DVLVGI--NLLREGLDLPE--VSLVAILD------AD-----K---------EGF------------------LRSERSL 535 (663)
T ss_pred cEEEee--hhhhccCCCcc--eeEEEEee------cC-----c---------ccc------------------ccccchH
Confidence 799999 89999999998 55565541 11 1 111 1224778
Q ss_pred HHhcCccccCCCCeEEEEEeeccCCCccccccchhhhhhhhc
Q 004379 666 NQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQ 707 (758)
Q Consensus 666 ~QaiGRlIR~~~D~g~villD~R~~~~~y~~~l~~~l~~~~~ 707 (758)
.|-|||.-|+. .|-||+ |...+.++|+..+.
T Consensus 536 IQtIGRAARN~--~GkvIl---------YAD~iT~sM~~Ai~ 566 (663)
T COG0556 536 IQTIGRAARNV--NGKVIL---------YADKITDSMQKAID 566 (663)
T ss_pred HHHHHHHhhcc--CCeEEE---------EchhhhHHHHHHHH
Confidence 99999999955 466666 34445566665553
No 77
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=97.77 E-value=7.6e-05 Score=79.13 Aligned_cols=62 Identities=18% Similarity=0.162 Sum_probs=46.2
Q ss_pred hcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHHH
Q 004379 33 QNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQ 112 (758)
Q Consensus 33 ~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~ 112 (758)
-+|+.++.-|-||+|||+|||+|.|.-+...+.. ......|.-++..+|..+.+|+..
T Consensus 54 LEgKDvvarArTGSGKT~AYliPllqkll~~k~t----------------------~~~e~~~sa~iLvPTkEL~qQvy~ 111 (569)
T KOG0346|consen 54 LEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKT----------------------NDGEQGPSAVILVPTKELAQQVYK 111 (569)
T ss_pred hcCcceeeeeccCCCchHHHHHHHHHHHHHhhhc----------------------ccccccceeEEEechHHHHHHHHH
Confidence 4678999999999999999999988655443320 011244678888899999999887
Q ss_pred Hhhc
Q 004379 113 ELKT 116 (758)
Q Consensus 113 eLkk 116 (758)
.+.+
T Consensus 112 viek 115 (569)
T KOG0346|consen 112 VIEK 115 (569)
T ss_pred HHHH
Confidence 7654
No 78
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=97.72 E-value=8e-05 Score=85.12 Aligned_cols=88 Identities=14% Similarity=0.220 Sum_probs=60.9
Q ss_pred HHHHHhhhc-CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeC-CCCCCChHHHHHHHHHHhccCCCC
Q 004379 507 TIVNIARIV-PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVE-PRQSSLFPLAIEDYMAKLKDTSTS 584 (758)
Q Consensus 507 ~i~~~~~~~-~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e-~~~~~~~~~~i~~~~~~i~~~~~~ 584 (758)
.+..++... ++.++||+.+....+.++..|...+.. -..+. ........+.++.|+. ++
T Consensus 263 ~L~~ll~~~~~~~~IVF~~tk~~~~~l~~~l~~~g~~-------------~~~lhG~l~q~~R~~~l~~F~~------g~ 323 (513)
T COG0513 263 LLLKLLKDEDEGRVIVFVRTKRLVEELAESLRKRGFK-------------VAALHGDLPQEERDRALEKFKD------GE 323 (513)
T ss_pred HHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHHCCCe-------------EEEecCCCCHHHHHHHHHHHHc------CC
Confidence 345555543 345999999999999999888765321 11122 2223457778888885 56
Q ss_pred CeEEEEEecCccccccccCCCCceEEEEEccCC
Q 004379 585 GAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 585 ~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPf 617 (758)
-.||+|+ .-.++|||+++ ...||=.=+|.
T Consensus 324 ~~vLVaT--DvaaRGiDi~~--v~~VinyD~p~ 352 (513)
T COG0513 324 LRVLVAT--DVAARGLDIPD--VSHVINYDLPL 352 (513)
T ss_pred CCEEEEe--chhhccCCccc--cceeEEccCCC
Confidence 7899999 78899999999 66776666663
No 79
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.66 E-value=9.4e-05 Score=80.20 Aligned_cols=76 Identities=20% Similarity=0.186 Sum_probs=53.7
Q ss_pred CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCe
Q 004379 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k 96 (758)
|-..|.+-+-.|.+ |+-++|+|+||+|||||||+|.+..+...... ..-.+.+-
T Consensus 160 pTsVQkq~IP~lL~----grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~k----------------------i~Rs~G~~ 213 (708)
T KOG0348|consen 160 PTSVQKQAIPVLLE----GRDALVRAQTGSGKTLAYLLPIVQSLQAMEPK----------------------IQRSDGPY 213 (708)
T ss_pred cchHhhcchhhhhc----CcceEEEcCCCCcccHHHHHHHHHHHHhcCcc----------------------ccccCCce
Confidence 45567776665544 89999999999999999999988766543220 00123455
Q ss_pred EEEeCCccchHHHHHHHhhcCC
Q 004379 97 ILYTSRTHSQLRQVIQELKTSN 118 (758)
Q Consensus 97 Ii~~trT~sql~Q~i~eLkkl~ 118 (758)
.++..+|..+..|+.+-+.++.
T Consensus 214 ALVivPTREL~~Q~y~~~qKLl 235 (708)
T KOG0348|consen 214 ALVIVPTRELALQIYETVQKLL 235 (708)
T ss_pred EEEEechHHHHHHHHHHHHHHh
Confidence 5666778888889888777753
No 80
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.60 E-value=0.00016 Score=89.01 Aligned_cols=129 Identities=12% Similarity=0.073 Sum_probs=84.5
Q ss_pred HHHHHHHHHHHHHhhh-cCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHh---cCCCCeeCCCCCCChHHHHHHH
Q 004379 499 EYKQELGNTIVNIARI-VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERIC---KHKKPVVEPRQSSLFPLAIEDY 574 (758)
Q Consensus 499 ~~~~~l~~~i~~~~~~-~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~---~~k~~~~e~~~~~~~~~~i~~~ 574 (758)
++.+.+++.|.+.+.. .++.++||+.|-+..+.+.+.+.+.. .... ....+..-..+.....+++++|
T Consensus 680 ~~~~~i~~~l~~~l~~~~~~KtiIF~~s~~HA~~i~~~L~~~f--------~~~~~~~~~~~v~~itg~~~~~~~li~~F 751 (1123)
T PRK11448 680 SFNRVVCEELAKYLDPTGEGKTLIFAATDAHADMVVRLLKEAF--------KKKYGQVEDDAVIKITGSIDKPDQLIRRF 751 (1123)
T ss_pred HHHHHHHHHHHHHHhccCCCcEEEEEcCHHHHHHHHHHHHHHH--------HhhcCCcCccceEEEeCCccchHHHHHHH
Confidence 3445555555554432 35789999999999888887776421 1110 0111111122233467789999
Q ss_pred HHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcc
Q 004379 575 MAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGE 654 (758)
Q Consensus 575 ~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~ 654 (758)
+. + ..+.|+++| +-+++|||+|. +.+||+.+-|. +
T Consensus 752 k~----~-~~p~IlVsv--dmL~TG~DvP~--v~~vVf~rpvk----S-------------------------------- 786 (1123)
T PRK11448 752 KN----E-RLPNIVVTV--DLLTTGIDVPS--ICNLVFLRRVR----S-------------------------------- 786 (1123)
T ss_pred hC----C-CCCeEEEEe--cccccCCCccc--ccEEEEecCCC----C--------------------------------
Confidence 75 1 234688888 89999999997 88999987432 1
Q ss_pred hhHHHHHHHHHHHhcCccccCCC--CeEEEEEeec
Q 004379 655 DWYNQQASRAVNQAVGRVIRHRH--DYGAIIFCDE 687 (758)
Q Consensus 655 ~~y~~~a~~~~~QaiGRlIR~~~--D~g~villD~ 687 (758)
...+.|.+||..|--. |+-.++|+|.
T Consensus 787 -------~~lf~QmIGRgtR~~~~~~K~~f~I~D~ 814 (1123)
T PRK11448 787 -------RILYEQMLGRATRLCPEIGKTHFRIFDA 814 (1123)
T ss_pred -------HHHHHHHHhhhccCCccCCCceEEEEeh
Confidence 2556799999999766 5777888884
No 81
>COG4889 Predicted helicase [General function prediction only]
Probab=97.55 E-value=0.00063 Score=77.77 Aligned_cols=76 Identities=21% Similarity=0.232 Sum_probs=60.7
Q ss_pred cCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCC
Q 004379 7 RGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNS 86 (758)
Q Consensus 7 ~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (758)
.++.+.-|++|||.|.+.++++.+.|..+..+=+-+.+|||||+..|--+=+-+.
T Consensus 152 ~nl~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala~------------------------- 206 (1518)
T COG4889 152 DNLPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALAA------------------------- 206 (1518)
T ss_pred cccccCCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHhh-------------------------
Confidence 4566777899999999999999999988766666677899999988743222111
Q ss_pred CCCCCCCCCeEEEeCCccchHHHHHHHhh
Q 004379 87 SQSGDSKLPTILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 87 ~~~~~~~~~kIi~~trT~sql~Q~i~eLk 115 (758)
.+|.+..+.++++.|.++|-.
T Consensus 207 --------~~iL~LvPSIsLLsQTlrew~ 227 (1518)
T COG4889 207 --------ARILFLVPSISLLSQTLREWT 227 (1518)
T ss_pred --------hheEeecchHHHHHHHHHHHh
Confidence 379999999999999998854
No 82
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=97.48 E-value=0.00032 Score=82.35 Aligned_cols=72 Identities=22% Similarity=0.150 Sum_probs=54.1
Q ss_pred CCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCC
Q 004379 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLP 95 (758)
Q Consensus 16 ~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (758)
+|+|.|++.+..|. +|+++++-||||+|||+|.++|++.-....+.. ...+.-
T Consensus 22 ~~t~~Q~~a~~~i~----~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~-----------------------~~~~~i 74 (814)
T COG1201 22 SLTPPQRYAIPEIH----SGENVLIIAPTGSGKTEAAFLPVINELLSLGKG-----------------------KLEDGI 74 (814)
T ss_pred CCCHHHHHHHHHHh----CCCceEEEcCCCCChHHHHHHHHHHHHHhccCC-----------------------CCCCce
Confidence 48999999888775 899999999999999999999999866654210 011234
Q ss_pred eEEEeCCccchHHHHHHHh
Q 004379 96 TILYTSRTHSQLRQVIQEL 114 (758)
Q Consensus 96 kIi~~trT~sql~Q~i~eL 114 (758)
.++|.|+-+.+...+..-|
T Consensus 75 ~~lYIsPLkALn~Di~~rL 93 (814)
T COG1201 75 YALYISPLKALNNDIRRRL 93 (814)
T ss_pred EEEEeCcHHHHHHHHHHHH
Confidence 7889998877765554433
No 83
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=97.40 E-value=0.00015 Score=78.09 Aligned_cols=61 Identities=25% Similarity=0.235 Sum_probs=49.1
Q ss_pred hcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHHH
Q 004379 33 QNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQ 112 (758)
Q Consensus 33 ~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~ 112 (758)
-.|+.++.-|-||||||+|+|+||+.|....+-. ....-.++++++|..+.-|...
T Consensus 117 l~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~------------------------~r~~~~vlIi~PTRELA~Q~~~ 172 (543)
T KOG0342|consen 117 LEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFK------------------------PRNGTGVLIICPTRELAMQIFA 172 (543)
T ss_pred CCCccceeeeccCCCceeeehhHHHHHHHhcccC------------------------CCCCeeEEEecccHHHHHHHHH
Confidence 4567899999999999999999999988764320 1123468889999999999998
Q ss_pred HhhcC
Q 004379 113 ELKTS 117 (758)
Q Consensus 113 eLkkl 117 (758)
|++++
T Consensus 173 eak~L 177 (543)
T KOG0342|consen 173 EAKEL 177 (543)
T ss_pred HHHHH
Confidence 88875
No 84
>PRK05580 primosome assembly protein PriA; Validated
Probab=97.39 E-value=0.00039 Score=82.14 Aligned_cols=72 Identities=21% Similarity=0.146 Sum_probs=58.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
-|+++++.|.+.++.+.+.+ .++..++-||||+|||.+|+.++...... +
T Consensus 141 ~~~~Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~-g---------------------------- 190 (679)
T PRK05580 141 EPPTLNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLAQ-G---------------------------- 190 (679)
T ss_pred CCCCCCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHHc-C----------------------------
Confidence 35678899999988887765 45779999999999999999775543332 2
Q ss_pred CCCeEEEeCCccchHHHHHHHhhc
Q 004379 93 KLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
.++++.++|..+..|+.+.+++
T Consensus 191 --~~vLvLvPt~~L~~Q~~~~l~~ 212 (679)
T PRK05580 191 --KQALVLVPEIALTPQMLARFRA 212 (679)
T ss_pred --CeEEEEeCcHHHHHHHHHHHHH
Confidence 4799999999999999988864
No 85
>PF13245 AAA_19: Part of AAA domain
Probab=97.31 E-value=0.00096 Score=55.12 Aligned_cols=61 Identities=20% Similarity=0.212 Sum_probs=41.1
Q ss_pred HHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccch
Q 004379 27 KVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQ 106 (758)
Q Consensus 27 ~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sq 106 (758)
.|..++.++..++++||.|||||..++--+..+...... ...+|++.+.|+..
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~---------------------------~~~~vlv~a~t~~a 54 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARAD---------------------------PGKRVLVLAPTRAA 54 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcC---------------------------CCCeEEEECCCHHH
Confidence 456678855667779999999997665444433321111 12479999999888
Q ss_pred HHHHHHHh
Q 004379 107 LRQVIQEL 114 (758)
Q Consensus 107 l~Q~i~eL 114 (758)
.+.+.+.+
T Consensus 55 a~~l~~rl 62 (76)
T PF13245_consen 55 ADELRERL 62 (76)
T ss_pred HHHHHHHH
Confidence 87776655
No 86
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=97.28 E-value=0.00042 Score=81.61 Aligned_cols=139 Identities=17% Similarity=0.125 Sum_probs=76.3
Q ss_pred hchhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHH
Q 004379 426 AMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQEL 504 (758)
Q Consensus 426 ~l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l 504 (758)
.++.++. .++.+.-|+||...- ..|....|++.. ..|.-- |.+ .. +.++ .-|.+ ..+...++
T Consensus 495 t~qnfFr-~Y~kl~GmTGTa~~e~~Ef~~iY~l~v~---~iPt~k-p~~--r~---d~~d-----~iy~t--~~~k~~ai 557 (970)
T PRK12899 495 TLQNFFR-LYEKLAGMTGTAITESREFKEIYNLYVL---QVPTFK-PCL--RI---DHND-----EFYMT--EREKYHAI 557 (970)
T ss_pred hHHHHHh-hCchhcccCCCCHHHHHHHHHHhCCCEE---ECCCCC-Cce--ee---eCCC-----cEecC--HHHHHHHH
Confidence 4455554 677888999998653 356777777531 111100 100 00 1110 11322 23445667
Q ss_pred HHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCC
Q 004379 505 GNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTS 584 (758)
Q Consensus 505 ~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~ 584 (758)
.+.+.+... .+..+||-.+|-+.=+.+...+.+... ...++.-++...=.+++. .....
T Consensus 558 ~~ei~~~~~-~grPvLigt~si~~se~ls~~L~~~gi-------------~h~vLNak~~~~Ea~iia-------~AG~~ 616 (970)
T PRK12899 558 VAEIASIHR-KGNPILIGTESVEVSEKLSRILRQNRI-------------EHTVLNAKNHAQEAEIIA-------GAGKL 616 (970)
T ss_pred HHHHHHHHh-CCCCEEEEeCcHHHHHHHHHHHHHcCC-------------cceecccchhhhHHHHHH-------hcCCC
Confidence 777776654 455799999999998888888775421 111222121111112222 12257
Q ss_pred CeEEEEEecCccccccccCC
Q 004379 585 GAVFFAVCRGKVSEGLDFAD 604 (758)
Q Consensus 585 ~~vL~~v~~g~~~EGiD~~~ 604 (758)
|+|-+|+ .-...|.|+.=
T Consensus 617 g~VTIAT--NmAGRGTDIkl 634 (970)
T PRK12899 617 GAVTVAT--NMAGRGTDIKL 634 (970)
T ss_pred CcEEEee--ccccCCccccc
Confidence 9999999 56689999853
No 87
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.25 E-value=0.00057 Score=75.46 Aligned_cols=75 Identities=25% Similarity=0.222 Sum_probs=56.0
Q ss_pred CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCe
Q 004379 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k 96 (758)
|-|.|.+ ..-.|-++..++..||||+|||+||++|.+..++..... ..+..-+
T Consensus 159 Pt~iq~~----aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~-----------------------~~~~gl~ 211 (593)
T KOG0344|consen 159 PTPIQKQ----AIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQE-----------------------KHKVGLR 211 (593)
T ss_pred CCcccch----hhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcc-----------------------cCccceE
Confidence 5566763 344566788899999999999999999988877654320 0012236
Q ss_pred EEEeCCccchHHHHHHHhhcCC
Q 004379 97 ILYTSRTHSQLRQVIQELKTSN 118 (758)
Q Consensus 97 Ii~~trT~sql~Q~i~eLkkl~ 118 (758)
.++...|..+..|+-.|.+++.
T Consensus 212 a~Il~ptreLa~Qi~re~~k~~ 233 (593)
T KOG0344|consen 212 ALILSPTRELAAQIYREMRKYS 233 (593)
T ss_pred EEEecchHHHHHHHHHHHHhcC
Confidence 8888999999999999887654
No 88
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=97.20 E-value=0.0033 Score=77.75 Aligned_cols=170 Identities=14% Similarity=0.144 Sum_probs=98.3
Q ss_pred HHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHh
Q 004379 499 EYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKL 578 (758)
Q Consensus 499 ~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i 578 (758)
++.+.+.+.|..++...+|.+|||+|+...++.+.+.+.+.... ...++---.+- +..+-..-|+
T Consensus 262 ~~~~~i~~~I~~l~~~~~GdILVFLpg~~EI~~l~~~L~~~~~~-----------~~~VlpLhg~L-s~~eQ~~vf~--- 326 (1283)
T TIGR01967 262 DQLEAILDAVDELFAEGPGDILIFLPGEREIRDAAEILRKRNLR-----------HTEILPLYARL-SNKEQQRVFQ--- 326 (1283)
T ss_pred hHHHHHHHHHHHHHhhCCCCEEEeCCCHHHHHHHHHHHHhcCCC-----------CcEEEeccCCC-CHHHHHHHhC---
Confidence 46677788888877767889999999999999999988754211 00011000111 1111111222
Q ss_pred ccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHH
Q 004379 579 KDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYN 658 (758)
Q Consensus 579 ~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~ 658 (758)
.. ....|++++ .-..-|||++| .+.||=.|+|-.+-.||.... +.+. -.
T Consensus 327 -~~-~~rkIVLAT--NIAEtSLTIpg--V~yVIDsGl~r~~~yd~~~~~---------------------~~L~----~~ 375 (1283)
T TIGR01967 327 -PH-SGRRIVLAT--NVAETSLTVPG--IHYVIDTGTARISRYSYRTKV---------------------QRLP----IE 375 (1283)
T ss_pred -CC-CCceEEEec--cHHHhccccCC--eeEEEeCCCccccccccccCc---------------------cccC----Cc
Confidence 12 235799998 78888999999 789999998865444432110 0010 01
Q ss_pred HHHHHHHHHhcCccccCCCCeEEEEEeeccCCCccccccchhhhhhhhcccCchhHHHHHHHH
Q 004379 659 QQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTR 721 (758)
Q Consensus 659 ~~a~~~~~QaiGRlIR~~~D~g~villD~R~~~~~y~~~l~~~l~~~~~~~~~~~~~~~~~~~ 721 (758)
+-.--...|..||.=|.. -|..+ |+.+..-...++.+..|.+. ..++..++-.+..
T Consensus 376 ~ISkasa~QRaGRAGR~~--~G~cy----RLyte~~~~~~~~~~~PEIl-R~~L~~viL~l~~ 431 (1283)
T TIGR01967 376 PISQASANQRKGRCGRVA--PGICI----RLYSEEDFNSRPEFTDPEIL-RTNLASVILQMLA 431 (1283)
T ss_pred cCCHHHHHHHhhhhCCCC--CceEE----EecCHHHHHhhhhccCcccc-cccHHHHHHHHHh
Confidence 111235689999998876 56654 55443222335555455444 3455555544443
No 89
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=97.18 E-value=0.0017 Score=78.46 Aligned_cols=82 Identities=16% Similarity=0.141 Sum_probs=57.6
Q ss_pred CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCC-CeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecC
Q 004379 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKK-PVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (758)
Q Consensus 516 ~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~-~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g 594 (758)
+..+|||+.+...+..+.+.++... ++ +. .+.......+..+.++.|+. +.+...||+++ .
T Consensus 493 ~~KvLVF~~~~~t~~~L~~~L~~~~-----Gi-------~~~~ihG~~s~~eR~~~~~~F~~----~~~~~~VLIsT--d 554 (956)
T PRK04914 493 SEKVLVICAKAATALQLEQALRERE-----GI-------RAAVFHEGMSIIERDRAAAYFAD----EEDGAQVLLCS--E 554 (956)
T ss_pred CCeEEEEeCcHHHHHHHHHHHhhcc-----Ce-------eEEEEECCCCHHHHHHHHHHHhc----CCCCccEEEec--h
Confidence 5689999999999999999885321 10 12 23333233457778888875 11235688887 6
Q ss_pred ccccccccCCCCceEEEEEccCC
Q 004379 595 KVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 595 ~~~EGiD~~~~~~r~vii~glPf 617 (758)
..+||+||+. +..||..-+|.
T Consensus 555 vgseGlNlq~--a~~VInfDlP~ 575 (956)
T PRK04914 555 IGSEGRNFQF--ASHLVLFDLPF 575 (956)
T ss_pred hhccCCCccc--ccEEEEecCCC
Confidence 8889999977 67899998886
No 90
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.16 E-value=0.0012 Score=73.41 Aligned_cols=71 Identities=20% Similarity=0.232 Sum_probs=49.0
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCC
Q 004379 11 VEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (758)
Q Consensus 11 ~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (758)
-.||..--+.|++. |.-++.++...++.+|+|||||..+--- +.-+...
T Consensus 180 ~~~~~~ln~SQk~A---v~~~~~~k~l~~I~GPPGTGKT~TlvEi-I~qlvk~--------------------------- 228 (649)
T KOG1803|consen 180 TFFNKNLNSSQKAA---VSFAINNKDLLIIHGPPGTGKTRTLVEI-ISQLVKQ--------------------------- 228 (649)
T ss_pred ccCCccccHHHHHH---HHHHhccCCceEeeCCCCCCceeeHHHH-HHHHHHc---------------------------
Confidence 34555556778764 4445666688999999999999765422 2212222
Q ss_pred CCCCCeEEEeCCccchHHHHHHHhh
Q 004379 91 DSKLPTILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 91 ~~~~~kIi~~trT~sql~Q~i~eLk 115 (758)
..+|++|.+|+.-.+-+++.|-
T Consensus 229 ---~k~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 229 ---KKRVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred ---CCeEEEEcCchHHHHHHHHHhc
Confidence 2489999999999988887653
No 91
>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=97.13 E-value=0.0021 Score=68.17 Aligned_cols=71 Identities=20% Similarity=0.147 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHH---------hcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCC
Q 004379 20 CQLVYMEKVIQSL---------QNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (758)
Q Consensus 20 ~Q~~~~~~i~~al---------~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (758)
.|++.+.-+.+.. ...+.+++--.+|+|||+..+.-+. +.......
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~-~l~~~~~~------------------------ 55 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALIS-YLKNEFPQ------------------------ 55 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHH-HHHHCCTT------------------------
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhh-hhhhcccc------------------------
Confidence 3777777777776 4557788888999999998875533 33332210
Q ss_pred CCCCCeEEEeCCccchHHHHHHHhhcC
Q 004379 91 DSKLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 91 ~~~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
.... ++++.+++ +.+.|+..|+.+.
T Consensus 56 ~~~~-~~LIv~P~-~l~~~W~~E~~~~ 80 (299)
T PF00176_consen 56 RGEK-KTLIVVPS-SLLSQWKEEIEKW 80 (299)
T ss_dssp SS-S--EEEEE-T-TTHHHHHHHHHHH
T ss_pred cccc-ceeEeecc-chhhhhhhhhccc
Confidence 0011 24444555 7778999988763
No 92
>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=97.11 E-value=0.00094 Score=72.96 Aligned_cols=83 Identities=13% Similarity=0.157 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHhhhc-CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHH
Q 004379 499 EYKQELGNTIVNIARIV-PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAK 577 (758)
Q Consensus 499 ~~~~~l~~~i~~~~~~~-~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~ 577 (758)
+....+++.+.+.++.. ++.+||||++....+.++..+++...+ .+...+....+. . + +.+
T Consensus 254 ~~l~~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l~~~L~~~~~~-----------~~~~~l~g~~~~--~---~--R~~ 315 (357)
T TIGR03158 254 EELSELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQQGLG-----------DDIGRITGFAPK--K---D--RER 315 (357)
T ss_pred HHHHHHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHhhhCCC-----------ceEEeeecCCCH--H---H--HHH
Confidence 34566666666655433 457999999999999999988753210 000011111111 0 1 111
Q ss_pred hccCCCCCeEEEEEecCccccccccCCC
Q 004379 578 LKDTSTSGAVFFAVCRGKVSEGLDFADH 605 (758)
Q Consensus 578 i~~~~~~~~vL~~v~~g~~~EGiD~~~~ 605 (758)
. .+..||+|+ .-+..|||++++
T Consensus 316 ~----~~~~iLVaT--dv~~rGiDi~~~ 337 (357)
T TIGR03158 316 A----MQFDILLGT--STVDVGVDFKRD 337 (357)
T ss_pred h----ccCCEEEEe--cHHhcccCCCCc
Confidence 1 246899999 799999999985
No 93
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=97.04 E-value=0.0012 Score=78.80 Aligned_cols=71 Identities=28% Similarity=0.347 Sum_probs=58.6
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCC
Q 004379 11 VEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (758)
Q Consensus 11 ~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (758)
-.|||++.+-|++-+ .+|+++..++++||||+|||...-++ ++++...+
T Consensus 114 ~~~~F~LD~fQ~~a~----~~Ler~esVlV~ApTssGKTvVaeyA-i~~al~~~-------------------------- 162 (1041)
T COG4581 114 REYPFELDPFQQEAI----AILERGESVLVCAPTSSGKTVVAEYA-IALALRDG-------------------------- 162 (1041)
T ss_pred HhCCCCcCHHHHHHH----HHHhCCCcEEEEccCCCCcchHHHHH-HHHHHHcC--------------------------
Confidence 358999999998855 45789999999999999999987755 66665544
Q ss_pred CCCCCeEEEeCCccchHHHHHHHhhc
Q 004379 91 DSKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 91 ~~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
.++||+|+++.+-.|-..+|..
T Consensus 163 ----qrviYTsPIKALsNQKyrdl~~ 184 (1041)
T COG4581 163 ----QRVIYTSPIKALSNQKYRDLLA 184 (1041)
T ss_pred ----CceEeccchhhhhhhHHHHHHH
Confidence 3799999999999999888754
No 94
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.03 E-value=0.0035 Score=71.16 Aligned_cols=86 Identities=22% Similarity=0.292 Sum_probs=66.2
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCc--eEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCC
Q 004379 12 EFPFEAYDCQLVYMEKVIQSLQNKCN--ALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQS 89 (758)
Q Consensus 12 ~Fpf~~r~~Q~~~~~~i~~al~~~~~--~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 89 (758)
..||+.-..|+....+|..-+....+ =++.+-.|+|||+..+++++.-.. .+
T Consensus 258 ~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~-~G------------------------- 311 (677)
T COG1200 258 ALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE-AG------------------------- 311 (677)
T ss_pred hCCCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHH-cC-------------------------
Confidence 46999999999999999999998855 489999999999999998776433 22
Q ss_pred CCCCCCeEEEeCCccchHHHHHHHhhcC--CCCCceEEecC
Q 004379 90 GDSKLPTILYTSRTHSQLRQVIQELKTS--NYRPKMVILGS 128 (758)
Q Consensus 90 ~~~~~~kIi~~trT~sql~Q~i~eLkkl--~~~~~~~~l~s 128 (758)
-++..-.+|--+.+|-...+++. ...+++.++.|
T Consensus 312 -----~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG 347 (677)
T COG1200 312 -----YQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTG 347 (677)
T ss_pred -----CeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeec
Confidence 25777788988999988777653 12244555543
No 95
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.01 E-value=0.0017 Score=68.20 Aligned_cols=70 Identities=17% Similarity=0.076 Sum_probs=55.0
Q ss_pred CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCe
Q 004379 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k 96 (758)
|-+.|.+.|-.+ -+|+++|.=|.||+|||+||++|.|.-+-... ..+.
T Consensus 84 PT~IQ~~aiP~~----L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p----------------------------~~~~ 131 (476)
T KOG0330|consen 84 PTKIQSEAIPVA----LGGRDVIGLAETGSGKTGAFALPILQRLLQEP----------------------------KLFF 131 (476)
T ss_pred Cchhhhhhcchh----hCCCcEEEEeccCCCchhhhHHHHHHHHHcCC----------------------------CCce
Confidence 567777766543 47899999999999999999999886554332 3478
Q ss_pred EEEeCCccchHHHHHHHhhcCC
Q 004379 97 ILYTSRTHSQLRQVIQELKTSN 118 (758)
Q Consensus 97 Ii~~trT~sql~Q~i~eLkkl~ 118 (758)
..+.|+|..+..|+-+.+..++
T Consensus 132 ~lVLtPtRELA~QI~e~fe~Lg 153 (476)
T KOG0330|consen 132 ALVLTPTRELAQQIAEQFEALG 153 (476)
T ss_pred EEEecCcHHHHHHHHHHHHHhc
Confidence 9999999999888877776654
No 96
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=96.96 E-value=0.0016 Score=73.07 Aligned_cols=71 Identities=28% Similarity=0.352 Sum_probs=57.0
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCC
Q 004379 11 VEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (758)
Q Consensus 11 ~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (758)
+.+.+++|+.|.+.++++.+.+.+++.+++-+|||+|||+..+-. ++ ..+
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~-~~---~~~-------------------------- 80 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEA-IA---ELK-------------------------- 80 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHH-HH---Hhc--------------------------
Confidence 667788999999999999999988888999999999999976643 22 211
Q ss_pred CCCCCeEEEeCCccchHHHHHHHhh
Q 004379 91 DSKLPTILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 91 ~~~~~kIi~~trT~sql~Q~i~eLk 115 (758)
.++++.++|..++.|.-+.+.
T Consensus 81 ----~~~Lvlv~~~~L~~Qw~~~~~ 101 (442)
T COG1061 81 ----RSTLVLVPTKELLDQWAEALK 101 (442)
T ss_pred ----CCEEEEECcHHHHHHHHHHHH
Confidence 248888889899999876554
No 97
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=96.93 E-value=0.0062 Score=68.15 Aligned_cols=68 Identities=22% Similarity=0.350 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEE
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTIL 98 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi 98 (758)
..|.. +|..+|. +..-+|.+|+|||||.. ++++-|.....- .-.|.
T Consensus 413 ~SQ~~---AV~~VL~-rplsLIQGPPGTGKTvt--sa~IVyhl~~~~----------------------------~~~VL 458 (935)
T KOG1802|consen 413 ASQSN---AVKHVLQ-RPLSLIQGPPGTGKTVT--SATIVYHLARQH----------------------------AGPVL 458 (935)
T ss_pred hHHHH---HHHHHHc-CCceeeecCCCCCceeh--hHHHHHHHHHhc----------------------------CCceE
Confidence 45655 4444454 47789999999999984 456666443221 13599
Q ss_pred EeCCccchHHHHHHHhhcCCCC
Q 004379 99 YTSRTHSQLRQVIQELKTSNYR 120 (758)
Q Consensus 99 ~~trT~sql~Q~i~eLkkl~~~ 120 (758)
+|+...--.+|+.+.+.+++.+
T Consensus 459 vcApSNiAVDqLaeKIh~tgLK 480 (935)
T KOG1802|consen 459 VCAPSNIAVDQLAEKIHKTGLK 480 (935)
T ss_pred EEcccchhHHHHHHHHHhcCce
Confidence 9999888999999999888854
No 98
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.92 E-value=0.0032 Score=76.60 Aligned_cols=73 Identities=23% Similarity=0.329 Sum_probs=55.0
Q ss_pred CCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCC
Q 004379 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLP 95 (758)
Q Consensus 16 ~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (758)
+.|+.|++-+.-+.....++..+|+--..|.|||+-.++ .|+|...... ...|
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIa-lL~~L~~~~~--------------------------~~gp 221 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTIS-LLGYLHEYRG--------------------------ITGP 221 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHH-HHHHHHHhcC--------------------------CCCC
Confidence 458999999999999889999999999999999997763 3555554321 1236
Q ss_pred eEEEeCCccchHHHHHHHhhcC
Q 004379 96 TILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 96 kIi~~trT~sql~Q~i~eLkkl 117 (758)
.+|+|.. +.+.|+..|+++.
T Consensus 222 ~LIVvP~--SlL~nW~~Ei~kw 241 (1033)
T PLN03142 222 HMVVAPK--STLGNWMNEIRRF 241 (1033)
T ss_pred EEEEeCh--HHHHHHHHHHHHH
Confidence 6777764 5788899998763
No 99
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.92 E-value=0.0017 Score=75.78 Aligned_cols=78 Identities=9% Similarity=0.171 Sum_probs=53.6
Q ss_pred hcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCC-CChHHHHHHHHHHhccCCCCCeEEEEEe
Q 004379 514 IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTSTSGAVFFAVC 592 (758)
Q Consensus 514 ~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~-~~~~~~i~~~~~~i~~~~~~~~vL~~v~ 592 (758)
..+..+|||+.+-..++.+...+. .+++....+ .+..+++++|+. + +.-.+|+++
T Consensus 494 ~~g~kiLVF~~~~~~l~~~a~~L~------------------~~~I~G~ts~~ER~~il~~Fr~----~-~~i~vLv~S- 549 (732)
T TIGR00603 494 QRGDKIIVFSDNVFALKEYAIKLG------------------KPFIYGPTSQQERMQILQNFQH----N-PKVNTIFLS- 549 (732)
T ss_pred hcCCeEEEEeCCHHHHHHHHHHcC------------------CceEECCCCHHHHHHHHHHHHh----C-CCccEEEEe-
Confidence 345689999998888887776553 123333322 468888999985 1 123566666
Q ss_pred cCccccccccCCCCceEEEEEccCCC
Q 004379 593 RGKVSEGLDFADHAGRAVVITGMPFA 618 (758)
Q Consensus 593 ~g~~~EGiD~~~~~~r~vii~glPfp 618 (758)
.-..||||+|+ +.+||++..|+-
T Consensus 550 -kVgdeGIDlP~--a~vvI~~s~~~g 572 (732)
T TIGR00603 550 -KVGDTSIDLPE--ANVLIQISSHYG 572 (732)
T ss_pred -cccccccCCCC--CCEEEEeCCCCC
Confidence 46679999999 788999887753
No 100
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=96.87 E-value=0.012 Score=72.88 Aligned_cols=78 Identities=19% Similarity=0.190 Sum_probs=59.1
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHhcC-CceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCC
Q 004379 10 DVEFPFEAYDCQLVYMEKVIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQ 88 (758)
Q Consensus 10 ~~~Fpf~~r~~Q~~~~~~i~~al~~~-~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (758)
.+.+.+.+|+.|.+.++.+.+++.++ +.+++.+|||||||+..+.-+-...+..
T Consensus 407 ~~~~~~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~------------------------- 461 (1123)
T PRK11448 407 PFDYGLGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAK------------------------- 461 (1123)
T ss_pred CcccCCCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcC-------------------------
Confidence 34445678999999999999999866 6689999999999987553322222221
Q ss_pred CCCCCCCeEEEeCCccchHHHHHHHhhc
Q 004379 89 SGDSKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 89 ~~~~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
..++|++.+.+..+.+|..++++.
T Consensus 462 ----~~~rVLfLvDR~~L~~Qa~~~F~~ 485 (1123)
T PRK11448 462 ----RFRRILFLVDRSALGEQAEDAFKD 485 (1123)
T ss_pred ----ccCeEEEEecHHHHHHHHHHHHHh
Confidence 225899999999999999988765
No 101
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.86 E-value=0.01 Score=73.36 Aligned_cols=168 Identities=15% Similarity=0.177 Sum_probs=93.8
Q ss_pred HHHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCe-eCCCCCCChHHHHHHHHH
Q 004379 498 IEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPV-VEPRQSSLFPLAIEDYMA 576 (758)
Q Consensus 498 ~~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~-~e~~~~~~~~~~i~~~~~ 576 (758)
.+++..+.+.+..+....+|.+|||+|+...++.+.+.|.+.... ...++ +-.+-+ ..+-..-|..
T Consensus 268 ~d~l~~ll~~V~~l~~~~~GdILVFLpg~~EIe~lae~L~~~~~~-----------~~~VlpLhg~Ls--~~eQ~~Vf~~ 334 (1294)
T PRK11131 268 RDQLQAIFDAVDELGREGPGDILIFMSGEREIRDTADALNKLNLR-----------HTEILPLYARLS--NSEQNRVFQS 334 (1294)
T ss_pred HHHHHHHHHHHHHHhcCCCCCEEEEcCCHHHHHHHHHHHHhcCCC-----------cceEeecccCCC--HHHHHHHhcc
Confidence 456667777776666666788999999999999999988764211 00010 111111 1111122221
Q ss_pred HhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchh
Q 004379 577 KLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDW 656 (758)
Q Consensus 577 ~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~ 656 (758)
.+...|++++ .-..-|||++| .+.||=.|+.--+..||.... +.+.
T Consensus 335 -----~g~rkIIVAT--NIAEtSITIpg--I~yVID~Gl~k~~~Yd~~~~~---------------------~~Lp---- 380 (1294)
T PRK11131 335 -----HSGRRIVLAT--NVAETSLTVPG--IKYVIDPGTARISRYSYRTKV---------------------QRLP---- 380 (1294)
T ss_pred -----cCCeeEEEec--cHHhhccccCc--ceEEEECCCccccccccccCc---------------------ccCC----
Confidence 1345799998 78899999999 789998886543323321100 0010
Q ss_pred HHHHHHHHHHHhcCccccCCCCeEEEEEeeccCCCc-cccccchhhhhhhhcccCchhHHHHHHH
Q 004379 657 YNQQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHP-SRKSQISLWIQPHIQCYSKFGDVVYTLT 720 (758)
Q Consensus 657 y~~~a~~~~~QaiGRlIR~~~D~g~villD~R~~~~-~y~~~l~~~l~~~~~~~~~~~~~~~~~~ 720 (758)
..|-..-..+|..||+=|.. -|..+ |+.+. .| ..++....|.+. ..++..++-.++
T Consensus 381 ~~~iSkasa~QRaGRAGR~~--~G~c~----rLyte~d~-~~~~~~~~PEIl-R~~L~~viL~lk 437 (1294)
T PRK11131 381 IEPISQASANQRKGRCGRVS--EGICI----RLYSEDDF-LSRPEFTDPEIL-RTNLASVILQMT 437 (1294)
T ss_pred eeecCHhhHhhhccccCCCC--CcEEE----EeCCHHHH-HhhhcccCCccc-cCCHHHHHHHHH
Confidence 01212245689999998884 35554 33332 23 234544444443 445555554444
No 102
>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=96.83 E-value=0.0021 Score=53.33 Aligned_cols=42 Identities=19% Similarity=0.322 Sum_probs=34.2
Q ss_pred ChHHHHHHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCC
Q 004379 566 LFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 566 ~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPf 617 (758)
+....++.|+. ++..||+++ ..+++|||+++ ++.||..+.|+
T Consensus 21 ~r~~~~~~f~~------~~~~vli~t--~~~~~Gid~~~--~~~vi~~~~~~ 62 (78)
T PF00271_consen 21 ERQEILKKFNS------GEIRVLIAT--DILGEGIDLPD--ASHVIFYDPPW 62 (78)
T ss_dssp HHHHHHHHHHT------TSSSEEEES--CGGTTSSTSTT--ESEEEESSSES
T ss_pred HHHHHHHHhhc------cCceEEEee--ccccccccccc--cccccccccCC
Confidence 45667777775 467899998 89999999996 88999998755
No 103
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.74 E-value=0.0031 Score=64.14 Aligned_cols=71 Identities=24% Similarity=0.327 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhh-CCCcccccccccccCCCCCCCCCCCCCCCCCCeE
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSL-GSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTI 97 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kI 97 (758)
+.|++. |..++.++...+|.+|.|||||-.. +.+++..... .. .......+|
T Consensus 4 ~~Q~~A---i~~~~~~~~~~~i~GpPGTGKT~~l-~~~i~~~~~~~~~-----------------------~~~~~~~~i 56 (236)
T PF13086_consen 4 ESQREA---IQSALSSNGITLIQGPPGTGKTTTL-ASIIAQLLQRFKS-----------------------RSADRGKKI 56 (236)
T ss_dssp HHHHHH---HHHHCTSSE-EEEE-STTSSHHHHH-HHHHHHH------------------------------HCCCSS-E
T ss_pred HHHHHH---HHHHHcCCCCEEEECCCCCChHHHH-HHHHHHhccchhh-----------------------hhhhccccc
Confidence 456654 4555665556999999999999533 3334333100 00 000123589
Q ss_pred EEeCCccchHHHHHHHhhc
Q 004379 98 LYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 98 i~~trT~sql~Q~i~eLkk 116 (758)
++++.|+.-.+.+++.|.+
T Consensus 57 l~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 57 LVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp EEEESSHHHHHHHHHHHHC
T ss_pred eeecCCchhHHHHHHHHHh
Confidence 9999999999999998877
No 104
>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=96.58 E-value=0.0042 Score=61.57 Aligned_cols=42 Identities=29% Similarity=0.411 Sum_probs=32.0
Q ss_pred CC-HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHh
Q 004379 17 AY-DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKS 62 (758)
Q Consensus 17 ~r-~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~ 62 (758)
|+ +.|..+++.+. +.+.+++.+|.|||||+-.+..|+.....
T Consensus 4 p~~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~ 46 (205)
T PF02562_consen 4 PKNEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKE 46 (205)
T ss_dssp --SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 54 68999998877 66899999999999999999888876654
No 105
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=96.52 E-value=0.042 Score=60.04 Aligned_cols=55 Identities=25% Similarity=0.331 Sum_probs=41.3
Q ss_pred HHHHHhcCC--ceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccc
Q 004379 28 VIQSLQNKC--NALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHS 105 (758)
Q Consensus 28 i~~al~~~~--~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~s 105 (758)
+.+++.+++ ++++.||||+|||.++++|++. . + .+.+|.++|.+
T Consensus 5 ~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~---~-~------------------------------~~~~~~~P~~a 50 (357)
T TIGR03158 5 TFEALQSKDADIIFNTAPTGAGKTLAWLTPLLH---G-E------------------------------NDTIALYPTNA 50 (357)
T ss_pred HHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH---c-C------------------------------CCEEEEeChHH
Confidence 445555554 5899999999999999999873 1 1 25788889999
Q ss_pred hHHHHHHHhhc
Q 004379 106 QLRQVIQELKT 116 (758)
Q Consensus 106 ql~Q~i~eLkk 116 (758)
+.+|..+.+++
T Consensus 51 L~~~~~~~~~~ 61 (357)
T TIGR03158 51 LIEDQTEAIKE 61 (357)
T ss_pred HHHHHHHHHHH
Confidence 88887776654
No 106
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=96.51 E-value=0.0054 Score=73.32 Aligned_cols=74 Identities=23% Similarity=0.272 Sum_probs=57.9
Q ss_pred CCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCC
Q 004379 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLP 95 (758)
Q Consensus 16 ~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (758)
..++.|....+.+.+--..+...+++||||.|||.+.|.+|..-..... ...+
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~---------------------------~~~~ 247 (733)
T COG1203 195 EGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKI---------------------------KLKS 247 (733)
T ss_pred hhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccc---------------------------cccc
Confidence 3578888888877776666558999999999999999988876443310 1346
Q ss_pred eEEEeCCccchHHHHHHHhhc
Q 004379 96 TILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 96 kIi~~trT~sql~Q~i~eLkk 116 (758)
++|++.++++..++..+.+++
T Consensus 248 r~i~vlP~~t~ie~~~~r~~~ 268 (733)
T COG1203 248 RVIYVLPFRTIIEDMYRRAKE 268 (733)
T ss_pred eEEEEccHHHHHHHHHHHHHh
Confidence 999999999999998887765
No 107
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=96.51 E-value=0.014 Score=70.24 Aligned_cols=84 Identities=19% Similarity=0.229 Sum_probs=66.8
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHhcCCce--EEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCC
Q 004379 10 DVEFPFEAYDCQLVYMEKVIQSLQNKCNA--LLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSS 87 (758)
Q Consensus 10 ~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~--liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (758)
+-.|||+.-+-|...+++|.+=+..++.+ ++++-.|.|||=.++=+|.. +..
T Consensus 588 ~~~FPyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFk-AV~------------------------- 641 (1139)
T COG1197 588 EASFPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFK-AVM------------------------- 641 (1139)
T ss_pred HhcCCCcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHH-Hhc-------------------------
Confidence 34799999999999999999999999886 99999999999999877663 222
Q ss_pred CCCCCCCCeEEEeCCccchHHHHHHHhhc--CCCCCceE
Q 004379 88 QSGDSKLPTILYTSRTHSQLRQVIQELKT--SNYRPKMV 124 (758)
Q Consensus 88 ~~~~~~~~kIi~~trT~sql~Q~i~eLkk--l~~~~~~~ 124 (758)
+.++|.+.++|-.+.+|-.+.++. -++++++-
T Consensus 642 -----~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~ 675 (1139)
T COG1197 642 -----DGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIE 675 (1139)
T ss_pred -----CCCeEEEEcccHHhHHHHHHHHHHHhcCCCeeEE
Confidence 235788999988888888877654 24444433
No 108
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=96.39 E-value=0.0063 Score=69.09 Aligned_cols=70 Identities=24% Similarity=0.332 Sum_probs=52.4
Q ss_pred ecCCCCC-CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCC
Q 004379 11 VEFPFEA-YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQS 89 (758)
Q Consensus 11 ~~Fpf~~-r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 89 (758)
-.|+|+- |++|.+ |++++-+++++++=.|||.|||++|-+||+.. .
T Consensus 11 ~~fGy~~FR~gQ~e----vI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~---~-------------------------- 57 (590)
T COG0514 11 QVFGYASFRPGQQE----IIDALLSGKDTLVVMPTGGGKSLCYQIPALLL---E-------------------------- 57 (590)
T ss_pred HHhCccccCCCHHH----HHHHHHcCCcEEEEccCCCCcchHhhhHHHhc---C--------------------------
Confidence 3588984 899995 55556677999999999999999999999963 1
Q ss_pred CCCCCCeEEEeCCccchHHHHHHHhhcCC
Q 004379 90 GDSKLPTILYTSRTHSQLRQVIQELKTSN 118 (758)
Q Consensus 90 ~~~~~~kIi~~trT~sql~Q~i~eLkkl~ 118 (758)
. ..++.|+-.++++.=+..|+..|
T Consensus 58 ----G-~TLVVSPLiSLM~DQV~~l~~~G 81 (590)
T COG0514 58 ----G-LTLVVSPLISLMKDQVDQLEAAG 81 (590)
T ss_pred ----C-CEEEECchHHHHHHHHHHHHHcC
Confidence 1 35666777788665556666544
No 109
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=96.36 E-value=0.0059 Score=50.57 Aligned_cols=42 Identities=21% Similarity=0.288 Sum_probs=32.8
Q ss_pred ChHHHHHHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCC
Q 004379 566 LFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 566 ~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPf 617 (758)
+....++.|.+ ....||+++ ..+++|+|+++ ++.||+.+.|+
T Consensus 25 ~r~~~~~~f~~------~~~~vli~t--~~~~~Gi~~~~--~~~vi~~~~~~ 66 (82)
T smart00490 25 EREEILEKFNN------GKIKVLVAT--DVAERGLDLPG--VDLVIIYDLPW 66 (82)
T ss_pred HHHHHHHHHHc------CCCeEEEEC--ChhhCCcChhc--CCEEEEeCCCC
Confidence 34556677764 356888888 79999999988 88999999754
No 110
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=96.32 E-value=0.0092 Score=68.95 Aligned_cols=73 Identities=21% Similarity=0.261 Sum_probs=59.4
Q ss_pred CCCHHHHHHHHHHHHHHhcC-CceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCC
Q 004379 16 EAYDCQLVYMEKVIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (758)
Q Consensus 16 ~~r~~Q~~~~~~i~~al~~~-~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (758)
.+|..|...+..|.+|+..| .-+++-+-||||||..+. ||.|....-. ..
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAi--aii~rL~r~~---------------------------~~ 215 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAI--AIIDRLIKSG---------------------------WV 215 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHH--HHHHHHHhcc---------------------------hh
Confidence 47999999999999999988 448999999999999876 5555443211 34
Q ss_pred CeEEEeCCccchHHHHHHHhhcC
Q 004379 95 PTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 95 ~kIi~~trT~sql~Q~i~eLkkl 117 (758)
++|.+.+-+.+|.+|...+..+.
T Consensus 216 KRVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 216 KRVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred heeeEEechHHHHHHHHHHHHHh
Confidence 68999999999999999887764
No 111
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=96.31 E-value=0.036 Score=62.38 Aligned_cols=75 Identities=17% Similarity=0.193 Sum_probs=54.3
Q ss_pred CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEecC
Q 004379 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (758)
Q Consensus 516 ~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g 594 (758)
..++++|..+-...+.+...+.... + -.++... ...+..+++++|++ ++--+|+++ .
