Query 001656
Match_columns 1036
No_of_seqs 189 out of 1593
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 06:10:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001656.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001656hhsearch_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 4E-130 9E-135 1147.1 58.0 891 1-1012 5-943 (945)
2 TIGR00604 rad3 DNA repair heli 100.0 7E-106 1E-110 992.3 60.7 641 8-717 1-703 (705)
3 KOG1133 Helicase of the DEAD s 100.0 9E-104 2E-108 902.9 52.3 676 1-727 1-818 (821)
4 KOG1131 RNA polymerase II tran 100.0 1.6E-80 3.6E-85 689.8 47.2 661 2-728 1-724 (755)
5 PRK11747 dinG ATP-dependent DN 100.0 2.1E-73 4.5E-78 699.0 60.6 605 12-705 20-691 (697)
6 PRK08074 bifunctional ATP-depe 100.0 8.5E-73 1.8E-77 713.0 60.8 619 15-723 256-928 (928)
7 TIGR01407 dinG_rel DnaQ family 100.0 1.3E-70 2.9E-75 690.3 57.8 582 13-723 242-850 (850)
8 COG1199 DinG Rad3-related DNA 100.0 2.1E-69 4.6E-74 665.3 53.0 608 9-721 7-650 (654)
9 PRK07246 bifunctional ATP-depe 100.0 7.8E-65 1.7E-69 630.8 56.0 558 15-724 244-820 (820)
10 TIGR03117 cas_csf4 CRISPR-asso 100.0 6.5E-62 1.4E-66 581.5 56.6 573 20-704 1-631 (636)
11 smart00489 DEXDc3 DEAD-like he 100.0 4.9E-45 1.1E-49 405.6 22.8 261 10-275 2-277 (289)
12 smart00488 DEXDc2 DEAD-like he 100.0 4.9E-45 1.1E-49 405.6 22.8 261 10-275 2-277 (289)
13 PF13307 Helicase_C_2: Helicas 100.0 9.2E-39 2E-43 328.3 11.7 167 508-705 1-167 (167)
14 smart00491 HELICc2 helicase su 100.0 4E-32 8.6E-37 271.3 14.6 141 526-691 1-142 (142)
15 PF06733 DEAD_2: DEAD_2; Inte 100.0 4E-32 8.7E-37 280.8 1.8 165 99-263 1-174 (174)
16 smart00492 HELICc3 helicase su 100.0 4.3E-30 9.3E-35 256.3 14.4 139 526-690 1-140 (141)
17 PRK11192 ATP-dependent RNA hel 99.6 2.6E-12 5.7E-17 151.6 32.1 77 13-117 19-96 (434)
18 PTZ00110 helicase; Provisional 99.5 1E-11 2.3E-16 150.4 34.2 78 13-117 148-226 (545)
19 PRK04537 ATP-dependent RNA hel 99.5 4.1E-12 8.9E-17 154.6 30.3 81 12-117 26-107 (572)
20 TIGR00614 recQ_fam ATP-depende 99.5 7.7E-12 1.7E-16 149.2 30.6 108 514-687 223-332 (470)
21 PRK01297 ATP-dependent RNA hel 99.5 8.9E-12 1.9E-16 148.9 31.2 80 13-117 105-185 (475)
22 PRK11776 ATP-dependent RNA hel 99.5 6E-12 1.3E-16 149.8 29.6 80 515-617 241-321 (460)
23 PRK10590 ATP-dependent RNA hel 99.5 1.3E-11 2.8E-16 146.8 30.7 79 13-117 19-98 (456)
24 PLN00206 DEAD-box ATP-dependen 99.5 2.1E-11 4.6E-16 147.1 32.1 80 13-117 139-219 (518)
25 PRK04837 ATP-dependent RNA hel 99.5 2.4E-11 5.2E-16 143.2 30.3 87 508-617 246-334 (423)
26 PTZ00424 helicase 45; Provisio 99.4 4.2E-11 9E-16 139.7 30.2 74 12-117 45-119 (401)
27 TIGR01389 recQ ATP-dependent D 99.4 4.7E-11 1E-15 146.5 30.2 79 516-617 224-303 (591)
28 PRK11634 ATP-dependent RNA hel 99.4 9.2E-11 2E-15 144.0 31.5 73 13-117 24-97 (629)
29 PRK11057 ATP-dependent DNA hel 99.4 7.2E-11 1.6E-15 145.0 30.4 107 515-687 235-342 (607)
30 PRK13767 ATP-dependent helicas 99.4 1E-10 2.3E-15 148.7 32.2 74 16-115 32-105 (876)
31 TIGR03817 DECH_helic helicase/ 99.4 1.9E-10 4.1E-15 143.8 31.8 72 13-117 32-104 (742)
32 PRK01172 ski2-like helicase; P 99.3 3.6E-10 7.8E-15 140.8 26.8 69 13-116 19-87 (674)
33 PRK02362 ski2-like helicase; P 99.3 6.3E-10 1.4E-14 139.9 28.7 68 16-117 23-90 (737)
34 TIGR00580 mfd transcription-re 99.3 3.5E-09 7.6E-14 134.3 33.5 77 10-117 445-523 (926)
35 PLN03137 ATP-dependent DNA hel 99.2 4.9E-09 1.1E-13 132.0 30.5 79 516-617 680-759 (1195)
36 PRK09401 reverse gyrase; Revie 99.2 4.2E-09 9.2E-14 136.5 29.9 86 508-617 320-410 (1176)
37 PRK00254 ski2-like helicase; P 99.1 1.1E-08 2.4E-13 128.4 28.8 71 13-116 19-90 (720)
38 TIGR01587 cas3_core CRISPR-ass 99.1 1.5E-08 3.2E-13 116.7 27.1 51 38-117 2-52 (358)
39 PHA02558 uvsW UvsW helicase; P 99.1 2.1E-08 4.6E-13 120.8 27.4 118 504-687 333-451 (501)
40 TIGR02621 cas3_GSU0051 CRISPR- 99.1 2.3E-08 5E-13 124.2 27.3 73 14-118 13-86 (844)
41 PF04851 ResIII: Type III rest 99.0 3E-10 6.4E-15 116.8 7.6 68 15-116 2-72 (184)
42 PRK14701 reverse gyrase; Provi 99.0 6E-08 1.3E-12 128.8 30.2 71 12-117 75-145 (1638)
43 TIGR01054 rgy reverse gyrase. 99.0 1.7E-07 3.7E-12 122.0 31.1 88 508-618 318-410 (1171)
44 PF00270 DEAD: DEAD/DEAH box h 99.0 3.9E-09 8.4E-14 107.5 12.8 66 19-117 2-67 (169)
45 PRK10689 transcription-repair 98.9 1.2E-06 2.7E-11 113.8 35.6 76 10-116 594-671 (1147)
46 cd00268 DEADc DEAD-box helicas 98.9 8.4E-09 1.8E-13 108.8 12.7 75 13-117 17-92 (203)
47 PHA02653 RNA helicase NPH-II; 98.9 2.9E-07 6.3E-12 113.5 27.5 77 14-115 155-243 (675)
48 PRK09751 putative ATP-dependen 98.9 2.9E-07 6.3E-12 120.6 27.8 59 40-116 1-59 (1490)
49 TIGR01970 DEAH_box_HrpB ATP-de 98.9 5.3E-07 1.1E-11 113.6 28.6 169 502-722 195-364 (819)
50 TIGR03714 secA2 accessory Sec 98.8 5.1E-06 1.1E-10 102.7 33.2 139 425-603 350-489 (762)
51 PRK12898 secA preprotein trans 98.8 3E-06 6.5E-11 103.5 30.5 150 425-616 399-557 (656)
52 smart00487 DEXDc DEAD-like hel 98.8 2.5E-08 5.4E-13 102.5 10.1 74 12-117 4-77 (201)
53 KOG0345 ATP-dependent RNA heli 98.7 1.9E-06 4.2E-11 98.4 24.1 84 514-623 253-338 (567)
54 TIGR00963 secA preprotein tran 98.7 1.3E-05 2.9E-10 98.6 31.2 141 426-606 332-473 (745)
55 PRK11664 ATP-dependent RNA hel 98.7 9.7E-07 2.1E-11 111.4 22.1 169 502-722 198-367 (812)
56 PRK10917 ATP-dependent DNA hel 98.7 1.4E-07 3.1E-12 117.6 14.2 78 9-117 254-333 (681)
57 PRK09200 preprotein translocas 98.6 2.9E-05 6.3E-10 96.9 32.4 153 424-616 353-512 (790)
58 TIGR00643 recG ATP-dependent D 98.6 3E-07 6.5E-12 113.8 13.8 76 11-117 230-307 (630)
59 PRK09694 helicase Cas3; Provis 98.5 6.7E-07 1.4E-11 112.9 11.8 161 14-248 284-453 (878)
60 cd00046 DEXDc DEAD-like helica 98.4 1E-06 2.3E-11 85.0 10.3 52 36-116 1-52 (144)
61 PRK04914 ATP-dependent helicas 98.2 0.0012 2.5E-08 84.8 33.5 134 508-706 484-619 (956)
62 PRK13104 secA preprotein trans 98.2 0.00022 4.7E-09 89.4 24.7 140 424-604 369-510 (896)
63 COG1110 Reverse gyrase [DNA re 98.2 0.00032 6.9E-09 87.2 24.8 133 434-616 275-416 (1187)
64 TIGR00348 hsdR type I site-spe 98.1 1.7E-05 3.7E-10 98.8 11.9 73 17-118 239-317 (667)
65 PRK13766 Hef nuclease; Provisi 98.0 2.2E-05 4.8E-10 99.8 12.3 69 13-116 12-80 (773)
66 COG1204 Superfamily II helicas 98.0 1.5E-05 3.3E-10 99.9 9.9 68 16-116 31-98 (766)
67 KOG0350 DEAD-box ATP-dependent 98.0 3E-05 6.6E-10 89.4 10.1 147 17-251 160-312 (620)
68 COG1205 Distinct helicase fami 97.9 3.3E-05 7.2E-10 98.1 11.2 43 16-62 70-112 (851)
69 KOG0354 DEAD-box like helicase 97.9 4.4E-05 9.5E-10 93.2 11.5 69 15-117 61-129 (746)
70 cd00079 HELICc Helicase superf 97.9 5E-05 1.1E-09 73.5 9.9 115 502-684 15-130 (131)
71 PRK12904 preprotein translocas 97.9 0.0028 6E-08 79.7 25.9 141 425-605 356-497 (830)
72 COG1061 SSL2 DNA or RNA helica 97.9 6E-05 1.3E-09 89.7 10.7 72 11-116 31-102 (442)
73 PF13086 AAA_11: AAA domain; P 97.8 0.00016 3.6E-09 77.0 12.9 71 19-116 4-75 (236)
74 COG0556 UvrB Helicase subunit 97.8 0.013 2.9E-07 69.0 27.7 207 426-730 378-585 (663)
75 KOG0331 ATP-dependent RNA heli 97.7 7.3E-05 1.6E-09 88.6 8.6 93 501-616 326-419 (519)
76 PF02562 PhoH: PhoH-like prote 97.7 8.9E-05 1.9E-09 78.9 7.3 42 17-62 4-46 (205)
77 TIGR00631 uvrb excinuclease AB 97.6 0.24 5.1E-06 62.1 36.2 74 10-117 3-77 (655)
78 KOG0335 ATP-dependent RNA heli 97.4 0.00025 5.5E-09 83.0 7.6 72 30-119 106-177 (482)
79 PRK11448 hsdR type I restricti 97.3 0.00069 1.5E-08 88.5 10.0 79 10-117 407-486 (1123)
80 COG0513 SrmB Superfamily II DN 97.3 0.00069 1.5E-08 82.2 9.2 89 506-617 262-352 (513)
81 PRK10536 hypothetical protein; 97.2 0.0014 3.1E-08 71.9 10.2 39 16-58 58-97 (262)
82 KOG0348 ATP-dependent RNA heli 97.2 0.00073 1.6E-08 78.9 8.2 75 17-117 160-234 (708)
83 COG4889 Predicted helicase [Ge 97.2 0.0022 4.8E-08 78.4 11.8 165 7-248 152-318 (1518)
84 COG1111 MPH1 ERCC4-like helica 97.2 0.0015 3.1E-08 76.5 9.8 91 502-613 351-450 (542)
85 PRK05580 primosome assembly pr 97.0 0.0021 4.5E-08 80.6 10.2 72 13-116 141-212 (679)
86 TIGR00376 DNA helicase, putati 97.0 0.0057 1.2E-07 76.1 13.4 76 18-129 159-234 (637)
87 COG1201 Lhr Lhr-like helicases 97.0 0.0022 4.8E-08 80.3 9.5 73 16-115 22-94 (814)
88 PF00176 SNF2_N: SNF2 family N 96.9 0.0032 6.8E-08 70.1 8.6 38 20-57 1-47 (299)
89 COG4581 Superfamily II RNA hel 96.9 0.0022 4.8E-08 81.6 8.1 72 10-116 113-184 (1041)
90 PF13245 AAA_19: Part of AAA d 96.8 0.005 1.1E-07 55.4 8.0 61 27-114 2-62 (76)
91 TIGR01967 DEAH_box_HrpA ATP-de 96.8 0.014 3.1E-07 76.7 15.4 218 437-721 213-431 (1283)
92 KOG0342 ATP-dependent RNA heli 96.8 0.0018 3.9E-08 75.3 5.8 62 32-117 116-177 (543)
93 KOG0344 ATP-dependent RNA heli 96.7 0.0035 7.5E-08 74.5 7.9 77 17-120 159-235 (593)
94 KOG1803 DNA helicase [Replicat 96.7 0.0094 2E-07 71.3 11.3 72 10-115 179-250 (649)
95 PRK12899 secA preprotein trans 96.6 0.0049 1.1E-07 77.7 8.5 142 424-605 493-635 (970)
96 TIGR03158 cas3_cyano CRISPR-as 96.5 0.0055 1.2E-07 71.1 7.9 83 499-605 254-337 (357)
97 KOG0339 ATP-dependent RNA heli 96.3 0.0076 1.6E-07 70.2 7.0 124 35-249 260-385 (731)
98 PLN03142 Probable chromatin-re 96.3 0.036 7.9E-07 71.8 13.7 73 16-117 169-241 (1033)
99 PRK11131 ATP-dependent RNA hel 96.2 0.054 1.2E-06 71.3 15.1 217 437-720 220-437 (1294)
100 KOG1802 RNA helicase nonsense 96.1 0.041 9E-07 66.2 12.0 70 19-124 413-482 (935)
101 TIGR00603 rad25 DNA repair hel 96.1 0.014 3.1E-07 72.9 8.7 78 514-618 494-572 (732)
102 PRK11448 hsdR type I restricti 96.1 0.074 1.6E-06 70.1 15.1 128 503-687 684-814 (1123)
103 KOG4204 Histone deacetylase co 96.1 0.0085 1.9E-07 65.1 5.5 69 955-1025 17-87 (231)
104 COG1203 CRISPR-associated heli 95.9 0.018 3.8E-07 73.0 8.5 78 13-117 192-269 (733)
105 KOG0330 ATP-dependent RNA heli 95.9 0.024 5.3E-07 64.5 8.3 79 17-127 84-165 (476)
106 COG4096 HsdR Type I site-speci 95.9 0.017 3.6E-07 71.5 7.4 128 501-688 406-545 (875)
107 KOG0346 RNA helicase [RNA proc 95.9 0.016 3.5E-07 66.8 6.8 63 32-116 53-115 (569)
108 PF00271 Helicase_C: Helicase 95.8 0.014 3.1E-07 51.8 4.9 43 565-617 20-62 (78)
109 PRK10917 ATP-dependent DNA hel 95.7 0.26 5.6E-06 62.2 17.5 91 504-616 460-559 (681)
110 TIGR03158 cas3_cyano CRISPR-as 95.7 0.21 4.5E-06 58.1 15.5 55 28-116 5-61 (357)
111 COG5602 SIN3 Histone deacetyla 95.5 0.031 6.8E-07 68.6 7.9 80 944-1025 111-196 (1163)
112 TIGR00643 recG ATP-dependent D 95.4 0.43 9.3E-06 59.7 17.8 80 516-616 448-536 (630)
113 COG0514 RecQ Superfamily II DN 95.3 0.038 8.3E-07 67.3 7.5 70 11-118 11-81 (590)
114 KOG1805 DNA replication helica 95.2 0.16 3.4E-06 64.0 12.6 137 19-248 672-810 (1100)
115 COG1200 RecG RecG-like helicas 95.2 0.11 2.3E-06 63.6 10.9 86 11-127 257-346 (677)
116 PF02671 PAH: Paired amphipath 95.0 0.029 6.2E-07 45.5 3.8 46 974-1021 2-47 (47)
117 COG1202 Superfamily II helicas 95.0 0.11 2.4E-06 61.8 9.9 174 435-685 372-549 (830)
118 smart00490 HELICc helicase sup 95.0 0.043 9.3E-07 48.2 5.2 42 566-617 25-66 (82)
119 COG1202 Superfamily II helicas 94.9 0.041 8.8E-07 65.4 6.2 66 18-116 218-283 (830)
120 PRK13103 secA preprotein trans 94.7 0.14 3E-06 65.0 10.5 140 424-603 374-514 (913)
121 KOG0343 RNA Helicase [RNA proc 94.7 0.038 8.3E-07 65.3 5.1 73 34-130 105-180 (758)
122 KOG0334 RNA helicase [RNA proc 94.6 0.06 1.3E-06 68.1 7.0 79 12-117 382-461 (997)
123 KOG0333 U5 snRNP-like RNA heli 94.3 0.087 1.9E-06 62.2 6.9 78 17-117 268-345 (673)
124 PF13604 AAA_30: AAA domain; P 94.3 0.16 3.5E-06 53.9 8.6 61 19-113 4-65 (196)
125 TIGR00595 priA primosomal prot 94.3 0.072 1.6E-06 64.7 6.6 77 567-685 301-377 (505)
126 KOG0952 DNA/RNA helicase MER3/ 94.2 0.14 3.1E-06 64.7 8.8 65 31-116 122-186 (1230)
127 COG1061 SSL2 DNA or RNA helica 94.0 0.42 9.2E-06 57.2 12.3 76 516-614 283-358 (442)
128 TIGR00603 rad25 DNA repair hel 93.6 0.63 1.4E-05 58.6 13.1 17 662-678 574-590 (732)
129 TIGR02640 gas_vesic_GvpN gas v 93.6 0.12 2.6E-06 57.5 6.2 41 17-59 3-43 (262)
130 PRK05298 excinuclease ABC subu 93.5 0.59 1.3E-05 58.7 12.7 74 10-117 6-80 (652)
131 KOG0389 SNF2 family DNA-depend 93.2 0.24 5.3E-06 61.1 8.3 100 501-622 763-863 (941)
132 KOG0385 Chromatin remodeling c 93.2 0.41 9E-06 59.0 10.1 81 16-125 167-247 (971)
133 COG0610 Type I site-specific r 92.8 0.92 2E-05 59.4 13.3 70 19-117 251-326 (962)
134 PHA02244 ATPase-like protein 92.8 0.2 4.3E-06 58.1 6.4 48 11-60 94-142 (383)
135 PRK15483 type III restriction- 92.8 0.39 8.5E-06 61.7 9.5 52 13-64 3-88 (986)
136 PRK13107 preprotein translocas 92.6 0.2 4.3E-06 63.6 6.7 140 425-605 375-516 (908)
137 PF00580 UvrD-helicase: UvrD/R 92.3 0.32 6.9E-06 54.3 7.3 54 34-114 12-65 (315)
138 COG1197 Mfd Transcription-repa 92.3 1.1 2.4E-05 58.2 12.6 86 10-126 588-677 (1139)
139 PRK13766 Hef nuclease; Provisi 92.2 1.1 2.5E-05 57.3 13.1 92 502-616 350-451 (773)
140 KOG0336 ATP-dependent RNA heli 92.0 0.16 3.6E-06 58.1 4.3 78 18-117 225-317 (629)
141 PRK12902 secA preprotein trans 91.9 0.54 1.2E-05 59.7 9.1 140 425-604 365-507 (939)
142 PRK09694 helicase Cas3; Provis 91.7 3.2 6.9E-05 53.8 16.0 85 504-603 549-638 (878)
143 PRK13531 regulatory ATPase Rav 91.4 0.18 4E-06 60.3 4.3 39 19-59 23-61 (498)
144 COG0714 MoxR-like ATPases [Gen 91.3 0.23 5E-06 57.0 4.8 41 18-60 26-66 (329)
145 PF01695 IstB_IS21: IstB-like 91.2 0.42 9E-06 50.1 6.2 26 32-59 44-69 (178)
146 COG1205 Distinct helicase fami 90.9 1.3 2.8E-05 57.2 11.3 174 422-617 214-393 (851)
147 PRK06835 DNA replication prote 90.7 0.55 1.2E-05 54.0 7.1 24 34-59 182-205 (329)
148 COG1111 MPH1 ERCC4-like helica 90.6 3.1 6.8E-05 49.6 13.1 66 15-115 14-79 (542)
149 PRK08181 transposase; Validate 90.5 0.89 1.9E-05 50.8 8.4 39 19-59 90-128 (269)
150 PRK12900 secA preprotein trans 89.8 3.9 8.4E-05 52.8 13.9 154 425-618 524-682 (1025)
151 COG1204 Superfamily II helicas 89.6 4.6 0.0001 51.6 14.6 91 436-538 181-275 (766)
152 COG4096 HsdR Type I site-speci 89.1 2.9 6.2E-05 52.6 11.8 73 16-117 165-238 (875)
153 TIGR00595 priA primosomal prot 89.1 9.1 0.0002 46.8 16.1 47 39-116 1-47 (505)
154 COG1203 CRISPR-associated heli 88.8 8 0.00017 49.5 16.0 111 516-691 440-554 (733)
155 COG1484 DnaC DNA replication p 88.7 1.8 3.8E-05 48.1 8.9 41 19-61 89-129 (254)
156 cd00009 AAA The AAA+ (ATPases 88.6 0.63 1.4E-05 44.8 4.8 37 20-58 2-40 (151)
157 KOG0947 Cytoplasmic exosomal R 88.5 0.81 1.8E-05 57.7 6.5 76 7-117 288-363 (1248)
158 KOG0952 DNA/RNA helicase MER3/ 88.5 9.2 0.0002 49.4 15.5 196 434-688 274-490 (1230)
159 PRK13407 bchI magnesium chelat 87.8 0.46 1E-05 54.7 3.7 39 12-50 4-44 (334)
160 KOG0338 ATP-dependent RNA heli 87.8 0.7 1.5E-05 54.7 5.1 74 14-116 200-274 (691)
161 KOG0951 RNA helicase BRR2, DEA 87.3 15 0.00032 48.5 16.3 203 435-694 474-707 (1674)
162 KOG0951 RNA helicase BRR2, DEA 87.2 1.7 3.7E-05 56.5 8.3 84 28-131 317-403 (1674)
163 PF06745 KaiC: KaiC; InterPro 86.9 1.1 2.5E-05 48.2 6.0 20 34-53 18-37 (226)
164 KOG0351 ATP-dependent DNA heli 86.8 0.39 8.4E-06 62.0 2.6 46 10-59 257-303 (941)
165 PRK12906 secA preprotein trans 86.8 16 0.00034 46.8 16.4 139 425-603 366-505 (796)
166 cd07347 harmonin_N_like N-term 86.3 1.3 2.8E-05 40.1 4.9 74 959-1033 4-77 (78)
167 KOG0341 DEAD-box protein abstr 86.1 2.5 5.4E-05 48.6 8.1 130 434-605 356-490 (610)
168 KOG0343 RNA Helicase [RNA proc 85.6 8.3 0.00018 46.5 12.2 87 506-614 302-391 (758)
169 cd07354 HN_L-delphilin-R1_like 85.4 0.8 1.7E-05 41.2 3.1 73 959-1033 4-79 (80)
170 KOG0948 Nuclear exosomal RNA h 85.4 1.6 3.4E-05 54.1 6.4 70 11-115 124-193 (1041)
171 KOG0328 Predicted ATP-dependen 85.3 0.56 1.2E-05 51.7 2.5 76 11-118 43-119 (400)
172 PRK12402 replication factor C 85.2 0.96 2.1E-05 51.5 4.6 35 19-53 18-54 (337)
173 KOG0353 ATP-dependent DNA heli 85.2 1.5 3.2E-05 50.0 5.7 42 13-58 90-132 (695)
174 PRK12903 secA preprotein trans 85.0 3 6.6E-05 53.1 9.0 142 424-605 351-493 (925)
175 PF13872 AAA_34: P-loop contai 85.0 3.3 7E-05 46.9 8.4 61 209-274 136-208 (303)
176 PRK12906 secA preprotein trans 84.7 3 6.5E-05 53.0 8.8 67 13-116 77-143 (796)
177 KOG0340 ATP-dependent RNA heli 84.4 3.1 6.8E-05 47.6 7.8 72 15-118 28-99 (442)
178 COG1474 CDC6 Cdc6-related prot 84.4 3.3 7.1E-05 48.5 8.5 41 15-55 19-62 (366)
179 KOG0352 ATP-dependent DNA heli 84.3 1.7 3.7E-05 50.5 5.8 45 11-58 13-59 (641)
180 PRK12901 secA preprotein trans 84.0 3.7 8E-05 53.2 9.1 139 425-603 554-693 (1112)
181 cd01124 KaiC KaiC is a circadi 83.9 2 4.3E-05 44.4 5.9 21 37-57 1-21 (187)
182 KOG0342 ATP-dependent RNA heli 83.8 13 0.00028 44.4 12.8 77 517-616 331-408 (543)
183 COG0513 SrmB Superfamily II DN 83.6 15 0.00033 44.9 14.1 74 14-117 48-122 (513)
184 PRK12326 preprotein translocas 83.5 3.2 6.9E-05 52.1 8.2 141 424-604 352-493 (764)
185 TIGR01650 PD_CobS cobaltochela 83.3 1.6 3.4E-05 50.1 5.1 40 18-59 47-86 (327)
186 KOG0989 Replication factor C, 83.2 1.5 3.4E-05 49.3 4.8 38 19-56 39-78 (346)
187 COG4098 comFA Superfamily II D 83.0 14 0.00031 42.4 12.1 88 503-614 293-380 (441)
188 smart00382 AAA ATPases associa 82.7 1 2.2E-05 42.8 2.9 19 35-53 2-20 (148)
189 TIGR00390 hslU ATP-dependent p 82.5 1.4 3E-05 52.1 4.4 39 19-59 15-69 (441)
190 PRK09183 transposase/IS protei 82.5 1.2 2.7E-05 49.4 3.8 27 32-60 99-125 (259)
191 PRK08939 primosomal protein Dn 82.5 2 4.4E-05 49.0 5.6 39 20-60 135-179 (306)
192 COG1198 PriA Primosomal protei 82.2 3.2 6.9E-05 52.5 7.6 67 19-116 201-267 (730)
193 PRK13894 conjugal transfer ATP 82.1 1.8 3.9E-05 49.6 5.1 33 24-57 137-169 (319)
194 TIGR02030 BchI-ChlI magnesium 82.0 1.9 4.1E-05 49.9 5.2 44 13-58 1-46 (337)
195 KOG0926 DEAH-box RNA helicase 82.0 2.8 6.2E-05 52.2 6.8 90 435-541 414-506 (1172)
196 PRK06526 transposase; Provisio 81.5 1.5 3.3E-05 48.6 4.1 28 30-59 93-120 (254)
197 KOG4150 Predicted ATP-dependen 81.1 47 0.001 40.5 15.8 182 436-685 452-637 (1034)
198 PRK11131 ATP-dependent RNA hel 81.0 3.3 7.1E-05 55.3 7.4 33 25-59 79-111 (1294)
199 PF13191 AAA_16: AAA ATPase do 80.9 1.2 2.7E-05 45.6 2.9 42 15-58 2-45 (185)
200 PRK07952 DNA replication prote 80.8 6.9 0.00015 43.2 8.8 38 19-58 79-120 (244)
201 PRK08116 hypothetical protein; 80.8 7.2 0.00016 43.6 9.1 21 37-59 116-136 (268)
202 PF01078 Mg_chelatase: Magnesi 80.7 1.6 3.5E-05 46.8 3.7 34 18-51 5-38 (206)
203 PRK05298 excinuclease ABC subu 80.7 4.9 0.00011 50.6 8.6 91 502-616 433-524 (652)
204 KOG0331 ATP-dependent RNA heli 80.4 6.1 0.00013 47.9 8.8 75 17-117 114-188 (519)
205 TIGR02562 cas3_yersinia CRISPR 80.3 6.7 0.00015 51.1 9.5 45 206-250 559-609 (1110)
206 PRK11331 5-methylcytosine-spec 79.9 2.5 5.5E-05 50.4 5.3 35 23-59 182-216 (459)
207 KOG4439 RNA polymerase II tran 79.8 0.41 8.9E-06 58.5 -1.2 52 196-249 412-478 (901)
208 COG1219 ClpX ATP-dependent pro 79.8 1.3 2.9E-05 49.9 2.8 23 35-59 97-119 (408)
209 PLN03025 replication factor C 79.7 2 4.4E-05 49.0 4.4 34 20-53 17-52 (319)
210 PRK12377 putative replication 79.4 5.2 0.00011 44.2 7.3 39 19-59 81-123 (248)
211 TIGR00382 clpX endopeptidase C 79.3 2.3 5E-05 50.4 4.9 39 19-59 80-138 (413)
212 cd07353 harmonin_N N-terminal 79.3 5.1 0.00011 35.0 5.5 67 963-1031 8-76 (79)
213 COG4889 Predicted helicase [Ge 79.2 1.2 2.5E-05 55.9 2.3 25 661-685 558-584 (1518)
214 PRK06921 hypothetical protein; 79.0 5.2 0.00011 44.7 7.3 23 34-58 116-138 (266)
215 PF12340 DUF3638: Protein of u 79.0 3.8 8.2E-05 44.7 5.9 48 15-64 22-69 (229)
216 COG1702 PhoH Phosphate starvat 79.0 7.8 0.00017 44.5 8.6 34 19-56 131-164 (348)
217 PRK13900 type IV secretion sys 78.9 2.8 6.1E-05 48.4 5.3 32 21-52 146-177 (332)
218 KOG0347 RNA helicase [RNA proc 78.9 6.2 0.00013 47.5 8.0 85 511-617 458-542 (731)
219 PRK05342 clpX ATP-dependent pr 78.7 2.2 4.7E-05 50.7 4.4 39 19-59 74-130 (412)
220 KOG0922 DEAH-box RNA helicase 78.3 12 0.00025 46.4 10.2 94 427-539 186-281 (674)
221 PF05673 DUF815: Protein of un 78.3 9.7 0.00021 42.0 8.8 77 17-126 31-111 (249)
222 TIGR01967 DEAH_box_HrpA ATP-de 78.1 4 8.7E-05 54.6 6.9 32 26-59 73-104 (1283)
223 PRK13851 type IV secretion sys 78.1 2.7 5.9E-05 48.7 4.9 34 23-58 150-183 (344)
224 PF06309 Torsin: Torsin; Inte 77.7 2.9 6.4E-05 41.4 4.2 33 20-52 29-70 (127)
225 PRK13833 conjugal transfer pro 77.5 3 6.5E-05 47.9 4.9 28 24-51 133-160 (323)
226 PF07728 AAA_5: AAA domain (dy 77.4 1.9 4.1E-05 42.6 2.9 22 37-60 1-22 (139)
227 KOG0923 mRNA splicing factor A 77.3 1.3 2.9E-05 53.9 2.0 182 437-680 412-599 (902)
228 PRK06067 flagellar accessory p 77.2 3.9 8.4E-05 44.4 5.5 27 31-59 21-47 (234)
229 KOG0327 Translation initiation 77.0 1.5 3.1E-05 50.6 2.1 86 508-616 256-341 (397)
230 PF05970 PIF1: PIF1-like helic 76.8 4.9 0.00011 46.9 6.6 35 19-53 4-40 (364)
231 TIGR03420 DnaA_homol_Hda DnaA 76.7 3.2 6.9E-05 44.4 4.6 37 20-58 21-59 (226)
232 TIGR02782 TrbB_P P-type conjug 76.4 3.5 7.5E-05 46.9 5.0 28 24-51 121-148 (299)
233 COG1201 Lhr Lhr-like helicases 76.3 57 0.0012 42.1 15.9 144 436-614 184-330 (814)
234 PF00158 Sigma54_activat: Sigm 76.3 2.7 5.8E-05 43.6 3.8 34 22-57 9-42 (168)
235 PF00308 Bac_DnaA: Bacterial d 76.3 6.6 0.00014 42.5 6.9 45 12-58 4-55 (219)
236 KOG0991 Replication factor C, 76.2 3.7 8.1E-05 44.6 4.8 37 22-58 33-71 (333)
237 TIGR00764 lon_rel lon-related 76.1 3.1 6.7E-05 51.9 4.9 39 18-58 20-58 (608)
238 TIGR03877 thermo_KaiC_1 KaiC d 75.9 3.8 8.2E-05 44.7 5.0 22 31-52 17-38 (237)
239 COG1223 Predicted ATPase (AAA+ 75.7 2 4.2E-05 47.4 2.6 21 36-58 152-172 (368)
240 PF09848 DUF2075: Uncharacteri 75.5 4.5 9.8E-05 46.9 5.8 51 36-115 2-52 (352)
241 PRK05201 hslU ATP-dependent pr 75.4 3.3 7.2E-05 49.0 4.6 38 19-58 18-71 (443)
242 COG0606 Predicted ATPase with 75.2 2.5 5.5E-05 50.3 3.5 32 19-50 182-213 (490)
243 cd01130 VirB11-like_ATPase Typ 75.1 4.2 9.2E-05 42.6 4.9 28 24-51 14-41 (186)
244 cd00984 DnaB_C DnaB helicase C 74.9 3 6.5E-05 45.2 3.9 35 27-61 5-39 (242)
245 PF06862 DUF1253: Protein of u 74.7 34 0.00074 41.0 12.7 85 513-618 297-382 (442)
246 KOG0326 ATP-dependent RNA heli 74.6 2.4 5.2E-05 47.7 3.0 72 14-116 104-178 (459)
247 TIGR00348 hsdR type I site-spe 74.6 25 0.00053 44.6 12.3 98 500-614 494-617 (667)
248 PRK14961 DNA polymerase III su 74.6 3.5 7.6E-05 48.1 4.6 35 19-53 19-56 (363)
249 KOG0337 ATP-dependent RNA heli 74.5 4 8.6E-05 47.7 4.7 70 17-117 44-113 (529)
250 smart00763 AAA_PrkA PrkA AAA d 74.3 5.3 0.00012 46.5 5.8 49 9-59 42-100 (361)
251 KOG0332 ATP-dependent RNA heli 74.3 58 0.0012 38.0 13.6 145 434-619 263-411 (477)
252 KOG0744 AAA+-type ATPase [Post 74.2 4.5 9.8E-05 46.0 5.0 35 22-58 152-198 (423)
253 CHL00081 chlI Mg-protoporyphyr 73.8 2.2 4.9E-05 49.4 2.7 40 11-50 12-53 (350)
254 KOG0333 U5 snRNP-like RNA heli 73.7 36 0.00077 41.2 12.2 130 434-605 451-586 (673)
255 PF12775 AAA_7: P-loop contain 73.7 3.4 7.3E-05 46.4 4.0 30 23-52 21-50 (272)
256 PRK08533 flagellar accessory p 73.7 5.4 0.00012 43.5 5.5 21 32-52 21-41 (230)
257 KOG0745 Putative ATP-dependent 73.5 6.1 0.00013 46.5 5.9 23 35-59 226-248 (564)
258 PF07726 AAA_3: ATPase family 73.3 1.8 3.8E-05 43.1 1.4 17 37-53 1-17 (131)
259 PRK14964 DNA polymerase III su 72.9 16 0.00035 44.4 9.7 38 20-57 17-57 (491)
260 PRK14955 DNA polymerase III su 72.6 4.2 9.2E-05 48.0 4.7 37 18-54 18-57 (397)
261 COG0467 RAD55 RecA-superfamily 72.2 5.4 0.00012 44.1 5.1 25 31-55 19-43 (260)
262 TIGR03880 KaiC_arch_3 KaiC dom 71.8 6 0.00013 42.6 5.3 19 34-52 15-33 (224)
263 smart00488 DEXDc2 DEAD-like he 71.7 2.3 5E-05 48.0 2.1 20 95-114 62-81 (289)
264 smart00489 DEXDc3 DEAD-like he 71.7 2.3 5E-05 48.0 2.1 20 95-114 62-81 (289)
265 PLN03142 Probable chromatin-re 71.6 16 0.00034 48.3 9.7 83 515-617 486-569 (1033)
266 PRK10875 recD exonuclease V su 71.4 16 0.00035 45.7 9.5 72 12-114 146-219 (615)
267 TIGR01447 recD exodeoxyribonuc 71.4 15 0.00032 45.8 9.1 66 19-114 148-213 (586)
268 TIGR03015 pepcterm_ATPase puta 71.4 6.1 0.00013 43.4 5.3 34 19-52 26-60 (269)
269 PF13401 AAA_22: AAA domain; P 71.2 2.5 5.3E-05 40.9 1.9 21 33-53 2-22 (131)
270 COG1643 HrpA HrpA-like helicas 71.1 13 0.00027 48.0 8.5 213 437-722 197-415 (845)
271 PRK05973 replicative DNA helic 70.5 6.4 0.00014 43.3 5.1 30 26-55 55-84 (237)
272 PF02399 Herpes_ori_bp: Origin 70.2 7.3 0.00016 49.4 6.1 55 34-119 48-103 (824)
273 PHA00729 NTP-binding motif con 70.1 5.7 0.00012 43.3 4.5 34 24-59 4-39 (226)
274 TIGR00635 ruvB Holliday juncti 70.1 5.4 0.00012 44.9 4.7 34 19-52 7-47 (305)
275 PRK04328 hypothetical protein; 69.9 6.3 0.00014 43.5 5.0 19 32-50 20-38 (249)
276 KOG0347 RNA helicase [RNA proc 69.8 4 8.7E-05 49.1 3.5 81 17-117 204-286 (731)
277 PF14532 Sigma54_activ_2: Sigm 69.8 5.5 0.00012 39.5 4.1 29 23-51 9-37 (138)
278 PRK00440 rfc replication facto 69.7 5.4 0.00012 45.0 4.6 34 20-53 21-56 (319)
279 PRK14962 DNA polymerase III su 69.7 5.3 0.00011 48.4 4.6 35 19-53 17-54 (472)
280 PHA02533 17 large terminase pr 69.5 18 0.00038 44.6 9.1 71 13-116 56-126 (534)
281 COG1643 HrpA HrpA-like helicas 69.2 3.8 8.3E-05 52.6 3.4 30 23-52 53-82 (845)
282 PF07517 SecA_DEAD: SecA DEAD- 69.1 14 0.00031 41.2 7.6 43 12-60 73-115 (266)
283 PRK06645 DNA polymerase III su 68.9 5.4 0.00012 48.6 4.5 36 20-55 25-63 (507)
284 PF00004 AAA: ATPase family as 68.8 4.5 9.8E-05 38.8 3.2 21 38-60 1-21 (132)
285 KOG0344 ATP-dependent RNA heli 68.8 19 0.00041 43.9 8.8 79 515-614 386-464 (593)
286 TIGR02688 conserved hypothetic 68.5 9 0.00019 45.5 6.0 34 19-52 193-226 (449)
287 TIGR02928 orc1/cdc6 family rep 68.5 7 0.00015 45.2 5.2 36 17-52 19-57 (365)
288 PF00437 T2SE: Type II/IV secr 68.5 5.2 0.00011 44.4 4.0 36 23-59 115-150 (270)
289 CHL00122 secA preprotein trans 68.3 11 0.00024 48.3 7.1 141 425-605 350-493 (870)
290 COG2256 MGS1 ATPase related to 68.2 12 0.00026 43.9 6.8 69 18-117 26-99 (436)
291 PRK14952 DNA polymerase III su 68.1 5.4 0.00012 49.5 4.3 38 19-56 16-56 (584)
292 PRK14956 DNA polymerase III su 68.0 6 0.00013 47.7 4.6 35 19-53 21-58 (484)
293 PRK08903 DnaA regulatory inact 67.6 7.6 0.00017 41.8 5.0 35 23-59 27-64 (227)
294 PF02367 UPF0079: Uncharacteri 67.6 4.4 9.4E-05 40.0 2.8 35 22-58 2-36 (123)
295 PRK00080 ruvB Holliday junctio 67.5 5.8 0.00012 45.5 4.2 36 18-53 27-69 (328)
296 TIGR02902 spore_lonB ATP-depen 67.3 4.9 0.00011 49.4 3.7 34 19-52 68-103 (531)
297 TIGR01448 recD_rel helicase, p 67.1 19 0.00042 46.0 9.1 36 13-52 320-355 (720)
298 PRK07993 DNA polymerase III su 67.1 20 0.00043 41.5 8.5 41 16-56 2-45 (334)
299 PRK06871 DNA polymerase III su 66.9 31 0.00068 39.8 9.9 40 17-56 3-45 (325)
300 TIGR02639 ClpA ATP-dependent C 66.7 5.4 0.00012 51.0 4.1 37 20-58 458-505 (731)
301 PRK07399 DNA polymerase III su 66.2 28 0.0006 39.9 9.3 39 17-55 5-46 (314)
302 KOG0949 Predicted helicase, DE 66.1 13 0.00028 47.8 6.9 68 15-115 510-577 (1330)
303 TIGR02442 Cob-chelat-sub cobal 66.1 5.5 0.00012 50.1 3.9 40 13-52 1-42 (633)
304 PRK11034 clpA ATP-dependent Cl 65.8 5.7 0.00012 50.8 4.1 34 19-52 461-505 (758)
305 COG4962 CpaF Flp pilus assembl 65.8 7.6 0.00016 44.7 4.6 33 23-57 161-193 (355)
306 TIGR02788 VirB11 P-type DNA tr 65.8 7.8 0.00017 44.2 4.8 32 24-57 133-164 (308)
307 KOG0920 ATP-dependent RNA heli 65.7 9.2 0.0002 49.4 5.8 109 425-537 308-434 (924)
308 COG2804 PulE Type II secretory 65.7 7.6 0.00017 46.7 4.8 36 28-64 250-286 (500)
309 KOG0328 Predicted ATP-dependen 65.6 65 0.0014 36.3 11.3 79 517-617 267-345 (400)
310 PF13177 DNA_pol3_delta2: DNA 65.6 8.5 0.00018 39.6 4.6 34 20-53 1-37 (162)
311 PRK13765 ATP-dependent proteas 65.5 6.9 0.00015 49.0 4.6 36 17-52 32-67 (637)
312 COG1222 RPT1 ATP-dependent 26S 65.5 4.5 9.9E-05 46.6 2.7 21 36-58 186-206 (406)
313 TIGR00150 HI0065_YjeE ATPase, 65.4 7.9 0.00017 38.8 4.1 35 22-58 9-43 (133)
314 PRK00411 cdc6 cell division co 65.3 21 0.00046 41.7 8.4 38 18-55 35-75 (394)
315 PRK03992 proteasome-activating 65.1 8.1 0.00018 45.6 4.9 22 36-59 166-187 (389)
316 KOG0330 ATP-dependent RNA heli 65.0 24 0.00053 41.1 8.3 139 434-617 234-379 (476)
317 TIGR03346 chaperone_ClpB ATP-d 65.0 6.1 0.00013 51.4 4.1 39 19-59 568-617 (852)
318 PRK14958 DNA polymerase III su 64.9 6.7 0.00015 47.9 4.3 36 19-54 19-57 (509)
319 PRK08727 hypothetical protein; 64.7 12 0.00027 40.7 5.9 22 36-59 42-63 (233)
320 TIGR03881 KaiC_arch_4 KaiC dom 64.6 13 0.00028 40.0 6.1 24 31-54 16-39 (229)
321 PF12207 DUF3600: Domain of un 64.6 6.9 0.00015 39.3 3.4 35 961-995 30-64 (162)
322 KOG0392 SNF2 family DNA-depend 64.2 16 0.00034 48.1 7.2 82 515-613 1339-1420(1549)
323 COG0514 RecQ Superfamily II DN 64.1 1E+02 0.0023 38.3 14.1 140 436-617 167-309 (590)
324 TIGR02768 TraA_Ti Ti-type conj 64.1 18 0.00039 46.4 8.0 34 15-51 351-384 (744)
325 PTZ00361 26 proteosome regulat 63.9 8.9 0.00019 45.9 5.0 23 35-59 217-239 (438)
326 PRK08769 DNA polymerase III su 63.4 9.9 0.00021 43.7 5.0 39 17-55 5-46 (319)
327 cd01122 GP4d_helicase GP4d_hel 63.2 8 0.00017 42.8 4.2 30 30-59 25-54 (271)
328 COG4525 TauB ABC-type taurine 63.1 6.8 0.00015 41.8 3.3 48 1-52 1-48 (259)
329 PRK13342 recombination factor 62.8 6.2 0.00013 46.9 3.4 35 18-52 14-53 (413)
330 PRK09302 circadian clock prote 62.5 9.9 0.00021 46.4 5.2 29 25-53 20-49 (509)
331 PRK14963 DNA polymerase III su 62.4 8.4 0.00018 47.0 4.5 37 19-55 17-56 (504)
332 cd07357 HN_L-whirlin_R2_like S 62.3 13 0.00029 33.6 4.5 70 964-1033 9-78 (81)
333 PF00448 SRP54: SRP54-type pro 62.3 14 0.00031 39.3 5.6 21 37-59 3-23 (196)
334 TIGR02880 cbbX_cfxQ probable R 62.2 6 0.00013 44.6 3.0 17 36-52 59-75 (284)
335 PRK14954 DNA polymerase III su 61.8 8.2 0.00018 48.3 4.3 37 19-55 19-58 (620)
336 COG2874 FlaH Predicted ATPases 61.7 19 0.00041 39.0 6.3 53 36-120 29-81 (235)
337 KOG0925 mRNA splicing factor A 61.5 46 0.001 39.9 9.8 84 436-539 192-276 (699)
338 CHL00095 clpC Clp protease ATP 61.3 7.4 0.00016 50.4 3.9 39 19-59 512-561 (821)
339 PRK10865 protein disaggregatio 61.0 6.7 0.00014 51.0 3.5 38 19-58 571-619 (857)
340 KOG4284 DEAD box protein [Tran 61.0 12 0.00026 46.0 5.2 80 11-118 19-117 (980)
341 PRK14969 DNA polymerase III su 60.9 9.1 0.0002 47.0 4.4 36 19-54 19-57 (527)
342 TIGR02639 ClpA ATP-dependent C 60.7 9.9 0.00022 48.6 4.9 42 16-59 182-225 (731)
343 PRK06893 DNA replication initi 60.6 18 0.0004 39.3 6.3 29 22-50 24-54 (229)
344 PRK10919 ATP-dependent DNA hel 60.5 17 0.00036 46.2 6.8 55 35-116 15-69 (672)
345 PRK05642 DNA replication initi 60.3 17 0.00036 39.8 5.9 22 36-59 46-67 (234)
346 PTZ00112 origin recognition co 60.1 11 0.00024 48.5 4.9 39 17-55 759-801 (1164)
347 PF05496 RuvB_N: Holliday junc 60.1 14 0.0003 40.4 5.1 42 15-58 23-71 (233)
348 COG4098 comFA Superfamily II D 60.1 37 0.0008 39.2 8.5 46 18-64 99-144 (441)
349 PRK14950 DNA polymerase III su 60.0 8.9 0.00019 47.7 4.2 37 19-55 19-58 (585)
350 PRK14957 DNA polymerase III su 59.9 10 0.00022 46.6 4.6 36 19-54 19-57 (546)
351 TIGR01241 FtsH_fam ATP-depende 59.9 11 0.00024 45.9 4.9 22 36-59 89-110 (495)
352 KOG2340 Uncharacterized conser 59.8 32 0.00069 41.7 8.2 95 503-617 539-633 (698)
353 TIGR02655 circ_KaiC circadian 59.7 13 0.00029 45.1 5.5 22 32-53 260-281 (484)
354 CHL00176 ftsH cell division pr 59.6 11 0.00023 47.5 4.8 40 18-59 188-238 (638)
355 COG0593 DnaA ATPase involved i 59.5 32 0.00069 40.8 8.3 35 23-59 96-135 (408)
356 PRK09111 DNA polymerase III su 59.4 9.8 0.00021 47.4 4.4 37 19-55 27-66 (598)
357 PRK11773 uvrD DNA-dependent he 59.3 21 0.00045 45.7 7.4 39 501-539 330-370 (721)
358 KOG0350 DEAD-box ATP-dependent 59.1 54 0.0012 39.6 9.9 116 510-689 422-541 (620)
359 COG3587 Restriction endonuclea 58.8 7.7 0.00017 49.1 3.2 29 37-65 76-104 (985)
360 PRK13889 conjugal transfer rel 58.7 27 0.00059 46.0 8.3 33 16-51 346-378 (988)
361 cd01126 TraG_VirD4 The TraG/Tr 58.6 9.1 0.0002 44.9 3.8 22 37-58 1-22 (384)
362 KOG0336 ATP-dependent RNA heli 58.2 65 0.0014 37.9 10.1 70 516-605 465-534 (629)
363 PRK14949 DNA polymerase III su 58.2 10 0.00022 48.9 4.3 35 20-54 20-57 (944)
364 PRK05580 primosome assembly pr 58.1 19 0.00041 45.8 6.6 78 566-685 468-545 (679)
365 PRK05564 DNA polymerase III su 58.0 46 0.00099 37.9 9.3 41 15-55 3-46 (313)
366 TIGR02397 dnaX_nterm DNA polym 57.9 11 0.00024 43.3 4.3 35 19-53 17-54 (355)
367 PRK09112 DNA polymerase III su 57.8 12 0.00026 43.6 4.5 34 20-53 27-63 (351)
368 KOG0348 ATP-dependent RNA heli 57.7 35 0.00075 41.4 8.1 105 502-618 410-527 (708)
369 PRK11608 pspF phage shock prot 57.7 12 0.00027 42.9 4.6 38 19-58 13-50 (326)
370 KOG0731 AAA+-type ATPase conta 57.7 7.1 0.00015 49.3 2.7 17 36-52 345-361 (774)
371 PRK14088 dnaA chromosomal repl 57.6 37 0.00081 40.8 8.8 22 36-59 131-152 (440)
372 TIGR02881 spore_V_K stage V sp 57.5 7.6 0.00017 43.0 2.7 17 36-52 43-59 (261)
373 PRK00149 dnaA chromosomal repl 57.5 32 0.0007 41.3 8.3 22 36-59 149-170 (450)