T Consensus 283 ~~~~lif~~~~~~a~~i~~~~~~~~------~--------~~~it~~t~~~eR~~il~~fr~------g~~~~lv~~--~ 340 (442)
T COG1061 283 GDKTLIFASDVEHAYEIAKLFLAPG------I--------VEAITGETPKEEREAILERFRT------GGIKVLVTV--K 340 (442)
T ss_pred CCcEEEEeccHHHHHHHHHHhcCCC------c--------eEEEECCCCHHHHHHHHHHHHc------CCCCEEEEe--e
Confidence 5689999999999988887765431 0 0022222 23568889999986 345678887 7
Q ss_pred ccccccccCCCCceEEEEEc
Q 004379 595 KVSEGLDFADHAGRAVVITG 614 (758)
Q Consensus 595 ~~~EGiD~~~~~~r~vii~g 614 (758)
-+.||||+|+ +.++|+++
T Consensus 341 vl~EGvDiP~--~~~~i~~~ 358 (442)
T COG1061 341 VLDEGVDIPD--ADVLIILR 358 (442)
T ss_pred eccceecCCC--CcEEEEeC
Confidence 8999999999 67888886
No 112
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.27 E-value=0.011 Score=73.22 Aligned_cols=32 Identities=16% Similarity=0.413 Sum_probs=27.4
Q ss_pred HHHHHHHhcCCceEEeccCCCchHHHHHHHHHHH
Q 004379 26 EKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 26 ~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
++|.+++.+++.+++.|+||+|||. .+|.+.+
T Consensus 80 ~~Il~ai~~~~VviI~GeTGSGKTT--qlPq~ll 111 (1294)
T PRK11131 80 QDILEAIRDHQVVIVAGETGSGKTT--QLPKICL 111 (1294)
T ss_pred HHHHHHHHhCCeEEEECCCCCCHHH--HHHHHHH
Confidence 5788888999999999999999999 5686654
No 113
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=96.26 E-value=0.0048 Score=72.74 Aligned_cols=78 Identities=19% Similarity=0.233 Sum_probs=59.9
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCC
Q 004379 12 EFPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (758)
Q Consensus 12 ~Fpf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (758)
.+.|+ |++.|.+++-.| ..|+-+|--|-||+|||+|||.|-+........ ..
T Consensus 382 kl~y~k~~~IQ~qAiP~I----msGrdvIgvakTgSGKT~af~LPmirhi~dQr~-----------------------~~ 434 (997)
T KOG0334|consen 382 KLGYEKPTPIQAQAIPAI----MSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRP-----------------------LE 434 (997)
T ss_pred HhcCCCCcchhhhhcchh----ccCcceEEeeccCCccchhhhcchhhhhhcCCC-----------------------hh
Confidence 45676 689999887665 578889999999999999999998854433211 11
Q ss_pred CCCCCeEEEeCCccchHHHHHHHhhc
Q 004379 91 DSKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 91 ~~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
..+.|--++.+.|..|..|+-+++++
T Consensus 435 ~gdGPi~li~aPtrela~QI~r~~~k 460 (997)
T KOG0334|consen 435 EGDGPIALILAPTRELAMQIHREVRK 460 (997)
T ss_pred hCCCceEEEEcCCHHHHHHHHHHHHH
Confidence 12568889999999999999888765
No 114
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=96.21 E-value=0.12 Score=60.98 Aligned_cols=81 Identities=14% Similarity=0.169 Sum_probs=51.5
Q ss_pred cCCcEEEEeccHH--------HHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhccCCCCC
Q 004379 515 VPDGLLIFFPSYY--------LMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSG 585 (758)
Q Consensus 515 ~~g~~lv~f~Sy~--------~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~~~~~~ 585 (758)
.+..++||+|..+ ..+.+++.|.+... ..+..++..+ ...+..+.++.|++ ++.
T Consensus 447 ~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~-----------~~~v~~lHG~m~~~eR~~i~~~F~~------g~~ 509 (630)
T TIGR00643 447 KGRQAYVVYPLIEESEKLDLKAAEALYERLKKAFP-----------KYNVGLLHGRMKSDEKEAVMEEFRE------GEV 509 (630)
T ss_pred hCCcEEEEEccccccccchHHHHHHHHHHHHhhCC-----------CCcEEEEeCCCCHHHHHHHHHHHHc------CCC
Confidence 3457999998753 33344444443211 1111233332 23456778888886 567
Q ss_pred eEEEEEecCccccccccCCCCceEEEEEccC
Q 004379 586 AVFFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (758)
Q Consensus 586 ~vL~~v~~g~~~EGiD~~~~~~r~vii~glP 616 (758)
.||+|+ ..+.+|||+|+ +++||+...|
T Consensus 510 ~ILVaT--~vie~GvDiP~--v~~VIi~~~~ 536 (630)
T TIGR00643 510 DILVAT--TVIEVGVDVPN--ATVMVIEDAE 536 (630)
T ss_pred CEEEEC--ceeecCcccCC--CcEEEEeCCC
Confidence 899999 79999999999 6778877644
No 115
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.15 E-value=0.011 Score=64.16 Aligned_cols=60 Identities=17% Similarity=0.117 Sum_probs=46.2
Q ss_pred CCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHHHHh
Q 004379 35 KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQEL 114 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~eL 114 (758)
|..++=-|-||+|||.|++.|.+......++ ....+.|-.+|+.+|.++..|+..|.
T Consensus 260 grdvigIAktgSgktaAfi~pm~~himdq~e-----------------------L~~g~gPi~vilvPTrela~Qi~~ea 316 (731)
T KOG0339|consen 260 GRDVIGIAKTGSGKTAAFIWPMIVHIMDQPE-----------------------LKPGEGPIGVILVPTRELASQIFSEA 316 (731)
T ss_pred cccchheeeccCcchhHHHHHHHHHhcchhh-----------------------hcCCCCCeEEEEeccHHHHHHHHHHH
Confidence 3456777899999999999999976654333 11236688999999999999998877
Q ss_pred hcC
Q 004379 115 KTS 117 (758)
Q Consensus 115 kkl 117 (758)
|+.
T Consensus 317 Kkf 319 (731)
T KOG0339|consen 317 KKF 319 (731)
T ss_pred HHh
Confidence 654
No 116
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=96.00 E-value=0.0082 Score=65.89 Aligned_cols=73 Identities=23% Similarity=0.207 Sum_probs=51.2
Q ss_pred cCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQE 113 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~e 113 (758)
.|+-++--|-||||||||+|+|.|.-+...+=. ..+.--.++-|+|..+.-|.++-
T Consensus 105 ~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs------------------------~~DGlGalIISPTRELA~QtFev 160 (758)
T KOG0343|consen 105 QGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWS------------------------PTDGLGALIISPTRELALQTFEV 160 (758)
T ss_pred cCcccccccccCCCceeeehHHHHHHHHHcCCC------------------------CCCCceeEEecchHHHHHHHHHH
Confidence 467788899999999999999999755543310 01222466667898999999999
Q ss_pred hhcCCCC--Cce-EEecCCc
Q 004379 114 LKTSNYR--PKM-VILGSRE 130 (758)
Q Consensus 114 Lkkl~~~--~~~-~~l~sr~ 130 (758)
|++++-. ..+ .++||++
T Consensus 161 L~kvgk~h~fSaGLiiGG~~ 180 (758)
T KOG0343|consen 161 LNKVGKHHDFSAGLIIGGKD 180 (758)
T ss_pred HHHHhhccccccceeecCch
Confidence 9987642 223 3567665
No 117
>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=95.98 E-value=0.06 Score=63.29 Aligned_cols=44 Identities=23% Similarity=0.288 Sum_probs=28.3
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHH
Q 004379 10 DVEFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCAT 56 (758)
Q Consensus 10 ~~~Fpf~~r~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pa 56 (758)
...+.+++||.|.+.+... +.++ +.+++.+|||+|||+..+..+
T Consensus 249 ~L~~~~~LRpYQ~eAl~~~---~~~gr~r~GIIvLPtGaGKTlvai~aa 294 (732)
T TIGR00603 249 DLKPTTQIRPYQEKSLSKM---FGNGRARSGIIVLPCGAGKSLVGVTAA 294 (732)
T ss_pred ccccCCCcCHHHHHHHHHH---HhcCCCCCcEEEeCCCCChHHHHHHHH
Confidence 3344566788888755443 4444 367778888888888777543
No 118
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=95.95 E-value=0.012 Score=64.25 Aligned_cols=78 Identities=19% Similarity=0.191 Sum_probs=56.5
Q ss_pred CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCe
Q 004379 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k 96 (758)
|-|.|+..+- ...+.+..|.-|.||+|||+|+++|.|.|+....... .+...-..|.
T Consensus 268 ptpIqR~aip----l~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~-------------------~~en~~~gpy 324 (673)
T KOG0333|consen 268 PTPIQRQAIP----LGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMA-------------------RLENNIEGPY 324 (673)
T ss_pred CchHHHhhcc----chhccCCeeeEEeccCCccccchhhHHHHHHcCCCcc-------------------hhhhcccCce
Confidence 5667776554 2345577788899999999999999999998754210 0011224578
Q ss_pred EEEeCCccchHHHHHHHhhcC
Q 004379 97 ILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 97 Ii~~trT~sql~Q~i~eLkkl 117 (758)
-++...|..+.+|+.+|-.+.
T Consensus 325 aiilaptReLaqqIeeEt~kf 345 (673)
T KOG0333|consen 325 AIILAPTRELAQQIEEETNKF 345 (673)
T ss_pred eeeechHHHHHHHHHHHHHHh
Confidence 899999999999988887664
No 119
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=95.92 E-value=0.052 Score=63.72 Aligned_cols=139 Identities=25% Similarity=0.296 Sum_probs=87.0
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEE
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTIL 98 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi 98 (758)
..|++ ++.+++....+++|.+=+|||||-. ++..+.-+...+ .+|.
T Consensus 672 ~dQr~---A~~k~L~aedy~LI~GMPGTGKTTt-I~~LIkiL~~~g------------------------------kkVL 717 (1100)
T KOG1805|consen 672 NDQRQ---ALLKALAAEDYALILGMPGTGKTTT-ISLLIKILVALG------------------------------KKVL 717 (1100)
T ss_pred HHHHH---HHHHHHhccchheeecCCCCCchhh-HHHHHHHHHHcC------------------------------CeEE
Confidence 45776 5566788889999999999999853 222232223333 4899
Q ss_pred EeCCccchHHHHHHHhhcCCCCCceEEecCCcccccchhhhhccCcchhHHHHHHhhcCCCCCCCCCcchhhhhhcCCCC
Q 004379 99 YTSRTHSQLRQVIQELKTSNYRPKMVILGSREQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCNHHSRVADYMKNNPHL 178 (758)
Q Consensus 99 ~~trT~sql~Q~i~eLkkl~~~~~~~~l~sr~~lCi~~~~~~~~~~~~~~~c~~l~~~~~~~~c~~~~~~~~~~~~~~~~ 178 (758)
.++-||+-.+-++-.|+..+.. ++=+|+.+. +++.++
T Consensus 718 LtsyThsAVDNILiKL~~~~i~--~lRLG~~~k--ih~~v~--------------------------------------- 754 (1100)
T KOG1805|consen 718 LTSYTHSAVDNILIKLKGFGIY--ILRLGSEEK--IHPDVE--------------------------------------- 754 (1100)
T ss_pred EEehhhHHHHHHHHHHhccCcc--eeecCCccc--cchHHH---------------------------------------
Confidence 9999999999888777754322 222343322 222221
Q ss_pred CCCCCChhHHHHhcccCCCcchhhhhhhhcCccEEEecCccccChhhhhccCCCccccEEEEeCCcchHH
Q 004379 179 GDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWKNSILIFDEAHNLEG 248 (758)
Q Consensus 179 ~~~~~di~~l~~~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl~~~~~~~~~i~~~~~ilIiDEAHnL~d 248 (758)
+... +.....|.|..-++...+-.||.|+=--+-+|... ....++.|||||-.+..
T Consensus 755 --------e~~~-~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~plf~-----~R~FD~cIiDEASQI~l 810 (1100)
T KOG1805|consen 755 --------EFTL-TNETSEKSYADLKKFLDQTSIVACTCLGINHPLFV-----NRQFDYCIIDEASQILL 810 (1100)
T ss_pred --------HHhc-ccccchhhHHHHHHHhCCCcEEEEEccCCCchhhh-----ccccCEEEEcccccccc
Confidence 1100 11234567777777777888888876655566543 22467999999976644
No 120
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=95.83 E-value=0.029 Score=55.76 Aligned_cols=61 Identities=20% Similarity=0.258 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHhcC-CceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeE
Q 004379 19 DCQLVYMEKVIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTI 97 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~-~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kI 97 (758)
++|++++..+. .++ +..++.+|.|||||..+ ..........+ .+|
T Consensus 4 ~~Q~~a~~~~l---~~~~~~~~l~G~aGtGKT~~l-~~~~~~~~~~g------------------------------~~v 49 (196)
T PF13604_consen 4 EEQREAVRAIL---TSGDRVSVLQGPAGTGKTTLL-KALAEALEAAG------------------------------KRV 49 (196)
T ss_dssp HHHHHHHHHHH---HCTCSEEEEEESTTSTHHHHH-HHHHHHHHHTT--------------------------------E
T ss_pred HHHHHHHHHHH---hcCCeEEEEEECCCCCHHHHH-HHHHHHHHhCC------------------------------CeE
Confidence 67999888764 344 67899999999999853 33333333322 379
Q ss_pred EEeCCccchHHHHHHH
Q 004379 98 LYTSRTHSQLRQVIQE 113 (758)
Q Consensus 98 i~~trT~sql~Q~i~e 113 (758)
++++.|+.....+-+.
T Consensus 50 ~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 50 IGLAPTNKAAKELREK 65 (196)
T ss_dssp EEEESSHHHHHHHHHH
T ss_pred EEECCcHHHHHHHHHh
Confidence 9999999887765443
No 121
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=95.81 E-value=0.022 Score=67.45 Aligned_cols=139 Identities=14% Similarity=0.074 Sum_probs=78.0
Q ss_pred hhchhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHH
Q 004379 425 IAMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQE 503 (758)
Q Consensus 425 ~~l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~ 503 (758)
..++.++. .+..+--|+||.... +.|....|++... .|.-- |. .. .+.+ +.-|.+. .+-..+
T Consensus 375 IT~QnfFr-~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~---IPTnk-P~---~R--~D~~-----d~vy~t~--~eK~~A 437 (913)
T PRK13103 375 TTFQNYFR-LYNKLSGMTGTADTEAFEFRQIYGLDVVV---IPPNK-PL---AR--KDFN-----DLVYLTA--EEKYAA 437 (913)
T ss_pred ehHHHHHH-hcchhccCCCCCHHHHHHHHHHhCCCEEE---CCCCC-Cc---cc--ccCC-----CeEEcCH--HHHHHH
Confidence 34455544 667788899998663 4577777776321 11100 00 00 0111 0112222 333467
Q ss_pred HHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCC
Q 004379 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTST 583 (758)
Q Consensus 504 l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~ 583 (758)
+++.|.++.+ .+..|||-++|-+.=+.+...|++.... ..+.+. ++...=.++++ ....
T Consensus 438 i~~ei~~~~~-~GrPVLVGT~SVe~SE~ls~~L~~~gi~------h~VLNA-------k~~~~EA~IIa-------~AG~ 496 (913)
T PRK13103 438 IITDIKECMA-LGRPVLVGTATIETSEHMSNLLKKEGIE------HKVLNA-------KYHEKEAEIIA-------QAGR 496 (913)
T ss_pred HHHHHHHHHh-CCCCEEEEeCCHHHHHHHHHHHHHcCCc------HHHhcc-------ccchhHHHHHH-------cCCC
Confidence 7777776654 5668999999999999999888765321 111111 11111112222 1235
Q ss_pred CCeEEEEEecCccccccccC
Q 004379 584 SGAVFFAVCRGKVSEGLDFA 603 (758)
Q Consensus 584 ~~~vL~~v~~g~~~EGiD~~ 603 (758)
.|+|-+|+ .-...|-|+.
T Consensus 497 ~GaVTIAT--NMAGRGTDIk 514 (913)
T PRK13103 497 PGALTIAT--NMAGRGTDIL 514 (913)
T ss_pred CCcEEEec--cCCCCCCCEe
Confidence 79999999 6777999985
No 122
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=95.65 E-value=0.031 Score=66.01 Aligned_cols=64 Identities=19% Similarity=0.222 Sum_probs=45.5
Q ss_pred HHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHH
Q 004379 31 SLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQV 110 (758)
Q Consensus 31 al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~ 110 (758)
|+..+.+++|.||||+|||-.+++.-|.-.++... . -....+.-||||.++++++....
T Consensus 122 aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~-~--------------------~~i~k~~fKiVYIaPmKALa~Em 180 (1230)
T KOG0952|consen 122 AYKSNENMLICAPTGSGKTVLAELCILRTIKEHEE-Q--------------------GDIAKDDFKIVYIAPMKALAAEM 180 (1230)
T ss_pred hhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhcc-c--------------------cccccCCceEEEEechHHHHHHH
Confidence 35677899999999999999888777765554111 0 01123446899999999998877
Q ss_pred HHHhh
Q 004379 111 IQELK 115 (758)
Q Consensus 111 i~eLk 115 (758)
++...
T Consensus 181 ~~~~~ 185 (1230)
T KOG0952|consen 181 VDKFS 185 (1230)
T ss_pred HHHHh
Confidence 76543
No 123
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.53 E-value=0.016 Score=63.14 Aligned_cols=74 Identities=16% Similarity=0.042 Sum_probs=52.1
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCC
Q 004379 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (758)
Q Consensus 13 Fpf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (758)
.+|. |-|.|...+-- | .-|+-++..|-||||||.||.+|.|.-+.+..+.
T Consensus 199 lGy~~PTpIQ~a~IPv---a-llgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~------------------------- 249 (691)
T KOG0338|consen 199 LGYKKPTPIQVATIPV---A-LLGKDICACAATGSGKTAAFALPILERLLYRPKK------------------------- 249 (691)
T ss_pred cCCCCCCchhhhcccH---H-hhcchhhheecccCCchhhhHHHHHHHHhcCccc-------------------------
Confidence 3554 66777665432 2 2467788999999999999999999766665431
Q ss_pred CCCCeEEEeCCccchHHHHHHHhh
Q 004379 92 SKLPTILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 92 ~~~~kIi~~trT~sql~Q~i~eLk 115 (758)
....+|++.++|..+.-|+-.-.+
T Consensus 250 ~~~TRVLVL~PTRELaiQv~sV~~ 273 (691)
T KOG0338|consen 250 VAATRVLVLVPTRELAIQVHSVTK 273 (691)
T ss_pred CcceeEEEEeccHHHHHHHHHHHH
Confidence 123589999999988777654333
No 124
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=95.52 E-value=0.11 Score=61.54 Aligned_cols=74 Identities=20% Similarity=0.280 Sum_probs=57.5
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHhcC-CceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCC
Q 004379 10 DVEFPFEAYDCQLVYMEKVIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQ 88 (758)
Q Consensus 10 ~~~Fpf~~r~~Q~~~~~~i~~al~~~-~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (758)
.+.=||+|.+.|..-...+.+++.++ +..++.+.||+|||+.+ +++. +..+
T Consensus 6 ~~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~li--a~l~--~~~~------------------------ 57 (652)
T PRK05298 6 KLVSPYKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTM--ANVI--ARLQ------------------------ 57 (652)
T ss_pred ccccCCCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHH--HHHH--HHhC------------------------
Confidence 35668999999999999999999776 35679999999999964 3332 2222
Q ss_pred CCCCCCCeEEEeCCccchHHHHHHHhhcC
Q 004379 89 SGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 89 ~~~~~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
..+++.|.+..+.+|+..+|+..
T Consensus 58 ------r~vLIVt~~~~~A~~l~~dL~~~ 80 (652)
T PRK05298 58 ------RPTLVLAHNKTLAAQLYSEFKEF 80 (652)
T ss_pred ------CCEEEEECCHHHHHHHHHHHHHh
Confidence 24777788888999999999764
No 125
>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=95.49 E-value=0.021 Score=65.14 Aligned_cols=76 Identities=14% Similarity=0.271 Sum_probs=51.2
Q ss_pred hHHHHHHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCcccc
Q 004379 567 FPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKET 646 (758)
Q Consensus 567 ~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~ 646 (758)
..++++.|++ ++..||+|+ .-++.|+||++ ..+|+|+..-..- ..|...
T Consensus 301 ~~~~l~~f~~------g~~~ILVgT--~~i~kG~d~~~--v~lV~vl~aD~~l-~~pd~r-------------------- 349 (505)
T TIGR00595 301 HEALLNQFAN------GKADILIGT--QMIAKGHHFPN--VTLVGVLDADSGL-HSPDFR-------------------- 349 (505)
T ss_pred HHHHHHHHhc------CCCCEEEeC--cccccCCCCCc--ccEEEEEcCcccc-cCcccc--------------------
Confidence 4567788875 467899999 68999999998 6677777543210 001111
Q ss_pred ccccCCcchhHHHHHHHHHHHhcCccccCCCCeEEEEE
Q 004379 647 KLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIF 684 (758)
Q Consensus 647 ~~~~l~~~~~y~~~a~~~~~QaiGRlIR~~~D~g~vil 684 (758)
..-.++..+.|.+||.=|... .|.++|
T Consensus 350 ----------a~E~~~~ll~q~~GRagR~~~-~g~vii 376 (505)
T TIGR00595 350 ----------AAERGFQLLTQVAGRAGRAED-PGQVII 376 (505)
T ss_pred ----------hHHHHHHHHHHHHhccCCCCC-CCEEEE
Confidence 123467889999999988665 466664
No 126
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=95.49 E-value=0.17 Score=61.68 Aligned_cols=70 Identities=19% Similarity=0.093 Sum_probs=45.7
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCC
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (758)
..++|.|.+.+..+... ....+++--.+|.|||+-...-+- +....+. .
T Consensus 151 ~~l~pHQl~~~~~vl~~--~~~R~LLADEvGLGKTIeAglil~-~l~~~g~----------------------------~ 199 (956)
T PRK04914 151 ASLIPHQLYIAHEVGRR--HAPRVLLADEVGLGKTIEAGMIIH-QQLLTGR----------------------------A 199 (956)
T ss_pred CCCCHHHHHHHHHHhhc--cCCCEEEEeCCcCcHHHHHHHHHH-HHHHcCC----------------------------C
Confidence 46899999987665433 234578888999999997754422 2222221 1
Q ss_pred CeEEEeCCccchHHHHHHHhhc
Q 004379 95 PTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 95 ~kIi~~trT~sql~Q~i~eLkk 116 (758)
.+|++.+++ +++.|+..|+++
T Consensus 200 ~rvLIVvP~-sL~~QW~~El~~ 220 (956)
T PRK04914 200 ERVLILVPE-TLQHQWLVEMLR 220 (956)
T ss_pred CcEEEEcCH-HHHHHHHHHHHH
Confidence 246666665 788999988853
No 127
>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=95.45 E-value=0.052 Score=63.78 Aligned_cols=76 Identities=25% Similarity=0.300 Sum_probs=52.2
Q ss_pred CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeE
Q 004379 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTI 97 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kI 97 (758)
-+.|++.+ ..++..+...+|.+|+|||||-....- +..+...+ ++|
T Consensus 159 n~~Q~~Av---~~~l~~~~~~lI~GpPGTGKT~t~~~i-i~~~~~~g------------------------------~~V 204 (637)
T TIGR00376 159 NESQKEAV---SFALSSKDLFLIHGPPGTGKTRTLVEL-IRQLVKRG------------------------------LRV 204 (637)
T ss_pred CHHHHHHH---HHHhcCCCeEEEEcCCCCCHHHHHHHH-HHHHHHcC------------------------------CCE
Confidence 46888854 456777788999999999999654422 22222222 479
Q ss_pred EEeCCccchHHHHHHHhhcCCCCCceEEecCC
Q 004379 98 LYTSRTHSQLRQVIQELKTSNYRPKMVILGSR 129 (758)
Q Consensus 98 i~~trT~sql~Q~i~eLkkl~~~~~~~~l~sr 129 (758)
++|+.|+.-.+++++.|.+.+ ++++-+|..
T Consensus 205 Lv~a~sn~Avd~l~e~l~~~~--~~vvRlg~~ 234 (637)
T TIGR00376 205 LVTAPSNIAVDNLLERLALCD--QKIVRLGHP 234 (637)
T ss_pred EEEcCcHHHHHHHHHHHHhCC--CcEEEeCCc
Confidence 999999999999998887643 344444543
No 128
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=95.31 E-value=0.16 Score=59.87 Aligned_cols=74 Identities=23% Similarity=0.333 Sum_probs=56.4
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHhcC-CceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCC
Q 004379 10 DVEFPFEAYDCQLVYMEKVIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQ 88 (758)
Q Consensus 10 ~~~Fpf~~r~~Q~~~~~~i~~al~~~-~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (758)
.+.=||+|--.|-+.+..+.+++.++ ++.++-+-||+|||+.. +.+. +..+
T Consensus 3 ~~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~--a~~~--~~~~------------------------ 54 (655)
T TIGR00631 3 KLHSPFQPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTM--ANVI--AQVN------------------------ 54 (655)
T ss_pred eeccCCCCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHH--HHHH--HHhC------------------------
Confidence 34558999989999999999999877 46679999999999953 3332 2222
Q ss_pred CCCCCCCeEEEeCCccchHHHHHHHhhcC
Q 004379 89 SGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 89 ~~~~~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
.| +++.+.+..+..|+..+|+..
T Consensus 55 -----~p-~Lvi~~n~~~A~ql~~el~~f 77 (655)
T TIGR00631 55 -----RP-TLVIAHNKTLAAQLYNEFKEF 77 (655)
T ss_pred -----CC-EEEEECCHHHHHHHHHHHHHh
Confidence 24 666777888999999999875
No 129
>PRK10536 hypothetical protein; Provisional
Probab=95.23 E-value=0.051 Score=55.60 Aligned_cols=39 Identities=21% Similarity=0.246 Sum_probs=30.2
Q ss_pred CCC-HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 16 EAY-DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 16 ~~r-~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
.|+ ..|..++..+ .+...+++.+|+|||||+-.+..++.
T Consensus 58 ~p~n~~Q~~~l~al----~~~~lV~i~G~aGTGKT~La~a~a~~ 97 (262)
T PRK10536 58 LARNEAQAHYLKAI----ESKQLIFATGEAGCGKTWISAAKAAE 97 (262)
T ss_pred cCCCHHHHHHHHHH----hcCCeEEEECCCCCCHHHHHHHHHHH
Confidence 465 5898888755 45679999999999999977665553
No 130
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.17 E-value=0.055 Score=56.64 Aligned_cols=70 Identities=16% Similarity=0.054 Sum_probs=48.4
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCC
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (758)
++|-|.|..-+-+ +-+|+.++=.|-||+|||.|+-.|-|.-..+.. ..
T Consensus 28 ~~pTpiQ~~cIpk----ILeGrdcig~AkTGsGKT~AFaLPil~rLsedP----------------------------~g 75 (442)
T KOG0340|consen 28 KKPTPIQQACIPK----ILEGRDCIGCAKTGSGKTAAFALPILNRLSEDP----------------------------YG 75 (442)
T ss_pred CCCCchHhhhhHH----HhcccccccccccCCCcchhhhHHHHHhhccCC----------------------------Cc
Confidence 3567778765544 467888999999999999999999774221110 11
Q ss_pred CeEEEeCCccchHHHHHHHhhc
Q 004379 95 PTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 95 ~kIi~~trT~sql~Q~i~eLkk 116 (758)
-=-++.|+|+.+.-|+-+.+.-
T Consensus 76 iFalvlTPTrELA~QiaEQF~a 97 (442)
T KOG0340|consen 76 IFALVLTPTRELALQIAEQFIA 97 (442)
T ss_pred ceEEEecchHHHHHHHHHHHHH
Confidence 2356678898887777766543
No 131
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.07 E-value=0.017 Score=61.13 Aligned_cols=74 Identities=22% Similarity=0.199 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHH---------------hcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCC
Q 004379 21 QLVYMEKVIQSL---------------QNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVN 85 (758)
Q Consensus 21 Q~~~~~~i~~al---------------~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (758)
=-++|+.|.++= -.|.-++--|.|||||||+||.|++........
T Consensus 228 ~pevmenIkK~GFqKPtPIqSQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~-------------------- 287 (629)
T KOG0336|consen 228 YPEVMENIKKTGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPK-------------------- 287 (629)
T ss_pred hHHHHHHHHhccCCCCCcchhcccceeecCcceEEEEecCCCcCHHHhccceeeeeccch--------------------
Confidence 346777776652 345668899999999999999999865543221
Q ss_pred CCCCCCCCCCeEEEeCCccchHHHHHHHhhc
Q 004379 86 SSQSGDSKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 86 ~~~~~~~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
+......|.+++.+.|..+..|+--|.++
T Consensus 288 --~~~qr~~p~~lvl~ptreLalqie~e~~k 316 (629)
T KOG0336|consen 288 --RREQRNGPGVLVLTPTRELALQIEGEVKK 316 (629)
T ss_pred --hhhccCCCceEEEeccHHHHHHHHhHHhH
Confidence 01122447788888888877777666554
No 132
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=95.04 E-value=0.077 Score=63.80 Aligned_cols=50 Identities=18% Similarity=0.200 Sum_probs=38.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcC----------------------------------CceEEeccCCCchHHHHHHHHHH
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNK----------------------------------CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~----------------------------------~~~liEAPTGTGKTlayL~pal~ 58 (758)
|-|+.=|.|.+...+|..+|..= .++.++++||||||..||...+.
T Consensus 3 ~~~e~l~hQ~~av~ai~~~F~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~n~~~~M~TGtGKT~~~~~~i~~ 82 (986)
T PRK15483 3 ILLEELPHQEQALAAILAAFTGIDIASADPNHYANPLIKLRYENGIPGRSRTRIDDKANIDIKMETGTGKTYVYTRLMYE 82 (986)
T ss_pred cccccChhHHHHHHHHHHHhcCCCccCCccccccCcccccchhhccccccccccCccceEEEEeCCCCCHHHHHHHHHHH
Confidence 45666788999999999988531 36899999999999999977554
Q ss_pred HHHh
Q 004379 59 WRKS 62 (758)
Q Consensus 59 ~~~~ 62 (758)
..+.
T Consensus 83 l~~~ 86 (986)
T PRK15483 83 LHQK 86 (986)
T ss_pred HHHH
Confidence 4443
No 133
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=95.00 E-value=0.1 Score=59.78 Aligned_cols=81 Identities=26% Similarity=0.264 Sum_probs=60.5
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCC
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (758)
.+.|+.|.+=++=++.-..+|-++|+--.-|-|||+-.+ +.|.|.+.... -+.
T Consensus 166 g~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtI-s~l~yl~~~~~--------------------------~~G 218 (971)
T KOG0385|consen 166 GELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTI-SLLGYLKGRKG--------------------------IPG 218 (971)
T ss_pred CccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHH-HHHHHHHHhcC--------------------------CCC
Confidence 346889999999999999999889998899999999776 45778877432 145
Q ss_pred CeEEEeCCccchHHHHHHHhhcCCCCCceE
Q 004379 95 PTILYTSRTHSQLRQVIQELKTSNYRPKMV 124 (758)
Q Consensus 95 ~kIi~~trT~sql~Q~i~eLkkl~~~~~~~ 124 (758)
|-.|+|. .|-+..++.|+++.-..++++
T Consensus 219 PfLVi~P--~StL~NW~~Ef~rf~P~l~~~ 246 (971)
T KOG0385|consen 219 PFLVIAP--KSTLDNWMNEFKRFTPSLNVV 246 (971)
T ss_pred CeEEEee--HhhHHHHHHHHHHhCCCcceE
Confidence 7777765 356778888887744344433
No 134
>PRK13766 Hef nuclease; Provisional
Probab=94.99 E-value=0.15 Score=61.85 Aligned_cols=69 Identities=23% Similarity=0.187 Sum_probs=53.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
-++++|+-|.++...+ +.+ ++++-+|||+|||+.++.+++......
T Consensus 12 ~~~~~r~yQ~~~~~~~---l~~--n~lv~~ptG~GKT~~a~~~i~~~l~~~----------------------------- 57 (773)
T PRK13766 12 NTIEARLYQQLLAATA---LKK--NTLVVLPTGLGKTAIALLVIAERLHKK----------------------------- 57 (773)
T ss_pred CcCCccHHHHHHHHHH---hcC--CeEEEcCCCccHHHHHHHHHHHHHHhC-----------------------------
Confidence 3568999999987655 333 789999999999999888766544321
Q ss_pred CCCeEEEeCCccchHHHHHHHhhc
Q 004379 93 KLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
..+++|.++|..+..|...++++
T Consensus 58 -~~~vLvl~Pt~~L~~Q~~~~~~~ 80 (773)
T PRK13766 58 -GGKVLILAPTKPLVEQHAEFFRK 80 (773)
T ss_pred -CCeEEEEeCcHHHHHHHHHHHHH
Confidence 24788999999999998887764
No 135
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=94.80 E-value=0.8 Score=50.93 Aligned_cols=87 Identities=15% Similarity=0.190 Sum_probs=56.5
Q ss_pred HHHHhhhcC-CcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCe-eCCCCC-CChHHHHHHHHHHhccCCCC
Q 004379 508 IVNIARIVP-DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPV-VEPRQS-SLFPLAIEDYMAKLKDTSTS 584 (758)
Q Consensus 508 i~~~~~~~~-g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~-~e~~~~-~~~~~~i~~~~~~i~~~~~~ 584 (758)
+...+..++ ..++|||+|-.....++..+.+..++ -.++ +-++.. ....++..+|-+ .+
T Consensus 304 L~sFI~shlk~K~iVF~SscKqvkf~~e~F~rlrpg------------~~l~~L~G~~~Q~~R~ev~~~F~~------~~ 365 (758)
T KOG0343|consen 304 LWSFIKSHLKKKSIVFLSSCKQVKFLYEAFCRLRPG------------IPLLALHGTMSQKKRIEVYKKFVR------KR 365 (758)
T ss_pred HHHHHHhccccceEEEEehhhHHHHHHHHHHhcCCC------------CceeeeccchhHHHHHHHHHHHHH------hc
Confidence 444555443 57999999999999999877654332 1111 122222 123445555554 46
Q ss_pred CeEEEEEecCccccccccCCCCceEEEEEccC
Q 004379 585 GAVFFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (758)
Q Consensus 585 ~~vL~~v~~g~~~EGiD~~~~~~r~vii~glP 616 (758)
.+||||+ .-.+.|+||| +..+||=+--|
T Consensus 366 ~~vLF~T--Dv~aRGLDFp--aVdwViQ~DCP 393 (758)
T KOG0343|consen 366 AVVLFCT--DVAARGLDFP--AVDWVIQVDCP 393 (758)
T ss_pred ceEEEee--hhhhccCCCc--ccceEEEecCc
Confidence 8999999 7889999999 57777766433
No 136
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=94.75 E-value=0.042 Score=65.14 Aligned_cols=137 Identities=15% Similarity=0.090 Sum_probs=75.5
Q ss_pred hchhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHH
Q 004379 426 AMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQEL 504 (758)
Q Consensus 426 ~l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l 504 (758)
.++.++. .++.+--|+||.... +.|....|++... .| .+.-... .+.+ +.-|.+. .+-..++
T Consensus 376 T~QnfFr-~Y~kL~GMTGTa~te~~Ef~~iY~l~Vv~---IP----Tnkp~~R--~d~~-----d~iy~t~--~~K~~Ai 438 (908)
T PRK13107 376 TFQNYFR-QYEKLAGMTGTADTEAFEFQHIYGLDTVV---VP----TNRPMVR--KDMA-----DLVYLTA--DEKYQAI 438 (908)
T ss_pred hHHHHHH-hhhHhhcccCCChHHHHHHHHHhCCCEEE---CC----CCCCccc--eeCC-----CcEEeCH--HHHHHHH
Confidence 3444444 566777888888763 3577777775311 11 1100000 0101 0112222 2334577
Q ss_pred HHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCC-CChHHHHHHHHHHhccCCC
Q 004379 505 GNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTST 583 (758)
Q Consensus 505 ~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~-~~~~~~i~~~~~~i~~~~~ 583 (758)
.+.|.++.+ .+..+|||+.|-+.-+.+...+...... ..++..+.. .+...+.+. + .
T Consensus 439 i~ei~~~~~-~GrpVLV~t~sv~~se~ls~~L~~~gi~-------------~~vLnak~~~~Ea~ii~~A-------g-~ 496 (908)
T PRK13107 439 IKDIKDCRE-RGQPVLVGTVSIEQSELLARLMVKEKIP-------------HEVLNAKFHEREAEIVAQA-------G-R 496 (908)
T ss_pred HHHHHHHHH-cCCCEEEEeCcHHHHHHHHHHHHHCCCC-------------eEeccCcccHHHHHHHHhC-------C-C
Confidence 777777664 5667999999999999888888764211 112222221 111111111 2 4
Q ss_pred CCeEEEEEecCccccccccC
Q 004379 584 SGAVFFAVCRGKVSEGLDFA 603 (758)
Q Consensus 584 ~~~vL~~v~~g~~~EGiD~~ 603 (758)
.|+|++|+ .-...|+|+.
T Consensus 497 ~G~VtIAT--nmAGRGTDIk 514 (908)
T PRK13107 497 TGAVTIAT--NMAGRGTDIV 514 (908)
T ss_pred CCcEEEec--CCcCCCccee
Confidence 58899998 7889999986
No 137
>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=94.58 E-value=0.065 Score=57.13 Aligned_cols=61 Identities=23% Similarity=0.242 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEE
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTIL 98 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi 98 (758)
+.|.+++.. .+++++|.|+.|||||.+++.- ++|+...+. -+..+|+
T Consensus 3 ~eQ~~~i~~------~~~~~lV~a~AGSGKT~~l~~r-i~~ll~~~~--------------------------~~~~~Il 49 (315)
T PF00580_consen 3 DEQRRIIRS------TEGPLLVNAGAGSGKTTTLLER-IAYLLYEGG--------------------------VPPERIL 49 (315)
T ss_dssp HHHHHHHHS-------SSEEEEEE-TTSSHHHHHHHH-HHHHHHTSS--------------------------STGGGEE
T ss_pred HHHHHHHhC------CCCCEEEEeCCCCCchHHHHHH-HHHhhcccc--------------------------CChHHhe
Confidence 456665543 5689999999999999988765 445544331 0234799
Q ss_pred EeCCccchHHHHHH
Q 004379 99 YTSRTHSQLRQVIQ 112 (758)
Q Consensus 99 ~~trT~sql~Q~i~ 112 (758)
+.|-|..-...+-+
T Consensus 50 ~lTft~~aa~e~~~ 63 (315)
T PF00580_consen 50 VLTFTNAAAQEMRE 63 (315)
T ss_dssp EEESSHHHHHHHHH
T ss_pred ecccCHHHHHHHHH
Confidence 99988776544433
No 138
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=94.40 E-value=0.35 Score=51.29 Aligned_cols=44 Identities=25% Similarity=0.214 Sum_probs=31.4
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHHH
Q 004379 12 EFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 12 ~Fpf~~r~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal~ 58 (758)
-|+-.||..|..|+- ++|... +.+.+-++-|||||+-.|+++|.
T Consensus 223 vwGi~prn~eQ~~AL---dlLld~dI~lV~L~G~AGtGKTlLALaAgle 268 (436)
T COG1875 223 VWGIRPRNAEQRVAL---DLLLDDDIDLVSLGGKAGTGKTLLALAAGLE 268 (436)
T ss_pred hhccCcccHHHHHHH---HHhcCCCCCeEEeeccCCccHhHHHHHHHHH
Confidence 356678865555543 334333 56788999999999999999885
No 139
>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=94.32 E-value=0.075 Score=55.41 Aligned_cols=41 Identities=24% Similarity=0.290 Sum_probs=34.4
Q ss_pred CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHH
Q 004379 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
.-+..+++.+.+..++..+.++++++|+|||||... -+++.
T Consensus 3 ~t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA--~~la~ 43 (262)
T TIGR02640 3 ETDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLA--MHVAR 43 (262)
T ss_pred CCHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHH--HHHHH
Confidence 346788899999999999999999999999999944 45653
No 140
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=94.28 E-value=0.091 Score=56.20 Aligned_cols=45 Identities=27% Similarity=0.534 Sum_probs=35.2
Q ss_pred ecCCCCCC--HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 11 VEFPFEAY--DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 11 ~~Fpf~~r--~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
-.|+|..+ +.|.+....| ...++-+.+.+|||.||||+|-+|||.
T Consensus 13 K~FGh~kFKs~LQE~A~~c~---VK~k~DVyVsMPTGaGKSLCyQLPaL~ 59 (641)
T KOG0352|consen 13 KLFGHKKFKSRLQEQAINCI---VKRKCDVYVSMPTGAGKSLCYQLPALV 59 (641)
T ss_pred HHhCchhhcChHHHHHHHHH---HhccCcEEEeccCCCchhhhhhchHHH
Confidence 35777754 5777654443 456788999999999999999999995
No 141
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=94.20 E-value=0.39 Score=59.09 Aligned_cols=69 Identities=19% Similarity=0.228 Sum_probs=48.4
Q ss_pred HHHHHHHH-HHHHHHhc-----CCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 19 DCQLVYME-KVIQSLQN-----KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 19 ~~Q~~~~~-~i~~al~~-----~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
..|...+. .|.+++.. ++.++|-=-||||||++.+..|-. +... .
T Consensus 251 ~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~~-l~~~----------------------------~ 301 (962)
T COG0610 251 YAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARL-LLEL----------------------------P 301 (962)
T ss_pred HHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHHH-HHhc----------------------------c
Confidence 45666666 33333332 245999999999999998877553 3322 2
Q ss_pred CCCeEEEeCCccchHHHHHHHhhc
Q 004379 93 KLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
..|+|++.|-...+-.|+.+++++
T Consensus 302 ~~~~v~fvvDR~dLd~Q~~~~f~~ 325 (962)
T COG0610 302 KNPKVLFVVDRKDLDDQTSDEFQS 325 (962)
T ss_pred CCCeEEEEechHHHHHHHHHHHHH
Confidence 458999999888999999887764
No 142
>COG1204 Superfamily II helicase [General function prediction only]
Probab=93.93 E-value=0.85 Score=54.62 Aligned_cols=195 Identities=13% Similarity=0.052 Sum_probs=99.1
Q ss_pred cEEEEecccCCChHhHHhhhCCCCCccccCCcccc----CCCeEEEEeecCCCCcceeeeccccCCHHHH-HHHHHHHHH
Q 004379 436 GSIILTSGTLSPMDSFAQELKLNFPLRVENPHVIT----SKQIWAGIVPVGPSGYLLNSSYRNRDSIEYK-QELGNTIVN 510 (758)
Q Consensus 436 ~~vil~SaTL~p~~~f~~~lGl~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~-~~l~~~i~~ 510 (758)
-.+|-.||||...+.++..||-+.....-.|...- ..+. +. ..++. .+..+.-. ...-..+..
T Consensus 181 ~rivgLSATlpN~~evA~wL~a~~~~~~~rp~~l~~~v~~~~~-~~-~~~~~----------~k~~~~~~~~~~~~~v~~ 248 (766)
T COG1204 181 IRIVGLSATLPNAEEVADWLNAKLVESDWRPVPLRRGVPYVGA-FL-GADGK----------KKTWPLLIDNLALELVLE 248 (766)
T ss_pred eEEEEEeeecCCHHHHHHHhCCcccccCCCCcccccCCccceE-EE-EecCc----------cccccccchHHHHHHHHH
Confidence 36799999999999999999876321111111110 1111 11 11110 11000001 112222222
Q ss_pred HhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCc-hh-----------------------HHHHHhcCCCCeeCCCCCCC
Q 004379 511 IARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNL-TT-----------------------IWERICKHKKPVVEPRQSSL 566 (758)
Q Consensus 511 ~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~-~~-----------------------i~~~l~~~k~~~~e~~~~~~ 566 (758)
.+ .-.|.+|||.+|...-..++..+........ .. .++.+....--|..-+-..+
T Consensus 249 ~~-~~~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHhAGL~~~ 327 (766)
T COG1204 249 SL-AEGGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPRE 327 (766)
T ss_pred HH-hcCCeEEEEEecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccccCCCHH
Confidence 22 3567899999999999999888873111000 00 00111111111111111111
Q ss_pred hHHHH-HHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccc
Q 004379 567 FPLAI-EDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKE 645 (758)
Q Consensus 567 ~~~~i-~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~ 645 (758)
..+.+ +.|++ ++=.||+++ .+++.||++|. |+|||-+.=.-.| .++
T Consensus 328 ~R~~vE~~Fr~------g~ikVlv~T--pTLA~GVNLPA---~~VIIk~~~~y~~--------------~~g-------- 374 (766)
T COG1204 328 DRQLVEDAFRK------GKIKVLVST--PTLAAGVNLPA---RTVIIKDTRRYDP--------------KGG-------- 374 (766)
T ss_pred HHHHHHHHHhc------CCceEEEec--hHHhhhcCCcc---eEEEEeeeEEEcC--------------CCC--------
Confidence 11122 22222 233567666 89999999997 7889876332111 011
Q ss_pred cccccCCcchhHHHHHHHHHHHhcCccccCC-CCeEEEEEeec
Q 004379 646 TKLSFLSGEDWYNQQASRAVNQAVGRVIRHR-HDYGAIIFCDE 687 (758)
Q Consensus 646 ~~~~~l~~~~~y~~~a~~~~~QaiGRlIR~~-~D~g~villD~ 687 (758)
..+.-..-+.|.+||.=|-. +|+|..+++..
T Consensus 375 -----------~~~i~~~dv~QM~GRAGRPg~d~~G~~~i~~~ 406 (766)
T COG1204 375 -----------IVDIPVLDVLQMAGRAGRPGYDDYGEAIILAT 406 (766)
T ss_pred -----------eEECchhhHhhccCcCCCCCcCCCCcEEEEec
Confidence 01222577899999998877 67888888873
No 143
>PRK09694 helicase Cas3; Provisional
Probab=93.92 E-value=1.2 Score=54.23 Aligned_cols=74 Identities=12% Similarity=0.112 Sum_probs=44.9
Q ss_pred cCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCC-CCh----HHHHHHHHHHhccCC-CCCeEE
Q 004379 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLF----PLAIEDYMAKLKDTS-TSGAVF 588 (758)
Q Consensus 515 ~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~-~~~----~~~i~~~~~~i~~~~-~~~~vL 588 (758)
.++.+|||+++-+..+++++.+++.... ..+..++-.+-. .+. .++++.|.+ .++ ..+.||
T Consensus 559 ~g~~vLVf~NTV~~Aq~ly~~L~~~~~~----------~~~v~llHsrf~~~dR~~~E~~vl~~fgk---~g~r~~~~IL 625 (878)
T PRK09694 559 AGAQVCLICNLVDDAQKLYQRLKELNNT----------QVDIDLFHARFTLNDRREKEQRVIENFGK---NGKRNQGRIL 625 (878)
T ss_pred cCCEEEEEECCHHHHHHHHHHHHhhCCC----------CceEEEEeCCCCHHHHHHHHHHHHHHHHh---cCCcCCCeEE
Confidence 3456999999999999999998864211 001122222211 122 234556632 111 125799
Q ss_pred EEEecCccccccccC
Q 004379 589 FAVCRGKVSEGLDFA 603 (758)
Q Consensus 589 ~~v~~g~~~EGiD~~ 603 (758)
+++ .-+..|||+.
T Consensus 626 VaT--QViE~GLDId 638 (878)
T PRK09694 626 VAT--QVVEQSLDLD 638 (878)
T ss_pred EEC--cchhheeecC
Confidence 998 7999999995
No 144
>PHA02244 ATPase-like protein
Probab=93.91 E-value=0.11 Score=55.90 Aligned_cols=48 Identities=13% Similarity=0.130 Sum_probs=35.7
Q ss_pred ecCCCCCC-HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 11 VEFPFEAY-DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 11 ~~Fpf~~r-~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
+.|||-.. |.+......+.+.+..+.++++.+|||||||. |+-++++.
T Consensus 94 ~d~~~ig~sp~~~~~~~ri~r~l~~~~PVLL~GppGtGKTt--LA~aLA~~ 142 (383)
T PHA02244 94 IDTTKIASNPTFHYETADIAKIVNANIPVFLKGGAGSGKNH--IAEQIAEA 142 (383)
T ss_pred CCCcccCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHH--HHHHHHHH
Confidence 44666543 55555555778899999999999999999998 55566654
No 145
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=93.44 E-value=1.1 Score=49.63 Aligned_cols=66 Identities=26% Similarity=0.251 Sum_probs=49.8
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCC
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (758)
.++|.-|..++.+. +. ++.++-.|||-|||+....-+..+....++
T Consensus 14 ie~R~YQ~~i~a~a---l~--~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~----------------------------- 59 (542)
T COG1111 14 IEPRLYQLNIAAKA---LF--KNTLVVLPTGLGKTFIAAMVIANRLRWFGG----------------------------- 59 (542)
T ss_pred ccHHHHHHHHHHHH---hh--cCeEEEecCCccHHHHHHHHHHHHHHhcCC-----------------------------
Confidence 46788888877654 33 388999999999999777666656665432
Q ss_pred CeEEEeCCccchHHHHHHHhh
Q 004379 95 PTILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 95 ~kIi~~trT~sql~Q~i~eLk 115 (758)
+|++.++|+-+..|-.+-++
T Consensus 60 -kvlfLAPTKPLV~Qh~~~~~ 79 (542)
T COG1111 60 -KVLFLAPTKPLVLQHAEFCR 79 (542)
T ss_pred -eEEEecCCchHHHHHHHHHH
Confidence 79999999999888665444
No 146
>PRK13531 regulatory ATPase RavA; Provisional
Probab=93.27 E-value=0.092 Score=58.61 Aligned_cols=39 Identities=15% Similarity=0.204 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
.+|.+.++.+..++..++++++++|+|||||. |+-+|+.
T Consensus 23 ~gre~vI~lll~aalag~hVLL~GpPGTGKT~--LAraLa~ 61 (498)
T PRK13531 23 YERSHAIRLCLLAALSGESVFLLGPPGIAKSL--IARRLKF 61 (498)
T ss_pred cCcHHHHHHHHHHHccCCCEEEECCCChhHHH--HHHHHHH
Confidence 46889999999999999999999999999999 5455653
No 147
>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=93.11 E-value=0.16 Score=49.61 Aligned_cols=45 Identities=29% Similarity=0.408 Sum_probs=21.9
Q ss_pred CCCCC-CHHHHHHHHHHHH--HHhcCCceEEeccCCCchHHHHHHHHHHH
Q 004379 13 FPFEA-YDCQLVYMEKVIQ--SLQNKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 13 Fpf~~-r~~Q~~~~~~i~~--al~~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
|.|.. +..+...+..+.. -+++++++++-+|||||||. |+.|++.
T Consensus 22 ~d~~~~~~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKTh--La~ai~~ 69 (178)
T PF01695_consen 22 FDFSNERGIDKAQIAQLAALEFIENGENLILYGPPGTGKTH--LAVAIAN 69 (178)
T ss_dssp ------------HHHHHHHH-S-SC--EEEEEESTTSSHHH--HHHHHHH
T ss_pred ccccchhhHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHH--HHHHHHH
Confidence 34443 2334444444422 24667889999999999998 5556654
No 148
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=92.93 E-value=0.36 Score=55.74 Aligned_cols=107 Identities=12% Similarity=0.158 Sum_probs=62.4
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCC-CCChHHHHHHHHHHhc
Q 004379 501 KQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIEDYMAKLK 579 (758)
Q Consensus 501 ~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~-~~~~~~~i~~~~~~i~ 579 (758)
++.|...+..+.. .|.-+++|+=+.+|-.+.+..-... +.+..=+.+.. -..+..+|++|..
T Consensus 763 ~r~L~~LLp~~k~--~G~RVLiFSQFTqmLDILE~~L~~l------------~~~ylRLDGsTqV~~RQ~lId~Fn~--- 825 (941)
T KOG0389|consen 763 CRKLKELLPKIKK--KGDRVLIFSQFTQMLDILEVVLDTL------------GYKYLRLDGSTQVNDRQDLIDEFNT--- 825 (941)
T ss_pred HhHHHHHHHHHhh--cCCEEEEeeHHHHHHHHHHHHHHhc------------CceEEeecCCccchHHHHHHHhhcc---
Confidence 3455555555443 3455667888888877766543221 11222222222 2357778888865
Q ss_pred cCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHH
Q 004379 580 DTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKR 629 (758)
Q Consensus 580 ~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~ 629 (758)
..+-...|+++--|. -||++.. +-.|||.-+-|-|-+|-..+-|.
T Consensus 826 -d~difVFLLSTKAGG--~GINLt~--An~VIihD~dFNP~dD~QAEDRc 870 (941)
T KOG0389|consen 826 -DKDIFVFLLSTKAGG--FGINLTC--ANTVIIHDIDFNPYDDKQAEDRC 870 (941)
T ss_pred -CCceEEEEEeeccCc--ceecccc--cceEEEeecCCCCcccchhHHHH
Confidence 112345666764444 4899887 67999999999766665444443
No 149
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=92.92 E-value=0.13 Score=55.68 Aligned_cols=41 Identities=34% Similarity=0.384 Sum_probs=35.9
Q ss_pred CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
+-++.+.+..+..++..++|+++|+|+|||||. |.-+++..
T Consensus 26 ~~g~~~~~~~~l~a~~~~~~vll~G~PG~gKT~--la~~lA~~ 66 (329)
T COG0714 26 VVGDEEVIELALLALLAGGHVLLEGPPGVGKTL--LARALARA 66 (329)
T ss_pred eeccHHHHHHHHHHHHcCCCEEEECCCCccHHH--HHHHHHHH
Confidence 345999999999999999999999999999999 77777644
No 150
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=92.85 E-value=1.2 Score=53.58 Aligned_cols=97 Identities=15% Similarity=0.113 Sum_probs=61.9
Q ss_pred HHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHh
Q 004379 499 EYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKL 578 (758)
Q Consensus 499 ~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i 578 (758)
+-...+.+.|.+... .+..+|||++|-+..+.+...|...... ..++..++ ......+..|..
T Consensus 582 eK~~Ali~~I~~~~~-~grpVLIft~Sve~sE~Ls~~L~~~gI~-------------h~vLnakq-~~REa~Iia~AG-- 644 (1025)
T PRK12900 582 EKYNAIVLKVEELQK-KGQPVLVGTASVEVSETLSRMLRAKRIA-------------HNVLNAKQ-HDREAEIVAEAG-- 644 (1025)
T ss_pred HHHHHHHHHHHHHhh-CCCCEEEEeCcHHHHHHHHHHHHHcCCC-------------ceeecCCH-HHhHHHHHHhcC--
Confidence 334667676665543 5668999999999999998888765321 11222211 124444555542
Q ss_pred ccCCCCCeEEEEEecCccccccccC-CCCce---EEEEEccCCC
Q 004379 579 KDTSTSGAVFFAVCRGKVSEGLDFA-DHAGR---AVVITGMPFA 618 (758)
Q Consensus 579 ~~~~~~~~vL~~v~~g~~~EGiD~~-~~~~r---~vii~glPfp 618 (758)
..++|++|+ .-...|+|++ |+... +++++|.+.|
T Consensus 645 ----~~g~VtIAT--NMAGRGtDIkl~~~V~~vGGL~VIgterh 682 (1025)
T PRK12900 645 ----QKGAVTIAT--NMAGRGTDIKLGEGVRELGGLFILGSERH 682 (1025)
T ss_pred ----CCCeEEEec--cCcCCCCCcCCccchhhhCCceeeCCCCC
Confidence 579999999 6779999998 33332 3367776664
No 151
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=92.68 E-value=0.18 Score=52.93 Aligned_cols=42 Identities=33% Similarity=0.460 Sum_probs=33.8
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 13 Fpf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
|..+ .||.|++.++.+ ..++.+++-.|||-||+|+|-+|||.
T Consensus 90 f~lekfrplq~~ain~~----ma~ed~~lil~tgggkslcyqlpal~ 132 (695)
T KOG0353|consen 90 FHLEKFRPLQLAAINAT----MAGEDAFLILPTGGGKSLCYQLPALC 132 (695)
T ss_pred hhHHhcChhHHHHhhhh----hccCceEEEEeCCCccchhhhhhHHh
Confidence 4455 478888876554 46778889999999999999999995
No 152
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=92.59 E-value=0.062 Score=54.43 Aligned_cols=78 Identities=13% Similarity=0.169 Sum_probs=50.6
Q ss_pred CcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecCcc
Q 004379 517 DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKV 596 (758)
Q Consensus 517 g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~ 596 (758)
..+++|++..+-.+.+.+.+++.+.. + -.-|+ .-..++.+.++.+|+. ++.-||+++ .-+
T Consensus 267 tQavIFcnTk~kVdwLtekm~~~nft----V---ssmHG-----Dm~qkERd~im~dFRs------g~SrvLitT--DVw 326 (400)
T KOG0328|consen 267 TQAVIFCNTKRKVDWLTEKMREANFT----V---SSMHG-----DMEQKERDKIMNDFRS------GKSRVLITT--DVW 326 (400)
T ss_pred heEEEEecccchhhHHHHHHHhhCce----e---eeccC-----CcchhHHHHHHHHhhc------CCceEEEEe--chh
Confidence 35788888888877777776654321 0 00011 1112457788999986 567899998 788
Q ss_pred ccccccCCCCceEEEEEccC
Q 004379 597 SEGLDFADHAGRAVVITGMP 616 (758)
Q Consensus 597 ~EGiD~~~~~~r~vii~glP 616 (758)
+.|||++- ...||=.-||
T Consensus 327 aRGiDv~q--VslviNYDLP 344 (400)
T KOG0328|consen 327 ARGIDVQQ--VSLVINYDLP 344 (400)
T ss_pred hccCCcce--eEEEEecCCC
Confidence 89999986 4556555554
No 153
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=92.56 E-value=0.77 Score=53.23 Aligned_cols=82 Identities=20% Similarity=0.225 Sum_probs=60.7
Q ss_pred CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeE
Q 004379 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTI 97 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kI 97 (758)
++.|++=.+=+++-..++.-+|+-=--|-|||+-.++- |+-+...++ ...|.+
T Consensus 207 f~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisF-LaaL~~S~k--------------------------~~~paL 259 (923)
T KOG0387|consen 207 FPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISF-LAALHHSGK--------------------------LTKPAL 259 (923)
T ss_pred hHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHH-HHHHhhccc--------------------------ccCceE
Confidence 68899999999999999888999999999999865432 332232211 124789
Q ss_pred EEeCCccchHHHHHHHhhcCCCCCceEEecC
Q 004379 98 LYTSRTHSQLRQVIQELKTSNYRPKMVILGS 128 (758)
Q Consensus 98 i~~trT~sql~Q~i~eLkkl~~~~~~~~l~s 128 (758)
|+|..| .+.|+++|+.+-..+.++.++.+
T Consensus 260 IVCP~T--ii~qW~~E~~~w~p~~rv~ilh~ 288 (923)
T KOG0387|consen 260 IVCPAT--IIHQWMKEFQTWWPPFRVFILHG 288 (923)
T ss_pred EEccHH--HHHHHHHHHHHhCcceEEEEEec
Confidence 999876 89999999998666666666643
No 154
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=92.46 E-value=0.31 Score=58.93 Aligned_cols=83 Identities=20% Similarity=0.184 Sum_probs=53.1
Q ss_pred HHHHH-HhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccc
Q 004379 27 KVIQS-LQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHS 105 (758)
Q Consensus 27 ~i~~a-l~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~s 105 (758)
.|+++ +....++++.||||.|||-..+.-+|.-+..+... .+ ..+...-+|+|-.++++
T Consensus 316 ~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~-dg-------------------s~nl~~fKIVYIAPmKa 375 (1674)
T KOG0951|consen 316 KVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLRE-DG-------------------SVNLAPFKIVYIAPMKA 375 (1674)
T ss_pred HHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhccccc-cc-------------------ceecccceEEEEeeHHH
Confidence 34443 55669999999999999999998877544332210 00 00112348999999999
Q ss_pred hHHHHHHHhhc--CCCCCceEEecCC
Q 004379 106 QLRQVIQELKT--SNYRPKMVILGSR 129 (758)
Q Consensus 106 ql~Q~i~eLkk--l~~~~~~~~l~sr 129 (758)
+.+.++..+.+ .++.+++.=+.+-
T Consensus 376 LvqE~VgsfSkRla~~GI~V~ElTgD 401 (1674)
T KOG0951|consen 376 LVQEMVGSFSKRLAPLGITVLELTGD 401 (1674)
T ss_pred HHHHHHHHHHhhccccCcEEEEeccc
Confidence 99999987643 3444454434443
No 155
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=92.44 E-value=1.8 Score=47.62 Aligned_cols=78 Identities=19% Similarity=0.310 Sum_probs=54.8
Q ss_pred CcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeC--CCC-CCChHHHHHHHHHHhccCCCCCeEEEEEec
Q 004379 517 DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVE--PRQ-SSLFPLAIEDYMAKLKDTSTSGAVFFAVCR 593 (758)
Q Consensus 517 g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e--~~~-~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~ 593 (758)
..++||||+-.....+++.++.. +.++.| .+. ..-......+|++ .+.+||+|+
T Consensus 331 ~KiiVF~sT~~~vk~~~~lL~~~---------------dlpv~eiHgk~~Q~kRT~~~~~F~k------aesgIL~cT-- 387 (543)
T KOG0342|consen 331 YKIIVFFSTCMSVKFHAELLNYI---------------DLPVLEIHGKQKQNKRTSTFFEFCK------AESGILVCT-- 387 (543)
T ss_pred ceEEEEechhhHHHHHHHHHhhc---------------CCchhhhhcCCcccccchHHHHHhh------cccceEEec--
Confidence 68999999999888888777632 122221 111 1123456788886 568999998
Q ss_pred CccccccccCCCCceEEEEEccCCCCCCCH
Q 004379 594 GKVSEGLDFADHAGRAVVITGMPFATMTDP 623 (758)
Q Consensus 594 g~~~EGiD~~~~~~r~vii~glPfp~~~dp 623 (758)
.--+.|+|||+ ..+||=.|+| +||
T Consensus 388 DVaARGlD~P~--V~~VvQ~~~P----~d~ 411 (543)
T KOG0342|consen 388 DVAARGLDIPD--VDWVVQYDPP----SDP 411 (543)
T ss_pred chhhccCCCCC--ceEEEEeCCC----CCH
Confidence 68899999999 6788877755 565
No 156
>PRK06835 DNA replication protein DnaC; Validated
Probab=92.43 E-value=0.31 Score=52.35 Aligned_cols=24 Identities=46% Similarity=0.527 Sum_probs=19.0
Q ss_pred cCCceEEeccCCCchHHHHHHHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
.++.+++-+|||||||. |+-|++.
T Consensus 182 ~~~~Lll~G~~GtGKTh--La~aIa~ 205 (329)
T PRK06835 182 NNENLLFYGNTGTGKTF--LSNCIAK 205 (329)
T ss_pred cCCcEEEECCCCCcHHH--HHHHHHH
Confidence 35889999999999999 5555543
No 157
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=92.43 E-value=0.077 Score=64.11 Aligned_cols=46 Identities=24% Similarity=0.309 Sum_probs=38.7
Q ss_pred eecCCCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHH
Q 004379 10 DVEFPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 10 ~~~Fpf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
...|.+. .|+.|.+++. +...|+-.++..|||-||+++|-+||+.+
T Consensus 257 ~~~Fg~~~FR~~Q~eaI~----~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~ 303 (941)
T KOG0351|consen 257 KEVFGHKGFRPNQLEAIN----ATLSGKDCFVLMPTGGGKSLCYQLPALLL 303 (941)
T ss_pred HHHhccccCChhHHHHHH----HHHcCCceEEEeecCCceeeEeecccccc
Confidence 3457877 4799999776 56788999999999999999999999853
No 158
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=92.29 E-value=0.83 Score=55.44 Aligned_cols=172 Identities=17% Similarity=0.110 Sum_probs=85.4
Q ss_pred Cchhhchhhhc-----ccccEEEEecccCCChHhHHhh-hCCCCCc-cccCCccccCCCeEEEEeecCCCCcceeeeccc
Q 004379 422 NPGIAMQEFSR-----LEVGSIILTSGTLSPMDSFAQE-LKLNFPL-RVENPHVITSKQIWAGIVPVGPSGYLLNSSYRN 494 (758)
Q Consensus 422 ~p~~~l~~~l~-----~~~~~vil~SaTL~p~~~f~~~-lGl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~ 494 (758)
+.+..++.+.. .....+|++|||++....|... +|.++.. .-+...+- ....++..-| ..... ...-
T Consensus 214 ~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np~e~~~~l~~~~f~~~v~~~g~~~-~~~~~~~~~p---~~~~~--~~~~ 287 (851)
T COG1205 214 EVALLLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFGRDFEVPVDEDGSPR-GLRYFVRREP---PIREL--AESI 287 (851)
T ss_pred HHHHHHHHHHHHHhccCCCceEEEEeccccChHHHHHHhcCCcceeeccCCCCCC-CceEEEEeCC---cchhh--hhhc
Confidence 34556665554 1234899999999987777554 4444432 11111111 1111121111 00000 0001
Q ss_pred cCCHHHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCC-CCChHHHHHH
Q 004379 495 RDSIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIED 573 (758)
Q Consensus 495 r~~~~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~-~~~~~~~i~~ 573 (758)
+. +....++..+..++. ..-.+||||-|....+.++..........+.....++..++ ..- ..+...+.++
T Consensus 288 r~--s~~~~~~~~~~~~~~-~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~-----~~~~~~er~~ie~~ 359 (851)
T COG1205 288 RR--SALAELATLAALLVR-NGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYR-----AGLHREERRRIEAE 359 (851)
T ss_pred cc--chHHHHHHHHHHHHH-cCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeecc-----ccCCHHHHHHHHHH
Confidence 11 223344444444443 45579999999999999974332211000001111111111 100 1123333444
Q ss_pred HHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCC
Q 004379 574 YMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 574 ~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPf 617 (758)
+++ ++..+++++ ..+-=|||+.+ +.+||..|+|-
T Consensus 360 ~~~------g~~~~~~st--~AlelgidiG~--ldavi~~g~P~ 393 (851)
T COG1205 360 FKE------GELLGVIAT--NALELGIDIGS--LDAVIAYGYPG 393 (851)
T ss_pred Hhc------CCccEEecc--hhhhhceeehh--hhhHhhcCCCC
Confidence 543 456677777 78999999988 77899999885
No 159
>PRK08181 transposase; Validated
Probab=92.15 E-value=0.36 Score=50.32 Aligned_cols=39 Identities=28% Similarity=0.348 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
+.|..-.....+-+.+++++++-+|+|||||. |+-|++.
T Consensus 90 ~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTH--La~Aia~ 128 (269)
T PRK08181 90 KAQVMAIAAGDSWLAKGANLLLFGPPGGGKSH--LAAAIGL 128 (269)
T ss_pred HHHHHHHHHHHHHHhcCceEEEEecCCCcHHH--HHHHHHH
Confidence 34554444443456788999999999999997 5555653
No 160
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=91.83 E-value=1.4 Score=51.64 Aligned_cols=128 Identities=13% Similarity=0.139 Sum_probs=89.7
Q ss_pred HHHHHHHHHHHhhhc-----CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHH
Q 004379 501 KQELGNTIVNIARIV-----PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYM 575 (758)
Q Consensus 501 ~~~l~~~i~~~~~~~-----~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~ 575 (758)
.+.+++.|.+.+... .|.++||+-+..+.+.+.+.+.+..+. .+++....-..+.+.-...|+.|.
T Consensus 406 ~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype---------~~~~~a~~IT~d~~~~q~~Id~f~ 476 (875)
T COG4096 406 TETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPE---------YNGRYAMKITGDAEQAQALIDNFI 476 (875)
T ss_pred HHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCcc---------ccCceEEEEeccchhhHHHHHHHH
Confidence 456677777777652 346999999999999999999876543 122332222333444667788887
Q ss_pred HHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcch
Q 004379 576 AKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGED 655 (758)
Q Consensus 576 ~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~ 655 (758)
. +. .-+.|-++| +-+.-|||.|- |.++|..+ .
T Consensus 477 ~---ke-~~P~Iaitv--dlL~TGiDvpe--v~nlVF~r---------~------------------------------- 508 (875)
T COG4096 477 D---KE-KYPRIAITV--DLLTTGVDVPE--VVNLVFDR---------K------------------------------- 508 (875)
T ss_pred h---cC-CCCceEEeh--hhhhcCCCchh--eeeeeehh---------h-------------------------------
Confidence 6 22 357899998 89999999997 55655543 1
Q ss_pred hHHHHHHHHHHHhcCccccCCCCeE-------EEEEeecc
Q 004379 656 WYNQQASRAVNQAVGRVIRHRHDYG-------AIIFCDER 688 (758)
Q Consensus 656 ~y~~~a~~~~~QaiGRlIR~~~D~g-------~villD~R 688 (758)
-+.+.++.|.+||.-|--.|.| -+.|+|-.
T Consensus 509 ---VrSktkF~QMvGRGTRl~~~~~~~~~dK~~F~ifDf~ 545 (875)
T COG4096 509 ---VRSKTKFKQMVGRGTRLCPDLGGPEQDKEFFTIFDFV 545 (875)
T ss_pred ---hhhHHHHHHHhcCccccCccccCccccceeEEEEEhh
Confidence 1225889999999999887777 78888864
No 161
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=91.79 E-value=2 Score=47.64 Aligned_cols=82 Identities=12% Similarity=0.174 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhcc
Q 004379 501 KQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKD 580 (758)
Q Consensus 501 ~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~ 580 (758)
...|.+.+.+. ..-.++||.+-.+-.+.+++.|.+.+.. -..+.-.+..+.....++.|++
T Consensus 505 ~kkL~eil~~~---~~ppiIIFvN~kk~~d~lAk~LeK~g~~------------~~tlHg~k~qeQRe~aL~~fr~---- 565 (673)
T KOG0333|consen 505 RKKLIEILESN---FDPPIIIFVNTKKGADALAKILEKAGYK------------VTTLHGGKSQEQRENALADFRE---- 565 (673)
T ss_pred HHHHHHHHHhC---CCCCEEEEEechhhHHHHHHHHhhccce------------EEEeeCCccHHHHHHHHHHHHh----
Confidence 34444444333 2347999999999999998888765321 0122223333457778899987
Q ss_pred CCCCCeEEEEEecCccccccccCCC
Q 004379 581 TSTSGAVFFAVCRGKVSEGLDFADH 605 (758)
Q Consensus 581 ~~~~~~vL~~v~~g~~~EGiD~~~~ 605 (758)
+.+.||+|+ .-...|||+|+=
T Consensus 566 --~t~dIlVaT--DvAgRGIDIpnV 586 (673)
T KOG0333|consen 566 --GTGDILVAT--DVAGRGIDIPNV 586 (673)
T ss_pred --cCCCEEEEe--cccccCCCCCcc
Confidence 578999999 788999999993
No 162
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=91.31 E-value=1.3 Score=53.20 Aligned_cols=73 Identities=12% Similarity=0.081 Sum_probs=46.7
Q ss_pred CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCC-CChHHHHHHHHHHhccCCCCCeEEEEEecC
Q 004379 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (758)
Q Consensus 516 ~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~-~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g 594 (758)
++.++|.+++-.....+|..++.... +..++-.+-. .++.+.+++.++.+.. ..+.|++|+ .
T Consensus 440 ~~kvlvI~NTV~~Aie~Y~~Lk~~~~-------------~v~LlHSRf~~~dR~~ke~~l~~~~~~--~~~~IvVaT--Q 502 (733)
T COG1203 440 GKKVLVIVNTVDRAIELYEKLKEKGP-------------KVLLLHSRFTLKDREEKERELKKLFKQ--NEGFIVVAT--Q 502 (733)
T ss_pred CCcEEEEEecHHHHHHHHHHHHhcCC-------------CEEEEecccchhhHHHHHHHHHHHHhc--cCCeEEEEe--e
Confidence 45799999999999999998886531 1223333321 2344445544432212 467899988 5
Q ss_pred ccccccccCCC
Q 004379 595 KVSEGLDFADH 605 (758)
Q Consensus 595 ~~~EGiD~~~~ 605 (758)
-.--|||+.=|
T Consensus 503 VIEagvDidfd 513 (733)
T COG1203 503 VIEAGVDIDFD 513 (733)
T ss_pred EEEEEeccccC
Confidence 77788888755
No 163
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=91.26 E-value=0.6 Score=48.34 Aligned_cols=42 Identities=21% Similarity=0.274 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHh
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKS 62 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~ 62 (758)
..+..-+....+.+.+++.+++-+|+|||||. |..||+....
T Consensus 89 ~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKTh--La~Ai~~~l~ 130 (254)
T COG1484 89 KKALEDLASLVEFFERGENLVLLGPPGVGKTH--LAIAIGNELL 130 (254)
T ss_pred HHHHHHHHHHHHHhccCCcEEEECCCCCcHHH--HHHHHHHHHH
Confidence 34555555666777888999999999999998 7777765443
No 164
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=90.96 E-value=0.57 Score=54.65 Aligned_cols=140 Identities=13% Similarity=0.109 Sum_probs=80.5
Q ss_pred hhhchhhhcccccEEEEecccCCC-hHhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHH
Q 004379 424 GIAMQEFSRLEVGSIILTSGTLSP-MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQ 502 (758)
Q Consensus 424 ~~~l~~~l~~~~~~vil~SaTL~p-~~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~ 502 (758)
+..++.++. .+..+--|+||... .+.|.+..|++.. ..|.-. |. .. .+.++ .-|. +..+...
T Consensus 352 sIT~QnfFr-~Y~kLsGMTGTa~t~~~Ef~~iY~l~Vv---~IPtnk-p~---~R--~d~~d-----~iy~--t~~~k~~ 414 (764)
T PRK12326 352 TITVQALIG-RYPTVCGMTGTAVAAGEQLRQFYDLGVS---VIPPNK-PN---IR--EDEAD-----RVYA--TAAEKND 414 (764)
T ss_pred hhhHHHHHH-hcchheeecCCChhHHHHHHHHhCCcEE---ECCCCC-Cc---ee--ecCCC-----ceEe--CHHHHHH
Confidence 344555555 67788899999876 3467777777631 111111 10 00 01111 1122 2334567
Q ss_pred HHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCC
Q 004379 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTS 582 (758)
Q Consensus 503 ~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~ 582 (758)
++.+.|.+..+ .+..|||.++|-+.-+.+...|.+... +..++.-++...=.++++ ...
T Consensus 415 Aii~ei~~~~~-~GrPVLVgt~sI~~SE~ls~~L~~~gI-------------~h~vLNAk~~~~EA~IIa-------~AG 473 (764)
T PRK12326 415 AIVEHIAEVHE-TGQPVLVGTHDVAESEELAERLRAAGV-------------PAVVLNAKNDAEEARIIA-------EAG 473 (764)
T ss_pred HHHHHHHHHHH-cCCCEEEEeCCHHHHHHHHHHHHhCCC-------------cceeeccCchHhHHHHHH-------hcC
Confidence 78788777654 566899999999999999988876531 112222222111112222 223
Q ss_pred CCCeEEEEEecCccccccccC
Q 004379 583 TSGAVFFAVCRGKVSEGLDFA 603 (758)
Q Consensus 583 ~~~~vL~~v~~g~~~EGiD~~ 603 (758)
..|+|-+|+ .-...|.|+.
T Consensus 474 ~~gaVTIAT--NMAGRGTDIk 492 (764)
T PRK12326 474 KYGAVTVST--QMAGRGTDIR 492 (764)
T ss_pred CCCcEEEEe--cCCCCccCee
Confidence 579999999 6777999985
No 165
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=90.85 E-value=9.4 Score=46.16 Aligned_cols=196 Identities=16% Similarity=0.135 Sum_probs=107.2
Q ss_pred cccEEEEecccCCChHhHHhhhCCCCCc-cccCCccccC---CCeEEEEeecCCCCcceeeeccccCCHH-HHHHHHHHH
Q 004379 434 EVGSIILTSGTLSPMDSFAQELKLNFPL-RVENPHVITS---KQIWAGIVPVGPSGYLLNSSYRNRDSIE-YKQELGNTI 508 (758)
Q Consensus 434 ~~~~vil~SaTL~p~~~f~~~lGl~~~~-~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~y~~r~~~~-~~~~l~~~i 508 (758)
..-.+|-.||||-.....+..|+.+... .+.-...|-| .+-++.+ + .. +++.... +-+...+.+
T Consensus 274 s~IRivgLSATlPN~eDvA~fL~vn~~~glfsFd~~yRPvpL~~~~iG~-k---------~~-~~~~~~~~~d~~~~~kv 342 (1230)
T KOG0952|consen 274 SMIRIVGLSATLPNYEDVARFLRVNPYAGLFSFDQRYRPVPLTQGFIGI-K---------GK-KNRQQKKNIDEVCYDKV 342 (1230)
T ss_pred hheEEEEeeccCCCHHHHHHHhcCCCccceeeecccccccceeeeEEee-e---------cc-cchhhhhhHHHHHHHHH
Confidence 4558999999999899999999986321 1111111111 2221111 1 00 1121111 112222333
Q ss_pred HHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHH---------------HH
Q 004379 509 VNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAI---------------ED 573 (758)
Q Consensus 509 ~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i---------------~~ 573 (758)
.+.+. -+..++||++|...--..++.+.+.... .+.+..|+-.+..+...+++ ..
T Consensus 343 ~e~~~-~g~qVlvFvhsR~~Ti~tA~~l~~~a~~---------~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~ 412 (1230)
T KOG0952|consen 343 VEFLQ-EGHQVLVFVHSRNETIRTAKKLRERAET---------NGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQ 412 (1230)
T ss_pred HHHHH-cCCeEEEEEecChHHHHHHHHHHHHHHh---------cCcccccCCChhhHHHHHHHHhhhhhcccccchhhHH
Confidence 33332 2446999999999988888877654211 12233333221000000110 11
Q ss_pred HHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCc
Q 004379 574 YMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSG 653 (758)
Q Consensus 574 ~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~ 653 (758)
+.+++..+ +.=.||+|+ ..++=||++|.+ +|||=|=|+-.+. +| .|.+
T Consensus 413 l~E~~F~~-G~i~vL~cT--aTLAwGVNLPA~---aViIKGT~~ydss-------------kg--~f~d----------- 460 (1230)
T KOG0952|consen 413 LVEKEFKE-GHIKVLCCT--ATLAWGVNLPAY---AVIIKGTQVYDSS-------------KG--SFVD----------- 460 (1230)
T ss_pred HHHHHHhc-CCceEEEec--ceeeeccCCcce---EEEecCCcccccc-------------cC--ceee-----------
Confidence 11111111 234688888 799999999984 7999997764221 12 1322
Q ss_pred chhHHHHHHHHHHHhcCccccCC-CCeEEEEEeecc
Q 004379 654 EDWYNQQASRAVNQAVGRVIRHR-HDYGAIIFCDER 688 (758)
Q Consensus 654 ~~~y~~~a~~~~~QaiGRlIR~~-~D~g~villD~R 688 (758)
-.+.-|-|-+||.=|-. ++.|..+|+-.|
T Consensus 461 ------lgilDVlQifGRAGRPqFd~~G~giIiTt~ 490 (1230)
T KOG0952|consen 461 ------LGILDVLQIFGRAGRPQFDSSGEGIIITTR 490 (1230)
T ss_pred ------ehHHHHHHHHhccCCCCCCCCceEEEEecc
Confidence 23688999999999987 568999988765
No 166
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=90.82 E-value=0.23 Score=53.45 Aligned_cols=39 Identities=26% Similarity=0.319 Sum_probs=30.9
Q ss_pred cCCCCCCHHHHHHHHHHHHHH-hcC-CceEEeccCCCchHH
Q 004379 12 EFPFEAYDCQLVYMEKVIQSL-QNK-CNALLESPTGTGKTL 50 (758)
Q Consensus 12 ~Fpf~~r~~Q~~~~~~i~~al-~~~-~~~liEAPTGTGKTl 50 (758)
.|||....+|.+....+.-++ ..+ .|+++++|.|||||.
T Consensus 4 ~~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~ 44 (334)
T PRK13407 4 PFPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKST 44 (334)
T ss_pred CCCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHH
Confidence 355555678999999877554 355 799999999999996
No 167
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=90.81 E-value=0.81 Score=53.05 Aligned_cols=89 Identities=21% Similarity=0.298 Sum_probs=56.8
Q ss_pred ccEEEEecccCCChHhHHhhhCCCCCccccCCc-ccc--CCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHH
Q 004379 435 VGSIILTSGTLSPMDSFAQELKLNFPLRVENPH-VIT--SKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNI 511 (758)
Q Consensus 435 ~~~vil~SaTL~p~~~f~~~lGl~~~~~~~~~~-~~~--~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~ 511 (758)
.-..|+|||||...++-..-.- | +.+. ++. .+| -+++..|+.|..++|+.+--+....|
T Consensus 414 pLKLIIMSATLRVsDFtenk~L--F----pi~pPlikVdARQ------------fPVsIHF~krT~~DYi~eAfrKtc~I 475 (1172)
T KOG0926|consen 414 PLKLIIMSATLRVSDFTENKRL--F----PIPPPLIKVDARQ------------FPVSIHFNKRTPDDYIAEAFRKTCKI 475 (1172)
T ss_pred ceeEEEEeeeEEecccccCcee--c----CCCCceeeeeccc------------CceEEEeccCCCchHHHHHHHHHHHH
Confidence 4478999999998554322111 1 1111 111 123 23555666777677765555555555
Q ss_pred hhhc-CCcEEEEeccHHHHHHHHHHHhcCCC
Q 004379 512 ARIV-PDGLLIFFPSYYLMDQCIACWKNTSH 541 (758)
Q Consensus 512 ~~~~-~g~~lv~f~Sy~~l~~v~~~~~~~~~ 541 (758)
.+.. |||+|||.|--...+++...|++..+
T Consensus 476 H~kLP~G~ILVFvTGQqEV~qL~~kLRK~~p 506 (1172)
T KOG0926|consen 476 HKKLPPGGILVFVTGQQEVDQLCEKLRKRFP 506 (1172)
T ss_pred hhcCCCCcEEEEEeChHHHHHHHHHHHhhCc
Confidence 5444 58999999999999999999988754
No 168
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=90.75 E-value=0.51 Score=55.68 Aligned_cols=75 Identities=21% Similarity=0.279 Sum_probs=59.4
Q ss_pred CeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCC
Q 004379 8 GIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSS 87 (758)
Q Consensus 8 ~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (758)
.....|||++-.-|++.+ -+|..|..+++-|+|-.|||+.+=++ ++-+..++
T Consensus 289 e~a~~~pFelD~FQk~Ai----~~lerg~SVFVAAHTSAGKTvVAEYA-ialaq~h~----------------------- 340 (1248)
T KOG0947|consen 289 EMALIYPFELDTFQKEAI----YHLERGDSVFVAAHTSAGKTVVAEYA-IALAQKHM----------------------- 340 (1248)
T ss_pred hHHhhCCCCccHHHHHHH----HHHHcCCeEEEEecCCCCcchHHHHH-HHHHHhhc-----------------------
Confidence 334579999999999865 45788999999999999999987655 44444333
Q ss_pred CCCCCCCCeEEEeCCccchHHHHHHHhhcC
Q 004379 88 QSGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 88 ~~~~~~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
.+.||+|+.+.+-+|=.+++|.+
T Consensus 341 -------TR~iYTSPIKALSNQKfRDFk~t 363 (1248)
T KOG0947|consen 341 -------TRTIYTSPIKALSNQKFRDFKET 363 (1248)
T ss_pred -------cceEecchhhhhccchHHHHHHh
Confidence 48999999999999988888764
No 169
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.52 E-value=0.29 Score=52.51 Aligned_cols=72 Identities=21% Similarity=0.133 Sum_probs=52.0
Q ss_pred CC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCC
Q 004379 15 FE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSK 93 (758)
Q Consensus 15 f~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (758)
|. |-|.|++.|.-| -+++.++--|-||+|||.|+++|++.-++.... .
T Consensus 41 ~~~ptpiqRKTipli----Le~~dvv~martgsgktaaf~ipm~e~Lk~~s~---------------------------~ 89 (529)
T KOG0337|consen 41 FNTPTPIQRKTIPLI----LEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQ---------------------------T 89 (529)
T ss_pred cCCCCchhcccccce----eeccccceeeecCCcchhhHHHHHHHHHhhccc---------------------------c
Confidence 44 567888777654 456778888999999999999999976654321 1
Q ss_pred CCeEEEeCCccchHHHHHHHhhcC
Q 004379 94 LPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 94 ~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
.-+-.+.+.|..+..|.++-++.+
T Consensus 90 g~RalilsptreLa~qtlkvvkdl 113 (529)
T KOG0337|consen 90 GLRALILSPTRELALQTLKVVKDL 113 (529)
T ss_pred ccceeeccCcHHHHHHHHHHHHHh
Confidence 235677788888888887655543
No 170
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=90.33 E-value=0.3 Score=44.89 Aligned_cols=37 Identities=38% Similarity=0.423 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHhc--CCceEEeccCCCchHHHHHHHHHH
Q 004379 20 CQLVYMEKVIQSLQN--KCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~--~~~~liEAPTGTGKTlayL~pal~ 58 (758)
+|.+....+...+.. +.++++-+|+|+|||. |+-.+.
T Consensus 2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~--l~~~i~ 40 (151)
T cd00009 2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTT--LARAIA 40 (151)
T ss_pred chHHHHHHHHHHHhCCCCCeEEEECCCCCCHHH--HHHHHH
Confidence 466777888888877 7889999999999996 444443
No 171
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=89.93 E-value=0.27 Score=53.79 Aligned_cols=40 Identities=23% Similarity=0.215 Sum_probs=29.4
Q ss_pred CCCCHHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHH
Q 004379 15 FEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal 57 (758)
-.+||-|..- +.+.|-+| +.++|-=|.|.||||.=..+|.
T Consensus 301 t~iRpYQEks---L~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~ 342 (776)
T KOG1123|consen 301 TQIRPYQEKS---LSKMFGNGRARSGIIVLPCGAGKTLVGVTAAC 342 (776)
T ss_pred cccCchHHHH---HHHHhCCCcccCceEEEecCCCCceeeeeeee
Confidence 3468999874 44557676 5578888999999997765544
No 172
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=89.76 E-value=4.7 Score=42.62 Aligned_cols=88 Identities=18% Similarity=0.241 Sum_probs=58.9
Q ss_pred HHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCC
Q 004379 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTS 582 (758)
Q Consensus 503 ~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~ 582 (758)
.+-..|.... ..+.-+|+|||+.+.|+++.+.+++..+. .+...+... .....+.++.|+.
T Consensus 293 kl~~~lekq~-~~~~P~liF~p~I~~~eq~a~~lk~~~~~-----------~~i~~Vhs~-d~~R~EkV~~fR~------ 353 (441)
T COG4098 293 KLKRWLEKQR-KTGRPVLIFFPEIETMEQVAAALKKKLPK-----------ETIASVHSE-DQHRKEKVEAFRD------ 353 (441)
T ss_pred HHHHHHHHHH-hcCCcEEEEecchHHHHHHHHHHHhhCCc-----------cceeeeecc-CccHHHHHHHHHc------
Confidence 3444444443 34567999999999999999999765432 122233222 2346677888886
Q ss_pred CCCeEEEEEecCccccccccCCCCceEEEEEc
Q 004379 583 TSGAVFFAVCRGKVSEGLDFADHAGRAVVITG 614 (758)
Q Consensus 583 ~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~g 614 (758)
++-.||+.+ --+-.||-||. --|.+.|
T Consensus 354 G~~~lLiTT--TILERGVTfp~---vdV~Vlg 380 (441)
T COG4098 354 GKITLLITT--TILERGVTFPN---VDVFVLG 380 (441)
T ss_pred CceEEEEEe--ehhhccccccc---ceEEEec
Confidence 567899998 68888999987 3455554
No 173
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=89.69 E-value=1 Score=53.22 Aligned_cols=89 Identities=16% Similarity=0.107 Sum_probs=58.7
Q ss_pred HHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCC-CCCCChHHHHHHHHHHhcc
Q 004379 502 QELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEP-RQSSLFPLAIEDYMAKLKD 580 (758)
Q Consensus 502 ~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~-~~~~~~~~~i~~~~~~i~~ 580 (758)
+.+.+.|..... .+..++||+++....+.+.+.+.+.+. +...+.. .+..+..+.+..|+.
T Consensus 429 ~~Ll~eI~~~~~-~g~~vLIf~~tk~~ae~L~~~L~~~gi-------------~~~~lh~~~~~~eR~~~l~~fr~---- 490 (655)
T TIGR00631 429 DDLLSEIRQRVA-RNERVLVTTLTKKMAEDLTDYLKELGI-------------KVRYLHSEIDTLERVEIIRDLRL---- 490 (655)
T ss_pred HHHHHHHHHHHc-CCCEEEEEECCHHHHHHHHHHHhhhcc-------------ceeeeeCCCCHHHHHHHHHHHhc----
Confidence 345455554432 355799999999999999998876421 1112211 122345667777764
Q ss_pred CCCCCeEEEEEecCccccccccCCCCceEEEEEc
Q 004379 581 TSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITG 614 (758)
Q Consensus 581 ~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~g 614 (758)
++-.||+|+ +.+++|+|+|+ +.+||+.-
T Consensus 491 --G~i~VLV~t--~~L~rGfDiP~--v~lVvi~D 518 (655)
T TIGR00631 491 --GEFDVLVGI--NLLREGLDLPE--VSLVAILD 518 (655)
T ss_pred --CCceEEEEc--ChhcCCeeeCC--CcEEEEeC
Confidence 456788777 99999999998 56777763
No 174
>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=89.46 E-value=2.9 Score=47.88 Aligned_cols=47 Identities=34% Similarity=0.336 Sum_probs=36.9
Q ss_pred EEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHHHHhhc
Q 004379 39 LLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 39 liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~eLkk 116 (758)
++.||||+|||..|+.. +......+ .+++|.++|.++..|..+.+++
T Consensus 1 LL~g~TGsGKT~v~l~~-i~~~l~~g------------------------------~~vLvlvP~i~L~~Q~~~~l~~ 47 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQA-IEKVLALG------------------------------KSVLVLVPEIALTPQMIQRFKY 47 (505)
T ss_pred CccCCCCCCHHHHHHHH-HHHHHHcC------------------------------CeEEEEeCcHHHHHHHHHHHHH
Confidence 57899999999999855 43333322 3799999999999999988875
No 175
>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=89.40 E-value=0.84 Score=46.29 Aligned_cols=21 Identities=33% Similarity=0.525 Sum_probs=17.0
Q ss_pred hcCCceEEeccCCCchHHHHH
Q 004379 33 QNKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 33 ~~~~~~liEAPTGTGKTlayL 53 (758)
-.|...++++|+|||||.-.+
T Consensus 17 p~gs~~li~G~~GsGKT~l~~ 37 (226)
T PF06745_consen 17 PKGSVVLISGPPGSGKTTLAL 37 (226)
T ss_dssp ETTSEEEEEESTTSSHHHHHH
T ss_pred CCCcEEEEEeCCCCCcHHHHH
Confidence 345779999999999998444
No 176
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=89.30 E-value=1.1 Score=52.76 Aligned_cols=67 Identities=27% Similarity=0.272 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEE
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTIL 98 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi 98 (758)
+.|....+.|...+..-+..++.+-||+|||-.||-. ++-....+ ..++
T Consensus 201 ~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~-i~~~L~~G------------------------------kqvL 249 (730)
T COG1198 201 QEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEA-IAKVLAQG------------------------------KQVL 249 (730)
T ss_pred HHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHH-HHHHHHcC------------------------------CEEE
Confidence 6899999999988833477899999999999999955 44333323 3799
Q ss_pred EeCCccchHHHHHHHhhc
Q 004379 99 YTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 99 ~~trT~sql~Q~i~eLkk 116 (758)
+..+-+++..|++..++.
T Consensus 250 vLVPEI~Ltpq~~~rf~~ 267 (730)
T COG1198 250 VLVPEIALTPQLLARFKA 267 (730)
T ss_pred EEeccccchHHHHHHHHH
Confidence 999999999999987763
No 177
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=89.20 E-value=0.53 Score=48.90 Aligned_cols=37 Identities=27% Similarity=0.273 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCA 55 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~p 55 (758)
-+|......+..++..+ -|.++-+|.|||||-+.|+.
T Consensus 39 ~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalaf 77 (346)
T KOG0989|consen 39 AGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAF 77 (346)
T ss_pred cchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHH
Confidence 37888888888888764 67899999999999988754
No 178
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=89.06 E-value=6.7 Score=48.23 Aligned_cols=77 Identities=21% Similarity=0.277 Sum_probs=51.8
Q ss_pred CCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHH
Q 004379 583 TSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQAS 662 (758)
Q Consensus 583 ~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~ 662 (758)
+.--||+++ ..++-||++|++ .|||-|----+|.+ - .| .+..-
T Consensus 632 g~iqvlvst--atlawgvnlpah---tViikgtqvy~pek------g-------------------------~w-~elsp 674 (1674)
T KOG0951|consen 632 GHIQVLVST--ATLAWGVNLPAH---TVIIKGTQVYDPEK------G-------------------------RW-TELSP 674 (1674)
T ss_pred CceeEEEee--hhhhhhcCCCcc---eEEecCccccCccc------C-------------------------cc-ccCCH
Confidence 345788888 799999999996 57887743333321 1 12 12223
Q ss_pred HHHHHhcCccccCCCC-eEEEEEeeccCCCccccc
Q 004379 663 RAVNQAVGRVIRHRHD-YGAIIFCDERFAHPSRKS 696 (758)
Q Consensus 663 ~~~~QaiGRlIR~~~D-~g~villD~R~~~~~y~~ 696 (758)
+.+.|.+||.=|...| +|-.++.+.+-.-..|.+
T Consensus 675 ~dv~qmlgragrp~~D~~gegiiit~~se~qyyls 709 (1674)
T KOG0951|consen 675 LDVMQMLGRAGRPQYDTCGEGIIITDHSELQYYLS 709 (1674)
T ss_pred HHHHHHHhhcCCCccCcCCceeeccCchHhhhhHH
Confidence 6788999999998865 788888888654444444
No 179
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=89.04 E-value=0.15 Score=54.19 Aligned_cols=85 Identities=13% Similarity=0.171 Sum_probs=57.8
Q ss_pred HHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEE
Q 004379 509 VNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVF 588 (758)
Q Consensus 509 ~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL 588 (758)
..+.+ .-.+.++|+++.+.+..+...|..+... .-.+--..+....+.++.+|+. +...||
T Consensus 257 ~dl~~-~~~q~~if~nt~r~v~~l~~~L~~~~~~------------~s~~~~d~~q~~R~~~~~ef~~------gssrvl 317 (397)
T KOG0327|consen 257 CDLYR-RVTQAVIFCNTRRKVDNLTDKLRAHGFT------------VSAIHGDMEQNERDTLMREFRS------GSSRVL 317 (397)
T ss_pred HHHHH-hhhcceEEecchhhHHHHHHHHhhCCce------------EEEeecccchhhhhHHHHHhhc------CCceEE
Confidence 33444 4457899999999999998888544211 0001011112346667788886 567899
Q ss_pred EEEecCccccccccCCCCceEEEEEccC
Q 004379 589 FAVCRGKVSEGLDFADHAGRAVVITGMP 616 (758)
Q Consensus 589 ~~v~~g~~~EGiD~~~~~~r~vii~glP 616 (758)
+.+ +-.+.|+|+.. +..||..=+|
T Consensus 318 Itt--dl~argidv~~--~slvinydlP 341 (397)
T KOG0327|consen 318 ITT--DLLARGIDVQQ--VSLVVNYDLP 341 (397)
T ss_pred eec--cccccccchhh--cceeeeeccc
Confidence 988 89999999987 6788888777
No 180
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=88.94 E-value=0.54 Score=50.68 Aligned_cols=44 Identities=25% Similarity=0.298 Sum_probs=36.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHhc--CCceEEeccCCCchHHHHHHHHHH
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQN--KCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~--~~~~liEAPTGTGKTlayL~pal~ 58 (758)
|||.---+|.++...+.-++-+ .+++++++|+|||||. |+-+++
T Consensus 1 ~pf~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKtt--l~r~~~ 46 (337)
T TIGR02030 1 FPFTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKST--AVRALA 46 (337)
T ss_pred CCccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHH--HHHHHH
Confidence 7888888999999998777665 5889999999999998 555564
No 181
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=88.94 E-value=9.9 Score=45.61 Aligned_cols=171 Identities=19% Similarity=0.083 Sum_probs=99.6
Q ss_pred EEEEecccCCChHhHHhhhCCCC-CccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHHhhhc
Q 004379 437 SIILTSGTLSPMDSFAQELKLNF-PLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIV 515 (758)
Q Consensus 437 ~vil~SaTL~p~~~f~~~lGl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~~~~~ 515 (758)
..|-.|||.+|.+..++.|+-.. +..+-....-.+-++.+. .|. .. ..+. ++. ...+.+.|.++++..
T Consensus 185 qRIGLSATV~~~~~varfL~g~~~~~~Iv~~~~~k~~~i~v~-~p~-~~-----~~~~---~~~-~~~~~~~i~~~v~~~ 253 (814)
T COG1201 185 QRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSAAKKLEIKVI-SPV-ED-----LIYD---EEL-WAALYERIAELVKKH 253 (814)
T ss_pred EEEeehhccCCHHHHHHHhcCCCCceEEEEcccCCcceEEEE-ecC-Cc-----cccc---cch-hHHHHHHHHHHHhhc
Confidence 45899999999998888887654 222111100001122222 221 11 0011 111 244556677777654
Q ss_pred CCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCC---hHHHHHHHHHHhccCCCCCeEEEEEe
Q 004379 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSL---FPLAIEDYMAKLKDTSTSGAVFFAVC 592 (758)
Q Consensus 516 ~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~---~~~~i~~~~~~i~~~~~~~~vL~~v~ 592 (758)
. .+|||.++...-|.+...+++... +.+..- -.+-+ ....-+++++ ++=..++|+
T Consensus 254 ~-ttLIF~NTR~~aE~l~~~L~~~~~-------------~~i~~H-HgSlSre~R~~vE~~lk~------G~lravV~T- 311 (814)
T COG1201 254 R-TTLIFTNTRSGAERLAFRLKKLGP-------------DIIEVH-HGSLSRELRLEVEERLKE------GELKAVVAT- 311 (814)
T ss_pred C-cEEEEEeChHHHHHHHHHHHHhcC-------------Cceeee-cccccHHHHHHHHHHHhc------CCceEEEEc-
Confidence 4 899999999999999998876431 111111 11211 2222234443 233455565
Q ss_pred cCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCcc
Q 004379 593 RGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRV 672 (758)
Q Consensus 593 ~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRl 672 (758)
.|+.=|||..+ ...||-.+= |.-+-++-|.+||.