374 TIGR02785 addA_Gpos recombinat 57.4 22 0.00047 48.3 7.4 36 19-60 4-39 (1232)
375 TIGR02655 circ_KaiC circadian 57.2 15 0.00033 44.6 5.4 22 32-53 18-39 (484)
376 PRK08084 DNA replication initi 57.1 24 0.00051 38.6 6.5 31 20-50 28-60 (235)
377 CHL00195 ycf46 Ycf46; Provisio 57.0 15 0.00032 44.7 5.3 22 36-59 260-281 (489)
378 KOG0339 ATP-dependent RNA heli 56.5 39 0.00086 40.7 8.2 88 501-613 455-543 (731)
379 PRK14247 phosphate ABC transpo 56.3 3.9 8.4E-05 44.8 0.2 50 1-58 1-50 (250)
380 PRK14960 DNA polymerase III su 56.2 12 0.00025 47.0 4.2 37 19-55 18-57 (702)
381 TIGR01075 uvrD DNA helicase II 56.2 22 0.00047 45.4 6.8 39 501-539 325-365 (715)
382 PRK08699 DNA polymerase III su 55.9 46 0.00099 38.4 8.8 40 18-57 3-43 (325)
383 PRK05896 DNA polymerase III su 55.9 12 0.00026 46.5 4.3 38 19-56 19-59 (605)
384 cd01120 RecA-like_NTPases RecA 55.9 16 0.00035 36.0 4.6 18 233-250 84-101 (165)
385 PRK14262 phosphate ABC transpo 55.8 3.9 8.4E-05 44.8 0.1 50 1-58 1-50 (250)
386 TIGR02974 phageshock_pspF psp 55.7 12 0.00026 43.2 4.0 34 23-58 10-43 (329)
387 PRK14948 DNA polymerase III su 55.3 13 0.00028 46.6 4.5 37 19-55 19-58 (620)
388 TIGR00763 lon ATP-dependent pr 55.2 14 0.00031 47.6 4.9 39 20-60 324-370 (775)
389 TIGR03689 pup_AAA proteasome A 55.0 15 0.00032 44.9 4.8 22 36-59 217-238 (512)
390 TIGR03819 heli_sec_ATPase heli 55.0 16 0.00035 42.3 5.0 28 23-50 166-193 (340)
391 TIGR03878 thermo_KaiC_2 KaiC d 54.9 12 0.00027 41.4 3.9 23 31-53 32-54 (259)
392 PRK14953 DNA polymerase III su 54.9 14 0.0003 45.0 4.6 37 19-55 19-58 (486)
393 PRK10436 hypothetical protein; 54.9 16 0.00035 44.1 5.0 27 34-61 217-243 (462)
394 KOG0346 RNA helicase [RNA proc 54.7 1.4E+02 0.003 35.7 12.1 88 434-538 200-290 (569)
395 PRK09302 circadian clock prote 54.7 17 0.00037 44.3 5.4 22 32-53 270-291 (509)
396 PRK09361 radB DNA repair and r 54.5 24 0.00052 37.9 5.9 24 31-54 19-42 (225)
397 KOG0738 AAA+-type ATPase [Post 54.5 8.8 0.00019 44.7 2.6 45 222-270 383-428 (491)
398 PF06068 TIP49: TIP49 C-termin 54.4 17 0.00037 42.4 4.9 42 20-65 31-76 (398)
399 COG0630 VirB11 Type IV secreto 54.3 15 0.00033 42.0 4.6 31 23-53 131-161 (312)
400 PRK06305 DNA polymerase III su 54.3 13 0.00029 44.7 4.3 38 18-55 19-59 (451)
401 PTZ00454 26S protease regulato 54.2 8.6 0.00019 45.5 2.6 23 35-59 179-201 (398)
402 PRK14087 dnaA chromosomal repl 54.1 43 0.00093 40.4 8.5 22 36-59 142-163 (450)
403 TIGR01242 26Sp45 26S proteasom 54.1 16 0.00035 42.5 4.9 22 36-59 157-178 (364)
404 CHL00181 cbbX CbbX; Provisiona 54.0 10 0.00022 42.9 3.0 20 35-54 59-78 (287)
405 TIGR02524 dot_icm_DotB Dot/Icm 53.7 14 0.00031 43.1 4.2 26 27-52 125-151 (358)
406 TIGR02237 recomb_radB DNA repa 53.7 25 0.00055 37.2 5.9 22 34-55 11-32 (209)
407 PRK08691 DNA polymerase III su 53.6 14 0.00031 46.5 4.4 37 19-55 19-58 (709)
408 KOG1807 Helicases [Replication 53.4 34 0.00074 43.1 7.3 69 35-129 393-461 (1025)
409 KOG0922 DEAH-box RNA helicase 53.3 11 0.00024 46.6 3.3 28 23-50 54-81 (674)
410 PRK14970 DNA polymerase III su 53.1 15 0.00033 42.7 4.4 36 18-53 19-57 (367)
411 TIGR01074 rep ATP-dependent DN 53.1 29 0.00062 43.9 7.1 56 34-116 13-68 (664)
412 TIGR01817 nifA Nif-specific re 53.1 13 0.00028 45.7 3.9 32 25-58 209-240 (534)
413 COG0470 HolB ATPase involved i 52.9 18 0.00038 40.8 4.8 38 19-56 5-45 (325)
414 PRK07003 DNA polymerase III su 52.7 15 0.00032 46.8 4.3 35 19-53 19-56 (830)
415 PRK14086 dnaA chromosomal repl 52.6 34 0.00074 42.7 7.4 22 36-59 315-336 (617)
416 PRK15429 formate hydrogenlyase 52.6 18 0.0004 45.9 5.3 33 24-58 388-420 (686)
417 PRK12323 DNA polymerase III su 52.5 15 0.00032 46.0 4.3 36 19-54 19-57 (700)
418 PRK14722 flhF flagellar biosyn 52.3 18 0.0004 42.4 4.8 24 33-58 135-158 (374)
419 PRK12422 chromosomal replicati 52.3 24 0.00051 42.5 5.9 49 9-59 104-163 (445)
420 PF02534 T4SS-DNA_transf: Type 52.1 5.5 0.00012 47.9 0.5 23 36-58 45-67 (469)
421 TIGR03345 VI_ClpV1 type VI sec 52.1 13 0.00029 48.2 4.0 39 19-59 569-618 (852)
422 TIGR03499 FlhF flagellar biosy 52.0 63 0.0014 36.4 8.9 18 35-52 194-211 (282)
423 PF07724 AAA_2: AAA domain (Cd 51.6 12 0.00025 39.0 2.8 21 36-58 4-24 (171)
424 PRK12900 secA preprotein trans 51.5 13 0.00027 48.4 3.5 51 4-60 126-176 (1025)
425 PRK07994 DNA polymerase III su 51.5 16 0.00035 45.8 4.5 37 19-55 19-58 (647)
426 PRK07940 DNA polymerase III su 51.4 18 0.00038 42.9 4.5 36 19-54 8-55 (394)
427 PF13476 AAA_23: AAA domain; P 51.1 12 0.00026 38.7 2.8 25 36-62 20-44 (202)
428 TIGR02538 type_IV_pilB type IV 50.8 19 0.00042 44.6 5.0 32 28-60 308-340 (564)
429 TIGR00362 DnaA chromosomal rep 50.7 31 0.00067 40.8 6.5 21 36-58 137-157 (405)
430 KOG0734 AAA+-type ATPase conta 50.6 11 0.00024 45.5 2.6 38 19-58 310-358 (752)
431 PF13555 AAA_29: P-loop contai 50.1 17 0.00038 31.5 3.1 25 35-61 23-47 (62)
432 PRK06090 DNA polymerase III su 49.8 24 0.00051 40.6 5.1 38 16-53 3-43 (319)
433 PRK13826 Dtr system oriT relax 49.7 56 0.0012 43.6 9.0 64 14-111 379-442 (1102)
434 COG1224 TIP49 DNA helicase TIP 49.7 21 0.00045 41.4 4.5 40 22-65 48-91 (450)
435 PRK14253 phosphate ABC transpo 49.6 7.5 0.00016 42.5 1.1 50 1-58 1-50 (249)
436 PRK05707 DNA polymerase III su 49.5 54 0.0012 37.9 8.0 37 17-54 4-41 (328)
437 PRK07764 DNA polymerase III su 49.5 18 0.00038 46.9 4.4 39 19-57 18-59 (824)
438 PRK12723 flagellar biosynthesi 49.5 85 0.0018 37.2 9.7 34 20-53 150-192 (388)
439 PF13481 AAA_25: AAA domain; P 49.3 16 0.00036 37.9 3.5 28 34-61 31-58 (193)
440 PRK14951 DNA polymerase III su 49.3 18 0.00039 45.2 4.4 38 18-55 18-58 (618)
441 KOG0923 mRNA splicing factor A 49.3 13 0.00028 45.8 3.0 27 24-50 269-295 (902)
442 PRK07133 DNA polymerase III su 49.2 18 0.00038 46.0 4.3 37 19-55 21-60 (725)
443 KOG0729 26S proteasome regulat 49.1 19 0.00042 39.9 4.0 35 19-53 183-229 (435)
444 PHA02544 44 clamp loader, smal 49.1 19 0.00041 40.8 4.3 33 20-52 25-60 (316)
445 KOG0742 AAA+-type ATPase [Post 48.8 7.1 0.00015 45.6 0.7 17 36-52 385-401 (630)
446 PRK05563 DNA polymerase III su 48.7 19 0.00042 44.6 4.5 41 19-59 19-62 (559)
447 PRK10865 protein disaggregatio 48.4 20 0.00043 46.8 4.7 44 15-60 177-222 (857)
448 PF01580 FtsK_SpoIIIE: FtsK/Sp 48.3 17 0.00037 38.4 3.5 29 33-61 36-64 (205)
449 PRK13822 conjugal transfer cou 48.2 19 0.0004 45.4 4.3 25 34-58 223-247 (641)
450 PRK13850 type IV secretion sys 48.2 7.4 0.00016 49.0 0.8 25 34-58 138-162 (670)
451 cd03213 ABCG_EPDR ABCG transpo 48.2 6.7 0.00015 41.4 0.4 55 2-58 2-56 (194)
452 TIGR01073 pcrA ATP-dependent D 48.2 36 0.00078 43.6 7.0 39 501-539 326-367 (726)
453 PRK11264 putative amino-acid A 47.9 6.3 0.00014 43.1 0.2 50 1-58 1-50 (250)
454 PRK14965 DNA polymerase III su 47.8 20 0.00043 44.6 4.4 37 19-55 19-58 (576)
455 TIGR03346 chaperone_ClpB ATP-d 47.6 21 0.00045 46.6 4.8 44 15-60 172-217 (852)
456 PRK11823 DNA repair protein Ra 47.5 28 0.00061 41.9 5.5 30 31-60 76-105 (446)
457 cd01129 PulE-GspE PulE/GspE Th 47.4 21 0.00045 39.9 4.1 26 27-52 71-97 (264)
458 COG0542 clpA ATP-binding subun 47.1 18 0.00039 46.1 3.9 39 19-59 494-543 (786)
459 KOG0351 ATP-dependent DNA heli 47.0 1.9E+02 0.004 38.3 12.9 140 436-617 421-564 (941)
460 KOG0354 DEAD-box like helicase 46.8 1E+02 0.0022 39.2 10.2 95 501-614 397-500 (746)
461 PRK06647 DNA polymerase III su 46.6 20 0.00044 44.4 4.2 37 19-55 19-58 (563)
462 COG1875 NYN ribonuclease and A 46.6 43 0.00094 39.0 6.4 44 13-59 224-269 (436)
463 PF05729 NACHT: NACHT domain 46.4 20 0.00043 35.7 3.5 20 37-58 2-21 (166)
464 TIGR01243 CDC48 AAA family ATP 46.3 19 0.00041 46.1 4.1 23 35-59 212-234 (733)
465 PRK07471 DNA polymerase III su 46.3 25 0.00055 41.2 4.7 35 19-53 22-59 (365)
466 TIGR03345 VI_ClpV1 type VI sec 46.1 51 0.0011 43.0 7.9 43 15-59 186-230 (852)
467 PRK04195 replication factor C 46.1 21 0.00045 43.4 4.1 33 20-52 18-56 (482)
468 PF10673 DUF2487: Protein of u 45.9 88 0.0019 31.8 7.8 58 570-635 72-130 (142)
469 TIGR03263 guanyl_kin guanylate 45.8 17 0.00037 37.4 2.9 21 35-57 1-21 (180)
470 PRK05022 anaerobic nitric oxid 45.8 20 0.00042 43.9 3.9 33 24-58 199-231 (509)
471 TIGR02759 TraD_Ftype type IV c 45.8 23 0.0005 43.9 4.6 28 35-63 176-203 (566)
472 COG1221 PspF Transcriptional r 45.5 19 0.00042 42.6 3.6 28 25-52 87-118 (403)
473 PRK13897 type IV secretion sys 45.1 7.3 0.00016 48.5 0.1 24 35-58 158-181 (606)
474 PRK13876 conjugal transfer cou 45.1 8.1 0.00018 48.7 0.5 25 34-58 143-167 (663)
475 PF03237 Terminase_6: Terminas 44.9 28 0.00061 39.5 4.9 24 39-62 1-24 (384)
476 COG5271 MDN1 AAA ATPase contai 44.9 27 0.00058 47.7 4.8 47 5-51 1816-1866(4600)
477 TIGR01243 CDC48 AAA family ATP 44.8 26 0.00057 44.9 5.0 23 36-60 488-510 (733)
478 KOG0743 AAA+-type ATPase [Post 44.5 26 0.00056 41.7 4.4 37 20-58 209-256 (457)
479 PF10236 DAP3: Mitochondrial r 44.4 38 0.00082 38.8 5.7 44 20-64 6-51 (309)
480 TIGR00368 Mg chelatase-related 44.1 13 0.00028 45.4 1.9 38 15-52 191-228 (499)
481 TIGR00665 DnaB replicative DNA 44.0 22 0.00047 42.5 3.9 33 26-58 186-218 (434)
482 PF12846 AAA_10: AAA-like doma 43.9 21 0.00046 39.3 3.6 21 35-55 1-21 (304)
483 PRK12326 preprotein translocas 43.8 8.1E+02 0.018 31.6 17.2 67 13-116 75-141 (764)
484 TIGR03600 phage_DnaB phage rep 43.7 25 0.00054 41.9 4.3 34 27-60 186-219 (421)
485 PRK10895 lipopolysaccharide AB 43.7 5.7 0.00012 43.2 -1.0 50 1-58 1-50 (241)
486 PRK13341 recombination factor 43.7 24 0.00052 45.0 4.3 34 19-52 31-69 (725)
487 TIGR02903 spore_lon_C ATP-depe 43.6 16 0.00036 45.7 2.9 33 18-50 156-190 (615)
488 PF02375 JmjN: jmjN domain; I 43.6 18 0.00038 27.7 1.9 23 972-994 6-28 (34)
489 KOG0950 DNA polymerase theta/e 43.6 2.7E+02 0.0057 36.5 13.0 20 437-456 379-398 (1008)
490 CHL00095 clpC Clp protease ATP 43.4 27 0.00059 45.4 4.8 42 17-60 180-223 (821)
491 PF13173 AAA_14: AAA domain 43.4 18 0.00039 35.3 2.6 20 34-53 1-20 (128)
492 PF13207 AAA_17: AAA domain; P 43.3 19 0.00042 34.2 2.7 19 38-58 2-20 (121)
493 COG0464 SpoVK ATPases of the A 43.3 15 0.00033 44.6 2.5 21 36-58 277-297 (494)
494 PF03796 DnaB_C: DnaB-like hel 42.9 26 0.00056 38.6 4.0 37 26-62 10-46 (259)
495 PRK06620 hypothetical protein; 42.8 33 0.00071 37.1 4.6 15 36-50 45-59 (214)
496 KOG0332 ATP-dependent RNA heli 42.8 32 0.0007 39.9 4.7 56 36-119 130-185 (477)
497 PRK00300 gmk guanylate kinase; 42.8 19 0.00042 37.9 2.8 23 33-57 3-25 (205)
498 KOG0334 RNA helicase [RNA proc 42.5 5.2E+02 0.011 34.2 15.5 83 501-605 600-682 (997)
499 PF13238 AAA_18: AAA domain; P 42.5 20 0.00044 34.1 2.7 20 38-59 1-20 (129)
500 PRK14250 phosphate ABC transpo 42.4 10 0.00022 41.3 0.7 50 1-58 1-50 (241)
No 1
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=4.2e-130 Score=1147.10 Aligned_cols=891 Identities=43% Similarity=0.686 Sum_probs=681.8
Q ss_pred CCeeeEc-CeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccc-cCc-ccc-cc
Q 001656 1 MPTYKIR-GIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFST-LGS-QVN-NQ 76 (1036)
Q Consensus 1 m~~~~i~-gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~-~~~-~~~-~~ 76 (1036)
||.+.|+ |++|+|||+||++|+.||.+|+.+|+.+.++++|+||||||||++||++|+|++..+.... +.. ++. +-
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 8899999 9999999999999999999999999999999999999999999999999999998763211 100 111 00
Q ss_pred --ccCCCCccCCCC--CC----CCCCCeEEEEcCCHHHHHHHHHHHHhcCCCCeEEEeCCcccccccHHHHhhhccc-ch
Q 001656 77 --ISGSQSSVNSSQ--SG----DSKLPTILYTSRTHSQLRQVIQELKTSNYRPKMVILGSREQLCIHREVSLLRGSA-QN 147 (1036)
Q Consensus 77 --~~~~~~~~~~~q--~~----~~~~pkIiy~TRThsQl~Qvv~ELrkl~~~~k~~vLgSR~~lCin~~v~~l~~~~-~~ 147 (1036)
.+++....+... .. ....|+|+|+||||+|+.|+++||++++|+++|+|||||+|+|+|++++++.++. .+
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 000100000000 11 1358999999999999999999999999999999999999999999999888764 46
Q ss_pred HHhHHHhhccCCCcCcccccHHHHhhhCCCCCCCCCChhhHhhhccCCCCchhHHHHhhhcCccEEEeccccccCHhhhh
Q 001656 148 NACRFLCKKGTNRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRK 227 (1036)
Q Consensus 148 ~~C~~L~k~~~~~~C~~~~~l~~~~~~~~~~~~~~~dIedlv~~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir~ 227 (1036)
+.|..+++ .+.|.||...... +.++.+..+++||||||+.|+....||||++|++.+.|||||||||||+||.+|+
T Consensus 165 ~~C~k~~~---~~~C~f~~~~~~~-sl~~~l~~~i~DIEDLVk~Gk~~~~CPYfaSR~l~edAdIIF~PYnYLiDp~iR~ 240 (945)
T KOG1132|consen 165 HVCKKLVK---SRSCHFYKIVEEK-SLQPRLHDEIFDIEDLVKIGKKSRGCPYFASRELKEDADIIFCPYNYLIDPKIRR 240 (945)
T ss_pred hHHHhhcc---ccccccccccccc-ccccccCCCcccHHHHHHhCccCcCCcchhhhhhcccCcEEEechhhhcCHhhhc
Confidence 88988876 7889998654432 3355677789999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCcEEEEeCccChHHHHHhhcccccCHHHHH---HHHHHHHhhhhhhccc----cC----CCCCCCCChhhHHH
Q 001656 228 GLGVEWKNSILIFDEAHNLEGICADAASFDLSSGLLT---ACISEAKNCIDISSTR----RG----QSSDETLNPDNFAI 296 (1036)
Q Consensus 228 ~l~i~~~~~IlIfDEAHNLed~~~~a~S~~ls~~~L~---~~i~el~~~~~~~~~~----r~----~~~~~~~~~~~~~~ 296 (1036)
+++++++|+|||||||||+|+.|++++|++|++.+|. .+++|+.......... +. ...--.+..+++++
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 9999999999999999999999999999999987776 5566665544321110 00 00001235677778
Q ss_pred HHHHHHHHHHHHHhccccccccCCCCCcc-cHHHHHHhccccHHHHHHHHHHHHHHHHHHHHhhhhccchhhHHHHHHHH
Q 001656 297 LRALLLKLEKRIAEVPINSKELGFTKPGP-YIYELLADLNITQETAYKLIDIVEVAAELLQEDKLQNKKSTTACRIESIS 375 (1036)
Q Consensus 297 L~~lL~~Le~~i~~l~~~~~~~~~~~~g~-~i~e~l~~~~~~~~~~~~L~~~l~~i~~~L~~~~~~~~~~~~~~~L~~l~ 375 (1036)
+..++..++..++.+..+....+++.|+. ++++.|.+++++.++..++.+.++.+...|+..++.. .....+....+.
T Consensus 321 l~~~~~~~~~~~d~~~~~~~~~giT~~~~~~l~e~~~~a~~t~e~~~~i~~~~~~~v~~le~~~q~~-~t~~~s~~~~~~ 399 (945)
T KOG1132|consen 321 LKEILLFLEEAIDKVLLPLDDSGITRPGSPILYEEFAKALITSETAEKIVDSLDIAVQHLEGEKQGT-ATNTGSLWCIFA 399 (945)
T ss_pred HHHHHHHhhhhcchhccccccccccCCCcHHHHHHHHHhccCccccccchhhHHHHHHHhhcccccc-hhcccchHHHHH
Confidence 88887888888888777766777888887 8889999999999998888888887777777665411 122233334467
Q ss_pred HHHHHHHhcc---CCCCCce-------EEEEEEEccc----chh--hhhcCCC------CceEEEEEcCcHHHHHHhhhc
Q 001656 376 NILKIIFRDK---GTAHSAY-------YRVHVREADA----NAA--DVLKGKA------SRTLSWWCFNPGIAMQEFSRL 433 (1036)
Q Consensus 376 ~~L~~i~~~~---~~~~~~~-------y~v~v~~~~~----~~~--~~~~~~~------~~~L~~~cldPs~~~~~ll~~ 433 (1036)
++++++|+.. ...++.+ |.++-. ++. +++ +...++. -+.+.+||++|+..|++++.+
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 8888887732 1111111 111100 000 011 0001111 135889999999999999997
Q ss_pred cCCeEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHH
Q 001656 434 EVGSIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIAR 513 (1036)
Q Consensus 434 ~~~svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~ 513 (1036)
++++||||||||+|+++|..+||++|...+++||+++..|+|+.+|+.||.+..|+++|.+|.+++|+.+||+.|.++++
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 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEcc
Q 001656 514 IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCR 593 (1036)
Q Consensus 514 ~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~r 593 (1036)
++|.|+|||||||.+|+++.++|+.. ++|++++..|.+++||+...++.+++..|..++.++...|+++|||||
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 99999999999999999999999954 899999999999999999999999999999999876677999999999
Q ss_pred CCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCCcc
Q 001656 594 GKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVI 673 (1036)
Q Consensus 594 Gk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlI 673 (1036)
||+|||+||+|+.+|+||++|||||+..||+|++|++|+|.+....+.+ ...++|.+||..+|+|+|||||||+|
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 9999999999999999999999999999999999999999986643211 23689999999999999999999999
Q ss_pred ccCCCcEEEEEEecCCCCchhhhHHHhhhhcchhccCChhHHHHHHHHHHHHhhhcCCCccccccccccCCccccccccc
Q 001656 674 RHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTRFFREERICGSTNLKLIKTEVSGDVRELKPVDL 753 (1036)
Q Consensus 674 R~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i~~~~~~~e~~~~l~~Ff~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 753 (1036)
||++|||+++|+|.||.+.+-...+|+|+++ ..+.....+++..+..+|+......+......++++. +.|..+
T Consensus 708 RHR~D~Gav~l~D~Rfe~~~~~~~lskw~r~-~~~~~~~~~~~~~~~r~~r~~~~nn~~~~~~~~~~~~-----~~~l~~ 781 (945)
T KOG1132|consen 708 RHRNDYGAVILCDDRFENADARSQLSKWIRS-VKCDSRYCEVISSLARKFRTHRSNNSATLVTEQENNI-----TSPLLL 781 (945)
T ss_pred hhhcccceeeEeechhhcCccccccchhhhc-cccccccccccchhhhhhhcccccccccccchhhccc-----ccchhh
Confidence 9999999999999999998877889999998 5555666777778888888887777777777666663 223332
Q ss_pred cccccccccCCCCcccccccchhhhhccCCccccccccccCCCCCCCcccCcccccccCChhhHHHHHHhhhcccccccc
Q 001656 754 LDKISLEEVPSSTPAVDQACYSLHEVKNRNTSSHSGEIVPANRSSLSPYKGIWASELKNSSDLIQFEKKLLLSGRKSIQY 833 (1036)
Q Consensus 754 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 833 (1036)
+.+.+ ++|+ +|+.+..+..+.+ .+ .+||++...-..|+|... | +-+
T Consensus 782 v~~t~----~~p~-------k~~~v~~s~~s~~--~~-~~a~k~e~~~~~~~W~~~-----~--------------~~~- 827 (945)
T KOG1132|consen 782 VKSTE----DSPS-------KNVGVPQSECSRV--EA-PLANKAEKLNGQGKWVRQ-----D--------------GCV- 827 (945)
T ss_pred hhhcc----cCcc-------cccccccchhhhh--cc-hhhccchhcccccceeec-----C--------------ccc-
Confidence 22333 2222 6666666666653 22 889999888888888432 0 100
Q ss_pred ccccccccccCcccCCCccccccccccccccccccccCchhhhhhhhhcccccccccCCCCCCcccccccccCCCCCCCC
Q 001656 834 RDHEFIDLTSNSSLHAKPRKEELIAPCSTKKRKVLISESDQMQCVKKISEIASDAESSQPSSFIPITNKVKHEKPQISDS 913 (1036)
Q Consensus 834 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 913 (1036)
-.+.+...+.++ ..-+++ + .+.. +|.. .++-.+++.. .++
T Consensus 828 ---~~~~~k~~~s~P-~~~~~~-------~--~v~~--~ds~-~~q~~s~il~-----------f~~------------- 867 (945)
T KOG1132|consen 828 ---FLTILKPFGSIP-NTCLGM-------K--QVKS--YDSE-FVQFLSSILF-----------FIS------------- 867 (945)
T ss_pred ---ccccccccccCC-ccccch-------h--heee--ccCc-chhhhhhhHH-----------HHh-------------
Confidence 002333444444 212222 1 1111 1111 2222222222 000
Q ss_pred ccceeccCCCCCcCCCCcccc-cchhhhhccCCCCCCCCCCCCCccchhhHHHHHHHhhCHHHHHHHHHHHHHHhhhhhc
Q 001656 914 GSRIIAQGSAPSKVDGTTYRI-EAEIQSEKSKGSHSSAPPCGGEETKGSAFLIQVQEKLSATEYKEFVGFMKAMKSKAMK 992 (1036)
Q Consensus 914 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 992 (1036)
..+..+..++ ++-.+++|++++. +.+++-.. |.+++.+|++|-++|.++|.+..+
T Consensus 868 -----------~~e~~~~a~~~~t~~l~~k~~~~~----------~~~~~~~S---~~~~~~~~~~f~~~l~~~~~~~~~ 923 (945)
T KOG1132|consen 868 -----------VREVTISAAKENTTGLKKKSKLPE----------SIKSALSS---ELLSSEDYKAFGTYLQQYKKGERK 923 (945)
T ss_pred -----------HHHhhccCCCcccccccccccCCc----------ccccccch---hhcCchhHHHHhHhHHHhcccccc
Confidence 1111222222 3333777777652 12222222 999999999999999999999999
Q ss_pred hHHHHHHHHHhhcCCCChhh
Q 001656 993 ISHVLQSIAKLFAGPERLPL 1012 (1036)
Q Consensus 993 ~~~~~~~~~~~~~~~~~~~~ 1012 (1036)
..++++.+..+|++++++.+
T Consensus 924 ~~~l~~~~~~i~~~~k~~~~ 943 (945)
T KOG1132|consen 924 LKNLMQSKRQLFTIKKADSL 943 (945)
T ss_pred hhhHhhhhhhccCchhhhcc
Confidence 99999999999999998765
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=6.6e-106 Score=992.32 Aligned_cols=641 Identities=32% Similarity=0.522 Sum_probs=485.8
Q ss_pred CeeecCCCCC-CHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCC
Q 001656 8 GIDVEFPFEA-YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNS 86 (1036)
Q Consensus 8 gi~v~FPfep-y~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (1036)
+.+|.|||+| ||+|++||+.|+++|++++++++|||||||||+|+|||+|+|+...+
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 99999999999999999999999999999999999999999987543
Q ss_pred CCCCCCCCCeEEEEcCCHHHHHHHHHHHHhcC--C--------CCeEEEeCCcccccccHHHHhhhcc-cchHHhHHHhh
Q 001656 87 SQSGDSKLPTILYTSRTHSQLRQVIQELKTSN--Y--------RPKMVILGSREQLCIHREVSLLRGS-AQNNACRFLCK 155 (1036)
Q Consensus 87 ~q~~~~~~pkIiy~TRThsQl~Qvv~ELrkl~--~--------~~k~~vLgSR~~lCin~~v~~l~~~-~~~~~C~~L~k 155 (1036)
..+|||||||||+|+.|+++|||++. + .+++++|+||++||+|+.+...... ..++.|+.+.+
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 2 3567899999999999998765432 34678987754
Q ss_pred ccC---------CCcCcccccHHHHhhhCCCCCCCCCChhhHhhhccCCCCchhHHHHhhhcCccEEEeccccccCHhhh
Q 001656 156 KGT---------NRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFR 226 (1036)
Q Consensus 156 ~~~---------~~~C~~~~~l~~~~~~~~~~~~~~~dIedlv~~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir 226 (1036)
+.. ...|+||.++.........+..+++|||||+++|+.++.||||++|+.++.||||||||||||||.+|
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 24599998875420001133456899999999999999999999999999999999999999999999
Q ss_pred hccCCCCCCcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhhhhhccccCCCCCCCCChhhHHHHHHHHHHHHH
Q 001656 227 KGLGVEWKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRALLLKLEK 306 (1036)
Q Consensus 227 ~~l~i~~~~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~~~~~~~r~~~~~~~~~~~~~~~L~~lL~~Le~ 306 (1036)
+.+++++++.||||||||||+|+|++++|++|+..+|..+++++.++........ ..-....+..+..++..+.+
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 9899999999999999999999999999999999999999999987654321111 00001122233333333332
Q ss_pred HHHhc----cccccc----------cCCCCCcccHHHHHHhccccHHHHHHHHHHHHHHHH-HHH---Hhhhhcc-chhh
Q 001656 307 RIAEV----PINSKE----------LGFTKPGPYIYELLADLNITQETAYKLIDIVEVAAE-LLQ---EDKLQNK-KSTT 367 (1036)
Q Consensus 307 ~i~~l----~~~~~~----------~~~~~~g~~i~e~l~~~~~~~~~~~~L~~~l~~i~~-~L~---~~~~~~~-~~~~ 367 (1036)
....- ...... .+...........+.++--......++...+....+ +++ +...... ....
T Consensus 288 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (705)
T TIGR00604 288 EDLLTDEDIFLANPVLPKEVLPEAVPGNIRIAEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLEHLKEKTFIDRPLRFC 367 (705)
T ss_pred HhhcccchhhhcCcCchhhccHHHhcccCCchHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhcccchhhhHH
Confidence 21110 000000 000000111111111100000000111111111000 000 0000000 0000
Q ss_pred HH---------------------HHHHHHHHHHHHHhccCCCCCceEEEEEEEcccchhhhhcCCCCceEEEEEcCcHHH
Q 001656 368 AC---------------------RIESISNILKIIFRDKGTAHSAYYRVHVREADANAADVLKGKASRTLSWWCFNPGIA 426 (1036)
Q Consensus 368 ~~---------------------~L~~l~~~L~~i~~~~~~~~~~~y~v~v~~~~~~~~~~~~~~~~~~L~~~cldPs~~ 426 (1036)
.. .+..+..++.... ......+..+.. .+..+..|.+||+||+..
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~----------~~~~~~~l~~~~l~ps~~ 433 (705)
T TIGR00604 368 SERLSNLLRELEITHPEDFSALVLLFTFATLVLTYT----NGFLEGIEPYEN----------KTVPNPILKFMCLDPSIA 433 (705)
T ss_pred HHHHHHHHhhhccccccccccchHHHHHHHHHHHhc----cccccceeEeec----------CCCCCceEEEEecChHHH
Confidence 01 1111112221110 000000111100 122356899999999999
Q ss_pred HHHhhhccCCeEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHH
Q 001656 427 MQEFSRLEVGSIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGN 506 (1036)
Q Consensus 427 ~~~ll~~~~~svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~ 506 (1036)
|++++. .++++|||||||+|+++|...||++++...+.+|+++++|+++++++++|++..|+++|.+|++++|++++++
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 999888 7999999999999999999999998877777899999999999999999999999999999999999999999
Q ss_pred HHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCe
Q 001656 507 TIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGA 586 (1036)
Q Consensus 507 ~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~ga 586 (1036)
.|.++++.+|||+|||||||..|+++++.|.+. ++|++|.+.|.+|+|+++..+...++++|++.+.. ++|+
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 999999999999999999999999999999964 67888888899999998877889999999987764 4689
Q ss_pred EEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcc-cchHHHHHHHH
Q 001656 587 VFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGE-DWYNQQASRAV 665 (1036)
Q Consensus 587 VLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~-~wy~~~A~r~v 665 (1036)
||||||||+|||||||+|+.||+|||+|||||++.||.++++.+|++.... ..|+ .||..+|+++|
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 999999999999999999999999999999999999999999999987632 1344 89999999999
Q ss_pred HHhhCCccccCCCcEEEEEEecCCCCchhhhHHHhhhhcchhccCChhHHHH
Q 001656 666 NQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVY 717 (1036)
Q Consensus 666 ~QaiGRlIR~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i~~~~~~~e~~~ 717 (1036)
+||+||+|||++|||+|+|+|+||.+.++++.||+|+++.+.+..++++++.
T Consensus 652 ~QaiGR~IR~~~D~G~iillD~R~~~~~~~~~lp~W~~~~~~~~~~~~~~i~ 703 (705)
T TIGR00604 652 NQAIGRVIRHKDDYGSIVLLDKRYARSNKRKKLPKWIQDTIQSSDLNGMAIS 703 (705)
T ss_pred HHHhCccccCcCceEEEEEEehhcCCcchhhhcCHHHHhhccccCCCcchhc
Confidence 9999999999999999999999999999999999999999999888887653
No 3
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=9e-104 Score=902.91 Aligned_cols=676 Identities=30% Similarity=0.510 Sum_probs=534.7
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCcc-----------cc
Q 001656 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFS-----------TL 69 (1036)
Q Consensus 1 m~~~~i~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~-----------~~ 69 (1036)
|.... +.++++|||.||+.|+++|..+++.|++|+++|+||||||||||+++|+||.|.+..++.. ++
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 6678999999999999999999999999999999999999999999999999998653221 01
Q ss_pred Ccc----------------------cc-c---------------------c--ccCCCC---cc----------------
Q 001656 70 GSQ----------------------VN-N---------------------Q--ISGSQS---SV---------------- 84 (1036)
Q Consensus 70 ~~~----------------------~~-~---------------------~--~~~~~~---~~---------------- 84 (1036)
..+ ++ . . .++.++ +.
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 000 00 0 0 000000 00
Q ss_pred C------------CCC---------CCCC-CCCeEEEEcCCHHHHHHHHHHHHhcCC--CCeEEEeCCcccccccHHHHh
Q 001656 85 N------------SSQ---------SGDS-KLPTILYTSRTHSQLRQVIQELKTSNY--RPKMVILGSREQLCIHREVSL 140 (1036)
Q Consensus 85 ~------------~~q---------~~~~-~~pkIiy~TRThsQl~Qvv~ELrkl~~--~~k~~vLgSR~~lCin~~v~~ 140 (1036)
+ .++ +.+. ..-||+||||||||+.|++.||+++.+ +++++.||||..||+|+.|++
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 0 000 0111 235899999999999999999999854 788999999999999999998
Q ss_pred hhc-ccchHHhHHHhhccC---------------CCcCcccccHHHH-hhhCCCCCCCCCChhhHhhhccCCCCchhHHH
Q 001656 141 LRG-SAQNNACRFLCKKGT---------------NRRCNHHSRVADY-MKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMT 203 (1036)
Q Consensus 141 l~~-~~~~~~C~~L~k~~~---------------~~~C~~~~~l~~~-~~~~~~~~~~~~dIedlv~~g~~~~~CPY~~a 203 (1036)
++. ...|+.|-.+.+.+. ...|+||+.-.-+ +++ ....+++|||||+..|+..+.||||.+
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 865 356899988876321 2359999542211 121 122388899999999999999999999
Q ss_pred HhhhcCccEEEeccccccCHhhhhccCCCCCCcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhhhhhccccCC
Q 001656 204 RELQKTVDIVFAPYNYLIDPWFRKGLGVEWKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQ 283 (1036)
Q Consensus 204 R~~~~~ADIIv~nYnYLld~~ir~~l~i~~~~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~~~~~~~r~~ 283 (1036)
|+.++.||||++||++||+...|++++|.++++||||||||||.|.+.++.|.+||..+|..|...|+.+.....
T Consensus 318 R~avp~aqlV~LPYQ~LL~~stR~slgI~LkdsIvIiDEAHNlidti~smhsa~Is~~ql~~a~~~i~~Y~~rf~----- 392 (821)
T KOG1133|consen 318 RRAVPQAQLVTLPYQLLLHESTRKSLGISLKDSIVIIDEAHNLIDTICSMHSAEISFSQLCRAHKQIQQYFERFG----- 392 (821)
T ss_pred hhccccccEEeccHHHHHhHHHHHhcCccccccEEEEechhHHHHHHHHhhhhheeHHHHHHHHHHHHHHHHHHH-----
Confidence 999999999999999999999999999999999999999999999999999999999999999999888765432
Q ss_pred CCCCCCChhhHHHHHHHHHHHHHHHHhccccccccCCCCCcccHHHHHHhccccHHHHHHHHHHHHH--HHHHHHHhhhh
Q 001656 284 SSDETLNPDNFAILRALLLKLEKRIAEVPINSKELGFTKPGPYIYELLADLNITQETAYKLIDIVEV--AAELLQEDKLQ 361 (1036)
Q Consensus 284 ~~~~~~~~~~~~~L~~lL~~Le~~i~~l~~~~~~~~~~~~g~~i~e~l~~~~~~~~~~~~L~~~l~~--i~~~L~~~~~~ 361 (1036)
+.+...|...+++++.-+.+.+.-+....+..+ ...+-...++|...+++..++.+|.+.+.. +...++.....
T Consensus 393 ---~rl~~~N~~~l~ql~~l~~~ll~fl~~~~~~~~-~~~~~~~~dfl~~~~id~iNL~kl~~Yi~~S~i~rKv~G~~~r 468 (821)
T KOG1133|consen 393 ---KRLKAKNLMYLKQLLSLLRRLLKFLDSNCELNG-NGESLMRNDFLFSSGIDNINLFKLLDYIEKSKIARKVDGFGER 468 (821)
T ss_pred ---HhhCccchhHHHHHHHHHHHHHHHHHhhhhhCC-cccccchhhhhhhcCccceeHHHHHHHHHHhhHHHHhcchhhc
Confidence 234556665565554433333222211111111 000111246777788888888888887753 22222222110
Q ss_pred cc--------------------chhhHHHHHHHHHHHHHHHhccCCCCCceEEEEEEEcccchhhhhcCCCCceEEEEEc
Q 001656 362 NK--------------------KSTTACRIESISNILKIIFRDKGTAHSAYYRVHVREADANAADVLKGKASRTLSWWCF 421 (1036)
Q Consensus 362 ~~--------------------~~~~~~~L~~l~~~L~~i~~~~~~~~~~~y~v~v~~~~~~~~~~~~~~~~~~L~~~cl 421 (1036)
-. ....-+.|-.+..||..+...... -++.+. ...+.+|.|..+
T Consensus 469 ~~~~~s~plq~l~~~~~~~~ee~~~~ps~l~~l~~FL~~LTn~~~d-----Gri~~~-----------k~~s~~lky~lL 532 (821)
T KOG1133|consen 469 LSEVFSQPLQSLQKKRVEAEEESQLKPSPLFELSSFLGALTNNNED-----GRIFYS-----------KQGSGTLKYMLL 532 (821)
T ss_pred chhhccchhhHhhhccccchhcccCCCchhHHHHHHHHHHhCCCCC-----CcEEEe-----------ccCCceEEEEec
Confidence 00 000013566777777776644332 234442 122368999999
Q ss_pred CcHHHHHHhhhccCCeEEEEccCCCChHHHHHHhCCCC---CccccCCCcCCCCceEEEEccCCCCCccccccccCCCCH
Q 001656 422 NPGIAMQEFSRLEVGSIILTSGTLSPMDSFAQELKLNF---PLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSI 498 (1036)
Q Consensus 422 dPs~~~~~ll~~~~~svIltSgTLsp~~~f~~~LGl~~---~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~ 498 (1036)
+|+..|.+++. .+|+|||.+|||.|++.|...|+-.- ...+.+.|+++++++..++|..||+|+++.++|+.|.++
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 89999999999999999999886421 235678999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHh
Q 001656 499 EYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKL 578 (1036)
Q Consensus 499 ~y~~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i 578 (1036)
+.++.|+..|.+++.++||||+||||||++|.+++++|... +++.+|...|++|.|+++. .+++++.|...+
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 99999999999999999999999999999999999999964 7899999999999999987 788999999988
Q ss_pred ccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchH
Q 001656 579 KDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYN 658 (1036)
Q Consensus 579 ~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~ 658 (1036)
.. +.||+||||.||++||||+|.|+.|||||+||||||++.|+.++.|+.|++.+...++ .|+++|.
T Consensus 684 ~~--g~GaiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyPN~~s~EL~er~k~l~~k~~~~g-----------agke~yE 750 (821)
T KOG1133|consen 684 ER--GRGAILLAVVGGKLSEGINFSDDLGRAVVVVGLPYPNIQSVELQERMKHLDGKLPTPG-----------AGKELYE 750 (821)
T ss_pred hc--CCCeEEEEEeccccccccccccccccEEEEeecCCCCCCCHHHHHHHHHhhhccCCCC-----------chHHHHH
Confidence 76 4599999999999999999999999999999999999999999999999998866433 3678999
Q ss_pred HHHHHHHHHhhCCccccCCCcEEEEEEecCCCCchhhhHHHhhhhcchhccCChhHHHHHHHHHHHHhh
Q 001656 659 QQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTRFFREER 727 (1036)
Q Consensus 659 ~~A~r~v~QaiGRlIR~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i~~~~~~~e~~~~l~~Ff~~~~ 727 (1036)
.-||++|||+|||.|||.+||++|+|||.||+.+.. +.||+||++.+.+..+++++++.++.||+.+.
T Consensus 751 nlCMkAVNQsIGRAIRH~~DYA~i~LlD~RY~~p~~-RKLp~WI~~~v~s~~~~G~~ir~~~~ff~~k~ 818 (821)
T KOG1133|consen 751 NLCMKAVNQSIGRAIRHRKDYASIYLLDKRYARPLS-RKLPKWIRKRVHSKAGFGPAIRATRKFFRAKS 818 (821)
T ss_pred HHHHHHHHHHHHHHHhhhccceeEEEehhhhcCchh-hhccHHHHhHhccccCccHHHHHHHHHHHHhc
Confidence 999999999999999999999999999999996554 49999999999999999999999999999875
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=1.6e-80 Score=689.85 Aligned_cols=661 Identities=28% Similarity=0.460 Sum_probs=496.2
Q ss_pred CeeeEcCeeecCCCCC-CHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCC
Q 001656 2 PTYKIRGIDVEFPFEA-YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGS 80 (1036)
Q Consensus 2 ~~~~i~gi~v~FPfep-y~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~ 80 (1036)
+++.|+++.|.|||.. ||.|.+||..+..+|+.+.|+++|.|+|||||.++|.-+++|+.....
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 4689999999999995 999999999999999999999999999999999999999999987653
Q ss_pred CCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHHHhc--------CCCCeE--EEeCCcccccccHHHHhhhc-ccchHH
Q 001656 81 QSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELKTS--------NYRPKM--VILGSREQLCIHREVSLLRG-SAQNNA 149 (1036)
Q Consensus 81 ~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ELrkl--------~~~~k~--~vLgSR~~lCin~~v~~l~~-~~~~~~ 149 (1036)
...|+||||||...++.++.||+++ |+.+.. ..|.||..||+|+.+...+. +..+..