T Consensus 312 -SSLELGIDiG~--vdlVIq~~S-------------------------------------------P~sV~r~lQRiGRs 345 (814)
T COG1201 312 -SSLELGIDIGD--IDLVIQLGS-------------------------------------------PKSVNRFLQRIGRA 345 (814)
T ss_pred -cchhhccccCC--ceEEEEeCC-------------------------------------------cHHHHHHhHhcccc
Confidence 89999999988 566776652 33367788999998
Q ss_pred cc--CCCCeEEEEEee
Q 004379 673 IR--HRHDYGAIIFCD 686 (758)
Q Consensus 673 IR--~~~D~g~villD 686 (758)
=+ ++..+|.++-.|
T Consensus 346 gHr~~~~Skg~ii~~~ 361 (814)
T COG1201 346 GHRLGEVSKGIIIAED 361 (814)
T ss_pred ccccCCcccEEEEecC
Confidence 53 334689999888
No 182
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=88.88 E-value=11 Score=42.32 Aligned_cols=182 Identities=15% Similarity=0.107 Sum_probs=98.8
Q ss_pred cEEEEecccCCC-hHhHHhhhCCCCC-ccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHHhh
Q 004379 436 GSIILTSGTLSP-MDSFAQELKLNFP-LRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIAR 513 (758)
Q Consensus 436 ~~vil~SaTL~p-~~~f~~~lGl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~~~ 513 (758)
-.++=.|+|+.. ...-....|++.- .......+- ....+++.-|.-++.. .+....++.+.+..+.+++.
T Consensus 452 ~~~~~~~~~~K~~~~~~~~~~~~~E~~Li~~DGSPs-~~K~~V~WNP~~~P~~-------~~~~~~~i~E~s~~~~~~i~ 523 (1034)
T KOG4150|consen 452 MGVYDGDTPYKDRTRLRSELANLSELELVTIDGSPS-SEKLFVLWNPSAPPTS-------KSEKSSKVVEVSHLFAEMVQ 523 (1034)
T ss_pred cceEeCCCCcCCHHHHHHHhcCCcceEEEEecCCCC-ccceEEEeCCCCCCcc-------hhhhhhHHHHHHHHHHHHHH
Confidence 356667777754 3333445566421 111111111 1334444333322111 24445678899998888885
Q ss_pred hcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccC--CCCCeEEEEE
Q 004379 514 IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDT--STSGAVFFAV 591 (758)
Q Consensus 514 ~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~--~~~~~vL~~v 591 (758)
.+-+++.|+||.+.-+-+....++-..+.+..+.+.+.. -+.+- +++=+++|... .++=.-++++
T Consensus 524 -~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~S-------YRGGY-----~A~DRRKIE~~~F~G~L~giIaT 590 (1034)
T KOG4150|consen 524 -HGLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITS-------YRGGY-----IAEDRRKIESDLFGGKLCGIIAT 590 (1034)
T ss_pred -cCCcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHh-------hcCcc-----chhhHHHHHHHhhCCeeeEEEec
Confidence 556899999999998877665543211100011111110 01110 11122333322 1111223344
Q ss_pred ecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCc
Q 004379 592 CRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGR 671 (758)
Q Consensus 592 ~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGR 671 (758)
..+-=|||..+ +.+|+.+|.|+. +-.+.|-.||
T Consensus 591 --NALELGIDIG~--LDAVl~~GFP~S-------------------------------------------~aNl~QQ~GR 623 (1034)
T KOG4150|consen 591 --NALELGIDIGH--LDAVLHLGFPGS-------------------------------------------IANLWQQAGR 623 (1034)
T ss_pred --chhhhcccccc--ceeEEEccCchh-------------------------------------------HHHHHHHhcc
Confidence 67888999987 899999999873 3557788899
Q ss_pred cccCCCCeEEEEEe
Q 004379 672 VIRHRHDYGAIIFC 685 (758)
Q Consensus 672 lIR~~~D~g~vill 685 (758)
.=|..+|.=++++.
T Consensus 624 AGRRNk~SLavyva 637 (1034)
T KOG4150|consen 624 AGRRNKPSLAVYVA 637 (1034)
T ss_pred ccccCCCceEEEEE
Confidence 98888887666664
No 183
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=88.83 E-value=0.65 Score=46.73 Aligned_cols=49 Identities=22% Similarity=0.249 Sum_probs=40.3
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCC
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGS 65 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~ 65 (758)
.--|+.|.+++.++.+. ..+++.+.+.-.|-|||-.+ +|.+++....++
T Consensus 22 iliR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKTsVI-~Pmla~~LAdg~ 70 (229)
T PF12340_consen 22 ILIRPVQVEIAREMISP-PSGKNSVMQLNMGEGKTSVI-VPMLALALADGS 70 (229)
T ss_pred ceeeHHHHHHHHHHhCC-CCCCCeEeeecccCCccchH-HHHHHHHHcCCC
Confidence 34699999999999875 56789999999999999865 498888776553
No 184
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=88.20 E-value=1.4 Score=52.08 Aligned_cols=91 Identities=15% Similarity=0.092 Sum_probs=60.6
Q ss_pred HHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCee-CCCCCCChHHHHHHHHHHhcc
Q 004379 502 QELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVV-EPRQSSLFPLAIEDYMAKLKD 580 (758)
Q Consensus 502 ~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~-e~~~~~~~~~~i~~~~~~i~~ 580 (758)
..+.+.|..... .+..++||+++....+.+.+.+.+.+. +..++ ......+..+.++.|+.
T Consensus 433 ~~L~~~L~~~~~-~g~~viIf~~t~~~ae~L~~~L~~~gi-------------~~~~~h~~~~~~~R~~~l~~f~~---- 494 (652)
T PRK05298 433 DDLLSEIRKRVA-KGERVLVTTLTKRMAEDLTDYLKELGI-------------KVRYLHSDIDTLERVEIIRDLRL---- 494 (652)
T ss_pred HHHHHHHHHHHh-CCCEEEEEeCCHHHHHHHHHHHhhcce-------------eEEEEECCCCHHHHHHHHHHHHc----
Confidence 445555555443 345699999999999999988876421 11122 11222345667777764
Q ss_pred CCCCCeEEEEEecCccccccccCCCCceEEEEEccC
Q 004379 581 TSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (758)
Q Consensus 581 ~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glP 616 (758)
++-.|++|+ |.+++|+|+|+ .+.||+...+
T Consensus 495 --g~i~vlV~t--~~L~rGfdlp~--v~lVii~d~e 524 (652)
T PRK05298 495 --GEFDVLVGI--NLLREGLDIPE--VSLVAILDAD 524 (652)
T ss_pred --CCceEEEEe--CHHhCCccccC--CcEEEEeCCc
Confidence 345678777 99999999998 5688888765
No 185
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=88.10 E-value=0.88 Score=50.63 Aligned_cols=85 Identities=16% Similarity=0.218 Sum_probs=56.0
Q ss_pred HhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEE
Q 004379 511 IARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFA 590 (758)
Q Consensus 511 ~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~ 590 (758)
++..-||.++||++|.+...+++..++...-. ...+-..+ . |++ .-.-+++|++ ...+||+|
T Consensus 458 fl~ryPGrTlVF~NsId~vKRLt~~L~~L~i~-p~~LHA~M------~--QKq---RLknLEkF~~------~~~~VLia 519 (731)
T KOG0347|consen 458 FLTRYPGRTLVFCNSIDCVKRLTVLLNNLDIP-PLPLHASM------I--QKQ---RLKNLEKFKQ------SPSGVLIA 519 (731)
T ss_pred EEeecCCceEEEechHHHHHHHHHHHhhcCCC-CchhhHHH------H--HHH---HHHhHHHHhc------CCCeEEEe
Confidence 44457999999999999999999888754211 00110110 0 111 2234677776 56899999
Q ss_pred EecCccccccccCCCCceEEEEEccCC
Q 004379 591 VCRGKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 591 v~~g~~~EGiD~~~~~~r~vii~glPf 617 (758)
+ .-.+.|+|+|| ...||=.-+|-
T Consensus 520 T--DVAARGLDIp~--V~HVIHYqVPr 542 (731)
T KOG0347|consen 520 T--DVAARGLDIPG--VQHVIHYQVPR 542 (731)
T ss_pred e--hhhhccCCCCC--cceEEEeecCC
Confidence 9 78899999999 45666655553
No 186
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=88.09 E-value=0.68 Score=41.95 Aligned_cols=30 Identities=27% Similarity=0.309 Sum_probs=19.5
Q ss_pred HHHHHHHHHHhcC---CceE--EeccCCCchHHHH
Q 004379 23 VYMEKVIQSLQNK---CNAL--LESPTGTGKTLCL 52 (758)
Q Consensus 23 ~~~~~i~~al~~~---~~~l--iEAPTGTGKTlay 52 (758)
.++.+|..-+.+. |+++ +.+|||||||...
T Consensus 36 ~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~ 70 (127)
T PF06309_consen 36 VVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVS 70 (127)
T ss_pred HHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHH
Confidence 4444444444443 5555 8999999999843
No 187
>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=87.76 E-value=1.1 Score=49.06 Aligned_cols=34 Identities=26% Similarity=0.511 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHh--cCCceEEeccCCCchHHHH
Q 004379 19 DCQLVYMEKVIQSLQ--NKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~--~~~~~liEAPTGTGKTlay 52 (758)
+.|++..+.|.+++. ++.++++-+|-|||||..+
T Consensus 4 ~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~ 39 (364)
T PF05970_consen 4 EEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLI 39 (364)
T ss_pred HHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHH
Confidence 679999999999884 5577899999999999944
No 188
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=87.69 E-value=0.6 Score=46.27 Aligned_cols=35 Identities=26% Similarity=0.188 Sum_probs=27.6
Q ss_pred CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHH
Q 004379 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLC 51 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTla 51 (758)
-=.+|.+.-.++.-|...+.++++.+|.|||||+.
T Consensus 4 dI~GQe~aKrAL~iAAaG~h~lLl~GppGtGKTml 38 (206)
T PF01078_consen 4 DIVGQEEAKRALEIAAAGGHHLLLIGPPGTGKTML 38 (206)
T ss_dssp CSSSTHHHHHHHHHHHHCC--EEEES-CCCTHHHH
T ss_pred hhcCcHHHHHHHHHHHcCCCCeEEECCCCCCHHHH
Confidence 33578888888888888999999999999999993
No 189
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=87.66 E-value=2.4 Score=43.39 Aligned_cols=75 Identities=17% Similarity=0.162 Sum_probs=50.5
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCC
Q 004379 12 EFPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (758)
Q Consensus 12 ~Fpf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (758)
.++|+ |-..|...+-.| -.|+.++..|..|||||.+|-|+.|.-..-.
T Consensus 44 ~yGfekPS~IQqrAi~~I----lkGrdViaQaqSGTGKTa~~si~vlq~~d~~--------------------------- 92 (400)
T KOG0328|consen 44 AYGFEKPSAIQQRAIPQI----LKGRDVIAQAQSGTGKTATFSISVLQSLDIS--------------------------- 92 (400)
T ss_pred HhccCCchHHHhhhhhhh----hcccceEEEecCCCCceEEEEeeeeeecccc---------------------------
Confidence 36776 556677655444 4678899999999999999988866321110
Q ss_pred CCCCCeEEEeCCccchHHHHHHHhhcCC
Q 004379 91 DSKLPTILYTSRTHSQLRQVIQELKTSN 118 (758)
Q Consensus 91 ~~~~~kIi~~trT~sql~Q~i~eLkkl~ 118 (758)
....++.+.|+|..+..|+-+-+..++
T Consensus 93 -~r~tQ~lilsPTRELa~Qi~~vi~alg 119 (400)
T KOG0328|consen 93 -VRETQALILSPTRELAVQIQKVILALG 119 (400)
T ss_pred -cceeeEEEecChHHHHHHHHHHHHHhc
Confidence 122468889999888777655444443
No 190
>KOG4284 consensus DEAD box protein [Transcription]
Probab=87.47 E-value=0.62 Score=52.66 Aligned_cols=82 Identities=21% Similarity=0.210 Sum_probs=54.0
Q ss_pred eeecCCCCCCHHHHHHHHHHHHHHhcC-------------------CceEEeccCCCchHHHHHHHHHHHHHhhCCCccc
Q 004379 9 IDVEFPFEAYDCQLVYMEKVIQSLQNK-------------------CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTL 69 (758)
Q Consensus 9 i~~~Fpf~~r~~Q~~~~~~i~~al~~~-------------------~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~ 69 (758)
++|.-.-.+-..|..+-..|...|+.+ --+|+.|-.|||||+.|-+.|+.-...+
T Consensus 17 ~DV~~~~~~~fe~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~------ 90 (980)
T KOG4284|consen 17 IDVQSNCTPGFEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSR------ 90 (980)
T ss_pred cccccCCCCCHHHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcc------
Confidence 344444445667887777777777632 2489999999999999887776422211
Q ss_pred ccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHHHHhhcCC
Q 004379 70 GSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELKTSN 118 (758)
Q Consensus 70 ~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~eLkkl~ 118 (758)
...+.+++.|+|....-|+-+-++++.
T Consensus 91 ----------------------~~~~q~~Iv~PTREiaVQI~~tv~~v~ 117 (980)
T KOG4284|consen 91 ----------------------SSHIQKVIVTPTREIAVQIKETVRKVA 117 (980)
T ss_pred ----------------------cCcceeEEEecchhhhhHHHHHHHHhc
Confidence 123567778888777666655555543
No 191
>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=87.43 E-value=0.94 Score=56.78 Aligned_cols=33 Identities=18% Similarity=0.369 Sum_probs=28.5
Q ss_pred HHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 26 EKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 26 ~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
.+|.++|.+++.+++.||||+|||- .+|.+.+.
T Consensus 73 ~~Il~~l~~~~vvii~g~TGSGKTT--qlPq~lle 105 (1283)
T TIGR01967 73 EDIAEAIAENQVVIIAGETGSGKTT--QLPKICLE 105 (1283)
T ss_pred HHHHHHHHhCceEEEeCCCCCCcHH--HHHHHHHH
Confidence 7888999999999999999999999 56866543
No 192
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=87.42 E-value=2.7 Score=44.28 Aligned_cols=47 Identities=21% Similarity=0.243 Sum_probs=41.3
Q ss_pred CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCC
Q 004379 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGS 65 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~ 65 (758)
-++|+..++.+...+++.+..++-|=||.|||= .+.+++.++...+.
T Consensus 99 s~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTE-Mif~~i~~al~~G~ 145 (441)
T COG4098 99 SPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTE-MIFQGIEQALNQGG 145 (441)
T ss_pred ChhHHHHHHHHHHHHHhcCcEEEEEecCCCchh-hhHHHHHHHHhcCC
Confidence 478999999999999999999999999999997 45688888776653
No 193
>PRK08939 primosomal protein DnaI; Reviewed
Probab=87.35 E-value=1.5 Score=46.65 Aligned_cols=39 Identities=23% Similarity=0.207 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHh------cCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 20 CQLVYMEKVIQSLQ------NKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 20 ~Q~~~~~~i~~al~------~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
.+..++..+.+-+. .++.+++-+|+|||||. |+.|++..
T Consensus 135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKTh--La~Aia~~ 179 (306)
T PRK08939 135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSY--LLAAIANE 179 (306)
T ss_pred HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHH--HHHHHHHH
Confidence 45555555544444 34679999999999998 66667543
No 194
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=87.19 E-value=1.1 Score=51.58 Aligned_cols=69 Identities=25% Similarity=0.293 Sum_probs=52.0
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCC
Q 004379 12 EFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (758)
Q Consensus 12 ~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (758)
.|||+.-|-|..- ..+++++..+++-|-|-.|||..+=++ ++-+.+.+
T Consensus 125 ~YPF~LDpFQ~~a----I~Cidr~eSVLVSAHTSAGKTVVAeYA-IA~sLr~k--------------------------- 172 (1041)
T KOG0948|consen 125 TYPFTLDPFQSTA----IKCIDRGESVLVSAHTSAGKTVVAEYA-IAMSLREK--------------------------- 172 (1041)
T ss_pred CCCcccCchHhhh----hhhhcCCceEEEEeecCCCcchHHHHH-HHHHHHhc---------------------------
Confidence 3677766777654 467899999999999999999977654 44333322
Q ss_pred CCCCeEEEeCCccchHHHHHHHhh
Q 004379 92 SKLPTILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 92 ~~~~kIi~~trT~sql~Q~i~eLk 115 (758)
.+|||+|+.+++-+|=.+||.
T Consensus 173 ---QRVIYTSPIKALSNQKYREl~ 193 (1041)
T KOG0948|consen 173 ---QRVIYTSPIKALSNQKYRELL 193 (1041)
T ss_pred ---CeEEeeChhhhhcchhHHHHH
Confidence 489999999999887666554
No 195
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=87.04 E-value=0.74 Score=49.75 Aligned_cols=34 Identities=24% Similarity=0.396 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhcCC--ceEEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC--NALLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~--~~liEAPTGTGKTlayL 53 (758)
+|.+..+.+..++..+. ++++.+|+|||||....
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~ 54 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVR 54 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHH
Confidence 67888888888898887 89999999999998543
No 196
>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=87.00 E-value=0.91 Score=48.37 Aligned_cols=34 Identities=15% Similarity=0.240 Sum_probs=27.3
Q ss_pred HHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 23 ~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
+....|..+|..++++++++|+|||||. |+-.++
T Consensus 52 ~~~~~vl~~l~~~~~ilL~G~pGtGKTt--la~~lA 85 (327)
T TIGR01650 52 ATTKAICAGFAYDRRVMVQGYHGTGKST--HIEQIA 85 (327)
T ss_pred HHHHHHHHHHhcCCcEEEEeCCCChHHH--HHHHHH
Confidence 3455688889889999999999999998 444554
No 197
>PRK09183 transposase/IS protein; Provisional
Probab=86.97 E-value=0.96 Score=46.99 Aligned_cols=27 Identities=33% Similarity=0.598 Sum_probs=21.6
Q ss_pred HhcCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 32 LQNKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 32 l~~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
+.++.++++-+|+|||||. |..+|...
T Consensus 99 i~~~~~v~l~Gp~GtGKTh--La~al~~~ 125 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTH--LAIALGYE 125 (259)
T ss_pred hhcCCeEEEEeCCCCCHHH--HHHHHHHH
Confidence 6788999999999999997 55555443
No 198
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=86.90 E-value=0.89 Score=48.70 Aligned_cols=33 Identities=30% Similarity=0.443 Sum_probs=24.8
Q ss_pred HHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 24 YMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 24 ~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
+++.+..++..++++++-+|||+|||- +| -||.
T Consensus 137 ~~~~L~~~v~~~~~ilI~G~tGSGKTT-ll-~aL~ 169 (319)
T PRK13894 137 QREAIIAAVRAHRNILVIGGTGSGKTT-LV-NAII 169 (319)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHH-HH-HHHH
Confidence 445566677888999999999999993 33 4443
No 199
>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=86.70 E-value=4.3 Score=48.30 Aligned_cols=98 Identities=9% Similarity=0.104 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHHh----hhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCC----------
Q 004379 500 YKQELGNTIVNIA----RIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSS---------- 565 (758)
Q Consensus 500 ~~~~l~~~i~~~~----~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~---------- 565 (758)
.++.+++.|.+.. ...+++++|+..|.......++.+.+..+.. .....+++......
T Consensus 494 ~~~~ia~~i~~h~~~~~~~~~~kamvv~~sr~~a~~~~~~l~~~~~~~--------~~~~~vv~s~~~~~~~~~~~~~~~ 565 (667)
T TIGR00348 494 RLESIAKDIAEHYAKFKELFKFKAMVVAISRYACVEEKNALDEELNEK--------FEASAIVMTGKESDDAEIRDYNKH 565 (667)
T ss_pred HHHHHHHHHHHHHHHhhhcccCceeEEEecHHHHHHHHHHHHhhcccc--------cCCeeEEecCCccchhHHHHHHHH
Confidence 3455555555443 2224789999999998888877765432210 00001111111110
Q ss_pred ------------ChHHHHHHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEc
Q 004379 566 ------------LFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITG 614 (758)
Q Consensus 566 ------------~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~g 614 (758)
....++++|+. . +.--||+.| +.+.+|+|.|. +.++++.+
T Consensus 566 ~~~~~~~~~~~~~~~~~~~~Fk~----~-~~~~ilIVv--dmllTGFDaP~--l~tLyldK 617 (667)
T TIGR00348 566 IRTKFDKSDGFEIYYKDLERFKK----E-ENPKLLIVV--DMLLTGFDAPI--LNTLYLDK 617 (667)
T ss_pred hccccccchhhhHHHHHHHHhcC----C-CCceEEEEE--cccccccCCCc--cceEEEec
Confidence 11245555543 1 345788888 89999999998 77888887
No 200
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=86.68 E-value=0.92 Score=49.55 Aligned_cols=39 Identities=21% Similarity=0.345 Sum_probs=28.1
Q ss_pred CCCHHHHHHHHHHHHHH-hcC--CceEEeccCCCchHHHHHH
Q 004379 16 EAYDCQLVYMEKVIQSL-QNK--CNALLESPTGTGKTLCLLC 54 (758)
Q Consensus 16 ~~r~~Q~~~~~~i~~al-~~~--~~~liEAPTGTGKTlayL~ 54 (758)
+-|+.|.+-+..+.... .++ .++++-+|||||||.....
T Consensus 20 ~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~ 61 (366)
T COG1474 20 PHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKF 61 (366)
T ss_pred cccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHH
Confidence 34888887665555554 444 5599999999999997653
No 201
>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=86.59 E-value=0.81 Score=50.27 Aligned_cols=38 Identities=37% Similarity=0.370 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhcC----------------CceEEeccCCCchHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK----------------CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~----------------~~~liEAPTGTGKTlayL~pal~ 58 (758)
-+|.+....+.-|+.++ +++++.+|||+|||. |+-+|+
T Consensus 15 iGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~--lAraLA 68 (441)
T TIGR00390 15 IGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTE--IARRLA 68 (441)
T ss_pred cCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHH--HHHHHH
Confidence 57888888888888753 689999999999998 656665
No 202
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=86.44 E-value=1.3 Score=53.68 Aligned_cols=46 Identities=22% Similarity=0.210 Sum_probs=31.1
Q ss_pred hhhcCccEEEecCccccChh--hhhccC----CCccccEEEEeCCcchHHHH
Q 004379 205 ELQKTVDIVFAPYNYLIDPW--FRKGLG----VEWKNSILIFDEAHNLEGIC 250 (758)
Q Consensus 205 ~~~~~AdIIv~ny~yLl~~~--~~~~~~----i~~~~~ilIiDEAHnL~d~~ 250 (758)
+.+-.|+|+|++=..++-.. .++... ...-+++|||||.|-.....
T Consensus 558 ~rll~apv~V~TIDQlL~a~~~~r~~~~~l~ll~La~svlVlDEVHaYD~~~ 609 (1110)
T TIGR02562 558 KTLLAAPVLVCTIDHLIPATESHRGGHHIAPMLRLMSSDLILDEPDDYEPED 609 (1110)
T ss_pred hhhhcCCeEEecHHHHHHHhhhcccchhHHHHHHhcCCCEEEECCccCCHHH
Confidence 34557899999988766443 332211 23467899999999887654
No 203
>PRK06921 hypothetical protein; Provisional
Probab=86.22 E-value=2.1 Score=44.72 Aligned_cols=23 Identities=35% Similarity=0.371 Sum_probs=18.0
Q ss_pred cCCceEEeccCCCchHHHHHHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
.+..+++-+|||||||. |+-|++
T Consensus 116 ~~~~l~l~G~~G~GKTh--La~aia 138 (266)
T PRK06921 116 RKNSIALLGQPGSGKTH--LLTAAA 138 (266)
T ss_pred CCCeEEEECCCCCcHHH--HHHHHH
Confidence 35779999999999998 444554
No 204
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=85.88 E-value=2 Score=51.94 Aligned_cols=52 Identities=25% Similarity=0.310 Sum_probs=38.1
Q ss_pred eeeEcCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 3 TYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 3 ~~~i~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
+....|-++.|...||+.|+-=.-. |- +--|.|+.||=||||+.-.|+..-+
T Consensus 156 ~w~~~g~~~~W~m~~yDVQliGgiv----Lh--~G~IAEM~TGEGKTLvAtlp~yLnA 207 (1112)
T PRK12901 156 HWDAGGNEITWDMVHYDVQLIGGVV----LH--QGKIAEMATGEGKTLVATLPVYLNA 207 (1112)
T ss_pred ccccccccccCCCcccchHHhhhhh----hc--CCceeeecCCCCchhHHHHHHHHHH
Confidence 3456788888999999999653322 22 3347999999999999988866543
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=85.47 E-value=1.7 Score=42.25 Aligned_cols=20 Identities=40% Similarity=0.398 Sum_probs=15.3
Q ss_pred eEEeccCCCchHHHHHHHHH
Q 004379 38 ALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 38 ~liEAPTGTGKTlayL~pal 57 (758)
.++.+|+|||||.-.+--+.
T Consensus 2 ~li~G~~G~GKT~l~~~~~~ 21 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLY 21 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 68999999999995543333
No 206
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=85.40 E-value=5.1 Score=49.51 Aligned_cols=85 Identities=12% Similarity=0.080 Sum_probs=51.0
Q ss_pred hcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCC-CChHHHHHHHHHHhccCCCCCeEEEEEe
Q 004379 514 IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTSTSGAVFFAVC 592 (758)
Q Consensus 514 ~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~-~~~~~~i~~~~~~i~~~~~~~~vL~~v~ 592 (758)
..+..+|||...-.+|+.+...+..... +...+.+..+ .+..+.++.|.+. ....-.+|+++
T Consensus 485 ~~g~KVLIFSQft~~LdiLed~L~~~g~-------------~y~rIdGsts~~eRq~~Id~Fn~~---~s~~~VfLLST- 547 (1033)
T PLN03142 485 ERDSRVLIFSQMTRLLDILEDYLMYRGY-------------QYCRIDGNTGGEDRDASIDAFNKP---GSEKFVFLLST- 547 (1033)
T ss_pred hcCCeEEeehhHHHHHHHHHHHHHHcCC-------------cEEEECCCCCHHHHHHHHHHhccc---cCCceEEEEec-
Confidence 3455677776666666666655543211 1223333222 3567788888641 11112455665
Q ss_pred cCccccccccCCCCceEEEEEccCCC
Q 004379 593 RGKVSEGLDFADHAGRAVVITGMPFA 618 (758)
Q Consensus 593 ~g~~~EGiD~~~~~~r~vii~glPfp 618 (758)
....+|||+.. +..||+.-+|+-
T Consensus 548 -rAGGlGINLt~--Ad~VIiyD~dWN 570 (1033)
T PLN03142 548 -RAGGLGINLAT--ADIVILYDSDWN 570 (1033)
T ss_pred -cccccCCchhh--CCEEEEeCCCCC
Confidence 68899999987 789999988873
No 207
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=85.34 E-value=0.81 Score=44.41 Aligned_cols=42 Identities=26% Similarity=0.396 Sum_probs=24.5
Q ss_pred CCCCHHHHHHHHHHHHHHhc--CCceEEeccCCCchHHHHHHHHHH
Q 004379 15 FEAYDCQLVYMEKVIQSLQN--KCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~--~~~~liEAPTGTGKTlayL~pal~ 58 (758)
|--|+.|.+.+....++..+ +..+++.+|.|+|||. |+-++.
T Consensus 2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~--ll~~~~ 45 (185)
T PF13191_consen 2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTS--LLRALL 45 (185)
T ss_dssp -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHH--HHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHH--HHHHHH
Confidence 44577777777666653333 3779999999999998 444443
No 208
>COG4889 Predicted helicase [General function prediction only]
Probab=85.23 E-value=0.51 Score=55.07 Aligned_cols=44 Identities=27% Similarity=0.343 Sum_probs=28.3
Q ss_pred hhhhcCccEEEecCccccChhhhhccCCCccccEEEEeCCcchHH
Q 004379 204 RELQKTVDIVFAPYNYLIDPWFRKGLGVEWKNSILIFDEAHNLEG 248 (758)
Q Consensus 204 r~~~~~AdIIv~ny~yLl~~~~~~~~~i~~~~~ilIiDEAHnL~d 248 (758)
|+.+..--||+++|+-+..-.-.+..+ .++.+.+|-||||.--.
T Consensus 275 ~~k~~~~~vvFsTYQSl~~i~eAQe~G-~~~fDliicDEAHRTtG 318 (1518)
T COG4889 275 RQKANGLTVVFSTYQSLPRIKEAQEAG-LDEFDLIICDEAHRTTG 318 (1518)
T ss_pred hhccCCcEEEEEcccchHHHHHHHHcC-CCCccEEEecchhcccc
Confidence 345556668999998764222122333 34778999999997544
No 209
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=85.11 E-value=1.3 Score=47.81 Aligned_cols=34 Identities=24% Similarity=0.214 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHH
Q 004379 22 LVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 22 ~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal 57 (758)
.+++.-+..++..++++++-+|||+|||- |.-||
T Consensus 147 ~~~~~~L~~~v~~~~nili~G~tgSGKTT--ll~aL 180 (332)
T PRK13900 147 KKIKEFLEHAVISKKNIIISGGTSTGKTT--FTNAA 180 (332)
T ss_pred HHHHHHHHHHHHcCCcEEEECCCCCCHHH--HHHHH
Confidence 35666777788899999999999999998 33445
No 210
>PLN03025 replication factor C subunit; Provisional
Probab=84.89 E-value=1.1 Score=48.24 Aligned_cols=34 Identities=26% Similarity=0.344 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL 53 (758)
+|.+.+..+...+.++ .|+++.+|+|||||-.+.
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~ 52 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSIL 52 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHH
Confidence 6888888887777766 579999999999997554
No 211
>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=84.88 E-value=0.72 Score=41.82 Aligned_cols=19 Identities=32% Similarity=0.354 Sum_probs=16.0
Q ss_pred CCceEEeccCCCchHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL 53 (758)
+.++++-+|+|||||....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~ 20 (148)
T smart00382 2 GEVILIVGPPGSGKTTLAR 20 (148)
T ss_pred CCEEEEECCCCCcHHHHHH
Confidence 4678999999999999443
No 212
>PRK12377 putative replication protein; Provisional
Probab=84.83 E-value=2.2 Score=43.95 Aligned_cols=38 Identities=26% Similarity=0.382 Sum_probs=25.2
Q ss_pred HHHHHHHHH---HHHHHhcC-CceEEeccCCCchHHHHHHHHHH
Q 004379 19 DCQLVYMEK---VIQSLQNK-CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 19 ~~Q~~~~~~---i~~al~~~-~~~liEAPTGTGKTlayL~pal~ 58 (758)
++|..++.. +.+.+..+ ..+++-+|+|||||. |+.|++
T Consensus 81 ~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKTh--La~AIa 122 (248)
T PRK12377 81 DGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNH--LAAAIG 122 (248)
T ss_pred hhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHH--HHHHHH
Confidence 567654443 33444333 678999999999998 555555
No 213
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=84.82 E-value=0.54 Score=48.71 Aligned_cols=41 Identities=24% Similarity=0.216 Sum_probs=30.8
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 14 PFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 14 pf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
+|+ |-|.|.+-+-- | -.|+.++.-|-.|||||.||.+|.|.
T Consensus 104 G~ekPSPiQeesIPi---a-LtGrdiLaRaKNGTGKT~a~~IP~Le 145 (459)
T KOG0326|consen 104 GFEKPSPIQEESIPI---A-LTGRDILARAKNGTGKTAAYCIPVLE 145 (459)
T ss_pred ccCCCCCccccccce---e-ecchhhhhhccCCCCCccceechhhh
Confidence 455 56777664332 2 25678899999999999999999985
No 214
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=84.75 E-value=1.1 Score=43.19 Aligned_cols=30 Identities=27% Similarity=0.323 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHhcCCceEEeccCCCchHH
Q 004379 21 QLVYMEKVIQSLQNKCNALLESPTGTGKTL 50 (758)
Q Consensus 21 Q~~~~~~i~~al~~~~~~liEAPTGTGKTl 50 (758)
=+++++.+.++.....+++|++++||||++
T Consensus 8 m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~ 37 (168)
T PF00158_consen 8 MKRLREQAKRAASSDLPVLITGETGTGKEL 37 (168)
T ss_dssp HHHHHHHHHHHTTSTS-EEEECSTTSSHHH
T ss_pred HHHHHHHHHHHhCCCCCEEEEcCCCCcHHH
Confidence 355667777777788999999999999998
No 215
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=84.71 E-value=1.1 Score=49.92 Aligned_cols=35 Identities=34% Similarity=0.592 Sum_probs=27.4
Q ss_pred HHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHH
Q 004379 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 23 ~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
+..+.+..++..++++++.+|+|||||... -.++.
T Consensus 182 ~~le~l~~~L~~~~~iil~GppGtGKT~lA--~~la~ 216 (459)
T PRK11331 182 TTIETILKRLTIKKNIILQGPPGVGKTFVA--RRLAY 216 (459)
T ss_pred HHHHHHHHHHhcCCCEEEECCCCCCHHHHH--HHHHH
Confidence 345677888889999999999999999743 45543
No 216
>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=84.62 E-value=1.2 Score=49.35 Aligned_cols=38 Identities=42% Similarity=0.394 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHh-------c-------------CCceEEeccCCCchHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQ-------N-------------KCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~-------~-------------~~~~liEAPTGTGKTlayL~pal~ 58 (758)
-+|.+..+.+..|+. . +.++++.+|||+|||. |+-+|+
T Consensus 80 iGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~--lAraLA 137 (413)
T TIGR00382 80 IGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTL--LAQTLA 137 (413)
T ss_pred cCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHH--HHHHHH
Confidence 478888887776661 1 2579999999999999 666665
No 217
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=84.60 E-value=1.3 Score=47.47 Aligned_cols=33 Identities=21% Similarity=0.384 Sum_probs=25.2
Q ss_pred HHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 24 YMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 24 ~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
++..+..++..++++++-+|||+|||- |.-||.
T Consensus 133 ~~~~L~~~v~~~~nilI~G~tGSGKTT--ll~aL~ 165 (323)
T PRK13833 133 QASVIRSAIDSRLNIVISGGTGSGKTT--LANAVI 165 (323)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHH--HHHHHH
Confidence 345566777888999999999999997 334453
No 218
>PRK06526 transposase; Provisional
Probab=84.53 E-value=1.1 Score=46.49 Aligned_cols=28 Identities=36% Similarity=0.457 Sum_probs=21.6
Q ss_pred HHHhcCCceEEeccCCCchHHHHHHHHHHH
Q 004379 30 QSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 30 ~al~~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
+-+.++.++++-+|+|||||. |+-+|+.
T Consensus 93 ~fi~~~~nlll~Gp~GtGKTh--La~al~~ 120 (254)
T PRK06526 93 DFVTGKENVVFLGPPGTGKTH--LAIGLGI 120 (254)
T ss_pred chhhcCceEEEEeCCCCchHH--HHHHHHH
Confidence 345677899999999999998 5555643
No 219
>PRK07952 DNA replication protein DnaC; Validated
Probab=84.39 E-value=2.6 Score=43.26 Aligned_cols=38 Identities=24% Similarity=0.383 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHh---cC-CceEEeccCCCchHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQ---NK-CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~---~~-~~~liEAPTGTGKTlayL~pal~ 58 (758)
+.|......+.+..+ ++ ..+++-+|+|||||. |+.|++
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKTh--La~aia 120 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNH--LAAAIC 120 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHH--HHHHHH
Confidence 467655555554443 22 478999999999998 555554
No 220
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=84.36 E-value=0.92 Score=50.49 Aligned_cols=84 Identities=21% Similarity=0.227 Sum_probs=49.9
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 14 PFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 14 pf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
+|. |.+.|.-.+- .|+..+.-++--|.||+||||||=+|-++-..+.... ..+.. ....
T Consensus 200 gFs~Pt~IQsl~lp---~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~--------------s~e~~---~~~~ 259 (731)
T KOG0347|consen 200 GFSRPTEIQSLVLP---AAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDD--------------SQELS---NTSA 259 (731)
T ss_pred CCCCCccchhhccc---HhhccchhcccccccCCCceeeecchhhhhhhhccch--------------Hhhhh---hHHh
Confidence 453 5666654332 3344446688889999999999999988632221110 00000 0011
Q ss_pred CCCe--EEEeCCccchHHHHHHHhhcC
Q 004379 93 KLPT--ILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 93 ~~~k--Ii~~trT~sql~Q~i~eLkkl 117 (758)
..|+ -.+.|+|..+.-|+.+-|+.+
T Consensus 260 k~~k~~~LV~tPTRELa~QV~~Hl~ai 286 (731)
T KOG0347|consen 260 KYVKPIALVVTPTRELAHQVKQHLKAI 286 (731)
T ss_pred ccCcceeEEecChHHHHHHHHHHHHHh
Confidence 2233 778899999988887766543
No 221
>PRK08116 hypothetical protein; Validated
Probab=84.11 E-value=3.2 Score=43.34 Aligned_cols=21 Identities=48% Similarity=0.526 Sum_probs=16.9
Q ss_pred ceEEeccCCCchHHHHHHHHHHH
Q 004379 37 NALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 37 ~~liEAPTGTGKTlayL~pal~~ 59 (758)
.+++-+|+|||||. |+.|++.
T Consensus 116 gl~l~G~~GtGKTh--La~aia~ 136 (268)
T PRK08116 116 GLLLWGSVGTGKTY--LAACIAN 136 (268)
T ss_pred eEEEECCCCCCHHH--HHHHHHH
Confidence 48999999999998 6556653
No 222
>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=84.11 E-value=2.3 Score=44.12 Aligned_cols=43 Identities=28% Similarity=0.274 Sum_probs=29.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHH
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRK 61 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~ 61 (758)
+.+.||+.|.--+-.+ .+| -++|.-||=|||+..-+||...+.
T Consensus 74 ~g~~p~~vQll~~l~L----~~G--~laEm~TGEGKTli~~l~a~~~AL 116 (266)
T PF07517_consen 74 LGLRPYDVQLLGALAL----HKG--RLAEMKTGEGKTLIAALPAALNAL 116 (266)
T ss_dssp TS----HHHHHHHHHH----HTT--SEEEESTTSHHHHHHHHHHHHHHT
T ss_pred cCCcccHHHHhhhhhc----ccc--eeEEecCCCCcHHHHHHHHHHHHH
Confidence 5677888887655433 333 399999999999999888876554
No 223
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=83.65 E-value=1.4 Score=47.56 Aligned_cols=34 Identities=29% Similarity=0.352 Sum_probs=26.9
Q ss_pred HHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 23 ~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
+++.-+..+...++++++-+|||+|||- |+-||.
T Consensus 150 ~~~~~l~~~v~~~~nilI~G~tGSGKTT--ll~aLl 183 (344)
T PRK13851 150 DLEAFLHACVVGRLTMLLCGPTGSGKTT--MSKTLI 183 (344)
T ss_pred HHHHHHHHHHHcCCeEEEECCCCccHHH--HHHHHH
Confidence 3556677778889999999999999998 445554
No 224
>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=83.54 E-value=1.5 Score=46.47 Aligned_cols=28 Identities=25% Similarity=0.304 Sum_probs=23.5
Q ss_pred HHHHHHHHHhcCCceEEeccCCCchHHH
Q 004379 24 YMEKVIQSLQNKCNALLESPTGTGKTLC 51 (758)
Q Consensus 24 ~~~~i~~al~~~~~~liEAPTGTGKTla 51 (758)
++..+..++..++++++-+|||+|||-.
T Consensus 121 ~~~~L~~~v~~~~~ilI~G~tGSGKTTl 148 (299)
T TIGR02782 121 QRDVLREAVLARKNILVVGGTGSGKTTL 148 (299)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHHH
Confidence 4556777788889999999999999983
No 225
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=83.49 E-value=0.67 Score=48.43 Aligned_cols=22 Identities=55% Similarity=0.798 Sum_probs=19.6
Q ss_pred CCceEEeccCCCchHHHHHHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal~ 58 (758)
++.+++.+|+|||||- ||-||+
T Consensus 177 NRliLlhGPPGTGKTS--LCKaLa 198 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTS--LCKALA 198 (423)
T ss_pred eeEEEEeCCCCCChhH--HHHHHH
Confidence 3568999999999998 999997
No 226
>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=83.35 E-value=0.65 Score=42.26 Aligned_cols=20 Identities=45% Similarity=0.552 Sum_probs=12.6
Q ss_pred ceEEeccCCCchHHHHHHHHHH
Q 004379 37 NALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 37 ~~liEAPTGTGKTlayL~pal~ 58 (758)
|+++|+++|+|||... -+++
T Consensus 1 HvLleg~PG~GKT~la--~~lA 20 (131)
T PF07726_consen 1 HVLLEGVPGVGKTTLA--KALA 20 (131)
T ss_dssp -EEEES---HHHHHHH--HHHH
T ss_pred CEeeECCCccHHHHHH--HHHH
Confidence 7899999999999944 4554
No 227
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=83.25 E-value=8 Score=44.58 Aligned_cols=140 Identities=11% Similarity=0.127 Sum_probs=86.6
Q ss_pred cEEEEecccCCC--hHhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHHhh
Q 004379 436 GSIILTSGTLSP--MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIAR 513 (758)
Q Consensus 436 ~~vil~SaTL~p--~~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~~~ 513 (758)
-.++...||=+| -......|++..+..+...+. ..|++..+++. .++ ...+. .|.+...
T Consensus 167 ~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~~sfd--RpNi~~~v~~~--------------~~~--~~q~~-fi~~~~~ 227 (590)
T COG0514 167 PPVLALTATATPRVRDDIREQLGLQDANIFRGSFD--RPNLALKVVEK--------------GEP--SDQLA-FLATVLP 227 (590)
T ss_pred CCEEEEeCCCChHHHHHHHHHhcCCCcceEEecCC--Cchhhhhhhhc--------------ccH--HHHHH-HHHhhcc
Confidence 477888888877 467888999986543333322 23332222211 011 12333 4444344
Q ss_pred hcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEe
Q 004379 514 IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVC 592 (758)
Q Consensus 514 ~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~ 592 (758)
...+..+|++.|.+.-+.+++.+...+.. -..+-.+ +..+....-+.|.. ++..|++|+
T Consensus 228 ~~~~~GIIYc~sRk~~E~ia~~L~~~g~~-------------a~~YHaGl~~~eR~~~q~~f~~------~~~~iiVAT- 287 (590)
T COG0514 228 QLSKSGIIYCLTRKKVEELAEWLRKNGIS-------------AGAYHAGLSNEERERVQQAFLN------DEIKVMVAT- 287 (590)
T ss_pred ccCCCeEEEEeeHHhHHHHHHHHHHCCCc-------------eEEecCCCCHHHHHHHHHHHhc------CCCcEEEEe-
Confidence 44566899999999999999998865211 1222222 12233333345543 567899998
Q ss_pred cCccccccccCCCCceEEEEEccCC
Q 004379 593 RGKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 593 ~g~~~EGiD~~~~~~r~vii~glPf 617 (758)
-.|.=|||=|| .|.||=..+|-
T Consensus 288 -~AFGMGIdKpd--VRfViH~~lP~ 309 (590)
T COG0514 288 -NAFGMGIDKPD--VRFVIHYDLPG 309 (590)
T ss_pred -ccccCccCCCC--ceEEEEecCCC
Confidence 69999999999 79999998884
No 228
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=83.14 E-value=4.1 Score=49.04 Aligned_cols=83 Identities=12% Similarity=0.173 Sum_probs=53.2
Q ss_pred EEEEecccCCChHhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccc-cCCHH-HHHHHHHHHHHHhhh
Q 004379 437 SIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRN-RDSIE-YKQELGNTIVNIARI 514 (758)
Q Consensus 437 ~vil~SaTL~p~~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~-r~~~~-~~~~l~~~i~~~~~~ 514 (758)
.+|.|||||.+ +-|+..+|-...+.. ..-.| ++...|.. ...+. ..+.+...+......
T Consensus 197 KiIimSATld~-~rfs~~f~~apvi~i-~GR~f-----------------PVei~Y~~~~~~d~~l~~ai~~~v~~~~~~ 257 (845)
T COG1643 197 KLIIMSATLDA-ERFSAYFGNAPVIEI-EGRTY-----------------PVEIRYLPEAEADYILLDAIVAAVDIHLRE 257 (845)
T ss_pred eEEEEecccCH-HHHHHHcCCCCEEEe-cCCcc-----------------ceEEEecCCCCcchhHHHHHHHHHHHhccC
Confidence 46999999987 456665552111111 11111 22333421 22222 567777888888877
Q ss_pred cCCcEEEEeccHHHHHHHHHHHhc
Q 004379 515 VPDGLLIFFPSYYLMDQCIACWKN 538 (758)
Q Consensus 515 ~~g~~lv~f~Sy~~l~~v~~~~~~ 538 (758)
-+|.+|||+|--+..+.+.+.+.+
T Consensus 258 ~~GdILvFLpG~~EI~~~~~~L~~ 281 (845)
T COG1643 258 GSGSILVFLPGQREIERTAEWLEK 281 (845)
T ss_pred CCCCEEEECCcHHHHHHHHHHHHh
Confidence 889999999999999999998876
No 229
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=83.08 E-value=1.8 Score=43.24 Aligned_cols=36 Identities=28% Similarity=0.429 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHH
Q 004379 22 LVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 22 ~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal 57 (758)
.+.++.+.--..+| -|+++-+|+|||||-+.+|-|=
T Consensus 33 e~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr 70 (333)
T KOG0991|consen 33 EDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLAR 70 (333)
T ss_pred HHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHH
Confidence 34555554445555 6799999999999999997654
No 230
>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=83.04 E-value=2.3 Score=50.18 Aligned_cols=56 Identities=25% Similarity=0.399 Sum_probs=40.2
Q ss_pred cCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQE 113 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~e 113 (758)
.++..++-||.|||||-+++ .|.+..-. ....+|++.|...++.+++...
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi----~wLk~~l~--------------------------~~~~~VLvVShRrSL~~sL~~r 97 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALI----RWLKDALK--------------------------NPDKSVLVVSHRRSLTKSLAER 97 (824)
T ss_pred CCCeEEEECCCCCCcHHHHH----HHHHHhcc--------------------------CCCCeEEEEEhHHHHHHHHHHH
Confidence 45778999999999999874 45555310 0123677888888899999888
Q ss_pred hhcCCC
Q 004379 114 LKTSNY 119 (758)
Q Consensus 114 Lkkl~~ 119 (758)
+++-++
T Consensus 98 f~~~~l 103 (824)
T PF02399_consen 98 FKKAGL 103 (824)
T ss_pred HhhcCC
Confidence 876544
No 231
>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=82.94 E-value=2.6 Score=49.39 Aligned_cols=39 Identities=28% Similarity=0.321 Sum_probs=33.9
Q ss_pred CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
--+|.+....+..++.+++++++-+|+|||||. |+-+++
T Consensus 20 viG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~--la~~la 58 (608)
T TIGR00764 20 VIGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSM--LAKAMA 58 (608)
T ss_pred ccCHHHHHHHHHHHHHcCCCEEEECCCCCCHHH--HHHHHH
Confidence 458999999999999999999999999999998 545554
No 232
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=82.75 E-value=4 Score=48.75 Aligned_cols=139 Identities=14% Similarity=0.117 Sum_probs=76.7
Q ss_pred hchhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHH
Q 004379 426 AMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQEL 504 (758)
Q Consensus 426 ~l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l 504 (758)
.++.++. .+..+--|+||...- ..|....|++... .| .+.-... .+.++ .-|. ...+-..++
T Consensus 353 T~QnfFr-~Y~kLsGMTGTA~te~~Ef~~iY~l~Vv~---IP----TnkP~~R--~D~~d-----~iy~--t~~~K~~Ai 415 (925)
T PRK12903 353 TYQNFFR-LFKKLSGMTGTAKTEEQEFIDIYNMRVNV---VP----TNKPVIR--KDEPD-----SIFG--TKHAKWKAV 415 (925)
T ss_pred hHHHHHH-hcchhhccCCCCHHHHHHHHHHhCCCEEE---CC----CCCCeee--eeCCC-----cEEE--cHHHHHHHH
Confidence 3444443 566788889997653 3566777775311 11 1100000 01110 1122 222334567
Q ss_pred HHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCC
Q 004379 505 GNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTS 584 (758)
Q Consensus 505 ~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~ 584 (758)
.+.|.+... .+..+||.+.|-+.-+.+...|.+.+.. .-++.-++...=.+++. ..+..
T Consensus 416 i~ei~~~~~-~gqPVLVgT~SIe~SE~ls~~L~~~gi~-------------h~vLNAk~~e~EA~IIa-------~AG~~ 474 (925)
T PRK12903 416 VKEVKRVHK-KGQPILIGTAQVEDSETLHELLLEANIP-------------HTVLNAKQNAREAEIIA-------KAGQK 474 (925)
T ss_pred HHHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHCCCC-------------ceeecccchhhHHHHHH-------hCCCC
Confidence 777776664 4567999999999999999988765211 11222121111111221 12257
Q ss_pred CeEEEEEecCccccccccCC
Q 004379 585 GAVFFAVCRGKVSEGLDFAD 604 (758)
Q Consensus 585 ~~vL~~v~~g~~~EGiD~~~ 604 (758)
|+|-+|+ .-...|.|+.-
T Consensus 475 GaVTIAT--NMAGRGTDI~L 492 (925)
T PRK12903 475 GAITIAT--NMAGRGTDIKL 492 (925)
T ss_pred CeEEEec--ccccCCcCccC
Confidence 9999999 77889999963
No 233
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=82.53 E-value=1.6 Score=47.96 Aligned_cols=38 Identities=37% Similarity=0.323 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhc----------------CCceEEeccCCCchHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQN----------------KCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~----------------~~~~liEAPTGTGKTlayL~pal~ 58 (758)
.+|.+....+..|+.+ .+++++.+|||+|||. |.-+|+
T Consensus 18 iGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~--LAr~LA 71 (443)
T PRK05201 18 IGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTE--IARRLA 71 (443)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHH--HHHHHH
Confidence 5788888888888855 3789999999999996 434443
No 234
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=82.47 E-value=1.8 Score=42.38 Aligned_cols=27 Identities=26% Similarity=0.353 Sum_probs=22.0
Q ss_pred HHHHHHHHHhcCCceEEeccCCCchHH
Q 004379 24 YMEKVIQSLQNKCNALLESPTGTGKTL 50 (758)
Q Consensus 24 ~~~~i~~al~~~~~~liEAPTGTGKTl 50 (758)
+...+..++..++.+++-+|||+|||-
T Consensus 14 ~~~~l~~~v~~g~~i~I~G~tGSGKTT 40 (186)
T cd01130 14 QAAYLWLAVEARKNILISGGTGSGKTT 40 (186)
T ss_pred HHHHHHHHHhCCCEEEEECCCCCCHHH
Confidence 444455667789999999999999997
No 235
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=82.21 E-value=3.6 Score=50.20 Aligned_cols=80 Identities=14% Similarity=0.131 Sum_probs=48.1
Q ss_pred hcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeC--CC--CCCChHHHHHHHHHHhccCCCCCeEEE
Q 004379 514 IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVE--PR--QSSLFPLAIEDYMAKLKDTSTSGAVFF 589 (758)
Q Consensus 514 ~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e--~~--~~~~~~~~i~~~~~~i~~~~~~~~vL~ 589 (758)
+...++|+||.=..+++.|.+-+-+..- ..+.+. .+ ....+.+++++|.+ ...-..+|+
T Consensus 1338 vsqHRiLIFcQlK~mlDlVekDL~k~~m-------------psVtymRLDGSVpp~~R~kiV~~FN~----DptIDvLlL 1400 (1549)
T KOG0392|consen 1338 VSQHRILIFCQLKSMLDLVEKDLFKKYM-------------PSVTYMRLDGSVPPGDRQKIVERFNE----DPTIDVLLL 1400 (1549)
T ss_pred hccceeEEeeeHHHHHHHHHHHHhhhhc-------------CceeEEEecCCCCcHHHHHHHHHhcC----CCceeEEEE
Confidence 3456899999999999999776643210 011111 11 12345667777754 323456777
Q ss_pred EEecCccccccccCCCCceEEEEEc
Q 004379 590 AVCRGKVSEGLDFADHAGRAVVITG 614 (758)
Q Consensus 590 ~v~~g~~~EGiD~~~~~~r~vii~g 614 (758)
.+--|. =|+++.| +..||.+-
T Consensus 1401 TThVGG--LGLNLTG--ADTVVFvE 1421 (1549)
T KOG0392|consen 1401 TTHVGG--LGLNLTG--ADTVVFVE 1421 (1549)
T ss_pred eeeccc--cccccCC--CceEEEEe
Confidence 765454 4888888 56777773
No 236
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=82.21 E-value=1 Score=46.96 Aligned_cols=21 Identities=67% Similarity=0.896 Sum_probs=17.9
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
.++++=+|||+|||| |.-+|+
T Consensus 98 SNILLiGPTGsGKTl--LAqTLA 118 (408)
T COG1219 98 SNILLIGPTGSGKTL--LAQTLA 118 (408)
T ss_pred ccEEEECCCCCcHHH--HHHHHH
Confidence 568899999999999 777776
No 237
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=82.14 E-value=3 Score=42.55 Aligned_cols=26 Identities=27% Similarity=0.479 Sum_probs=19.1
Q ss_pred HhcCCceEEeccCCCchHHHHHHHHHHH
Q 004379 32 LQNKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 32 l~~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
+-.|...++.+|+|+|||. |+-.+++
T Consensus 22 ~~~g~~~~i~G~~GsGKt~--l~~~~~~ 47 (234)
T PRK06067 22 IPFPSLILIEGDHGTGKSV--LSQQFVY 47 (234)
T ss_pred CcCCcEEEEECCCCCChHH--HHHHHHH
Confidence 3456789999999999998 4444443
No 238
>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=81.96 E-value=2.6 Score=43.15 Aligned_cols=22 Identities=27% Similarity=0.427 Sum_probs=17.5
Q ss_pred HhcCCceEEeccCCCchHHHHH
Q 004379 32 LQNKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 32 l~~~~~~liEAPTGTGKTlayL 53 (758)
+..|...++.+|+|+|||.-.+
T Consensus 18 ~~~gs~~lI~G~pGsGKT~la~ 39 (237)
T TIGR03877 18 IPERNVVLLSGGPGTGKSIFSQ 39 (237)
T ss_pred CcCCeEEEEEcCCCCCHHHHHH
Confidence 3456789999999999998443
No 239
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=81.94 E-value=1.9 Score=47.98 Aligned_cols=38 Identities=42% Similarity=0.423 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHh------------------cCCceEEeccCCCchHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQ------------------NKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~------------------~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
-+|.+..+.+..++. .+.++++.+|||||||. |+-+|+
T Consensus 74 iGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~--lAr~lA 129 (412)
T PRK05342 74 IGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTL--LAQTLA 129 (412)
T ss_pred eChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHH--HHHHHH
Confidence 356666666655541 23679999999999998 555665
No 240
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=81.92 E-value=2.6 Score=45.86 Aligned_cols=24 Identities=63% Similarity=0.830 Sum_probs=19.4
Q ss_pred cCCceEEeccCCCchHHHHHHHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
++.++++=+|||+|||| |.-+|+-
T Consensus 225 eKSNvLllGPtGsGKTl--laqTLAr 248 (564)
T KOG0745|consen 225 EKSNVLLLGPTGSGKTL--LAQTLAR 248 (564)
T ss_pred ecccEEEECCCCCchhH--HHHHHHH
Confidence 34678999999999999 7667753
No 241
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.88 E-value=1.7 Score=47.59 Aligned_cols=34 Identities=24% Similarity=0.164 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhcCC--c-eEEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~--~-~liEAPTGTGKTlayL 53 (758)
+|....+.+.+++..++ | .++.+|.|+|||..+.
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~ 56 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIAR 56 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHH
Confidence 89999999999998874 4 4899999999998554
No 242
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=81.59 E-value=21 Score=38.38 Aligned_cols=95 Identities=15% Similarity=0.149 Sum_probs=66.1
Q ss_pred HHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhcc
Q 004379 502 QELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKD 580 (758)
Q Consensus 502 ~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~ 580 (758)
+.+.+ |..++. -|..++|+.-.+..+.++..+...+.. --++.+. ...+++.++++|++
T Consensus 319 ~~l~~-lyg~~t--igqsiIFc~tk~ta~~l~~~m~~~Gh~-------------V~~l~G~l~~~~R~~ii~~Fr~---- 378 (477)
T KOG0332|consen 319 QALVN-LYGLLT--IGQSIIFCHTKATAMWLYEEMRAEGHQ-------------VSLLHGDLTVEQRAAIIDRFRE---- 378 (477)
T ss_pred HHHHH-HHhhhh--hhheEEEEeehhhHHHHHHHHHhcCce-------------eEEeeccchhHHHHHHHHHHhc----
Confidence 55555 444443 478999999999999999988876432 1111111 12346778999997
Q ss_pred CCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCC
Q 004379 581 TSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTD 622 (758)
Q Consensus 581 ~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~d 622 (758)
+...||+.+ .-++.|||.+- ...||=.-||--.-+.
T Consensus 379 --g~~kVLitT--nV~ARGiDv~q--Vs~VvNydlP~~~~~~ 414 (477)
T KOG0332|consen 379 --GKEKVLITT--NVCARGIDVAQ--VSVVVNYDLPVKYTGE 414 (477)
T ss_pred --CcceEEEEe--chhhcccccce--EEEEEecCCccccCCC
Confidence 567899998 89999999986 5677777777655443
No 243
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=81.40 E-value=2.5 Score=50.86 Aligned_cols=36 Identities=14% Similarity=0.317 Sum_probs=28.9
Q ss_pred HHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 23 ~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
+...+|.+++.+.+.++|.||||+|||- .+|-..+.
T Consensus 53 ~~~~~i~~ai~~~~vvii~getGsGKTT--qlP~~lle 88 (845)
T COG1643 53 AVRDEILKAIEQNQVVIIVGETGSGKTT--QLPQFLLE 88 (845)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCChHH--HHHHHHHh
Confidence 3456888999999999999999999998 45655443
No 244
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=81.26 E-value=4.3 Score=46.70 Aligned_cols=74 Identities=24% Similarity=0.223 Sum_probs=55.0
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 14 PFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 14 pf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
.|+ |.|.|...+-.+. .|+.++..|+||||||+||++|.|........ ..
T Consensus 48 gf~~pt~IQ~~~IP~~l----~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~-------------------------~~ 98 (513)
T COG0513 48 GFEEPTPIQLAAIPLIL----AGRDVLGQAQTGTGKTAAFLLPLLQKILKSVE-------------------------RK 98 (513)
T ss_pred CCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhcccc-------------------------cC
Confidence 454 7788988766654 45889999999999999999999976442111 00
Q ss_pred CCCeEEEeCCccchHHHHHHHhhcC
Q 004379 93 KLPTILYTSRTHSQLRQVIQELKTS 117 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~eLkkl 117 (758)
..+ .++.++|..+..|+.++++++
T Consensus 99 ~~~-aLil~PTRELA~Qi~~~~~~~ 122 (513)
T COG0513 99 YVS-ALILAPTRELAVQIAEELRKL 122 (513)
T ss_pred CCc-eEEECCCHHHHHHHHHHHHHH
Confidence 112 788899999999999887653
No 245
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=81.25 E-value=2.1 Score=47.79 Aligned_cols=35 Identities=31% Similarity=0.406 Sum_probs=25.5
Q ss_pred HHHHHhcC-CceEEeccCCCchHHHHHHHHHHHHHhh
Q 004379 28 VIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSL 63 (758)
Q Consensus 28 i~~al~~~-~~~liEAPTGTGKTlayL~pal~~~~~~ 63 (758)
+.+.+... +.+++-+|||+|||-. |.++|.++...
T Consensus 250 ~~~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~~ 285 (500)
T COG2804 250 LLRLLNRPQGLILVTGPTGSGKTTT-LYAALSELNTP 285 (500)
T ss_pred HHHHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcCC
Confidence 34445444 7789999999999986 55778776643
No 246
>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=81.16 E-value=2.3 Score=46.31 Aligned_cols=19 Identities=37% Similarity=0.412 Sum_probs=16.0
Q ss_pred CceEEeccCCCchHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLC 54 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~ 54 (758)
..++|+++.|||||+.++.
T Consensus 2 ~v~~I~G~aGTGKTvla~~ 20 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALN 20 (352)
T ss_pred eEEEEEecCCcCHHHHHHH
Confidence 4689999999999996653
No 247
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=81.14 E-value=13 Score=40.15 Aligned_cols=138 Identities=19% Similarity=0.224 Sum_probs=70.6
Q ss_pred cccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccC----CCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHH
Q 004379 434 EVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITS----KQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTI 508 (758)
Q Consensus 434 ~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i 508 (758)
.-+..+|.||||+.- +-+. +--++.+.+...++-|.- .|.+.+ +|. .| + +.|+-
T Consensus 234 ~erqt~LfsATMt~kv~kL~-rasl~~p~~v~~s~ky~tv~~lkQ~ylf-v~~---------k~--K--~~yLV------ 292 (476)
T KOG0330|consen 234 RERQTFLFSATMTKKVRKLQ-RASLDNPVKVAVSSKYQTVDHLKQTYLF-VPG---------KD--K--DTYLV------ 292 (476)
T ss_pred ccceEEEEEeecchhhHHHH-hhccCCCeEEeccchhcchHHhhhheEe-ccc---------cc--c--chhHH------
Confidence 457789999999762 2332 333455555555544431 243333 321 11 2 23322
Q ss_pred HHHhhhcCCc-EEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCC-CChHHHHHHHHHHhccCCCCCe
Q 004379 509 VNIARIVPDG-LLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTSTSGA 586 (758)
Q Consensus 509 ~~~~~~~~g~-~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~-~~~~~~i~~~~~~i~~~~~~~~ 586 (758)
.+++...|+ ++||+.+-.--+.+.=.++..+.. .| ++ .++-+ ...-..++.|++ +...
T Consensus 293 -~ll~e~~g~s~iVF~~t~~tt~~la~~L~~lg~~-------a~-----~L-hGqmsq~~Rlg~l~~Fk~------~~r~ 352 (476)
T KOG0330|consen 293 -YLLNELAGNSVIVFCNTCNTTRFLALLLRNLGFQ-------AI-----PL-HGQMSQSKRLGALNKFKA------GARS 352 (476)
T ss_pred -HHHHhhcCCcEEEEEeccchHHHHHHHHHhcCcc-------ee-----cc-cchhhHHHHHHHHHHHhc------cCCc
Confidence 233344455 555555544444444344433211 11 11 11111 123345677775 5679
Q ss_pred EEEEEecCccccccccCCCCceEEEEEccC
Q 004379 587 VFFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (758)
Q Consensus 587 vL~~v~~g~~~EGiD~~~~~~r~vii~glP 616 (758)
||+|+ .--|.|+|.|+ .+.||=.-+|
T Consensus 353 iLv~T--DVaSRGLDip~--Vd~VVNyDiP 378 (476)
T KOG0330|consen 353 ILVCT--DVASRGLDIPH--VDVVVNYDIP 378 (476)
T ss_pred EEEec--chhcccCCCCC--ceEEEecCCC
Confidence 99998 67889999998 4566655444
No 248
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=81.13 E-value=1.3 Score=40.89 Aligned_cols=23 Identities=48% Similarity=0.520 Sum_probs=17.0
Q ss_pred ceEEeccCCCchHHHHHHHHHHHHH
Q 004379 37 NALLESPTGTGKTLCLLCATLAWRK 61 (758)
Q Consensus 37 ~~liEAPTGTGKTlayL~pal~~~~ 61 (758)
++++.+|+|||||. |+-.+++..
T Consensus 1 ~vlL~G~~G~GKt~--l~~~la~~~ 23 (139)
T PF07728_consen 1 PVLLVGPPGTGKTT--LARELAALL 23 (139)
T ss_dssp EEEEEESSSSSHHH--HHHHHHHHH
T ss_pred CEEEECCCCCCHHH--HHHHHHHHh
Confidence 47999999999998 444555433
No 249
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=81.05 E-value=1.1 Score=48.42 Aligned_cols=44 Identities=25% Similarity=0.293 Sum_probs=35.8
Q ss_pred cCCCCCCHHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHH
Q 004379 12 EFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 12 ~Fpf~~r~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal 57 (758)
.|||.---+|.++..++..++.+. +.+++.+|+|||||. ++-++
T Consensus 13 ~~pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~--~ar~~ 58 (350)
T CHL00081 13 VFPFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKST--TIRAL 58 (350)
T ss_pred CCCHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHH--HHHHH
Confidence 578877789999999999988764 558899999999998 44444
No 250
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=80.99 E-value=2.6 Score=50.18 Aligned_cols=65 Identities=18% Similarity=0.111 Sum_probs=43.2
Q ss_pred CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhh-CCCcccccccccccCCCCCCCCCCCCCCCCCCe
Q 004379 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSL-GSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k 96 (758)
-+.|++.+.. ..++++|-|+.|||||..+..- ++|+... +. +..+
T Consensus 4 n~~Q~~av~~------~~g~~lV~AgpGSGKT~vL~~R-ia~Li~~~~v---------------------------~p~~ 49 (672)
T PRK10919 4 NPGQQQAVEF------VTGPCLVLAGAGSGKTRVITNK-IAHLIRGCGY---------------------------QARH 49 (672)
T ss_pred CHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHH-HHHHHHhcCC---------------------------CHHH
Confidence 3667765432 3578899999999999986544 6676643 21 2246
Q ss_pred EEEeCCccchHHHHHHHhhc
Q 004379 97 ILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 97 Ii~~trT~sql~Q~i~eLkk 116 (758)
|+..|=|..-.+.+-+.+.+
T Consensus 50 IL~lTFT~kAA~em~~Rl~~ 69 (672)
T PRK10919 50 IAAVTFTNKAAREMKERVAQ 69 (672)
T ss_pred eeeEechHHHHHHHHHHHHH
Confidence 88888887776665554543
No 251
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=80.91 E-value=1.5 Score=48.54 Aligned_cols=32 Identities=31% Similarity=0.306 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHH
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTL 50 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTl 50 (758)
.+|.+-=..+.-|-..|.++++.+|.|||||+
T Consensus 182 ~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTm 213 (490)
T COG0606 182 KGQEQAKRALEIAAAGGHNLLLVGPPGTGKTM 213 (490)
T ss_pred cCcHHHHHHHHHHHhcCCcEEEecCCCCchHH
Confidence 47888888888888999999999999999998
No 252
>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=80.71 E-value=1.8 Score=45.35 Aligned_cols=31 Identities=35% Similarity=0.386 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHhcCCceEEeccCCCchHHHH
Q 004379 22 LVYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 22 ~~~~~~i~~al~~~~~~liEAPTGTGKTlay 52 (758)
..+..-+...+.+++++++-+|||||||...
T Consensus 20 ~r~~~ll~~l~~~~~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 20 VRYSYLLDLLLSNGRPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp HHHHHHHHHHHHCTEEEEEESSTTSSHHHHH
T ss_pred HHHHHHHHHHHHcCCcEEEECCCCCchhHHH
Confidence 4444445555678899999999999999943
No 253
>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=80.65 E-value=2.3 Score=42.95 Aligned_cols=32 Identities=16% Similarity=0.087 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHh--cCCceEEeccCCCchHHH
Q 004379 20 CQLVYMEKVIQSLQ--NKCNALLESPTGTGKTLC 51 (758)
Q Consensus 20 ~Q~~~~~~i~~al~--~~~~~liEAPTGTGKTla 51 (758)
.+...++.+.+.+. .+.++++.+|+|||||..
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~l 54 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHL 54 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHH
Confidence 56667777776543 347799999999999983
No 254
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=80.61 E-value=3.2 Score=42.29 Aligned_cols=21 Identities=24% Similarity=0.333 Sum_probs=18.0
Q ss_pred HhcCCceEEeccCCCchHHHH
Q 004379 32 LQNKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 32 l~~~~~~liEAPTGTGKTlay 52 (758)
+..+...++.+|+|||||.-.
T Consensus 21 i~~g~~~~i~G~~G~GKTtl~ 41 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSILS 41 (230)
T ss_pred CCCCcEEEEECCCCCCHHHHH
Confidence 566788999999999999853
No 255
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=80.53 E-value=2.4 Score=45.14 Aligned_cols=34 Identities=29% Similarity=0.447 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 23 ~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
+++..+..+.....+.++-++||||||- |+-||+
T Consensus 161 ~~a~~L~~av~~r~NILisGGTGSGKTT--lLNal~ 194 (355)
T COG4962 161 RAAKFLRRAVGIRCNILISGGTGSGKTT--LLNALS 194 (355)
T ss_pred HHHHHHHHHHhhceeEEEeCCCCCCHHH--HHHHHH
Confidence 4455566666667889999999999997 545554
No 256
>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=80.35 E-value=4.2 Score=41.06 Aligned_cols=21 Identities=38% Similarity=0.520 Sum_probs=16.6
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
..+++-+|+|+|||- |+-|+.
T Consensus 35 ~~l~l~G~~G~GKTH--LL~Ai~ 55 (219)
T PF00308_consen 35 NPLFLYGPSGLGKTH--LLQAIA 55 (219)
T ss_dssp SEEEEEESTTSSHHH--HHHHHH
T ss_pred CceEEECCCCCCHHH--HHHHHH
Confidence 358999999999999 445554
No 257
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=80.09 E-value=1.3 Score=44.97 Aligned_cols=21 Identities=48% Similarity=0.740 Sum_probs=17.7
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
+++++-+|||||||+ +.-||+
T Consensus 152 knVLFyGppGTGKTm--~Akala 172 (368)
T COG1223 152 KNVLFYGPPGTGKTM--MAKALA 172 (368)
T ss_pred ceeEEECCCCccHHH--HHHHHh
Confidence 789999999999999 555664
No 258
>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=80.07 E-value=1.6 Score=49.75 Aligned_cols=23 Identities=35% Similarity=0.579 Sum_probs=21.3
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
.|+++-||||+|||.++++|.|.
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll 67 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLL 67 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHH
Confidence 58999999999999999999884
No 259
>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=80.02 E-value=2 Score=43.90 Aligned_cols=34 Identities=21% Similarity=0.128 Sum_probs=24.5
Q ss_pred HHHHHhcCCceEEeccCCCchHHHHHHHHHHHHH
Q 004379 28 VIQSLQNKCNALLESPTGTGKTLCLLCATLAWRK 61 (758)
Q Consensus 28 i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~ 61 (758)
+...|..|...+|-||||+|||.-.+--+..++.
T Consensus 6 ~~~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~ 39 (242)
T cd00984 6 LTGGLQPGDLIIIAARPSMGKTAFALNIAENIAK 39 (242)
T ss_pred hhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 3345677788999999999999865544444444
No 260
>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=79.90 E-value=6.2 Score=46.01 Aligned_cols=65 Identities=23% Similarity=0.172 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEE
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTIL 98 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi 98 (758)
+.|+.. +..++. ++..+|.+|.|||||..+-.-...+.+..+. ...++|.
T Consensus 148 ~~Qk~A---~~~al~-~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~--------------------------~~~~~I~ 197 (586)
T TIGR01447 148 NWQKVA---VALALK-SNFSLITGGPGTGKTTTVARLLLALVKQSPK--------------------------QGKLRIA 197 (586)
T ss_pred HHHHHH---HHHHhh-CCeEEEEcCCCCCHHHHHHHHHHHHHHhccc--------------------------cCCCcEE
Confidence 566653 444444 5899999999999998543222222222111 0125799
Q ss_pred EeCCccchHHHHHHH
Q 004379 99 YTSRTHSQLRQVIQE 113 (758)
Q Consensus 99 ~~trT~sql~Q~i~e 113 (758)
+++.|+.-...+-+.
T Consensus 198 l~APTGkAA~rL~e~ 212 (586)
T TIGR01447 198 LAAPTGKAAARLAES 212 (586)
T ss_pred EECCcHHHHHHHHHH
Confidence 999998876655443
No 261
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=79.86 E-value=1.1 Score=40.73 Aligned_cols=20 Identities=30% Similarity=0.537 Sum_probs=12.7
Q ss_pred hcCCceEEeccCCCchHHHH
Q 004379 33 QNKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 33 ~~~~~~liEAPTGTGKTlay 52 (758)
++++++++.+|+|+|||...
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 35688999999999999944
No 262
>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=79.81 E-value=1.7 Score=39.51 Aligned_cols=35 Identities=31% Similarity=0.337 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 22 LVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 22 ~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
+++++.+.+.+..+..++++++-|+|||- |+-+++
T Consensus 2 ~~la~~l~~~l~~g~vi~L~GdLGaGKTt--f~r~l~ 36 (123)
T PF02367_consen 2 IRLAKKLAQILKPGDVILLSGDLGAGKTT--FVRGLA 36 (123)
T ss_dssp HHHHHHHHHHHSS-EEEEEEESTTSSHHH--HHHHHH
T ss_pred HHHHHHHHHhCCCCCEEEEECCCCCCHHH--HHHHHH
Confidence 46788899999999999999999999998 666664
No 263
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=79.56 E-value=2.5 Score=39.14 Aligned_cols=30 Identities=20% Similarity=0.276 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHhcCCceEEeccCCCchHHH
Q 004379 22 LVYMEKVIQSLQNKCNALLESPTGTGKTLC 51 (758)
Q Consensus 22 ~~~~~~i~~al~~~~~~liEAPTGTGKTla 51 (758)
.++.+.+.+.-..+.++++.+++||||+..
T Consensus 8 ~~l~~~l~~~a~~~~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 8 RRLRRQLERLAKSSSPVLITGEPGTGKSLL 37 (138)
T ss_dssp HHHHHHHHHHHCSSS-EEEECCTTSSHHHH
T ss_pred HHHHHHHHHHhCCCCcEEEEcCCCCCHHHH
Confidence 445556666667779999999999999983
No 264
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=79.54 E-value=2.3 Score=47.19 Aligned_cols=35 Identities=20% Similarity=0.178 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhcC--Cc-eEEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~--~~-~liEAPTGTGKTlayL 53 (758)
-+|....+.+..++.++ .| .++.+|.|+|||..+.
T Consensus 19 iGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~ 56 (397)
T PRK14955 19 TAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAAR 56 (397)
T ss_pred cChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHH
Confidence 48999999999999987 34 7899999999998665
No 265
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=79.43 E-value=7.5 Score=45.55 Aligned_cols=37 Identities=27% Similarity=0.260 Sum_probs=25.6
Q ss_pred cCCCCC--CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHH
Q 004379 12 EFPFEA--YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 12 ~Fpf~~--r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlay 52 (758)
.||... -+.|++.+. .++. ++..+|-+|+|||||...
T Consensus 146 lf~~~~~~~d~Qk~Av~---~a~~-~~~~vItGgpGTGKTt~v 184 (615)
T PRK10875 146 LFGPVTDEVDWQKVAAA---VALT-RRISVISGGPGTGKTTTV 184 (615)
T ss_pred hcCcCCCCCHHHHHHHH---HHhc-CCeEEEEeCCCCCHHHHH
Confidence 355432 367887443 3443 578999999999999754
No 266
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=79.39 E-value=3.5 Score=49.30 Aligned_cols=138 Identities=12% Similarity=0.095 Sum_probs=77.1
Q ss_pred hchhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHH
Q 004379 426 AMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQEL 504 (758)
Q Consensus 426 ~l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l 504 (758)
.++.++. .++.+.-|+||.... +.|....|++... .|.-- |.+. .-.|+ .-|. +..+-..++
T Consensus 351 T~QnfFr-~Y~kL~GMTGTa~te~~Ef~~iY~l~vv~---IPtnk-p~~R--~d~~d--------~v~~--t~~~K~~AI 413 (870)
T CHL00122 351 TYQNFFL-LYPKLSGMTGTAKTEELEFEKIYNLEVVC---IPTHR-PMLR--KDLPD--------LIYK--DELSKWRAI 413 (870)
T ss_pred eHHHHHH-hCchhcccCCCCHHHHHHHHHHhCCCEEE---CCCCC-Cccc--eeCCC--------eEEe--CHHHHHHHH
Confidence 3444444 667889999999763 3677777775321 11111 1110 00110 0122 223334667
Q ss_pred HHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCC--CCChHHHHHHHHHHhccCC
Q 004379 505 GNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ--SSLFPLAIEDYMAKLKDTS 582 (758)
Q Consensus 505 ~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~--~~~~~~~i~~~~~~i~~~~ 582 (758)
.+.+.+..+ .+..|||-..|-+.=+.+...+.+.... .-++.-++ ...=.++++ ...
T Consensus 414 ~~ei~~~~~-~grPVLIgT~SIe~SE~ls~~L~~~gi~-------------h~vLNAk~~~~~~EA~IIA-------~AG 472 (870)
T CHL00122 414 ADECLQMHQ-TGRPILIGTTTIEKSELLSQLLKEYRLP-------------HQLLNAKPENVRRESEIVA-------QAG 472 (870)
T ss_pred HHHHHHHHh-cCCCEEEeeCCHHHHHHHHHHHHHcCCc-------------cceeeCCCccchhHHHHHH-------hcC
Confidence 777766553 5668999999999999998888765311 11222221 111112222 223
Q ss_pred CCCeEEEEEecCccccccccC
Q 004379 583 TSGAVFFAVCRGKVSEGLDFA 603 (758)
Q Consensus 583 ~~~~vL~~v~~g~~~EGiD~~ 603 (758)
..|+|-+|+ .-...|.|..
T Consensus 473 ~~G~VTIAT--NMAGRGTDI~ 491 (870)
T CHL00122 473 RKGSITIAT--NMAGRGTDII 491 (870)
T ss_pred CCCcEEEec--cccCCCcCee
Confidence 579999999 6778999973
No 267
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=79.05 E-value=3.3 Score=49.81 Aligned_cols=67 Identities=19% Similarity=0.234 Sum_probs=44.5
Q ss_pred CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCe
Q 004379 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k 96 (758)
.-+.|++.+.. ..++++|-|+.|||||..+..- ++|+..... -+..+
T Consensus 10 Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~vl~~R-ia~Li~~~~--------------------------v~p~~ 56 (721)
T PRK11773 10 LNDKQREAVAA------PLGNMLVLAGAGSGKTRVLVHR-IAWLMQVEN--------------------------ASPYS 56 (721)
T ss_pred cCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHH-HHHHHHcCC--------------------------CChhH
Confidence 34678775542 3579999999999999987655 666654221 02246
Q ss_pred EEEeCCccchHHHHHHHhhc
Q 004379 97 ILYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 97 Ii~~trT~sql~Q~i~eLkk 116 (758)
|+..|=|..-...+-+.+.+
T Consensus 57 IL~lTFT~kAA~Em~~Rl~~ 76 (721)
T PRK11773 57 IMAVTFTNKAAAEMRHRIEQ 76 (721)
T ss_pred eEeeeccHHHHHHHHHHHHH
Confidence 88888887776655554544
No 268
>PRK05973 replicative DNA helicase; Provisional
Probab=79.03 E-value=3.6 Score=42.02 Aligned_cols=30 Identities=30% Similarity=0.295 Sum_probs=22.7
Q ss_pred HHHHHHhcCCceEEeccCCCchHHHHHHHH
Q 004379 27 KVIQSLQNKCNALLESPTGTGKTLCLLCAT 56 (758)
Q Consensus 27 ~i~~al~~~~~~liEAPTGTGKTlayL~pa 56 (758)
.+...+..|...+|-|++|+|||.-.|--+
T Consensus 56 ~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa 85 (237)
T PRK05973 56 ELFSQLKPGDLVLLGARPGHGKTLLGLELA 85 (237)
T ss_pred HhcCCCCCCCEEEEEeCCCCCHHHHHHHHH
Confidence 344566677889999999999999655433
No 269
>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=78.98 E-value=1.6 Score=48.34 Aligned_cols=22 Identities=27% Similarity=0.451 Sum_probs=20.1
Q ss_pred ceEEeccCCCchHHHHHHHHHH
Q 004379 37 NALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 37 ~~liEAPTGTGKTlayL~pal~ 58 (758)
|+++-||||+|||.++++|.|.
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll 22 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLL 22 (384)
T ss_pred CeeEecCCCCCCccEEEccchh
Confidence 6789999999999999999885
No 270
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=78.85 E-value=4.7 Score=40.80 Aligned_cols=35 Identities=14% Similarity=0.128 Sum_probs=23.1
Q ss_pred HHHHHHHHHHh---cCCceEEeccCCCchHHHHHHHHHHH
Q 004379 23 VYMEKVIQSLQ---NKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 23 ~~~~~i~~al~---~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
+....+.+... .+.++++-+|+|||||- |+-+++.
T Consensus 27 ~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~--La~ai~~ 64 (227)
T PRK08903 27 ELVARLRELAAGPVADRFFYLWGEAGSGRSH--LLQALVA 64 (227)
T ss_pred HHHHHHHHHHhccCCCCeEEEECCCCCCHHH--HHHHHHH
Confidence 34444444433 34679999999999997 5445543
No 271
>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=78.85 E-value=4.6 Score=48.63 Aligned_cols=34 Identities=21% Similarity=0.211 Sum_probs=26.3
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHH
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLC 51 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTla 51 (758)
+..-+.|++.+..+. ..++..+|.+|.|||||..
T Consensus 351 ~~Ls~~Q~~Av~~i~---~s~~~~il~G~aGTGKTtl 384 (744)
T TIGR02768 351 YRLSEEQYEAVRHVT---GSGDIAVVVGRAGTGKSTM 384 (744)
T ss_pred CCCCHHHHHHHHHHh---cCCCEEEEEecCCCCHHHH
Confidence 445688999776653 4457899999999999973
No 272
>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=78.81 E-value=4.1 Score=41.15 Aligned_cols=20 Identities=30% Similarity=0.262 Sum_probs=16.0
Q ss_pred cCCceEEeccCCCchHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL 53 (758)
.|...++.+|+|+|||.-.+
T Consensus 15 ~g~~~li~G~~G~GKt~~~~ 34 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSL 34 (224)
T ss_pred CCeEEEEECCCCCCHHHHHH
Confidence 45778999999999987433
No 273
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=78.74 E-value=4.3 Score=46.13 Aligned_cols=43 Identities=7% Similarity=0.040 Sum_probs=37.0
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhc
Q 004379 496 DSIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKN 538 (758)
Q Consensus 496 ~~~~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~ 538 (758)
.++++.+...+.|.++-..-.+.+.|.++.+....++...++.
T Consensus 635 ~ne~l~qr~~~ii~~mkk~~~etiaVi~kt~~d~~~~~d~lre 677 (747)
T COG3973 635 ANEELVQRNPDIIPRMKKRGSETIAVICKTDHDCKAVMDSLRE 677 (747)
T ss_pred chHHHHHhhHHHHHHHHhcCCCceEEECCcHHHHHHHHHHHhh
Confidence 3567888888888888877778999999999999999988874
No 274
>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=78.71 E-value=6.8 Score=47.03 Aligned_cols=36 Identities=19% Similarity=0.132 Sum_probs=28.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHH
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlay 52 (758)
+++..-+.|++.+..+ .+++..++.+|.|||||...
T Consensus 320 ~~~~l~~~Q~~Ai~~~----~~~~~~iitGgpGTGKTt~l 355 (720)
T TIGR01448 320 LRKGLSEEQKQALDTA----IQHKVVILTGGPGTGKTTIT 355 (720)
T ss_pred cCCCCCHHHHHHHHHH----HhCCeEEEECCCCCCHHHHH
Confidence 4566678899977665 34679999999999999744
No 275
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=78.46 E-value=10 Score=38.62 Aligned_cols=36 Identities=22% Similarity=0.183 Sum_probs=30.5
Q ss_pred CHHHHHHHHHHHHHHhcC---CceEEeccCCCchHHHHH
Q 004379 18 YDCQLVYMEKVIQSLQNK---CNALLESPTGTGKTLCLL 53 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~---~~~liEAPTGTGKTlayL 53 (758)
++.|++.+.+-.++|-+| .++++-++-|||||-..-
T Consensus 32 ie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVk 70 (249)
T PF05673_consen 32 IERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVK 70 (249)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHH
Confidence 578988888888888877 779999999999987444
No 276
>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=78.13 E-value=1.5 Score=45.82 Aligned_cols=30 Identities=33% Similarity=0.492 Sum_probs=22.7
Q ss_pred HHHHHHHHHHhcCCceEEeccCCCchHHHH
Q 004379 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 23 ~~~~~i~~al~~~~~~liEAPTGTGKTlay 52 (758)
++.+.+..+++.++.+++-+|||+|||-.+
T Consensus 115 ~~~~~l~~~v~~~~~ili~G~tGSGKTT~l 144 (270)
T PF00437_consen 115 EIAEFLRSAVRGRGNILISGPTGSGKTTLL 144 (270)
T ss_dssp HHHHHHHHCHHTTEEEEEEESTTSSHHHHH
T ss_pred HHHHHHhhccccceEEEEECCCccccchHH
Confidence 344445555677899999999999999844
No 277
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=78.04 E-value=10 Score=42.99 Aligned_cols=78 Identities=17% Similarity=0.140 Sum_probs=56.2
Q ss_pred cCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecC
Q 004379 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (758)
Q Consensus 515 ~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g 594 (758)
.+-.+|||..|++.-.+++..|... +.| +..++.-.+.....++.+++|+. ++=.||+|+ +
T Consensus 386 ~~PP~lIfVQs~eRak~L~~~L~~~---------~~i--~v~vIh~e~~~~qrde~~~~FR~------g~IwvLicT--d 446 (593)
T KOG0344|consen 386 FKPPVLIFVQSKERAKQLFEELEIY---------DNI--NVDVIHGERSQKQRDETMERFRI------GKIWVLICT--D 446 (593)
T ss_pred CCCCeEEEEecHHHHHHHHHHhhhc---------cCc--ceeeEecccchhHHHHHHHHHhc------cCeeEEEeh--h
Confidence 3457999999999999998887411 111 11233333344557888999987 456889888 9
Q ss_pred ccccccccCCCCceEEEEE
Q 004379 595 KVSEGLDFADHAGRAVVIT 613 (758)
Q Consensus 595 ~~~EGiD~~~~~~r~vii~ 613 (758)
.+..||||.| ..+||..
T Consensus 447 ll~RGiDf~g--vn~VIny 463 (593)
T KOG0344|consen 447 LLARGIDFKG--VNLVINY 463 (593)
T ss_pred hhhccccccC--cceEEec
Confidence 9999999999 5677773
No 278
>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=77.79 E-value=4.5 Score=40.10 Aligned_cols=20 Identities=35% Similarity=0.340 Sum_probs=15.4
Q ss_pred CceEEeccCCCchHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCA 55 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~p 55 (758)
+.+++=+|||+|||-...==
T Consensus 2 ~vi~lvGptGvGKTTt~aKL 21 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKL 21 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHH
T ss_pred EEEEEECCCCCchHhHHHHH
Confidence 35688899999999866433
No 279
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.78 E-value=2.5 Score=49.08 Aligned_cols=36 Identities=25% Similarity=0.207 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhcC--Cc-eEEeccCCCchHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLLC 54 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~--~~-~liEAPTGTGKTlayL~ 54 (758)
-+|....+.+..++..+ .| .++.+|.|||||....+
T Consensus 16 vGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~ 54 (584)
T PRK14952 16 VGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARI 54 (584)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 38999999999999988 45 48999999999987664
No 280
>PHA00729 NTP-binding motif containing protein
Probab=77.71 E-value=3.2 Score=41.92 Aligned_cols=33 Identities=24% Similarity=0.435 Sum_probs=24.9
Q ss_pred HHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHHH
Q 004379 24 YMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 24 ~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal~ 58 (758)
++..+.+.|.++ .++++-+|+|||||- |+-+|+
T Consensus 4 ~~k~~~~~l~~~~f~nIlItG~pGvGKT~--LA~aLa 38 (226)
T PHA00729 4 LAKKIVSAYNNNGFVSAVIFGKQGSGKTT--YALKVA 38 (226)
T ss_pred HHHHHHHHHhcCCeEEEEEECCCCCCHHH--HHHHHH
Confidence 566777777766 568999999999997 444554
No 281
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=77.58 E-value=2.7 Score=47.93 Aligned_cols=34 Identities=26% Similarity=0.232 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHhcCC---ceEEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~---~~liEAPTGTGKTlayL 53 (758)
+|..+...+..++.+++ ..++.+|.|||||..+.
T Consensus 25 Gq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~Ar 61 (507)
T PRK06645 25 GQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSAR 61 (507)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHH
Confidence 89999999999998885 58999999999998665
No 282
>PRK05580 primosome assembly protein PriA; Validated
Probab=77.56 E-value=4.9 Score=47.95 Aligned_cols=78 Identities=14% Similarity=0.279 Sum_probs=53.2
Q ss_pred ChHHHHHHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccc
Q 004379 566 LFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKE 645 (758)
Q Consensus 566 ~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~ 645 (758)
+.++++++|++ ++-.||+|+ .-.+.|+||++ ..+|+|.....+- .-|...
T Consensus 468 ~~~~~l~~f~~------g~~~ILVgT--~~iakG~d~p~--v~lV~il~aD~~l-~~pdfr------------------- 517 (679)
T PRK05580 468 ALEQLLAQFAR------GEADILIGT--QMLAKGHDFPN--VTLVGVLDADLGL-FSPDFR------------------- 517 (679)
T ss_pred hHHHHHHHHhc------CCCCEEEEC--hhhccCCCCCC--cCEEEEEcCchhc-cCCccc-------------------
Confidence 35677888875 467899999 57899999998 5677777654431 111111
Q ss_pred cccccCCcchhHHHHHHHHHHHhcCccccCCCCeEEEEEe
Q 004379 646 TKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIFC 685 (758)
Q Consensus 646 ~~~~~l~~~~~y~~~a~~~~~QaiGRlIR~~~D~g~vill 685 (758)
..-.++..+.|.+||.=|... .|.++|.
T Consensus 518 -----------a~Er~~~~l~q~~GRagR~~~-~g~viiq 545 (679)
T PRK05580 518 -----------ASERTFQLLTQVAGRAGRAEK-PGEVLIQ 545 (679)
T ss_pred -----------hHHHHHHHHHHHHhhccCCCC-CCEEEEE
Confidence 123457889999999888654 4766654
No 283
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=77.39 E-value=4.4 Score=48.32 Aligned_cols=37 Identities=22% Similarity=0.167 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHh
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKS 62 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~ 62 (758)
+.|++.+.. ..++++|-|+.|||||..++.- ++|...
T Consensus 4 ~~Q~~av~~------~~~~~~V~Ag~GSGKT~~L~~r-i~~ll~ 40 (664)
T TIGR01074 4 PQQQEAVEY------VTGPCLVLAGAGSGKTRVITNK-IAYLIQ 40 (664)
T ss_pred HHHHHHHhC------CCCCEEEEecCCCCHHHHHHHH-HHHHHH
Confidence 567664432 3579999999999999987766 445443
No 284
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.07 E-value=3 Score=47.29 Aligned_cols=35 Identities=26% Similarity=0.276 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhcCCc---eEEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~---~liEAPTGTGKTlayL 53 (758)
-+|......+..++.+++. .++.+|+|||||....
T Consensus 17 vGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~ 54 (472)
T PRK14962 17 VGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVAR 54 (472)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 3799999999999988844 6999999999997544
No 285
>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=76.89 E-value=3.5 Score=37.98 Aligned_cols=35 Identities=26% Similarity=0.262 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 22 LVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 22 ~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
.++++.+.+.+..+..+++.++.|+|||. |+-+++
T Consensus 9 ~~l~~~l~~~l~~~~~i~l~G~lGaGKTt--l~~~l~ 43 (133)
T TIGR00150 9 DKFGKAFAKPLDFGTVVLLKGDLGAGKTT--LVQGLL 43 (133)
T ss_pred HHHHHHHHHhCCCCCEEEEEcCCCCCHHH--HHHHHH
Confidence 45677888888889999999999999998 656564
No 286
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=76.86 E-value=3.7 Score=49.41 Aligned_cols=66 Identities=21% Similarity=0.241 Sum_probs=44.1
Q ss_pred CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeE
Q 004379 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTI 97 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kI 97 (758)
-+.|++.+.. ..++++|-|+.|||||-++..- ++|+..... -+..+|
T Consensus 6 n~~Q~~av~~------~~g~~lV~AgaGSGKT~~L~~R-ia~Li~~~~--------------------------v~p~~I 52 (715)
T TIGR01075 6 NDKQREAVAA------PPGNLLVLAGAGSGKTRVLTHR-IAWLLSVEN--------------------------ASPHSI 52 (715)
T ss_pred CHHHHHHHcC------CCCCEEEEecCCCCHHHHHHHH-HHHHHHcCC--------------------------CCHHHe
Confidence 4678775542 3578999999999999986554 667664321 023478
Q ss_pred EEeCCccchHHHHHHHhhc
Q 004379 98 LYTSRTHSQLRQVIQELKT 116 (758)
Q Consensus 98 i~~trT~sql~Q~i~eLkk 116 (758)
+..|=|..-.+.+-+.+.+
T Consensus 53 L~lTFTnkAA~em~~Rl~~ 71 (715)
T TIGR01075 53 MAVTFTNKAAAEMRHRIGA 71 (715)
T ss_pred EeeeccHHHHHHHHHHHHH
Confidence 8888887776655554544
No 287
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=76.84 E-value=12 Score=43.06 Aligned_cols=45 Identities=13% Similarity=0.263 Sum_probs=35.9
Q ss_pred cCCHHHHHHHHHHHHHHhhh-cCCcEEEEeccHHHHHHHHHHHhcC
Q 004379 495 RDSIEYKQELGNTIVNIARI-VPDGLLIFFPSYYLMDQCIACWKNT 539 (758)
Q Consensus 495 r~~~~~~~~l~~~i~~~~~~-~~g~~lv~f~Sy~~l~~v~~~~~~~ 539 (758)
....+|+++....+.++... -||.+|||.|.-+..+.+.+.+.+.
T Consensus 236 ~p~~dYv~a~~~tv~~Ih~~E~~GDILvFLtGqeEIe~~~~~l~e~ 281 (674)
T KOG0922|consen 236 EPTADYVDAALITVIQIHLTEPPGDILVFLTGQEEIEAACELLRER 281 (674)
T ss_pred CCchhhHHHHHHHHHHHHccCCCCCEEEEeCCHHHHHHHHHHHHHH
Confidence 33467888887877777644 4688999999999999999988764
No 288
>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=76.82 E-value=3.4 Score=43.96 Aligned_cols=33 Identities=27% Similarity=0.239 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHhc-----C--CceEEeccCCCchHHHH
Q 004379 20 CQLVYMEKVIQSLQN-----K--CNALLESPTGTGKTLCL 52 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~-----~--~~~liEAPTGTGKTlay 52 (758)
+|.+..+.+...+.. + .++++.+|+|||||...
T Consensus 8 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 8 GQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLA 47 (305)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 577777766666642 2 56999999999999733
No 289
>PHA02533 17 large terminase protein; Provisional
Probab=76.78 E-value=8.7 Score=44.26 Aligned_cols=70 Identities=13% Similarity=-0.001 Sum_probs=52.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCC
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (758)
-||+++|.|++++..+. .++..+++.|=..|||.....-++.++-..+
T Consensus 56 ~Pf~L~p~Q~~i~~~~~----~~R~~ii~~aRq~GKStl~a~~al~~a~~~~---------------------------- 103 (534)
T PHA02533 56 IKVQMRDYQKDMLKIMH----KNRFNACNLSRQLGKTTVVAIFLLHYVCFNK---------------------------- 103 (534)
T ss_pred eecCCcHHHHHHHHHHh----cCeEEEEEEcCcCChHHHHHHHHHHHHHhCC----------------------------
Confidence 58889999999988763 3566789999999999976654544443221
Q ss_pred CCCeEEEeCCccchHHHHHHHhh
Q 004379 93 KLPTILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 93 ~~~kIi~~trT~sql~Q~i~eLk 115 (758)
...|+++++|..|.+.+++.++
T Consensus 104 -~~~v~i~A~~~~QA~~vF~~ik 125 (534)
T PHA02533 104 -DKNVGILAHKASMAAEVLDRTK 125 (534)
T ss_pred -CCEEEEEeCCHHHHHHHHHHHH
Confidence 2478888999899888877665
No 290
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=76.45 E-value=5.4 Score=43.26 Aligned_cols=38 Identities=26% Similarity=0.334 Sum_probs=29.3
Q ss_pred HHHHHHH---HHHHHHHhcC--CceEEeccCCCchHHHHHHHHHH
Q 004379 19 DCQLVYM---EKVIQSLQNK--CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 19 ~~Q~~~~---~~i~~al~~~--~~~liEAPTGTGKTlayL~pal~ 58 (758)
-+|..+. .-+.++++.+ ..+|+=+|+|||||- |..+|+
T Consensus 27 vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTT--lA~liA 69 (436)
T COG2256 27 VGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTT--LARLIA 69 (436)
T ss_pred cChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHH--HHHHHH
Confidence 4788887 4577888877 568999999999997 545554
No 291
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=76.41 E-value=3.2 Score=46.68 Aligned_cols=35 Identities=20% Similarity=0.150 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhcCCc---eEEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~---~liEAPTGTGKTlayL 53 (758)
-+|......+..++.+++. .++.+|.|||||-.+.
T Consensus 21 VGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAr 58 (484)
T PRK14956 21 IHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIAR 58 (484)
T ss_pred hChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 3899999999999998853 5999999999998554
No 292
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=76.33 E-value=7.2 Score=48.10 Aligned_cols=39 Identities=18% Similarity=0.111 Sum_probs=27.7
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHH
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal 57 (758)
+..-++|++.+..| +..+...++.++.|||||.. |-++.
T Consensus 345 ~~Ls~eQr~Av~~i---l~s~~v~vv~G~AGTGKTT~-l~~~~ 383 (988)
T PRK13889 345 LVLSGEQADALAHV---TDGRDLGVVVGYAGTGKSAM-LGVAR 383 (988)
T ss_pred CCCCHHHHHHHHHH---hcCCCeEEEEeCCCCCHHHH-HHHHH
Confidence 33457899866554 45456889999999999985 43433
No 293
>PRK04328 hypothetical protein; Provisional
Probab=76.23 E-value=5 Score=41.41 Aligned_cols=18 Identities=33% Similarity=0.553 Sum_probs=15.4
Q ss_pred hcCCceEEeccCCCchHH
Q 004379 33 QNKCNALLESPTGTGKTL 50 (758)
Q Consensus 33 ~~~~~~liEAPTGTGKTl 50 (758)
-.|...++.+|+|+|||.