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 3358999999999999999999874 444433 46999999999999987764 455788
Q ss_pred hHHHhh-----ccC----CCcCcccccHHHHhhhCCCCCCCCCChhhHhhhccCCCCchhHHHHhhhcCccEEEeccccc
Q 001656 150 CRFLCK-----KGT----NRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYL 220 (1036)
Q Consensus 150 C~~L~k-----~~~----~~~C~~~~~l~~~~~~~~~~~~~~~dIedlv~~g~~~~~CPY~~aR~~~~~ADIIv~nYnYL 220 (1036)
|+.|.. +.. -..|.|+.++... +..+..++++++||..+|++.+.||||.+|.++..|+|||-+|+||
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 988765 222 2489999887651 2246677889999999999999999999999999999999999999
Q ss_pred cCHhhhhccC-CCCCCcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhhhhhccccCCCCCCCCChhhHHHHHH
Q 001656 221 IDPWFRKGLG-VEWKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRA 299 (1036)
Q Consensus 221 ld~~ir~~l~-i~~~~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~~~~~~~r~~~~~~~~~~~~~~~L~~ 299 (1036)
+||.|-+... -..+++|||||||||+..+|.+++|.+|+...++.+.+.++...+.....+ .. +-.+|..
T Consensus 211 lDPkIa~~VSkels~~svVvFDEAHNIDnvCIeslSv~i~r~~l~ra~~~l~~l~~~v~r~k--~~-------d~~kl~~ 281 (755)
T KOG1131|consen 211 LDPKIAELVSKELSKESVVVFDEAHNIDNVCIESLSVDITRRTLERASRNLNSLEQLVNRVK--ET-------DSQKLQD 281 (755)
T ss_pred cChHHHHHHHHhhCcCcEEEecccccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhh--hc-------chhHHHH
Confidence 9999864322 235789999999999999999999999999999999888876544332111 11 1112221
Q ss_pred HHHHHHHHHHhccccccccCC-CCCcccHHHHHHh-ccccHHHHHHHHHHHHHHHHHHHHh------------------h
Q 001656 300 LLLKLEKRIAEVPINSKELGF-TKPGPYIYELLAD-LNITQETAYKLIDIVEVAAELLQED------------------K 359 (1036)
Q Consensus 300 lL~~Le~~i~~l~~~~~~~~~-~~~g~~i~e~l~~-~~~~~~~~~~L~~~l~~i~~~L~~~------------------~ 359 (1036)
-..++-+.+..-........+ ..|. .-.+.+.+ ..-+..+...+..+|..+.+.+... .
T Consensus 282 eY~klvegL~~~~~~~~~d~~lanPv-LP~dvl~EavPGniR~aeHFv~fLkR~~ey~ktrl~~~hv~~Esp~sFl~~i~ 360 (755)
T KOG1131|consen 282 EYEKLVEGLKDASAERDEDQFLANPV-LPDDVLKEAVPGNIRRAEHFVSFLKRLLEYLKTRLKVHHVIQESPASFLKSIK 360 (755)
T ss_pred HHHHHHHHhhccccccCccchhcCCC-CchhhhhhhCCcchhhHHHHHHHHHHHHHHHHHhhhheeeeccCcHHHHHHHH
Confidence 112222222111111110000 0000 00111111 1111122223333333332221100 0
Q ss_pred h-----hccchhhHHHHHHHHHHHHHHHhc-------------cCCCCCceEEEEEEEcccchhhhhcCCCCceEEEEEc
Q 001656 360 L-----QNKKSTTACRIESISNILKIIFRD-------------KGTAHSAYYRVHVREADANAADVLKGKASRTLSWWCF 421 (1036)
Q Consensus 360 ~-----~~~~~~~~~~L~~l~~~L~~i~~~-------------~~~~~~~~y~v~v~~~~~~~~~~~~~~~~~~L~~~cl 421 (1036)
. +........+|..+...|.+---. -.+.+++-|.+.+++.+.. ...-..+.|++.|+
T Consensus 361 ~~~~IerKplrFCaeRL~~L~~tLeitd~~df~~l~~v~~faTlVstY~kGF~iIiEPfd~~----~~tv~npil~~sCl 436 (755)
T KOG1131|consen 361 SLTFIERKPLRFCAERLSSLVRTLEITDVEDFGALKTVADFATLVSTYSKGFSIIIEPFDDR----NPTVPNPILRFSCL 436 (755)
T ss_pred HhhhhhccchHHHHHHHHHHHHHhccCchhhhhHHHHHHHHHHHHHHHhcCcEEEEcccccC----CCCCCCCeeEEeec
Confidence 0 001123334444444333221000 0001223355555432111 01123578999999
Q ss_pred CcHHHHHHhhhccCCeEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHH
Q 001656 422 NPGIAMQEFSRLEVGSIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYK 501 (1036)
Q Consensus 422 dPs~~~~~ll~~~~~svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~ 501 (1036)
|.+.++++.+. ++++||+|||||+|++.+-+.|...+....+.......+-+..+++++|.+...+++.|+.|+++..+
T Consensus 437 DaSiAikPVf~-RFqsViITSGTlspldmyPk~lnf~pv~~~s~~mtLaR~c~~PmiitrG~Dqv~iss~fe~r~d~~Vv 515 (755)
T KOG1131|consen 437 DASIAIKPVFE-RFQSVIITSGTLSPLDMYPKILNFGPVVGASFTMTLARNCLLPLIITRGNDQVAISSKFEARGDPSVV 515 (755)
T ss_pred ccchhhhHHHH-hhheEEEecCcccccccCchhhccCcccchhhheecccccccceeeecCCcchhhhhhhhhccChHHH
Confidence 99999999998 89999999999999999999987764332222222333444557889999999999999999999999
Q ss_pred HHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccC
Q 001656 502 QELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDT 581 (1036)
Q Consensus 502 ~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~ 581 (1036)
.+.|+.+.+.++.+|||+++|||||-+|+.++..|+.. +|.+.+-++|.+|+|.+|..+..-+++.|+..|..
T Consensus 516 rnyG~llve~sk~vpdG~v~ff~sylYmesiv~~w~~~------gil~ei~k~KL~fIetpD~~ETs~al~ny~~aC~~- 588 (755)
T KOG1131|consen 516 RNYGNLLVEMSKIVPDGIVCFFPSYLYMESIVSRWYEQ------GILDEIMKYKLLFIETPDFRETSLALANYRYACDN- 588 (755)
T ss_pred hhcCcceeeecccCCCceEEEEehHHHHHHHHHHHHHH------hHHHHHhhCceEEEeCCchhhhHHHHHHHHHHhcC-
Confidence 99999999999999999999999999999999999975 78889999999999999998889999999999886
Q ss_pred CCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHH
Q 001656 582 STSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQA 661 (1036)
Q Consensus 582 ~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A 661 (1036)
++|||||.|+||+++|||||.++.+|+||+.|+||.......++++.+||.++.. ++.+++...+|
T Consensus 589 -gRGavl~sVargkVsEgidF~hhyGR~ViM~gIP~qytesriLkarle~Lrd~~~-------------irE~dflTFDA 654 (755)
T KOG1131|consen 589 -GRGAVLLSVARGKVSEGIDFDHHYGREVIMEGIPYQYTESRILKARLEYLRDQFQ-------------IRENDFLTFDA 654 (755)
T ss_pred -CCCceEEEEecCccccCcccccccCceEEEEeccchhhHHHHHHHHHHHHHHHhc-------------ccccceechHh
Confidence 5799999999999999999999999999999999999988889999999998754 34567788999
Q ss_pred HHHHHHhhCCccccCCCcEEEEEEecCCCCchhhhHHHhhhhcchhc---cCChhHHHHHHHHHHHHhhh
Q 001656 662 SRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQC---YSKFGDVVYTLTRFFREERI 728 (1036)
Q Consensus 662 ~r~v~QaiGRlIR~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i~~---~~~~~e~~~~l~~Ff~~~~~ 728 (1036)
||-.-|++||++|.++|||..|+.|+||....-+..+|+|+++++.. .-+.+.+..--++|++...+
T Consensus 655 mRhaAQC~GrvLr~K~dYg~mI~aDkRf~R~dKR~klp~wi~~~l~~~~~nlstd~a~~varrflR~maQ 724 (755)
T KOG1131|consen 655 MRHAAQCLGRVLRGKTDYGLMIFADKRFSRGDKRSKLPKWIRNHLFDAKLNLSTDMANQVARRFLRLMAQ 724 (755)
T ss_pred HHHHHHHHHHHHhccccceeeEeeehhhccccchhhhhHHHHhhhhhhccCCCcchhHHHHHHHHHHhcC
Confidence 99999999999999999999999999999877778999999999864 33456777778888888754
No 5
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=100.00 E-value=2.1e-73 Score=699.02 Aligned_cols=605 Identities=18% Similarity=0.212 Sum_probs=407.7
Q ss_pred cCC-CCCCHHHHHHHHHHHHHHHc-----CCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccC
Q 001656 12 EFP-FEAYDCQLVYMEKVIQSLQN-----KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVN 85 (1036)
Q Consensus 12 ~FP-fepy~~Q~e~m~~V~~aL~~-----~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (1036)
.+| |++|++|.+||..|+++|.+ ++++++|||||||||+|||+|++.|+.+.++
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 455 99999999999999999998 5899999999999999999999999987653
Q ss_pred CCCCCCCCCCeEEEEcCCHHHHHHHHHH----HHh-cCCCCeEEEeCCc-ccccccHHHHhhhcccc-------------
Q 001656 86 SSQSGDSKLPTILYTSRTHSQLRQVIQE----LKT-SNYRPKMVILGSR-EQLCIHREVSLLRGSAQ------------- 146 (1036)
Q Consensus 86 ~~q~~~~~~pkIiy~TRThsQl~Qvv~E----Lrk-l~~~~k~~vLgSR-~~lCin~~v~~l~~~~~------------- 146 (1036)
+||++|.|.++|+|++.+ |++ ++..+++++++|| ||+|+++....+.....
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 799999999999999863 333 4678889988887 99999998764422110
Q ss_pred ---hHHhHHHhhccC-CCcCcccccHHHHhhhCCCCCCCCCChhhHhh---------hccCCCCchhHHHHhhhcCccEE
Q 001656 147 ---NNACRFLCKKGT-NRRCNHHSRVADYMKNNPHLGDEPIDIEDLVN---------IGRTFGPCPYFMTRELQKTVDIV 213 (1036)
Q Consensus 147 ---~~~C~~L~k~~~-~~~C~~~~~l~~~~~~~~~~~~~~~dIedlv~---------~g~~~~~CPY~~aR~~~~~ADII 213 (1036)
......+..... ...-.|.++++++. ... ...+|+.++ -|..+..|||+.+|+.+..||||
T Consensus 150 ~~~~~~~~~l~~l~~~~~~~t~tGD~del~-----~~~-~~~~w~~v~~~~~~C~~~~Cp~~~~Cf~~~ar~~a~~Adiv 223 (697)
T PRK11747 150 PPDEEEQKLLARLAKALATGKWDGDRDHWP-----EPI-DDSLWQRITTDKHSCLGRNCPYFRECPFFKARREIDEADVV 223 (697)
T ss_pred CCCHHHHHHHHHHHHHHhcCCCcCcHhhCc-----CCC-cHHHHHHhhcCccccCCCCCCCCccChHHHHHHHHhhCCEE
Confidence 011111111000 00012344444431 000 112455443 24456789999999999999999
Q ss_pred EeccccccCHhhhhccCCCC--CCcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhhhhhccccCCCCCCCCCh
Q 001656 214 FAPYNYLIDPWFRKGLGVEW--KNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNP 291 (1036)
Q Consensus 214 v~nYnYLld~~ir~~l~i~~--~~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~~~~~~~r~~~~~~~~~~ 291 (1036)
|+||+|||.....+.-.+.+ +.+++||||||||+|+|.++++.+++...+..+++.+.+.......... .......
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 99999998655321112443 5789999999999999999999999998888877777543321110000 0000010
Q ss_pred hhH----HHHHHHHHHHHHHHHhcccc---ccccCCCCCcccHHHHHHhccccHHHHHHHHHHHHHHHHHHHHhh----h
Q 001656 292 DNF----AILRALLLKLEKRIAEVPIN---SKELGFTKPGPYIYELLADLNITQETAYKLIDIVEVAAELLQEDK----L 360 (1036)
Q Consensus 292 ~~~----~~L~~lL~~Le~~i~~l~~~---~~~~~~~~~g~~i~e~l~~~~~~~~~~~~L~~~l~~i~~~L~~~~----~ 360 (1036)
..+ ..+..++..+...+..+... .....+. .+.....+..........+..+...+..+.+.+.... .
T Consensus 302 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~~l~~~~~~~~~ 380 (697)
T PRK11747 302 ERLNAHCEELRELLASLNQILNLFLPAGGEEARYRFE-MGELPEELLELAERLAKLTEKLLGLLEKLLNDLSEAMKTGKI 380 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccccccccccccc-CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 111 22233333333333221100 0000000 0110000000000001112222233333222222100 0
Q ss_pred --------hccchhhHHHHHHHHHHHHHHHhccCCCCCceEEEEEEEcccchhhhhcCCCCceEEEEEcCcHHHHHHhhh
Q 001656 361 --------QNKKSTTACRIESISNILKIIFRDKGTAHSAYYRVHVREADANAADVLKGKASRTLSWWCFNPGIAMQEFSR 432 (1036)
Q Consensus 361 --------~~~~~~~~~~L~~l~~~L~~i~~~~~~~~~~~y~v~v~~~~~~~~~~~~~~~~~~L~~~cldPs~~~~~ll~ 432 (1036)
.........+++.+.+.+..++.....+.. .+..|++. ... .+..+..|...|++|+..+++.++
T Consensus 381 ~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~-~~v~Wie~-~~~-----~~~~~~~l~~~Pl~~~~~l~~~l~ 453 (697)
T PRK11747 381 DIVRLERLLLELGRALGRLEALSKLWRLAAKEDQESGA-PMARWITR-EER-----DGQGDYLFHASPIRVGDQLERLLW 453 (697)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCC-CceEEEEe-ccC-----CCCceEEEEEecCCHHHHHHHHHH
Confidence 011233455667777777777644322111 12345531 110 112345789999999999987666
Q ss_pred ccCCeEEEEccCCCC---hHHHHHHhCCCC---C--ccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHH
Q 001656 433 LEVGSIILTSGTLSP---MDSFAQELKLNF---P--LRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQEL 504 (1036)
Q Consensus 433 ~~~~svIltSgTLsp---~~~f~~~LGl~~---~--~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l 504 (1036)
.+++++|||||||+| +++|.+.||++. . +.+.+||++. +|..+ ++++.+ +..+++++|.+.+
T Consensus 454 ~~~~~vIltSATL~~~~~f~~~~~~lGL~~~~~~~~~~~~SpF~~~-~q~~l-~vp~~~--------~~p~~~~~~~~~~ 523 (697)
T PRK11747 454 SRAPGAVLTSATLRSLNSFDRFQEQSGLPEKDGDRFLALPSPFDYP-NQGKL-VIPKMR--------AEPDNEEAHTAEM 523 (697)
T ss_pred hhCCEEEEEeeeCCCCCchHHHHHHcCCCCCCCceEEEcCCCCCHH-HccEE-EeCCCC--------CCCCCcHHHHHHH
Confidence 689999999999997 467889999973 1 3456777664 45433 455432 1224678899999
Q ss_pred HHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCC
Q 001656 505 GNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTS 584 (1036)
Q Consensus 505 ~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~ 584 (1036)
++.|.+++. ++||+|||||||..|+++++.|.... ...+++++. .....++++|++.+.. ++
T Consensus 524 ~~~i~~l~~-~~gg~LVlFtSy~~l~~v~~~l~~~~-------------~~~ll~Q~~--~~~~~ll~~f~~~~~~--~~ 585 (697)
T PRK11747 524 AEFLPELLE-KHKGSLVLFASRRQMQKVADLLPRDL-------------RLMLLVQGD--QPRQRLLEKHKKRVDE--GE 585 (697)
T ss_pred HHHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHhc-------------CCcEEEeCC--chHHHHHHHHHHHhcc--CC
Confidence 999999999 89999999999999999999887421 134566543 3578899999987765 46
Q ss_pred CeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHH
Q 001656 585 GAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRA 664 (1036)
Q Consensus 585 gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~ 664 (1036)
++||||| |+|||||||+|+.|++|||+|||||+|+||.++++.+|++.+++++| .++++|+|+++
T Consensus 586 ~~VL~g~--~sf~EGVD~pGd~l~~vII~kLPF~~p~dp~~~ar~~~~~~~g~~~F-------------~~~~lP~A~~k 650 (697)
T PRK11747 586 GSVLFGL--QSFAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLKSRGGNPF-------------MEISVPDASFK 650 (697)
T ss_pred CeEEEEe--ccccccccCCCCceEEEEEEcCCCCCCCCHHHHHHHHHHHHhcCCcH-------------HHHHHHHHHHH
Confidence 8999999 99999999999999999999999999999999999999999888776 24578999999
Q ss_pred HHHhhCCccccCCCcEEEEEEecCCCCchhhhHHHhhhhcc
Q 001656 665 VNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPH 705 (1036)
Q Consensus 665 v~QaiGRlIR~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~ 705 (1036)
++||+||+||+++|+|+|+|+|+|+.+++|++.|.+.||+.
T Consensus 651 l~Qg~GRlIRs~~D~G~i~ilD~R~~~~~Yg~~~l~sLP~~ 691 (697)
T PRK11747 651 LIQAVGRLIRSEQDRGRVTILDRRLLTKRYGKRLLDALPPF 691 (697)
T ss_pred HHHHhccccccCCceEEEEEEcccccchhHHHHHHHhCCCC
Confidence 99999999999999999999999999999999999999874
No 6
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=8.5e-73 Score=712.98 Aligned_cols=619 Identities=18% Similarity=0.199 Sum_probs=414.8
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCC
Q 001656 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~ 94 (1036)
|++|++|.+||+.|.++|.+++++++|||||||||+|||+|++.|+...+
T Consensus 256 ~e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~------------------------------ 305 (928)
T PRK08074 256 YEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKE------------------------------ 305 (928)
T ss_pred CcCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccC------------------------------
Confidence 89999999999999999999999999999999999999999999987544
Q ss_pred CeEEEEcCCHHHHHHHHHH----HHh-cCCCCeEEEeCCc-ccccccHHHHhhhcccchHHhHHHhhccCCCcCc-----
Q 001656 95 PTILYTSRTHSQLRQVIQE----LKT-SNYRPKMVILGSR-EQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCN----- 163 (1036)
Q Consensus 95 pkIiy~TRThsQl~Qvv~E----Lrk-l~~~~k~~vLgSR-~~lCin~~v~~l~~~~~~~~C~~L~k~~~~~~C~----- 163 (1036)
.+||++|.|.++|+|++.. |++ +++.+++++++|| ||+|+++....+.....+..-. +.+ +..-.
T Consensus 306 ~~vvIsT~T~~LQ~Ql~~kDiP~L~~~~~~~~~~~~lKGr~nYlcl~k~~~~l~~~~~~~~~~-~~~---~~ll~Wl~~T 381 (928)
T PRK08074 306 EPVVISTYTIQLQQQLLEKDIPLLQKIFPFPVEAALLKGRSHYLCLRKFEQALQEEDDNYDVA-LTK---AQLLVWLTET 381 (928)
T ss_pred CeEEEEcCCHHHHHHHHHhhHHHHHHHcCCCceEEEEEcccccccHHHHHHHHhccCCCHHHH-HHH---HHHHHHHccC
Confidence 3799999999999999873 444 4667888877766 9999999876554322221111 111 11112
Q ss_pred ccccHHHHhhhCCCCCCCCCChhhHhh---------hccCCCCchhHHHHhhhcCccEEEeccccccCHhhhhccCCCCC
Q 001656 164 HHSRVADYMKNNPHLGDEPIDIEDLVN---------IGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWK 234 (1036)
Q Consensus 164 ~~~~l~~~~~~~~~~~~~~~dIedlv~---------~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir~~l~i~~~ 234 (1036)
+.++++++- +....-.+|+.++ -|..+..|||+.+|+.++.|||||+||+||+.....+ ..+.++
T Consensus 382 ~tGD~dEl~-----~~~~~~~~w~~i~~~~~~c~~~~cp~~~~Cf~~~ar~~a~~AdivItNHalLl~dl~~~-~~ilp~ 455 (928)
T PRK08074 382 ETGDLDELN-----LPSGGKLLWNRIASDGESDGGKQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDLTSE-EPLLPS 455 (928)
T ss_pred CCCCHHHcc-----CCCCCcchHHHhhccCcccCCCCCCcccccHHHHHHHHHhcCCEEEECHHHHHHHHhhh-cccCCC
Confidence 234555541 1111113455433 2445678999999999999999999999999765332 236678
Q ss_pred CcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhhhhhcc----ccCCCCCC---CCChhhHHHHHHHHHHHHHH
Q 001656 235 NSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISST----RRGQSSDE---TLNPDNFAILRALLLKLEKR 307 (1036)
Q Consensus 235 ~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~~~~~~----~r~~~~~~---~~~~~~~~~L~~lL~~Le~~ 307 (1036)
..++||||||||+++|.++++.+++...+...++.+......... ........ ....+....+..+...+++.
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 899999999999999999999999999998887776422110000 00000000 00000001111121111111
Q ss_pred HHhcc---c----ccccc----CCCC---CcccHHHHHHhccccHHHHHHHHHHHHHHHHHHHHhhhhc-----cchhhH
Q 001656 308 IAEVP---I----NSKEL----GFTK---PGPYIYELLADLNITQETAYKLIDIVEVAAELLQEDKLQN-----KKSTTA 368 (1036)
Q Consensus 308 i~~l~---~----~~~~~----~~~~---~g~~i~e~l~~~~~~~~~~~~L~~~l~~i~~~L~~~~~~~-----~~~~~~ 368 (1036)
+..+. . ..... .+.. .+.........+.-....+..+.+.+..+...++...... ......
T Consensus 536 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~l~~~~~~~~~~~~~~~~~~ 615 (928)
T PRK08074 536 FQMLRSFVLKRKKQEQNGRLIYRYNTESEKGKLWDAITELANRLCYDLRDLLTLLEAQKKELQEKMESESAFLTGEYAHL 615 (928)
T ss_pred HHHHHHHHhhcccccccccceeecccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHHH
Confidence 11110 0 00000 0000 0110001100010001112222222222211111110000 001122
Q ss_pred HHHHHHHHHHHHHHhccCCCCCceEEEEEEEcccchhhhhcCCCCceEEEEEcCcHHHHHHhhhccCCeEEEEccCCCC-
Q 001656 369 CRIESISNILKIIFRDKGTAHSAYYRVHVREADANAADVLKGKASRTLSWWCFNPGIAMQEFSRLEVGSIILTSGTLSP- 447 (1036)
Q Consensus 369 ~~L~~l~~~L~~i~~~~~~~~~~~y~v~v~~~~~~~~~~~~~~~~~~L~~~cldPs~~~~~ll~~~~~svIltSgTLsp- 447 (1036)
.++....+.+..++.... ..+..|++. +.. .......|...|++++..+.+.++..++++|||||||++
T Consensus 616 ~~l~~~~~~l~~~~~~~~----~~~v~w~e~-~~~-----~~~~~~~l~~~pld~~~~l~~~l~~~~~~~iltSATL~~~ 685 (928)
T PRK08074 616 IDLLEKMAQLLQLLFEED----PDYVTWIEI-DAK-----GAINATRLYAQPVEVAERLADEFFAKKKSVILTSATLTVN 685 (928)
T ss_pred HHHHHHHHHHHHHHhcCC----CCeEEEEEe-cCC-----CCCceEEEEEeeccHHHHHHHHHHhcCCcEEEEeeecccC
Confidence 334444444444443321 123445531 110 011234688999999999998877689999999999994
Q ss_pred --hHHHHHHhCCCC-C---ccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHHHcCCcEEE
Q 001656 448 --MDSFAQELKLNF-P---LRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIVPDGLLI 521 (1036)
Q Consensus 448 --~~~f~~~LGl~~-~---~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~~vpggvLV 521 (1036)
+++|.+.||++. . ..+.+||.+. +|..+++..+.|. +..+++++|.+.+++.|.+++..++|++||
T Consensus 686 ~~f~~~~~~lGl~~~~~~~~~~~SpF~~~-~q~~l~vp~d~p~-------~~~~~~~~~~~~la~~i~~l~~~~~g~~LV 757 (928)
T PRK08074 686 GSFDYIIERLGLEDFYPRTLQIPSPFSYE-EQAKLMIPTDMPP-------IKDVPIEEYIEEVAAYIAKIAKATKGRMLV 757 (928)
T ss_pred CCcHHHHHhcCCCCCCccEEEeCCCCCHH-HhcEEEeecCCCC-------CCCCChHHHHHHHHHHHHHHHHhCCCCEEE
Confidence 678889999963 2 3567787764 5665655544442 223556889999999999999999999999
Q ss_pred EecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEccCCccccc
Q 001656 522 FFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGL 600 (1036)
Q Consensus 522 fFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~-~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGI 600 (1036)
|||||+.|++|++.|++.... ....++.+. +..+...+++.|++ .+++||||+ |+|||||
T Consensus 758 LFtSy~~l~~v~~~l~~~~~~-----------~~~~ll~Qg~~~~~r~~l~~~F~~------~~~~iLlG~--~sFwEGV 818 (928)
T PRK08074 758 LFTSYEMLKKTYYNLKNEEEL-----------EGYVLLAQGVSSGSRARLTKQFQQ------FDKAILLGT--SSFWEGI 818 (928)
T ss_pred EECCHHHHHHHHHHHhhcccc-----------cCceEEecCCCCCCHHHHHHHHHh------cCCeEEEec--CcccCcc
Confidence 999999999999999754211 112233333 33567889999986 468999998 9999999
Q ss_pred cCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCCccccCCCcE
Q 001656 601 DFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYG 680 (1036)
Q Consensus 601 Df~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlIR~~~D~G 680 (1036)
||+|+.+++|||+|||||+|+||.++++.+|++++++++|. +|.+|+|+++++||+||+||+++|+|
T Consensus 819 D~pg~~l~~viI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~-------------~~~lP~A~~~lkQg~GRlIRs~~D~G 885 (928)
T PRK08074 819 DIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQ-------------ELSLPQAVLRFKQGFGRLIRTETDRG 885 (928)
T ss_pred ccCCCceEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchh-------------hhhhHHHHHHHHhhhhhhcccCCceE
Confidence 99999999999999999999999999999999999888772 45689999999999999999999999
Q ss_pred EEEEEecCCCCchhhhHHHhhhhcchhccCChhHHHHHHHHHH
Q 001656 681 AIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTRFF 723 (1036)
Q Consensus 681 ~viLlD~Rf~~~~y~~~l~~wl~~~i~~~~~~~e~~~~l~~Ff 723 (1036)
+|+|||+|+.+++|++.|+++||+.-....++.++...+.+|+
T Consensus 886 ~v~ilD~R~~~k~Yg~~~l~sLP~~~~~~~~~~~~~~~~~~~~ 928 (928)
T PRK08074 886 TVFVLDRRLTTTSYGKYFLESLPTVPVYEGTLEELLEEVEEFL 928 (928)
T ss_pred EEEEecCccccchHHHHHHHhCCCCCcccCCHHHHHHHHHhhC
Confidence 9999999999999999999999985445678999999999884
No 7
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=100.00 E-value=1.3e-70 Score=690.26 Aligned_cols=582 Identities=19% Similarity=0.209 Sum_probs=405.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
..|++|+.|.+||+.|.++|.+++++++|||||||||+|||+|++.|+. .+
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 3589999999999999999999999999999999999999999999876 22
Q ss_pred CCCeEEEEcCCHHHHHHHHH-HHHh----cCCCCeEEEeCC-cccccccHHHHhhhcccchHHhHHHhhccCCCcCccc-
Q 001656 93 KLPTILYTSRTHSQLRQVIQ-ELKT----SNYRPKMVILGS-REQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCNHH- 165 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~-ELrk----l~~~~k~~vLgS-R~~lCin~~v~~l~~~~~~~~C~~L~k~~~~~~C~~~- 165 (1036)
.+|+|+|+|+++++|++. +++. ++..+++++++| ++|+|+......+.....+..|..+ + ++.|.|+
T Consensus 293 --~~vvi~t~t~~Lq~Ql~~~~~~~l~~~~~~~~~~~~~kG~~~ylcl~k~~~~l~~~~~~~~~~~~-~---~~~~~wl~ 366 (850)
T TIGR01407 293 --KPVVISTNTKVLQSQLLEKDIPLLNEILNFKINAALIKGKSNYLSLGKFSQILKDNTDNYEFNIF-K---MQVLVWLT 366 (850)
T ss_pred --CeEEEEeCcHHHHHHHHHHHHHHHHHHcCCCceEEEEEcchhhccHHHHHHHHhcCCCcHHHHHH-H---HHHHHHhc
Confidence 379999999999999876 4543 355678876555 5999998877655433334455532 3 3567776
Q ss_pred ----ccHHHHhhhCCCCCCCCCChhhHh-------hhccCCCCchhHHHHhhhcCccEEEeccccccCHhhhhccCCCCC
Q 001656 166 ----SRVADYMKNNPHLGDEPIDIEDLV-------NIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWK 234 (1036)
Q Consensus 166 ----~~l~~~~~~~~~~~~~~~dIedlv-------~~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir~~l~i~~~ 234 (1036)
++++++. ........|+.+ ..|..++.|||+.+|+.++.||||||||+|||++..... .+.++
T Consensus 367 ~T~tGD~~el~-----~~~~~~~~~~~i~~~~~l~~~c~~~~~Cf~~~ar~~a~~AdivItNHa~L~~~~~~~~-~ilp~ 440 (850)
T TIGR01407 367 ETETGDLDELN-----LKGGNKMFFAQVRHDGNLSKKDLFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDNP-ELFPS 440 (850)
T ss_pred cCCccCHhhcc-----CCCcchhhHHHhhcCCCCCCCCCCccccHHHHHHHHHhcCCEEEecHHHHHHHhhccc-ccCCC
Confidence 4444431 111111223332 235567899999999999999999999999998875522 35577
Q ss_pred CcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhhhhhccccCCCCCCCCChhhHHHHHHHHHHHHHHHHhcccc
Q 001656 235 NSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRALLLKLEKRIAEVPIN 314 (1036)
Q Consensus 235 ~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~~~~~~~r~~~~~~~~~~~~~~~L~~lL~~Le~~i~~l~~~ 314 (1036)
..+|||||||||+++++++++.+++...+..+++.+..... ......+..++..........
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 78999999999999999999999999999988887632110 011112222222111110000
Q ss_pred ccccCCCCCcccHHHHHHhccccHHHHHHHHHHHHHHHHHHHHhhh--hccchhhHHHHHHHHHHHHHHHhccCCCCCce
Q 001656 315 SKELGFTKPGPYIYELLADLNITQETAYKLIDIVEVAAELLQEDKL--QNKKSTTACRIESISNILKIIFRDKGTAHSAY 392 (1036)
Q Consensus 315 ~~~~~~~~~g~~i~e~l~~~~~~~~~~~~L~~~l~~i~~~L~~~~~--~~~~~~~~~~L~~l~~~L~~i~~~~~~~~~~~ 392 (1036)
+. ..+.+. .+...++.+...+..... ..........+..+...+..+.......
T Consensus 503 -----~~-----~~~~~~----------~l~~~~~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~---- 558 (850)
T TIGR01407 503 -----FE-----TKDILK----------DLQAILDKLNKLLQIFSELSHKTVDQLRKFDLALKDDFKNIEQSLKEG---- 558 (850)
T ss_pred -----hh-----hhhHHH----------HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHhccC----
Confidence 00 000000 011111111111110000 0000011111222222221111111111
Q ss_pred EEEEEEEcccchhhhhcCCCCceEEEEEcCcHHHHHHhhhccCCeEEEEccCCC---ChHHHHHHhCCCCCc--cc-cCC
Q 001656 393 YRVHVREADANAADVLKGKASRTLSWWCFNPGIAMQEFSRLEVGSIILTSGTLS---PMDSFAQELKLNFPL--RV-ENP 466 (1036)
Q Consensus 393 y~v~v~~~~~~~~~~~~~~~~~~L~~~cldPs~~~~~ll~~~~~svIltSgTLs---p~~~f~~~LGl~~~~--~l-e~p 466 (1036)
+..|++. ... .......|+..|++|+..+.+.+....+++|||||||+ |+++|.+.||++... .+ .+|
T Consensus 559 ~~~wi~~-~~~-----~~~~~~~l~~~pl~~~~~l~~~~~~~~~~~il~SATL~~~~~~~~~~~~lGl~~~~~~~~~~sp 632 (850)
T TIGR01407 559 HTSWISI-ENL-----QQKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTSATLKFSHSFESFPQLLGLTDVHFNTIEPTP 632 (850)
T ss_pred CeEEEEe-cCC-----CCCceEEEEeeeCcHHHHHHHHHhccCCeEEEEecccccCCChHHHHHhcCCCccccceecCCC
Confidence 1235431 110 01123468889999999887766668899999999999 789999999997432 33 455
Q ss_pred CcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchh
Q 001656 467 HVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTT 546 (1036)
Q Consensus 467 ~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~ 546 (1036)
+.+ .+|..+++..+.|. +..++.++|.+.+++.|.+++..++|++|||||||..|+++++.|......
T Consensus 633 f~~-~~~~~l~v~~d~~~-------~~~~~~~~~~~~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~~~~---- 700 (850)
T TIGR01407 633 LNY-AENQRVLIPTDAPA-------IQNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHMVYDMLNELPEF---- 700 (850)
T ss_pred CCH-HHcCEEEecCCCCC-------CCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhhccc----
Confidence 554 35555554444432 233566789999999999999999999999999999999999998753211
Q ss_pred HHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHH
Q 001656 547 IWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVR 626 (1036)
Q Consensus 547 i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~ 626 (1036)
....++.+..+ .+...+++.|+. ++++||||+ |+|||||||+|+.+++|||+|||||+|+||.++
T Consensus 701 ------~~~~~l~q~~~-~~r~~ll~~F~~------~~~~iLlgt--~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~ 765 (850)
T TIGR01407 701 ------EGYEVLAQGIN-GSRAKIKKRFNN------GEKAILLGT--SSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTK 765 (850)
T ss_pred ------cCceEEecCCC-ccHHHHHHHHHh------CCCeEEEEc--ceeecccccCCCceEEEEEeCCCCCCCCCHHHH
Confidence 11223444333 467888999985 578999998 999999999999999999999999999999999
Q ss_pred HHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCCccccCCCcEEEEEEecCCCCchhhhHHHhhhhcch
Q 001656 627 LKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHI 706 (1036)
Q Consensus 627 ~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlIR~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i 706 (1036)
++.+|+++.++++| .+|++|+|+++++||+||+||+++|+|+|+|+|+||.+++|++.|+++|++..
T Consensus 766 a~~~~~~~~g~~~f-------------~~~~lP~A~~~l~Qa~GRlIRs~~D~G~v~ilD~R~~~~~Yg~~~~~sLp~~~ 832 (850)
T TIGR01407 766 KYWQKLEQEGKNPF-------------YDYVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYGKRFEKSLPEYL 832 (850)
T ss_pred HHHHHHHHhcCCch-------------HHhhHHHHHHHHHHhhccccccCCceEEEEEEccccccchHHHHHHHhCCCcc
Confidence 99999998887766 25678999999999999999999999999999999999999999999999876
Q ss_pred hccC-ChhHHHHHHHHHH
Q 001656 707 QCYS-KFGDVVYTLTRFF 723 (1036)
Q Consensus 707 ~~~~-~~~e~~~~l~~Ff 723 (1036)
.+.. ++++++..+..|+
T Consensus 833 ~~~~~~~~~~~~~~~~~~ 850 (850)
T TIGR01407 833 QVKGDILGELLEAIKEFL 850 (850)
T ss_pred ccccCCHHHHHHHHHhhC
Confidence 6644 5999999999985
No 8
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=2.1e-69 Score=665.31 Aligned_cols=608 Identities=25% Similarity=0.318 Sum_probs=402.2
Q ss_pred eeecCC-CCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCC
Q 001656 9 IDVEFP-FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSS 87 (1036)
Q Consensus 9 i~v~FP-fepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (1036)
..+.|| |+||+.|++||..|.+++.+++++++|||||||||++||+|||.|++..+
T Consensus 7 ~~~~~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~----------------------- 63 (654)
T COG1199 7 LAVAFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEG----------------------- 63 (654)
T ss_pred HHhhCCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcC-----------------------
Confidence 446677 67999999999999999999999999999999999999999999998754
Q ss_pred CCCCCCCCeEEEEcCCHHHHHHHHHHHHhcC--C---CCeEEEeCCc-ccccccHHHHhh-hcccchHHhHHH----hhc
Q 001656 88 QSGDSKLPTILYTSRTHSQLRQVIQELKTSN--Y---RPKMVILGSR-EQLCIHREVSLL-RGSAQNNACRFL----CKK 156 (1036)
Q Consensus 88 q~~~~~~pkIiy~TRThsQl~Qvv~ELrkl~--~---~~k~~vLgSR-~~lCin~~v~~l-~~~~~~~~C~~L----~k~ 156 (1036)
.+|||+|+||.+++|++++...+. . ..+...+.|| +|+|+....... .+......|... +..
T Consensus 64 -------~~viist~t~~lq~q~~~~~~~~~~~~~~~~~~~~~~kgr~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 136 (654)
T COG1199 64 -------KKVIISTRTKALQEQLLEEDLPIHKLLKKLGGKFALLKGRSNYLCLSRLERLAQLGGDDDDYLQSLALKALAD 136 (654)
T ss_pred -------CcEEEECCCHHHHHHHHHhhcchhhhhhhhhhHHHHHhccccccchHHHHHHHHccCcchhHHhhhhHHHHHH
Confidence 479999999999999999876541 1 1234677888 788887776422 222334455431 000
Q ss_pred cCCCcCccc-ccHHHHhhhCCCCCCCCCC----hhh--HhhhccCCCCchhHHHHhhhcCccEEEeccccccCHhhhhcc
Q 001656 157 GTNRRCNHH-SRVADYMKNNPHLGDEPID----IED--LVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGL 229 (1036)
Q Consensus 157 ~~~~~C~~~-~~l~~~~~~~~~~~~~~~d----Ied--lv~~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir~~l 229 (1036)
.....|.+. ++..+.. ........|. ..+ .-..|..+..|||+.+|+.++.|||||+||+|++........
T Consensus 137 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~cp~~~~c~~~~~~~~~~~ad~vv~nh~~~~~~~~~~~~ 214 (654)
T COG1199 137 LLVWLTETKTGDLRELT--PKALDDPLWTLVTDDKDSCLGEDCPYYTECFYFPARKEAENADLVVTNHALLLADVALEES 214 (654)
T ss_pred HHHHhhcCCCCChhhcc--ccccccchhhhhhcccccccccCCcchhhhHHHHHHHHHhhCCEEEEccHHHHhHHHhhhh
Confidence 000112221 1111110 0011111121 111 113567788999999999999999999999999988777443
Q ss_pred CC-CCCCcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhhhhhccccCCCCCCCCChhhHHHHHHHHHHHHHHH
Q 001656 230 GV-EWKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRALLLKLEKRI 308 (1036)
Q Consensus 230 ~i-~~~~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~~~~~~~r~~~~~~~~~~~~~~~L~~lL~~Le~~i 308 (1036)
.. .+++.++||||||||++.|++++|..++..+|..++.++....... ......+......|+..+
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 33 4789999999999999999999999999999999988887654210 001111111111122222
Q ss_pred Hhccc---ccccc-CC---CCCcccHHHH-HHhccccHHHHHHHHHHHHHHHHHHHHhhhhccchhhHHHHHHHHHHHHH
Q 001656 309 AEVPI---NSKEL-GF---TKPGPYIYEL-LADLNITQETAYKLIDIVEVAAELLQEDKLQNKKSTTACRIESISNILKI 380 (1036)
Q Consensus 309 ~~l~~---~~~~~-~~---~~~g~~i~e~-l~~~~~~~~~~~~L~~~l~~i~~~L~~~~~~~~~~~~~~~L~~l~~~L~~ 380 (1036)
..+.. ..... .. ........+. ..... .....+...++.+.+++..... ........++.+...+..
T Consensus 282 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~--~~d~~~~~~~~~~~~~~~ 356 (654)
T COG1199 282 EDLRELLIFDVDELGNLRERLREQLSSEEAKEALG---KLEEALLEKLKNLSELLGLSQN--ELDRPTSILERLKEELDR 356 (654)
T ss_pred HHHHHHHhcchhhhhhHHHhccccchhhHHHHHHH---HHHHHHHHHHHHHHHHHHhhhh--hccchhHHHHHHHHHHHH
Confidence 11110 00000 00 0000000000 00000 0011111111111111111110 000111344555555555
Q ss_pred HHh-ccCCCCCceEEEEEEEcccchhhhhcCCCCc-eEEEEEcCcHHHHHHhhhccCCeEEEEccCCCChHHHHHHhCCC
Q 001656 381 IFR-DKGTAHSAYYRVHVREADANAADVLKGKASR-TLSWWCFNPGIAMQEFSRLEVGSIILTSGTLSPMDSFAQELKLN 458 (1036)
Q Consensus 381 i~~-~~~~~~~~~y~v~v~~~~~~~~~~~~~~~~~-~L~~~cldPs~~~~~ll~~~~~svIltSgTLsp~~~f~~~LGl~ 458 (1036)
+.. .........|..|++. ...... .+..+|.+|+...++++. .++++|||||||+|+++|...+|..
T Consensus 357 ~~~~~~~~~~~~~~~~w~~~---------~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~vl~SaTL~~~~~f~~~~~~~ 426 (654)
T COG1199 357 LLSRELLLSDDPDYSYWLEI---------EEREGVLLLVLPLLVPSKLLEELFS-KVASVVLTSATLSPLDSFSSLLGLL 426 (654)
T ss_pred HHhhcccccCCCCceEEEEe---------cccccceeEEeecccHHHHHHHHHh-hcCcEEEeeeeccCCCcHHHHHHHc
Confidence 443 0001112234556542 111122 357788889988889888 8999999999999998887766654
Q ss_pred ---CC---ccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHHHcCCcEEEEecCHHHHHHH
Q 001656 459 ---FP---LRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQC 532 (1036)
Q Consensus 459 ---~~---~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v 532 (1036)
.. +.+.+|+.+. .+..+. |+. .|..+.++++.+.++..|.++++.+|||+|||||||.+|+.+
T Consensus 427 ~~~~~~~~~~~~spf~~~-~~~~~~-v~~---------~~~~~~~~~~~~~~~~~i~~~~~~~~~~~lvlF~Sy~~l~~~ 495 (654)
T COG1199 427 GLEEKLRFLSLPSPFNYE-EQGQLY-VPT---------DLPEPREPELLAKLAAYLREILKASPGGVLVLFPSYEYLKRV 495 (654)
T ss_pred CCccccceeccCCCCChh-hcceEe-ccc---------cCCCCCChHHHHHHHHHHHHHHhhcCCCEEEEeccHHHHHHH
Confidence 22 2334454443 233332 332 344555578899999999999999999999999999999999
Q ss_pred HHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEE
Q 001656 533 IACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVI 612 (1036)
Q Consensus 533 ~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VII 612 (1036)
++.|+.... . ..++. ++..+..++++.|+.. .++ +|+|++|+|||||||+|+.+|+|||
T Consensus 496 ~~~~~~~~~----~--------~~v~~--q~~~~~~~~l~~f~~~-----~~~--~~lv~~gsf~EGVD~~g~~l~~vvI 554 (654)
T COG1199 496 AERLKDERS----T--------LPVLT--QGEDEREELLEKFKAS-----GEG--LILVGGGSFWEGVDFPGDALRLVVI 554 (654)
T ss_pred HHHHhhcCc----c--------ceeee--cCCCcHHHHHHHHHHh-----cCC--eEEEeeccccCcccCCCCCeeEEEE
Confidence 999986421 0 12232 3444567899999973 223 5666779999999999999999999
Q ss_pred eCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCCccccCCCcEEEEEEecCCCCc
Q 001656 613 TGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHP 692 (1036)
Q Consensus 613 vGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlIR~~~D~G~viLlD~Rf~~~ 692 (1036)
+|||||+|+||.+++|.+|.++.++++| .+||+++|+++|+||+||+||+++|||+|+|||+||.++
T Consensus 555 ~~lPfp~p~dp~~~~r~~~~~~~g~~~f-------------~~~~l~~A~~~l~QavGRlIR~~~D~G~ivllD~R~~~~ 621 (654)
T COG1199 555 VGLPFPNPDDPLLKARLEFLKRLGGDPF-------------EEFYLPPAVIKLRQAVGRLIRSEDDRGVIVLLDKRYATK 621 (654)
T ss_pred EecCCCCCCCHHHHHHHHHHHHhcCCCc-------------eEeehHHHHHHHHHhhccccccCCCceEEEEecccchhh
Confidence 9999999999999999999999988776 478999999999999999999999999999999999999
Q ss_pred hhhhHHHhhhhcchhccCChhHHHHHHHH
Q 001656 693 SRKSQISLWIQPHIQCYSKFGDVVYTLTR 721 (1036)
Q Consensus 693 ~y~~~l~~wl~~~i~~~~~~~e~~~~l~~ 721 (1036)
+|++.|++|+++..+............+.
T Consensus 622 ~y~~~l~~~l~~~~~~~~~~~~~~~~~~~ 650 (654)
T COG1199 622 RYGKLLLDSLPPFPKSKDLNPSAIFLERE 650 (654)
T ss_pred hHHHHHHHhCCCCcccccchhhHHHHhhh
Confidence 99999999999999886665554444433
No 9
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=7.8e-65 Score=630.83 Aligned_cols=558 Identities=17% Similarity=0.163 Sum_probs=377.1
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCC
Q 001656 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~ 94 (1036)
|++|+.|.+||+.|+++|.+++++++|||||||||+|||+|++.+.. .
T Consensus 244 ~e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~~--------------------------------~ 291 (820)
T PRK07246 244 LEERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQSD--------------------------------Q 291 (820)
T ss_pred CccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhcC--------------------------------C
Confidence 89999999999999999999999999999999999999999987541 1
Q ss_pred CeEEEEcCCHHHHHHHH-HHHHhcC--CCCeEE-EeCCcccccccHHHHhhhcccchHHhHHHhhccCCCcCcc-----c
Q 001656 95 PTILYTSRTHSQLRQVI-QELKTSN--YRPKMV-ILGSREQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCNH-----H 165 (1036)
Q Consensus 95 pkIiy~TRThsQl~Qvv-~ELrkl~--~~~k~~-vLgSR~~lCin~~v~~l~~~~~~~~C~~L~k~~~~~~C~~-----~ 165 (1036)
++|+++|.|..+++|++ ++++.+. ...++. ++|+.+|+|+++....+.....+..-. +.+ ++.-.| .
T Consensus 292 ~~vvI~t~T~~Lq~Ql~~~~i~~l~~~~~~~~~~~kg~~~ylcl~k~~~~l~~~~~~~~~~-~~~---~~il~Wl~~T~t 367 (820)
T PRK07246 292 RQIIVSVPTKILQDQIMAEEVKAIQEVFHIDCHSLKGPQNYLKLDAFYDSLQQNDDNRLVN-RYK---MQLLVWLTETET 367 (820)
T ss_pred CcEEEEeCcHHHHHHHHHHHHHHHHHhcCCcEEEEECCcccccHHHHHHHhhccCcchHHH-HHH---HHHHHHHhcCCC
Confidence 47999999999999996 4454332 234454 566779999999876553222121111 111 111122 2
Q ss_pred ccHHHHhhhCCCCCCCCCChhhHhh-------hccCCCCchhHHHHhhhcCccEEEeccccccCHhhhhccCCCCCCcEE
Q 001656 166 SRVADYMKNNPHLGDEPIDIEDLVN-------IGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWKNSIL 238 (1036)
Q Consensus 166 ~~l~~~~~~~~~~~~~~~dIedlv~-------~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir~~l~i~~~~~Il 238 (1036)
++++++ ......-.+|+.++ -|..++.|+|+.+|+.++.|||||+||+||+....... ..+..++|
T Consensus 368 GD~~El-----~~~~~~~~~w~~i~~~~~~~~~cp~~~~cf~~~ar~~a~~AdivItNHall~~~~~~~~--~~p~~~~l 440 (820)
T PRK07246 368 GDLDEI-----KQKQRYAAYFDQLKHDGNLSQSSLFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDDK--DFARNKVL 440 (820)
T ss_pred CCHhhc-----cCCccccHHHHHhhccCCCCCCCCcchhhHHHHHHHHHHhCCEEEEchHHHHHHHhhcc--CCCCCCEE
Confidence 233332 01111112355433 24456789999999999999999999999997553322 34678999
Q ss_pred EEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhhhhhccccCCCCCCCCChhhHHHHHHHHHHHHHHHHhcccccccc
Q 001656 239 IFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRALLLKLEKRIAEVPINSKEL 318 (1036)
Q Consensus 239 IfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~~~~~~~r~~~~~~~~~~~~~~~L~~lL~~Le~~i~~l~~~~~~~ 318 (1036)
||||||||+++++......++...+...+..+...... ......+..+. ..+++....+..
T Consensus 441 IiDEAH~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-----------~~~~~~~~~~~---~~~~~~~~~~~~----- 501 (820)
T PRK07246 441 VFDEAQKLMLQLEQLSRHQLNITSFLQTIQKALSGPLP-----------LLQKRLLESIS---FELLQLSEQFYQ----- 501 (820)
T ss_pred EEECcchhHHHHHHHhcceecHHHHHHHHHHHHHHHHH-----------HHhhhhHHHHH---HHHHHHHHHHHh-----
Confidence 99999999999887777778877776555433211100 00001111111 111111111100
Q ss_pred CCCCCcccHHHHHHhccccHHHHHHHHHHHHHHHHHHHHhhhhccchhhHHHHHHHHHHHHHHHhccCCCCCceEEEEEE
Q 001656 319 GFTKPGPYIYELLADLNITQETAYKLIDIVEVAAELLQEDKLQNKKSTTACRIESISNILKIIFRDKGTAHSAYYRVHVR 398 (1036)
Q Consensus 319 ~~~~~g~~i~e~l~~~~~~~~~~~~L~~~l~~i~~~L~~~~~~~~~~~~~~~L~~l~~~L~~i~~~~~~~~~~~y~v~v~ 398 (1036)
.. . .......+..+...++. +.. .....+..++.... .. .|++
T Consensus 502 -----~~-~------~~~~~~~l~~l~~~l~~----l~~---------------~~~~~~~~~~~~~~----~~--~W~e 544 (820)
T PRK07246 502 -----GK-E------RQLIHDSLSRLHQYFSE----LEV---------------AGFQELQAFFATAE----GD--YWLE 544 (820)
T ss_pred -----hh-h------hHHHHHHHHHHHHHHHH----HHH---------------HHHHHHHHHHhCCC----Ce--EEEE
Confidence 00 0 00000011111111111 100 01111222222211 12 3553
Q ss_pred EcccchhhhhcCCCCceEEEEEcCcHHHHHHhhhccCCeEEEEccCCC--ChHHHHHHhCCCCCccccCCCcCCCCceEE
Q 001656 399 EADANAADVLKGKASRTLSWWCFNPGIAMQEFSRLEVGSIILTSGTLS--PMDSFAQELKLNFPLRVENPHVITSKQIWA 476 (1036)
Q Consensus 399 ~~~~~~~~~~~~~~~~~L~~~cldPs~~~~~ll~~~~~svIltSgTLs--p~~~f~~~LGl~~~~~le~p~v~~~~qi~v 476 (1036)
. ... .......|...|++++. ++.++. ..+++|||||||+ |...|.+.||++....+..|+.+..++ .+
T Consensus 545 ~-~~~-----~~~~~~~l~~~pl~v~~-~~~~~~-~~~~~i~tSATL~v~~~f~~~~~lGl~~~~~~~~~~~~~~~~-~~ 615 (820)
T PRK07246 545 S-EKQ-----SEKRVTYLNSASKAFTH-FSQLLP-ETCKTYFVSATLQISPRVSLADLLGFEEYLFHKIEKDKKQDQ-LV 615 (820)
T ss_pred e-cCC-----CCcceeEEEeeeCcHHH-HHHHHh-cCCeEEEEecccccCCCCcHHHHcCCCccceecCCCChHHcc-EE
Confidence 1 110 01112358889999985 577776 8899999999997 433489999997544445567665433 33
Q ss_pred EEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCC
Q 001656 477 GIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKK 556 (1036)
Q Consensus 477 ~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~ 556 (1036)
++.++.|. +..+++++|.+.+++.|..++ .++|++|||||||+.|+++++.+... ...
T Consensus 616 ~i~~~~p~-------~~~~~~~~~~~~~~~~i~~~~-~~~g~~LVLFtS~~~l~~v~~~l~~~--------------~~~ 673 (820)
T PRK07246 616 VVDQDMPL-------VTETSDEVYAEEIAKRLEELK-QLQQPILVLFNSKKHLLAVSDLLDQW--------------QVS 673 (820)
T ss_pred EeCCCCCC-------CCCCChHHHHHHHHHHHHHHH-hcCCCEEEEECcHHHHHHHHHHHhhc--------------CCc
Confidence 33334442 223456789999999999988 78999999999999999998887532 123
Q ss_pred ceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHc
Q 001656 557 PVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQA 636 (1036)
Q Consensus 557 v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~ 636 (1036)
++.++.++ ....++++|++ ++++||||+ |+|||||||+|+.+..|||+|||||+|+||.++++.+|+++++
T Consensus 674 ~l~Qg~~~-~~~~l~~~F~~------~~~~vLlG~--~sFwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g 744 (820)
T PRK07246 674 HLAQEKNG-TAYNIKKRFDR------GEQQILLGL--GSFWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQEG 744 (820)
T ss_pred EEEeCCCc-cHHHHHHHHHc------CCCeEEEec--chhhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHhC
Confidence 45554443 45678888875 468999999 9999999999888888999999999999999999999999998
Q ss_pred cCCCCccchhhcccCCcccchHHHHHHHHHHhhCCccccCCCcEEEEEEecCCCCchhhhHHHhhhhcchhc-cCChhHH
Q 001656 637 QSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQC-YSKFGDV 715 (1036)
Q Consensus 637 ~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlIR~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i~~-~~~~~e~ 715 (1036)
+++|. ++.+|+|+++++||+|||||+++|+|+|+|||+|+.+++|++.|.+|||+.+.+ ..+++++
T Consensus 745 ~~~F~-------------~~~lP~A~iklkQg~GRLIRs~~D~Gvv~ilD~R~~~k~Yg~~~l~sLP~~~~~~~~~~~~~ 811 (820)
T PRK07246 745 KNPFY-------------DYFLPMTILRLKQAIGRTMRREDQKSAVLILDRRILTKSYGKQILASLAEEFLISQQNFSDV 811 (820)
T ss_pred CCchh-------------heeHHHHHHHHHHHhcccccCCCCcEEEEEECCcccccHHHHHHHHhCCCCCccccCCHHHH
Confidence 88773 446899999999999999999999999999999999999999999999986544 5889999
Q ss_pred HHHHHHHHH
Q 001656 716 VYTLTRFFR 724 (1036)
Q Consensus 716 ~~~l~~Ff~ 724 (1036)
.+.+.+||.
T Consensus 812 ~~~~~~f~~ 820 (820)
T PRK07246 812 LVEIDRFLI 820 (820)
T ss_pred HHHHHHhhC
Confidence 999999983
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=6.5e-62 Score=581.50 Aligned_cols=573 Identities=18% Similarity=0.151 Sum_probs=379.5
Q ss_pred HHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEE
Q 001656 20 CQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILY 99 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy 99 (1036)
.|.+||..|+++|.+++++++|||||||||+|||+|+|.|+.... ..+|+|
T Consensus 1 ~Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~-----------------------------~~rvlI 51 (636)
T TIGR03117 1 EQALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERP-----------------------------DQKIAI 51 (636)
T ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhcc-----------------------------CceEEE
Confidence 499999999999999999999999999999999999999976321 158999
Q ss_pred EcCCHHHHHHHHHHHHhcC-----CCCeEEEe-CCcccccccHHHHhhhcccchH---HhHHHhhcc---C---CCcCc-
Q 001656 100 TSRTHSQLRQVIQELKTSN-----YRPKMVIL-GSREQLCIHREVSLLRGSAQNN---ACRFLCKKG---T---NRRCN- 163 (1036)
Q Consensus 100 ~TRThsQl~Qvv~ELrkl~-----~~~k~~vL-gSR~~lCin~~v~~l~~~~~~~---~C~~L~k~~---~---~~~C~- 163 (1036)
+|+|+.+++|++++++.+. ..++++++ |.++|+|+++....+.....+. .-.++.+.. + .+.|.
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 9999999999999877654 45677655 5559999998876443221111 011111100 0 00111
Q ss_pred -------c-cccHHHHhhhCCCCCCCCCChhhHhhhccCCCCchhHHHHhh---hcCccEEEeccccccCHhhhhccCCC
Q 001656 164 -------H-HSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTREL---QKTVDIVFAPYNYLIDPWFRKGLGVE 232 (1036)
Q Consensus 164 -------~-~~~l~~~~~~~~~~~~~~~dIedlv~~g~~~~~CPY~~aR~~---~~~ADIIv~nYnYLld~~ir~~l~i~ 232 (1036)
| .+++++.. .......+.+ + .....+..|.|+.+|+. +..|||||+||+||+. ..+...++.
T Consensus 132 ~~~~~~~~~tGD~~el~----~~~~~~~~~~-~-~~~~~~~~~~~~~aR~~~~~a~~AdivItNHalL~~-~~~~~~~iL 204 (636)
T TIGR03117 132 DAPTKMHWMTHDLKAVA----TLLNRQDDVT-L-AIREDDEDKRLVESREYEAEARRCRILFCTHAMLGL-AFRDKWGLL 204 (636)
T ss_pred chhhccCCCCCCHhhcc----CCcCcchhhh-c-cccCCCcccHHHHHHHHhhccccCCEEEECHHHHHH-HhhhhcCCC
Confidence 0 11111110 0000000000 0 00011235899999998 9999999999999996 345555788
Q ss_pred CCCcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhhhhhccccCCCCCCCCChhhHHHHHHHHHHHHHHHHhcc
Q 001656 233 WKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCIDISSTRRGQSSDETLNPDNFAILRALLLKLEKRIAEVP 312 (1036)
Q Consensus 233 ~~~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~~~~~~~r~~~~~~~~~~~~~~~L~~lL~~Le~~i~~l~ 312 (1036)
++.++|||||||||++++.++++.+++..++...+..+.... +..........+...+..+.... +.
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 889999999999999999999999999999988877552110 00000111222222222221100 00
Q ss_pred ccccccCCCCCcccHHHHHHhccccHHHHHHHHHHHHHHHHHHHHhhhhccchhhHHHHHHHHHHHHHHHhc-cCCCCCc
Q 001656 313 INSKELGFTKPGPYIYELLADLNITQETAYKLIDIVEVAAELLQEDKLQNKKSTTACRIESISNILKIIFRD-KGTAHSA 391 (1036)
Q Consensus 313 ~~~~~~~~~~~g~~i~e~l~~~~~~~~~~~~L~~~l~~i~~~L~~~~~~~~~~~~~~~L~~l~~~L~~i~~~-~~~~~~~ 391 (1036)
. . +.. +. +.+. ...+..+.+.|..+.+.+..............+++.+.+.+..+... .......
T Consensus 272 -~-~--~~~--~~-~~~~-------~~~l~~l~~~L~~l~~~l~~~~~~~~~~~~~~rl~~~~~~~~~~~~~~~~~~~~~ 337 (636)
T TIGR03117 272 -G-D--GQT--LC-LDAG-------NKELETLFADLDAALDACSVGRNRDENKKALSVVKDVKKARFILDNAITAIQGKA 337 (636)
T ss_pred -c-c--ccc--cc-HHHH-------HHHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHHHHHHhhhcccccccc
Confidence 0 0 000 00 1111 11122233333333333321111111234567788888876655321 1110111
Q ss_pred eEEEEEEEcccchhhhhcCCCCceEEEEEcCcHHHHHHhhhccCCeEEEEccCCCC--------hHHHHHHhCCCCC-cc
Q 001656 392 YYRVHVREADANAADVLKGKASRTLSWWCFNPGIAMQEFSRLEVGSIILTSGTLSP--------MDSFAQELKLNFP-LR 462 (1036)
Q Consensus 392 ~y~v~v~~~~~~~~~~~~~~~~~~L~~~cldPs~~~~~ll~~~~~svIltSgTLsp--------~~~f~~~LGl~~~-~~ 462 (1036)
.|++|+.. ......|...|++++..|+++++...+++|||||||+. |++|.+.|||+.. ..
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 34556531 11223788899999999999998788899999999997 6889999999743 35
Q ss_pred ccCCCc--CCCCceEEEEccCC-----CCCccccccccCC-C---CHHHHHHHHHHHHHHHHHcCCcEEEEecCHHHHHH
Q 001656 463 VENPHV--ITSKQIWAGIVPVG-----PSGYLLNSSYRNR-D---SIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQ 531 (1036)
Q Consensus 463 le~p~v--~~~~qi~v~iv~~g-----p~~~~l~~~Y~~r-~---~~~y~~~l~~~I~~l~~~vpggvLVfFpSy~~l~~ 531 (1036)
+.+||. |..+.+..+++|.. |+... ..+... . .+.|.+.+++.|..++....||+||+|+||..|++
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 678888 54443223455632 22110 001111 0 15688899999999999999999999999999999
Q ss_pred HHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccCCccccccC--------C
Q 001656 532 CIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDF--------A 603 (1036)
Q Consensus 532 v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf--------~ 603 (1036)
+++.+..... -.+++++ +......++++|++.++. +.++||||+ ++||||||+ +
T Consensus 486 ~~~~l~~~l~-------------~~~l~qg-~~~~~~~l~~~f~~~~~~--~~~~vL~gt--~sfweGvDv~~~~~~p~~ 547 (636)
T TIGR03117 486 IGQLVELGIP-------------AEIVIQS-EKNRLASAEQQFLALYAN--GIQPVLIAA--GGAWTGIDLTHKPVSPDK 547 (636)
T ss_pred HHHHHHhhcC-------------CCEEEeC-CCccHHHHHHHHHHhhcC--CCCcEEEeC--CccccccccCCccCCCCC
Confidence 9998875321 2345554 333467899999986643 358999999 999999999 7
Q ss_pred CCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCCccccCCC--cEE
Q 001656 604 DHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHD--YGA 681 (1036)
Q Consensus 604 gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlIR~~~D--~G~ 681 (1036)
|+.|++|||++||||+ +||. ++.++++..++++|. ..|+|+++++|++|||||+++| +|+
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 7886 888888888776651 3699999999999999999999 999
Q ss_pred EEEEecCCCCchhhhHHHhhhhc
Q 001656 682 IIFCDERFAHPSRKSQISLWIQP 704 (1036)
Q Consensus 682 viLlD~Rf~~~~y~~~l~~wl~~ 704 (1036)
|+|||+| .++.|++.+-..++.
T Consensus 610 i~ilD~R-~~~~yg~~~~~~~~~ 631 (636)
T TIGR03117 610 IHMLDGR-IHWPYMESWQESVKT 631 (636)
T ss_pred EEEEeCC-CCchhHHHHHHHHHH
Confidence 9999999 788899888777653
No 11
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=100.00 E-value=4.9e-45 Score=405.64 Aligned_cols=261 Identities=33% Similarity=0.524 Sum_probs=204.4
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCC-
Q 001656 10 DVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQ- 88 (1036)
Q Consensus 10 ~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q- 88 (1036)
+|.|||+||++|++||+.|++++.+|+++++|||||||||++||+|+|+|+...+.... ...-...+.+... ..|
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~--~~kvi~~t~T~~~--~~q~ 77 (289)
T smart00489 2 LFYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQ--KIKLIYLSRTVSE--IEKR 77 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCccccc--ccceeEEeccHHH--HHHH
Confidence 68999999999999999999999999999999999999999999999999876543100 0000000000000 000
Q ss_pred ---CCCCCCCeEEEEcCCHHHHHHHHHHHHhcCCCCeEEEeCCcccccccHHHHhhhccc-c-hHHhHHHhhcc------
Q 001656 89 ---SGDSKLPTILYTSRTHSQLRQVIQELKTSNYRPKMVILGSREQLCIHREVSLLRGSA-Q-NNACRFLCKKG------ 157 (1036)
Q Consensus 89 ---~~~~~~pkIiy~TRThsQl~Qvv~ELrkl~~~~k~~vLgSR~~lCin~~v~~l~~~~-~-~~~C~~L~k~~------ 157 (1036)
......++|+|++|||+|++|+++||++.++.+++++|+||+++|+|+.+..+.... . ++.|..+.+..
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 001123568999999999999999999888889999999998899999987644322 2 36798765411
Q ss_pred ---CCCcCcccccHHHHhhhCCCCCCCCCChhhHhhhccCCCCchhHHHHhhhcCccEEEeccccccCHhhhhccCCCCC
Q 001656 158 ---TNRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWK 234 (1036)
Q Consensus 158 ---~~~~C~~~~~l~~~~~~~~~~~~~~~dIedlv~~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir~~l~i~~~ 234 (1036)
....|+|+.+...... ...+..+++|+||++..|+.++.||||.+|+.+..|||||+||+|||++.+|+.+++.++
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 1246888876433111 112335678999999999999999999999999999999999999999999877787778
Q ss_pred CcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhhh
Q 001656 235 NSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCID 275 (1036)
Q Consensus 235 ~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~~ 275 (1036)
+.+|||||||||+++|++++|.+|+..+|..++.++.++..
T Consensus 237 ~~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~ 277 (289)
T smart00489 237 DSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFE 277 (289)
T ss_pred ccEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999887654
No 12
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=100.00 E-value=4.9e-45 Score=405.64 Aligned_cols=261 Identities=33% Similarity=0.524 Sum_probs=204.4
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCC-
Q 001656 10 DVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQ- 88 (1036)
Q Consensus 10 ~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q- 88 (1036)
+|.|||+||++|++||+.|++++.+|+++++|||||||||++||+|+|+|+...+.... ...-...+.+... ..|
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~--~~kvi~~t~T~~~--~~q~ 77 (289)
T smart00488 2 LFYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQ--KIKLIYLSRTVSE--IEKR 77 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCccccc--ccceeEEeccHHH--HHHH
Confidence 68999999999999999999999999999999999999999999999999876543100 0000000000000 000
Q ss_pred ---CCCCCCCeEEEEcCCHHHHHHHHHHHHhcCCCCeEEEeCCcccccccHHHHhhhccc-c-hHHhHHHhhcc------
Q 001656 89 ---SGDSKLPTILYTSRTHSQLRQVIQELKTSNYRPKMVILGSREQLCIHREVSLLRGSA-Q-NNACRFLCKKG------ 157 (1036)
Q Consensus 89 ---~~~~~~pkIiy~TRThsQl~Qvv~ELrkl~~~~k~~vLgSR~~lCin~~v~~l~~~~-~-~~~C~~L~k~~------ 157 (1036)
......++|+|++|||+|++|+++||++.++.+++++|+||+++|+|+.+..+.... . ++.|..+.+..
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 001123568999999999999999999888889999999998899999987644322 2 36798765411
Q ss_pred ---CCCcCcccccHHHHhhhCCCCCCCCCChhhHhhhccCCCCchhHHHHhhhcCccEEEeccccccCHhhhhccCCCCC
Q 001656 158 ---TNRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWK 234 (1036)
Q Consensus 158 ---~~~~C~~~~~l~~~~~~~~~~~~~~~dIedlv~~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir~~l~i~~~ 234 (1036)
....|+|+.+...... ...+..+++|+||++..|+.++.||||.+|+.+..|||||+||+|||++.+|+.+++.++
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 1246888876433111 112335678999999999999999999999999999999999999999999877787778
Q ss_pred CcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhhh
Q 001656 235 NSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCID 275 (1036)
Q Consensus 235 ~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~~ 275 (1036)
+.+|||||||||+++|++++|.+|+..+|..++.++.++..
T Consensus 237 ~~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~ 277 (289)
T smart00488 237 DSIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFE 277 (289)
T ss_pred ccEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999887654
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=9.2e-39 Score=328.29 Aligned_cols=167 Identities=38% Similarity=0.646 Sum_probs=131.9
Q ss_pred HHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeE
Q 001656 508 IVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAV 587 (1036)
Q Consensus 508 I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaV 587 (1036)
|.++++.+|||+|||||||..|+.+.+.|++... .....++.| +..+...++++|++ ++++|
T Consensus 1 i~~l~~~~~g~~lv~f~Sy~~l~~~~~~~~~~~~----------~~~~~v~~q--~~~~~~~~l~~~~~------~~~~i 62 (167)
T PF13307_consen 1 ILELISAVPGGVLVFFPSYRRLEKVYERLKERLE----------EKGIPVFVQ--GSKSRDELLEEFKR------GEGAI 62 (167)
T ss_dssp HHHHHHCCSSEEEEEESSHHHHHHHHTT-TSS-E-----------ETSCEEES--TCCHHHHHHHHHCC------SSSEE
T ss_pred ChHHHhcCCCCEEEEeCCHHHHHHHHHHHHhhcc----------cccceeeec--CcchHHHHHHHHHh------ccCeE
Confidence 5788999999999999999999999999987532 122356666 35578899999985 57999
Q ss_pred EEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHH
Q 001656 588 FFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQ 667 (1036)
Q Consensus 588 LfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~Q 667 (1036)
||||+||+|||||||+|+.||+|||+|||||+|+||.+++|++|+++.+.+. +..||.++|+++++|
T Consensus 63 l~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~-------------~~~~~~~~a~~~l~Q 129 (167)
T PF13307_consen 63 LLAVAGGSFSEGIDFPGDLLRAVIIVGLPFPPPSDPLVQAKREYLDKQGKNP-------------FRDWYLPPAIRKLKQ 129 (167)
T ss_dssp EEEETTSCCGSSS--ECESEEEEEEES-----TTCHHHHHHHHHHHHCCTTC-------------HHHHTHHHHHHHHHH
T ss_pred EEEEecccEEEeecCCCchhheeeecCCCCCCCCCHHHHHHHHHHHHHhccc-------------hhhHhhHHHHHHHhh
Confidence 9999999999999999999999999999999999999999999999876543 368999999999999
Q ss_pred hhCCccccCCCcEEEEEEecCCCCchhhhHHHhhhhcc
Q 001656 668 AVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPH 705 (1036)
Q Consensus 668 aiGRlIR~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~ 705 (1036)
|+||+|||++|||+|+|+|+||.++.|++.||+|++++
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 99999999999999999999999999999999999864
No 14
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=99.98 E-value=4e-32 Score=271.30 Aligned_cols=141 Identities=40% Similarity=0.688 Sum_probs=123.4
Q ss_pred HHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCC
Q 001656 526 YYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADH 605 (1036)
Q Consensus 526 y~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd 605 (1036)
|..|+++++.|++.. +| ...+.+|+|+++..+...++++|++.... .|+|||||+||+|||||||+|+
T Consensus 1 y~~m~~v~~~~~~~~------~~---~~~~~i~~e~~~~~~~~~~l~~f~~~~~~---~g~iL~~v~~G~~~EGiD~~g~ 68 (142)
T smart00491 1 YRYLEQVVEYWKENG------IL---EINKPVFIEGKDSGETEELLEKYSAACEA---RGALLLAVARGKVSEGIDFPDD 68 (142)
T ss_pred ChHHHHHHHHHHhcC------cc---ccCceEEEECCCCchHHHHHHHHHHhcCC---CCEEEEEEeCCeeecceecCCC
Confidence 789999999998753 22 23577899998877778999999975432 3799999999999999999999
Q ss_pred CceEEEEeCCCCCCCCCHHHHHHHHHHHHHc-cCCCCccchhhcccCCcccchHHHHHHHHHHhhCCccccCCCcEEEEE
Q 001656 606 AGRAVVITGMPFATMTDPKVRLKREYLDLQA-QSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIF 684 (1036)
Q Consensus 606 ~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~-~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlIR~~~D~G~viL 684 (1036)
.||+|||+|||||+|+||.++++.+|++..+ .++| ..||.++|+++++||+||+|||++|||+|+|
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 9999999999999999999999999999876 3322 5799999999999999999999999999999
Q ss_pred EecCCCC
Q 001656 685 CDERFAH 691 (1036)
Q Consensus 685 lD~Rf~~ 691 (1036)
+|+||..
T Consensus 136 ~D~R~~~ 142 (142)
T smart00491 136 LDKRYAR 142 (142)
T ss_pred EeccccC
Confidence 9999863
No 15
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=99.97 E-value=4e-32 Score=280.85 Aligned_cols=165 Identities=47% Similarity=0.733 Sum_probs=125.0
Q ss_pred EEcCCHHHHHHHHHHHHhcC-C-----CCeEEEeCCcccccccHHHHhhhc-ccchHHhHHHhhccC-CCcCcccccHHH
Q 001656 99 YTSRTHSQLRQVIQELKTSN-Y-----RPKMVILGSREQLCIHREVSLLRG-SAQNNACRFLCKKGT-NRRCNHHSRVAD 170 (1036)
Q Consensus 99 y~TRThsQl~Qvv~ELrkl~-~-----~~k~~vLgSR~~lCin~~v~~l~~-~~~~~~C~~L~k~~~-~~~C~~~~~l~~ 170 (1036)
||||||+|++|+++||+++. + .+++++|+||+.||+++.+..... ...++.|..+.+... ...|+|+.+..+
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 89999999999999999984 2 468999999999999999876532 334678988776211 127999976522
Q ss_pred HhhhCCCCCCCCCChhhHhhhccCCCCchhHHHHhhhcCccEEEeccccccCHhhhhccC-CCCCCcEEEEeCccChHHH
Q 001656 171 YMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLG-VEWKNSILIFDEAHNLEGI 249 (1036)
Q Consensus 171 ~~~~~~~~~~~~~dIedlv~~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir~~l~-i~~~~~IlIfDEAHNLed~ 249 (1036)
...........++|++++++.|+..+.||||.+|+.+..|||||+||+|||++.+++.+. +++++.+|||||||||+++
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 110011233466799999999999999999999999999999999999999999997775 8899999999999999999
Q ss_pred HHhhcccccCHHHH
Q 001656 250 CADAASFDLSSGLL 263 (1036)
Q Consensus 250 ~~~a~S~~ls~~~L 263 (1036)
|++++|++|+..+|
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 16
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=99.97 E-value=4.3e-30 Score=256.26 Aligned_cols=139 Identities=32% Similarity=0.503 Sum_probs=123.3
Q ss_pred HHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCC
Q 001656 526 YYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADH 605 (1036)
Q Consensus 526 y~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd 605 (1036)
|..|+++++.|++. +.|.+|++++.+|+|+.++.+...++++|++. ..++|||||++ |||||||+|+
T Consensus 1 y~~m~~v~~~~~~~------~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~-----~~~~iL~~~~~--~~EGiD~~g~ 67 (141)
T smart00492 1 YQYMESFVQYWKEN------GILENINKNLLLLVQGEDGKETGKLLEKYVEA-----CENAILLATAR--FSEGVDFPGD 67 (141)
T ss_pred CHHHHHHHHHHHHc------CchhhHhcCCeEEEeCCChhHHHHHHHHHHHc-----CCCEEEEEccc--eecceecCCC
Confidence 68999999999875 56889999999999998877789999999972 22499999954 9999999999
Q ss_pred CceEEEEeCCCCCCCCCHHHHHHHHHHHHHc-cCCCCccchhhcccCCcccchHHHHHHHHHHhhCCccccCCCcEEEEE
Q 001656 606 AGRAVVITGMPFATMTDPKVRLKREYLDLQA-QSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIF 684 (1036)
Q Consensus 606 ~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~-~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlIR~~~D~G~viL 684 (1036)
.||+|||+|||||+|+||.+++|.+|++..+ .++| ..|+.++|+++++||+||+|||++|||+|+|
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 9999999999999999999999999998875 3332 3567899999999999999999999999999
Q ss_pred EecCCC
Q 001656 685 CDERFA 690 (1036)
Q Consensus 685 lD~Rf~ 690 (1036)
+|+||.
T Consensus 135 ~D~R~~ 140 (141)
T smart00492 135 ADKRFA 140 (141)
T ss_pred Eecccc
Confidence 999986
No 17
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.56 E-value=2.6e-12 Score=151.65 Aligned_cols=77 Identities=23% Similarity=0.239 Sum_probs=59.7
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 13 FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
+.|. |++.|.+.+..+. +|+++++.||||+|||+||++|+|.+...... ..
T Consensus 19 ~g~~~p~~iQ~~ai~~~~----~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~------------------------~~ 70 (434)
T PRK11192 19 KGYTRPTAIQAEAIPPAL----DGRDVLGSAPTGTGKTAAFLLPALQHLLDFPR------------------------RK 70 (434)
T ss_pred CCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhhccc------------------------cC
Confidence 4565 8899999766654 67899999999999999999999987643211 01
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
...++++|.+.|..+..|+.+.++.+
T Consensus 71 ~~~~~~lil~Pt~eLa~Q~~~~~~~l 96 (434)
T PRK11192 71 SGPPRILILTPTRELAMQVADQAREL 96 (434)
T ss_pred CCCceEEEECCcHHHHHHHHHHHHHH
Confidence 12468999999999999998877654
No 18
>PTZ00110 helicase; Provisional
Probab=99.53 E-value=1e-11 Score=150.44 Aligned_cols=78 Identities=17% Similarity=0.104 Sum_probs=59.5
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 13 FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
..|+ |++.|.+.+. .+..|+.+|+.||||+|||+|||+|+|........ ...
T Consensus 148 ~g~~~pt~iQ~~aip----~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~-----------------------~~~ 200 (545)
T PTZ00110 148 AGFTEPTPIQVQGWP----IALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPL-----------------------LRY 200 (545)
T ss_pred CCCCCCCHHHHHHHH----HHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhccc-----------------------ccC
Confidence 3465 8899988654 45578999999999999999999999876542111 001
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
.+.|.+++.+.|..+..|+.+++++.
T Consensus 201 ~~gp~~LIL~PTreLa~Qi~~~~~~~ 226 (545)
T PTZ00110 201 GDGPIVLVLAPTRELAEQIREQCNKF 226 (545)
T ss_pred CCCcEEEEECChHHHHHHHHHHHHHH
Confidence 23578999999999999999888764
No 19
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.52 E-value=4.1e-12 Score=154.63 Aligned_cols=81 Identities=20% Similarity=0.150 Sum_probs=60.4
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCC
Q 001656 12 EFPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (1036)
Q Consensus 12 ~FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~ 90 (1036)
.+.|+ |++.|.+.+.. +-+|+++++.||||||||++||+|++......... ...
T Consensus 26 ~~g~~~ptpiQ~~~ip~----~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~---------------------~~~ 80 (572)
T PRK04537 26 SAGFTRCTPIQALTLPV----ALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPAL---------------------ADR 80 (572)
T ss_pred HCCCCCCCHHHHHHHHH----HhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccc---------------------ccc
Confidence 35665 89999997654 45789999999999999999999998644321100 000
Q ss_pred CCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 91 DSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 91 ~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
....++++|.+.|+.+..|+.++++++
T Consensus 81 ~~~~~raLIl~PTreLa~Qi~~~~~~l 107 (572)
T PRK04537 81 KPEDPRALILAPTRELAIQIHKDAVKF 107 (572)
T ss_pred ccCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 113478999999999999999888764
No 20
>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=99.51 E-value=7.7e-12 Score=149.25 Aligned_cols=108 Identities=18% Similarity=0.113 Sum_probs=76.5
Q ss_pred HcCCc-EEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCC-CCCChHHHHHHHHHHhccCCCCCeEEEEE
Q 001656 514 IVPDG-LLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAV 591 (1036)
Q Consensus 514 ~vpgg-vLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~-~~~~~~~~i~~f~~~i~~~~~~gaVLfaV 591 (1036)
..++. +|||++|....+.++..++.... ....+... ...+...+++.|+. ++-.||+|+
T Consensus 223 ~~~~~~~IIF~~s~~~~e~la~~L~~~g~-------------~~~~~H~~l~~~eR~~i~~~F~~------g~~~vLVaT 283 (470)
T TIGR00614 223 EFKGKSGIIYCPSRKKSEQVTASLQNLGI-------------AAGAYHAGLEISARDDVHHKFQR------DEIQVVVAT 283 (470)
T ss_pred hcCCCceEEEECcHHHHHHHHHHHHhcCC-------------CeeEeeCCCCHHHHHHHHHHHHc------CCCcEEEEe
Confidence 34554 49999999999999998875422 11222222 22345567778874 467789888
Q ss_pred ccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCC
Q 001656 592 CRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGR 671 (1036)
Q Consensus 592 ~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGR 671 (1036)
..|.+|||+++ .+.||..++|.. + ....|.+||
T Consensus 284 --~~~~~GID~p~--V~~VI~~~~P~s----~---------------------------------------~~y~Qr~GR 316 (470)
T TIGR00614 284 --VAFGMGINKPD--VRFVIHYSLPKS----M---------------------------------------ESYYQESGR 316 (470)
T ss_pred --chhhccCCccc--ceEEEEeCCCCC----H---------------------------------------HHHHhhhcC
Confidence 79999999998 789999998862 1 122388999
Q ss_pred ccccCCCcEEEEEEec
Q 001656 672 VIRHRHDYGAIIFCDE 687 (1036)
Q Consensus 672 lIR~~~D~G~viLlD~ 687 (1036)
.=|...+--++++.++
T Consensus 317 aGR~G~~~~~~~~~~~ 332 (470)
T TIGR00614 317 AGRDGLPSECHLFYAP 332 (470)
T ss_pred cCCCCCCceEEEEech
Confidence 9998877666666654
No 21
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.51 E-value=8.9e-12 Score=148.95 Aligned_cols=80 Identities=18% Similarity=0.123 Sum_probs=59.4
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 13 FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
+.|. +++.|.+.+. .+.+|+++|+-||||||||+||++|+|.-....... +...
T Consensus 105 ~g~~~~~~iQ~~ai~----~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~---------------------~~~~ 159 (475)
T PRK01297 105 LGFPYCTPIQAQVLG----YTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPP---------------------KERY 159 (475)
T ss_pred CCCCCCCHHHHHHHH----HHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcc---------------------cccc
Confidence 5665 7999998655 556789999999999999999999998654322110 0001
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
...++++|.+.|..+..|+.++++.+
T Consensus 160 ~~~~~aLil~PtreLa~Q~~~~~~~l 185 (475)
T PRK01297 160 MGEPRALIIAPTRELVVQIAKDAAAL 185 (475)
T ss_pred cCCceEEEEeCcHHHHHHHHHHHHHh
Confidence 12478999999999999998887754
No 22
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.51 E-value=6e-12 Score=149.76 Aligned_cols=80 Identities=13% Similarity=0.138 Sum_probs=59.8
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEcc
Q 001656 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVCR 593 (1036)
Q Consensus 515 vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~-~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~r 593 (1036)
.++.+|||+++....+.++..+...... ...+..+ ...+...+++.|+. ++-.||+|+
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 4568999999999999999988764321 1222222 22345677888875 466789888
Q ss_pred CCccccccCCCCCceEEEEeCCCC
Q 001656 594 GKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 594 Gk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
.-+++|||+++ ++.||..++|.
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 23
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.49 E-value=1.3e-11 Score=146.75 Aligned_cols=79 Identities=16% Similarity=0.111 Sum_probs=59.4
Q ss_pred CCC-CCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 13 FPF-EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 13 FPf-epy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
+.| +|++.|.+.+..+ .+++++|+.||||||||++|++|+|......... ...
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 445 4899999976654 4689999999999999999999998765432110 001
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
...++++|.+.|..+..|+.++++..
T Consensus 73 ~~~~~aLil~PtreLa~Qi~~~~~~~ 98 (456)
T PRK10590 73 RRPVRALILTPTRELAAQIGENVRDY 98 (456)
T ss_pred CCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 12358999999999999999988764
No 24
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.48 E-value=2.1e-11 Score=147.06 Aligned_cols=80 Identities=19% Similarity=0.199 Sum_probs=60.0
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 13 FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
..|. |++.|.+.+..+ ..|+++++.||||+|||++||+|+|......... ....
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 899999976654 4789999999999999999999999765432110 0001
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
...|+++|.+.|..+..|+.++++.+
T Consensus 194 ~~~~~aLIL~PTreLa~Qi~~~~~~l 219 (518)
T PLN00206 194 QRNPLAMVLTPTRELCVQVEDQAKVL 219 (518)
T ss_pred cCCceEEEEeCCHHHHHHHHHHHHHH
Confidence 24578999999999999988877654
No 25
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.47 E-value=2.4e-11 Score=143.15 Aligned_cols=87 Identities=13% Similarity=0.142 Sum_probs=62.7
Q ss_pred HHHHHHH-cCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCC-CCChHHHHHHHHHHhccCCCCC
Q 001656 508 IVNIARI-VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIEDYMAKLKDTSTSG 585 (1036)
Q Consensus 508 I~~l~~~-vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~-~~~~~~~i~~f~~~i~~~~~~g 585 (1036)
|..++.. .++.+|||+++....+.+...+..... +..++.+.- ..+...+++.|+. ++-
T Consensus 246 l~~ll~~~~~~~~lVF~~t~~~~~~l~~~L~~~g~-------------~v~~lhg~~~~~~R~~~l~~F~~------g~~ 306 (423)
T PRK04837 246 LQTLIEEEWPDRAIIFANTKHRCEEIWGHLAADGH-------------RVGLLTGDVAQKKRLRILEEFTR------GDL 306 (423)
T ss_pred HHHHHHhcCCCeEEEEECCHHHHHHHHHHHHhCCC-------------cEEEecCCCChhHHHHHHHHHHc------CCC
Confidence 3344433 467899999999999999888875421 112233221 2345678888875 567
Q ss_pred eEEEEEccCCccccccCCCCCceEEEEeCCCC
Q 001656 586 AVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 586 aVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
.||+|+ .-+++|||+++ ++.||..++|.
T Consensus 307 ~vLVaT--dv~~rGiDip~--v~~VI~~d~P~ 334 (423)
T PRK04837 307 DILVAT--DVAARGLHIPA--VTHVFNYDLPD 334 (423)
T ss_pred cEEEEe--chhhcCCCccc--cCEEEEeCCCC
Confidence 899988 89999999998 78999999886
No 26
>PTZ00424 helicase 45; Provisional
Probab=99.45 E-value=4.2e-11 Score=139.73 Aligned_cols=74 Identities=18% Similarity=0.157 Sum_probs=58.0
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCC
Q 001656 12 EFPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (1036)
Q Consensus 12 ~FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~ 90 (1036)
.|.|+ |++.|.+.+.. +.+++++++.||||+|||++|++|++.+.....
T Consensus 45 ~~~~~~~~~~Q~~ai~~----i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~-------------------------- 94 (401)
T PTZ00424 45 SYGFEKPSAIQQRGIKP----ILDGYDTIGQAQSGTGKTATFVIAALQLIDYDL-------------------------- 94 (401)
T ss_pred HcCCCCCCHHHHHHHHH----HhCCCCEEEECCCCChHHHHHHHHHHHHhcCCC--------------------------
Confidence 45675 89999986555 457889999999999999999999987653211
Q ss_pred CCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 91 DSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 91 ~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..++++|.+.|..+..|+.+.++..
T Consensus 95 --~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 95 --NACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred --CCceEEEECCCHHHHHHHHHHHHHH
Confidence 2358999999999999987766553
No 27
>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=99.43 E-value=4.7e-11 Score=146.45 Aligned_cols=79 Identities=15% Similarity=0.138 Sum_probs=57.4
Q ss_pred CCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEccC
Q 001656 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (1036)
Q Consensus 516 pggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~-~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rG 594 (1036)
.+.++||++|....+.+++.+..... ....+..+ ...+...+++.|.. +.-.||+|+ .
T Consensus 224 ~~~~IIf~~sr~~~e~la~~L~~~g~-------------~~~~~H~~l~~~~R~~i~~~F~~------g~~~vlVaT--~ 282 (591)
T TIGR01389 224 GQSGIIYASSRKKVEELAERLESQGI-------------SALAYHAGLSNKVRAENQEDFLY------DDVKVMVAT--N 282 (591)
T ss_pred CCCEEEEECcHHHHHHHHHHHHhCCC-------------CEEEEECCCCHHHHHHHHHHHHc------CCCcEEEEe--c
Confidence 45789999999999999988875421 11223322 22345566778864 456788888 7
Q ss_pred CccccccCCCCCceEEEEeCCCC
Q 001656 595 KVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 595 k~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
.|.+|||+++ .|.||..++|.
T Consensus 283 a~~~GID~p~--v~~VI~~~~p~ 303 (591)
T TIGR01389 283 AFGMGIDKPN--VRFVIHYDMPG 303 (591)
T ss_pred hhhccCcCCC--CCEEEEcCCCC
Confidence 9999999998 78999999875
No 28
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.42 E-value=9.2e-11 Score=143.98 Aligned_cols=73 Identities=25% Similarity=0.208 Sum_probs=58.0
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 13 FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
+.|+ |++.|.+.+.. +.+++.+|+.||||||||+||++|++......
T Consensus 24 ~G~~~ptpiQ~~ai~~----ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~---------------------------- 71 (629)
T PRK11634 24 LGYEKPSPIQAECIPH----LLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPE---------------------------- 71 (629)
T ss_pred CCCCCCCHHHHHHHHH----HHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhc----------------------------
Confidence 5665 89999986544 45689999999999999999999988644321
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
...|+++|.+.|..+..|+.++++++
T Consensus 72 ~~~~~~LIL~PTreLa~Qv~~~l~~~ 97 (629)
T PRK11634 72 LKAPQILVLAPTRELAVQVAEAMTDF 97 (629)
T ss_pred cCCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 13378999999999999998887653
No 29
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.42 E-value=7.2e-11 Score=145.02 Aligned_cols=107 Identities=16% Similarity=0.134 Sum_probs=76.0
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCC-CCCChHHHHHHHHHHhccCCCCCeEEEEEcc
Q 001656 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAVFFAVCR 593 (1036)
Q Consensus 515 vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~-~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~r 593 (1036)
.++.++||++|....+.++..++.... +...+..+ ...+...+++.|+. ++-.||+|+
T Consensus 235 ~~~~~IIFc~tr~~~e~la~~L~~~g~-------------~v~~~Ha~l~~~~R~~i~~~F~~------g~~~VLVaT-- 293 (607)
T PRK11057 235 RGKSGIIYCNSRAKVEDTAARLQSRGI-------------SAAAYHAGLDNDVRADVQEAFQR------DDLQIVVAT-- 293 (607)
T ss_pred CCCCEEEEECcHHHHHHHHHHHHhCCC-------------CEEEecCCCCHHHHHHHHHHHHC------CCCCEEEEe--
Confidence 345899999999999999998876422 11222222 12345567788874 456789888
Q ss_pred CCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCCcc
Q 001656 594 GKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVI 673 (1036)
Q Consensus 594 Gk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlI 673 (1036)
..+.+|||+++ .+.||..++|.. . ....|.+||.=
T Consensus 294 ~a~~~GIDip~--V~~VI~~d~P~s----~---------------------------------------~~y~Qr~GRaG 328 (607)
T PRK11057 294 VAFGMGINKPN--VRFVVHFDIPRN----I---------------------------------------ESYYQETGRAG 328 (607)
T ss_pred chhhccCCCCC--cCEEEEeCCCCC----H---------------------------------------HHHHHHhhhcc
Confidence 79999999998 789999998762 1 11238899999
Q ss_pred ccCCCcEEEEEEec
Q 001656 674 RHRHDYGAIIFCDE 687 (1036)
Q Consensus 674 R~~~D~G~viLlD~ 687 (1036)
|...+--+++++|+
T Consensus 329 R~G~~~~~ill~~~ 342 (607)
T PRK11057 329 RDGLPAEAMLFYDP 342 (607)
T ss_pred CCCCCceEEEEeCH
Confidence 97766556777765
No 30
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.41 E-value=1e-10 Score=148.75 Aligned_cols=74 Identities=24% Similarity=0.211 Sum_probs=56.5
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCC
Q 001656 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLP 95 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~p 95 (1036)
.|++.|.+.+..+ .+|+++++.||||+|||+|+++|+|......... ....+.+
T Consensus 32 ~~tpiQ~~Ai~~i----l~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~----------------------~~~~~~~ 85 (876)
T PRK13767 32 TFTPPQRYAIPLI----HEGKNVLISSPTGSGKTLAAFLAIIDELFRLGRE----------------------GELEDKV 85 (876)
T ss_pred CCCHHHHHHHHHH----HcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccc----------------------cCCCCCe
Confidence 4899999976654 5789999999999999999999998754432110 0001346
Q ss_pred eEEEEcCCHHHHHHHHHHHH
Q 001656 96 TILYTSRTHSQLRQVIQELK 115 (1036)
Q Consensus 96 kIiy~TRThsQl~Qvv~ELr 115 (1036)
+++|.+.|.++..|+.+.|+
T Consensus 86 ~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 86 YCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred EEEEEcCHHHHHHHHHHHHH
Confidence 89999999999999887665
No 31
>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=99.39 E-value=1.9e-10 Score=143.81 Aligned_cols=72 Identities=15% Similarity=0.143 Sum_probs=58.9
Q ss_pred CCC-CCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 13 FPF-EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 13 FPf-epy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
..| +||+.|.+.+. ++.+|+++++.||||||||+||++|+|......
T Consensus 32 ~g~~~p~~~Q~~ai~----~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~---------------------------- 79 (742)
T TIGR03817 32 AGIHRPWQHQARAAE----LAHAGRHVVVATGTASGKSLAYQLPVLSALADD---------------------------- 79 (742)
T ss_pred cCCCcCCHHHHHHHH----HHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhC----------------------------
Confidence 345 48999988554 556899999999999999999999999755431
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..++++|.+.|..+..|..++++++
T Consensus 80 -~~~~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 80 -PRATALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred -CCcEEEEEcChHHHHHHHHHHHHHh
Confidence 1268999999999999999988864
No 32
>PRK01172 ski2-like helicase; Provisional
Probab=99.30 E-value=3.6e-10 Score=140.79 Aligned_cols=69 Identities=28% Similarity=0.286 Sum_probs=56.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
.+|++|+.|.+.+.. +.+++++++.||||+|||++++.+.+.....
T Consensus 19 ~~~~l~~~Q~~ai~~----l~~~~nvlv~apTGSGKTl~a~lail~~l~~------------------------------ 64 (674)
T PRK01172 19 NDFELYDHQRMAIEQ----LRKGENVIVSVPTAAGKTLIAYSAIYETFLA------------------------------ 64 (674)
T ss_pred CCCCCCHHHHHHHHH----HhcCCcEEEECCCCchHHHHHHHHHHHHHHh------------------------------
Confidence 578899999997765 5778999999999999999999887643221
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
..+++|.+.|.++..|..+++++
T Consensus 65 -~~k~v~i~P~raLa~q~~~~~~~ 87 (674)
T PRK01172 65 -GLKSIYIVPLRSLAMEKYEELSR 87 (674)
T ss_pred -CCcEEEEechHHHHHHHHHHHHH
Confidence 14789999999999999988765
No 33
>PRK02362 ski2-like helicase; Provisional
Probab=99.29 E-value=6.3e-10 Score=139.87 Aligned_cols=68 Identities=26% Similarity=0.200 Sum_probs=56.4
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCC
Q 001656 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLP 95 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~p 95 (1036)
++||.|.+.+.. .+.+|+++++-||||+|||++++.|.+..... ..