T Consensus 21 p~gs~ili~G~pGsGKT~ 38 (249)
T PRK04328 21 PERNVVLLSGGPGTGKSI 38 (249)
T ss_pred cCCcEEEEEcCCCCCHHH
Confidence 346778999999999987
No 294
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=76.20 E-value=4.8 Score=41.77 Aligned_cols=25 Identities=36% Similarity=0.503 Sum_probs=20.0
Q ss_pred HHhcCCceEEeccCCCchHHHHHHH
Q 004379 31 SLQNKCNALLESPTGTGKTLCLLCA 55 (758)
Q Consensus 31 al~~~~~~liEAPTGTGKTlayL~p 55 (758)
.|..|...++.+++|||||+-.+=-
T Consensus 19 G~p~g~~~lI~G~pGsGKT~f~~qf 43 (260)
T COG0467 19 GLPRGSVVLITGPPGTGKTIFALQF 43 (260)
T ss_pred CCcCCcEEEEEcCCCCcHHHHHHHH
Confidence 3567789999999999999955433
No 295
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=76.10 E-value=1.9 Score=50.63 Aligned_cols=28 Identities=36% Similarity=0.407 Sum_probs=20.0
Q ss_pred ceEEeccCCCchHHHHHHHHHHHHHhhC
Q 004379 37 NALLESPTGTGKTLCLLCATLAWRKSLG 64 (758)
Q Consensus 37 ~~liEAPTGTGKTlayL~pal~~~~~~~ 64 (758)
++=|++.||||||.+||=--.+--+..+
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLhk~YG 103 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELHKKYG 103 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHHHHhC
Confidence 3668999999999999955444333343
No 296
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=76.07 E-value=4.6 Score=43.11 Aligned_cols=82 Identities=21% Similarity=0.204 Sum_probs=59.3
Q ss_pred HHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeE
Q 004379 508 IVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAV 587 (758)
Q Consensus 508 i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~v 587 (758)
+++.+..++-.+|+|.-.....+.+++++--.+-+ ---+.-+++.++....++.|+. ++.-|
T Consensus 413 lLeCLQKT~PpVLIFaEkK~DVD~IhEYLLlKGVE------------avaIHGGKDQedR~~ai~afr~------gkKDV 474 (610)
T KOG0341|consen 413 LLECLQKTSPPVLIFAEKKADVDDIHEYLLLKGVE------------AVAIHGGKDQEDRHYAIEAFRA------GKKDV 474 (610)
T ss_pred HHHHhccCCCceEEEeccccChHHHHHHHHHccce------------eEEeecCcchhHHHHHHHHHhc------CCCce
Confidence 44556667779999999999999999887422100 0112234556678889999987 57899
Q ss_pred EEEEecCccccccccCCCCceEEE
Q 004379 588 FFAVCRGKVSEGLDFADHAGRAVV 611 (758)
Q Consensus 588 L~~v~~g~~~EGiD~~~~~~r~vi 611 (758)
|+++ .-.|.|+|||+- ..||
T Consensus 475 LVAT--DVASKGLDFp~i--qHVI 494 (610)
T KOG0341|consen 475 LVAT--DVASKGLDFPDI--QHVI 494 (610)
T ss_pred EEEe--cchhccCCCccc--hhhc
Confidence 9999 788999999993 4444
No 297
>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=75.98 E-value=34 Score=38.26 Aligned_cols=95 Identities=18% Similarity=0.170 Sum_probs=62.1
Q ss_pred HHHHHHHHHH-h-hhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCC-eeCCCCCCChHHHHHHHHHHh
Q 004379 502 QELGNTIVNI-A-RIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKP-VVEPRQSSLFPLAIEDYMAKL 578 (758)
Q Consensus 502 ~~l~~~i~~~-~-~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~-~~e~~~~~~~~~~i~~~~~~i 578 (758)
+...+.|+.. . ....+|+|||.|||-..=.+.+.+++.... .. +-|--...+.......|..
T Consensus 284 ~yF~~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~s-------------F~~i~EYts~~~isRAR~~F~~-- 348 (442)
T PF06862_consen 284 KYFTKKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKKENIS-------------FVQISEYTSNSDISRARSQFFH-- 348 (442)
T ss_pred HHHHHHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHhcCCe-------------EEEecccCCHHHHHHHHHHHHc--
Confidence 3344434433 3 355689999999999998888888753211 11 1122222233344444443
Q ss_pred ccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCC
Q 004379 579 KDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 579 ~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPf 617 (758)
++..||+-+-|--|..=..+.| .+.||..|+|-
T Consensus 349 ----G~~~iLL~TER~HFfrRy~irG--i~~viFY~~P~ 381 (442)
T PF06862_consen 349 ----GRKPILLYTERFHFFRRYRIRG--IRHVIFYGPPE 381 (442)
T ss_pred ----CCceEEEEEhHHhhhhhceecC--CcEEEEECCCC
Confidence 4678999998888888888888 79999999885
No 298
>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=75.91 E-value=4.3 Score=42.19 Aligned_cols=34 Identities=21% Similarity=0.200 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHhcCC-ceEEeccCCCchHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKC-NALLESPTGTGKTLCL 52 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~-~~liEAPTGTGKTlay 52 (758)
+.+.+....+...+..+. .+++-+|+|+|||...
T Consensus 26 ~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 26 KGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLI 60 (269)
T ss_pred HHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH
Confidence 356777777777777654 6899999999999743
No 299
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=75.41 E-value=4.9 Score=48.02 Aligned_cols=67 Identities=21% Similarity=0.305 Sum_probs=47.9
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCC
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (758)
|.|-..|.++... .+.++.++|-|||-.|||+.--..-=.-.+. .+.
T Consensus 510 F~Pd~WQ~elLDs----vDr~eSavIVAPTSaGKTfisfY~iEKVLRe-----------------------------sD~ 556 (1330)
T KOG0949|consen 510 FCPDEWQRELLDS----VDRNESAVIVAPTSAGKTFISFYAIEKVLRE-----------------------------SDS 556 (1330)
T ss_pred cCCcHHHHHHhhh----hhcccceEEEeeccCCceeccHHHHHHHHhh-----------------------------cCC
Confidence 6777789887654 5788999999999999998433221111111 134
Q ss_pred CeEEEeCCccchHHHHHHHh
Q 004379 95 PTILYTSRTHSQLRQVIQEL 114 (758)
Q Consensus 95 ~kIi~~trT~sql~Q~i~eL 114 (758)
..|||+.+|+.+..|+--++
T Consensus 557 ~VVIyvaPtKaLVnQvsa~V 576 (1330)
T KOG0949|consen 557 DVVIYVAPTKALVNQVSANV 576 (1330)
T ss_pred CEEEEecchHHHhhhhhHHH
Confidence 58999999999999987553
No 300
>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=75.27 E-value=7.4 Score=38.67 Aligned_cols=27 Identities=30% Similarity=0.471 Sum_probs=22.8
Q ss_pred CceEEeccCCCchHHHHHHHHHHHHHhhC
Q 004379 36 CNALLESPTGTGKTLCLLCATLAWRKSLG 64 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~~~~~~ 64 (758)
..+++|++-|||||. ||-=++|.--.+
T Consensus 29 sL~lIEGd~~tGKSv--Lsqr~~YG~L~~ 55 (235)
T COG2874 29 SLILIEGDNGTGKSV--LSQRFAYGFLMN 55 (235)
T ss_pred eEEEEECCCCccHHH--HHHHHHHHHHhC
Confidence 558999999999998 888888876543
No 301
>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=75.16 E-value=4.1 Score=44.49 Aligned_cols=36 Identities=28% Similarity=0.308 Sum_probs=22.9
Q ss_pred CCHHHHHHHH-HHHHHHhcC--CceEEeccCCCchHHHH
Q 004379 17 AYDCQLVYME-KVIQSLQNK--CNALLESPTGTGKTLCL 52 (758)
Q Consensus 17 ~r~~Q~~~~~-~i~~al~~~--~~~liEAPTGTGKTlay 52 (758)
-|+.|.+-+. .+..++.++ ..++|-+|+|||||...
T Consensus 19 gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 19 HRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVT 57 (365)
T ss_pred CcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHH
Confidence 3555554333 333334332 57999999999999744
No 302
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=75.13 E-value=7.8 Score=43.35 Aligned_cols=107 Identities=13% Similarity=0.156 Sum_probs=65.8
Q ss_pred HHHHHHHHHHHhhhcCC-cEEEEeccHHHHHHHHHHHhcCCCC-----C----chhHHHHHhcCCCCeeCCCC--CCChH
Q 004379 501 KQELGNTIVNIARIVPD-GLLIFFPSYYLMDQCIACWKNTSHG-----N----LTTIWERICKHKKPVVEPRQ--SSLFP 568 (758)
Q Consensus 501 ~~~l~~~i~~~~~~~~g-~~lv~f~Sy~~l~~v~~~~~~~~~~-----~----~~~i~~~l~~~k~~~~e~~~--~~~~~ 568 (758)
+-.|+..|.+.++.-+. .++|||++-+..+.-|+.+...... + ..+... +....+.|---+. .++..
T Consensus 409 LV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~-l~~~~k~~rLHGsm~QeeRt 487 (708)
T KOG0348|consen 409 LVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPP-LFMDLKFYRLHGSMEQEERT 487 (708)
T ss_pred HHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChh-hhhcceEEEecCchhHHHHH
Confidence 35677788888776543 7999999999999888877653211 0 001000 1111111111111 12344
Q ss_pred HHHHHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCC
Q 004379 569 LAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFA 618 (758)
Q Consensus 569 ~~i~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp 618 (758)
..++.|+. .+.+||||+ .-.+.|+|||. .++||=.--||.
T Consensus 488 s~f~~Fs~------~~~~VLLcT--DVAaRGLDlP~--V~~vVQYd~P~s 527 (708)
T KOG0348|consen 488 SVFQEFSH------SRRAVLLCT--DVAARGLDLPH--VGLVVQYDPPFS 527 (708)
T ss_pred HHHHhhcc------ccceEEEeh--hhhhccCCCCC--cCeEEEeCCCCC
Confidence 55666765 467899999 78899999998 677877776764
No 303
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=75.09 E-value=13 Score=41.37 Aligned_cols=111 Identities=15% Similarity=0.118 Sum_probs=69.4
Q ss_pred CCcEEEEeccHHHHHHHHHHHhc-CCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecC
Q 004379 516 PDGLLIFFPSYYLMDQCIACWKN-TSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (758)
Q Consensus 516 ~g~~lv~f~Sy~~l~~v~~~~~~-~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g 594 (758)
-.++|||..|-+.-.+....|+- .... ..+-.-|--+-+.+...+.++.|.. ++--||+|. .
T Consensus 429 ~~r~lcf~~S~~sa~Rl~~~L~v~~~~~---------~~~~s~~t~~l~~k~r~k~l~~f~~------g~i~vLIcS--D 491 (620)
T KOG0350|consen 429 LNRTLCFVNSVSSANRLAHVLKVEFCSD---------NFKVSEFTGQLNGKRRYKMLEKFAK------GDINVLICS--D 491 (620)
T ss_pred cceEEEEecchHHHHHHHHHHHHHhccc---------cchhhhhhhhhhHHHHHHHHHHHhc------CCceEEEeh--h
Confidence 35799999999998888777662 1100 0000001011122234455555543 456788877 8
Q ss_pred ccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCcccc
Q 004379 595 KVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIR 674 (758)
Q Consensus 595 ~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGRlIR 674 (758)
.++.|||+.|- .+||=. .+|- -.+....++||--|
T Consensus 492 ~laRGiDv~~v--~~VINY----d~P~---------------------------------------~~ktyVHR~GRTAR 526 (620)
T KOG0350|consen 492 ALARGIDVNDV--DNVINY----DPPA---------------------------------------SDKTYVHRAGRTAR 526 (620)
T ss_pred hhhcCCccccc--ceEeec----CCCc---------------------------------------hhhHHHHhhccccc
Confidence 99999999993 455433 2221 23455678999999
Q ss_pred CCCCeEEEEEeecc
Q 004379 675 HRHDYGAIIFCDER 688 (758)
Q Consensus 675 ~~~D~g~villD~R 688 (758)
...|--++-++|.+
T Consensus 527 Agq~G~a~tll~~~ 540 (620)
T KOG0350|consen 527 AGQDGYAITLLDKH 540 (620)
T ss_pred ccCCceEEEeeccc
Confidence 99998888999886
No 304
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=74.99 E-value=2.8 Score=48.44 Aligned_cols=34 Identities=21% Similarity=0.202 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCL 52 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlay 52 (758)
-+|...|..+..++... .++++.+|+|||||.+.
T Consensus 68 iGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lA 103 (531)
T TIGR02902 68 IGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAA 103 (531)
T ss_pred eCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHH
Confidence 37889999998887554 88999999999999843
No 305
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.94 E-value=3.3 Score=47.48 Aligned_cols=35 Identities=20% Similarity=0.187 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhcC--Cc-eEEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~--~~-~liEAPTGTGKTlayL 53 (758)
-+|......+..++.++ .| .++.+|.|||||....
T Consensus 19 vGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~ 56 (509)
T PRK14958 19 IGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISR 56 (509)
T ss_pred cCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHH
Confidence 38999999999999887 44 4899999999997554
No 306
>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=74.85 E-value=2.9 Score=49.35 Aligned_cols=43 Identities=23% Similarity=0.264 Sum_probs=35.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHH
Q 004379 13 FPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 13 Fpf~~r~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal 57 (758)
|||..--+|..+...+.-+..+. +++++++|+|||||. |.-+|
T Consensus 1 ~pf~~ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~--lar~l 45 (633)
T TIGR02442 1 FPFTAIVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKST--AARGL 45 (633)
T ss_pred CCcchhcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHH--HHHHH
Confidence 78888888999998888887754 569999999999998 43444
No 307
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=74.52 E-value=4.1 Score=43.54 Aligned_cols=33 Identities=24% Similarity=0.359 Sum_probs=25.1
Q ss_pred HHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 24 YMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 24 ~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
+.+-+.-++..++++++-+|||+|||- |+-+|.
T Consensus 133 ~~~~l~~~v~~~~~ili~G~tGsGKTT--ll~al~ 165 (308)
T TIGR02788 133 IKEFLRLAIASRKNIIISGGTGSGKTT--FLKSLV 165 (308)
T ss_pred HHHHHHHHhhCCCEEEEECCCCCCHHH--HHHHHH
Confidence 344455677889999999999999998 445553
No 308
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=74.39 E-value=3.3 Score=44.17 Aligned_cols=34 Identities=32% Similarity=0.423 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL 53 (758)
+|.+.++.+...+.++ .++++.+|+|||||...-
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~ 56 (319)
T PRK00440 21 GQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAAL 56 (319)
T ss_pred CcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHH
Confidence 6888888999888876 469999999999998554
No 309
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=74.21 E-value=2.3 Score=49.56 Aligned_cols=25 Identities=36% Similarity=0.488 Sum_probs=22.6
Q ss_pred cCCceEEeccCCCchHHHHHHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
...|+++-||||+|||.++.+|.|.
T Consensus 157 g~~hvLviapTgSGKg~g~VIPnLL 181 (606)
T PRK13897 157 GFQHALLFAPTGSGKGVGFVIPNLL 181 (606)
T ss_pred CCceEEEEcCCCCCcceEEehhhHH
Confidence 3478999999999999999999985
No 310
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=74.06 E-value=2.4 Score=45.15 Aligned_cols=21 Identities=52% Similarity=0.721 Sum_probs=17.7
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
+-+++-+|+|||||| |.-|++
T Consensus 186 KGVLLYGPPGTGKTL--LAkAVA 206 (406)
T COG1222 186 KGVLLYGPPGTGKTL--LAKAVA 206 (406)
T ss_pred CceEeeCCCCCcHHH--HHHHHH
Confidence 669999999999999 666665
No 311
>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=73.94 E-value=5.1 Score=38.32 Aligned_cols=34 Identities=24% Similarity=0.320 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHhcC--Cc-eEEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~--~~-~liEAPTGTGKTlayL 53 (758)
+|.+..+.+.+.+.++ .| .++++|.|+||+..++
T Consensus 1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~ 37 (162)
T PF13177_consen 1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLAL 37 (162)
T ss_dssp S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHH
T ss_pred CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHH
Confidence 5889999999999988 44 6999999999887554
No 312
>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=73.84 E-value=5.2 Score=43.29 Aligned_cols=37 Identities=24% Similarity=0.256 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHh----cCCceEEeccCCCchHHHHHHHHHH
Q 004379 20 CQLVYMEKVIQSLQ----NKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 20 ~Q~~~~~~i~~al~----~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
...++++.+..+.. .++.+++.+|+|+|||. |+-+|+
T Consensus 59 ~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKSt--la~~La 99 (361)
T smart00763 59 AIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSS--LVECLK 99 (361)
T ss_pred HHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHH--HHHHHH
Confidence 44455555544443 24778999999999998 555664
No 313
>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=73.66 E-value=3.4 Score=40.34 Aligned_cols=47 Identities=17% Similarity=0.249 Sum_probs=39.3
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHH
Q 004379 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLC 51 (758)
Q Consensus 1 ~~~~~i~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTla 51 (758)
|+..++.++...|+=.|+ ...+++--.+..|..+++=+|.|+|||--
T Consensus 1 M~~l~~~~~sl~y~g~~~----~~le~vsL~ia~ge~vv~lGpSGcGKTTL 47 (259)
T COG4525 1 MCMLNVSHLSLSYEGKPR----SALEDVSLTIASGELVVVLGPSGCGKTTL 47 (259)
T ss_pred CceeehhheEEecCCcch----hhhhccceeecCCCEEEEEcCCCccHHHH
Confidence 888899999999988773 45566666778899999999999999973
No 314
>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=73.57 E-value=3.3 Score=37.44 Aligned_cols=19 Identities=58% Similarity=0.819 Sum_probs=15.3
Q ss_pred eEEeccCCCchHHHHHHHHHH
Q 004379 38 ALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 38 ~liEAPTGTGKTlayL~pal~ 58 (758)
+++.+|.|||||. |+-+++
T Consensus 1 ill~G~~G~GKT~--l~~~la 19 (132)
T PF00004_consen 1 ILLHGPPGTGKTT--LARALA 19 (132)
T ss_dssp EEEESSTTSSHHH--HHHHHH
T ss_pred CEEECcCCCCeeH--HHHHHH
Confidence 5789999999998 555565
No 315
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=73.55 E-value=3.8 Score=44.14 Aligned_cols=35 Identities=26% Similarity=0.140 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHhc----C---CceEEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQN----K---CNALLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~----~---~~~liEAPTGTGKTlayL 53 (758)
-+|.+.++.+...+.. + .++++.+|+|||||....
T Consensus 28 vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 28 IGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred cCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence 4677777777666642 2 579999999999998544
No 316
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=73.53 E-value=3.1 Score=48.92 Aligned_cols=24 Identities=21% Similarity=0.182 Sum_probs=22.2
Q ss_pred CCceEEeccCCCchHHHHHHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal~ 58 (758)
..|+++-||||+|||.++.+|.|.
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnLL 247 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTAL 247 (641)
T ss_pred CceEEEEeCCCCCccceEehhhhh
Confidence 479999999999999999999884
No 317
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=73.13 E-value=4.2 Score=47.74 Aligned_cols=36 Identities=17% Similarity=0.213 Sum_probs=32.0
Q ss_pred CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHH
Q 004379 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlay 52 (758)
.-.+|.+.+..+..++.++.++++.+|+|||||...
T Consensus 32 ~vigq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla 67 (637)
T PRK13765 32 QVIGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLA 67 (637)
T ss_pred HcCChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHH
Confidence 345899999999999999999999999999999743
No 318
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=72.59 E-value=3.6 Score=49.33 Aligned_cols=33 Identities=27% Similarity=0.336 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHhc--------C---CceEEeccCCCchHHHH
Q 004379 20 CQLVYMEKVIQSLQN--------K---CNALLESPTGTGKTLCL 52 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~--------~---~~~liEAPTGTGKTlay 52 (758)
+|.+.++.|.+++.. + ..+++.+|||+|||...
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 788999999988873 1 35799999999999733
No 319
>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=72.56 E-value=5.4 Score=43.98 Aligned_cols=32 Identities=22% Similarity=0.447 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHhcCCceEEeccCCCchHHH
Q 004379 20 CQLVYMEKVIQSLQNKCNALLESPTGTGKTLC 51 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~~~liEAPTGTGKTla 51 (758)
.+.........-++++.++++=+|+|||||--
T Consensus 194 ~k~~~L~rl~~fve~~~Nli~lGp~GTGKThl 225 (449)
T TIGR02688 194 QKLLLLARLLPLVEPNYNLIELGPKGTGKSYI 225 (449)
T ss_pred HHHHHHHhhHHHHhcCCcEEEECCCCCCHHHH
Confidence 44445555556678899999999999999963
No 320
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=72.25 E-value=4.3 Score=46.07 Aligned_cols=35 Identities=26% Similarity=0.302 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHhcC---CceEEeccCCCchHHHHHH
Q 004379 20 CQLVYMEKVIQSLQNK---CNALLESPTGTGKTLCLLC 54 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~---~~~liEAPTGTGKTlayL~ 54 (758)
+|..+...+..++..+ ...++.+|.|||||-...+
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 7999999999999888 3589999999999985553
No 321
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=72.23 E-value=4.9 Score=48.20 Aligned_cols=38 Identities=13% Similarity=0.100 Sum_probs=26.4
Q ss_pred CCHH-HHHHHHHHHHHHhcCC--c-eEEeccCCCchHHHHHH
Q 004379 17 AYDC-QLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLLC 54 (758)
Q Consensus 17 ~r~~-Q~~~~~~i~~al~~~~--~-~liEAPTGTGKTlayL~ 54 (758)
-|+. ..+++..+..++.++. . +.|-+|||||||++...
T Consensus 759 hREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~ 800 (1164)
T PTZ00112 759 CREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYS 800 (1164)
T ss_pred ChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHH
Confidence 4764 4555566666776442 3 46999999999998764
No 322
>PRK10436 hypothetical protein; Provisional
Probab=72.10 E-value=5.9 Score=44.68 Aligned_cols=32 Identities=38% Similarity=0.461 Sum_probs=22.7
Q ss_pred HHHHHh-cCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 28 VIQSLQ-NKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 28 i~~al~-~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
+.+.+. .++.+++-+|||+|||-.+ .++|.+.
T Consensus 210 l~~~~~~~~GliLvtGpTGSGKTTtL-~a~l~~~ 242 (462)
T PRK10436 210 FRQALQQPQGLILVTGPTGSGKTVTL-YSALQTL 242 (462)
T ss_pred HHHHHHhcCCeEEEECCCCCChHHHH-HHHHHhh
Confidence 333443 4578999999999999865 4566654
No 323
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=72.06 E-value=3.8 Score=49.38 Aligned_cols=37 Identities=32% Similarity=0.447 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHhcC-----------CceEEeccCCCchHHHHHHHHHH
Q 004379 20 CQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~-----------~~~liEAPTGTGKTlayL~pal~ 58 (758)
+|.+.++.|.+++... ..+++.+|||||||. |+-+|+
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~--lA~~la 505 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTE--LAKQLA 505 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHH--HHHHHH
Confidence 7888888888888742 247999999999996 545554
No 324
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.67 E-value=4.3 Score=47.50 Aligned_cols=35 Identities=20% Similarity=0.193 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhcC--Cc-eEEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~--~~-~liEAPTGTGKTlayL 53 (758)
-+|..+...+.+++.++ .| .|+++|.|+|||..+.
T Consensus 19 vGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~ 56 (620)
T PRK14954 19 TAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAAR 56 (620)
T ss_pred cCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHH
Confidence 38999999999999887 33 7899999999998655
No 325
>PRK08727 hypothetical protein; Validated
Probab=71.65 E-value=8.4 Score=39.25 Aligned_cols=22 Identities=41% Similarity=0.442 Sum_probs=16.6
Q ss_pred CceEEeccCCCchHHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~ 59 (758)
..+++-+|+|||||- |.-|++.
T Consensus 42 ~~l~l~G~~G~GKTh--L~~a~~~ 63 (233)
T PRK08727 42 DWLYLSGPAGTGKTH--LALALCA 63 (233)
T ss_pred CeEEEECCCCCCHHH--HHHHHHH
Confidence 458999999999997 4444443
No 326
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=71.37 E-value=4.6 Score=47.18 Aligned_cols=35 Identities=17% Similarity=0.182 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHhcCC---ceEEeccCCCchHHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLLC 54 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~---~~liEAPTGTGKTlayL~ 54 (758)
+|..++..+..++..++ ..++.+|.|+|||....+
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 89999999999999884 479999999999986653
No 327
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=71.13 E-value=5.9 Score=43.85 Aligned_cols=21 Identities=52% Similarity=0.721 Sum_probs=17.3
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
+.+++.+|+|||||+ |+-+++
T Consensus 166 ~gvLL~GppGtGKT~--lAkaia 186 (389)
T PRK03992 166 KGVLLYGPPGTGKTL--LAKAVA 186 (389)
T ss_pred CceEEECCCCCChHH--HHHHHH
Confidence 568999999999998 555665
No 328
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.11 E-value=4.8 Score=46.97 Aligned_cols=35 Identities=23% Similarity=0.183 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHhcCC--ce-EEeccCCCchHHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC--NA-LLESPTGTGKTLCLLC 54 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~--~~-liEAPTGTGKTlayL~ 54 (758)
+|......+..++.+++ |+ ++.+|.|+|||..+.+
T Consensus 19 GQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAri 56 (702)
T PRK14960 19 GQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARI 56 (702)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 79999999999999884 44 9999999999986653
No 329
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.07 E-value=4.9 Score=45.97 Aligned_cols=35 Identities=29% Similarity=0.307 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhcCC--ce-EEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKC--NA-LLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~--~~-liEAPTGTGKTlayL 53 (758)
-+|....+.+..++..++ |+ ++.+|.|||||....
T Consensus 17 vGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~ 54 (504)
T PRK14963 17 VGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTAR 54 (504)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 379999999999998884 44 999999999998765
No 330
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.06 E-value=4.8 Score=46.43 Aligned_cols=34 Identities=24% Similarity=0.272 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHhcCC--ce-EEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC--NA-LLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~--~~-liEAPTGTGKTlayL 53 (758)
+|......+..++.+++ |+ ++.+|.|+|||....
T Consensus 20 Gq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~ 56 (527)
T PRK14969 20 GQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLAR 56 (527)
T ss_pred CcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHH
Confidence 79999999999998873 54 899999999997554
No 331
>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=71.03 E-value=4.8 Score=41.92 Aligned_cols=31 Identities=29% Similarity=0.255 Sum_probs=22.0
Q ss_pred HHHhcCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 30 QSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 30 ~al~~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
..+..|...++-||||+|||.-.+--+..++
T Consensus 25 gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~ 55 (271)
T cd01122 25 KGLRKGELIILTAGTGVGKTTFLREYALDLI 55 (271)
T ss_pred EEEcCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 3456678899999999999985554334333
No 332
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=71.02 E-value=1 Score=51.62 Aligned_cols=45 Identities=24% Similarity=0.336 Sum_probs=28.9
Q ss_pred hhhcCccEEEecCccccChh---hh-h-ccC--CCccccEEEEeCCcchHHH
Q 004379 205 ELQKTVDIVFAPYNYLIDPW---FR-K-GLG--VEWKNSILIFDEAHNLEGI 249 (758)
Q Consensus 205 ~~~~~AdIIv~ny~yLl~~~---~~-~-~~~--i~~~~~ilIiDEAHnL~d~ 249 (758)
+.++.-||||++|+++.... .. + ... ....=+.||+|||||+-+.
T Consensus 427 ~~L~~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W~RVILDEAH~IrN~ 478 (901)
T KOG4439|consen 427 KELRKYDVVITTYNLVANKPDDELEEGKNSSPLARIAWSRVILDEAHNIRNS 478 (901)
T ss_pred HHHhhcceEEEeeeccccCCchhhhcccCccHHHHhhHHHhhhhhhhhhccc
Confidence 35678899999999987521 11 1 100 1123345999999999764
No 333
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=70.90 E-value=1.7 Score=51.18 Aligned_cols=25 Identities=28% Similarity=0.440 Sum_probs=22.5
Q ss_pred cCCceEEeccCCCchHHHHHHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
...|+++-||||+|||.++.+|.|.
T Consensus 138 ~~~hvlviApTgSGKgvg~VIPnLL 162 (670)
T PRK13850 138 EQPHSLVVAPTRAGKGVGVVIPTLL 162 (670)
T ss_pred CCceEEEEecCCCCceeeehHhHHh
Confidence 3479999999999999999999885
No 334
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=70.66 E-value=6 Score=44.32 Aligned_cols=23 Identities=43% Similarity=0.580 Sum_probs=18.0
Q ss_pred CCceEEeccCCCchHHHHHHHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
.+.+++.+|+|||||+ |+-+++.
T Consensus 217 p~gVLL~GPPGTGKT~--LAraIA~ 239 (438)
T PTZ00361 217 PKGVILYGPPGTGKTL--LAKAVAN 239 (438)
T ss_pred CcEEEEECCCCCCHHH--HHHHHHH
Confidence 3568999999999999 5556653
No 335
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=70.64 E-value=5.4 Score=31.39 Aligned_cols=25 Identities=24% Similarity=0.327 Sum_probs=20.4
Q ss_pred CceEEeccCCCchHHHHHHHHHHHHHh
Q 004379 36 CNALLESPTGTGKTLCLLCATLAWRKS 62 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~~~~ 62 (758)
...+|-+|+|+|||- |+=|+.|+-.
T Consensus 24 ~~tli~G~nGsGKST--llDAi~~~L~ 48 (62)
T PF13555_consen 24 DVTLITGPNGSGKST--LLDAIQTVLY 48 (62)
T ss_pred cEEEEECCCCCCHHH--HHHHHHHHHc
Confidence 478999999999998 6677777654
No 336
>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=70.45 E-value=8.7 Score=38.87 Aligned_cols=22 Identities=27% Similarity=0.371 Sum_probs=17.8
Q ss_pred HhcCCceEEeccCCCchHHHHH
Q 004379 32 LQNKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 32 l~~~~~~liEAPTGTGKTlayL 53 (758)
+..|..+++.+|+|+|||.-.+
T Consensus 17 i~~G~~~~i~G~~G~GKT~l~~ 38 (229)
T TIGR03881 17 IPRGFFVAVTGEPGTGKTIFCL 38 (229)
T ss_pred CcCCeEEEEECCCCCChHHHHH
Confidence 4456889999999999988544
No 337
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=70.44 E-value=10 Score=43.55 Aligned_cols=186 Identities=18% Similarity=0.277 Sum_probs=101.0
Q ss_pred cEEEEecccCCChHhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHHhhhc
Q 004379 436 GSIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIV 515 (758)
Q Consensus 436 ~~vil~SaTL~p~~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~~~~~ 515 (758)
-.++++||||.. +-|..-++= .++ |.+|..+. +++.-|...-+.+|+++....|..|....
T Consensus 411 LKllIsSAT~DA-ekFS~fFDd-apI-----F~iPGRRy------------PVdi~Yt~~PEAdYldAai~tVlqIH~tq 471 (902)
T KOG0923|consen 411 LKLLISSATMDA-EKFSAFFDD-API-----FRIPGRRY------------PVDIFYTKAPEADYLDAAIVTVLQIHLTQ 471 (902)
T ss_pred ceEEeeccccCH-HHHHHhccC-CcE-----EeccCccc------------ceeeecccCCchhHHHHHHhhheeeEecc
Confidence 378999999976 333332221 111 12222211 23334444445689888878888776655
Q ss_pred C-CcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhc-CCCCeeCCCCCCChHHHHHHHHHHhccCC--CCCeEEEEE
Q 004379 516 P-DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICK-HKKPVVEPRQSSLFPLAIEDYMAKLKDTS--TSGAVFFAV 591 (758)
Q Consensus 516 ~-g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~-~k~~~~e~~~~~~~~~~i~~~~~~i~~~~--~~~~vL~~v 591 (758)
| |-+|||++--+..+.+.+.+.... .+|-. .+.+++.|=-+..- .+...+|.... +...|.+|+
T Consensus 472 p~GDILVFltGQeEIEt~~e~l~~~~--------~~LGski~eliv~PiYaNLP----selQakIFePtP~gaRKVVLAT 539 (902)
T KOG0923|consen 472 PLGDILVFLTGQEEIETVKENLKERC--------RRLGSKIRELIVLPIYANLP----SELQAKIFEPTPPGARKVVLAT 539 (902)
T ss_pred CCccEEEEeccHHHHHHHHHHHHHHH--------HHhccccceEEEeeccccCC----hHHHHhhcCCCCCCceeEEEee
Confidence 5 459999999999999888776532 22321 12244444333211 22334454431 224688887
Q ss_pred ecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccCCcchhHHHHHHHHHHHhcCc
Q 004379 592 CRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGR 671 (758)
Q Consensus 592 ~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l~~~~~y~~~a~~~~~QaiGR 671 (758)
..+| ..+-|.|+-|- -||-......|....|-.. + ...|-.=-..+|..||
T Consensus 540 ---NIAE---------TSlTIdgI~yV--iDpGf~K~nsynprtGmes-----------L----~v~piSKAsA~QRaGR 590 (902)
T KOG0923|consen 540 ---NIAE---------TSLTIDGIKYV--IDPGFVKQNSYNPRTGMES-----------L----LVTPISKASANQRAGR 590 (902)
T ss_pred ---cchh---------hceeecCeEEE--ecCccccccCcCCCcCcee-----------E----EEeeechhhhhhhccc
Confidence 6666 56666676664 2453322233332222110 0 0223333457899999
Q ss_pred cccCCCCeEE
Q 004379 672 VIRHRHDYGA 681 (758)
Q Consensus 672 lIR~~~D~g~ 681 (758)
.=|+.--.|.
T Consensus 591 AGRtgPGKCf 600 (902)
T KOG0923|consen 591 AGRTGPGKCF 600 (902)
T ss_pred cCCCCCCceE
Confidence 9887766553
No 338
>PRK05642 DNA replication initiation factor; Validated
Probab=70.35 E-value=9.4 Score=38.95 Aligned_cols=21 Identities=19% Similarity=0.216 Sum_probs=16.5
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
..+++-+|+|+|||- |+-|++
T Consensus 46 ~~l~l~G~~G~GKTH--Ll~a~~ 66 (234)
T PRK05642 46 SLIYLWGKDGVGRSH--LLQAAC 66 (234)
T ss_pred CeEEEECCCCCCHHH--HHHHHH
Confidence 468899999999998 544554
No 339
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=70.31 E-value=5.6 Score=42.87 Aligned_cols=37 Identities=27% Similarity=0.334 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal 57 (758)
+.-.++.+.+.++...+.+++|.+++||||+. +.-++
T Consensus 13 ~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~--lA~~i 49 (326)
T PRK11608 13 NSFLEVLEQVSRLAPLDKPVLIIGERGTGKEL--IASRL 49 (326)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECCCCCcHHH--HHHHH
Confidence 45566777788888888999999999999998 43444
No 340
>PRK13342 recombination factor protein RarA; Reviewed
Probab=70.27 E-value=3.8 Score=45.74 Aligned_cols=35 Identities=23% Similarity=0.232 Sum_probs=27.7
Q ss_pred CHHHHHHHHH---HHHHHhcC--CceEEeccCCCchHHHH
Q 004379 18 YDCQLVYMEK---VIQSLQNK--CNALLESPTGTGKTLCL 52 (758)
Q Consensus 18 r~~Q~~~~~~---i~~al~~~--~~~liEAPTGTGKTlay 52 (758)
.-+|...+.. +.+.+.++ .++++-+|+|||||...
T Consensus 14 ~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA 53 (413)
T PRK13342 14 VVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLA 53 (413)
T ss_pred hcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHH
Confidence 3468888666 88888777 46899999999999743
No 341
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=70.04 E-value=5.6 Score=40.01 Aligned_cols=36 Identities=19% Similarity=0.235 Sum_probs=24.4
Q ss_pred CCCCHHHHHHHHHHHHHH---hc-C---CceEEeccCCCchHH
Q 004379 15 FEAYDCQLVYMEKVIQSL---QN-K---CNALLESPTGTGKTL 50 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al---~~-~---~~~liEAPTGTGKTl 50 (758)
++.+-+|.++.....-.+ .. + .|+++-+|+|+|||-
T Consensus 23 L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTT 65 (233)
T PF05496_consen 23 LDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTT 65 (233)
T ss_dssp CCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHH
T ss_pred HHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhH
Confidence 456778999988754333 22 2 579999999999986
No 342
>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=70.01 E-value=8.2 Score=41.26 Aligned_cols=30 Identities=17% Similarity=0.187 Sum_probs=25.7
Q ss_pred HHHHHHHHHHhcCCceEEeccCCCchHHHH
Q 004379 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 23 ~~~~~i~~al~~~~~~liEAPTGTGKTlay 52 (758)
.++..+..++++++.+++-+|||+|||-..
T Consensus 131 ~~~ayL~~~ie~~~siii~G~t~sGKTt~l 160 (312)
T COG0630 131 EQAAYLWLAIEARKSIIICGGTASGKTTLL 160 (312)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHH
Confidence 355568999999999999999999999843
No 343
>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=69.79 E-value=4.2 Score=49.84 Aligned_cols=39 Identities=33% Similarity=0.309 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhcC-----------CceEEeccCCCchHHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~-----------~~~liEAPTGTGKTlayL~pal~~ 59 (758)
-+|...++.|.+++... ..+++.+|||||||. |+-+|+.
T Consensus 568 ~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~--lA~~La~ 617 (852)
T TIGR03346 568 VGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTE--LAKALAE 617 (852)
T ss_pred CCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHH--HHHHHHH
Confidence 57999999999998752 347899999999997 5556653
No 344
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.78 E-value=5 Score=48.37 Aligned_cols=34 Identities=24% Similarity=0.275 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhcC--Cce-EEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNK--CNA-LLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~--~~~-liEAPTGTGKTlayL 53 (758)
+|......+.+++.++ .|+ |+.+|.|||||....
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLAR 56 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLAR 56 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHH
Confidence 7999999999999887 455 899999999998655
No 345
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=69.76 E-value=8.1 Score=44.13 Aligned_cols=21 Identities=38% Similarity=0.393 Sum_probs=16.6
Q ss_pred hcCCceEEeccCCCchHHHHH
Q 004379 33 QNKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 33 ~~~~~~liEAPTGTGKTlayL 53 (758)
-.|...++.+|+|||||.-.+
T Consensus 261 ~~gs~~li~G~~G~GKt~l~~ 281 (484)
T TIGR02655 261 FKDSIILATGATGTGKTLLVS 281 (484)
T ss_pred cCCcEEEEECCCCCCHHHHHH
Confidence 345779999999999998333
No 346
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.68 E-value=5.7 Score=45.75 Aligned_cols=34 Identities=21% Similarity=0.218 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHhcCCc---eEEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~~---~liEAPTGTGKTlayL 53 (758)
+|......+..++..++. .++.+|.|+|||....
T Consensus 20 Gq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr 56 (546)
T PRK14957 20 GQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGR 56 (546)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 899999999999988743 6899999999998554
No 347
>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=69.55 E-value=3.6 Score=43.34 Aligned_cols=17 Identities=29% Similarity=0.341 Sum_probs=14.7
Q ss_pred CceEEeccCCCchHHHH
Q 004379 36 CNALLESPTGTGKTLCL 52 (758)
Q Consensus 36 ~~~liEAPTGTGKTlay 52 (758)
.++++.+|+|||||...
T Consensus 59 ~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVA 75 (284)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 47999999999999744
No 348
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=69.49 E-value=2.6 Score=44.94 Aligned_cols=29 Identities=21% Similarity=0.258 Sum_probs=24.1
Q ss_pred CCceEEeccCCCchHHHHHHHHHHHHHhh
Q 004379 35 KCNALLESPTGTGKTLCLLCATLAWRKSL 63 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal~~~~~~ 63 (758)
|+.++--|-||+|||+.+.+|.+.++.+.
T Consensus 207 GRDmIGIAfTGSGKTlvFvLP~imf~Leq 235 (610)
T KOG0341|consen 207 GRDMIGIAFTGSGKTLVFVLPVIMFALEQ 235 (610)
T ss_pred cCceeeEEeecCCceEEEeHHHHHHHHHH
Confidence 44467778899999999999999887764
No 349
>PRK06893 DNA replication initiation factor; Validated
Probab=69.43 E-value=11 Score=38.20 Aligned_cols=36 Identities=11% Similarity=0.186 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHHH
Q 004379 21 QLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 21 Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal~ 58 (758)
...++..+.+.+... ..+++-+|+|||||- |+-|++
T Consensus 23 ~~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTh--L~~ai~ 60 (229)
T PRK06893 23 NLLLLDSLRKNFIDLQQPFFYIWGGKSSGKSH--LLKAVS 60 (229)
T ss_pred hHHHHHHHHHHhhccCCCeEEEECCCCCCHHH--HHHHHH
Confidence 344555566655533 236899999999997 444443
No 350
>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=69.43 E-value=9.5 Score=48.84 Aligned_cols=37 Identities=24% Similarity=0.210 Sum_probs=29.2
Q ss_pred CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
-+.|.+.+. ..+++++|.|+-|||||..+.--++..+
T Consensus 3 t~~Q~~ai~------~~~~~~lv~A~AGsGKT~~lv~r~~~~~ 39 (1232)
T TIGR02785 3 TDEQWQAIY------TRGQNILVSASAGSGKTAVLVERIIKKI 39 (1232)
T ss_pred CHHHHHHHh------CCCCCEEEEecCCCcHHHHHHHHHHHHH
Confidence 467877765 3678999999999999998877766544
No 351
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=69.36 E-value=18 Score=43.64 Aligned_cols=138 Identities=19% Similarity=0.356 Sum_probs=0.0
Q ss_pred CeeeEcCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCC
Q 004379 2 PTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQ 81 (758)
Q Consensus 2 ~~~~i~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~ 81 (758)
|...++| +-++.|+.-.+=...-++++=++++-=.+|-|||..-+ +-++|.-+.+.
T Consensus 387 ps~l~GG-------~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtI-sLitYLmE~K~---------------- 442 (1157)
T KOG0386|consen 387 PSSLQGG-------ELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTI-SLITYLMEHKQ---------------- 442 (1157)
T ss_pred cchhcCC-------CCchhhhhhhHHHhhccCCCcccccchhcccchHHHHH-HHHHHHHHHcc----------------
Q ss_pred CCCCCCCCCCCCCCeEEEeCCccchHHHHHHHhhcCCCCCceEEecCCcccccchhhhhccCcchhHHHHHHhhcCCCCC
Q 004379 82 SSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELKTSNYRPKMVILGSREQLCIHREVSLLRGSAQNNACRFLCKKGTNRR 161 (758)
Q Consensus 82 ~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~eLkkl~~~~~~~~l~sr~~lCi~~~~~~~~~~~~~~~c~~l~~~~~~~~ 161 (758)
...|..|++.- ...
T Consensus 443 ----------~~GP~LvivPl--------------------------------------------------------stL 456 (1157)
T KOG0386|consen 443 ----------MQGPFLIIVPL--------------------------------------------------------STL 456 (1157)
T ss_pred ----------cCCCeEEeccc--------------------------------------------------------ccc
Q ss_pred CCCCcchhhhhhcCCCCCCCCC--ChhHHHHhcccCCCcchhhhhhhhcCccEEEecCcccc-ChhhhhccCCCccccEE
Q 004379 162 CNHHSRVADYMKNNPHLGDEPI--DIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLI-DPWFRKGLGVEWKNSIL 238 (758)
Q Consensus 162 c~~~~~~~~~~~~~~~~~~~~~--di~~l~~~~~~~~~CpY~~~r~~~~~AdIIv~ny~yLl-~~~~~~~~~i~~~~~il 238 (758)
-.|...++.| .+.+..-.+ ....-..+- ..-+..+++|+++.|-|++ |+..-.. |.|+ .+
T Consensus 457 ~NW~~Ef~kW---aPSv~~i~YkGtp~~R~~l~----------~qir~gKFnVLlTtyEyiikdk~lLsK--I~W~--yM 519 (1157)
T KOG0386|consen 457 VNWSSEFPKW---APSVQKIQYKGTPQQRSGLT----------KQQRHGKFNVLLTTYEYIIKDKALLSK--ISWK--YM 519 (1157)
T ss_pred CCchhhcccc---ccceeeeeeeCCHHHHhhHH----------HHHhcccceeeeeeHHHhcCCHHHHhc--cCCc--ce
Q ss_pred EEeCCcch
Q 004379 239 IFDEAHNL 246 (758)
Q Consensus 239 IiDEAHnL 246 (758)
||||+|.+
T Consensus 520 IIDEGHRm 527 (1157)
T KOG0386|consen 520 IIDEGHRM 527 (1157)
T ss_pred eecccccc
No 352
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=69.33 E-value=2.9 Score=43.48 Aligned_cols=17 Identities=29% Similarity=0.462 Sum_probs=14.6
Q ss_pred CceEEeccCCCchHHHH
Q 004379 36 CNALLESPTGTGKTLCL 52 (758)
Q Consensus 36 ~~~liEAPTGTGKTlay 52 (758)
.++++.+|+|||||...
T Consensus 43 ~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVA 59 (261)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 57899999999999743
No 353
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=69.22 E-value=8.6 Score=46.42 Aligned_cols=38 Identities=21% Similarity=0.150 Sum_probs=28.2
Q ss_pred CHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHh
Q 004379 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKS 62 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~ 62 (758)
-|.|++.+.. ..++++|-|+.|||||-.+..- ++|+..
T Consensus 6 n~~Q~~av~~------~~g~~lV~AgaGSGKT~~l~~r-ia~Li~ 43 (726)
T TIGR01073 6 NPEQREAVKT------TEGPLLIMAGAGSGKTRVLTHR-IAHLIA 43 (726)
T ss_pred CHHHHHHHhC------CCCCEEEEeCCCCCHHHHHHHH-HHHHHH
Confidence 4678775542 3588999999999999987766 555554
No 354
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=69.19 E-value=3.3 Score=47.31 Aligned_cols=25 Identities=20% Similarity=0.472 Sum_probs=22.5
Q ss_pred HHHHHHHhcCCceEEeccCCCchHH
Q 004379 26 EKVIQSLQNKCNALLESPTGTGKTL 50 (758)
Q Consensus 26 ~~i~~al~~~~~~liEAPTGTGKTl 50 (758)
+++..|+++.+.++|++.||+|||-
T Consensus 271 dell~av~e~QVLiI~GeTGSGKTT 295 (902)
T KOG0923|consen 271 DELLKAVKEHQVLIIVGETGSGKTT 295 (902)
T ss_pred HHHHHHHHhCcEEEEEcCCCCCccc
Confidence 4677888999999999999999997
No 355
>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=69.12 E-value=7.3 Score=42.08 Aligned_cols=42 Identities=26% Similarity=0.394 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHhcC----CceEEeccCCCchHHHHHHHHHHHHHhhCC
Q 004379 20 CQLVYMEKVIQSLQNK----CNALLESPTGTGKTLCLLCATLAWRKSLGS 65 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~----~~~liEAPTGTGKTlayL~pal~~~~~~~~ 65 (758)
..++.+--|.+-++++ +.+++-+|+|||||. |.-|+ ++..++
T Consensus 31 ~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTA--lA~~i--a~eLG~ 76 (398)
T PF06068_consen 31 KAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTA--LAMAI--AKELGE 76 (398)
T ss_dssp HHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHH--HHHHH--HHHCTT
T ss_pred HHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchH--HHHHH--HHHhCC
Confidence 4567777788888776 568999999999998 43344 455553
No 356
>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=68.95 E-value=10 Score=39.67 Aligned_cols=20 Identities=35% Similarity=0.542 Sum_probs=16.3
Q ss_pred ceEEeccCCCchHHHHHHHHHH
Q 004379 37 NALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 37 ~~liEAPTGTGKTlayL~pal~ 58 (758)
+++|=+|||+|||- |+-.|.
T Consensus 89 I~~VYGPTG~GKSq--LlRNLi 108 (369)
T PF02456_consen 89 IGVVYGPTGSGKSQ--LLRNLI 108 (369)
T ss_pred EEEEECCCCCCHHH--HHHHhh
Confidence 37899999999997 666664
No 357
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=68.84 E-value=63 Score=35.22 Aligned_cols=70 Identities=23% Similarity=0.314 Sum_probs=44.3
Q ss_pred cCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecC
Q 004379 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (758)
Q Consensus 515 ~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g 594 (758)
..+.+++|+.+..+...+.+.+--.+ + .. .-+.-.++..+.+..++.|+. ++=-||+++ .
T Consensus 464 ~ndKvIiFv~~K~~AD~LSSd~~l~g------i----~~--q~lHG~r~Q~DrE~al~~~ks------G~vrILvaT--D 523 (629)
T KOG0336|consen 464 SNDKVIIFVSRKVMADHLSSDFCLKG------I----SS--QSLHGNREQSDREMALEDFKS------GEVRILVAT--D 523 (629)
T ss_pred CCceEEEEEechhhhhhccchhhhcc------c----ch--hhccCChhhhhHHHHHHhhhc------CceEEEEEe--c
Confidence 34678888888777655554332111 1 00 112223344457788888885 455788888 7
Q ss_pred ccccccccCC
Q 004379 595 KVSEGLDFAD 604 (758)
Q Consensus 595 ~~~EGiD~~~ 604 (758)
-.|.|+|++|
T Consensus 524 laSRGlDv~D 533 (629)
T KOG0336|consen 524 LASRGLDVPD 533 (629)
T ss_pred hhhcCCCchh
Confidence 8899999999
No 358
>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=68.62 E-value=7.9 Score=36.09 Aligned_cols=56 Identities=18% Similarity=0.126 Sum_probs=36.4
Q ss_pred HhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHH
Q 004379 32 LQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVI 111 (758)
Q Consensus 32 l~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i 111 (758)
|..|+.-++...+|+|||--+|--.+.-.... ..++++..+|.-..+.+-
T Consensus 1 ~~kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~------------------------------~~rvLvL~PTRvva~em~ 50 (148)
T PF07652_consen 1 FRKGELTVLDLHPGAGKTRRVLPEIVREAIKR------------------------------RLRVLVLAPTRVVAEEMY 50 (148)
T ss_dssp GSTTEEEEEE--TTSSTTTTHHHHHHHHHHHT------------------------------T--EEEEESSHHHHHHHH
T ss_pred CCCCceeEEecCCCCCCcccccHHHHHHHHHc------------------------------cCeEEEecccHHHHHHHH
Confidence 34667789999999999998884433222211 247999999988887777
Q ss_pred HHhhcC
Q 004379 112 QELKTS 117 (758)
Q Consensus 112 ~eLkkl 117 (758)
+.|+..
T Consensus 51 ~aL~~~ 56 (148)
T PF07652_consen 51 EALKGL 56 (148)
T ss_dssp HHTTTS
T ss_pred HHHhcC
Confidence 767643
No 359
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=68.46 E-value=6.1 Score=43.71 Aligned_cols=36 Identities=28% Similarity=0.290 Sum_probs=24.7
Q ss_pred CHHH-HHHHHHHHHHHhcC--CceEEeccCCCchHHHHH
Q 004379 18 YDCQ-LVYMEKVIQSLQNK--CNALLESPTGTGKTLCLL 53 (758)
Q Consensus 18 r~~Q-~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL 53 (758)
|+.| .++...+..++.++ .++++-+|+|||||...-
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~ 73 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVK 73 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHH
Confidence 5544 44455555556533 569999999999999654
No 360
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=68.35 E-value=22 Score=37.42 Aligned_cols=19 Identities=42% Similarity=0.443 Sum_probs=15.0
Q ss_pred CCceEEeccCCCchHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL 53 (758)
++.+++-+|||+|||-...