T Consensus 23 ~l~p~Q~~ai~~---~~~~g~nvlv~APTGSGKTlia~lail~~l~~-------------------------------~~ 68 (737)
T PRK02362 23 ELYPPQAEAVEA---GLLDGKNLLAAIPTASGKTLIAELAMLKAIAR-------------------------------GG 68 (737)
T ss_pred cCCHHHHHHHHH---HHhCCCcEEEECCCcchHHHHHHHHHHHHHhc-------------------------------CC
Confidence 489999997754 36678999999999999999999998754321 14
Q ss_pred eEEEEcCCHHHHHHHHHHHHhc
Q 001656 96 TILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 96 kIiy~TRThsQl~Qvv~ELrkl 117 (1036)
+++|.+.|.++..|..+++++.
T Consensus 69 kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 69 KALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred cEEEEeChHHHHHHHHHHHHHh
Confidence 7999999999999999988753
No 34
>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=99.27 E-value=3.5e-09 Score=134.31 Aligned_cols=77 Identities=21% Similarity=0.214 Sum_probs=66.1
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCC
Q 001656 10 DVEFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSS 87 (1036)
Q Consensus 10 ~v~FPfepy~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (1036)
.-.|||+|.+.|.+.+..|.+.+..+ .+.++.||||+|||.+++.|++.....
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 34699999999999999999999876 478999999999999999998754321
Q ss_pred CCCCCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 88 QSGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 88 q~~~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
.++++|.+.|..+..|..+.+++.
T Consensus 500 ------g~qvlvLvPT~~LA~Q~~~~f~~~ 523 (926)
T TIGR00580 500 ------GKQVAVLVPTTLLAQQHFETFKER 523 (926)
T ss_pred ------CCeEEEEeCcHHHHHHHHHHHHHH
Confidence 157999999999999999988763
No 35
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.22 E-value=4.9e-09 Score=132.00 Aligned_cols=79 Identities=13% Similarity=0.120 Sum_probs=58.3
Q ss_pred CCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCC-CCChHHHHHHHHHHhccCCCCCeEEEEEccC
Q 001656 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (1036)
Q Consensus 516 pggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~-~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rG 594 (1036)
.+..+||+.|....+.++..+..... +..++...- ..+...+++.|+. ++-.||+|+ .
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 34679999999999999988876432 223333322 2345566777774 456788887 7
Q ss_pred CccccccCCCCCceEEEEeCCCC
Q 001656 595 KVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 595 k~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
.|..|||+++ .|.||-.++|.
T Consensus 739 AFGMGIDkPD--VR~VIHydlPk 759 (1195)
T PLN03137 739 AFGMGINKPD--VRFVIHHSLPK 759 (1195)
T ss_pred hhhcCCCccC--CcEEEEcCCCC
Confidence 9999999999 78999999987
No 36
>PRK09401 reverse gyrase; Reviewed
Probab=99.20 E-value=4.2e-09 Score=136.55 Aligned_cols=86 Identities=21% Similarity=0.331 Sum_probs=60.7
Q ss_pred HHHHHHHcCCcEEEEecCHHH---HHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCC
Q 001656 508 IVNIARIVPDGLLIFFPSYYL---MDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTS 584 (1036)
Q Consensus 508 I~~l~~~vpggvLVfFpSy~~---l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~ 584 (1036)
+..++...++|+|||+++-.. .+.+.+.++..+. +...+... ....+++|++ ++
T Consensus 320 L~~ll~~l~~~~LIFv~t~~~~~~ae~l~~~L~~~gi-------------~v~~~hg~----l~~~l~~F~~------G~ 376 (1176)
T PRK09401 320 LVELVKRLGDGGLIFVPSDKGKEYAEELAEYLEDLGI-------------NAELAISG----FERKFEKFEE------GE 376 (1176)
T ss_pred HHHHHHhcCCCEEEEEecccChHHHHHHHHHHHHCCC-------------cEEEEeCc----HHHHHHHHHC------CC
Confidence 344555556799999998555 8888888876432 11122222 1445688875 56
Q ss_pred CeEEEEEc--cCCccccccCCCCCceEEEEeCCCC
Q 001656 585 GAVFFAVC--RGKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 585 gaVLfaV~--rGk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
--||+|+. .|-++.|||+++ ..|.||-+|+|-
T Consensus 377 ~~VLVatas~tdv~aRGIDiP~-~IryVI~y~vP~ 410 (1176)
T PRK09401 377 VDVLVGVASYYGVLVRGIDLPE-RIRYAIFYGVPK 410 (1176)
T ss_pred CCEEEEecCCCCceeecCCCCc-ceeEEEEeCCCC
Confidence 77999963 578899999998 569999999997
No 37
>PRK00254 ski2-like helicase; Provisional
Probab=99.14 E-value=1.1e-08 Score=128.42 Aligned_cols=71 Identities=20% Similarity=0.139 Sum_probs=56.7
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 13 FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
..|+ +|+.|.+.+.. .+.+|+++++-||||+|||+++++|++......
T Consensus 19 ~g~~~l~~~Q~~ai~~---~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~---------------------------- 67 (720)
T PRK00254 19 RGIEELYPPQAEALKS---GVLEGKNLVLAIPTASGKTLVAEIVMVNKLLRE---------------------------- 67 (720)
T ss_pred CCCCCCCHHHHHHHHH---HHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhc----------------------------
Confidence 4554 89999986653 467889999999999999999999987543321
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
..+++|.+.|.++..|..+++++
T Consensus 68 --~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 68 --GGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred --CCeEEEEeChHHHHHHHHHHHHH
Confidence 24899999999999999987764
No 38
>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=99.13 E-value=1.5e-08 Score=116.74 Aligned_cols=51 Identities=27% Similarity=0.303 Sum_probs=42.1
Q ss_pred eEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 38 ALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 38 ~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
+++.||||+|||++++.+++.-.... ...+|+|...|.+...|..+.++..
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 68999999999999999988543221 2358999999999999999988764
No 39
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.10 E-value=2.1e-08 Score=120.79 Aligned_cols=118 Identities=16% Similarity=0.115 Sum_probs=76.0
Q ss_pred HHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhccCC
Q 001656 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTS 582 (1036)
Q Consensus 504 l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~~~ 582 (1036)
+.+.+..+. ...+.+||||.+-+..+.+.+.+++... +..++.++.+ .+...+++.|+.
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 333343433 3467999999999999999888875421 2234444433 223344455442
Q ss_pred CCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHH
Q 001656 583 TSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQAS 662 (1036)
Q Consensus 583 ~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~ 662 (1036)
++..||+|.+ +-++||+|+++ +.+||+...|- . .
T Consensus 393 ~~~~vLvaT~-~~l~eG~Dip~--ld~vIl~~p~~----s---------------------------------------~ 426 (501)
T PHA02558 393 GKGIIIVASY-GVFSTGISIKN--LHHVIFAHPSK----S---------------------------------------K 426 (501)
T ss_pred CCCeEEEEEc-ceecccccccc--ccEEEEecCCc----c---------------------------------------h
Confidence 3456777752 69999999998 77888664221 1 1
Q ss_pred HHHHHhhCCccccCCCcEEEEEEec
Q 001656 663 RAVNQAVGRVIRHRHDYGAIIFCDE 687 (1036)
Q Consensus 663 r~v~QaiGRlIR~~~D~G~viLlD~ 687 (1036)
..+.|.+||+.|-..+...++++|-
T Consensus 427 ~~~~QriGR~~R~~~~K~~~~i~D~ 451 (501)
T PHA02558 427 IIVLQSIGRVLRKHGSKSIATVWDI 451 (501)
T ss_pred hhhhhhhhccccCCCCCceEEEEEe
Confidence 3345999999998888777777764
No 40
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.08 E-value=2.3e-08 Score=124.19 Aligned_cols=73 Identities=22% Similarity=0.292 Sum_probs=54.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCC-ceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 14 PFEAYDCQLVYMEKVIQSLQNKC-NALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 14 Pfepy~~Q~e~m~~V~~aL~~~k-~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
.|+|+|.|.+.+..+. .|+ .+++.||||||||.++.+..++... + ..
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 5779999999988754 554 7888999999999876544442211 0 01
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHhcC
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKTSN 118 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrkl~ 118 (1036)
...++||++.|..+..|+.+++++++
T Consensus 61 ~~~rLv~~vPtReLa~Qi~~~~~~~~ 86 (844)
T TIGR02621 61 VPRRLVYVVNRRTVVDQVTEEAEKIG 86 (844)
T ss_pred ccceEEEeCchHHHHHHHHHHHHHHH
Confidence 23479999999999999999988754
No 41
>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=99.05 E-value=3e-10 Score=116.75 Aligned_cols=68 Identities=31% Similarity=0.428 Sum_probs=56.0
Q ss_pred CCCCHHHHHHHHHHHHHHHcC---CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 15 FEAYDCQLVYMEKVIQSLQNK---CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~---k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
|++|+.|.+.+..+.+.+... +++++++|||+|||+.++..+....
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 678999999999999999976 9999999999999999885443221
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
.++++.+.+.+.++|...++..
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 1688888999999999998843
No 42
>PRK14701 reverse gyrase; Provisional
Probab=99.04 E-value=6e-08 Score=128.76 Aligned_cols=71 Identities=17% Similarity=0.182 Sum_probs=57.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 12 EFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 12 ~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
.++|+|++.|.+.+..+. .|+.+++-||||+|||++++.+++..+.
T Consensus 75 ~~G~~pt~iQ~~~i~~il----~G~d~li~APTGsGKTl~~~~~al~~~~------------------------------ 120 (1638)
T PRK14701 75 ITGFEFWSIQKTWAKRIL----RGKSFSIVAPTGMGKSTFGAFIALFLAL------------------------------ 120 (1638)
T ss_pred hhCCCCCHHHHHHHHHHH----cCCCEEEEEcCCCCHHHHHHHHHHHHHh------------------------------
Confidence 378899999999776655 4789999999999999988877664422
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..+++++.+.|.++..|++..++.+
T Consensus 121 -~g~~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 121 -KGKKCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred -cCCeEEEEECHHHHHHHHHHHHHHH
Confidence 1257999999999999999998764
No 43
>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=98.99 E-value=1.7e-07 Score=122.00 Aligned_cols=88 Identities=17% Similarity=0.244 Sum_probs=63.0
Q ss_pred HHHHHHHcCCcEEEEecCH---HHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCC
Q 001656 508 IVNIARIVPDGLLIFFPSY---YLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTS 584 (1036)
Q Consensus 508 I~~l~~~vpggvLVfFpSy---~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~ 584 (1036)
+..+++...+|+|||+++- +..+.+...+++.+. +...+..+. ....++.|++ ++
T Consensus 318 L~~ll~~l~~~~IVFv~t~~~~~~a~~l~~~L~~~g~-------------~a~~lhg~~---~~~~l~~Fr~------G~ 375 (1171)
T TIGR01054 318 LLEIVKKLGTGGIVYVSIDYGKEKAEEIAEFLENHGV-------------KAVAYHATK---PKEDYEKFAE------GE 375 (1171)
T ss_pred HHHHHHHcCCCEEEEEeccccHHHHHHHHHHHHhCCc-------------eEEEEeCCC---CHHHHHHHHc------CC
Confidence 3444455567999999998 899999888876422 112233222 1467899985 56
Q ss_pred CeEEEEEc--cCCccccccCCCCCceEEEEeCCCCC
Q 001656 585 GAVFFAVC--RGKVSEGLDFADHAGRAVVITGMPFA 618 (1036)
Q Consensus 585 gaVLfaV~--rGk~sEGIDf~gd~~R~VIIvGLPfp 618 (1036)
--||+|+. .|-++.|||+++ ..|.||-+|+|--
T Consensus 376 ~~vLVata~~tdv~aRGIDip~-~V~~vI~~~~P~~ 410 (1171)
T TIGR01054 376 IDVLIGVASYYGTLVRGLDLPE-RVRYAVFLGVPKF 410 (1171)
T ss_pred CCEEEEeccccCcccccCCCCc-cccEEEEECCCCE
Confidence 67999963 578999999999 4589999999964
No 44
>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=98.99 E-value=3.9e-09 Score=107.48 Aligned_cols=66 Identities=26% Similarity=0.305 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEE
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTIL 98 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIi 98 (1036)
|.|.+.+..+. +++++++.||||+|||++|+.+++.+..+.+ ..+++
T Consensus 2 ~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~~~-----------------------------~~~~l 48 (169)
T PF00270_consen 2 PLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQEGK-----------------------------DARVL 48 (169)
T ss_dssp HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHTTS-----------------------------SSEEE
T ss_pred HHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhccCC-----------------------------CceEE
Confidence 57888777666 6799999999999999999999997655422 14899
Q ss_pred EEcCCHHHHHHHHHHHHhc
Q 001656 99 YTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 99 y~TRThsQl~Qvv~ELrkl 117 (1036)
|.+.|.+..+|..+++++.
T Consensus 49 ii~P~~~l~~q~~~~~~~~ 67 (169)
T PF00270_consen 49 IIVPTRALAEQQFERLRKF 67 (169)
T ss_dssp EEESSHHHHHHHHHHHHHH
T ss_pred EEeeccccccccccccccc
Confidence 9999999999999887653
No 45
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.93 E-value=1.2e-06 Score=113.81 Aligned_cols=76 Identities=18% Similarity=0.175 Sum_probs=64.5
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCC
Q 001656 10 DVEFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSS 87 (1036)
Q Consensus 10 ~v~FPfepy~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (1036)
.-.|||+|.+.|.+.+..|..-+... ...++.||||+|||.+++.++.....
T Consensus 594 ~~~~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~-------------------------- 647 (1147)
T PRK10689 594 CDSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE-------------------------- 647 (1147)
T ss_pred HHhCCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH--------------------------
Confidence 45799999999999999999988765 67999999999999999887764322
Q ss_pred CCCCCCCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 88 QSGDSKLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 88 q~~~~~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
+.+++++.+.|..+..|..+.+++
T Consensus 648 -----~g~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 648 -----NHKQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred -----cCCeEEEEeCcHHHHHHHHHHHHH
Confidence 125799999999999999998875
No 46
>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=98.92 E-value=8.4e-09 Score=108.80 Aligned_cols=75 Identities=19% Similarity=0.186 Sum_probs=60.6
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 13 FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
++|+ ||+.|.+.+..+.+ +++++++||||+|||++|+.+++........
T Consensus 17 ~~~~~~~~~Q~~~~~~~~~----~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~-------------------------- 66 (203)
T cd00268 17 LGFEKPTPIQARAIPPLLS----GRDVIGQAQTGSGKTAAFLIPILEKLDPSPK-------------------------- 66 (203)
T ss_pred cCCCCCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHhhcc--------------------------
Confidence 4565 89999998877776 8999999999999999999998865543210
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
...++++|.+.|..+..|....+++.
T Consensus 67 ~~~~~viii~p~~~L~~q~~~~~~~~ 92 (203)
T cd00268 67 KDGPQALILAPTRELALQIAEVARKL 92 (203)
T ss_pred cCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 13478999999999999999887754
No 47
>PHA02653 RNA helicase NPH-II; Provisional
Probab=98.91 E-value=2.9e-07 Score=113.50 Aligned_cols=77 Identities=18% Similarity=0.138 Sum_probs=57.7
Q ss_pred CCCC---CHHHHHHHHHHHHHHHcCCceEEeccCCCChhHH---------HHHHHHHHHhhhcCccccCccccccccCCC
Q 001656 14 PFEA---YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLC---------LLCATLAWRKSLGSFSTLGSQVNNQISGSQ 81 (1036)
Q Consensus 14 Pfep---y~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa---------~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~ 81 (1036)
||.+ ++.|.++-+++..++.+++.+|+.|+||+|||.+ ||.+.+.+......
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 6752 6899999999999999999999999999999997 55566665432110
Q ss_pred CccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHHH
Q 001656 82 SSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELK 115 (1036)
Q Consensus 82 ~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ELr 115 (1036)
....++|++++.|.....|+..++.
T Consensus 219 ---------~~~~~~ilvt~PrreLa~qi~~~i~ 243 (675)
T PHA02653 219 ---------NFIERPIVLSLPRVALVRLHSITLL 243 (675)
T ss_pred ---------ccCCcEEEEECcHHHHHHHHHHHHH
Confidence 0122578888888888878666654
No 48
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=98.89 E-value=2.9e-07 Score=120.59 Aligned_cols=59 Identities=27% Similarity=0.314 Sum_probs=40.6
Q ss_pred EeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 40 LESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 40 lEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
|-||||+|||+||++|+|.-........ + .+....+..+++|.|.|+.+..|+.++|+.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~------~------------~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGED------T------------REAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhccccc------c------------cccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 4699999999999999986543211000 0 000012346899999999999999988764
No 49
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=98.88 E-value=5.3e-07 Score=113.64 Aligned_cols=169 Identities=15% Similarity=0.152 Sum_probs=99.9
Q ss_pred HHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhcc
Q 001656 502 QELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKD 580 (1036)
Q Consensus 502 ~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~ 580 (1036)
..+...|..++...+|.+|||+|+...++.+++.+.+.... + .+...+...-+ .+...+++.|+.
T Consensus 195 ~~v~~~l~~~l~~~~g~iLVFlpg~~eI~~l~~~L~~~~~~---~-------~~v~pLHg~L~~~eq~~~~~~~~~---- 260 (819)
T TIGR01970 195 DAVSRAVEHALASETGSILVFLPGQAEIRRVQEQLAERLDS---D-------VLICPLYGELSLAAQDRAIKPDPQ---- 260 (819)
T ss_pred HHHHHHHHHHHHhcCCcEEEEECCHHHHHHHHHHHHhhcCC---C-------cEEEEecCCCCHHHHHHHHhhccc----
Confidence 44556666676666899999999999999999888753110 0 01111222211 223344555542
Q ss_pred CCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHH
Q 001656 581 TSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQ 660 (1036)
Q Consensus 581 ~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~ 660 (1036)
+..-|++|+ .-...|||++| .+.||-.|+|--...||.. +- ..+. ..|...
T Consensus 261 --G~rkVlVAT--nIAErgItIp~--V~~VID~Gl~r~~~yd~~~----------g~-----------~~L~-~~~iSk- 311 (819)
T TIGR01970 261 --GRRKVVLAT--NIAETSLTIEG--IRVVIDSGLARVARFDPKT----------GI-----------TRLE-TVRISQ- 311 (819)
T ss_pred --CCeEEEEec--chHhhcccccC--ceEEEEcCccccccccccc----------CC-----------ceee-EEEECH-
Confidence 345788887 78899999999 7899999999765555421 00 0010 123221
Q ss_pred HHHHHHHhhCCccccCCCcEEEEEEecCCCCchhhhHHHhhhhcchhccCChhHHHHHHHHH
Q 001656 661 ASRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTRF 722 (1036)
Q Consensus 661 A~r~v~QaiGRlIR~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i~~~~~~~e~~~~l~~F 722 (1036)
-...|+.||.=|.. -|..+ |+.+..-...+++...+.|.. .++.+++-.+..|
T Consensus 312 --asa~QR~GRAGR~~--~G~cy----rL~t~~~~~~l~~~~~PEI~r-~~L~~~~L~l~~~ 364 (819)
T TIGR01970 312 --ASATQRAGRAGRLE--PGVCY----RLWSEEQHQRLPAQDEPEILQ-ADLSGLALELAQW 364 (819)
T ss_pred --HHHHhhhhhcCCCC--CCEEE----EeCCHHHHHhhhcCCCcceec-cCcHHHHHHHHHc
Confidence 22458899987763 45544 334333334567766666654 3455555555554
No 50
>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=98.81 E-value=5.1e-06 Score=102.73 Aligned_cols=139 Identities=14% Similarity=0.098 Sum_probs=75.2
Q ss_pred HHHHHhhhccCCeEEEEccCCCC-hHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHH
Q 001656 425 IAMQEFSRLEVGSIILTSGTLSP-MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQE 503 (1036)
Q Consensus 425 ~~~~~ll~~~~~svIltSgTLsp-~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~ 503 (1036)
..++.++. ....+.-|+||... -..|.+..|++... +|++.-... .+-|+ .-|.+ ..+-...
T Consensus 350 It~qn~Fr-~Y~kl~GmTGTa~~~~~Ef~~iY~l~v~~-------IPt~kp~~r--~d~~d-----~i~~~--~~~K~~a 412 (762)
T TIGR03714 350 ITYQNLFK-MFNKLSGMTGTGKVAEKEFIETYSLSVVK-------IPTNKPIIR--IDYPD-----KIYAT--LPEKLMA 412 (762)
T ss_pred eeHHHHHh-hCchhcccCCCChhHHHHHHHHhCCCEEE-------cCCCCCeee--eeCCC-----eEEEC--HHHHHHH
Confidence 44566655 56789999999765 34566666765321 111110000 01111 11211 1222345
Q ss_pred HHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCC
Q 001656 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTST 583 (1036)
Q Consensus 504 l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~ 583 (1036)
+.+.|.+.. ..+..+|||+.|-...+.+...+..... +..++..+.. .....+ +.....
T Consensus 413 i~~~i~~~~-~~~~pvLIft~s~~~se~ls~~L~~~gi-------------~~~~L~a~~~-~~E~~i------i~~ag~ 471 (762)
T TIGR03714 413 TLEDVKEYH-ETGQPVLLITGSVEMSEIYSELLLREGI-------------PHNLLNAQNA-AKEAQI------IAEAGQ 471 (762)
T ss_pred HHHHHHHHh-hCCCCEEEEECcHHHHHHHHHHHHHCCC-------------CEEEecCCCh-HHHHHH------HHHcCC
Confidence 555555443 3456899999999999988887775421 1123332221 111111 111234
Q ss_pred CCeEEEEEccCCccccccCC
Q 001656 584 SGAVFFAVCRGKVSEGLDFA 603 (1036)
Q Consensus 584 ~gaVLfaV~rGk~sEGIDf~ 603 (1036)
.|.|++|+ .-.+.|+|++
T Consensus 472 ~g~VlIAT--dmAgRGtDI~ 489 (762)
T TIGR03714 472 KGAVTVAT--SMAGRGTDIK 489 (762)
T ss_pred CCeEEEEc--cccccccCCC
Confidence 68999988 7789999998
No 51
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=98.80 E-value=3e-06 Score=103.47 Aligned_cols=150 Identities=13% Similarity=0.053 Sum_probs=84.7
Q ss_pred HHHHHhhhccCCeEEEEccCCCCh-HHHHHHhCCCCCccccCCCc-CC-CCceEEEEccCCCCCccccccccCCCCHHHH
Q 001656 425 IAMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHV-IT-SKQIWAGIVPVGPSGYLLNSSYRNRDSIEYK 501 (1036)
Q Consensus 425 ~~~~~ll~~~~~svIltSgTLsp~-~~f~~~LGl~~~~~le~p~v-~~-~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~ 501 (1036)
..++.++. ....+.-||||+... ..|...+|+++.. +..... .. ..+.++. ....+-.
T Consensus 399 It~q~~Fr-~Y~kl~GmTGTa~~~~~El~~~y~l~vv~-IPt~kp~~r~~~~~~v~-----------------~t~~~K~ 459 (656)
T PRK12898 399 ITYQRFFR-RYLRLAGMTGTAREVAGELWSVYGLPVVR-IPTNRPSQRRHLPDEVF-----------------LTAAAKW 459 (656)
T ss_pred ehHHHHHH-hhHHHhcccCcChHHHHHHHHHHCCCeEE-eCCCCCccceecCCEEE-----------------eCHHHHH
Confidence 34556655 566889999999863 4677888887421 111000 00 0111111 1122223
Q ss_pred HHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccC
Q 001656 502 QELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDT 581 (1036)
Q Consensus 502 ~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~ 581 (1036)
..|.+.|..+.. .+..+|||+.|-...+.+...+...+. +..++..+.. ..+..+..+.
T Consensus 460 ~aL~~~i~~~~~-~~~pvLIft~t~~~se~L~~~L~~~gi-------------~~~~Lhg~~~-~rE~~ii~~a------ 518 (656)
T PRK12898 460 AAVAARVRELHA-QGRPVLVGTRSVAASERLSALLREAGL-------------PHQVLNAKQD-AEEAAIVARA------ 518 (656)
T ss_pred HHHHHHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHCCC-------------CEEEeeCCcH-HHHHHHHHHc------
Confidence 455555554332 356799999999999999988876432 1223333221 1222222222
Q ss_pred CCCCeEEEEEccCCccccccCC-CCCce-----EEEEeCCC
Q 001656 582 STSGAVFFAVCRGKVSEGLDFA-DHAGR-----AVVITGMP 616 (1036)
Q Consensus 582 ~~~gaVLfaV~rGk~sEGIDf~-gd~~R-----~VIIvGLP 616 (1036)
...+.|++|+ .-.+.|+|++ ++..+ .||.+-+|
T Consensus 519 g~~g~VlVAT--dmAgRGtDI~l~~~V~~~GGLhVI~~d~P 557 (656)
T PRK12898 519 GQRGRITVAT--NMAGRGTDIKLEPGVAARGGLHVILTERH 557 (656)
T ss_pred CCCCcEEEEc--cchhcccCcCCccchhhcCCCEEEEcCCC
Confidence 2467899887 7889999998 33333 56666555
No 52
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.78 E-value=2.5e-08 Score=102.51 Aligned_cols=74 Identities=28% Similarity=0.197 Sum_probs=57.5
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 12 EFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 12 ~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
..++.+++.|.+++..+.... +++++.+|||||||.+++.+++......
T Consensus 4 ~~~~~~~~~Q~~~~~~~~~~~---~~~~i~~~~GsGKT~~~~~~~~~~~~~~---------------------------- 52 (201)
T smart00487 4 FGFEPLRPYQKEAIEALLSGL---RDVILAAPTGSGKTLAALLPALEALKRG---------------------------- 52 (201)
T ss_pred cCCCCCCHHHHHHHHHHHcCC---CcEEEECCCCCchhHHHHHHHHHHhccc----------------------------
Confidence 345678999999877666444 8999999999999999888876544321
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
...+++|.+.|..+..|..+++++.
T Consensus 53 -~~~~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 53 -KGKRVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred -CCCcEEEEeCCHHHHHHHHHHHHHH
Confidence 1246999999999999998887653
No 53
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.73 E-value=1.9e-06 Score=98.43 Aligned_cols=84 Identities=21% Similarity=0.348 Sum_probs=54.7
Q ss_pred HcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCce-ecCCCCC-ChHHHHHHHHHHhccCCCCCeEEEEE
Q 001656 514 IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPV-VEPRQSS-LFPLAIEDYMAKLKDTSTSGAVFFAV 591 (1036)
Q Consensus 514 ~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~-~E~~~~~-~~~~~i~~f~~~i~~~~~~gaVLfaV 591 (1036)
..-..++||||+-...+.....+ .++.....+| +.++... ..+..++.|+. ...+|||++
T Consensus 253 ~~~kK~iVFF~TCasVeYf~~~~------------~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~------~~~~vl~~T 314 (567)
T KOG0345|consen 253 NKDKKCIVFFPTCASVEYFGKLF------------SRLLKKREIFSIHGKMSQKARAKVLEAFRK------LSNGVLFCT 314 (567)
T ss_pred cccccEEEEecCcchHHHHHHHH------------HHHhCCCcEEEecchhcchhHHHHHHHHHh------ccCceEEee
Confidence 45579999999988865554433 3332222222 3444332 36778899986 467899977
Q ss_pred ccCCccccccCCCCCceEEEEeCCCCCCCCCH
Q 001656 592 CRGKVSEGLDFADHAGRAVVITGMPFATMTDP 623 (1036)
Q Consensus 592 ~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp 623 (1036)
.-.+.|||++|- ..|| -|.+|.||
T Consensus 315 --DVaARGlDip~i--D~Vv----Q~DpP~~~ 338 (567)
T KOG0345|consen 315 --DVAARGLDIPGI--DLVV----QFDPPKDP 338 (567)
T ss_pred --hhhhccCCCCCc--eEEE----ecCCCCCh
Confidence 899999999993 4554 35556554
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=98.69 E-value=1.3e-05 Score=98.60 Aligned_cols=141 Identities=15% Similarity=0.085 Sum_probs=82.9
Q ss_pred HHHHhhhccCCeEEEEccCCCCh-HHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHH
Q 001656 426 AMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQEL 504 (1036)
Q Consensus 426 ~~~~ll~~~~~svIltSgTLsp~-~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l 504 (1036)
.++.++. ....+.-|+||...- +.|....|++... +|+++-... .+-|+ .-|.+ ..+....+
T Consensus 332 t~qn~Fr-~Y~kl~GmTGTa~te~~E~~~iY~l~vv~-------IPtnkp~~R--~d~~d-----~i~~t--~~~k~~ai 394 (745)
T TIGR00963 332 TYQNFFR-LYEKLSGMTGTAKTEEEEFEKIYNLEVVV-------VPTNRPVIR--KDLSD-----LVYKT--EEEKWKAV 394 (745)
T ss_pred eHHHHHh-hCchhhccCCCcHHHHHHHHHHhCCCEEE-------eCCCCCeee--eeCCC-----eEEcC--HHHHHHHH
Confidence 4555555 566889999999753 4567777776321 111110000 01111 11222 23334566
Q ss_pred HHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCC
Q 001656 505 GNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTS 584 (1036)
Q Consensus 505 ~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~ 584 (1036)
.+.|.+... .+..+|||+.|-..-+.+...+.+... +..++..+ ....+..+..|. +..
T Consensus 395 ~~~i~~~~~-~grpvLV~t~si~~se~ls~~L~~~gi-------------~~~~Lna~-q~~rEa~ii~~a------g~~ 453 (745)
T TIGR00963 395 VDEIKERHA-KGQPVLVGTTSVEKSELLSNLLKERGI-------------PHNVLNAK-NHEREAEIIAQA------GRK 453 (745)
T ss_pred HHHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHcCC-------------CeEEeeCC-hHHHHHHHHHhc------CCC
Confidence 666666653 567999999999999999888876432 11223222 122334444443 367
Q ss_pred CeEEEEEccCCccccccCCCCC
Q 001656 585 GAVFFAVCRGKVSEGLDFADHA 606 (1036)
Q Consensus 585 gaVLfaV~rGk~sEGIDf~gd~ 606 (1036)
+.|++|+ .-...|+|++.+.
T Consensus 454 g~VtIAT--nmAgRGtDI~l~~ 473 (745)
T TIGR00963 454 GAVTIAT--NMAGRGTDIKLEE 473 (745)
T ss_pred ceEEEEe--ccccCCcCCCccc
Confidence 9999998 7889999999843
No 55
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.68 E-value=9.7e-07 Score=111.44 Aligned_cols=169 Identities=18% Similarity=0.161 Sum_probs=96.9
Q ss_pred HHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhcc
Q 001656 502 QELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKD 580 (1036)
Q Consensus 502 ~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~ 580 (1036)
..+...|..++...+|.+|||+|+...++.+.+.+.+.... + .....+...-+ .+....++.|+.
T Consensus 198 ~~v~~~l~~~l~~~~g~iLVFlpg~~ei~~l~~~L~~~~~~---~-------~~v~~Lhg~l~~~eq~~~~~~~~~---- 263 (812)
T PRK11664 198 EAVARATAELLRQESGSLLLFLPGVGEIQRVQEQLASRVAS---D-------VLLCPLYGALSLAEQQKAILPAPA---- 263 (812)
T ss_pred HHHHHHHHHHHHhCCCCEEEEcCCHHHHHHHHHHHHHhccC---C-------ceEEEeeCCCCHHHHHHHhccccC----
Confidence 34556677777666799999999999999999988752110 0 00111222211 122334444432
Q ss_pred CCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHH
Q 001656 581 TSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQ 660 (1036)
Q Consensus 581 ~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~ 660 (1036)
++..|++|+ .-...|||++| .+.||-.|+|--...||.. +- ..+. ..|...
T Consensus 264 --G~rkVlvAT--nIAErsLtIp~--V~~VID~Gl~r~~~yd~~~----------g~-----------~~L~-~~~iSk- 314 (812)
T PRK11664 264 --GRRKVVLAT--NIAETSLTIEG--IRLVVDSGLERVARFDPKT----------GL-----------TRLV-TQRISQ- 314 (812)
T ss_pred --CCeEEEEec--chHHhcccccC--ceEEEECCCcccccccccC----------Cc-----------ceeE-EEeech-
Confidence 456788887 78888999999 7899999999644444311 00 0010 112211
Q ss_pred HHHHHHHhhCCccccCCCcEEEEEEecCCCCchhhhHHHhhhhcchhccCChhHHHHHHHHH
Q 001656 661 ASRAVNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTRF 722 (1036)
Q Consensus 661 A~r~v~QaiGRlIR~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i~~~~~~~e~~~~l~~F 722 (1036)
-...|+.||.=|.. -|..+-| .+..-...++....|.|.. .++.+++-.+..|
T Consensus 315 --asa~QR~GRaGR~~--~G~cyrL----~t~~~~~~l~~~~~PEI~r-~dL~~~~L~l~~~ 367 (812)
T PRK11664 315 --ASMTQRAGRAGRLE--PGICLHL----YSKEQAERAAAQSEPEILH-SDLSGLLLELLQW 367 (812)
T ss_pred --hhhhhhccccCCCC--CcEEEEe----cCHHHHhhCccCCCCceec-cchHHHHHHHHHc
Confidence 23458899998863 5665543 2222223466666666654 4555555555543
No 56
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.68 E-value=1.4e-07 Score=117.56 Aligned_cols=78 Identities=24% Similarity=0.249 Sum_probs=67.3
Q ss_pred eeecCCCCCCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCC
Q 001656 9 IDVEFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNS 86 (1036)
Q Consensus 9 i~v~FPfepy~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (1036)
+.-.|||++++.|.+.+..|..-+..+ .+.|+.||||+|||++++.|++.....
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 345799999999999999999999876 479999999999999999999865431
Q ss_pred CCCCCCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 87 SQSGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 87 ~q~~~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..+++|.+.|..+..|..+.++++
T Consensus 310 -------g~q~lilaPT~~LA~Q~~~~l~~l 333 (681)
T PRK10917 310 -------GYQAALMAPTEILAEQHYENLKKL 333 (681)
T ss_pred -------CCeEEEEeccHHHHHHHHHHHHHH
Confidence 257999999999999999998864
No 57
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=98.63 E-value=2.9e-05 Score=96.94 Aligned_cols=153 Identities=14% Similarity=0.062 Sum_probs=81.1
Q ss_pred HHHHHHhhhccCCeEEEEccCCCCh-HHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHH
Q 001656 424 GIAMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQ 502 (1036)
Q Consensus 424 s~~~~~ll~~~~~svIltSgTLsp~-~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~ 502 (1036)
+..++.++. ....+.-|+||...- +.|....|++... + .+|- + .+. .+-|+ .-|. +..+-..
T Consensus 353 ~It~q~~fr-~Y~kl~GmTGTa~t~~~e~~~~Y~l~v~~-I-Pt~k-p-~~r-----~d~~~-----~i~~--~~~~K~~ 415 (790)
T PRK09200 353 SITIQNLFR-MFPKLSGMTGTAKTEEKEFFEVYNMEVVQ-I-PTNR-P-IIR-----IDYPD-----KVFV--TLDEKYK 415 (790)
T ss_pred hhhHHHHHH-HhHHHhccCCCChHHHHHHHHHhCCcEEE-C-CCCC-C-ccc-----ccCCC-----eEEc--CHHHHHH
Confidence 445566655 556799999998763 3566666765321 1 1111 1 000 00010 0011 1223345
Q ss_pred HHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCC
Q 001656 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTS 582 (1036)
Q Consensus 503 ~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~ 582 (1036)
.+.+.|.... ..+..+|||+.|-...+.+...+...+.. ...+..+.. ..+..+.. ...
T Consensus 416 al~~~i~~~~-~~~~pvLIf~~t~~~se~l~~~L~~~gi~-------------~~~L~~~~~-~~e~~~i~------~ag 474 (790)
T PRK09200 416 AVIEEVKERH-ETGRPVLIGTGSIEQSETFSKLLDEAGIP-------------HNLLNAKNA-AKEAQIIA------EAG 474 (790)
T ss_pred HHHHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCCC-------------EEEecCCcc-HHHHHHHH------HcC
Confidence 5555555433 24668999999999999998888764321 122332211 11111111 112
Q ss_pred CCCeEEEEEccCCccccccCC-CCCce-----EEEEeCCC
Q 001656 583 TSGAVFFAVCRGKVSEGLDFA-DHAGR-----AVVITGMP 616 (1036)
Q Consensus 583 ~~gaVLfaV~rGk~sEGIDf~-gd~~R-----~VIIvGLP 616 (1036)
..|.|++|+ .-.+.|+|++ |+..+ .||.+-+|
T Consensus 475 ~~g~VlIAT--dmAgRG~DI~l~~~V~~~GGL~VI~~d~p 512 (790)
T PRK09200 475 QKGAVTVAT--NMAGRGTDIKLGEGVHELGGLAVIGTERM 512 (790)
T ss_pred CCCeEEEEc--cchhcCcCCCcccccccccCcEEEeccCC
Confidence 467899888 8889999995 32333 55555444
No 58
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.60 E-value=3e-07 Score=113.83 Aligned_cols=76 Identities=25% Similarity=0.300 Sum_probs=65.0
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCC
Q 001656 11 VEFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQ 88 (1036)
Q Consensus 11 v~FPfepy~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q 88 (1036)
-.+||++++.|.+.+..|...+... .+.++.||||+|||++|+.|++.....
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 4789999999999999999998765 368999999999999999988754321
Q ss_pred CCCCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 89 SGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 89 ~~~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..+++|.+.|..+..|..++++++
T Consensus 284 -----g~qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 284 -----GYQVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred -----CCcEEEECCHHHHHHHHHHHHHHH
Confidence 247999999999999999998864
No 59
>PRK09694 helicase Cas3; Provisional
Probab=98.46 E-value=6.7e-07 Score=112.93 Aligned_cols=161 Identities=16% Similarity=0.195 Sum_probs=94.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCC
Q 001656 14 PFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSK 93 (1036)
Q Consensus 14 Pfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~ 93 (1036)
.|+|||.|..++... .+.+.++||||||+|||.+.|..+....... .
T Consensus 284 ~~~p~p~Q~~~~~~~----~~pgl~ileApTGsGKTEAAL~~A~~l~~~~-----------------------------~ 330 (878)
T PRK09694 284 GYQPRQLQTLVDALP----LQPGLTIIEAPTGSGKTEAALAYAWRLIDQG-----------------------------L 330 (878)
T ss_pred CCCChHHHHHHHhhc----cCCCeEEEEeCCCCCHHHHHHHHHHHHHHhC-----------------------------C
Confidence 478999999874321 3568899999999999999988766433321 1
Q ss_pred CCeEEEEcCCHHHHHHHHHHHHh----cCCCCeEEEeCCcccccccHHHHhhhcccchHHhHHHhhccCCCcCcccccHH
Q 001656 94 LPTILYTSRTHSQLRQVIQELKT----SNYRPKMVILGSREQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCNHHSRVA 169 (1036)
Q Consensus 94 ~pkIiy~TRThsQl~Qvv~ELrk----l~~~~k~~vLgSR~~lCin~~v~~l~~~~~~~~C~~L~k~~~~~~C~~~~~l~ 169 (1036)
..+|||+..|.+-.+|+.+.+++ +...+.+.++.|+..+ +.... .+.. .. . .
T Consensus 331 ~~gi~~aLPT~Atan~m~~Rl~~~~~~~f~~~~v~L~Hg~a~l--~~~~~------------~~~~---~~---~----~ 386 (878)
T PRK09694 331 ADSIIFALPTQATANAMLSRLEALASKLFPSPNLILAHGNSRF--NHLFQ------------SLKS---RA---A----T 386 (878)
T ss_pred CCeEEEECcHHHHHHHHHHHHHHHHHHhcCCCceEeecCcchh--hhhhh------------hhhc---cc---c----c
Confidence 25899999999988888887764 2113334444433221 11100 0100 00 0 0
Q ss_pred HHhhhCCCCCCCCCChhhHhhhccCCCCchhHH-HHhhhcCccEEEeccccccCHhhhh--c-c-CCCCCCcEEEEeCcc
Q 001656 170 DYMKNNPHLGDEPIDIEDLVNIGRTFGPCPYFM-TRELQKTVDIVFAPYNYLIDPWFRK--G-L-GVEWKNSILIFDEAH 244 (1036)
Q Consensus 170 ~~~~~~~~~~~~~~dIedlv~~g~~~~~CPY~~-aR~~~~~ADIIv~nYnYLld~~ir~--~-l-~i~~~~~IlIfDEAH 244 (1036)
..-+.++- ...+-|+. .++..--++|+|++-..++...... . + ...+.+++|||||+|
T Consensus 387 -----------~~~~~~~~------~~~~~w~~~~~kr~llapi~V~TiDQlL~a~l~~kh~~lR~~~La~svvIiDEVH 449 (878)
T PRK09694 387 -----------EQGQEEAW------VQCCEWLSQSNKRVFLGQIGVCTIDQVLISVLPVKHRFIRGFGLGRSVLIVDEVH 449 (878)
T ss_pred -----------ccccchhh------hHHHHHHhhhhhhhhcCCEEEcCHHHHHHHHHccchHHHHHHhhccCeEEEechh
Confidence 00011110 11124444 4555567999999998776443321 0 0 034678999999999
Q ss_pred ChHH
Q 001656 245 NLEG 248 (1036)
Q Consensus 245 NLed 248 (1036)
..+.
T Consensus 450 AyD~ 453 (878)
T PRK09694 450 AYDA 453 (878)
T ss_pred hCCH
Confidence 9855
No 60
>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=98.44 E-value=1e-06 Score=84.98 Aligned_cols=52 Identities=37% Similarity=0.399 Sum_probs=39.7
Q ss_pred CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELK 115 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ELr 115 (1036)
+++++.+|||+|||..++..+...... . ..++++|++.+.....|....+.
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~-~----------------------------~~~~~lv~~p~~~l~~~~~~~~~ 51 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDS-L----------------------------KGGQVLVLAPTRELANQVAERLK 51 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhc-c----------------------------cCCCEEEEcCcHHHHHHHHHHHH
Confidence 478999999999999998776543332 1 22579999999999888887665
Q ss_pred h
Q 001656 116 T 116 (1036)
Q Consensus 116 k 116 (1036)
+
T Consensus 52 ~ 52 (144)
T cd00046 52 E 52 (144)
T ss_pred H
Confidence 4
No 61
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=98.24 E-value=0.0012 Score=84.78 Aligned_cols=134 Identities=15% Similarity=0.224 Sum_probs=84.4
Q ss_pred HHHHHHHc-CCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCC-CCCChHHHHHHHHHHhccCCCCC
Q 001656 508 IVNIARIV-PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSG 585 (1036)
Q Consensus 508 I~~l~~~v-pggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~-~~~~~~~~i~~f~~~i~~~~~~g 585 (1036)
+.++++.. +..+|||+.+...+..+.+.++... ++ +...+... ...+...+++.|+. ..+..
T Consensus 484 L~~~L~~~~~~KvLVF~~~~~t~~~L~~~L~~~~-----Gi-------~~~~ihG~~s~~eR~~~~~~F~~----~~~~~ 547 (956)
T PRK04914 484 LIDFLKSHRSEKVLVICAKAATALQLEQALRERE-----GI-------RAAVFHEGMSIIERDRAAAYFAD----EEDGA 547 (956)
T ss_pred HHHHHHhcCCCeEEEEeCcHHHHHHHHHHHhhcc-----Ce-------eEEEEECCCCHHHHHHHHHHHhc----CCCCc
Confidence 33444433 5699999999999999998885321 11 22233322 23456678888874 11134
Q ss_pred eEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHH
Q 001656 586 AVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAV 665 (1036)
Q Consensus 586 aVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v 665 (1036)
.||++. ...+||+||.. +..||..-+|.- |. ..
T Consensus 548 ~VLIsT--dvgseGlNlq~--a~~VInfDlP~n----P~---------------------------------------~~ 580 (956)
T PRK04914 548 QVLLCS--EIGSEGRNFQF--ASHLVLFDLPFN----PD---------------------------------------LL 580 (956)
T ss_pred cEEEec--hhhccCCCccc--ccEEEEecCCCC----HH---------------------------------------HH
Confidence 577766 78899999977 678999999873 31 13
Q ss_pred HHhhCCccccCCCcEEEEEEecCCCCchhhhHHHhhhhcch
Q 001656 666 NQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHI 706 (1036)
Q Consensus 666 ~QaiGRlIR~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i 706 (1036)
.|++||+=|-.....+.|.. .-+ .......+-.|+...+
T Consensus 581 eQRIGR~~RiGQ~~~V~i~~-~~~-~~t~~e~i~~~~~~~l 619 (956)
T PRK04914 581 EQRIGRLDRIGQKHDIQIHV-PYL-EGTAQERLFRWYHEGL 619 (956)
T ss_pred HHHhcccccCCCCceEEEEE-ccC-CCCHHHHHHHHHhhhc
Confidence 49999999977664443333 332 2234566777776644
No 62
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.19 E-value=0.00022 Score=89.44 Aligned_cols=140 Identities=17% Similarity=0.124 Sum_probs=80.5
Q ss_pred HHHHHHhhhccCCeEEEEccCCCCh-HHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHH
Q 001656 424 GIAMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQ 502 (1036)
Q Consensus 424 s~~~~~ll~~~~~svIltSgTLsp~-~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~ 502 (1036)
+..++.++. -...+--|+||...- +.|....|++... +|.+.-... .+-|+ .-|.+ ..+-..
T Consensus 369 sIT~Qn~Fr-~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~-------IPtnkp~~R--~d~~d-----~v~~t--~~~k~~ 431 (896)
T PRK13104 369 SITFQNFFR-MYNKLSGMTGTADTEAYEFQQIYNLEVVV-------IPTNRSMIR--KDEAD-----LVYLT--QADKFQ 431 (896)
T ss_pred eehHHHHHH-hcchhccCCCCChhHHHHHHHHhCCCEEE-------CCCCCCcce--ecCCC-----eEEcC--HHHHHH
Confidence 345666665 567888999999753 4577777765321 111110000 01111 11222 233345
Q ss_pred HHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhccC
Q 001656 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDT 581 (1036)
Q Consensus 503 ~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~~ 581 (1036)
.+.+.|.++.. .+..+|||+.|-..-+.+...+++... +..++..+.. .+...+.+.