T Consensus 194 ~~vi~~vGptGvGKTTt~~ 212 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLA 212 (282)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 3567888999999998543
No 361
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=68.28 E-value=24 Score=38.85 Aligned_cols=21 Identities=33% Similarity=0.382 Sum_probs=16.7
Q ss_pred CceEEeccCCCchHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCAT 56 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pa 56 (758)
+++++=+|||+|||-...-=|
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA 195 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLA 195 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 578899999999998664333
No 362
>PF10673 DUF2487: Protein of unknown function (DUF2487); InterPro: IPR019615 This entry represents proteins with unknown function that appears to be restricted to Bacillus sp.
Probab=68.27 E-value=25 Score=32.65 Aligned_cols=95 Identities=15% Similarity=0.334 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHh
Q 004379 499 EYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKL 578 (758)
Q Consensus 499 ~~~~~l~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i 578 (758)
+|+..+++.+.+-. .|=+++||+|.++..- +.+.....+.++.+.+
T Consensus 35 E~~~~l~~~lErqf----KGRv~l~P~~~Y~~~~------------------------------~~~~~~~~L~~w~~~l 80 (142)
T PF10673_consen 35 EFLRLLADELERQF----KGRVLLFPAFTYLKEE------------------------------DEEELVERLNDWCEEL 80 (142)
T ss_pred HHHHHHHHHHHHhc----CceEEecCCeeeeccc------------------------------chhHHHHHHHHHHHHH
Confidence 44555555554444 3668899999885321 1111223455565555
Q ss_pred ccCCCCCeEEEEEecCcccc-ccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHH
Q 004379 579 KDTSTSGAVFFAVCRGKVSE-GLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQ 635 (758)
Q Consensus 579 ~~~~~~~~vL~~v~~g~~~E-GiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~ 635 (758)
...+-++.+++.. ..-|. .-++.| ..+.+..+|+...++ .+|++-++++
T Consensus 81 ~~~GFkhV~~lT~--D~~Wk~~~~~~~---~liwlPaipLe~md~---~~k~~iv~~q 130 (142)
T PF10673_consen 81 KESGFKHVFYLTS--DSEWKQEEELEG---SLIWLPAIPLEHMDD---SAKQEIVEDQ 130 (142)
T ss_pred HhcCCcEEEEEec--CcccccccCCCC---cEEEEeCccccccCH---HHHHHHHHHH
Confidence 5544455566555 45576 555555 478899999988765 5666666554
No 363
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=68.25 E-value=2 Score=50.62 Aligned_cols=25 Identities=32% Similarity=0.379 Sum_probs=22.9
Q ss_pred cCCceEEeccCCCchHHHHHHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
..+|+++-||||+|||.++.+|.|.
T Consensus 143 g~~hvLviApTrSGKgvg~VIPnLL 167 (663)
T PRK13876 143 GPEHVLCFAPTRSGKGVGLVVPTLL 167 (663)
T ss_pred CCceEEEEecCCCCcceeEehhhHH
Confidence 3489999999999999999999985
No 364
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=68.23 E-value=7.6 Score=41.57 Aligned_cols=37 Identities=22% Similarity=0.258 Sum_probs=32.1
Q ss_pred CCHHHHHHHHHHHHHHhcCC--c-eEEeccCCCchHHHHH
Q 004379 17 AYDCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLL 53 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~--~-~liEAPTGTGKTlayL 53 (758)
.||.|......+..++.+++ | .++.+|.|+||+...+
T Consensus 5 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~ 44 (319)
T PRK08769 5 FSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVAL 44 (319)
T ss_pred ccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHH
Confidence 68999999999999999884 3 7899999999988554
No 365
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=68.03 E-value=5.7 Score=42.83 Aligned_cols=33 Identities=30% Similarity=0.356 Sum_probs=25.0
Q ss_pred HHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHH
Q 004379 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 23 ~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal 57 (758)
++.+.+..+-..+.+++|.+++||||++ +.-+|
T Consensus 10 ~~~~~~~~~a~~~~pVLI~GE~GtGK~~--lAr~i 42 (329)
T TIGR02974 10 EVLEQVSRLAPLDRPVLIIGERGTGKEL--IAARL 42 (329)
T ss_pred HHHHHHHHHhCCCCCEEEECCCCChHHH--HHHHH
Confidence 4455666666778999999999999998 43444
No 366
>PRK10865 protein disaggregation chaperone; Provisional
Probab=67.95 E-value=4.7 Score=49.39 Aligned_cols=38 Identities=37% Similarity=0.450 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHhcC-----------CceEEeccCCCchHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~-----------~~~liEAPTGTGKTlayL~pal~ 58 (758)
-+|...+..|.+++... ..+++.+|||||||. |.-+|+
T Consensus 571 iGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~--lA~aLa 619 (857)
T PRK10865 571 IGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTE--LCKALA 619 (857)
T ss_pred eCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHH--HHHHHH
Confidence 48889888888888642 357999999999999 444554
No 367
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=67.74 E-value=12 Score=45.06 Aligned_cols=138 Identities=15% Similarity=0.145 Sum_probs=76.0
Q ss_pred hchhhhcccccEEEEecccCCCh-HhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHH
Q 004379 426 AMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQEL 504 (758)
Q Consensus 426 ~l~~~l~~~~~~vil~SaTL~p~-~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l 504 (758)
.++.++. .+..+--|+||.... +.|....|++... .|.-- |. .. .+.++ .-|.+ ..+-..++
T Consensus 366 T~QnfFr-~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~---IPTnk-P~---~R--~d~~d-----~vy~t--~~~K~~Ai 428 (939)
T PRK12902 366 TYQNFFL-LYPKLAGMTGTAKTEEVEFEKTYKLEVTV---IPTNR-PR---RR--QDWPD-----QVYKT--EIAKWRAV 428 (939)
T ss_pred eHHHHHh-hCchhcccCCCCHHHHHHHHHHhCCcEEE---cCCCC-Ce---ee--ecCCC-----eEEcC--HHHHHHHH
Confidence 3444444 667888899998653 3577777775311 11111 00 00 01110 11222 23334677
Q ss_pred HHHHHHHhhhcCCcEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC--CCCChHHHHHHHHHHhccCC
Q 004379 505 GNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR--QSSLFPLAIEDYMAKLKDTS 582 (758)
Q Consensus 505 ~~~i~~~~~~~~g~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~--~~~~~~~~i~~~~~~i~~~~ 582 (758)
++.|.++.. .+..|||-..|-+.=+.+...|.+.+.. . -++.-+ +...=.++++ ...
T Consensus 429 ~~ei~~~~~-~GrPVLIgT~SVe~SE~ls~~L~~~gi~------h-------~vLNAk~~~~~~EA~IIa-------~AG 487 (939)
T PRK12902 429 ANETAEMHK-QGRPVLVGTTSVEKSELLSALLQEQGIP------H-------NLLNAKPENVEREAEIVA-------QAG 487 (939)
T ss_pred HHHHHHHHh-CCCCEEEeeCCHHHHHHHHHHHHHcCCc------h-------heeeCCCcchHhHHHHHH-------hcC
Confidence 777777553 5668999999999999998888765311 1 122211 1111112222 123
Q ss_pred CCCeEEEEEecCccccccccC
Q 004379 583 TSGAVFFAVCRGKVSEGLDFA 603 (758)
Q Consensus 583 ~~~~vL~~v~~g~~~EGiD~~ 603 (758)
..|+|-+|+ .-...|-|+.
T Consensus 488 ~~GaVTIAT--NMAGRGTDIk 506 (939)
T PRK12902 488 RKGAVTIAT--NMAGRGTDII 506 (939)
T ss_pred CCCcEEEec--cCCCCCcCEe
Confidence 579999998 5667998874
No 368
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=67.70 E-value=6.8 Score=44.89 Aligned_cols=22 Identities=50% Similarity=0.640 Sum_probs=18.3
Q ss_pred CceEEeccCCCchHHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~ 59 (758)
+.+++.+|+|||||. |+-+++.
T Consensus 89 ~giLL~GppGtGKT~--la~alA~ 110 (495)
T TIGR01241 89 KGVLLVGPPGTGKTL--LAKAVAG 110 (495)
T ss_pred CcEEEECCCCCCHHH--HHHHHHH
Confidence 469999999999999 6677753
No 369
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=67.68 E-value=7.7 Score=42.43 Aligned_cols=21 Identities=33% Similarity=0.324 Sum_probs=17.3
Q ss_pred hcCCceEEeccCCCchHHHHH
Q 004379 33 QNKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 33 ~~~~~~liEAPTGTGKTlayL 53 (758)
.+++++++-+|||+|||....
T Consensus 135 ~~g~ii~lvGptGvGKTTtia 155 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTA 155 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHH
Confidence 446789999999999999543
No 370
>CHL00095 clpC Clp protease ATP binding subunit
Probab=67.57 E-value=5.2 Score=48.90 Aligned_cols=39 Identities=31% Similarity=0.302 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhcC-----------CceEEeccCCCchHHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~-----------~~~liEAPTGTGKTlayL~pal~~ 59 (758)
.+|.+.++.|.+++... ...++-+|||+|||. |+-+|+.
T Consensus 512 ~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~--lA~~LA~ 561 (821)
T CHL00095 512 IGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTE--LTKALAS 561 (821)
T ss_pred cChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHH--HHHHHHH
Confidence 58999999999998632 136899999999996 5556653
No 371
>CHL00176 ftsH cell division protein; Validated
Probab=67.54 E-value=6.5 Score=46.28 Aligned_cols=39 Identities=36% Similarity=0.474 Sum_probs=28.1
Q ss_pred CHHHHHHHHHHHHHHhcC-----------CceEEeccCCCchHHHHHHHHHH
Q 004379 18 YDCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~-----------~~~liEAPTGTGKTlayL~pal~ 58 (758)
.+.+++-+..+.+.+.+. +.+++.+|+|||||+ |+-+++
T Consensus 188 ~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~--LAralA 237 (638)
T CHL00176 188 IEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTL--LAKAIA 237 (638)
T ss_pred hHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHH--HHHHHH
Confidence 455556666666666543 358999999999999 667775
No 372
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=67.44 E-value=13 Score=41.83 Aligned_cols=21 Identities=24% Similarity=0.316 Sum_probs=16.8
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
.++++-+|+|+|||. |+-|++
T Consensus 131 n~l~lyG~~G~GKTH--Ll~ai~ 151 (440)
T PRK14088 131 NPLFIYGGVGLGKTH--LLQSIG 151 (440)
T ss_pred CeEEEEcCCCCcHHH--HHHHHH
Confidence 469999999999998 545554
No 373
>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=67.44 E-value=6.1 Score=43.08 Aligned_cols=27 Identities=22% Similarity=0.458 Sum_probs=20.4
Q ss_pred HHHHHHHh-cCCceEEeccCCCchHHHH
Q 004379 26 EKVIQSLQ-NKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 26 ~~i~~al~-~~~~~liEAPTGTGKTlay 52 (758)
..+.+.+. .++.+++-+|||+|||-.+
T Consensus 124 ~~~~~~~~~~~glilI~GpTGSGKTTtL 151 (358)
T TIGR02524 124 AAIIDAIAPQEGIVFITGATGSGKSTLL 151 (358)
T ss_pred HHHHHHHhccCCEEEEECCCCCCHHHHH
Confidence 34555555 6688999999999999843
No 374
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=67.39 E-value=6 Score=46.71 Aligned_cols=21 Identities=52% Similarity=0.749 Sum_probs=16.4
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
+-+++.+|.|||||| |.=|+|
T Consensus 345 kGvLL~GPPGTGKTL--LAKAiA 365 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTL--LAKAIA 365 (774)
T ss_pred CceEEECCCCCcHHH--HHHHHh
Confidence 458999999999999 444553
No 375
>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=67.17 E-value=7.4 Score=42.13 Aligned_cols=28 Identities=21% Similarity=0.215 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhcCCceEEeccCCCchHH
Q 004379 23 VYMEKVIQSLQNKCNALLESPTGTGKTL 50 (758)
Q Consensus 23 ~~~~~i~~al~~~~~~liEAPTGTGKTl 50 (758)
+++.-+..++..++++++-+|||+|||-
T Consensus 166 ~~~~~L~~~v~~~~~ili~G~tGsGKTT 193 (340)
T TIGR03819 166 GVARLLRAIVAARLAFLISGGTGSGKTT 193 (340)
T ss_pred HHHHHHHHHHhCCCeEEEECCCCCCHHH
Confidence 4445556667788999999999999987
No 376
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=67.00 E-value=6 Score=46.34 Aligned_cols=36 Identities=19% Similarity=0.198 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHhcCC--c-eEEeccCCCchHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLLC 54 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~--~-~liEAPTGTGKTlayL~ 54 (758)
-+|....+.+..++.+++ | .|+.+|.|+|||....+
T Consensus 19 iGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~ 57 (585)
T PRK14950 19 VGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARI 57 (585)
T ss_pred cCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHH
Confidence 389999999999998874 3 38999999999986653
No 377
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=66.99 E-value=7.1 Score=42.46 Aligned_cols=34 Identities=21% Similarity=0.205 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHhcCC---ceEEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~---~~liEAPTGTGKTlayL 53 (758)
+|.+....+..++.+|+ ..++.+|+|+|||....
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 79999999999999986 38999999999997443
No 378
>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=66.99 E-value=6.8 Score=45.52 Aligned_cols=29 Identities=28% Similarity=0.591 Sum_probs=21.0
Q ss_pred CCceEEeccCCCchHHHHHHHHHHHHHhhC
Q 004379 35 KCNALLESPTGTGKTLCLLCATLAWRKSLG 64 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal~~~~~~~ 64 (758)
.+|+++-||||+|||.+ +-..|.|....+
T Consensus 176 ~~h~li~G~tGsGKs~~-i~~ll~~~~~~g 204 (566)
T TIGR02759 176 TQHILIHGTTGSGKSVA-IRKLLRWIRQRG 204 (566)
T ss_pred ccceEEEcCCCCCHHHH-HHHHHHHHHhcC
Confidence 47999999999999963 334455665443
No 379
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=66.86 E-value=6.6 Score=43.48 Aligned_cols=22 Identities=45% Similarity=0.670 Sum_probs=17.9
Q ss_pred CCceEEeccCCCchHHHHHHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal~ 58 (758)
.+.+++.+|+|||||+ |+-+++
T Consensus 179 pkgvLL~GppGTGKT~--LAkalA 200 (398)
T PTZ00454 179 PRGVLLYGPPGTGKTM--LAKAVA 200 (398)
T ss_pred CceEEEECCCCCCHHH--HHHHHH
Confidence 3679999999999999 555665
No 380
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=66.76 E-value=61 Score=38.41 Aligned_cols=126 Identities=16% Similarity=0.137 Sum_probs=75.5
Q ss_pred HHHHHHHHHHHhhhcCCc-EEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCC--------CChHHHH
Q 004379 501 KQELGNTIVNIARIVPDG-LLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS--------SLFPLAI 571 (758)
Q Consensus 501 ~~~l~~~i~~~~~~~~g~-~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~--------~~~~~~i 571 (758)
++.+.+.|.+..+..+.- +++|.--.+....+...+...... ++ ....|+-+..+ ..-.+.|
T Consensus 397 le~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~~~---~i------r~~~fiGq~~s~~~~gmtqk~Q~evl 467 (746)
T KOG0354|consen 397 LEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLHEL---GI------KAEIFIGQGKSTQSTGMTQKEQKEVL 467 (746)
T ss_pred HHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhhhhc---cc------ccceeeeccccccccccCHHHHHHHH
Confidence 577888888888766664 555544445555555544421100 11 11233332221 2345677
Q ss_pred HHHHHHhccCCCCCeEEEEEecCccccccccCCCCceEEEEEccCCCCCCCHHHHHHHHHHHHHhhccCCCccccccccC
Q 004379 572 EDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFL 651 (758)
Q Consensus 572 ~~~~~~i~~~~~~~~vL~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~dp~~~~k~~~l~~~~~~~f~~~~~~~~~~l 651 (758)
+.|+. ++--||+|+ .---||+|.+. |..||..+. .++
T Consensus 468 ~~Fr~------G~~NvLVAT--SV~EEGLDI~e--c~lVIcYd~----~sn----------------------------- 504 (746)
T KOG0354|consen 468 DKFRD------GEINVLVAT--SVAEEGLDIGE--CNLVICYDY----SSN----------------------------- 504 (746)
T ss_pred HHHhC------CCccEEEEe--cchhccCCccc--ccEEEEecC----Ccc-----------------------------
Confidence 88875 567899998 45569999998 777777642 111
Q ss_pred CcchhHHHHHHHHHHHhcCccccCCCCeEEEEEeeccC
Q 004379 652 SGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIFCDERF 689 (758)
Q Consensus 652 ~~~~~y~~~a~~~~~QaiGRlIR~~~D~g~villD~R~ 689 (758)
-++..|+.|| =|-.+-+.+++.-+...
T Consensus 505 ----------pIrmIQrrGR-gRa~ns~~vll~t~~~~ 531 (746)
T KOG0354|consen 505 ----------PIRMVQRRGR-GRARNSKCVLLTTGSEV 531 (746)
T ss_pred ----------HHHHHHHhcc-ccccCCeEEEEEcchhH
Confidence 2678899999 57766666666654443
No 381
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=66.36 E-value=11 Score=38.10 Aligned_cols=26 Identities=23% Similarity=0.314 Sum_probs=19.2
Q ss_pred HhcCCceEEeccCCCchHHHHHHHHH
Q 004379 32 LQNKCNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 32 l~~~~~~liEAPTGTGKTlayL~pal 57 (758)
+..|...++.+|+|+|||.-.+--|.
T Consensus 20 i~~g~i~~i~G~~GsGKT~l~~~la~ 45 (225)
T PRK09361 20 FERGTITQIYGPPGSGKTNICLQLAV 45 (225)
T ss_pred CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence 34457889999999999985554433
No 382
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=66.29 E-value=14 Score=40.42 Aligned_cols=19 Identities=47% Similarity=0.515 Sum_probs=16.5
Q ss_pred CCceEEeccCCCchHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL 53 (758)
++++++=+|||.|||-.+-
T Consensus 203 ~~vi~LVGPTGVGKTTTlA 221 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLA 221 (407)
T ss_pred CcEEEEECCCCCcHHHHHH
Confidence 7889999999999997653
No 383
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=66.14 E-value=6.8 Score=45.43 Aligned_cols=35 Identities=20% Similarity=0.299 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHhcC--Cc-eEEeccCCCchHHHHHH
Q 004379 20 CQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLLC 54 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~--~~-~liEAPTGTGKTlayL~ 54 (758)
+|......+.+++.++ .| .++.+|.|+|||..+.+
T Consensus 20 GQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~ 57 (605)
T PRK05896 20 GQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKI 57 (605)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 8999999999999876 33 68999999999986653
No 384
>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=66.06 E-value=5.9 Score=41.29 Aligned_cols=26 Identities=35% Similarity=0.454 Sum_probs=19.2
Q ss_pred HHHHHHhc-CCceEEeccCCCchHHHH
Q 004379 27 KVIQSLQN-KCNALLESPTGTGKTLCL 52 (758)
Q Consensus 27 ~i~~al~~-~~~~liEAPTGTGKTlay 52 (758)
.+.+++.. ++.+++-+|||+|||-.+
T Consensus 71 ~l~~~~~~~~GlilisG~tGSGKTT~l 97 (264)
T cd01129 71 IFRKLLEKPHGIILVTGPTGSGKTTTL 97 (264)
T ss_pred HHHHHHhcCCCEEEEECCCCCcHHHHH
Confidence 34455543 467899999999999854
No 385
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=65.73 E-value=6.1 Score=42.20 Aligned_cols=33 Identities=24% Similarity=0.195 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHhcCC--ce-EEeccCCCchHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC--NA-LLESPTGTGKTLCL 52 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~--~~-liEAPTGTGKTlay 52 (758)
+|.+..+.+...+.+++ ++ ++.+|+|+|||...
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la 60 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVA 60 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHH
Confidence 68888888888887773 44 45999999999843
No 386
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=65.48 E-value=7.1 Score=46.25 Aligned_cols=34 Identities=24% Similarity=0.232 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhcCC--ce-EEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC--NA-LLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~--~~-liEAPTGTGKTlayL 53 (758)
+|..+.+.+.+++.+++ |+ |+.+|.|||||....
T Consensus 20 GQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAr 56 (830)
T PRK07003 20 GQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSR 56 (830)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHH
Confidence 79999999999999873 44 899999999997554
No 387
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=65.38 E-value=10 Score=43.34 Aligned_cols=22 Identities=36% Similarity=0.493 Sum_probs=17.6
Q ss_pred HhcCCceEEeccCCCchHHHHH
Q 004379 32 LQNKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 32 l~~~~~~liEAPTGTGKTlayL 53 (758)
|-.|...++.+|+|||||.-.+
T Consensus 18 lp~g~~~Li~G~pGsGKT~la~ 39 (484)
T TIGR02655 18 LPIGRSTLVSGTSGTGKTLFSI 39 (484)
T ss_pred CCCCeEEEEEcCCCCCHHHHHH
Confidence 3456789999999999998444
No 388
>CHL00181 cbbX CbbX; Provisional
Probab=65.35 E-value=4.1 Score=42.99 Aligned_cols=19 Identities=32% Similarity=0.378 Sum_probs=15.5
Q ss_pred CCceEEeccCCCchHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL 53 (758)
+-|+++-+|+|||||..+-
T Consensus 59 ~~~ill~G~pGtGKT~lAr 77 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVAL 77 (287)
T ss_pred CceEEEECCCCCCHHHHHH
Confidence 3568999999999998544
No 389
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=65.10 E-value=16 Score=40.40 Aligned_cols=34 Identities=15% Similarity=0.153 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhc-----CCceEEeccCCCchHHHHHHHHHH
Q 004379 23 VYMEKVIQSLQN-----KCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 23 ~~~~~i~~al~~-----~~~~liEAPTGTGKTlayL~pal~ 58 (758)
+++.++..++.+ ...+++-+|+|.|||- |.-|+.
T Consensus 96 ~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTH--Ll~Aig 134 (408)
T COG0593 96 RLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTH--LLQAIG 134 (408)
T ss_pred HHHHHHHHHHHhccCCcCCcEEEECCCCCCHHH--HHHHHH
Confidence 344555555554 4789999999999998 555554
No 390
>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=65.10 E-value=5.2 Score=39.84 Aligned_cols=38 Identities=29% Similarity=0.474 Sum_probs=24.5
Q ss_pred hhhhhcCccEEEecCccccChhhhhccCCCccccEEEEeCCcchHH
Q 004379 203 TRELQKTVDIVFAPYNYLIDPWFRKGLGVEWKNSILIFDEAHNLEG 248 (758)
Q Consensus 203 ~r~~~~~AdIIv~ny~yLl~~~~~~~~~i~~~~~ilIiDEAHnL~d 248 (758)
.......-.|-+.+++|+=-. ..++++||+|||+|+--
T Consensus 96 ~~~~~~~~~Ie~~~~~~iRGr--------t~~~~~iIvDEaQN~t~ 133 (205)
T PF02562_consen 96 LEELIQNGKIEIEPLAFIRGR--------TFDNAFIIVDEAQNLTP 133 (205)
T ss_dssp HHHHHHTTSEEEEEGGGGTT----------B-SEEEEE-SGGG--H
T ss_pred HHHHhhcCeEEEEehhhhcCc--------cccceEEEEecccCCCH
Confidence 445556788899998887322 34678999999999853
No 391
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=65.02 E-value=7.4 Score=45.39 Aligned_cols=34 Identities=24% Similarity=0.268 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHhcCC--ce-EEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC--NA-LLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~--~~-liEAPTGTGKTlayL 53 (758)
+|..+...+.+++.+++ |+ |+.+|.|+|||....
T Consensus 20 GQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAr 56 (700)
T PRK12323 20 GQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSR 56 (700)
T ss_pred CcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHH
Confidence 89999999999999884 44 999999999997554
No 392
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=65.02 E-value=11 Score=43.43 Aligned_cols=24 Identities=38% Similarity=0.466 Sum_probs=18.8
Q ss_pred HHhcCCceEEeccCCCchHHHHHH
Q 004379 31 SLQNKCNALLESPTGTGKTLCLLC 54 (758)
Q Consensus 31 al~~~~~~liEAPTGTGKTlayL~ 54 (758)
.+-.|...++.+++|||||.-.+-
T Consensus 27 G~p~Gs~~li~G~pGsGKT~l~~q 50 (509)
T PRK09302 27 GLPKGRPTLVSGTAGTGKTLFALQ 50 (509)
T ss_pred CCCCCcEEEEEeCCCCCHHHHHHH
Confidence 344568899999999999995443
No 393
>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=65.01 E-value=7.1 Score=42.41 Aligned_cols=35 Identities=26% Similarity=0.263 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHhcCC---ceEEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~---~~liEAPTGTGKTlayL 53 (758)
-+|.+..+.+.+++.+++ ..++.+|.|+|||....
T Consensus 17 ig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~ 54 (355)
T TIGR02397 17 IGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIAR 54 (355)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 479999999999998874 35899999999997553
No 394
>CHL00195 ycf46 Ycf46; Provisional
Probab=64.98 E-value=9.7 Score=43.34 Aligned_cols=22 Identities=36% Similarity=0.400 Sum_probs=18.3
Q ss_pred CceEEeccCCCchHHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~ 59 (758)
+.+++-+|+|||||+ |+-|++.
T Consensus 260 kGILL~GPpGTGKTl--lAkaiA~ 281 (489)
T CHL00195 260 RGLLLVGIQGTGKSL--TAKAIAN 281 (489)
T ss_pred ceEEEECCCCCcHHH--HHHHHHH
Confidence 569999999999998 6677764
No 395
>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=64.92 E-value=12 Score=37.25 Aligned_cols=24 Identities=21% Similarity=0.290 Sum_probs=18.5
Q ss_pred cCCceEEeccCCCchHHHHHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL~pal 57 (758)
.|....+.+|+|+|||.-.+--+.
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~ 34 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAV 34 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 457789999999999996654433
No 396
>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=64.86 E-value=22 Score=43.96 Aligned_cols=20 Identities=35% Similarity=0.602 Sum_probs=16.9
Q ss_pred cCCceEEeccCCCchHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL 53 (758)
...|++|-+|||+|||...-
T Consensus 474 ~n~n~~I~G~TGSGKS~l~~ 493 (893)
T TIGR03744 474 KNAHLLILGPTGAGKSATLT 493 (893)
T ss_pred CcccEEEECCCCCCHHHHHH
Confidence 35889999999999998554
No 397
>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=64.72 E-value=7 Score=40.56 Aligned_cols=22 Identities=18% Similarity=0.200 Sum_probs=17.6
Q ss_pred HhcCCceEEeccCCCchHHHHH
Q 004379 32 LQNKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 32 l~~~~~~liEAPTGTGKTlayL 53 (758)
+-.|...++.+|+|||||.-.+
T Consensus 33 ip~gs~~lI~G~pGtGKT~l~~ 54 (259)
T TIGR03878 33 IPAYSVINITGVSDTGKSLMVE 54 (259)
T ss_pred eECCcEEEEEcCCCCCHHHHHH
Confidence 3456778999999999999444
No 398
>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=64.66 E-value=8.5 Score=44.81 Aligned_cols=32 Identities=28% Similarity=0.512 Sum_probs=22.7
Q ss_pred HHHHHh-cCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 28 VIQSLQ-NKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 28 i~~al~-~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
+.+++. .++.+++-+|||+|||-.+ .++|.+.
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 3477899999999999864 5566554
No 399
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=64.57 E-value=1.8 Score=51.03 Aligned_cols=24 Identities=33% Similarity=0.408 Sum_probs=22.2
Q ss_pred CCceEEeccCCCchHHHHHHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal~ 58 (758)
..|+++-||||+|||.++.+|.|.
T Consensus 175 ~~HvlviapTgSGKgvg~ViPnLL 198 (636)
T PRK13880 175 PEHVLTYAPTRSGKGVGLVVPTLL 198 (636)
T ss_pred CceEEEEecCCCCCceEEEccchh
Confidence 478999999999999999999985
No 400
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=64.50 E-value=7.6 Score=43.83 Aligned_cols=35 Identities=23% Similarity=0.117 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHhcCC--c-eEEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~--~-~liEAPTGTGKTlayL 53 (758)
-+|......+.+++..++ | .++.+|.|+|||....
T Consensus 20 iGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~ 57 (451)
T PRK06305 20 LGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLAR 57 (451)
T ss_pred cCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHH
Confidence 389999999999998873 3 6899999999998665
No 401
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.46 E-value=7.8 Score=45.55 Aligned_cols=34 Identities=26% Similarity=0.265 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHhcCC---ceEEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~---~~liEAPTGTGKTlayL 53 (758)
+|.+....+..++.+++ +.|+.+|.|||||....
T Consensus 20 Gq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~ 56 (620)
T PRK14948 20 GQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSAR 56 (620)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHH
Confidence 79999999999999874 35899999999998665
No 402
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=64.28 E-value=5.5 Score=38.97 Aligned_cols=25 Identities=16% Similarity=0.389 Sum_probs=21.2
Q ss_pred CceEEeccCCCchHHHHHHHHHHHHHh
Q 004379 36 CNALLESPTGTGKTLCLLCATLAWRKS 62 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~~~~ 62 (758)
+..+|-+|+|+|||. |+-||.|+-.
T Consensus 20 g~~vi~G~Ng~GKSt--il~ai~~~L~ 44 (202)
T PF13476_consen 20 GLNVIYGPNGSGKST--ILEAIRYALG 44 (202)
T ss_dssp EEEEEEESTTSSHHH--HHHHHHHHHH
T ss_pred CcEEEECCCCCCHHH--HHHHHHHHHc
Confidence 567999999999998 6678888874
No 403
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=64.19 E-value=7.9 Score=45.90 Aligned_cols=35 Identities=26% Similarity=0.331 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHhcC--Cce-EEeccCCCchHHHHHH
Q 004379 20 CQLVYMEKVIQSLQNK--CNA-LLESPTGTGKTLCLLC 54 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~--~~~-liEAPTGTGKTlayL~ 54 (758)
+|......+.+++..+ .|+ |+.+|.|+|||..+.+
T Consensus 22 GQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~Ari 59 (725)
T PRK07133 22 GQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKI 59 (725)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHH
Confidence 8999999999999887 444 8999999999986653
No 404
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=64.06 E-value=5.7 Score=45.63 Aligned_cols=28 Identities=18% Similarity=0.442 Sum_probs=26.4
Q ss_pred HHHHHHHHHHhcCCceEEeccCCCchHH
Q 004379 23 VYMEKVIQSLQNKCNALLESPTGTGKTL 50 (758)
Q Consensus 23 ~~~~~i~~al~~~~~~liEAPTGTGKTl 50 (758)
++...|..++++++.+++-+.||+|||-
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKST 81 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKST 81 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCccc
Confidence 6788999999999999999999999997
No 405
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=63.77 E-value=12 Score=39.22 Aligned_cols=44 Identities=23% Similarity=0.224 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHhcC-CceEEeccCCCchHHHHHHHHHHHHHhh
Q 004379 19 DCQLVYMEKVIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSL 63 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~-~~~liEAPTGTGKTlayL~pal~~~~~~ 63 (758)
-.|+-+=..+.+.+... +-+++-+|||+|||-. |.+-+.|..++
T Consensus 108 ~e~LglP~i~~~~~~~~~GLILVTGpTGSGKSTT-lAamId~iN~~ 152 (353)
T COG2805 108 LEELGLPPIVRELAESPRGLILVTGPTGSGKSTT-LAAMIDYINKH 152 (353)
T ss_pred HHHcCCCHHHHHHHhCCCceEEEeCCCCCcHHHH-HHHHHHHHhcc
Confidence 35555555555544433 6688999999999874 34556666654
No 406
>PRK11054 helD DNA helicase IV; Provisional
Probab=63.35 E-value=18 Score=43.15 Aligned_cols=66 Identities=17% Similarity=0.228 Sum_probs=43.0
Q ss_pred CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCe
Q 004379 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k 96 (758)
.-+.|++.+. ...++++|-|+.|||||..++.- ++|+...+. ....+
T Consensus 197 L~~~Q~~av~------~~~~~~lV~agaGSGKT~vl~~r-~ayLl~~~~--------------------------~~~~~ 243 (684)
T PRK11054 197 LNPSQARAVV------NGEDSLLVLAGAGSGKTSVLVAR-AGWLLARGQ--------------------------AQPEQ 243 (684)
T ss_pred CCHHHHHHHh------CCCCCeEEEEeCCCCHHHHHHHH-HHHHHHhCC--------------------------CCHHH
Confidence 3567776553 23467899999999999977644 666664332 12247
Q ss_pred EEEeCCccchHHHHHHHhh
Q 004379 97 ILYTSRTHSQLRQVIQELK 115 (758)
Q Consensus 97 Ii~~trT~sql~Q~i~eLk 115 (758)
|++.|-|....+.+-+.|.
T Consensus 244 IL~ltft~~AA~em~eRL~ 262 (684)
T PRK11054 244 ILLLAFGRQAAEEMDERIR 262 (684)
T ss_pred eEEEeccHHHHHHHHHHHH
Confidence 8888888766555444443
No 407
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=63.35 E-value=8.1 Score=45.49 Aligned_cols=34 Identities=24% Similarity=0.215 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHhcCC--c-eEEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~--~-~liEAPTGTGKTlayL 53 (758)
+|..+...+..++..++ | +|+.+|.|+|||....
T Consensus 20 GQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAr 56 (709)
T PRK08691 20 GQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIAR 56 (709)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHH
Confidence 79999999999999884 3 5999999999997554
No 408
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=63.26 E-value=13 Score=42.86 Aligned_cols=20 Identities=40% Similarity=0.426 Sum_probs=16.0
Q ss_pred cCCceEEeccCCCchHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL 53 (758)
.|...++.+|+|+|||.-.+
T Consensus 272 ~g~~~li~G~~G~GKT~l~~ 291 (509)
T PRK09302 272 RGSIILVSGATGTGKTLLAS 291 (509)
T ss_pred CCcEEEEEcCCCCCHHHHHH
Confidence 35678899999999999443
No 409
>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=63.21 E-value=7.3 Score=45.14 Aligned_cols=32 Identities=22% Similarity=0.433 Sum_probs=23.0
Q ss_pred HHHHHHHHHhcCCceEEeccCCCchHHHHHHHHH
Q 004379 24 YMEKVIQSLQNKCNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 24 ~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal 57 (758)
+.+.+..+...+.+++|.++||||||. +.-+|
T Consensus 208 ~~~~~~~~a~~~~pvli~Ge~GtGK~~--lA~~i 239 (534)
T TIGR01817 208 VVDQARVVARSNSTVLLRGESGTGKEL--IAKAI 239 (534)
T ss_pred HHHHHHHHhCcCCCEEEECCCCccHHH--HHHHH
Confidence 344444455667899999999999998 43444
No 410
>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=63.19 E-value=3 Score=48.80 Aligned_cols=24 Identities=17% Similarity=0.152 Sum_probs=22.1
Q ss_pred CCceEEeccCCCchHHHHHHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal~ 58 (758)
..|+++-||||+|||.++.+|.|.
T Consensus 211 ~~H~lv~ApTgsGKgvg~VIPnLL 234 (623)
T TIGR02767 211 STHMIFFAGSGGFKTTSVVVPTAL 234 (623)
T ss_pred CceEEEEeCCCCCccceeehhhhh
Confidence 479999999999999999999874
No 411
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.16 E-value=9.1 Score=43.62 Aligned_cols=34 Identities=24% Similarity=0.322 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHhcCC--ce-EEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC--NA-LLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~--~~-liEAPTGTGKTlayL 53 (758)
+|...+..+..++.+++ |+ ++.+|.|+|||....
T Consensus 20 Gq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr 56 (486)
T PRK14953 20 GQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIAR 56 (486)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 89999999999999873 43 789999999987554
No 412
>PRK08084 DNA replication initiation factor; Provisional
Probab=63.10 E-value=19 Score=36.73 Aligned_cols=31 Identities=16% Similarity=0.171 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHhc--CCceEEeccCCCchHH
Q 004379 20 CQLVYMEKVIQSLQN--KCNALLESPTGTGKTL 50 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~--~~~~liEAPTGTGKTl 50 (758)
.+......+.+.... +.++++-+|+|+|||-
T Consensus 28 ~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKTh 60 (235)
T PRK08084 28 DNDSLLAALQNALRQEHSGYIYLWSREGAGRSH 60 (235)
T ss_pred ccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHH
Confidence 345555555554432 3679999999999997
No 413
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=63.00 E-value=22 Score=40.14 Aligned_cols=22 Identities=23% Similarity=0.206 Sum_probs=17.0
Q ss_pred CceEEeccCCCchHHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~ 59 (758)
..+++-+|+|+|||. |+-|++.
T Consensus 142 npl~i~G~~G~GKTH--Ll~Ai~~ 163 (450)
T PRK14087 142 NPLFIYGESGMGKTH--LLKAAKN 163 (450)
T ss_pred CceEEECCCCCcHHH--HHHHHHH
Confidence 468999999999995 5555543
No 414
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=62.95 E-value=9.9 Score=40.55 Aligned_cols=21 Identities=33% Similarity=0.420 Sum_probs=17.5
Q ss_pred CCc-eEEeccCCCchHHHHHHH
Q 004379 35 KCN-ALLESPTGTGKTLCLLCA 55 (758)
Q Consensus 35 ~~~-~liEAPTGTGKTlayL~p 55 (758)
..| +++.+|.|||||.+.++-
T Consensus 23 ~~halL~~Gp~G~Gktt~a~~l 44 (325)
T COG0470 23 LPHALLFYGPPGVGKTTAALAL 44 (325)
T ss_pred CCceeeeeCCCCCCHHHHHHHH
Confidence 366 999999999999987643
No 415
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=62.88 E-value=1.1e+02 Score=37.75 Aligned_cols=140 Identities=16% Similarity=0.160 Sum_probs=85.1
Q ss_pred cEEEEecccCCC--hHhHHhhhCCCCCccccCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHHHhh
Q 004379 436 GSIILTSGTLSP--MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIAR 513 (758)
Q Consensus 436 ~~vil~SaTL~p--~~~f~~~lGl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~~~~ 513 (758)
..+|-+.||.++ -....+.||+..+..+...| ...|++..+.+... +.. . ..+ ...+-.
T Consensus 421 vP~iALTATAT~~v~~DIi~~L~l~~~~~~~~sf--nR~NL~yeV~~k~~-----------~~~-~--~~~---~~~~~~ 481 (941)
T KOG0351|consen 421 VPFIALTATATERVREDVIRSLGLRNPELFKSSF--NRPNLKYEVSPKTD-----------KDA-L--LDI---LEESKL 481 (941)
T ss_pred CCeEEeehhccHHHHHHHHHHhCCCCcceecccC--CCCCceEEEEeccC-----------ccc-h--HHH---HHHhhh
Confidence 589999999976 46788899997655443333 24565555444321 111 1 111 222222
Q ss_pred hcCC-cEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCC-CCCChHHHHHHHHHHhccCCCCCeEEEEE
Q 004379 514 IVPD-GLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAV 591 (758)
Q Consensus 514 ~~~g-~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~-~~~~~~~~i~~~~~~i~~~~~~~~vL~~v 591 (758)
..++ -.+|++.|....+++...++..+.. -.++-.+ ....+..+-..|.. ++--|..|+
T Consensus 482 ~~~~~s~IIYC~sr~~ce~vs~~L~~~~~~-------------a~~YHAGl~~~~R~~Vq~~w~~------~~~~VivAT 542 (941)
T KOG0351|consen 482 RHPDQSGIIYCLSRKECEQVSAVLRSLGKS-------------AAFYHAGLPPKERETVQKAWMS------DKIRVIVAT 542 (941)
T ss_pred cCCCCCeEEEeCCcchHHHHHHHHHHhchh-------------hHhhhcCCCHHHHHHHHHHHhc------CCCeEEEEE
Confidence 3343 4899999999999999998865311 1111111 11223344455553 334566666
Q ss_pred ecCccccccccCCCCceEEEEEccCC
Q 004379 592 CRGKVSEGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 592 ~~g~~~EGiD~~~~~~r~vii~glPf 617 (758)
. .|.=|||.+| .|.||=.+||=
T Consensus 543 V--AFGMGIdK~D--VR~ViH~~lPk 564 (941)
T KOG0351|consen 543 V--AFGMGIDKPD--VRFVIHYSLPK 564 (941)
T ss_pred e--eccCCCCCCc--eeEEEECCCch
Confidence 3 8999999999 89999999884
No 416
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=62.84 E-value=6.9 Score=42.21 Aligned_cols=21 Identities=48% Similarity=0.714 Sum_probs=16.9
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
+-+++-+|+|||||+ |.=|++
T Consensus 246 kgvLm~GPPGTGKTl--LAKAvA 266 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTL--LAKAVA 266 (491)
T ss_pred ceeeeeCCCCCcHHH--HHHHHH
Confidence 448999999999999 655654
No 417
>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional
Probab=62.67 E-value=2.8 Score=43.21 Aligned_cols=50 Identities=24% Similarity=0.381 Sum_probs=37.5
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 1 ~~~~~i~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
|+.+.+.++.+.|+= + ...+.|-=.+..|+.+.+-+|.|+|||. |+-+|+
T Consensus 1 ~~~l~~~~l~~~~~~--~----~~l~~is~~i~~Ge~~~i~G~nGsGKST--Ll~~i~ 50 (250)
T PRK14247 1 MNKIEIRDLKVSFGQ--V----EVLDGVNLEIPDNTITALMGPSGSGKST--LLRVFN 50 (250)
T ss_pred CceEEEEeeEEEECC--e----eeeecceeEEcCCCEEEEECCCCCCHHH--HHHHHh
Confidence 788899999988751 1 1344554456788999999999999998 655564
No 418
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=62.60 E-value=25 Score=39.29 Aligned_cols=78 Identities=21% Similarity=0.239 Sum_probs=58.7
Q ss_pred cEEEEeccHHHHHHHHHHHhcCCCCCchhHHHHHhcCCCCeeCCCCCCChHHHHHHHHHHhccCCCCCeEEEEEecCccc
Q 004379 518 GLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVS 597 (758)
Q Consensus 518 ~~lv~f~Sy~~l~~v~~~~~~~~~~~~~~i~~~l~~~k~~~~e~~~~~~~~~~i~~~~~~i~~~~~~~~vL~~v~~g~~~ 597 (758)
.++||.-.-+...++...+...... -..+.-.+...+..+.+..|+. .+-.+|+++ .-.+
T Consensus 339 ~tlvFvEt~~~~d~l~~~l~~~~~~------------~~sIhg~~tq~er~~al~~Fr~------g~~pvlVaT--~Vaa 398 (482)
T KOG0335|consen 339 KTLVFVETKRGADELAAFLSSNGYP------------AKSIHGDRTQIEREQALNDFRN------GKAPVLVAT--NVAA 398 (482)
T ss_pred eEEEEeeccchhhHHHHHHhcCCCC------------ceeecchhhhhHHHHHHHHhhc------CCcceEEEe--hhhh
Confidence 5999999999999999888765322 0112223334567888888885 456799998 7899
Q ss_pred cccccCCCCceEEEEEccCC
Q 004379 598 EGLDFADHAGRAVVITGMPF 617 (758)
Q Consensus 598 EGiD~~~~~~r~vii~glPf 617 (758)
.|+|+++ .+.||..-||=
T Consensus 399 RGlDi~~--V~hVInyDmP~ 416 (482)
T KOG0335|consen 399 RGLDIPN--VKHVINYDMPA 416 (482)
T ss_pred cCCCCCC--CceeEEeecCc
Confidence 9999999 78999988874
No 419
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=62.54 E-value=8.2 Score=43.33 Aligned_cols=38 Identities=37% Similarity=0.536 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHhcC-----------CceEEeccCCCchHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~-----------~~~liEAPTGTGKTlayL~pal~ 58 (758)
+.=++=.++|.+-|++- +-+++-+|+|||||+ |.-|++
T Consensus 310 DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTl--LARAvA 358 (752)
T KOG0734|consen 310 DEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTL--LARAVA 358 (752)
T ss_pred HHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhH--HHHHhh
Confidence 34455567788888652 458999999999999 766664
No 420
>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=62.36 E-value=8.5 Score=38.20 Aligned_cols=29 Identities=24% Similarity=0.313 Sum_probs=19.5
Q ss_pred hcCCceEEeccCCCchHHHHHHHHHHHHH
Q 004379 33 QNKCNALLESPTGTGKTLCLLCATLAWRK 61 (758)
Q Consensus 33 ~~~~~~liEAPTGTGKTlayL~pal~~~~ 61 (758)
.+..|+++-++||+|||..+-.-++..+.
T Consensus 36 ~~~~h~li~G~tgsGKS~~l~~ll~~l~~ 64 (205)
T PF01580_consen 36 KKNPHLLIAGATGSGKSTLLRTLLLSLAL 64 (205)
T ss_dssp GGS-SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred CCCceEEEEcCCCCCccHHHHHHHHHHHH
Confidence 44569999999999999987765554444
No 421
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=62.09 E-value=8.6 Score=46.64 Aligned_cols=37 Identities=24% Similarity=0.232 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHhcC--Cc-eEEeccCCCchHHHHHHHH
Q 004379 20 CQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLLCAT 56 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~--~~-~liEAPTGTGKTlayL~pa 56 (758)
+|....+.+..++.++ .| .||++|.|+|||...++=|
T Consensus 19 Gqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lA 58 (824)
T PRK07764 19 GQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILA 58 (824)
T ss_pred CcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHH
Confidence 7999999999999887 45 5899999999998776543
No 422
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=62.07 E-value=10 Score=42.01 Aligned_cols=35 Identities=14% Similarity=0.229 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhcCC-----------c-eEEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKC-----------N-ALLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~-----------~-~liEAPTGTGKTlayL 53 (758)
-+|....+.+.+++..++ | .++.+|.|+|||....
T Consensus 8 iGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~ 54 (394)
T PRK07940 8 VGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAAR 54 (394)
T ss_pred cChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHH
Confidence 379999999999998764 3 7899999999987554
No 423
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=62.02 E-value=9.3 Score=44.89 Aligned_cols=34 Identities=21% Similarity=0.129 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHhcCCc---eEEeccCCCchHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLL 53 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~~---~liEAPTGTGKTlayL 53 (758)
+|......+.+++.+++. .|+.+|.|+|||....
T Consensus 20 GQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr 56 (647)
T PRK07994 20 GQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIAR 56 (647)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 899999999999998844 5899999999998554
No 424
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=61.92 E-value=7.4 Score=42.76 Aligned_cols=21 Identities=33% Similarity=0.357 Sum_probs=17.7
Q ss_pred hcCCceEEeccCCCchHHHHH
Q 004379 33 QNKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 33 ~~~~~~liEAPTGTGKTlayL 53 (758)
..+.++++.++|||||++..-
T Consensus 99 p~~~~vLi~GetGtGKel~A~ 119 (403)
T COG1221 99 PSGLPVLIIGETGTGKELFAR 119 (403)
T ss_pred CCCCcEEEecCCCccHHHHHH
Confidence 457999999999999998543
No 425
>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=61.85 E-value=17 Score=40.44 Aligned_cols=21 Identities=24% Similarity=0.292 Sum_probs=16.4
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
..+++-+|+|||||. |+-|++
T Consensus 137 n~l~l~G~~G~GKTh--L~~ai~ 157 (405)
T TIGR00362 137 NPLFIYGGVGLGKTH--LLHAIG 157 (405)
T ss_pred CeEEEECCCCCcHHH--HHHHHH
Confidence 458999999999998 444554
No 426
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=61.84 E-value=16 Score=41.08 Aligned_cols=22 Identities=32% Similarity=0.374 Sum_probs=17.6
Q ss_pred CceEEeccCCCchHHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~ 59 (758)
..+++-+|+|+|||- |+-|++.
T Consensus 142 npl~L~G~~G~GKTH--Ll~Ai~~ 163 (445)
T PRK12422 142 NPIYLFGPEGSGKTH--LMQAAVH 163 (445)
T ss_pred ceEEEEcCCCCCHHH--HHHHHHH
Confidence 468999999999998 5556654
No 427
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=61.83 E-value=10 Score=41.59 Aligned_cols=21 Identities=52% Similarity=0.721 Sum_probs=17.0
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
+.+++.+|+|||||. |+-+++
T Consensus 157 ~gvLL~GppGtGKT~--lakaia 177 (364)
T TIGR01242 157 KGVLLYGPPGTGKTL--LAKAVA 177 (364)
T ss_pred ceEEEECCCCCCHHH--HHHHHH
Confidence 458999999999998 555664
No 428
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.81 E-value=9.6 Score=41.76 Aligned_cols=35 Identities=26% Similarity=0.407 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhcCC---ceEEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~---~~liEAPTGTGKTlayL 53 (758)
-+|....+.+.+.+.+++ +.++.+|.|+|||....
T Consensus 20 ig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~ 57 (367)
T PRK14970 20 VGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCAR 57 (367)
T ss_pred CCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 489999999999998873 58899999999997544
No 429
>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=61.56 E-value=11 Score=43.12 Aligned_cols=22 Identities=41% Similarity=0.570 Sum_probs=17.7
Q ss_pred CceEEeccCCCchHHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~ 59 (758)
+.+++-+|+|||||+ |+-+++.