T Consensus 432 av~~~i~~~~~-~g~PVLVgt~Sie~sE~ls~~L~~~gi-------------~h~vLnak~~q~Ea~iia~A-------- 489 (896)
T PRK13104 432 AIIEDVRECGV-RKQPVLVGTVSIEASEFLSQLLKKENI-------------KHQVLNAKFHEKEAQIIAEA-------- 489 (896)
T ss_pred HHHHHHHHHHh-CCCCEEEEeCcHHHHHHHHHHHHHcCC-------------CeEeecCCCChHHHHHHHhC--------
Confidence 67777766553 567999999999999999988876532 1123322222 112222222
Q ss_pred CCCCeEEEEEccCCccccccCCC
Q 001656 582 STSGAVFFAVCRGKVSEGLDFAD 604 (1036)
Q Consensus 582 ~~~gaVLfaV~rGk~sEGIDf~g 604 (1036)
..+|+|++|+ .-...|+|+.=
T Consensus 490 g~~G~VtIAT--NmAGRGtDI~L 510 (896)
T PRK13104 490 GRPGAVTIAT--NMAGRGTDIVL 510 (896)
T ss_pred CCCCcEEEec--cCccCCcceec
Confidence 2468899988 88999999964
No 63
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.16 E-value=0.00032 Score=87.24 Aligned_cols=133 Identities=22% Similarity=0.274 Sum_probs=86.8
Q ss_pred cCCeEEEEccCCCCh----HHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHH
Q 001656 434 EVGSIILTSGTLSPM----DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIV 509 (1036)
Q Consensus 434 ~~~svIltSgTLsp~----~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~ 509 (1036)
+...+|++|||..|- .-|...||++..- +... -.|+.= .|... ...+.+.
T Consensus 275 k~g~LvvsSATg~~rg~R~~LfReLlgFevG~----~~~~-LRNIvD--------------~y~~~-------~~~e~~~ 328 (1187)
T COG1110 275 KLGILVVSSATGKPRGSRLKLFRELLGFEVGS----GGEG-LRNIVD--------------IYVES-------ESLEKVV 328 (1187)
T ss_pred CCceEEEeeccCCCCCchHHHHHHHhCCccCc----cchh-hhheee--------------eeccC-------ccHHHHH
Confidence 345779999999994 4677888876321 1111 122110 11111 1223455
Q ss_pred HHHHHcCCcEEEEecC---HHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCe
Q 001656 510 NIARIVPDGLLIFFPS---YYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGA 586 (1036)
Q Consensus 510 ~l~~~vpggvLVfFpS---y~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~ga 586 (1036)
++++.-..|.|||.|. -+..+.++++++..+.+ .. .+.- .....++.|.+ ++=.
T Consensus 329 elvk~lG~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~-----------a~-~~~a-----~~~~~le~F~~------Geid 385 (1187)
T COG1110 329 ELVKKLGDGGLIFVPIDYGREKAEELAEYLRSHGIN-----------AE-LIHA-----EKEEALEDFEE------GEVD 385 (1187)
T ss_pred HHHHHhCCCeEEEEEcHHhHHHHHHHHHHHHhcCce-----------EE-Eeec-----cchhhhhhhcc------Ccee
Confidence 6777777899999999 88999999988876432 00 1111 12456788875 4566
Q ss_pred EEEEE--ccCCccccccCCCCCceEEEEeCCC
Q 001656 587 VFFAV--CRGKVSEGLDFADHAGRAVVITGMP 616 (1036)
Q Consensus 587 VLfaV--~rGk~sEGIDf~gd~~R~VIIvGLP 616 (1036)
+|+|| ..|.+-.|||+|. ..|.+|.+|+|
T Consensus 386 vLVGvAsyYG~lVRGlDLP~-rirYaIF~GvP 416 (1187)
T COG1110 386 VLVGVASYYGVLVRGLDLPH-RIRYAVFYGVP 416 (1187)
T ss_pred EEEEecccccceeecCCchh-heeEEEEecCC
Confidence 77775 4688999999998 57999999999
No 64
>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=98.07 E-value=1.7e-05 Score=98.82 Aligned_cols=73 Identities=22% Similarity=0.310 Sum_probs=59.3
Q ss_pred CCHHHHHHHHHHHHHHHc------CCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCC
Q 001656 17 AYDCQLVYMEKVIQSLQN------KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~------~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~ 90 (1036)
+|..|...+.++.+++.+ ++.+++..|||||||+..+..+....+..
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~--------------------------- 291 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELL--------------------------- 291 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhc---------------------------
Confidence 788999999999999976 36799999999999998776654332211
Q ss_pred CCCCCeEEEEcCCHHHHHHHHHHHHhcC
Q 001656 91 DSKLPTILYTSRTHSQLRQVIQELKTSN 118 (1036)
Q Consensus 91 ~~~~pkIiy~TRThsQl~Qvv~ELrkl~ 118 (1036)
..++|++.+.+..+.+|..+++++.+
T Consensus 292 --~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 292 --KNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred --CCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 23799999999999999999988753
No 65
>PRK13766 Hef nuclease; Provisional
Probab=98.04 E-value=2.2e-05 Score=99.80 Aligned_cols=69 Identities=23% Similarity=0.207 Sum_probs=53.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
-+++||+.|.++...+. .+ ++++-+|||+|||++++++++.....
T Consensus 12 ~~~~~r~yQ~~~~~~~l---~~--n~lv~~ptG~GKT~~a~~~i~~~l~~------------------------------ 56 (773)
T PRK13766 12 NTIEARLYQQLLAATAL---KK--NTLVVLPTGLGKTAIALLVIAERLHK------------------------------ 56 (773)
T ss_pred CcCCccHHHHHHHHHHh---cC--CeEEEcCCCccHHHHHHHHHHHHHHh------------------------------
Confidence 35789999999876553 33 89999999999999888776644321
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
...+++|.+.|..+..|..+++++
T Consensus 57 ~~~~vLvl~Pt~~L~~Q~~~~~~~ 80 (773)
T PRK13766 57 KGGKVLILAPTKPLVEQHAEFFRK 80 (773)
T ss_pred CCCeEEEEeCcHHHHHHHHHHHHH
Confidence 124799999999999999888875
No 66
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.01 E-value=1.5e-05 Score=99.86 Aligned_cols=68 Identities=28% Similarity=0.343 Sum_probs=54.1
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCC
Q 001656 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLP 95 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~p 95 (1036)
+.|+.|.+.....+. .++|+|+-||||+|||+-.+++.+.-..+.+ -
T Consensus 31 el~~~qq~av~~~~~---~~~N~li~aPTgsGKTlIA~lai~~~l~~~~------------------------------~ 77 (766)
T COG1204 31 ELFNPQQEAVEKGLL---SDENVLISAPTGSGKTLIALLAILSTLLEGG------------------------------G 77 (766)
T ss_pred HhhHHHHHHhhcccc---CCCcEEEEcCCCCchHHHHHHHHHHHHHhcC------------------------------C
Confidence 567777776555544 4899999999999999999988875544321 3
Q ss_pred eEEEEcCCHHHHHHHHHHHHh
Q 001656 96 TILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 96 kIiy~TRThsQl~Qvv~ELrk 116 (1036)
+++|.+.+.++..+.++|+++
T Consensus 78 k~vYivPlkALa~Ek~~~~~~ 98 (766)
T COG1204 78 KVVYIVPLKALAEEKYEEFSR 98 (766)
T ss_pred cEEEEeChHHHHHHHHHHhhh
Confidence 799999999999999999873
No 67
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.96 E-value=3e-05 Score=89.44 Aligned_cols=147 Identities=21% Similarity=0.278 Sum_probs=94.8
Q ss_pred CCHHHHHHHHHHHHHHH-----cCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCC
Q 001656 17 AYDCQLVYMEKVIQSLQ-----NKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGD 91 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~-----~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~ 91 (1036)
.+|.|...+-.+.+.+. ..+-+.+.||||+||||||-+|.+.-.....
T Consensus 160 ~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~--------------------------- 212 (620)
T KOG0350|consen 160 LFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRP--------------------------- 212 (620)
T ss_pred ccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCC---------------------------
Confidence 45789999999988887 3467999999999999999999886443211
Q ss_pred CCCCeEEEEcCCHHHHHHHHHHHHhcCCCCeEEEeCCcccccccHHHHhhhcccchHHhHHHhhccCCCcCcccccHHHH
Q 001656 92 SKLPTILYTSRTHSQLRQVIQELKTSNYRPKMVILGSREQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCNHHSRVADY 171 (1036)
Q Consensus 92 ~~~pkIiy~TRThsQl~Qvv~ELrkl~~~~k~~vLgSR~~lCin~~v~~l~~~~~~~~C~~L~k~~~~~~C~~~~~l~~~ 171 (1036)
.+.-+.++...|..+..|+...+.++.-..-. ..|.....+.+.+ ..+.|
T Consensus 213 v~~LRavVivPtr~L~~QV~~~f~~~~~~tgL-------~V~~~sgq~sl~~-----E~~qL------------------ 262 (620)
T KOG0350|consen 213 VKRLRAVVIVPTRELALQVYDTFKRLNSGTGL-------AVCSLSGQNSLED-----EARQL------------------ 262 (620)
T ss_pred ccceEEEEEeeHHHHHHHHHHHHHHhccCCce-------EEEecccccchHH-----HHHHH------------------
Confidence 12346677777888999999998875211100 0222111111110 00111
Q ss_pred hhhCCCCCCCCCChhhHhhhccCCCCchhHHHHhhhcCccEEEeccccccCHhhh-hccCCCCCCcEEEEeCccChHHHH
Q 001656 172 MKNNPHLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFR-KGLGVEWKNSILIFDEAHNLEGIC 250 (1036)
Q Consensus 172 ~~~~~~~~~~~~dIedlv~~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir-~~l~i~~~~~IlIfDEAHNLed~~ 250 (1036)
......| .+||+|++=.=|+|+... +++.+. .=..+|||||..|.+..
T Consensus 263 --------------------~~~~~~~----------~~DIlVaTPGRLVDHl~~~k~f~Lk-~LrfLVIDEADRll~qs 311 (620)
T KOG0350|consen 263 --------------------ASDPPEC----------RIDILVATPGRLVDHLNNTKSFDLK-HLRFLVIDEADRLLDQS 311 (620)
T ss_pred --------------------hcCCCcc----------ccceEEcCchHHHHhccCCCCcchh-hceEEEechHHHHHHHH
Confidence 1123345 899999999999888642 333221 23469999999999875
Q ss_pred H
Q 001656 251 A 251 (1036)
Q Consensus 251 ~ 251 (1036)
.
T Consensus 312 f 312 (620)
T KOG0350|consen 312 F 312 (620)
T ss_pred H
Confidence 3
No 68
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=97.94 E-value=3.3e-05 Score=98.07 Aligned_cols=43 Identities=23% Similarity=0.310 Sum_probs=36.6
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhh
Q 001656 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKS 62 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~ 62 (1036)
.+|..|.+- ++.+.+|+++|+-+|||+|||.|||+|.|.-..+
T Consensus 70 ~lY~HQ~~A----~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~ 112 (851)
T COG1205 70 RLYSHQVDA----LRLIREGRNVVVTTGTGSGKTESFLLPILDHLLR 112 (851)
T ss_pred cccHHHHHH----HHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhh
Confidence 389999985 5566788999999999999999999999976544
No 69
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=97.93 E-value=4.4e-05 Score=93.24 Aligned_cols=69 Identities=20% Similarity=0.200 Sum_probs=54.5
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCC
Q 001656 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~ 94 (1036)
++.|.-|.++ |..|| |+|.|+-+|||.|||+.....++-|.+...+
T Consensus 61 ~~lR~YQ~ei---vq~AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~----------------------------- 106 (746)
T KOG0354|consen 61 LELRNYQEEL---VQPAL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK----------------------------- 106 (746)
T ss_pred ccccHHHHHH---hHHhh--cCCeEEEeecCCCccchHHHHHHHHHhcCCc-----------------------------
Confidence 6788999887 45677 8999999999999999888777777665432
Q ss_pred CeEEEEcCCHHHHHHHHHHHHhc
Q 001656 95 PTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 95 pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
-|||+.+.|.-++.|-+..++..
T Consensus 107 ~KiVF~aP~~pLv~QQ~a~~~~~ 129 (746)
T KOG0354|consen 107 GKVVFLAPTRPLVNQQIACFSIY 129 (746)
T ss_pred ceEEEeeCCchHHHHHHHHHhhc
Confidence 48999999988887766655543
No 70
>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=97.93 E-value=5e-05 Score=73.47 Aligned_cols=115 Identities=18% Similarity=0.276 Sum_probs=77.3
Q ss_pred HHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCC-CCChHHHHHHHHHHhcc
Q 001656 502 QELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIEDYMAKLKD 580 (1036)
Q Consensus 502 ~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~-~~~~~~~i~~f~~~i~~ 580 (1036)
..+.+.+.+..+ ..+.+|||+++...++.+...+.+... ...++.... ..+...+++.|..
T Consensus 15 ~~i~~~i~~~~~-~~~~~lvf~~~~~~~~~~~~~l~~~~~-------------~~~~~~~~~~~~~~~~~~~~f~~---- 76 (131)
T cd00079 15 EALLELLKEHLK-KGGKVLIFCPSKKMLDELAELLRKPGI-------------KVAALHGDGSQEEREEVLKDFRE---- 76 (131)
T ss_pred HHHHHHHHhccc-CCCcEEEEeCcHHHHHHHHHHHHhcCC-------------cEEEEECCCCHHHHHHHHHHHHc----
Confidence 445555554432 467999999999999999988875211 112222222 2334556666663
Q ss_pred CCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHH
Q 001656 581 TSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQ 660 (1036)
Q Consensus 581 ~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~ 660 (1036)
+...+|+++ ..++||+|+++ +..||+.+.|+.
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 345788877 89999999986 788999987553
Q ss_pred HHHHHHHhhCCccccCCCcEEEEE
Q 001656 661 ASRAVNQAVGRVIRHRHDYGAIIF 684 (1036)
Q Consensus 661 A~r~v~QaiGRlIR~~~D~G~viL 684 (1036)
...+.|++||+.|..+ .|.+++
T Consensus 109 -~~~~~Q~~GR~~R~~~-~~~~~~ 130 (131)
T cd00079 109 -PSSYLQRIGRAGRAGQ-KGTAIL 130 (131)
T ss_pred -HHHheecccccccCCC-CceEEe
Confidence 2345699999999876 566554
No 71
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=97.87 E-value=0.0028 Score=79.66 Aligned_cols=141 Identities=16% Similarity=0.123 Sum_probs=81.5
Q ss_pred HHHHHhhhccCCeEEEEccCCCC-hHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHH
Q 001656 425 IAMQEFSRLEVGSIILTSGTLSP-MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQE 503 (1036)
Q Consensus 425 ~~~~~ll~~~~~svIltSgTLsp-~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~ 503 (1036)
..++.++. ....+.-|+||... .+.|....|++... +|+++-... .+-|+ .-|. ...+-...
T Consensus 356 It~qn~Fr-~Y~kl~GmTGTa~te~~E~~~iY~l~vv~-------IPtnkp~~r--~d~~d-----~i~~--t~~~K~~a 418 (830)
T PRK12904 356 ITFQNYFR-MYEKLAGMTGTADTEAEEFREIYNLDVVV-------IPTNRPMIR--IDHPD-----LIYK--TEKEKFDA 418 (830)
T ss_pred eeHHHHHH-hcchhcccCCCcHHHHHHHHHHhCCCEEE-------cCCCCCeee--eeCCC-----eEEE--CHHHHHHH
Confidence 34555555 45688999999975 24566666765321 111110000 01111 1122 22333456
Q ss_pred HHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCC
Q 001656 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTST 583 (1036)
Q Consensus 504 l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~ 583 (1036)
+.+.|.+... .+..+|||+.|-..-+.+...+...... ..++..++ .+.+..+..|. ++
T Consensus 419 I~~~I~~~~~-~grpVLIft~Si~~se~Ls~~L~~~gi~-------------~~vLnakq-~eREa~Iia~A------g~ 477 (830)
T PRK12904 419 VVEDIKERHK-KGQPVLVGTVSIEKSELLSKLLKKAGIP-------------HNVLNAKN-HEREAEIIAQA------GR 477 (830)
T ss_pred HHHHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHCCCc-------------eEeccCch-HHHHHHHHHhc------CC
Confidence 6666655543 4568999999999999999888764321 11222221 22334444444 36
Q ss_pred CCeEEEEEccCCccccccCCCC
Q 001656 584 SGAVFFAVCRGKVSEGLDFADH 605 (1036)
Q Consensus 584 ~gaVLfaV~rGk~sEGIDf~gd 605 (1036)
+++|++|+ .-...|+|++=.
T Consensus 478 ~g~VtIAT--NmAGRGtDI~Lg 497 (830)
T PRK12904 478 PGAVTIAT--NMAGRGTDIKLG 497 (830)
T ss_pred CceEEEec--ccccCCcCccCC
Confidence 79999998 899999999765
No 72
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=97.85 E-value=6e-05 Score=89.67 Aligned_cols=72 Identities=26% Similarity=0.315 Sum_probs=57.9
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCC
Q 001656 11 VEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (1036)
Q Consensus 11 v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~ 90 (1036)
+.|.+++|+-|.+.++++...+.+++.+++-+|||+|||+..+-.+- ..+
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~----~~~-------------------------- 80 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIA----ELK-------------------------- 80 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHH----Hhc--------------------------
Confidence 67778899999999999999998889999999999999997664432 211
Q ss_pred CCCCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 91 DSKLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 91 ~~~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
.++++.+.|..++.|.-+.+.+
T Consensus 81 ----~~~Lvlv~~~~L~~Qw~~~~~~ 102 (442)
T COG1061 81 ----RSTLVLVPTKELLDQWAEALKK 102 (442)
T ss_pred ----CCEEEEECcHHHHHHHHHHHHH
Confidence 2388888899999998866543
No 73
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.84 E-value=0.00016 Score=76.95 Aligned_cols=71 Identities=24% Similarity=0.319 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhh-cCccccCccccccccCCCCccCCCCCCCCCCCeE
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSL-GSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTI 97 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkI 97 (1036)
+.|++. |..++......++.+|.|||||..+. .+++...+. .. .......+|
T Consensus 4 ~~Q~~A---i~~~~~~~~~~~i~GpPGTGKT~~l~-~~i~~~~~~~~~-----------------------~~~~~~~~i 56 (236)
T PF13086_consen 4 ESQREA---IQSALSSNGITLIQGPPGTGKTTTLA-SIIAQLLQRFKS-----------------------RSADRGKKI 56 (236)
T ss_dssp HHHHHH---HHHHCTSSE-EEEE-STTSSHHHHHH-HHHHHH------------------------------HCCCSS-E
T ss_pred HHHHHH---HHHHHcCCCCEEEECCCCCChHHHHH-HHHHHhccchhh-----------------------hhhhccccc
Confidence 355554 44555555569999999999995333 333332100 00 000133589
Q ss_pred EEEcCCHHHHHHHHHHHHh
Q 001656 98 LYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 98 iy~TRThsQl~Qvv~ELrk 116 (1036)
++++.|+..++++++.|.+
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 9999999999999999887
No 74
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=97.79 E-value=0.013 Score=68.95 Aligned_cols=207 Identities=19% Similarity=0.194 Sum_probs=118.7
Q ss_pred HHHHhhhccCCeEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHH
Q 001656 426 AMQEFSRLEVGSIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELG 505 (1036)
Q Consensus 426 ~~~~ll~~~~~svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~ 505 (1036)
-|.++.. ....+|+.|||-.+.+.=. +..+++ +|+ +=|.|.....+.. |.....++.|.
T Consensus 378 ~feEf~~-~~~q~i~VSATPg~~E~e~-----------s~~~vv--eQi---IRPTGLlDP~iev----Rp~~~QvdDL~ 436 (663)
T COG0556 378 KFEEFEA-KIPQTIYVSATPGDYELEQ-----------SGGNVV--EQI---IRPTGLLDPEIEV----RPTKGQVDDLL 436 (663)
T ss_pred CHHHHHH-hcCCEEEEECCCChHHHHh-----------ccCcee--EEe---ecCCCCCCCceee----ecCCCcHHHHH
Confidence 3556555 7889999999987743211 112222 221 1122211111111 11222355666
Q ss_pred HHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCC-CCCChHHHHHHHHHHhccCCCC
Q 001656 506 NTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTS 584 (1036)
Q Consensus 506 ~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~-~~~~~~~~i~~f~~~i~~~~~~ 584 (1036)
..|...+. ....+||-.--..+.+.+.+++.+.+. |.-+.... +.-+..+++.+.+. +.
T Consensus 437 ~EI~~r~~-~~eRvLVTtLTKkmAEdLT~Yl~e~gi-------------kv~YlHSdidTlER~eIirdLR~------G~ 496 (663)
T COG0556 437 SEIRKRVA-KNERVLVTTLTKKMAEDLTEYLKELGI-------------KVRYLHSDIDTLERVEIIRDLRL------GE 496 (663)
T ss_pred HHHHHHHh-cCCeEEEEeehHHHHHHHHHHHHhcCc-------------eEEeeeccchHHHHHHHHHHHhc------CC
Confidence 66666554 347999999999999999999987632 22233322 22334566777664 45
Q ss_pred CeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHH
Q 001656 585 GAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRA 664 (1036)
Q Consensus 585 gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~ 664 (1036)
=-||+|+ .=+-||+|+|. +..|.|.- -| | ..| ...-+.
T Consensus 497 ~DvLVGI--NLLREGLDiPE--VsLVAIlD------AD-----K---------eGF------------------LRse~S 534 (663)
T COG0556 497 FDVLVGI--NLLREGLDLPE--VSLVAILD------AD-----K---------EGF------------------LRSERS 534 (663)
T ss_pred ccEEEee--hhhhccCCCcc--eeEEEEee------cC-----c---------ccc------------------ccccch
Confidence 6799999 89999999998 45565541 11 1 112 122467
Q ss_pred HHHhhCCccccCCCcEEEEEEecCCCCchhhhHHHhhhhcchhccCChhHHHHHHHHHHHHhhhcC
Q 001656 665 VNQAVGRVIRHRHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTRFFREERICG 730 (1036)
Q Consensus 665 v~QaiGRlIR~~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i~~~~~~~e~~~~l~~Ff~~~~~~~ 730 (1036)
+.|-|||.-|+ -.|-|||- ...+.++|+..+... +=.+.++.=|+......
T Consensus 535 LIQtIGRAARN--~~GkvIlY---------AD~iT~sM~~Ai~ET----~RRR~iQ~~yN~~hgIt 585 (663)
T COG0556 535 LIQTIGRAARN--VNGKVILY---------ADKITDSMQKAIDET----ERRREIQMAYNEEHGIT 585 (663)
T ss_pred HHHHHHHHhhc--cCCeEEEE---------chhhhHHHHHHHHHH----HHHHHHHHHHHHhcCCC
Confidence 88999999994 45766663 344566666555321 12344555555555443
No 75
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.73 E-value=7.3e-05 Score=88.64 Aligned_cols=93 Identities=16% Similarity=0.220 Sum_probs=65.2
Q ss_pred HHHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCC-CCCChHHHHHHHHHHhc
Q 001656 501 KQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLK 579 (1036)
Q Consensus 501 ~~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~-~~~~~~~~i~~f~~~i~ 579 (1036)
...|...|..+....++.++||+......+++...++...+. ..-+... ...+....|++|++
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 355666666666566789999999999999888777653211 1122222 22446678888885
Q ss_pred cCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCC
Q 001656 580 DTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (1036)
Q Consensus 580 ~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLP 616 (1036)
++-.||+|+ +-.+.|+|++| .+.||-.-.|
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 678899988 88999999999 6777766544
No 76
>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=97.66 E-value=8.9e-05 Score=78.94 Aligned_cols=42 Identities=29% Similarity=0.411 Sum_probs=32.2
Q ss_pred CC-HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhh
Q 001656 17 AY-DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKS 62 (1036)
Q Consensus 17 py-~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~ 62 (1036)
|+ ..|..+++.+. +.+.+++.+|.|||||+..+..|+.....
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 44 68999988877 67899999999999999999999876554
No 77
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=97.56 E-value=0.24 Score=62.06 Aligned_cols=74 Identities=23% Similarity=0.330 Sum_probs=57.8
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHcC-CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCC
Q 001656 10 DVEFPFEAYDCQLVYMEKVIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQ 88 (1036)
Q Consensus 10 ~v~FPfepy~~Q~e~m~~V~~aL~~~-k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q 88 (1036)
.+.=||+|---|-..+..+.+++.++ +..+|-+-||+|||+.+ +.+ ++ ..
T Consensus 3 ~~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~--a~~-~~-~~------------------------- 53 (655)
T TIGR00631 3 KLHSPFQPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTM--ANV-IA-QV------------------------- 53 (655)
T ss_pred eeccCCCCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHH--HHH-HH-Hh-------------------------
Confidence 45678999999999999999999877 46779999999999943 333 22 11
Q ss_pred CCCCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 89 SGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 89 ~~~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
+.| +++.+.+..+..|+..||+..
T Consensus 54 ----~~p-~Lvi~~n~~~A~ql~~el~~f 77 (655)
T TIGR00631 54 ----NRP-TLVIAHNKTLAAQLYNEFKEF 77 (655)
T ss_pred ----CCC-EEEEECCHHHHHHHHHHHHHh
Confidence 124 667777889999999999875
No 78
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.44 E-value=0.00025 Score=83.02 Aligned_cols=72 Identities=21% Similarity=0.298 Sum_probs=55.3
Q ss_pred HHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHH
Q 001656 30 QSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQ 109 (1036)
Q Consensus 30 ~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Q 109 (1036)
..+..|.-++.+||||+|||.|+|+|++.++.+.+..... .......|++++.+.|+.+..|
T Consensus 106 p~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~------------------~~~~~~~P~~lIlapTReL~~Q 167 (482)
T KOG0335|consen 106 PIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRG------------------ESGGGVYPRALILAPTRELVDQ 167 (482)
T ss_pred ceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCc------------------ccCCCCCCceEEEeCcHHHhhH
Confidence 3455678899999999999999999999998765431000 0011135899999999999999
Q ss_pred HHHHHHhcCC
Q 001656 110 VIQELKTSNY 119 (1036)
Q Consensus 110 vv~ELrkl~~ 119 (1036)
+.+|.+++.|
T Consensus 168 i~nea~k~~~ 177 (482)
T KOG0335|consen 168 IYNEARKFSY 177 (482)
T ss_pred HHHHHHhhcc
Confidence 9999998765
No 79
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.30 E-value=0.00069 Score=88.49 Aligned_cols=79 Identities=19% Similarity=0.193 Sum_probs=61.2
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHcC-CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCC
Q 001656 10 DVEFPFEAYDCQLVYMEKVIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQ 88 (1036)
Q Consensus 10 ~v~FPfepy~~Q~e~m~~V~~aL~~~-k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q 88 (1036)
.+.+.+.+|+.|.+.+..|.+++.++ +.+++.+|||||||+..+..+..+.+..
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 6789999999999987554332222211
Q ss_pred CCCCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 89 SGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 89 ~~~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..++|+|.+.+..+.+|..++++..
T Consensus 462 ----~~~rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 462 ----RFRRILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred ----ccCeEEEEecHHHHHHHHHHHHHhc
Confidence 2358999999999999999998764
No 80
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=97.29 E-value=0.00069 Score=82.21 Aligned_cols=89 Identities=15% Similarity=0.235 Sum_probs=62.0
Q ss_pred HHHHHHHHHcC-CcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCC-CCChHHHHHHHHHHhccCCC
Q 001656 506 NTIVNIARIVP-DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIEDYMAKLKDTST 583 (1036)
Q Consensus 506 ~~I~~l~~~vp-ggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~-~~~~~~~i~~f~~~i~~~~~ 583 (1036)
..+..++.... +.++||+.+....+.+...|...+. +...+.+.- .......++.|+. +
T Consensus 262 ~~L~~ll~~~~~~~~IVF~~tk~~~~~l~~~l~~~g~-------------~~~~lhG~l~q~~R~~~l~~F~~------g 322 (513)
T COG0513 262 ELLLKLLKDEDEGRVIVFVRTKRLVEELAESLRKRGF-------------KVAALHGDLPQEERDRALEKFKD------G 322 (513)
T ss_pred HHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHHCCC-------------eEEEecCCCCHHHHHHHHHHHHc------C
Confidence 45566666443 4599999999999999988876532 112232222 2346678888884 5
Q ss_pred CCeEEEEEccCCccccccCCCCCceEEEEeCCCC
Q 001656 584 SGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 584 ~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
+--||+|+ .-.++|||+++ ...||=.-+|.
T Consensus 323 ~~~vLVaT--DvaaRGiDi~~--v~~VinyD~p~ 352 (513)
T COG0513 323 ELRVLVAT--DVAARGLDIPD--VSHVINYDLPL 352 (513)
T ss_pred CCCEEEEe--chhhccCCccc--cceeEEccCCC
Confidence 67899988 88899999999 56776666663
No 81
>PRK10536 hypothetical protein; Provisional
Probab=97.25 E-value=0.0014 Score=71.94 Aligned_cols=39 Identities=21% Similarity=0.246 Sum_probs=30.9
Q ss_pred CCC-HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 16 EAY-DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 16 epy-~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
.|+ ..|..++..+ .+...+++.+|+|||||+..++.++.
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 455 6899888854 45679999999999999977766663
No 82
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.24 E-value=0.00073 Score=78.89 Aligned_cols=75 Identities=20% Similarity=0.202 Sum_probs=53.3
Q ss_pred CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCe
Q 001656 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pk 96 (1036)
|--.|.+-+=.|++ |+-++++|+||+|||||||+|.+...+..... -+.++.+-
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 45677776655554 99999999999999999999999776654321 01224455
Q ss_pred EEEEcCCHHHHHHHHHHHHhc
Q 001656 97 ILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 97 Iiy~TRThsQl~Qvv~ELrkl 117 (1036)
.++...|..+.-|+.+-+.++
T Consensus 214 ALVivPTREL~~Q~y~~~qKL 234 (708)
T KOG0348|consen 214 ALVIVPTRELALQIYETVQKL 234 (708)
T ss_pred EEEEechHHHHHHHHHHHHHH
Confidence 555666777877887776665
No 83
>COG4889 Predicted helicase [General function prediction only]
Probab=97.20 E-value=0.0022 Score=78.37 Aligned_cols=165 Identities=21% Similarity=0.268 Sum_probs=102.7
Q ss_pred cCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCC
Q 001656 7 RGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNS 86 (1036)
Q Consensus 7 ~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (1036)
.++.+.-|++||+.|.+.++++.+.|..+..+=|-..+|||||+..|--+=+-+.
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 4677888999999999999999999998877777778999999987643322211
Q ss_pred CCCCCCCCCeEEEEcCCHHHHHHHHHHHHh-cCCCCeEEEeCCcccccccHHHHhhhcccchHHhHHHhhccCCCcCccc
Q 001656 87 SQSGDSKLPTILYTSRTHSQLRQVIQELKT-SNYRPKMVILGSREQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCNHH 165 (1036)
Q Consensus 87 ~q~~~~~~pkIiy~TRThsQl~Qvv~ELrk-l~~~~k~~vLgSR~~lCin~~v~~l~~~~~~~~C~~L~k~~~~~~C~~~ 165 (1036)
.+|+|.....++|.|-++|... .....+... .|-...+.+-. +.-. .
T Consensus 207 --------~~iL~LvPSIsLLsQTlrew~~~~~l~~~a~a------VcSD~kvsrs~-----eDik--~----------- 254 (1518)
T COG4889 207 --------ARILFLVPSISLLSQTLREWTAQKELDFRASA------VCSDDKVSRSA-----EDIK--A----------- 254 (1518)
T ss_pred --------hheEeecchHHHHHHHHHHHhhccCccceeEE------EecCccccccc-----cccc--c-----------
Confidence 4799999999999999999653 222233222 24444442110 0000 0
Q ss_pred ccHHHHhhhCCCCCCCCC-ChhhHhhhccCCCCchhHHHHhhhcCccEEEeccccccCHhhhhccCCCCCCcEEEEeCcc
Q 001656 166 SRVADYMKNNPHLGDEPI-DIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWKNSILIFDEAH 244 (1036)
Q Consensus 166 ~~l~~~~~~~~~~~~~~~-dIedlv~~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir~~l~i~~~~~IlIfDEAH 244 (1036)
.+++-.+- |.+++.+.- .-|+.+..--|||++|+-+.--.--+..|++ ..+++|-||||
T Consensus 255 ----------sdl~~p~sT~~~~il~~~---------~~~~k~~~~~vvFsTYQSl~~i~eAQe~G~~-~fDliicDEAH 314 (1518)
T COG4889 255 ----------SDLPIPVSTDLEDILSEM---------EHRQKANGLTVVFSTYQSLPRIKEAQEAGLD-EFDLIICDEAH 314 (1518)
T ss_pred ----------ccCCCCCcccHHHHHHHH---------HHhhccCCcEEEEEcccchHHHHHHHHcCCC-CccEEEecchh
Confidence 01111111 334443321 1233455667999999977433222344444 55789999999
Q ss_pred ChHH
Q 001656 245 NLEG 248 (1036)
Q Consensus 245 NLed 248 (1036)
.---
T Consensus 315 RTtG 318 (1518)
T COG4889 315 RTTG 318 (1518)
T ss_pred cccc
Confidence 7644
No 84
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=97.18 E-value=0.0015 Score=76.52 Aligned_cols=91 Identities=13% Similarity=0.134 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHHHcCC-cEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC--------CChHHHHH
Q 001656 502 QELGNTIVNIARIVPD-GLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS--------SLFPLAIE 572 (1036)
Q Consensus 502 ~~l~~~I~~l~~~vpg-gvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~--------~~~~~~i~ 572 (1036)
+.+-+.+.+..+..++ .++||.......+.+.+++.+.... .+..|+-|.+. .+..++++
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 5566777788876666 7888887788899999999876432 11245543332 22457889
Q ss_pred HHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEe
Q 001656 573 DYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVIT 613 (1036)
Q Consensus 573 ~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIv 613 (1036)
+|++ +..-||+|+ .---||+|+++ +..||+.
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 9985 678899988 45578999998 4455554
No 85
>PRK05580 primosome assembly protein PriA; Validated
Probab=97.04 E-value=0.0021 Score=80.62 Aligned_cols=72 Identities=21% Similarity=0.146 Sum_probs=58.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
-|+++++.|.+.++.+.+.+ .+...++-||||+|||.+|+.++...... +
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 46678899999888887765 55789999999999999998775543321 1
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
.++++.+.|.++..|+.+.+++
T Consensus 191 --~~vLvLvPt~~L~~Q~~~~l~~ 212 (679)
T PRK05580 191 --KQALVLVPEIALTPQMLARFRA 212 (679)
T ss_pred --CeEEEEeCcHHHHHHHHHHHHH
Confidence 4799999999999999998875
No 86
>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=97.00 E-value=0.0057 Score=76.06 Aligned_cols=76 Identities=25% Similarity=0.260 Sum_probs=53.8
Q ss_pred CHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeE
Q 001656 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTI 97 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkI 97 (1036)
-+.|++.. ..++......++.+|+|||||-.+...+..+.+ . .++|
T Consensus 159 n~~Q~~Av---~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~-~------------------------------g~~V 204 (637)
T TIGR00376 159 NESQKEAV---SFALSSKDLFLIHGPPGTGKTRTLVELIRQLVK-R------------------------------GLRV 204 (637)
T ss_pred CHHHHHHH---HHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHH-c------------------------------CCCE
Confidence 47888854 446767789999999999999755433322222 1 1479
Q ss_pred EEEcCCHHHHHHHHHHHHhcCCCCeEEEeCCc
Q 001656 98 LYTSRTHSQLRQVIQELKTSNYRPKMVILGSR 129 (1036)
Q Consensus 98 iy~TRThsQl~Qvv~ELrkl~~~~k~~vLgSR 129 (1036)
++|+.|+...+++++.|...+ ++++-+|..
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 999999999999999887653 455555543
No 87
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=96.98 E-value=0.0022 Score=80.33 Aligned_cols=73 Identities=22% Similarity=0.179 Sum_probs=53.5
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCC
Q 001656 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLP 95 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~p 95 (1036)
+|++.|++.+..|. +|+|+|+-||||+|||+|.++|+|.-....+. ....+.-
T Consensus 22 ~~t~~Q~~a~~~i~----~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~-----------------------~~~~~~i 74 (814)
T COG1201 22 SLTPPQRYAIPEIH----SGENVLIIAPTGSGKTEAAFLPVINELLSLGK-----------------------GKLEDGI 74 (814)
T ss_pred CCCHHHHHHHHHHh----CCCceEEEcCCCCChHHHHHHHHHHHHHhccC-----------------------CCCCCce
Confidence 48999999877665 89999999999999999999999975544311 0111334
Q ss_pred eEEEEcCCHHHHHHHHHHHH
Q 001656 96 TILYTSRTHSQLRQVIQELK 115 (1036)
Q Consensus 96 kIiy~TRThsQl~Qvv~ELr 115 (1036)
.++|.|.-+++-..+.+-|+
T Consensus 75 ~~lYIsPLkALn~Di~~rL~ 94 (814)
T COG1201 75 YALYISPLKALNNDIRRRLE 94 (814)
T ss_pred EEEEeCcHHHHHHHHHHHHH
Confidence 78888877776655555443
No 88
>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=96.85 E-value=0.0032 Score=70.12 Aligned_cols=38 Identities=21% Similarity=0.221 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHH---------HcCCceEEeccCCCChhHHHHHHHH
Q 001656 20 CQLVYMEKVIQSL---------QNKCNALLESPTGTGKTLCLLCATL 57 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL---------~~~k~~llEAPTGTGKTLa~L~~aL 57 (1036)
.|++.+.-+++.. ...+.+||--.+|+|||+..+..+.
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~ 47 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALIS 47 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhh
Confidence 3788888888877 5567899999999999998876644
No 89
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=96.85 E-value=0.0022 Score=81.63 Aligned_cols=72 Identities=29% Similarity=0.359 Sum_probs=60.2
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCC
Q 001656 10 DVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQS 89 (1036)
Q Consensus 10 ~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~ 89 (1036)
.-.|||++.+.|++ -+.+|+++..++++||||.|||+..-.+ ++.+...+
T Consensus 113 ~~~~~F~LD~fQ~~----a~~~Ler~esVlV~ApTssGKTvVaeyA-i~~al~~~------------------------- 162 (1041)
T COG4581 113 AREYPFELDPFQQE----AIAILERGESVLVCAPTSSGKTVVAEYA-IALALRDG------------------------- 162 (1041)
T ss_pred HHhCCCCcCHHHHH----HHHHHhCCCcEEEEccCCCCcchHHHHH-HHHHHHcC-------------------------
Confidence 34699999999998 5678899999999999999999988765 55544433
Q ss_pred CCCCCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 90 GDSKLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 90 ~~~~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
.++||+|.++++-+|-.++|..
T Consensus 163 -----qrviYTsPIKALsNQKyrdl~~ 184 (1041)
T COG4581 163 -----QRVIYTSPIKALSNQKYRDLLA 184 (1041)
T ss_pred -----CceEeccchhhhhhhHHHHHHH
Confidence 3799999999999999999864
No 90
>PF13245 AAA_19: Part of AAA domain
Probab=96.83 E-value=0.005 Score=55.36 Aligned_cols=61 Identities=20% Similarity=0.212 Sum_probs=42.6
Q ss_pred HHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHH
Q 001656 27 KVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQ 106 (1036)
Q Consensus 27 ~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQ 106 (1036)
.|..++.++..+++.+|.|||||..++-.+..+...... ...+|+++|.|+..
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 466688855667779999999997666554444321111 12479999999999
Q ss_pred HHHHHHHH
Q 001656 107 LRQVIQEL 114 (1036)
Q Consensus 107 l~Qvv~EL 114 (1036)
.+.+.+.+
T Consensus 55 a~~l~~rl 62 (76)
T PF13245_consen 55 ADELRERL 62 (76)
T ss_pred HHHHHHHH
Confidence 88877766
No 91
>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=96.83 E-value=0.014 Score=76.68 Aligned_cols=218 Identities=16% Similarity=0.204 Sum_probs=120.1
Q ss_pred eEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHHHcC
Q 001656 437 SIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIVP 516 (1036)
Q Consensus 437 svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~~vp 516 (1036)
.+|+||||+.+ +.|.+.++-...+.++. ..++.+ +.+.+.... ....+.++.+.+...|..++...+
T Consensus 213 KlIlmSATld~-~~fa~~F~~apvI~V~G-r~~PVe---v~Y~~~~~~--------~~~~~~~~~~~i~~~I~~l~~~~~ 279 (1283)
T TIGR01967 213 KIIITSATIDP-ERFSRHFNNAPIIEVSG-RTYPVE---VRYRPLVEE--------QEDDDLDQLEAILDAVDELFAEGP 279 (1283)
T ss_pred eEEEEeCCcCH-HHHHHHhcCCCEEEECC-Ccccce---eEEeccccc--------ccchhhhHHHHHHHHHHHHHhhCC
Confidence 57999999964 56777665322222221 122211 112221000 001123466778888888877778
Q ss_pred CcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCc-eecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccCC
Q 001656 517 DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKP-VVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGK 595 (1036)
Q Consensus 517 ggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v-~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk 595 (1036)
|.+|||+|+...++.+.+.+...... .-.+ .+...- +..+-.+-|+. ....-|++++ .-
T Consensus 280 GdILVFLpg~~EI~~l~~~L~~~~~~-----------~~~VlpLhg~L--s~~eQ~~vf~~-----~~~rkIVLAT--NI 339 (1283)
T TIGR01967 280 GDILIFLPGEREIRDAAEILRKRNLR-----------HTEILPLYARL--SNKEQQRVFQP-----HSGRRIVLAT--NV 339 (1283)
T ss_pred CCEEEeCCCHHHHHHHHHHHHhcCCC-----------CcEEEeccCCC--CHHHHHHHhCC-----CCCceEEEec--cH
Confidence 99999999999999999988754221 0001 111111 11111222321 1234688887 78
Q ss_pred ccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCCcccc
Q 001656 596 VSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRH 675 (1036)
Q Consensus 596 ~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlIR~ 675 (1036)
..-|||++| .+.||=.|+|-.+..||.... ..+. ..|. .--..+|+.||+=|.
T Consensus 340 AEtSLTIpg--V~yVIDsGl~r~~~yd~~~~~---------------------~~L~-~~~I---Skasa~QRaGRAGR~ 392 (1283)
T TIGR01967 340 AETSLTVPG--IHYVIDTGTARISRYSYRTKV---------------------QRLP-IEPI---SQASANQRKGRCGRV 392 (1283)
T ss_pred HHhccccCC--eeEEEeCCCccccccccccCc---------------------cccC-CccC---CHHHHHHHhhhhCCC
Confidence 888999999 789999999865444432100 0111 1121 123457889998776
Q ss_pred CCCcEEEEEEecCCCCchhhhHHHhhhhcchhccCChhHHHHHHHH
Q 001656 676 RHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLTR 721 (1036)
Q Consensus 676 ~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i~~~~~~~e~~~~l~~ 721 (1036)
. -|..+ |+....-...++.+..|.|.. .++..++-.+..
T Consensus 393 ~--~G~cy----RLyte~~~~~~~~~~~PEIlR-~~L~~viL~l~~ 431 (1283)
T TIGR01967 393 A--PGICI----RLYSEEDFNSRPEFTDPEILR-TNLASVILQMLA 431 (1283)
T ss_pred C--CceEE----EecCHHHHHhhhhccCccccc-ccHHHHHHHHHh
Confidence 5 57665 444433334467766666654 345555544443
No 92
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=96.77 E-value=0.0018 Score=75.27 Aligned_cols=62 Identities=26% Similarity=0.252 Sum_probs=50.1
Q ss_pred HHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHH
Q 001656 32 LQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVI 111 (1036)
Q Consensus 32 L~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv 111 (1036)
+-.|+.++.-|-||||||+|+|+||+.|....+.. +...-.+++++.|..+.-|+.
T Consensus 116 ll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~------------------------~r~~~~vlIi~PTRELA~Q~~ 171 (543)
T KOG0342|consen 116 LLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFK------------------------PRNGTGVLIICPTRELAMQIF 171 (543)
T ss_pred cCCCccceeeeccCCCceeeehhHHHHHHHhcccC------------------------CCCCeeEEEecccHHHHHHHH
Confidence 44678999999999999999999999998754320 113346888999999999999
Q ss_pred HHHHhc
Q 001656 112 QELKTS 117 (1036)
Q Consensus 112 ~ELrkl 117 (1036)
.|++.+
T Consensus 172 ~eak~L 177 (543)
T KOG0342|consen 172 AEAKEL 177 (543)
T ss_pred HHHHHH
Confidence 998875
No 93
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.73 E-value=0.0035 Score=74.47 Aligned_cols=77 Identities=25% Similarity=0.242 Sum_probs=58.5
Q ss_pred CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCe
Q 001656 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pk 96 (1036)
|-+.|+ ..+-.+-++..++..||||+||||||++|.|..++.... ...+..-+
T Consensus 159 Pt~iq~----~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~-----------------------~~~~~gl~ 211 (593)
T KOG0344|consen 159 PTPIQK----QAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQ-----------------------EKHKVGLR 211 (593)
T ss_pred CCcccc----hhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhc-----------------------ccCccceE
Confidence 556666 345566778999999999999999999999987665431 11123347
Q ss_pred EEEEcCCHHHHHHHHHHHHhcCCC
Q 001656 97 ILYTSRTHSQLRQVIQELKTSNYR 120 (1036)
Q Consensus 97 Iiy~TRThsQl~Qvv~ELrkl~~~ 120 (1036)
.++.+.|..+..|+-+|.+++.+.
T Consensus 212 a~Il~ptreLa~Qi~re~~k~~~~ 235 (593)
T KOG0344|consen 212 ALILSPTRELAAQIYREMRKYSID 235 (593)
T ss_pred EEEecchHHHHHHHHHHHHhcCCC
Confidence 888899999999999999886543
No 94
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=96.71 E-value=0.0094 Score=71.27 Aligned_cols=72 Identities=21% Similarity=0.226 Sum_probs=50.5
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCC
Q 001656 10 DVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQS 89 (1036)
Q Consensus 10 ~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~ 89 (1036)
.-.||..--+.|++. |.-++......++.+|+|||||..+---...-.+
T Consensus 179 ~~~~~~~ln~SQk~A---v~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk---------------------------- 227 (649)
T KOG1803|consen 179 ITFFNKNLNSSQKAA---VSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVK---------------------------- 227 (649)
T ss_pred cccCCccccHHHHHH---HHHHhccCCceEeeCCCCCCceeeHHHHHHHHHH----------------------------
Confidence 345666667788864 4445555688999999999999765432221111
Q ss_pred CCCCCCeEEEEcCCHHHHHHHHHHHH
Q 001656 90 GDSKLPTILYTSRTHSQLRQVIQELK 115 (1036)
Q Consensus 90 ~~~~~pkIiy~TRThsQl~Qvv~ELr 115 (1036)
...+|++|..|+--++-+++.|-
T Consensus 228 ---~~k~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 228 ---QKKRVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred ---cCCeEEEEcCchHHHHHHHHHhc
Confidence 12589999999999999998654
No 95
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.61 E-value=0.0049 Score=77.74 Aligned_cols=142 Identities=16% Similarity=0.118 Sum_probs=78.3
Q ss_pred HHHHHHhhhccCCeEEEEccCCCC-hHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHH
Q 001656 424 GIAMQEFSRLEVGSIILTSGTLSP-MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQ 502 (1036)
Q Consensus 424 s~~~~~ll~~~~~svIltSgTLsp-~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~ 502 (1036)
+..++.++. ....+.-|+||... ...|....|++... +|.+.-... .+.|+ .-|.+ ..+...
T Consensus 493 ~It~qnfFr-~Y~kl~GmTGTa~~e~~Ef~~iY~l~v~~-------iPt~kp~~r--~d~~d-----~iy~t--~~~k~~ 555 (970)
T PRK12899 493 TVTLQNFFR-LYEKLAGMTGTAITESREFKEIYNLYVLQ-------VPTFKPCLR--IDHND-----EFYMT--EREKYH 555 (970)
T ss_pred eehHHHHHh-hCchhcccCCCCHHHHHHHHHHhCCCEEE-------CCCCCCcee--eeCCC-----cEecC--HHHHHH
Confidence 345666666 56799999999865 23566667765311 111110000 01111 11322 234456
Q ss_pred HHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCC
Q 001656 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTS 582 (1036)
Q Consensus 503 ~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~ 582 (1036)
++.+.+.++.. ....|||-..|-..=+.+...+.+.... .-++-.++...=.+++. ..+
T Consensus 556 ai~~ei~~~~~-~grPvLigt~si~~se~ls~~L~~~gi~-------------h~vLNak~~~~Ea~iia-------~AG 614 (970)
T PRK12899 556 AIVAEIASIHR-KGNPILIGTESVEVSEKLSRILRQNRIE-------------HTVLNAKNHAQEAEIIA-------GAG 614 (970)
T ss_pred HHHHHHHHHHh-CCCCEEEEeCcHHHHHHHHHHHHHcCCc-------------ceecccchhhhHHHHHH-------hcC
Confidence 67777766654 4558999999999988888777654211 11221121111111222 224
Q ss_pred CCCeEEEEEccCCccccccCCCC
Q 001656 583 TSGAVFFAVCRGKVSEGLDFADH 605 (1036)
Q Consensus 583 ~~gaVLfaV~rGk~sEGIDf~gd 605 (1036)
..|+|-+|+ .-...|-|+.-.
T Consensus 615 ~~g~VTIAT--NmAGRGTDIkl~ 635 (970)
T PRK12899 615 KLGAVTVAT--NMAGRGTDIKLD 635 (970)
T ss_pred CCCcEEEee--ccccCCcccccC
Confidence 579999998 666889998544
No 96
>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=96.54 E-value=0.0055 Score=71.08 Aligned_cols=83 Identities=14% Similarity=0.188 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHHHHHcC-CcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHH
Q 001656 499 EYKQELGNTIVNIARIVP-DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAK 577 (1036)
Q Consensus 499 ~y~~~l~~~I~~l~~~vp-ggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~ 577 (1036)
+....+++.+.+..+..+ +.+||||++....+.++..+++...+ .+...+....+. . + +.+
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 445666666666554434 57999999999999999888753110 000011111111 0 1 111
Q ss_pred hccCCCCCeEEEEEccCCccccccCCCC
Q 001656 578 LKDTSTSGAVFFAVCRGKVSEGLDFADH 605 (1036)
Q Consensus 578 i~~~~~~gaVLfaV~rGk~sEGIDf~gd 605 (1036)
. .+..||+|+ .-+..|||++++
T Consensus 316 ~----~~~~iLVaT--dv~~rGiDi~~~ 337 (357)
T TIGR03158 316 A----MQFDILLGT--STVDVGVDFKRD 337 (357)
T ss_pred h----ccCCEEEEe--cHHhcccCCCCc
Confidence 1 246788888 899999999885
No 97
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.31 E-value=0.0076 Score=70.24 Aligned_cols=124 Identities=21% Similarity=0.215 Sum_probs=83.9
Q ss_pred CCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQEL 114 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~EL 114 (1036)
|..++=-|-||+|||-|++-|.+.......+ ....+.|-.+|+..|.++..|+..|.
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 4557777999999999999999876543322 22336688999999999999999887
Q ss_pred HhcC--CCCeEEEeCCcccccccHHHHhhhcccchHHhHHHhhccCCCcCcccccHHHHhhhCCCCCCCCCChhhHhhhc
Q 001656 115 KTSN--YRPKMVILGSREQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCNHHSRVADYMKNNPHLGDEPIDIEDLVNIG 192 (1036)
Q Consensus 115 rkl~--~~~k~~vLgSR~~lCin~~v~~l~~~~~~~~C~~L~k~~~~~~C~~~~~l~~~~~~~~~~~~~~~dIedlv~~g 192 (1036)
++.+ |.++. .|-|-
T Consensus 317 Kkf~K~ygl~~-------------------------------------v~~yg--------------------------- 332 (731)
T KOG0339|consen 317 KKFGKAYGLRV-------------------------------------VAVYG--------------------------- 332 (731)
T ss_pred HHhhhhccceE-------------------------------------EEeec---------------------------
Confidence 7642 11211 11111
Q ss_pred cCCCCchhHHHHhhhcCccEEEeccccccCHhhhhccCCCCCCcEEEEeCccChHHH
Q 001656 193 RTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWKNSILIFDEAHNLEGI 249 (1036)
Q Consensus 193 ~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir~~l~i~~~~~IlIfDEAHNLed~ 249 (1036)
+.--++.++++-..|.||||+---|+|...-+..++. .-+.||||||..+-+.
T Consensus 333 ---Ggsk~eQ~k~Lk~g~EivVaTPgRlid~VkmKatn~~-rvS~LV~DEadrmfdm 385 (731)
T KOG0339|consen 333 ---GGSKWEQSKELKEGAEIVVATPGRLIDMVKMKATNLS-RVSYLVLDEADRMFDM 385 (731)
T ss_pred ---CCcHHHHHHhhhcCCeEEEechHHHHHHHHhhcccce-eeeEEEEechhhhhcc
Confidence 1112334455557889999998888887655554433 5678999999876553
No 98
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.28 E-value=0.036 Score=71.83 Aligned_cols=73 Identities=23% Similarity=0.320 Sum_probs=55.3
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCC
Q 001656 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLP 95 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~p 95 (1036)
..|+.|++-..-++....++.++||--..|.|||+-.++. |+|...... ...|
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIal-L~~L~~~~~--------------------------~~gp 221 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISL-LGYLHEYRG--------------------------ITGP 221 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHH-HHHHHHhcC--------------------------CCCC
Confidence 4589999999999999999999999999999999977643 555543221 1236
Q ss_pred eEEEEcCCHHHHHHHHHHHHhc
Q 001656 96 TILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 96 kIiy~TRThsQl~Qvv~ELrkl 117 (1036)
.+|+|. .+.+.|..+|+++-
T Consensus 222 ~LIVvP--~SlL~nW~~Ei~kw 241 (1033)
T PLN03142 222 HMVVAP--KSTLGNWMNEIRRF 241 (1033)
T ss_pred EEEEeC--hHHHHHHHHHHHHH
Confidence 677665 36788899999874
No 99
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.25 E-value=0.054 Score=71.32 Aligned_cols=217 Identities=15% Similarity=0.178 Sum_probs=115.0
Q ss_pred eEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHHHcC
Q 001656 437 SIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIVP 516 (1036)
Q Consensus 437 svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~~vp 516 (1036)
.+|+||||+.+ +.|.+.++-...+.++. ..++.+. .+.+.... ......+++..+...+..+....+
T Consensus 220 KvILmSATid~-e~fs~~F~~apvI~V~G-r~~pVei---~y~p~~~~--------~~~~~~d~l~~ll~~V~~l~~~~~ 286 (1294)
T PRK11131 220 KVIITSATIDP-ERFSRHFNNAPIIEVSG-RTYPVEV---RYRPIVEE--------ADDTERDQLQAIFDAVDELGREGP 286 (1294)
T ss_pred eEEEeeCCCCH-HHHHHHcCCCCEEEEcC-ccccceE---EEeecccc--------cchhhHHHHHHHHHHHHHHhcCCC
Confidence 57999999964 56776665222122221 1122122 22221110 001124566677777766666667
Q ss_pred CcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCc-eecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccCC
Q 001656 517 DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKP-VVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGK 595 (1036)
Q Consensus 517 ggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v-~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk 595 (1036)
|.+|||+|+...++.+.+.+...... ...+ .+..+- ...+-..-|.. .+..-|++|+ .-
T Consensus 287 GdILVFLpg~~EIe~lae~L~~~~~~-----------~~~VlpLhg~L--s~~eQ~~Vf~~-----~g~rkIIVAT--NI 346 (1294)
T PRK11131 287 GDILIFMSGEREIRDTADALNKLNLR-----------HTEILPLYARL--SNSEQNRVFQS-----HSGRRIVLAT--NV 346 (1294)
T ss_pred CCEEEEcCCHHHHHHHHHHHHhcCCC-----------cceEeecccCC--CHHHHHHHhcc-----cCCeeEEEec--cH
Confidence 89999999999999999988764221 0001 111111 11122222321 1345688877 78
Q ss_pred ccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCCcccc
Q 001656 596 VSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIRH 675 (1036)
Q Consensus 596 ~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlIR~ 675 (1036)
..-|||++| .+.||=.|+.--+..||.. + . ..+. ..|. ..-..+|+.||+=|.
T Consensus 347 AEtSITIpg--I~yVID~Gl~k~~~Yd~~~-----------~--~--------~~Lp-~~~i---Skasa~QRaGRAGR~ 399 (1294)
T PRK11131 347 AETSLTVPG--IKYVIDPGTARISRYSYRT-----------K--V--------QRLP-IEPI---SQASANQRKGRCGRV 399 (1294)
T ss_pred HhhccccCc--ceEEEECCCcccccccccc-----------C--c--------ccCC-eeec---CHhhHhhhccccCCC
Confidence 999999998 7899988865433333211 0 0 0111 1121 123457999999887
Q ss_pred CCCcEEEEEEecCCCCchhhhHHHhhhhcchhccCChhHHHHHHH
Q 001656 676 RHDYGAIIFCDERFAHPSRKSQISLWIQPHIQCYSKFGDVVYTLT 720 (1036)
Q Consensus 676 ~~D~G~viLlD~Rf~~~~y~~~l~~wl~~~i~~~~~~~e~~~~l~ 720 (1036)
. -|..+ |+.+..-...++....|.|.. .++..++-.+.
T Consensus 400 ~--~G~c~----rLyte~d~~~~~~~~~PEIlR-~~L~~viL~lk 437 (1294)
T PRK11131 400 S--EGICI----RLYSEDDFLSRPEFTDPEILR-TNLASVILQMT 437 (1294)
T ss_pred C--CcEEE----EeCCHHHHHhhhcccCCcccc-CCHHHHHHHHH
Confidence 3 36555 333322223456666666654 34555544443
No 100
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=96.14 E-value=0.041 Score=66.21 Aligned_cols=70 Identities=24% Similarity=0.359 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEE
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTIL 98 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIi 98 (1036)
..|.. +|...|+ +..-||.+|+|||||.. .+++-|.-... ..-.|+
T Consensus 413 ~SQ~~---AV~~VL~-rplsLIQGPPGTGKTvt--sa~IVyhl~~~----------------------------~~~~VL 458 (935)
T KOG1802|consen 413 ASQSN---AVKHVLQ-RPLSLIQGPPGTGKTVT--SATIVYHLARQ----------------------------HAGPVL 458 (935)
T ss_pred hHHHH---HHHHHHc-CCceeeecCCCCCceeh--hHHHHHHHHHh----------------------------cCCceE
Confidence 45654 4444444 47889999999999984 46666653211 112599
Q ss_pred EEcCCHHHHHHHHHHHHhcCCCCeEE
Q 001656 99 YTSRTHSQLRQVIQELKTSNYRPKMV 124 (1036)
Q Consensus 99 y~TRThsQl~Qvv~ELrkl~~~~k~~ 124 (1036)
.|+...--.+|+-+.+.+++ +|++
T Consensus 459 vcApSNiAVDqLaeKIh~tg--LKVv 482 (935)
T KOG1802|consen 459 VCAPSNIAVDQLAEKIHKTG--LKVV 482 (935)
T ss_pred EEcccchhHHHHHHHHHhcC--ceEe
Confidence 99999889999999999987 4554
No 101
>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=96.13 E-value=0.014 Score=72.85 Aligned_cols=78 Identities=9% Similarity=0.173 Sum_probs=52.0
Q ss_pred HcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhccCCCCCeEEEEEc
Q 001656 514 IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTSTSGAVFFAVC 592 (1036)
Q Consensus 514 ~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~~~~~gaVLfaV~ 592 (1036)
..++.+|||+.+-..++.+...+. .+++....+ .+...+++.|+. ++.-.+|+++
T Consensus 494 ~~g~kiLVF~~~~~~l~~~a~~L~------------------~~~I~G~ts~~ER~~il~~Fr~-----~~~i~vLv~S- 549 (732)
T TIGR00603 494 QRGDKIIVFSDNVFALKEYAIKLG------------------KPFIYGPTSQQERMQILQNFQH-----NPKVNTIFLS- 549 (732)
T ss_pred hcCCeEEEEeCCHHHHHHHHHHcC------------------CceEECCCCHHHHHHHHHHHHh-----CCCccEEEEe-
Confidence 345699999988888777765442 133333332 457788999984 1122455555
Q ss_pred cCCccccccCCCCCceEEEEeCCCCC
Q 001656 593 RGKVSEGLDFADHAGRAVVITGMPFA 618 (1036)
Q Consensus 593 rGk~sEGIDf~gd~~R~VIIvGLPfp 618 (1036)
.-..||||+|+ +.+||++..|+-
T Consensus 550 -kVgdeGIDlP~--a~vvI~~s~~~g 572 (732)
T TIGR00603 550 -KVGDTSIDLPE--ANVLIQISSHYG 572 (732)
T ss_pred -cccccccCCCC--CCEEEEeCCCCC
Confidence 45579999999 788999887753
No 102
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=96.05 E-value=0.074 Score=70.08 Aligned_cols=128 Identities=12% Similarity=0.073 Sum_probs=81.6
Q ss_pred HHHHHHHHHHH-HcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccC
Q 001656 503 ELGNTIVNIAR-IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDT 581 (1036)
Q Consensus 503 ~l~~~I~~l~~-~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~ 581 (1036)
.+++.|.+.+. ..++.+|||+.|-...+.+.+.+.+... ..|..+ ....+..-..+......++++|+. +
T Consensus 684 ~i~~~l~~~l~~~~~~KtiIF~~s~~HA~~i~~~L~~~f~----~~~~~~-~~~~v~~itg~~~~~~~li~~Fk~----~ 754 (1123)
T PRK11448 684 VVCEELAKYLDPTGEGKTLIFAATDAHADMVVRLLKEAFK----KKYGQV-EDDAVIKITGSIDKPDQLIRRFKN----E 754 (1123)
T ss_pred HHHHHHHHHHhccCCCcEEEEEcCHHHHHHHHHHHHHHHH----hhcCCc-CccceEEEeCCccchHHHHHHHhC----C
Confidence 34444444332 2357999999999999988887764210 000000 011122122233345678999974 1
Q ss_pred CCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHH
Q 001656 582 STSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQA 661 (1036)
Q Consensus 582 ~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A 661 (1036)
....|+++| +-+++|+|.|. +.+||+.+-|. +
T Consensus 755 -~~p~IlVsv--dmL~TG~DvP~--v~~vVf~rpvk----S--------------------------------------- 786 (1123)
T PRK11448 755 -RLPNIVVTV--DLLTTGIDVPS--ICNLVFLRRVR----S--------------------------------------- 786 (1123)
T ss_pred -CCCeEEEEe--cccccCCCccc--ccEEEEecCCC----C---------------------------------------
Confidence 223688888 89999999997 78899887432 1
Q ss_pred HHHHHHhhCCccccCC--CcEEEEEEec
Q 001656 662 SRAVNQAVGRVIRHRH--DYGAIIFCDE 687 (1036)
Q Consensus 662 ~r~v~QaiGRlIR~~~--D~G~viLlD~ 687 (1036)
...+.|.+||+.|-.. +.-.++|+|.
T Consensus 787 ~~lf~QmIGRgtR~~~~~~K~~f~I~D~ 814 (1123)
T PRK11448 787 RILYEQMLGRATRLCPEIGKTHFRIFDA 814 (1123)
T ss_pred HHHHHHHHhhhccCCccCCCceEEEEeh
Confidence 2445699999999766 5778889994
No 103
>KOG4204 consensus Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=96.05 E-value=0.0085 Score=65.08 Aligned_cols=69 Identities=26% Similarity=0.496 Sum_probs=61.8
Q ss_pred CCccchhhHHHHHHHhhCHH--HHHHHHHHHHHHhhhhhchHHHHHHHHHhhcCCCChhhhhcccccccCCcc
Q 001656 955 GEETKGSAFLIQVQEKLSAT--EYKEFVGFMKAMKSKAMKISHVLQSIAKLFAGPERLPLLRRFKDYVPAKYH 1025 (1036)
Q Consensus 955 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1025 (1036)
..-+.+-|||..|++++... -|.+|++-|+..|.-.+....|.+.++.||-|=+ -||.||..|+|..|.
T Consensus 17 ~t~~DAlsYl~~VK~~f~d~p~kY~~FL~im~d~ka~~iD~~~vi~rv~eLfK~h~--~Ll~gfN~fLP~~~~ 87 (231)
T KOG4204|consen 17 LTLDDALAYLKAVKEAFQDEPEKYDEFLEIMKDFKAQRIDTPGVIARVKELLKGHP--DLLLGFNTFLPPGYK 87 (231)
T ss_pred CChHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHccCH--HHHHHHHhhCcccce
Confidence 35667899999999999865 4999999999999999999999999999999865 479999999997774
No 104
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=95.94 E-value=0.018 Score=73.05 Aligned_cols=78 Identities=22% Similarity=0.256 Sum_probs=60.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
.+...++.|...++.+.+--..+..++++||||.|||.+.|..+++-.... ..
T Consensus 192 ~~~~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~---------------------------~~ 244 (733)
T COG1203 192 IEHEGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEK---------------------------IK 244 (733)
T ss_pred cCchhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhcc---------------------------cc
Confidence 334458899998888877777666999999999999999987776543321 01
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..+++||+-.+++.+++..+.++..
T Consensus 245 ~~~r~i~vlP~~t~ie~~~~r~~~~ 269 (733)
T COG1203 245 LKSRVIYVLPFRTIIEDMYRRAKEI 269 (733)
T ss_pred ccceEEEEccHHHHHHHHHHHHHhh
Confidence 3479999999999999999988753
No 105
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.90 E-value=0.024 Score=64.50 Aligned_cols=79 Identities=16% Similarity=0.109 Sum_probs=58.0
Q ss_pred CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCe
Q 001656 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pk 96 (1036)
|-+.|.+-|= ..-+|+++|.=|.||+|||.||++|.|...-... ..+.
T Consensus 84 PT~IQ~~aiP----~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p----------------------------~~~~ 131 (476)
T KOG0330|consen 84 PTKIQSEAIP----VALGGRDVIGLAETGSGKTGAFALPILQRLLQEP----------------------------KLFF 131 (476)
T ss_pred Cchhhhhhcc----hhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCC----------------------------CCce
Confidence 5667776544 4457899999999999999999999996443322 3378
Q ss_pred EEEEcCCHHHHHHHHHHHHhcCC--CCeEE-EeC
Q 001656 97 ILYTSRTHSQLRQVIQELKTSNY--RPKMV-ILG 127 (1036)
Q Consensus 97 Iiy~TRThsQl~Qvv~ELrkl~~--~~k~~-vLg 127 (1036)
..+.|.|..+..|+-+.+..++- ..+++ ++|
T Consensus 132 ~lVLtPtRELA~QI~e~fe~Lg~~iglr~~~lvG 165 (476)
T KOG0330|consen 132 ALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVG 165 (476)
T ss_pred EEEecCcHHHHHHHHHHHHHhccccCeEEEEEec
Confidence 88889999998888887777643 44554 344
No 106
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=95.87 E-value=0.017 Score=71.49 Aligned_cols=128 Identities=13% Similarity=0.154 Sum_probs=91.1
Q ss_pred HHHHHHHHHHHHHHc-----CCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHH
Q 001656 501 KQELGNTIVNIARIV-----PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYM 575 (1036)
Q Consensus 501 ~~~l~~~I~~l~~~v-----pggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~ 575 (1036)
.+.+++.|.+.+... .|.+|||.-+..+.+.+...+.+..++ .+++.+.+-..+.......|+.|.
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 356677777777652 356999999999999999999876543 122333333345556778889998
Q ss_pred HHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCccc
Q 001656 576 AKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGED 655 (1036)
Q Consensus 576 ~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~ 655 (1036)
. ++ .-+.|.++| +-+.-|||.|- |.++|..+ .
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 246788888 89999999987 55555442 1
Q ss_pred chHHHHHHHHHHhhCCccccCCCcE-------EEEEEecC
Q 001656 656 WYNQQASRAVNQAVGRVIRHRHDYG-------AIIFCDER 688 (1036)
Q Consensus 656 wy~~~A~r~v~QaiGRlIR~~~D~G-------~viLlD~R 688 (1036)
.+.+.++.|.+||.-|--.|+| -+.|+|-.
T Consensus 509 ---VrSktkF~QMvGRGTRl~~~~~~~~~dK~~F~ifDf~ 545 (875)
T COG4096 509 ---VRSKTKFKQMVGRGTRLCPDLGGPEQDKEFFTIFDFV 545 (875)
T ss_pred ---hhhHHHHHHHhcCccccCccccCccccceeEEEEEhh
Confidence 1225778899999999888777 78888864
No 107
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=95.86 E-value=0.016 Score=66.76 Aligned_cols=63 Identities=19% Similarity=0.178 Sum_probs=46.8
Q ss_pred HHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHH
Q 001656 32 LQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVI 111 (1036)
Q Consensus 32 L~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv 111 (1036)
.-+|+.++.-|-||+|||+|||+|.|.-.-..+. + ......|..++...|..+..|+.
T Consensus 53 aLEgKDvvarArTGSGKT~AYliPllqkll~~k~--t--------------------~~~e~~~sa~iLvPTkEL~qQvy 110 (569)
T KOG0346|consen 53 ALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKK--T--------------------NDGEQGPSAVILVPTKELAQQVY 110 (569)
T ss_pred hhcCcceeeeeccCCCchHHHHHHHHHHHHHhhh--c--------------------ccccccceeEEEechHHHHHHHH
Confidence 3467899999999999999999999865433222 0 11224467788888999999988
Q ss_pred HHHHh
Q 001656 112 QELKT 116 (1036)
Q Consensus 112 ~ELrk 116 (1036)
..+.+
T Consensus 111 ~viek 115 (569)
T KOG0346|consen 111 KVIEK 115 (569)
T ss_pred HHHHH
Confidence 87765
No 108
>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=95.78 E-value=0.014 Score=51.76 Aligned_cols=43 Identities=19% Similarity=0.315 Sum_probs=34.5
Q ss_pred CChHHHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCC
Q 001656 565 SLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 565 ~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
.+...+++.|.. ++..||+++ ..+++|||+++ +..||+.+.|+
T Consensus 20 ~~r~~~~~~f~~------~~~~vli~t--~~~~~Gid~~~--~~~vi~~~~~~ 62 (78)
T PF00271_consen 20 KERQEILKKFNS------GEIRVLIAT--DILGEGIDLPD--ASHVIFYDPPW 62 (78)
T ss_dssp HHHHHHHHHHHT------TSSSEEEES--CGGTTSSTSTT--ESEEEESSSES
T ss_pred HHHHHHHHHhhc------cCceEEEee--ccccccccccc--cccccccccCC
Confidence 345667788875 467888887 89999999996 88999999865
No 109
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=95.72 E-value=0.26 Score=62.24 Aligned_cols=91 Identities=10% Similarity=0.090 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHcCCcEEEEecCH--------HHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCC-CCChHHHHHHH
Q 001656 504 LGNTIVNIARIVPDGLLIFFPSY--------YLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIEDY 574 (1036)
Q Consensus 504 l~~~I~~l~~~vpggvLVfFpSy--------~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~-~~~~~~~i~~f 574 (1036)
+.+.|.+.+ ...+.++||+|.. ...+.+++.|.+... ..+-.++..+- ..+...++++|
T Consensus 460 ~~~~i~~~~-~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~-----------~~~v~~lHG~m~~~eR~~i~~~F 527 (681)
T PRK10917 460 VYERIREEI-AKGRQAYVVCPLIEESEKLDLQSAEETYEELQEAFP-----------ELRVGLLHGRMKPAEKDAVMAAF 527 (681)
T ss_pred HHHHHHHHH-HcCCcEEEEEcccccccchhHHHHHHHHHHHHHHCC-----------CCcEEEEeCCCCHHHHHHHHHHH
Confidence 334444444 2356899999953 344455555543211 01122344432 34567788888
Q ss_pred HHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCC
Q 001656 575 MAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (1036)
Q Consensus 575 ~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLP 616 (1036)
+. ++-.||+|+ .-+.+|||+++ .+.||+...|
T Consensus 528 ~~------g~~~ILVaT--~vie~GiDip~--v~~VIi~~~~ 559 (681)
T PRK10917 528 KA------GEIDILVAT--TVIEVGVDVPN--ATVMVIENAE 559 (681)
T ss_pred Hc------CCCCEEEEC--cceeeCcccCC--CcEEEEeCCC
Confidence 85 456789888 79999999998 5778887754
No 110
>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=95.70 E-value=0.21 Score=58.08 Aligned_cols=55 Identities=25% Similarity=0.331 Sum_probs=42.7
Q ss_pred HHHHHHcCC--ceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHH
Q 001656 28 VIQSLQNKC--NALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHS 105 (1036)
Q Consensus 28 V~~aL~~~k--~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThs 105 (1036)
+.+++.++. ++++.||||+|||++++++++. . . .+.+|.+.|.+
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 566666665 4899999999999999998872 1 1 25788889999
Q ss_pred HHHHHHHHHHh
Q 001656 106 QLRQVIQELKT 116 (1036)
Q Consensus 106 Ql~Qvv~ELrk 116 (1036)
+++|..+.+++
T Consensus 51 L~~~~~~~~~~ 61 (357)
T TIGR03158 51 LIEDQTEAIKE 61 (357)
T ss_pred HHHHHHHHHHH
Confidence 98888877665
No 111
>COG5602 SIN3 Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=95.55 E-value=0.031 Score=68.59 Aligned_cols=80 Identities=28% Similarity=0.522 Sum_probs=66.6
Q ss_pred CCCCCCCCCCC----CCccchhhHHHHHHHhhCH--HHHHHHHHHHHHHhhhhhchHHHHHHHHHhhcCCCChhhhhccc
Q 001656 944 KGSHSSAPPCG----GEETKGSAFLIQVQEKLSA--TEYKEFVGFMKAMKSKAMKISHVLQSIAKLFAGPERLPLLRRFK 1017 (1036)
Q Consensus 944 ~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1017 (1036)
.+.+-++||.. -+-+-+-+||.+|++.++. .-|-+|.+-||++|+.++..-.|.+.++.||.|= =.|++||-
T Consensus 111 qn~~~~~p~~~~~r~Ldv~DAlsyLe~vK~~f~~rp~iYn~FLdiMkdFKsqaiDtpgVI~RVS~LFrgY--P~LIegFN 188 (1163)
T COG5602 111 QNMERSPPPRIPYRPLDVSDALSYLEKVKEQFSNRPEIYNNFLDIMKDFKSQAIDTPGVIERVSVLFRGY--PHLIEGFN 188 (1163)
T ss_pred cccccCCCCCCCCCCCChHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhcccCcHHHHHHHHHHHcCC--hHHHHHHh
Confidence 34444555444 3344789999999999985 5699999999999999999999999999999983 36899999
Q ss_pred ccccCCcc
Q 001656 1018 DYVPAKYH 1025 (1036)
Q Consensus 1018 ~~~~~~~~ 1025 (1036)
+|.|.-|.
T Consensus 189 tFLPsgYk 196 (1163)
T COG5602 189 TFLPSGYK 196 (1163)
T ss_pred hhCCCccE
Confidence 99999884
No 112
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=95.43 E-value=0.43 Score=59.75 Aligned_cols=80 Identities=14% Similarity=0.162 Sum_probs=50.7
Q ss_pred CCcEEEEecCHHH--------HHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCC-CCChHHHHHHHHHHhccCCCCCe
Q 001656 516 PDGLLIFFPSYYL--------MDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIEDYMAKLKDTSTSGA 586 (1036)
Q Consensus 516 pggvLVfFpSy~~--------l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~-~~~~~~~i~~f~~~i~~~~~~ga 586 (1036)
.+.++||+|..+. .+.+++.|.+... ..+-.++.++- ..+...+++.|++ ++..
T Consensus 448 g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~-----------~~~v~~lHG~m~~~eR~~i~~~F~~------g~~~ 510 (630)
T TIGR00643 448 GRQAYVVYPLIEESEKLDLKAAEALYERLKKAFP-----------KYNVGLLHGRMKSDEKEAVMEEFRE------GEVD 510 (630)
T ss_pred CCcEEEEEccccccccchHHHHHHHHHHHHhhCC-----------CCcEEEEeCCCCHHHHHHHHHHHHc------CCCC
Confidence 4689999997643 3333444432110 11122344432 2456778888885 5678
Q ss_pred EEEEEccCCccccccCCCCCceEEEEeCCC
Q 001656 587 VFFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (1036)
Q Consensus 587 VLfaV~rGk~sEGIDf~gd~~R~VIIvGLP 616 (1036)
||+|+ .-+..|||+++ .+.||+...|
T Consensus 511 ILVaT--~vie~GvDiP~--v~~VIi~~~~ 536 (630)
T TIGR00643 511 ILVAT--TVIEVGVDVPN--ATVMVIEDAE 536 (630)
T ss_pred EEEEC--ceeecCcccCC--CcEEEEeCCC
Confidence 99988 79999999998 5678877654
No 113
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=95.27 E-value=0.038 Score=67.25 Aligned_cols=70 Identities=24% Similarity=0.331 Sum_probs=55.0
Q ss_pred ecCCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCC
Q 001656 11 VEFPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQS 89 (1036)
Q Consensus 11 v~FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~ 89 (1036)
-.|.|+ .|++|.+ |++++-+++++++=-|||.|||+||-+|||..
T Consensus 11 ~~fGy~~FR~gQ~e----vI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~------------------------------ 56 (590)
T COG0514 11 QVFGYASFRPGQQE----IIDALLSGKDTLVVMPTGGGKSLCYQIPALLL------------------------------ 56 (590)
T ss_pred HHhCccccCCCHHH----HHHHHHcCCcEEEEccCCCCcchHhhhHHHhc------------------------------
Confidence 468888 4789995 67777788999999999999999999999953
Q ss_pred CCCCCCeEEEEcCCHHHHHHHHHHHHhcC
Q 001656 90 GDSKLPTILYTSRTHSQLRQVIQELKTSN 118 (1036)
Q Consensus 90 ~~~~~pkIiy~TRThsQl~Qvv~ELrkl~ 118 (1036)
+.. .++.|.=.++++.=|..|+..|
T Consensus 57 ---~G~-TLVVSPLiSLM~DQV~~l~~~G 81 (590)
T COG0514 57 ---EGL-TLVVSPLISLMKDQVDQLEAAG 81 (590)
T ss_pred ---CCC-EEEECchHHHHHHHHHHHHHcC
Confidence 113 5556778888876677777655
No 114
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=95.22 E-value=0.16 Score=63.97 Aligned_cols=137 Identities=28% Similarity=0.302 Sum_probs=88.7
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhH--HHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCe
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTL--CLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTL--a~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pk 96 (1036)
.-|++. +..+|.....+++.+=+|||||- |.|+-+|.+ .+ .+
T Consensus 672 ~dQr~A---~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~---~g------------------------------kk 715 (1100)
T KOG1805|consen 672 NDQRQA---LLKALAAEDYALILGMPGTGKTTTISLLIKILVA---LG------------------------------KK 715 (1100)
T ss_pred HHHHHH---HHHHHhccchheeecCCCCCchhhHHHHHHHHHH---cC------------------------------Ce
Confidence 457765 45567778899999999999985 344443332 22 48
Q ss_pred EEEEcCCHHHHHHHHHHHHhcCCCCeEEEeCCcccccccHHHHhhhcccchHHhHHHhhccCCCcCcccccHHHHhhhCC
Q 001656 97 ILYTSRTHSQLRQVIQELKTSNYRPKMVILGSREQLCIHREVSLLRGSAQNNACRFLCKKGTNRRCNHHSRVADYMKNNP 176 (1036)
Q Consensus 97 Iiy~TRThsQl~Qvv~ELrkl~~~~k~~vLgSR~~lCin~~v~~l~~~~~~~~C~~L~k~~~~~~C~~~~~l~~~~~~~~ 176 (1036)
|..++-||+-.+-++-.|+..+. -+.=||+.+. +++.++.. |
T Consensus 716 VLLtsyThsAVDNILiKL~~~~i--~~lRLG~~~k--ih~~v~e~--------~-------------------------- 757 (1100)
T KOG1805|consen 716 VLLTSYTHSAVDNILIKLKGFGI--YILRLGSEEK--IHPDVEEF--------T-------------------------- 757 (1100)
T ss_pred EEEEehhhHHHHHHHHHHhccCc--ceeecCCccc--cchHHHHH--------h--------------------------
Confidence 99999999999999988886542 2333454322 33333211 1
Q ss_pred CCCCCCCChhhHhhhccCCCCchhHHHHhhhcCccEEEeccccccCHhhhhccCCCCCCcEEEEeCccChHH
Q 001656 177 HLGDEPIDIEDLVNIGRTFGPCPYFMTRELQKTVDIVFAPYNYLIDPWFRKGLGVEWKNSILIFDEAHNLEG 248 (1036)
Q Consensus 177 ~~~~~~~dIedlv~~g~~~~~CPY~~aR~~~~~ADIIv~nYnYLld~~ir~~l~i~~~~~IlIfDEAHNLed 248 (1036)
. +.....|-|..-+.....-.||.|+---+-+|... ....++.|||||-.+..
T Consensus 758 -------------~-~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~plf~-----~R~FD~cIiDEASQI~l 810 (1100)
T KOG1805|consen 758 -------------L-TNETSEKSYADLKKFLDQTSIVACTCLGINHPLFV-----NRQFDYCIIDEASQILL 810 (1100)
T ss_pred -------------c-ccccchhhHHHHHHHhCCCcEEEEEccCCCchhhh-----ccccCEEEEcccccccc
Confidence 0 12344577777777778888888877666566543 12457899999966543
No 115
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=95.16 E-value=0.11 Score=63.64 Aligned_cols=86 Identities=23% Similarity=0.318 Sum_probs=66.2
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHcCC--ceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCC
Q 001656 11 VEFPFEAYDCQLVYMEKVIQSLQNKC--NALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQ 88 (1036)
Q Consensus 11 v~FPfepy~~Q~e~m~~V~~aL~~~k--~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q 88 (1036)
-.-||+.-..|+.....|..-+.... +=+|.+-.|+|||+..++++++-... +
T Consensus 257 ~~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~-G------------------------ 311 (677)
T COG1200 257 AALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEA-G------------------------ 311 (677)
T ss_pred HhCCCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHc-C------------------------
Confidence 35699999999999999999998884 46899999999999999998864332 2
Q ss_pred CCCCCCCeEEEEcCCHHHHHHHHHHHHhc--CCCCeEEEeC
Q 001656 89 SGDSKLPTILYTSRTHSQLRQVIQELKTS--NYRPKMVILG 127 (1036)
Q Consensus 89 ~~~~~~pkIiy~TRThsQl~Qvv~ELrkl--~~~~k~~vLg 127 (1036)
-++.....|--+.+|-...+++. .+.+++++|.
T Consensus 312 ------~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLt 346 (677)
T COG1200 312 ------YQAALMAPTEILAEQHYESLRKWLEPLGIRVALLT 346 (677)
T ss_pred ------CeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEee
Confidence 25666777888889988887763 1234555554
No 116
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=95.00 E-value=0.029 Score=45.54 Aligned_cols=46 Identities=26% Similarity=0.570 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHhhhhhchHHHHHHHHHhhcCCCChhhhhccccccc
Q 001656 974 TEYKEFVGFMKAMKSKAMKISHVLQSIAKLFAGPERLPLLRRFKDYVP 1021 (1036)
Q Consensus 974 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1021 (1036)
+-|.+|+.-|+..+.+.+...+|.+.++.||.|= --||.+|+.|+|
T Consensus 2 ~~Y~~FL~il~~y~~~~~~~~~v~~~v~~Ll~~h--pdLl~~F~~FlP 47 (47)
T PF02671_consen 2 EVYNEFLKILNDYKKGRISRSEVIEEVSELLRGH--PDLLEEFNRFLP 47 (47)
T ss_dssp HHHHHHHHHHHHHHCTCSCHHHHHHHHHHHTTT---HHHHHHHHHHSS
T ss_pred hHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHccC--HHHHHHHHhhCc
Confidence 4699999999999999999999999999999874 358999999998
No 117
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=94.97 E-value=0.11 Score=61.83 Aligned_cols=174 Identities=15% Similarity=0.196 Sum_probs=100.2
Q ss_pred CCeEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHH--H
Q 001656 435 VGSIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNI--A 512 (1036)
Q Consensus 435 ~~svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l--~ 512 (1036)
--.+|..|||......++..||.+....-+.|.+++. ++ ++..+ .......+..|++.=..- .
T Consensus 372 ~AQ~i~LSATVgNp~elA~~l~a~lV~y~~RPVplEr-Hl---vf~~~-----------e~eK~~ii~~L~k~E~~~~ss 436 (830)
T COG1202 372 GAQFIYLSATVGNPEELAKKLGAKLVLYDERPVPLER-HL---VFARN-----------ESEKWDIIARLVKREFSTESS 436 (830)
T ss_pred CCeEEEEEeecCChHHHHHHhCCeeEeecCCCCChhH-ee---eeecC-----------chHHHHHHHHHHHHHHhhhhc
Confidence 4589999999999999999999874333234444432 22 22211 011112222222211111 1
Q ss_pred HHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCC-CCChHHHHHHHHHHhccCCCCCeEEEEE
Q 001656 513 RIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIEDYMAKLKDTSTSGAVFFAV 591 (1036)
Q Consensus 513 ~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~-~~~~~~~i~~f~~~i~~~~~~gaVLfaV 591 (1036)
..-.|.++||..|...-..++..+...+.. .-.+...- ..+...+=..|.+ +.=++.+.+
T Consensus 437 kg~rGQtIVFT~SRrr~h~lA~~L~~kG~~-------------a~pYHaGL~y~eRk~vE~~F~~------q~l~~VVTT 497 (830)
T COG1202 437 KGYRGQTIVFTYSRRRCHELADALTGKGLK-------------AAPYHAGLPYKERKSVERAFAA------QELAAVVTT 497 (830)
T ss_pred cCcCCceEEEecchhhHHHHHHHhhcCCcc-------------cccccCCCcHHHHHHHHHHHhc------CCcceEeeh
Confidence 123589999999999999999988754321 01111110 0111112234432 344555555
Q ss_pred ccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCC
Q 001656 592 CRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGR 671 (1036)
Q Consensus 592 ~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGR 671 (1036)
..++-|+|||... .+ ++. ...|.+|..+ +-+.|.+||
T Consensus 498 --AAL~AGVDFPASQ-----------------VI------FEs---------------LaMG~~WLs~---~EF~QM~GR 534 (830)
T COG1202 498 --AALAAGVDFPASQ-----------------VI------FES---------------LAMGIEWLSV---REFQQMLGR 534 (830)
T ss_pred --hhhhcCCCCchHH-----------------HH------HHH---------------HHcccccCCH---HHHHHHhcc
Confidence 7899999998732 11 010 1246788875 778899999
Q ss_pred ccccC-CCcEEEEEE
Q 001656 672 VIRHR-HDYGAIIFC 685 (1036)
Q Consensus 672 lIR~~-~D~G~viLl 685 (1036)
.=|-. +|+|.|+|+
T Consensus 535 AGRp~yHdrGkVyll 549 (830)
T COG1202 535 AGRPDYHDRGKVYLL 549 (830)
T ss_pred cCCCCcccCceEEEE
Confidence 98855 799999998
No 118
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=94.96 E-value=0.043 Score=48.17 Aligned_cols=42 Identities=21% Similarity=0.288 Sum_probs=32.4
Q ss_pred ChHHHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCC
Q 001656 566 LFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 566 ~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
+....++.|.. ....||+++ ..+++|+|+++ ++.||+.+.|+
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 345788877 79999999988 88999999865
No 119
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=94.93 E-value=0.041 Score=65.37 Aligned_cols=66 Identities=24% Similarity=0.171 Sum_probs=48.3
Q ss_pred CHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeE
Q 001656 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTI 97 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkI 97 (1036)
.|.|.- .|...|-+|++.++-|+|+|||||.-=++.+.-+.. ...|.
T Consensus 218 lPVQ~l---aVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~------------------------------~g~Km 264 (830)
T COG1202 218 LPVQVL---AVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLS------------------------------GGKKM 264 (830)
T ss_pred cchhhh---hhhhccccCCceEEEeccCCCcchHHHhhCcHHHHh------------------------------CCCeE
Confidence 355543 567788899999999999999998766665543322 22478
Q ss_pred EEEcCCHHHHHHHHHHHHh
Q 001656 98 LYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 98 iy~TRThsQl~Qvv~ELrk 116 (1036)
+|.+.-..+.+|=-+++++
T Consensus 265 lfLvPLVALANQKy~dF~~ 283 (830)
T COG1202 265 LFLVPLVALANQKYEDFKE 283 (830)
T ss_pred EEEehhHHhhcchHHHHHH
Confidence 9999888888887777664
No 120
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=94.73 E-value=0.14 Score=65.03 Aligned_cols=140 Identities=14% Similarity=0.082 Sum_probs=79.8
Q ss_pred HHHHHHhhhccCCeEEEEccCCCCh-HHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHH
Q 001656 424 GIAMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQ 502 (1036)
Q Consensus 424 s~~~~~ll~~~~~svIltSgTLsp~-~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~ 502 (1036)
+..++.++. ....+--|+||...- +.|....|++... +|.+.-.. -.+-|+ .-|.+. .+-..
T Consensus 374 sIT~QnfFr-~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~-------IPTnkP~~--R~D~~d-----~vy~t~--~eK~~ 436 (913)
T PRK13103 374 STTFQNYFR-LYNKLSGMTGTADTEAFEFRQIYGLDVVV-------IPPNKPLA--RKDFND-----LVYLTA--EEKYA 436 (913)
T ss_pred eehHHHHHH-hcchhccCCCCCHHHHHHHHHHhCCCEEE-------CCCCCCcc--cccCCC-----eEEcCH--HHHHH
Confidence 345666665 567889999999763 4577777776321 11111000 001111 112222 33346
Q ss_pred HHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCC
Q 001656 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTS 582 (1036)
Q Consensus 503 ~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~ 582 (1036)
++.+.|.++.+ ....|||-+.|-+.-+.+...++..... -.+.+- +....=.++++ ..+
T Consensus 437 Ai~~ei~~~~~-~GrPVLVGT~SVe~SE~ls~~L~~~gi~------h~VLNA-------k~~~~EA~IIa-------~AG 495 (913)
T PRK13103 437 AIITDIKECMA-LGRPVLVGTATIETSEHMSNLLKKEGIE------HKVLNA-------KYHEKEAEIIA-------QAG 495 (913)
T ss_pred HHHHHHHHHHh-CCCCEEEEeCCHHHHHHHHHHHHHcCCc------HHHhcc-------ccchhHHHHHH-------cCC
Confidence 77777776664 5669999999999999998888765321 111111 11111112222 224
Q ss_pred CCCeEEEEEccCCccccccCC
Q 001656 583 TSGAVFFAVCRGKVSEGLDFA 603 (1036)
Q Consensus 583 ~~gaVLfaV~rGk~sEGIDf~ 603 (1036)
..|+|-+|+ .-...|-|+.
T Consensus 496 ~~GaVTIAT--NMAGRGTDIk 514 (913)
T PRK13103 496 RPGALTIAT--NMAGRGTDIL 514 (913)
T ss_pred CCCcEEEec--cCCCCCCCEe
Confidence 579999998 7888999985
No 121
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=94.68 E-value=0.038 Score=65.31 Aligned_cols=73 Identities=25% Similarity=0.230 Sum_probs=51.5
Q ss_pred cCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQE 113 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~E 113 (1036)
.|+-+|--|-||+|||||+|+|+|...-..+= + +.+.--.++.|.|..+.-|.+.-
T Consensus 105 ~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kW--------------s----------~~DGlGalIISPTRELA~QtFev 160 (758)
T KOG0343|consen 105 QGHDVLGAAKTGSGKTLAFLVPVLEALYRLKW--------------S----------PTDGLGALIISPTRELALQTFEV 160 (758)
T ss_pred cCcccccccccCCCceeeehHHHHHHHHHcCC--------------C----------CCCCceeEEecchHHHHHHHHHH
Confidence 46778899999999999999999974433221 0 11233466778899999999999
Q ss_pred HHhcCCC--CeE-EEeCCcc
Q 001656 114 LKTSNYR--PKM-VILGSRE 130 (1036)
Q Consensus 114 Lrkl~~~--~k~-~vLgSR~ 130 (1036)
|++++-. ..+ .|+||++
T Consensus 161 L~kvgk~h~fSaGLiiGG~~ 180 (758)
T KOG0343|consen 161 LNKVGKHHDFSAGLIIGGKD 180 (758)
T ss_pred HHHHhhccccccceeecCch
Confidence 9988642 333 2566554
No 122
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=94.61 E-value=0.06 Score=68.09 Aligned_cols=79 Identities=19% Similarity=0.224 Sum_probs=58.8
Q ss_pred cCCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCC
Q 001656 12 EFPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (1036)
Q Consensus 12 ~FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~ 90 (1036)
.+.|+ |++.|.+++= ++-.|+-+|--|-||+|||++||+|.+........ ..
T Consensus 382 kl~y~k~~~IQ~qAiP----~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQr~-----------------------~~ 434 (997)
T KOG0334|consen 382 KLGYEKPTPIQAQAIP----AIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRP-----------------------LE 434 (997)
T ss_pred HhcCCCCcchhhhhcc----hhccCcceEEeeccCCccchhhhcchhhhhhcCCC-----------------------hh
Confidence 34565 6788877554 44578999999999999999999999844332111 11
Q ss_pred CCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 91 DSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 91 ~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..+.|--++.+.|..+..|+-+++++.
T Consensus 435 ~gdGPi~li~aPtrela~QI~r~~~kf 461 (997)
T KOG0334|consen 435 EGDGPIALILAPTRELAMQIHREVRKF 461 (997)
T ss_pred hCCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 225688899999999999999998763
No 123
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=94.33 E-value=0.087 Score=62.16 Aligned_cols=78 Identities=19% Similarity=0.191 Sum_probs=56.8
Q ss_pred CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCe
Q 001656 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pk 96 (1036)
|-|.|+..+- ...+.+..|.-|-||+|||+|+|.|.|.|........ .+......|.
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 5667766443 4456688899999999999999999999987654210 0011225578
Q ss_pred EEEEcCCHHHHHHHHHHHHhc
Q 001656 97 ILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 97 Iiy~TRThsQl~Qvv~ELrkl 117 (1036)
.++...|..+..|+..|-.+.