T Consensus 217 ~GILLyGPPGTGKT~--LAKAlA~ 238 (512)
T TIGR03689 217 KGVLLYGPPGCGKTL--IAKAVAN 238 (512)
T ss_pred cceEEECCCCCcHHH--HHHHHHH
Confidence 569999999999999 5556653
No 430
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.43 E-value=9.5 Score=44.64 Aligned_cols=36 Identities=22% Similarity=0.222 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhcCC--ce-EEeccCCCchHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKC--NA-LLESPTGTGKTLCLLC 54 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~--~~-liEAPTGTGKTlayL~ 54 (758)
-+|..+...+.+++.+++ |+ ++.+|.|+|||....+
T Consensus 19 iGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~ 57 (618)
T PRK14951 19 VGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRI 57 (618)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 489999999999999883 44 9999999999986653
No 431
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=61.17 E-value=18 Score=40.86 Aligned_cols=21 Identities=24% Similarity=0.292 Sum_probs=16.7
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
..+++-+|+|+|||. |+-|++
T Consensus 149 ~~l~l~G~~G~GKTh--L~~ai~ 169 (450)
T PRK00149 149 NPLFIYGGVGLGKTH--LLHAIG 169 (450)
T ss_pred CeEEEECCCCCCHHH--HHHHHH
Confidence 458999999999998 544554
No 432
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=61.15 E-value=26 Score=43.79 Aligned_cols=62 Identities=21% Similarity=0.186 Sum_probs=43.5
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCC
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (758)
+..-++|++.+..|. ..++..++.++-|||||..+=...-.|. ..+
T Consensus 380 ~~Ls~eQ~~Av~~i~---~~~r~~~v~G~AGTGKTt~l~~~~~~~e-~~G------------------------------ 425 (1102)
T PRK13826 380 ARLSDEQKTAIEHVA---GPARIAAVVGRAGAGKTTMMKAAREAWE-AAG------------------------------ 425 (1102)
T ss_pred CCCCHHHHHHHHHHh---ccCCeEEEEeCCCCCHHHHHHHHHHHHH-HcC------------------------------
Confidence 455689999887763 5568899999999999986543322332 222
Q ss_pred CeEEEeCCccchHHHH
Q 004379 95 PTILYTSRTHSQLRQV 110 (758)
Q Consensus 95 ~kIi~~trT~sql~Q~ 110 (758)
.+|+-++.|....+.+
T Consensus 426 ~~V~g~ApTgkAA~~L 441 (1102)
T PRK13826 426 YRVVGGALAGKAAEGL 441 (1102)
T ss_pred CeEEEEcCcHHHHHHH
Confidence 3688888887776554
No 433
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=60.92 E-value=8.5 Score=47.11 Aligned_cols=40 Identities=28% Similarity=0.249 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhc--------C---CceEEeccCCCchHHHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQN--------K---CNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~--------~---~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
-+|.+.++.|.+++.. + ..+++-+|||+|||. |+-+|+-.
T Consensus 569 ~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~--lA~~La~~ 619 (852)
T TIGR03345 569 IGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTE--TALALAEL 619 (852)
T ss_pred cChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHH--HHHHHHHH
Confidence 4788999999988853 1 237999999999998 55566543
No 434
>PF12846 AAA_10: AAA-like domain
Probab=60.81 E-value=12 Score=39.29 Aligned_cols=19 Identities=37% Similarity=0.445 Sum_probs=16.7
Q ss_pred CCceEEeccCCCchHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL 53 (758)
+.|+++-++||+|||..+.
T Consensus 1 n~h~~i~G~tGsGKT~~~~ 19 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLK 19 (304)
T ss_pred CCeEEEECCCCCcHHHHHH
Confidence 3689999999999998776
No 435
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=60.74 E-value=11 Score=45.80 Aligned_cols=39 Identities=26% Similarity=0.243 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHh--------cCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 20 CQLVYMEKVIQSLQ--------NKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 20 ~Q~~~~~~i~~al~--------~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
+|.+..+.|.+.+. .+.++++-+|+|||||. |+-+|+..
T Consensus 324 G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~--lAk~iA~~ 370 (775)
T TIGR00763 324 GLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTS--LGKSIAKA 370 (775)
T ss_pred ChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHH--HHHHHHHH
Confidence 45555666655332 34579999999999997 55566543
No 436
>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR). DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.
Probab=60.68 E-value=3.5 Score=40.66 Aligned_cols=55 Identities=20% Similarity=0.233 Sum_probs=37.4
Q ss_pred CeeeEcCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 2 PTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 2 ~~~~i~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
+++.+.++.+.|+=..+..+......+-=.+..|++..+-+|.|+|||. |+-+|+
T Consensus 2 ~~l~~~~ls~~~~~~~~~~~~~~l~~~~~~i~~Ge~~~l~G~nGsGKSt--Ll~~i~ 56 (194)
T cd03213 2 VTLSFRNLTVTVKSSPSKSGKQLLKNVSGKAKPGELTAIMGPSGAGKST--LLNALA 56 (194)
T ss_pred cEEEEEeeEEEEecCCCcccccceecceEEEcCCcEEEEECCCCCCHHH--HHHHHh
Confidence 3567888888876321111233455555556788999999999999996 666664
No 437
>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=60.59 E-value=12 Score=47.19 Aligned_cols=24 Identities=33% Similarity=0.423 Sum_probs=18.7
Q ss_pred CceEEeccCCCchHHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~ 59 (758)
+..+|||.-|||||.++-.-.+..
T Consensus 10 G~~lieAsAGtGKT~ti~~~~lrl 33 (1087)
T TIGR00609 10 GTFLIEASAGTGKTFTIAQLYLRL 33 (1087)
T ss_pred CCEEEEECCCCCHHHHHHHHHHHH
Confidence 578999999999999775444433
No 438
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=60.57 E-value=10 Score=45.74 Aligned_cols=42 Identities=31% Similarity=0.348 Sum_probs=31.7
Q ss_pred CCCHHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHHHH
Q 004379 16 EAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 16 ~~r~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal~~ 59 (758)
+|--+|.+.+..+.+.|..+ .+.++-+|+|||||. |+-+|+.
T Consensus 182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~--l~~~la~ 225 (731)
T TIGR02639 182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTA--IAEGLAL 225 (731)
T ss_pred CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHH--HHHHHHH
Confidence 34446777888888888654 678999999999999 5555654
No 439
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=60.29 E-value=9.5 Score=38.91 Aligned_cols=34 Identities=35% Similarity=0.524 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHH------------hcCCceEEeccCCCchHHHH
Q 004379 19 DCQLVYMEKVIQSL------------QNKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 19 ~~Q~~~~~~i~~al------------~~~~~~liEAPTGTGKTlay 52 (758)
..|.+-+.+|.+.= +--+-+++-+|+||||||+.
T Consensus 183 keqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~a 228 (435)
T KOG0729|consen 183 KEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCA 228 (435)
T ss_pred HHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHH
Confidence 46777777766541 22366899999999999844
No 440
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=60.25 E-value=10 Score=41.87 Aligned_cols=37 Identities=27% Similarity=0.371 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHhcC-----------CceEEeccCCCchHHHHHHHHHH
Q 004379 20 CQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~-----------~~~liEAPTGTGKTlayL~pal~ 58 (758)
.=.++|+++.+-++++ +-=++=+|+|||||- +++|+|
T Consensus 209 ~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS--~IaAmA 256 (457)
T KOG0743|consen 209 LKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSS--FIAAMA 256 (457)
T ss_pred HHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHH--HHHHHH
Confidence 4567788887777654 225899999999998 888886
No 441
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=60.22 E-value=9.9 Score=45.54 Aligned_cols=35 Identities=26% Similarity=0.382 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHH
Q 004379 21 QLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 21 Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal 57 (758)
-..+.+.+..+...+.+++|.++||||||+ |.-+|
T Consensus 385 ~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~--lA~~i 419 (686)
T PRK15429 385 MYSVLKQVEMVAQSDSTVLILGETGTGKEL--IARAI 419 (686)
T ss_pred HHHHHHHHHHHhCCCCCEEEECCCCcCHHH--HHHHH
Confidence 334444455555667899999999999998 44444
No 442
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=59.92 E-value=1.2e+02 Score=33.68 Aligned_cols=82 Identities=18% Similarity=0.202 Sum_probs=40.0
Q ss_pred cccEEEEecccCCC-hHhHHhhhCCCCCccc--cCCccccCCCeEEEEeecCCCCcceeeeccccCCHHHHHHHHHHHHH
Q 004379 434 EVGSIILTSGTLSP-MDSFAQELKLNFPLRV--ENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVN 510 (758)
Q Consensus 434 ~~~~vil~SaTL~p-~~~f~~~lGl~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~y~~r~~~~~~~~l~~~i~~ 510 (758)
.....+||||||+. +..+. .|=+..|+.+ ..+-.-.++|+.-+.+.. . +.+.+.--++ +..
T Consensus 200 r~~Q~~LmSATl~dDv~~LK-kL~l~nPviLkl~e~el~~~dqL~Qy~v~c---------s----e~DKflllya--llK 263 (569)
T KOG0346|consen 200 RIYQCFLMSATLSDDVQALK-KLFLHNPVILKLTEGELPNPDQLTQYQVKC---------S----EEDKFLLLYA--LLK 263 (569)
T ss_pred chhhheeehhhhhhHHHHHH-HHhccCCeEEEeccccCCCcccceEEEEEe---------c----cchhHHHHHH--HHH
Confidence 44567899999986 23332 2333344322 111111234432222221 1 2334443333 333
Q ss_pred HhhhcCCcEEEEeccHHHHHHH
Q 004379 511 IARIVPDGLLIFFPSYYLMDQC 532 (758)
Q Consensus 511 ~~~~~~g~~lv~f~Sy~~l~~v 532 (758)
++.+.|.+|+|.++...--++
T Consensus 264 -L~LI~gKsliFVNtIdr~YrL 284 (569)
T KOG0346|consen 264 -LRLIRGKSLIFVNTIDRCYRL 284 (569)
T ss_pred -HHHhcCceEEEEechhhhHHH
Confidence 234679999999987654333
No 443
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=59.90 E-value=8.1 Score=37.74 Aligned_cols=28 Identities=29% Similarity=0.309 Sum_probs=22.4
Q ss_pred hcCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 33 QNKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 33 ~~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
..|...++-||+|+|||...+--+.+++
T Consensus 30 ~~g~l~~i~g~~g~GKT~~~~~l~~~~~ 57 (193)
T PF13481_consen 30 PRGELTLIAGPPGSGKTTLALQLAAALA 57 (193)
T ss_dssp -TTSEEEEEECSTSSHHHHHHHHHHHHH
T ss_pred cCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 3567899999999999998776666665
No 444
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=59.23 E-value=13 Score=40.79 Aligned_cols=35 Identities=14% Similarity=0.189 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhcC--Cc-eEEeccCCCchHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLL 53 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~--~~-~liEAPTGTGKTlayL 53 (758)
-+|.+....+.+++.++ .| .++.+|.|+||+...+
T Consensus 22 iGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~ 59 (365)
T PRK07471 22 FGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAY 59 (365)
T ss_pred cChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHH
Confidence 38999999999999998 34 7899999999997544
No 445
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=59.08 E-value=7.9 Score=37.40 Aligned_cols=21 Identities=52% Similarity=0.735 Sum_probs=16.0
Q ss_pred CceEEeccCCCchHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~ 58 (758)
.++++-+|||+|||. |+-+|+
T Consensus 4 ~~~ll~GpsGvGKT~--la~~la 24 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTE--LAKALA 24 (171)
T ss_dssp EEEEEESSTTSSHHH--HHHHHH
T ss_pred EEEEEECCCCCCHHH--HHHHHH
Confidence 467899999999996 444554
No 446
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=58.93 E-value=10 Score=44.05 Aligned_cols=37 Identities=22% Similarity=0.223 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhcC--Cc-eEEeccCCCchHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLLCA 55 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~--~~-~liEAPTGTGKTlayL~p 55 (758)
-+|......+.+++.++ .| .++.+|.|||||...-+-
T Consensus 19 iGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~l 58 (559)
T PRK05563 19 VGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIF 58 (559)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 38999999999999877 44 578999999999876544
No 447
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=58.76 E-value=3.6 Score=40.88 Aligned_cols=51 Identities=18% Similarity=0.285 Sum_probs=36.9
Q ss_pred eeEcCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHHh
Q 004379 4 YKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKS 62 (758)
Q Consensus 4 ~~i~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~~ 62 (758)
+.+.++...|. +.+..+.|--.+..|..+++-+|.|+|||- |+-+|..++.
T Consensus 3 i~i~~l~K~fg------~~~VLkgi~l~v~~Gevv~iiGpSGSGKST--lLRclN~LE~ 53 (240)
T COG1126 3 IEIKNLSKSFG------DKEVLKGISLSVEKGEVVVIIGPSGSGKST--LLRCLNGLEE 53 (240)
T ss_pred EEEEeeeEEeC------CeEEecCcceeEcCCCEEEEECCCCCCHHH--HHHHHHCCcC
Confidence 45666666665 444455566667889999999999999998 7677765543
No 448
>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=58.65 E-value=10 Score=43.23 Aligned_cols=26 Identities=31% Similarity=0.471 Sum_probs=18.6
Q ss_pred HHHHHHhcC-CceEEeccCCCchHHHH
Q 004379 27 KVIQSLQNK-CNALLESPTGTGKTLCL 52 (758)
Q Consensus 27 ~i~~al~~~-~~~liEAPTGTGKTlay 52 (758)
.+.+.+... +.+++-+|||+|||-.+
T Consensus 233 ~l~~~~~~~~GlilitGptGSGKTTtL 259 (486)
T TIGR02533 233 RFERLIRRPHGIILVTGPTGSGKTTTL 259 (486)
T ss_pred HHHHHHhcCCCEEEEEcCCCCCHHHHH
Confidence 344444443 56899999999999854
No 449
>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=58.31 E-value=8.3 Score=38.19 Aligned_cols=17 Identities=41% Similarity=0.646 Sum_probs=14.4
Q ss_pred CceEEeccCCCchHHHH
Q 004379 36 CNALLESPTGTGKTLCL 52 (758)
Q Consensus 36 ~~~liEAPTGTGKTlay 52 (758)
+.+++-+|||+|||-..
T Consensus 2 GlilI~GptGSGKTTll 18 (198)
T cd01131 2 GLVLVTGPTGSGKSTTL 18 (198)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 46789999999999854
No 450
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=58.30 E-value=5.8 Score=41.93 Aligned_cols=20 Identities=35% Similarity=0.595 Sum_probs=17.7
Q ss_pred CeEEEeCCccchHHHHHHHh
Q 004379 95 PTILYTSRTHSQLRQVIQEL 114 (758)
Q Consensus 95 ~kIi~~trT~sql~Q~i~eL 114 (758)
.+|+|+|+|++|++|+++++
T Consensus 62 ~kvi~~t~T~~~~~q~i~~l 81 (289)
T smart00488 62 IKLIYLSRTVSEIEKRLEEL 81 (289)
T ss_pred cceeEEeccHHHHHHHHHHH
Confidence 48999999999999998764
No 451
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=58.30 E-value=5.8 Score=41.93 Aligned_cols=20 Identities=35% Similarity=0.595 Sum_probs=17.7
Q ss_pred CeEEEeCCccchHHHHHHHh
Q 004379 95 PTILYTSRTHSQLRQVIQEL 114 (758)
Q Consensus 95 ~kIi~~trT~sql~Q~i~eL 114 (758)
.+|+|+|+|++|++|+++++
T Consensus 62 ~kvi~~t~T~~~~~q~i~~l 81 (289)
T smart00489 62 IKLIYLSRTVSEIEKRLEEL 81 (289)
T ss_pred cceeEEeccHHHHHHHHHHH
Confidence 48999999999999998764
No 452
>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=58.22 E-value=14 Score=34.35 Aligned_cols=17 Identities=47% Similarity=0.569 Sum_probs=13.9
Q ss_pred ceEEeccCCCchHHHHH
Q 004379 37 NALLESPTGTGKTLCLL 53 (758)
Q Consensus 37 ~~liEAPTGTGKTlayL 53 (758)
+.++-+|+|+|||.-..
T Consensus 1 ~~~i~G~~G~GKT~l~~ 17 (165)
T cd01120 1 LILVFGPTGSGKTTLAL 17 (165)
T ss_pred CeeEeCCCCCCHHHHHH
Confidence 46889999999999444
No 453
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=57.72 E-value=14 Score=39.64 Aligned_cols=37 Identities=16% Similarity=0.259 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHHHHhcCC--c-eEEeccCCCchHHHHH
Q 004379 17 AYDCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLL 53 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~--~-~liEAPTGTGKTlayL 53 (758)
.||.|...-..+.+++.+|+ | .++++|.|+||+..+.
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~ 42 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIR 42 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHH
Confidence 47888888889999999874 4 4699999999998554
No 454
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=57.69 E-value=4.2 Score=43.98 Aligned_cols=18 Identities=44% Similarity=0.597 Sum_probs=15.6
Q ss_pred CceEEeccCCCchHHHHH
Q 004379 36 CNALLESPTGTGKTLCLL 53 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL 53 (758)
.++++-+|+|||||+..=
T Consensus 385 RNilfyGPPGTGKTm~Ar 402 (630)
T KOG0742|consen 385 RNILFYGPPGTGKTMFAR 402 (630)
T ss_pred hheeeeCCCCCCchHHHH
Confidence 569999999999999653
No 455
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=57.67 E-value=11 Score=44.90 Aligned_cols=39 Identities=33% Similarity=0.297 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhcC-----------CceEEeccCCCchHHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~-----------~~~liEAPTGTGKTlayL~pal~~ 59 (758)
-+|-+....|.+++... +..++-+|||+|||- |+=+|+-
T Consensus 494 iGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTE--LAkaLA~ 543 (786)
T COG0542 494 IGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTE--LAKALAE 543 (786)
T ss_pred eChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHH--HHHHHHH
Confidence 37999999999999643 347899999999998 6556763
No 456
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=57.65 E-value=8.7 Score=37.12 Aligned_cols=21 Identities=29% Similarity=0.520 Sum_probs=17.0
Q ss_pred CCceEEeccCCCchHHHHHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal 57 (758)
|+.+++.+|+|+|||- |.-.|
T Consensus 1 g~ii~l~G~~GsGKsT--l~~~L 21 (180)
T TIGR03263 1 GLLIVISGPSGVGKST--LVKAL 21 (180)
T ss_pred CcEEEEECCCCCCHHH--HHHHH
Confidence 4678999999999998 54545
No 457
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=57.61 E-value=14 Score=41.24 Aligned_cols=20 Identities=40% Similarity=0.390 Sum_probs=15.8
Q ss_pred CCceEEeccCCCchHHHHHH
Q 004379 35 KCNALLESPTGTGKTLCLLC 54 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~ 54 (758)
++.+++=+|||+|||-....
T Consensus 221 ~~~i~~vGptGvGKTTt~~k 240 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAK 240 (424)
T ss_pred CcEEEEECCCCCCHHHHHHH
Confidence 45678889999999985553
No 458
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.48 E-value=12 Score=43.65 Aligned_cols=36 Identities=19% Similarity=0.196 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhcC--Cce-EEeccCCCchHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNK--CNA-LLESPTGTGKTLCLLC 54 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~--~~~-liEAPTGTGKTlayL~ 54 (758)
-+|......+.+++.++ .|+ |+.+|.|+|||....+
T Consensus 19 iGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~ 57 (576)
T PRK14965 19 TGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARI 57 (576)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 38999999999999988 344 8999999999986653
No 459
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=57.44 E-value=6.5 Score=41.60 Aligned_cols=19 Identities=26% Similarity=0.340 Sum_probs=15.7
Q ss_pred cCCceEEeccCCCchHHHH
Q 004379 34 NKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlay 52 (758)
.++.++|-+|||+|||--.
T Consensus 3 ~~~ii~I~GpTasGKS~LA 21 (300)
T PRK14729 3 ENKIVFIFGPTAVGKSNIL 21 (300)
T ss_pred CCcEEEEECCCccCHHHHH
Confidence 3567899999999999833
No 460
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=57.36 E-value=14 Score=44.96 Aligned_cols=52 Identities=27% Similarity=0.358 Sum_probs=38.9
Q ss_pred eeEcCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHH
Q 004379 4 YKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRK 61 (758)
Q Consensus 4 ~~i~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~ 61 (758)
....|-++.+...||+.|+-=.-.+ -+| -|.|+.||=||||+.-+|+..-+.
T Consensus 126 ~~~~g~~~~wdm~~ydVQLiGgivL----h~G--~IAEM~TGEGKTLvatlp~yLnAL 177 (1025)
T PRK12900 126 YQVMGREMTWDMVPYDVQLIGGIVL----HSG--KISEMATGEGKTLVSTLPTFLNAL 177 (1025)
T ss_pred ccccccccccCccccchHHhhhHHh----hcC--CccccCCCCCcchHhHHHHHHHHH
Confidence 3467888999999999997543332 333 368999999999999888765443
No 461
>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional
Probab=57.25 E-value=5.1 Score=41.16 Aligned_cols=50 Identities=20% Similarity=0.329 Sum_probs=37.6
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 1 ~~~~~i~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
|+.+.+.++.+.|+- + .....+-=.+..|++..+-+|.|+|||. |+-+|+
T Consensus 1 ~~~l~~~~l~~~~~~--~----~~l~~vs~~i~~Ge~~~i~G~nGsGKST--Ll~~l~ 50 (249)
T PRK14253 1 MNKFNIENLDLFYGE--N----QALKSINLPIPARQVTALIGPSGCGKST--LLRCLN 50 (249)
T ss_pred CCeEEEeccEEEECC--e----eeeecceEEecCCCEEEEECCCCCCHHH--HHHHHH
Confidence 788899999998862 1 1344444456788999999999999997 555554
No 462
>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=57.15 E-value=12 Score=40.91 Aligned_cols=41 Identities=20% Similarity=0.148 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHh-cCCceEEeccCCCchHHHHHHHHHHHHH
Q 004379 20 CQLVYMEKVIQSLQ-NKCNALLESPTGTGKTLCLLCATLAWRK 61 (758)
Q Consensus 20 ~Q~~~~~~i~~al~-~~~~~liEAPTGTGKTlayL~pal~~~~ 61 (758)
.|.-+...+.+.+. .++.+++-+|||+|||-.+ .+.+.+..
T Consensus 133 ~~lgl~~~~~~~l~~~~GlilI~G~TGSGKTT~l-~al~~~i~ 174 (372)
T TIGR02525 133 KQMGIEPDLFNSLLPAAGLGLICGETGSGKSTLA-ASIYQHCG 174 (372)
T ss_pred HHcCCCHHHHHHHHhcCCEEEEECCCCCCHHHHH-HHHHHHHH
Confidence 34444444444443 4577899999999999843 23334443
No 463
>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional
Probab=57.13 E-value=3.7 Score=42.28 Aligned_cols=50 Identities=18% Similarity=0.248 Sum_probs=36.5
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 1 ~~~~~i~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
|+-+.+.++.+.|+= + .....+-=.+..|++..+-+|.|+|||. |+-+|+
T Consensus 1 ~~~l~~~~l~~~~~~--~----~~l~~i~~~i~~Ge~~~i~G~nGsGKST--Ll~~i~ 50 (250)
T PRK14262 1 EPIIEIENFSAYYGE--K----KAVKNVTMKIFKNQITAIIGPSGCGKTT--LLRSIN 50 (250)
T ss_pred CceEEEEeeEEEeCC--c----eeEeeeeEeecCCCEEEEECCCCCCHHH--HHHHHh
Confidence 666788888888751 1 1344444456788999999999999998 666664
No 464
>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=57.10 E-value=14 Score=41.29 Aligned_cols=28 Identities=29% Similarity=0.343 Sum_probs=20.0
Q ss_pred CCceEEeccCCCchHHHHHHHHHHHHHhh
Q 004379 35 KCNALLESPTGTGKTLCLLCATLAWRKSL 63 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal~~~~~~ 63 (758)
.+|+++=||||+|||..+ -..+.+....
T Consensus 42 ~~h~~i~g~tGsGKt~~i-~~l~~~~~~~ 69 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQI-RELLASIRAR 69 (410)
T ss_pred hccEEEEcCCCCCHHHHH-HHHHHHHHhc
Confidence 479999999999999863 3334454443
No 465
>PRK10646 ADP-binding protein; Provisional
Probab=56.97 E-value=15 Score=34.64 Aligned_cols=37 Identities=19% Similarity=0.191 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
.=.++++.+.+.+..+..++++++-|+|||- ++-+++
T Consensus 13 ~t~~l~~~la~~l~~g~vi~L~GdLGaGKTt--f~rgl~ 49 (153)
T PRK10646 13 ATLDLGARVAKACDGATVIYLYGDLGAGKTT--FSRGFL 49 (153)
T ss_pred HHHHHHHHHHHhCCCCcEEEEECCCCCCHHH--HHHHHH
Confidence 3457788888889999999999999999998 777775
No 466
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=56.90 E-value=11 Score=43.36 Aligned_cols=29 Identities=24% Similarity=0.306 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhcCCceEEeccCCCchHHH
Q 004379 23 VYMEKVIQSLQNKCNALLESPTGTGKTLC 51 (758)
Q Consensus 23 ~~~~~i~~al~~~~~~liEAPTGTGKTla 51 (758)
++.+.|..+-..+.+++|.+++||||+..
T Consensus 198 ~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~ 226 (509)
T PRK05022 198 QLKKEIEVVAASDLNVLILGETGVGKELV 226 (509)
T ss_pred HHHHHHHHHhCCCCcEEEECCCCccHHHH
Confidence 34444555556678999999999999983
No 467
>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=56.85 E-value=20 Score=37.46 Aligned_cols=24 Identities=21% Similarity=0.135 Sum_probs=16.4
Q ss_pred CceEEeccCCCchHHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~ 59 (758)
+.+++-+|+|+|||-...--|..+
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l 96 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKL 96 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHH
Confidence 345566999999998655444433
No 468
>PF13173 AAA_14: AAA domain
Probab=56.82 E-value=8.5 Score=34.98 Aligned_cols=20 Identities=40% Similarity=0.544 Sum_probs=16.9
Q ss_pred cCCceEEeccCCCchHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLL 53 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL 53 (758)
|++.+++.+|.|+|||..+.
T Consensus 1 n~~~~~l~G~R~vGKTtll~ 20 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLLK 20 (128)
T ss_pred CCCeEEEECCCCCCHHHHHH
Confidence 46889999999999998543
No 469
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=56.74 E-value=11 Score=45.45 Aligned_cols=39 Identities=26% Similarity=0.206 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHhcCC----------ceEEeccCCCchHHHHHHHHHHH
Q 004379 19 DCQLVYMEKVIQSLQNKC----------NALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 19 ~~Q~~~~~~i~~al~~~~----------~~liEAPTGTGKTlayL~pal~~ 59 (758)
++|-+.+.+|.+|+...+ -+++.+|||+|||- |.-||+-
T Consensus 565 ~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~--lAkaLA~ 613 (898)
T KOG1051|consen 565 IGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTE--LAKALAE 613 (898)
T ss_pred cchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHH--HHHHHHH
Confidence 589999999999996542 27999999999999 6567763
No 470
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=56.65 E-value=42 Score=40.50 Aligned_cols=20 Identities=25% Similarity=0.165 Sum_probs=16.0
Q ss_pred EEEEecccCCChHhHHhhhC
Q 004379 437 SIILTSGTLSPMDSFAQELK 456 (758)
Q Consensus 437 ~vil~SaTL~p~~~f~~~lG 456 (758)
++|-|||||-..+.++..|.
T Consensus 379 ~iIGMSATi~N~~lL~~~L~ 398 (1008)
T KOG0950|consen 379 QIIGMSATIPNNSLLQDWLD 398 (1008)
T ss_pred eEeeeecccCChHHHHHHhh
Confidence 58999999988777666664
No 471
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=56.63 E-value=15 Score=39.34 Aligned_cols=40 Identities=25% Similarity=0.417 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHhcC----CceEEeccCCCchHHHHHHHHHHHHHhhCC
Q 004379 22 LVYMEKVIQSLQNK----CNALLESPTGTGKTLCLLCATLAWRKSLGS 65 (758)
Q Consensus 22 ~~~~~~i~~al~~~----~~~liEAPTGTGKTlayL~pal~~~~~~~~ 65 (758)
++.|--|.+.+++| +-+++-+|+|||||. |.-++ ++..++
T Consensus 48 ReAaGvIv~mik~gk~aGrgiLi~GppgTGKTA--lA~gI--a~eLG~ 91 (450)
T COG1224 48 REAAGVIVKMIKQGKMAGRGILIVGPPGTGKTA--LAMGI--ARELGE 91 (450)
T ss_pred HHhhhHHHHHHHhCcccccEEEEECCCCCcHHH--HHHHH--HHHhCC
Confidence 34555677777766 558999999999998 42234 455554
No 472
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=56.50 E-value=27 Score=40.65 Aligned_cols=22 Identities=23% Similarity=0.306 Sum_probs=17.1
Q ss_pred CceEEeccCCCchHHHHHHHHHHH
Q 004379 36 CNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 36 ~~~liEAPTGTGKTlayL~pal~~ 59 (758)
..++|-+|+|+|||. |+-|++.
T Consensus 315 NpL~LyG~sGsGKTH--LL~AIa~ 336 (617)
T PRK14086 315 NPLFIYGESGLGKTH--LLHAIGH 336 (617)
T ss_pred CcEEEECCCCCCHHH--HHHHHHH
Confidence 458999999999998 5555543
No 473
>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=56.44 E-value=8.4 Score=38.34 Aligned_cols=24 Identities=42% Similarity=0.547 Sum_probs=15.5
Q ss_pred ceEEeccCCCchHHHHHHHHHHHHHhhC
Q 004379 37 NALLESPTGTGKTLCLLCATLAWRKSLG 64 (758)
Q Consensus 37 ~~liEAPTGTGKTlayL~pal~~~~~~~ 64 (758)
..++=+|||||||--. ++.+++++
T Consensus 3 v~~i~GpT~tGKt~~a----i~lA~~~g 26 (233)
T PF01745_consen 3 VYLIVGPTGTGKTALA----IALAQKTG 26 (233)
T ss_dssp EEEEE-STTSSHHHHH----HHHHHHH-
T ss_pred EEEEECCCCCChhHHH----HHHHHHhC
Confidence 4578899999999843 33345554
No 474
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=56.39 E-value=12 Score=43.33 Aligned_cols=35 Identities=23% Similarity=0.281 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHhcCCc---eEEeccCCCchHHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLLC 54 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~~---~liEAPTGTGKTlayL~ 54 (758)
+|......+..++.+++. .++.+|.|+|||.++.+
T Consensus 20 Gqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~ 57 (563)
T PRK06647 20 GQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARA 57 (563)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 899999999999988733 58999999999987664
No 475
>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=56.30 E-value=20 Score=38.26 Aligned_cols=46 Identities=17% Similarity=0.298 Sum_probs=32.4
Q ss_pred CHHHHHHHHHHHHHHhcC--CceEEeccCCCchHHHHHHHHHHHHHhhC
Q 004379 18 YDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWRKSLG 64 (758)
Q Consensus 18 r~~Q~~~~~~i~~al~~~--~~~liEAPTGTGKTlayL~pal~~~~~~~ 64 (758)
|+.=.++++.+.++-.++ ...++-++.|||||.+++ -+++|+..++
T Consensus 4 R~~t~el~~~l~~~~~~~~~~r~vL~G~~GsGKS~~L~-q~~~~A~~~~ 51 (309)
T PF10236_consen 4 RKPTLELINKLKEADKSSKNNRYVLTGERGSGKSVLLA-QAVHYARENG 51 (309)
T ss_pred chHHHHHHHHHHHhcccCCceEEEEECCCCCCHHHHHH-HHHHHHHhCC
Confidence 344456666666663333 558999999999999765 5578988754
No 476
>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]
Probab=56.02 E-value=5.9 Score=41.93 Aligned_cols=26 Identities=31% Similarity=0.488 Sum_probs=20.6
Q ss_pred HHHHHHHHhcCCceEEeccCCCchHH
Q 004379 25 MEKVIQSLQNKCNALLESPTGTGKTL 50 (758)
Q Consensus 25 ~~~i~~al~~~~~~liEAPTGTGKTl 50 (758)
.+++.+....|.--++-+|||+|||-
T Consensus 263 LNk~LkGhR~GElTvlTGpTGsGKTT 288 (514)
T KOG2373|consen 263 LNKYLKGHRPGELTVLTGPTGSGKTT 288 (514)
T ss_pred HHHHhccCCCCceEEEecCCCCCcee
Confidence 34555666677889999999999996
No 477
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=55.98 E-value=32 Score=37.12 Aligned_cols=44 Identities=23% Similarity=0.284 Sum_probs=33.2
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHHH
Q 004379 12 EFPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (758)
Q Consensus 12 ~Fpf~-~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~ 59 (758)
.|+|+ |-..|...+-- +-.|.++.+.|++|||||.++++++|.-
T Consensus 43 ~yGFekPSaIQqraI~p----~i~G~dv~~qaqsgTgKt~af~i~iLq~ 87 (397)
T KOG0327|consen 43 AYGFEKPSAIQQRAILP----CIKGHDVIAQAQSGTGKTAAFLISILQQ 87 (397)
T ss_pred hhccCCchHHHhccccc----cccCCceeEeeeccccchhhhHHHHHhh
Confidence 36776 56666654433 3467889999999999999999998853
No 478
>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=55.98 E-value=36 Score=40.20 Aligned_cols=18 Identities=33% Similarity=0.337 Sum_probs=15.8
Q ss_pred CCceEEeccCCCchHHHH
Q 004379 35 KCNALLESPTGTGKTLCL 52 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlay 52 (758)
.+|.++=+|||+|||-.+
T Consensus 176 ~~H~lv~G~TGsGKT~l~ 193 (634)
T TIGR03743 176 VGHTLVLGTTGVGKTRLA 193 (634)
T ss_pred CCcEEEECCCCCCHHHHH
Confidence 388999999999999755
No 479
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=55.31 E-value=16 Score=39.04 Aligned_cols=37 Identities=22% Similarity=0.346 Sum_probs=31.1
Q ss_pred CCHHHHHHHHHHHHHHhcCC---ceEEeccCCCchHHHHH
Q 004379 17 AYDCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLL 53 (758)
Q Consensus 17 ~r~~Q~~~~~~i~~al~~~~---~~liEAPTGTGKTlayL 53 (758)
.--+|.+..+.+.+++.+++ ..++.+|.|+||+...+
T Consensus 5 ~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~ 44 (314)
T PRK07399 5 NLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAAL 44 (314)
T ss_pred HhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHH
Confidence 33579999999999999884 47999999999998655
No 480
>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=55.12 E-value=9.9 Score=33.86 Aligned_cols=19 Identities=37% Similarity=0.730 Sum_probs=15.5
Q ss_pred eEEeccCCCchHHHHHHHHHH
Q 004379 38 ALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 38 ~liEAPTGTGKTlayL~pal~ 58 (758)
++|.+|+|+|||- ++-.|+
T Consensus 2 I~I~G~~gsGKST--~a~~La 20 (121)
T PF13207_consen 2 IIISGPPGSGKST--LAKELA 20 (121)
T ss_dssp EEEEESTTSSHHH--HHHHHH
T ss_pred EEEECCCCCCHHH--HHHHHH
Confidence 6899999999998 656564
No 481
>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=55.09 E-value=16 Score=40.86 Aligned_cols=31 Identities=16% Similarity=0.048 Sum_probs=23.4
Q ss_pred HHHhcCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 30 QSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 30 ~al~~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
..+..|...++-|+||+|||.-.|--|...+
T Consensus 189 ~G~~~g~liviag~pg~GKT~~al~ia~~~a 219 (421)
T TIGR03600 189 NGLVKGDLIVIGARPSMGKTTLALNIAENVA 219 (421)
T ss_pred cCCCCCceEEEEeCCCCCHHHHHHHHHHHHH
Confidence 3455567789999999999997776655444
No 482
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=55.00 E-value=7.2 Score=44.50 Aligned_cols=38 Identities=24% Similarity=0.233 Sum_probs=31.9
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHH
Q 004379 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (758)
Q Consensus 15 f~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlay 52 (758)
|..-.+|......+.-++..+.++++-+|+|||||...
T Consensus 191 ~~dv~Gq~~~~~al~~aa~~g~~vlliG~pGsGKTtla 228 (499)
T TIGR00368 191 LKDIKGQQHAKRALEIAAAGGHNLLLFGPPGSGKTMLA 228 (499)
T ss_pred HHHhcCcHHHHhhhhhhccCCCEEEEEecCCCCHHHHH
Confidence 33445788889999999999999999999999999833
No 483
>PRK04195 replication factor C large subunit; Provisional
Probab=54.94 E-value=13 Score=42.40 Aligned_cols=33 Identities=27% Similarity=0.256 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHh---c---CCceEEeccCCCchHHHH
Q 004379 20 CQLVYMEKVIQSLQ---N---KCNALLESPTGTGKTLCL 52 (758)
Q Consensus 20 ~Q~~~~~~i~~al~---~---~~~~liEAPTGTGKTlay 52 (758)
+|.+....+.+.+. + .+++++-+|+|||||...
T Consensus 18 g~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLA 56 (482)
T ss_pred CCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 45555555555443 3 467999999999999744
No 484
>PRK13764 ATPase; Provisional
Probab=54.89 E-value=14 Score=42.94 Aligned_cols=30 Identities=23% Similarity=0.360 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHH-hcCCceEEeccCCCchHH
Q 004379 21 QLVYMEKVIQSL-QNKCNALLESPTGTGKTL 50 (758)
Q Consensus 21 Q~~~~~~i~~al-~~~~~~liEAPTGTGKTl 50 (758)
+..+...+.+.+ ..++.+++-+|||+|||-
T Consensus 242 ~l~l~~~l~~~l~~~~~~ILIsG~TGSGKTT 272 (602)
T PRK13764 242 DYNLSEKLKERLEERAEGILIAGAPGAGKST 272 (602)
T ss_pred HhCCCHHHHHHHHhcCCEEEEECCCCCCHHH
Confidence 443333444444 446789999999999997
No 485
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=54.74 E-value=18 Score=38.72 Aligned_cols=38 Identities=18% Similarity=0.155 Sum_probs=31.6
Q ss_pred CCCHHHHHHHHHHHHHHhcCC---ceEEeccCCCchHHHHH
Q 004379 16 EAYDCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLL 53 (758)
Q Consensus 16 ~~r~~Q~~~~~~i~~al~~~~---~~liEAPTGTGKTlayL 53 (758)
..||.|...-..+.+++.+++ ..++.+|.|+||+..+.
T Consensus 3 ~~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~ 43 (319)
T PRK06090 3 NDYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVE 43 (319)
T ss_pred cCcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHH
Confidence 368899999999999998884 37899999999987443
No 486
>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional
Probab=54.56 E-value=5.4 Score=40.86 Aligned_cols=50 Identities=12% Similarity=0.174 Sum_probs=36.6
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 1 ~~~~~i~~i~~~Fpf~~r~~Q~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
|+.+.+.++.+.|+= + .....+-=.+..|+...+-+|.|+|||. |+-+|+
T Consensus 1 ~~~l~~~~l~~~~~~--~----~~l~~vsl~i~~Ge~~~i~G~nGsGKST--Ll~~l~ 50 (241)
T PRK14250 1 MNEIEFKEVSYSSFG--K----EILKDISVKFEGGAIYTIVGPSGAGKST--LIKLIN 50 (241)
T ss_pred CceEEEEeEEEEeCC--e----eeeeeeeEEEcCCCEEEEECCCCCCHHH--HHHHHh
Confidence 788999999988752 1 1334444445788999999999999996 656564
No 487
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=54.48 E-value=8.9 Score=44.97 Aligned_cols=33 Identities=15% Similarity=0.414 Sum_probs=27.2
Q ss_pred HHHHHHHhcCCceEEeccCCCchHHHHHHHHHHHH
Q 004379 26 EKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (758)
Q Consensus 26 ~~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~ 60 (758)
..|.+|+.++-.+||.+.||+|||- =+|-..|-
T Consensus 262 q~IMEaIn~n~vvIIcGeTGsGKTT--QvPQFLYE 294 (1172)
T KOG0926|consen 262 QRIMEAINENPVVIICGETGSGKTT--QVPQFLYE 294 (1172)
T ss_pred HHHHHHhhcCCeEEEecCCCCCccc--cchHHHHH
Confidence 3688899999999999999999998 45655553
No 488
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=54.32 E-value=29 Score=40.78 Aligned_cols=69 Identities=29% Similarity=0.279 Sum_probs=42.5
Q ss_pred CCceEEeccCCCchHHHHHHHHHHHHHhhCCCcccccccccccCCCCCCCCCCCCCCCCCCeEEEeCCccchHHHHHHHh
Q 004379 35 KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQEL 114 (758)
Q Consensus 35 ~~~~liEAPTGTGKTlayL~pal~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIi~~trT~sql~Q~i~eL 114 (758)
.+..++.+|+|||||+.-|-+.=+-+. +.. ...... .|.+.+-|.+-++|+..-+
T Consensus 393 yelsliqgppGTgkt~vtlkav~tLL~-n~s-----------------------~~~~~e-pIlvvC~Tnhavdq~ligi 447 (1025)
T KOG1807|consen 393 YELSLIQGPPGTGKTLVTLKAVDTLLL-NSS-----------------------GYTEPE-PILVVCLTNHAVDQYLIGI 447 (1025)
T ss_pred hhhheeecCCCCCceeehHHHHHHHHh-ccc-----------------------cccccc-ceeeeehhhHHHHHHHHHH
Confidence 367899999999999988755332222 111 001122 4667777877888887543
Q ss_pred hcCCCCCceEEecCC
Q 004379 115 KTSNYRPKMVILGSR 129 (758)
Q Consensus 115 kkl~~~~~~~~l~sr 129 (758)
-. ..+++++-.|||
T Consensus 448 y~-~qrpsImr~gsr 461 (1025)
T KOG1807|consen 448 YY-HQRPSIMRQGSR 461 (1025)
T ss_pred Hh-cCCceEEEeccc
Confidence 21 125666778887
No 489
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=54.31 E-value=13 Score=37.81 Aligned_cols=35 Identities=31% Similarity=0.357 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHHH
Q 004379 22 LVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (758)
Q Consensus 22 ~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal~ 58 (758)
......+..|+.......+.+|+|||||=.. -+|+
T Consensus 19 ~r~~~~l~~al~~~~~~~~~GpagtGKteti--k~La 53 (231)
T PF12774_consen 19 DRCFLTLTQALSLNLGGALSGPAGTGKTETI--KDLA 53 (231)
T ss_dssp HHHHHHHHHHHCTTTEEEEESSTTSSHHHHH--HHHH
T ss_pred HHHHHHHHHHhccCCCCCCcCCCCCCchhHH--HHHH
Confidence 3445567777888888899999999999853 4454
No 490
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.15 E-value=15 Score=42.85 Aligned_cols=35 Identities=20% Similarity=0.125 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhcCC---ceEEeccCCCchHHHHHH
Q 004379 20 CQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLLC 54 (758)
Q Consensus 20 ~Q~~~~~~i~~al~~~~---~~liEAPTGTGKTlayL~ 54 (758)
+|......+.+++.+++ ..|+.+|.|+|||....+
T Consensus 20 GQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiAri 57 (624)
T PRK14959 20 GQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARI 57 (624)
T ss_pred CCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 78999999999998874 367899999999986653
No 491
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=54.15 E-value=14 Score=44.17 Aligned_cols=33 Identities=21% Similarity=0.256 Sum_probs=25.2
Q ss_pred HHHHHHH---HHHHHHhcC--CceEEeccCCCchHHHH
Q 004379 20 CQLVYME---KVIQSLQNK--CNALLESPTGTGKTLCL 52 (758)
Q Consensus 20 ~Q~~~~~---~i~~al~~~--~~~liEAPTGTGKTlay 52 (758)
+|...+. .+.+++..+ .++++-+|+|||||...
T Consensus 32 GQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA 69 (725)
T PRK13341 32 GQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLA 69 (725)
T ss_pred CcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHH
Confidence 6877774 466666666 57999999999999733
No 492
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=54.13 E-value=7.2 Score=34.97 Aligned_cols=18 Identities=28% Similarity=0.401 Sum_probs=13.8
Q ss_pred eEEeccCCCchHHHHHHHHH
Q 004379 38 ALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 38 ~liEAPTGTGKTlayL~pal 57 (758)
++|.+++|+|||- |+-.|
T Consensus 1 I~i~G~~GsGKtT--ia~~L 18 (129)
T PF13238_consen 1 IGISGIPGSGKTT--IAKEL 18 (129)
T ss_dssp EEEEESTTSSHHH--HHHHH
T ss_pred CEEECCCCCCHHH--HHHHH
Confidence 4789999999998 43444
No 493
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=54.07 E-value=15 Score=40.69 Aligned_cols=30 Identities=27% Similarity=0.336 Sum_probs=19.5
Q ss_pred cCCceEEeccCCCchHHHHHHHHHHHHHhhC
Q 004379 34 NKCNALLESPTGTGKTLCLLCATLAWRKSLG 64 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL~pal~~~~~~~ 64 (758)
+.+|.++-+.||||||- .+-..|......+
T Consensus 14 e~~~~li~G~~GsGKT~-~i~~ll~~~~~~g 43 (386)
T PF10412_consen 14 ENRHILIIGATGSGKTQ-AIRHLLDQIRARG 43 (386)
T ss_dssp GGG-EEEEE-TTSSHHH-HHHHHHHHHHHTT
T ss_pred hhCcEEEECCCCCCHHH-HHHHHHHHHHHcC
Confidence 45789999999999996 4555554444433
No 494
>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=54.05 E-value=17 Score=36.47 Aligned_cols=24 Identities=25% Similarity=0.300 Sum_probs=18.5
Q ss_pred HhcCCceEEeccCCCchHHHHHHH
Q 004379 32 LQNKCNALLESPTGTGKTLCLLCA 55 (758)
Q Consensus 32 l~~~~~~liEAPTGTGKTlayL~p 55 (758)
|..|...++.+|+|+|||.-.+.-
T Consensus 16 i~~g~i~~i~G~~GsGKT~l~~~~ 39 (218)
T cd01394 16 VERGTVTQVYGPPGTGKTNIAIQL 39 (218)
T ss_pred ccCCeEEEEECCCCCCHHHHHHHH
Confidence 344577899999999999965544
No 495
>PRK10536 hypothetical protein; Provisional
Probab=54.01 E-value=7.8 Score=39.92 Aligned_cols=32 Identities=31% Similarity=0.669 Sum_probs=23.8
Q ss_pred CccEEEecCccccChhhhhccCCCccccEEEEeCCcchHH
Q 004379 209 TVDIVFAPYNYLIDPWFRKGLGVEWKNSILIFDEAHNLEG 248 (758)
Q Consensus 209 ~AdIIv~ny~yLl~~~~~~~~~i~~~~~ilIiDEAHnL~d 248 (758)
.-.|.|++.+|+ |+ -..++++||+|||+|+.-
T Consensus 159 ~~~Iei~~l~ym-----RG---rtl~~~~vIvDEaqn~~~ 190 (262)
T PRK10536 159 IGKVEIAPFAYM-----RG---RTFENAVVILDEAQNVTA 190 (262)
T ss_pred cCcEEEecHHHh-----cC---CcccCCEEEEechhcCCH
Confidence 456888888776 41 234778999999999855
No 496
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=53.96 E-value=24 Score=39.12 Aligned_cols=27 Identities=11% Similarity=0.078 Sum_probs=22.7
Q ss_pred ceEEeccCCCchHHHHHHHHHHHHHhh
Q 004379 37 NALLESPTGTGKTLCLLCATLAWRKSL 63 (758)
Q Consensus 37 ~~liEAPTGTGKTlayL~pal~~~~~~ 63 (758)
..+++++.|+|||.+...-.+.++...
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~ 29 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAIN 29 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhc
Confidence 568999999999999988877777653
No 497
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=53.89 E-value=13 Score=42.75 Aligned_cols=34 Identities=26% Similarity=0.256 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHhcCCceEEeccCCCchHHHHHHHHH
Q 004379 22 LVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATL 57 (758)
Q Consensus 22 ~~~~~~i~~al~~~~~~liEAPTGTGKTlayL~pal 57 (758)
.++.+.+.++-..+.+++|.++|||||++ |.-++
T Consensus 214 ~~~~~~~~~~A~~~~pvlI~GE~GtGK~~--lA~ai 247 (520)
T PRK10820 214 RQVVEQARKLAMLDAPLLITGDTGTGKDL--LAYAC 247 (520)
T ss_pred HHHHHHHHHHhCCCCCEEEECCCCccHHH--HHHHH
Confidence 33555555566677899999999999998 44444
No 498
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=53.89 E-value=30 Score=37.91 Aligned_cols=21 Identities=38% Similarity=0.328 Sum_probs=16.6
Q ss_pred cCCceEEeccCCCchHHHHHH
Q 004379 34 NKCNALLESPTGTGKTLCLLC 54 (758)
Q Consensus 34 ~~~~~liEAPTGTGKTlayL~ 54 (758)
.++++++-+|||+|||-...-
T Consensus 205 ~~~ii~lvGptGvGKTTt~ak 225 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVK 225 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHH
Confidence 357789999999999985443
No 499
>PHA00547 hypothetical protein
Probab=53.65 E-value=28 Score=35.69 Aligned_cols=35 Identities=20% Similarity=0.278 Sum_probs=25.9
Q ss_pred HHHHHHhcCCceEEeccCCCchHHHHHHHHHHHHH
Q 004379 27 KVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRK 61 (758)
Q Consensus 27 ~i~~al~~~~~~liEAPTGTGKTlayL~pal~~~~ 61 (758)
++.+.+..+-.-++++|-|||||+..=.=|..|..
T Consensus 67 k~VK~ik~spis~i~G~LGsGKTlLMT~LA~~~K~ 101 (337)
T PHA00547 67 RLVNFIWDNPLSVIIGKLGTGKTLLLTYLSQTMKL 101 (337)
T ss_pred HHHHHHhcCCceEEeccCCCchhHHHHHHHHHHHh
Confidence 45566778888999999999999965444444443
No 500
>PRK06620 hypothetical protein; Validated
Probab=53.49 E-value=13 Score=37.34 Aligned_cols=15 Identities=33% Similarity=0.671 Sum_probs=13.5
Q ss_pred CceEEeccCCCchHH
Q 004379 36 CNALLESPTGTGKTL 50 (758)
Q Consensus 36 ~~~liEAPTGTGKTl 50 (758)
..+++-+|+|+|||-
T Consensus 45 ~~l~l~Gp~G~GKTh 59 (214)
T PRK06620 45 FTLLIKGPSSSGKTY 59 (214)
T ss_pred ceEEEECCCCCCHHH
Confidence 348999999999998
Done!