T Consensus 325 aiilaptReLaqqIeeEt~kf 345 (673)
T KOG0333|consen 325 AIILAPTRELAQQIEEETNKF 345 (673)
T ss_pred eeeechHHHHHHHHHHHHHHh
Confidence 888888988888888887664
No 124
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=94.30 E-value=0.16 Score=53.87 Aligned_cols=61 Identities=20% Similarity=0.275 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHcC-CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeE
Q 001656 19 DCQLVYMEKVIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTI 97 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~-k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkI 97 (1036)
+.|++++..+. .++ +..++.+|.|||||..+-..+-.|.. .+ .+|
T Consensus 4 ~~Q~~a~~~~l---~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~-~g------------------------------~~v 49 (196)
T PF13604_consen 4 EEQREAVRAIL---TSGDRVSVLQGPAGTGKTTLLKALAEALEA-AG------------------------------KRV 49 (196)
T ss_dssp HHHHHHHHHHH---HCTCSEEEEEESTTSTHHHHHHHHHHHHHH-TT--------------------------------E
T ss_pred HHHHHHHHHHH---hcCCeEEEEEECCCCCHHHHHHHHHHHHHh-CC------------------------------CeE
Confidence 67998887764 344 57999999999999854332223332 22 479
Q ss_pred EEEcCCHHHHHHHHHH
Q 001656 98 LYTSRTHSQLRQVIQE 113 (1036)
Q Consensus 98 iy~TRThsQl~Qvv~E 113 (1036)
++++.||.....+-++
T Consensus 50 ~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 50 IGLAPTNKAAKELREK 65 (196)
T ss_dssp EEEESSHHHHHHHHHH
T ss_pred EEECCcHHHHHHHHHh
Confidence 9999999998775554
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=94.28 E-value=0.072 Score=64.72 Aligned_cols=77 Identities=13% Similarity=0.215 Sum_probs=52.2
Q ss_pred hHHHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchh
Q 001656 567 FPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKET 646 (1036)
Q Consensus 567 ~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~ 646 (1036)
...+++.|+. ++-.||+|+ .-++.|+||++ ..+|+|+..-..-- -|
T Consensus 301 ~~~~l~~f~~------g~~~ILVgT--~~i~kG~d~~~--v~lV~vl~aD~~l~-~p----------------------- 346 (505)
T TIGR00595 301 HEALLNQFAN------GKADILIGT--QMIAKGHHFPN--VTLVGVLDADSGLH-SP----------------------- 346 (505)
T ss_pred HHHHHHHHhc------CCCCEEEeC--cccccCCCCCc--ccEEEEEcCccccc-Cc-----------------------
Confidence 4667888874 567899998 67999999998 66787776432100 00
Q ss_pred hcccCCcccchHHHHHHHHHHhhCCccccCCCcEEEEEE
Q 001656 647 KLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIFC 685 (1036)
Q Consensus 647 ~~~~l~g~~wy~~~A~r~v~QaiGRlIR~~~D~G~viLl 685 (1036)
.-+....++..+.|.+||.=|... .|-++|.
T Consensus 347 -------d~ra~E~~~~ll~q~~GRagR~~~-~g~viiq 377 (505)
T TIGR00595 347 -------DFRAAERGFQLLTQVAGRAGRAED-PGQVIIQ 377 (505)
T ss_pred -------ccchHHHHHHHHHHHHhccCCCCC-CCEEEEE
Confidence 011234578889999999988654 4766653
No 126
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=94.20 E-value=0.14 Score=64.74 Aligned_cols=65 Identities=18% Similarity=0.219 Sum_probs=47.3
Q ss_pred HHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHH
Q 001656 31 SLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQV 110 (1036)
Q Consensus 31 aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qv 110 (1036)
|...+.|.|+.||||+|||-.+++..|.-.++... +-+..++.-||||.+.++++....
T Consensus 122 aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~---------------------~~~i~k~~fKiVYIaPmKALa~Em 180 (1230)
T KOG0952|consen 122 AYKSNENMLICAPTGSGKTVLAELCILRTIKEHEE---------------------QGDIAKDDFKIVYIAPMKALAAEM 180 (1230)
T ss_pred hhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhcc---------------------ccccccCCceEEEEechHHHHHHH
Confidence 34567999999999999999988887754443110 001233557999999999998888
Q ss_pred HHHHHh
Q 001656 111 IQELKT 116 (1036)
Q Consensus 111 v~ELrk 116 (1036)
++...+
T Consensus 181 ~~~~~k 186 (1230)
T KOG0952|consen 181 VDKFSK 186 (1230)
T ss_pred HHHHhh
Confidence 887543
No 127
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=94.05 E-value=0.42 Score=57.20 Aligned_cols=76 Identities=17% Similarity=0.197 Sum_probs=53.4
Q ss_pred CCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccCC
Q 001656 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGK 595 (1036)
Q Consensus 516 pggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk 595 (1036)
..+++||..+-...+.+...+.... + .. .+.-.....+..++++.|+. +.--+|+++ .-
T Consensus 283 ~~~~lif~~~~~~a~~i~~~~~~~~------~------~~-~it~~t~~~eR~~il~~fr~------g~~~~lv~~--~v 341 (442)
T COG1061 283 GDKTLIFASDVEHAYEIAKLFLAPG------I------VE-AITGETPKEEREAILERFRT------GGIKVLVTV--KV 341 (442)
T ss_pred CCcEEEEeccHHHHHHHHHHhcCCC------c------eE-EEECCCCHHHHHHHHHHHHc------CCCCEEEEe--ee
Confidence 4599999999999988887665421 0 00 11111223567788999986 335677777 78
Q ss_pred ccccccCCCCCceEEEEeC
Q 001656 596 VSEGLDFADHAGRAVVITG 614 (1036)
Q Consensus 596 ~sEGIDf~gd~~R~VIIvG 614 (1036)
+.||+|+|+ +.++|+++
T Consensus 342 l~EGvDiP~--~~~~i~~~ 358 (442)
T COG1061 342 LDEGVDIPD--ADVLIILR 358 (442)
T ss_pred ccceecCCC--CcEEEEeC
Confidence 999999999 67788886
No 128
>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=93.64 E-value=0.63 Score=58.60 Aligned_cols=17 Identities=29% Similarity=0.599 Sum_probs=13.3
Q ss_pred HHHHHHhhCCccccCCC
Q 001656 662 SRAVNQAVGRVIRHRHD 678 (1036)
Q Consensus 662 ~r~v~QaiGRlIR~~~D 678 (1036)
.+...|++||+.|-..+
T Consensus 574 ~~q~iQRlGRilR~~~~ 590 (732)
T TIGR00603 574 RRQEAQRLGRILRAKKG 590 (732)
T ss_pred HHHHHHHhcccccCCCC
Confidence 35667999999998754
No 129
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=93.62 E-value=0.12 Score=57.47 Aligned_cols=41 Identities=24% Similarity=0.290 Sum_probs=34.7
Q ss_pred CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
.-+..+++.+.+..++..+.+++|++|+|||||... -+|+.
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 45654
No 130
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=93.49 E-value=0.59 Score=58.74 Aligned_cols=74 Identities=20% Similarity=0.280 Sum_probs=58.6
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHcC-CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCC
Q 001656 10 DVEFPFEAYDCQLVYMEKVIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQ 88 (1036)
Q Consensus 10 ~v~FPfepy~~Q~e~m~~V~~aL~~~-k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q 88 (1036)
.+.-||+|...|..-...+.+++.++ +..++.+.||+|||+.+ +.+. +..+
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 36678999999999999999999876 36779999999999964 3332 2211
Q ss_pred CCCCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 89 SGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 89 ~~~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..+++.|.+..+..|+..+|+..
T Consensus 58 ------r~vLIVt~~~~~A~~l~~dL~~~ 80 (652)
T PRK05298 58 ------RPTLVLAHNKTLAAQLYSEFKEF 80 (652)
T ss_pred ------CCEEEEECCHHHHHHHHHHHHHh
Confidence 24888888999999999999864
No 131
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=93.25 E-value=0.24 Score=61.06 Aligned_cols=100 Identities=13% Similarity=0.183 Sum_probs=56.3
Q ss_pred HHHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCC-CCChHHHHHHHHHHhc
Q 001656 501 KQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIEDYMAKLK 579 (1036)
Q Consensus 501 ~~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~-~~~~~~~i~~f~~~i~ 579 (1036)
++.|...|..+.. .|--+++|.=+..|-.+.+..-... ..+..-+.+.. -.....+|++|...
T Consensus 763 ~r~L~~LLp~~k~--~G~RVLiFSQFTqmLDILE~~L~~l------------~~~ylRLDGsTqV~~RQ~lId~Fn~d-- 826 (941)
T KOG0389|consen 763 CRKLKELLPKIKK--KGDRVLIFSQFTQMLDILEVVLDTL------------GYKYLRLDGSTQVNDRQDLIDEFNTD-- 826 (941)
T ss_pred HhHHHHHHHHHhh--cCCEEEEeeHHHHHHHHHHHHHHhc------------CceEEeecCCccchHHHHHHHhhccC--
Confidence 3556666655553 3555667777777776665443221 11111111111 13456788999751
Q ss_pred cCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCC
Q 001656 580 DTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTD 622 (1036)
Q Consensus 580 ~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~D 622 (1036)
..-...|+++--| .=||++.. +-.|||.-+-|-|.+|
T Consensus 827 --~difVFLLSTKAG--G~GINLt~--An~VIihD~dFNP~dD 863 (941)
T KOG0389|consen 827 --KDIFVFLLSTKAG--GFGINLTC--ANTVIIHDIDFNPYDD 863 (941)
T ss_pred --CceEEEEEeeccC--cceecccc--cceEEEeecCCCCccc
Confidence 1223455555333 34898877 6789999999976665
No 132
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=93.21 E-value=0.41 Score=58.98 Aligned_cols=81 Identities=26% Similarity=0.298 Sum_probs=62.1
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCC
Q 001656 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLP 95 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~p 95 (1036)
+.|+-|.+=++=++.-..+|-++|+--.-|-|||+-.+ +.|+|.+.... -..|
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtI-s~l~yl~~~~~--------------------------~~GP 219 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTI-SLLGYLKGRKG--------------------------IPGP 219 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHH-HHHHHHHHhcC--------------------------CCCC
Confidence 46889999999999999999999999999999999876 55778776432 1447
Q ss_pred eEEEEcCCHHHHHHHHHHHHhcCCCCeEEE
Q 001656 96 TILYTSRTHSQLRQVIQELKTSNYRPKMVI 125 (1036)
Q Consensus 96 kIiy~TRThsQl~Qvv~ELrkl~~~~k~~v 125 (1036)
-+|+|. .|-+...++|+++.-...++++
T Consensus 220 fLVi~P--~StL~NW~~Ef~rf~P~l~~~~ 247 (971)
T KOG0385|consen 220 FLVIAP--KSTLDNWMNEFKRFTPSLNVVV 247 (971)
T ss_pred eEEEee--HhhHHHHHHHHHHhCCCcceEE
Confidence 777664 4567888999887544444443
No 133
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=92.81 E-value=0.92 Score=59.36 Aligned_cols=70 Identities=20% Similarity=0.252 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHH-Hc-----CCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 19 DCQLVYMEKVIQSL-QN-----KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL-~~-----~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
-.|...+...++.. .. ++.+++-=-||+|||+..+..|-.. ... .
T Consensus 251 ~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~~l-~~~----------------------------~ 301 (962)
T COG0610 251 YAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARLL-LEL----------------------------P 301 (962)
T ss_pred HHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHHHH-Hhc----------------------------c
Confidence 35666566333333 22 2459999999999999888776432 221 2
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..|+|++.|-...+-.|+.+++.+.
T Consensus 302 ~~~~v~fvvDR~dLd~Q~~~~f~~~ 326 (962)
T COG0610 302 KNPKVLFVVDRKDLDDQTSDEFQSF 326 (962)
T ss_pred CCCeEEEEechHHHHHHHHHHHHHH
Confidence 5689999999999999999988764
No 134
>PHA02244 ATPase-like protein
Probab=92.80 E-value=0.2 Score=58.11 Aligned_cols=48 Identities=13% Similarity=0.130 Sum_probs=36.1
Q ss_pred ecCCCCCC-HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHH
Q 001656 11 VEFPFEAY-DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 11 v~FPfepy-~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
+.|||-.. +.+......+...+..+.+++|.+|||||||. |+-+|++.
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 56677543 44444445778999999999999999999998 55666654
No 135
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=92.76 E-value=0.39 Score=61.73 Aligned_cols=52 Identities=19% Similarity=0.234 Sum_probs=41.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcC----------------------------------CceEEeccCCCChhHHHHHHHHH
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNK----------------------------------CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~----------------------------------k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
|-|+-=|.|.+...+|..+|..= .++.++.+||||||++||...+.
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 55666789999999999988531 37999999999999999988776
Q ss_pred HHhhhc
Q 001656 59 WRKSLG 64 (1036)
Q Consensus 59 ~~~~~~ 64 (1036)
..+..+
T Consensus 83 l~~~~~ 88 (986)
T PRK15483 83 LHQKYG 88 (986)
T ss_pred HHHHcC
Confidence 555444
No 136
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=92.64 E-value=0.2 Score=63.60 Aligned_cols=140 Identities=14% Similarity=0.084 Sum_probs=79.0
Q ss_pred HHHHHhhhccCCeEEEEccCCCCh-HHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHH
Q 001656 425 IAMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQE 503 (1036)
Q Consensus 425 ~~~~~ll~~~~~svIltSgTLsp~-~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~ 503 (1036)
..++.++. ..+.+--|+||...- ..|.+..|++... +|.+.-... .+-|+ .-|.+. .+-..+
T Consensus 375 IT~QnfFr-~Y~kL~GMTGTa~te~~Ef~~iY~l~Vv~-------IPTnkp~~R--~d~~d-----~iy~t~--~~K~~A 437 (908)
T PRK13107 375 ITFQNYFR-QYEKLAGMTGTADTEAFEFQHIYGLDTVV-------VPTNRPMVR--KDMAD-----LVYLTA--DEKYQA 437 (908)
T ss_pred ehHHHHHH-hhhHhhcccCCChHHHHHHHHHhCCCEEE-------CCCCCCccc--eeCCC-----cEEeCH--HHHHHH
Confidence 44566655 566888899999763 3467777775321 111110000 01111 123222 233457
Q ss_pred HHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhccCC
Q 001656 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTS 582 (1036)
Q Consensus 504 l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~~~ 582 (1036)
+.+.|.++.+ ....+|||+.|-..-+.+...+...... ..++..+.. .+... +....
T Consensus 438 ii~ei~~~~~-~GrpVLV~t~sv~~se~ls~~L~~~gi~-------------~~vLnak~~~~Ea~i--------i~~Ag 495 (908)
T PRK13107 438 IIKDIKDCRE-RGQPVLVGTVSIEQSELLARLMVKEKIP-------------HEVLNAKFHEREAEI--------VAQAG 495 (908)
T ss_pred HHHHHHHHHH-cCCCEEEEeCcHHHHHHHHHHHHHCCCC-------------eEeccCcccHHHHHH--------HHhCC
Confidence 7777777764 4669999999999999888877764321 112222221 11111 11223
Q ss_pred CCCeEEEEEccCCccccccCCCC
Q 001656 583 TSGAVFFAVCRGKVSEGLDFADH 605 (1036)
Q Consensus 583 ~~gaVLfaV~rGk~sEGIDf~gd 605 (1036)
..|+|++|+ .-...|+|+.=.
T Consensus 496 ~~G~VtIAT--nmAGRGTDIkLg 516 (908)
T PRK13107 496 RTGAVTIAT--NMAGRGTDIVLG 516 (908)
T ss_pred CCCcEEEec--CCcCCCcceecC
Confidence 468899988 788999999643
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=92.26 E-value=0.32 Score=54.34 Aligned_cols=54 Identities=22% Similarity=0.257 Sum_probs=35.4
Q ss_pred cCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQE 113 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~E 113 (1036)
..++++|.|+.|||||.+++.-+ +|.-..+. -+..+|++.|-|..-...+...
T Consensus 12 ~~~~~lV~a~AGSGKT~~l~~ri-~~ll~~~~--------------------------~~~~~Il~lTft~~aa~e~~~r 64 (315)
T PF00580_consen 12 TEGPLLVNAGAGSGKTTTLLERI-AYLLYEGG--------------------------VPPERILVLTFTNAAAQEMRER 64 (315)
T ss_dssp -SSEEEEEE-TTSSHHHHHHHHH-HHHHHTSS--------------------------STGGGEEEEESSHHHHHHHHHH
T ss_pred CCCCEEEEeCCCCCchHHHHHHH-HHhhcccc--------------------------CChHHheecccCHHHHHHHHHH
Confidence 46899999999999999877554 34433221 0234799999998865544443
Q ss_pred H
Q 001656 114 L 114 (1036)
Q Consensus 114 L 114 (1036)
+
T Consensus 65 i 65 (315)
T PF00580_consen 65 I 65 (315)
T ss_dssp H
T ss_pred H
Confidence 3
No 138
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=92.25 E-value=1.1 Score=58.20 Aligned_cols=86 Identities=20% Similarity=0.239 Sum_probs=67.0
Q ss_pred eecCCCCCCHHHHHHHHHHHHHHHcCCc--eEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCC
Q 001656 10 DVEFPFEAYDCQLVYMEKVIQSLQNKCN--ALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSS 87 (1036)
Q Consensus 10 ~v~FPfepy~~Q~e~m~~V~~aL~~~k~--~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (1036)
+-.|||+.-+=|..-++.|.+=+.+++. =|+.+-.|.|||=..+=||..-..
T Consensus 588 ~~~FPyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~-------------------------- 641 (1139)
T COG1197 588 EASFPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM-------------------------- 641 (1139)
T ss_pred HhcCCCcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhc--------------------------
Confidence 3579999999999999999999999988 589999999999998877653221
Q ss_pred CCCCCCCCeEEEEcCCHHHHHHHHHHHHh--cCCCCeEEEe
Q 001656 88 QSGDSKLPTILYTSRTHSQLRQVIQELKT--SNYRPKMVIL 126 (1036)
Q Consensus 88 q~~~~~~pkIiy~TRThsQl~Qvv~ELrk--l~~~~k~~vL 126 (1036)
+.++|.+.+.|--+.+|=.+-++. -++.+++.+|
T Consensus 642 -----~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~L 677 (1139)
T COG1197 642 -----DGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVL 677 (1139)
T ss_pred -----CCCeEEEEcccHHhHHHHHHHHHHHhcCCCeeEEEe
Confidence 336899999988888887776653 2444444443
No 139
>PRK13766 Hef nuclease; Provisional
Probab=92.23 E-value=1.1 Score=57.30 Aligned_cols=92 Identities=10% Similarity=0.064 Sum_probs=61.4
Q ss_pred HHHHHHHHHHHHH-cCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCC---------CCCChHHHH
Q 001656 502 QELGNTIVNIARI-VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR---------QSSLFPLAI 571 (1036)
Q Consensus 502 ~~l~~~I~~l~~~-vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~---------~~~~~~~~i 571 (1036)
+.|.+.|..+... ..+.+|||+.+....+.+.+.+...... ...+.+. ...+...++
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 5566666666653 4568999999999999999888653221 1111111 012344577
Q ss_pred HHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCC
Q 001656 572 EDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (1036)
Q Consensus 572 ~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLP 616 (1036)
+.|+. +...||+++ .-.+||+|+++ ++.||+...|
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 88874 456789888 68899999974 8889887643
No 140
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.96 E-value=0.16 Score=58.15 Aligned_cols=78 Identities=23% Similarity=0.291 Sum_probs=51.6
Q ss_pred CHHHHHHHHHHHHH---------------HHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCC
Q 001656 18 YDCQLVYMEKVIQS---------------LQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQS 82 (1036)
Q Consensus 18 y~~Q~e~m~~V~~a---------------L~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~ 82 (1036)
+.|=-++|+.|.++ +-+|.-++--|.|||||||+||.|++-+......
T Consensus 225 Fq~~pevmenIkK~GFqKPtPIqSQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~----------------- 287 (629)
T KOG0336|consen 225 FQCYPEVMENIKKTGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPK----------------- 287 (629)
T ss_pred HhhhHHHHHHHHhccCCCCCcchhcccceeecCcceEEEEecCCCcCHHHhccceeeeeccch-----------------
Confidence 34445677777654 3356778889999999999999998865432111
Q ss_pred ccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 83 SVNSSQSGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 83 ~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
+......|.++..|.|..+.-|+-.|.++-
T Consensus 288 -----~~~qr~~p~~lvl~ptreLalqie~e~~ky 317 (629)
T KOG0336|consen 288 -----RREQRNGPGVLVLTPTRELALQIEGEVKKY 317 (629)
T ss_pred -----hhhccCCCceEEEeccHHHHHHHHhHHhHh
Confidence 011224467777777877777776666553
No 141
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=91.92 E-value=0.54 Score=59.71 Aligned_cols=140 Identities=16% Similarity=0.143 Sum_probs=77.8
Q ss_pred HHHHHhhhccCCeEEEEccCCCCh-HHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHH
Q 001656 425 IAMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQE 503 (1036)
Q Consensus 425 ~~~~~ll~~~~~svIltSgTLsp~-~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~ 503 (1036)
..++.++. ....+.-|+||...- ..|....|++... +|.+.-... .+-|+ .-|. ...+-..+
T Consensus 365 IT~QnfFr-~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~-------IPTnkP~~R--~d~~d-----~vy~--t~~~K~~A 427 (939)
T PRK12902 365 ITYQNFFL-LYPKLAGMTGTAKTEEVEFEKTYKLEVTV-------IPTNRPRRR--QDWPD-----QVYK--TEIAKWRA 427 (939)
T ss_pred eeHHHHHh-hCchhcccCCCCHHHHHHHHHHhCCcEEE-------cCCCCCeee--ecCCC-----eEEc--CHHHHHHH
Confidence 34566655 567889999998753 3477777775321 111110000 01111 1122 22333456
Q ss_pred HHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCC--CCCChHHHHHHHHHHhccC
Q 001656 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR--QSSLFPLAIEDYMAKLKDT 581 (1036)
Q Consensus 504 l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~--~~~~~~~~i~~f~~~i~~~ 581 (1036)
+.+.|.++.. ....|||-..|-+.=+.+...+...... . -++--+ +...=.++++ ..
T Consensus 428 i~~ei~~~~~-~GrPVLIgT~SVe~SE~ls~~L~~~gi~------h-------~vLNAk~~~~~~EA~IIa-------~A 486 (939)
T PRK12902 428 VANETAEMHK-QGRPVLVGTTSVEKSELLSALLQEQGIP------H-------NLLNAKPENVEREAEIVA-------QA 486 (939)
T ss_pred HHHHHHHHHh-CCCCEEEeeCCHHHHHHHHHHHHHcCCc------h-------heeeCCCcchHhHHHHHH-------hc
Confidence 7777776654 4669999999999999888888764221 1 122111 1111112222 23
Q ss_pred CCCCeEEEEEccCCccccccCCC
Q 001656 582 STSGAVFFAVCRGKVSEGLDFAD 604 (1036)
Q Consensus 582 ~~~gaVLfaV~rGk~sEGIDf~g 604 (1036)
+..|+|-+|+ .-...|-|+.=
T Consensus 487 G~~GaVTIAT--NMAGRGTDIkL 507 (939)
T PRK12902 487 GRKGAVTIAT--NMAGRGTDIIL 507 (939)
T ss_pred CCCCcEEEec--cCCCCCcCEee
Confidence 4679999988 67788988754
No 142
>PRK09694 helicase Cas3; Provisional
Probab=91.75 E-value=3.2 Score=53.76 Aligned_cols=85 Identities=13% Similarity=0.114 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCC-Ch----HHHHHHHHHHh
Q 001656 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSS-LF----PLAIEDYMAKL 578 (1036)
Q Consensus 504 l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~-~~----~~~i~~f~~~i 578 (1036)
+.+.|.+.+. ..+.+|||+++-...+.+++.+++...+ ..+..++..+-.. +. .++++.|.+.
T Consensus 549 ~l~~i~~~~~-~g~~vLVf~NTV~~Aq~ly~~L~~~~~~----------~~~v~llHsrf~~~dR~~~E~~vl~~fgk~- 616 (878)
T PRK09694 549 LLQRMIAAAN-AGAQVCLICNLVDDAQKLYQRLKELNNT----------QVDIDLFHARFTLNDRREKEQRVIENFGKN- 616 (878)
T ss_pred HHHHHHHHHh-cCCEEEEEECCHHHHHHHHHHHHhhCCC----------CceEEEEeCCCCHHHHHHHHHHHHHHHHhc-
Confidence 3344444332 3457999999999999999998864211 0011233333211 11 2355666331
Q ss_pred ccCCCCCeEEEEEccCCccccccCC
Q 001656 579 KDTSTSGAVFFAVCRGKVSEGLDFA 603 (1036)
Q Consensus 579 ~~~~~~gaVLfaV~rGk~sEGIDf~ 603 (1036)
.....+.||+|+ --+..|||+.
T Consensus 617 -g~r~~~~ILVaT--QViE~GLDId 638 (878)
T PRK09694 617 -GKRNQGRILVAT--QVVEQSLDLD 638 (878)
T ss_pred -CCcCCCeEEEEC--cchhheeecC
Confidence 001125788887 7899999994
No 143
>PRK13531 regulatory ATPase RavA; Provisional
Probab=91.44 E-value=0.18 Score=60.26 Aligned_cols=39 Identities=15% Similarity=0.204 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
-+|.+.++.+..++..+.++++++|+|||||+ |+-+|+.
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 47889999999999999999999999999999 5455553
No 144
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=91.26 E-value=0.23 Score=56.97 Aligned_cols=41 Identities=34% Similarity=0.384 Sum_probs=36.2
Q ss_pred CHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHH
Q 001656 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
+-++.+.+..+..++..++++++|+|+|||||+ |.-+++..
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 456999999999999999999999999999999 76777643
No 145
>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=91.22 E-value=0.42 Score=50.09 Aligned_cols=26 Identities=42% Similarity=0.581 Sum_probs=19.2
Q ss_pred HHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 32 LQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 32 L~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
++++.++++-+|||||||. |+.+++.
T Consensus 44 ~~~~~~l~l~G~~G~GKTh--La~ai~~ 69 (178)
T PF01695_consen 44 IENGENLILYGPPGTGKTH--LAVAIAN 69 (178)
T ss_dssp -SC--EEEEEESTTSSHHH--HHHHHHH
T ss_pred cccCeEEEEEhhHhHHHHH--HHHHHHH
Confidence 4667999999999999999 5666654
No 146
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=90.86 E-value=1.3 Score=57.20 Aligned_cols=174 Identities=17% Similarity=0.135 Sum_probs=87.8
Q ss_pred CcHHHHHHhhhc-----cCCeEEEEccCCCChHHHHHH-hCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCC
Q 001656 422 NPGIAMQEFSRL-----EVGSIILTSGTLSPMDSFAQE-LKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNR 495 (1036)
Q Consensus 422 dPs~~~~~ll~~-----~~~svIltSgTLsp~~~f~~~-LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r 495 (1036)
+.+..++.+... ..-.+|++|||+.....|..+ +|.+|...+...........++ +.. |..... ...-|
T Consensus 214 ~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np~e~~~~l~~~~f~~~v~~~g~~~~~~~~~--~~~-p~~~~~--~~~~r 288 (851)
T COG1205 214 EVALLLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFGRDFEVPVDEDGSPRGLRYFV--RRE-PPIREL--AESIR 288 (851)
T ss_pred HHHHHHHHHHHHHhccCCCceEEEEeccccChHHHHHHhcCCcceeeccCCCCCCCceEEE--EeC-Ccchhh--hhhcc
Confidence 345566666541 234899999999977766654 4555544211111111112222 111 110000 00012
Q ss_pred CCHHHHHHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHH
Q 001656 496 DSIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYM 575 (1036)
Q Consensus 496 ~~~~y~~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~ 575 (1036)
.+ ....++..+..+++ ..-.+||||-|....+.++..........+..+...+..++-.. ...+...+.+.|+
T Consensus 289 ~s--~~~~~~~~~~~~~~-~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~----~~~er~~ie~~~~ 361 (851)
T COG1205 289 RS--ALAELATLAALLVR-NGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGL----HREERRRIEAEFK 361 (851)
T ss_pred cc--hHHHHHHHHHHHHH-cCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccC----CHHHHHHHHHHHh
Confidence 22 23445554544443 44589999999999999974333211100101111111111000 0112223445554
Q ss_pred HHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCC
Q 001656 576 AKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 576 ~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
. ++..+++++ ..+-=|||+.+ +-+||+.|+|-
T Consensus 362 ~------g~~~~~~st--~AlelgidiG~--ldavi~~g~P~ 393 (851)
T COG1205 362 E------GELLGVIAT--NALELGIDIGS--LDAVIAYGYPG 393 (851)
T ss_pred c------CCccEEecc--hhhhhceeehh--hhhHhhcCCCC
Confidence 3 456666666 78999999988 67899999887
No 147
>PRK06835 DNA replication protein DnaC; Validated
Probab=90.68 E-value=0.55 Score=54.01 Aligned_cols=24 Identities=46% Similarity=0.527 Sum_probs=19.0
Q ss_pred cCCceEEeccCCCChhHHHHHHHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
.+.+++|-+|||||||. |+.|++.
T Consensus 182 ~~~~Lll~G~~GtGKTh--La~aIa~ 205 (329)
T PRK06835 182 NNENLLFYGNTGTGKTF--LSNCIAK 205 (329)
T ss_pred cCCcEEEECCCCCcHHH--HHHHHHH
Confidence 45889999999999999 5455543
No 148
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=90.61 E-value=3.1 Score=49.64 Aligned_cols=66 Identities=24% Similarity=0.235 Sum_probs=48.7
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCC
Q 001656 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~ 94 (1036)
.++|.-|..+..+.+ . +|.|+-.|||-|||+-.+.-+..+.+..+
T Consensus 14 ie~R~YQ~~i~a~al---~--~NtLvvlPTGLGKT~IA~~V~~~~l~~~~------------------------------ 58 (542)
T COG1111 14 IEPRLYQLNIAAKAL---F--KNTLVVLPTGLGKTFIAAMVIANRLRWFG------------------------------ 58 (542)
T ss_pred ccHHHHHHHHHHHHh---h--cCeEEEecCCccHHHHHHHHHHHHHHhcC------------------------------
Confidence 578889998876554 3 39999999999999977666555554432
Q ss_pred CeEEEEcCCHHHHHHHHHHHH
Q 001656 95 PTILYTSRTHSQLRQVIQELK 115 (1036)
Q Consensus 95 pkIiy~TRThsQl~Qvv~ELr 115 (1036)
.+|++.+.|+-+..|=.+-++
T Consensus 59 ~kvlfLAPTKPLV~Qh~~~~~ 79 (542)
T COG1111 59 GKVLFLAPTKPLVLQHAEFCR 79 (542)
T ss_pred CeEEEecCCchHHHHHHHHHH
Confidence 279999999888777555444
No 149
>PRK08181 transposase; Validated
Probab=90.51 E-value=0.89 Score=50.84 Aligned_cols=39 Identities=28% Similarity=0.348 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+.|..-.....+-+.++.++++-+|+|||||. |+.+++.
T Consensus 90 ~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTH--La~Aia~ 128 (269)
T PRK08181 90 KAQVMAIAAGDSWLAKGANLLLFGPPGGGKSH--LAAAIGL 128 (269)
T ss_pred HHHHHHHHHHHHHHhcCceEEEEecCCCcHHH--HHHHHHH
Confidence 34444444333456788999999999999998 5556654
No 150
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=89.82 E-value=3.9 Score=52.85 Aligned_cols=154 Identities=17% Similarity=0.135 Sum_probs=87.0
Q ss_pred HHHHHhhhccCCeEEEEccCCCC-hHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHH
Q 001656 425 IAMQEFSRLEVGSIILTSGTLSP-MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQE 503 (1036)
Q Consensus 425 ~~~~~ll~~~~~svIltSgTLsp-~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~ 503 (1036)
..++.++. -.+.+--|+||... ...|....+++... +|.+.-.+. .+.++ .-|.+ ..+-...
T Consensus 524 IT~QnfFr-~Y~kLaGMTGTA~te~~Ef~~iY~L~Vv~-------IPTnrP~~R--~D~~d-----~vy~t--~~eK~~A 586 (1025)
T PRK12900 524 ITIQNFFR-LYKKLAGMTGTAETEASEFFEIYKLDVVV-------IPTNKPIVR--KDMDD-----LVYKT--RREKYNA 586 (1025)
T ss_pred eeHHHHHH-hchhhcccCCCChhHHHHHHHHhCCcEEE-------CCCCCCcce--ecCCC-----eEecC--HHHHHHH
Confidence 34555555 45678888888865 33566666665321 111110000 11111 11322 2233456
Q ss_pred HHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCC
Q 001656 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTST 583 (1036)
Q Consensus 504 l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~ 583 (1036)
|.+.|.+... .+..+|||+.|-...+.+...++..... ..++..++ ...+..+-.|. +.
T Consensus 587 li~~I~~~~~-~grpVLIft~Sve~sE~Ls~~L~~~gI~-------------h~vLnakq-~~REa~Iia~A------G~ 645 (1025)
T PRK12900 587 IVLKVEELQK-KGQPVLVGTASVEVSETLSRMLRAKRIA-------------HNVLNAKQ-HDREAEIVAEA------GQ 645 (1025)
T ss_pred HHHHHHHHhh-CCCCEEEEeCcHHHHHHHHHHHHHcCCC-------------ceeecCCH-HHhHHHHHHhc------CC
Confidence 6666655543 4679999999999999998888764321 11222221 12334444443 36
Q ss_pred CCeEEEEEccCCccccccCCCC-Cce---EEEEeCCCCC
Q 001656 584 SGAVFFAVCRGKVSEGLDFADH-AGR---AVVITGMPFA 618 (1036)
Q Consensus 584 ~gaVLfaV~rGk~sEGIDf~gd-~~R---~VIIvGLPfp 618 (1036)
.|+|++|+ .-...|+|++-. ... +++++|.+.|
T Consensus 646 ~g~VtIAT--NMAGRGtDIkl~~~V~~vGGL~VIgterh 682 (1025)
T PRK12900 646 KGAVTIAT--NMAGRGTDIKLGEGVRELGGLFILGSERH 682 (1025)
T ss_pred CCeEEEec--cCcCCCCCcCCccchhhhCCceeeCCCCC
Confidence 79999998 778999999833 222 3467777665
No 151
>COG1204 Superfamily II helicase [General function prediction only]
Probab=89.64 E-value=4.6 Score=51.61 Aligned_cols=91 Identities=12% Similarity=-0.046 Sum_probs=49.8
Q ss_pred CeEEEEccCCCChHHHHHHhCCCCCccccCCCcC----CCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHH
Q 001656 436 GSIILTSGTLSPMDSFAQELKLNFPLRVENPHVI----TSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNI 511 (1036)
Q Consensus 436 ~svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~----~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l 511 (1036)
-.+|-.||||...+.++..|+.+.....-.|... ...+. +. ..++-. . . ...... ...-..+...
T Consensus 181 ~rivgLSATlpN~~evA~wL~a~~~~~~~rp~~l~~~v~~~~~-~~-~~~~~~-k----~---~~~~~~-~~~~~~v~~~ 249 (766)
T COG1204 181 IRIVGLSATLPNAEEVADWLNAKLVESDWRPVPLRRGVPYVGA-FL-GADGKK-K----T---WPLLID-NLALELVLES 249 (766)
T ss_pred eEEEEEeeecCCHHHHHHHhCCcccccCCCCcccccCCccceE-EE-EecCcc-c----c---ccccch-HHHHHHHHHH
Confidence 5899999999999999999998743211111111 01111 11 111110 0 0 011111 1111222222
Q ss_pred HHHcCCcEEEEecCHHHHHHHHHHHhh
Q 001656 512 ARIVPDGLLIFFPSYYLMDQCIACWKN 538 (1036)
Q Consensus 512 ~~~vpggvLVfFpSy~~l~~v~~~~~~ 538 (1036)
. .-.|.+|||.+|...-..++..+..
T Consensus 250 ~-~~~~qvLvFv~sR~~a~~~A~~l~~ 275 (766)
T COG1204 250 L-AEGGQVLVFVHSRKEAEKTAKKLRI 275 (766)
T ss_pred H-hcCCeEEEEEecCchHHHHHHHHHH
Confidence 2 3467999999999999999888873
No 152
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=89.13 E-value=2.9 Score=52.63 Aligned_cols=73 Identities=21% Similarity=0.258 Sum_probs=59.0
Q ss_pred CCCHHHHHHHHHHHHHHHcCC-ceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCC
Q 001656 16 EAYDCQLVYMEKVIQSLQNKC-NALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~k-~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~ 94 (1036)
.+|..|...+.+|.+|+..|+ -+||-..||||||...+ +|-|.--.- ...
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAi--aii~rL~r~---------------------------~~~ 215 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAI--AIIDRLIKS---------------------------GWV 215 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHH--HHHHHHHhc---------------------------chh
Confidence 379999999999999999884 49999999999999776 455543211 134
Q ss_pred CeEEEEcCCHHHHHHHHHHHHhc
Q 001656 95 PTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 95 pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
.+|+|.+-+.++.+|...+.++.
T Consensus 216 KRVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 216 KRVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred heeeEEechHHHHHHHHHHHHHh
Confidence 68999999999999999987764
No 153
>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=89.06 E-value=9.1 Score=46.78 Aligned_cols=47 Identities=34% Similarity=0.311 Sum_probs=36.9
Q ss_pred EEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 39 LLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 39 llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
||.||||+|||.+||-.+ ......+ .+++|.+.|.++..|..+.|++
T Consensus 1 LL~g~TGsGKT~v~l~~i-~~~l~~g------------------------------~~vLvlvP~i~L~~Q~~~~l~~ 47 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAI-EKVLALG------------------------------KSVLVLVPEIALTPQMIQRFKY 47 (505)
T ss_pred CccCCCCCCHHHHHHHHH-HHHHHcC------------------------------CeEEEEeCcHHHHHHHHHHHHH
Confidence 578999999999998653 3322212 4799999999999999998875
No 154
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=88.82 E-value=8 Score=49.48 Aligned_cols=111 Identities=17% Similarity=0.113 Sum_probs=67.1
Q ss_pred CCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhccCCCCCeEEEEEccC
Q 001656 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (1036)
Q Consensus 516 pggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~~~~~gaVLfaV~rG 594 (1036)
.+.+||.+++-.....++..++.... +..++..+-. ....+.+++.+.... ..++.|++|+ -
T Consensus 440 ~~kvlvI~NTV~~Aie~Y~~Lk~~~~-------------~v~LlHSRf~~~dR~~ke~~l~~~~~--~~~~~IvVaT--Q 502 (733)
T COG1203 440 GKKVLVIVNTVDRAIELYEKLKEKGP-------------KVLLLHSRFTLKDREEKERELKKLFK--QNEGFIVVAT--Q 502 (733)
T ss_pred CCcEEEEEecHHHHHHHHHHHHhcCC-------------CEEEEecccchhhHHHHHHHHHHHHh--ccCCeEEEEe--e
Confidence 46999999999999999998886421 1234444432 223333343332211 1467888887 5
Q ss_pred CccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCCccc
Q 001656 595 KVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGRVIR 674 (1036)
Q Consensus 595 k~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGRlIR 674 (1036)
-+--|+|+.-|. +|+- +--+..+-|++|||-|
T Consensus 503 VIEagvDidfd~----mITe--------------------------------------------~aPidSLIQR~GRv~R 534 (733)
T COG1203 503 VIEAGVDIDFDV----LITE--------------------------------------------LAPIDSLIQRAGRVNR 534 (733)
T ss_pred EEEEEeccccCe----eeec--------------------------------------------CCCHHHHHHHHHHHhh
Confidence 666677776543 2221 1115778899999999
Q ss_pred cC---CCcEEEEEEecCCCC
Q 001656 675 HR---HDYGAIIFCDERFAH 691 (1036)
Q Consensus 675 ~~---~D~G~viLlD~Rf~~ 691 (1036)
|. +++..++..+.+...
T Consensus 535 ~g~~~~~~~~v~~~~~~~~~ 554 (733)
T COG1203 535 HGKKENGKIYVYNDEERGPY 554 (733)
T ss_pred cccccCCceeEeecccCCCc
Confidence 99 344444444555544
No 155
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=88.73 E-value=1.8 Score=48.07 Aligned_cols=41 Identities=22% Similarity=0.298 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHh
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRK 61 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~ 61 (1036)
..+..-+....+.+.+++++++-+|+|||||. |+.||+...
T Consensus 89 ~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKTh--La~Ai~~~l 129 (254)
T COG1484 89 KKALEDLASLVEFFERGENLVLLGPPGVGKTH--LAIAIGNEL 129 (254)
T ss_pred HHHHHHHHHHHHHhccCCcEEEECCCCCcHHH--HHHHHHHHH
Confidence 34444455555677788999999999999998 777776543
No 156
>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=88.64 E-value=0.63 Score=44.85 Aligned_cols=37 Identities=38% Similarity=0.423 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHc--CCceEEeccCCCChhHHHHHHHHH
Q 001656 20 CQLVYMEKVIQSLQN--KCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~--~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+|......+...+.. +.++++-+|+|+|||. |+-.++
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 467778888888877 7899999999999996 444443
No 157
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=88.48 E-value=0.81 Score=57.74 Aligned_cols=76 Identities=22% Similarity=0.315 Sum_probs=61.8
Q ss_pred cCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCC
Q 001656 7 RGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNS 86 (1036)
Q Consensus 7 ~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (1036)
..-...|||++-.-|++ .+.+|+.|..+++-|+|-.|||+.+=+| ++-++..
T Consensus 288 pe~a~~~pFelD~FQk~----Ai~~lerg~SVFVAAHTSAGKTvVAEYA-ialaq~h----------------------- 339 (1248)
T KOG0947|consen 288 PEMALIYPFELDTFQKE----AIYHLERGDSVFVAAHTSAGKTVVAEYA-IALAQKH----------------------- 339 (1248)
T ss_pred hhHHhhCCCCccHHHHH----HHHHHHcCCeEEEEecCCCCcchHHHHH-HHHHHhh-----------------------
Confidence 34457899999999998 4568999999999999999999987755 3333332
Q ss_pred CCCCCCCCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 87 SQSGDSKLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 87 ~q~~~~~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..|.||+|.-+.+=+|=.+++|.+
T Consensus 340 -------~TR~iYTSPIKALSNQKfRDFk~t 363 (1248)
T KOG0947|consen 340 -------MTRTIYTSPIKALSNQKFRDFKET 363 (1248)
T ss_pred -------ccceEecchhhhhccchHHHHHHh
Confidence 248999999999999999999865
No 158
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=88.48 E-value=9.2 Score=49.35 Aligned_cols=196 Identities=16% Similarity=0.133 Sum_probs=108.0
Q ss_pred cCCeEEEEccCCCChHHHHHHhCCCCCc---cccCCC-cCCCCceEEEEccCCCCCccccccccCCCCHHHH-HHHHHHH
Q 001656 434 EVGSIILTSGTLSPMDSFAQELKLNFPL---RVENPH-VITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYK-QELGNTI 508 (1036)
Q Consensus 434 ~~~svIltSgTLsp~~~f~~~LGl~~~~---~le~p~-v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~-~~l~~~I 508 (1036)
..-.+|-.||||......+..|+.+... .+...+ +.+-.+-.+++ +. . +++....-+ +...+.+
T Consensus 274 s~IRivgLSATlPN~eDvA~fL~vn~~~glfsFd~~yRPvpL~~~~iG~-k~---------~-~~~~~~~~~d~~~~~kv 342 (1230)
T KOG0952|consen 274 SMIRIVGLSATLPNYEDVARFLRVNPYAGLFSFDQRYRPVPLTQGFIGI-KG---------K-KNRQQKKNIDEVCYDKV 342 (1230)
T ss_pred hheEEEEeeccCCCHHHHHHHhcCCCccceeeecccccccceeeeEEee-ec---------c-cchhhhhhHHHHHHHHH
Confidence 3458999999998899999999997332 111111 11112222221 10 1 112222111 2222333
Q ss_pred HHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHH---------------HH
Q 001656 509 VNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAI---------------ED 573 (1036)
Q Consensus 509 ~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i---------------~~ 573 (1036)
.+.+. -+..++||++|...--+.+..+.+.... +..+..|+-.+......+++ ..
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 44443 3568999999999988888877664221 12233343222111111111 11
Q ss_pred HHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCc
Q 001656 574 YMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSG 653 (1036)
Q Consensus 574 f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g 653 (1036)
+.+++... +.=.||+|+ ..+.=|+++|.+ +|||-|-|+-... ++ .|
T Consensus 413 l~E~~F~~-G~i~vL~cT--aTLAwGVNLPA~---aViIKGT~~ydss-------------kg--~f------------- 458 (1230)
T KOG0952|consen 413 LVEKEFKE-GHIKVLCCT--ATLAWGVNLPAY---AVIIKGTQVYDSS-------------KG--SF------------- 458 (1230)
T ss_pred HHHHHHhc-CCceEEEec--ceeeeccCCcce---EEEecCCcccccc-------------cC--ce-------------
Confidence 11111111 334566655 899999999984 7999998773221 11 12
Q ss_pred ccchHHHHHHHHHHhhCCccccC-CCcEEEEEEecC
Q 001656 654 EDWYNQQASRAVNQAVGRVIRHR-HDYGAIIFCDER 688 (1036)
Q Consensus 654 ~~wy~~~A~r~v~QaiGRlIR~~-~D~G~viLlD~R 688 (1036)
..-.+.-|-|-+||.=|-. ++.|..+|+=.|
T Consensus 459 ----~dlgilDVlQifGRAGRPqFd~~G~giIiTt~ 490 (1230)
T KOG0952|consen 459 ----VDLGILDVLQIFGRAGRPQFDSSGEGIIITTR 490 (1230)
T ss_pred ----eeehHHHHHHHHhccCCCCCCCCceEEEEecc
Confidence 1224678899999998876 678998888655
No 159
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=87.81 E-value=0.46 Score=54.74 Aligned_cols=39 Identities=26% Similarity=0.319 Sum_probs=31.2
Q ss_pred cCCCCCCHHHHHHHHHHHHHH-HcC-CceEEeccCCCChhH
Q 001656 12 EFPFEAYDCQLVYMEKVIQSL-QNK-CNALLESPTGTGKTL 50 (1036)
Q Consensus 12 ~FPfepy~~Q~e~m~~V~~aL-~~~-k~~llEAPTGTGKTL 50 (1036)
.|||.-..+|.+....+.-++ ..+ .++|+++|.|||||.
T Consensus 4 ~~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~ 44 (334)
T PRK13407 4 PFPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKST 44 (334)
T ss_pred CCCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHH
Confidence 355555679999999887544 455 799999999999997
No 160
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=87.77 E-value=0.7 Score=54.69 Aligned_cols=74 Identities=16% Similarity=0.022 Sum_probs=50.0
Q ss_pred CCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 14 PFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 14 Pfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
.|. |-|.|...+-- -.-|+-++..|-||||||.||.+|+|.-.-+.... .
T Consensus 200 Gy~~PTpIQ~a~IPv----allgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~-------------------------~ 250 (691)
T KOG0338|consen 200 GYKKPTPIQVATIPV----ALLGKDICACAATGSGKTAAFALPILERLLYRPKK-------------------------V 250 (691)
T ss_pred CCCCCCchhhhcccH----HhhcchhhheecccCCchhhhHHHHHHHHhcCccc-------------------------C
Confidence 444 55666554321 13467788899999999999999999766553321 1
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
...+|++.+.|..+.-|+-.-.++
T Consensus 251 ~~TRVLVL~PTRELaiQv~sV~~q 274 (691)
T KOG0338|consen 251 AATRVLVLVPTRELAIQVHSVTKQ 274 (691)
T ss_pred cceeEEEEeccHHHHHHHHHHHHH
Confidence 224899999998887776654433
No 161
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=87.28 E-value=15 Score=48.48 Aligned_cols=203 Identities=16% Similarity=0.166 Sum_probs=107.7
Q ss_pred CCeEEEEccCCCChHHHHHHhCCCCCccccC--C-CcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHH-
Q 001656 435 VGSIILTSGTLSPMDSFAQELKLNFPLRVEN--P-HVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVN- 510 (1036)
Q Consensus 435 ~~svIltSgTLsp~~~f~~~LGl~~~~~le~--p-~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~- 510 (1036)
.-.+|-.||||..-...+.-|+.+++-.+-+ . .+.+-+|=++++-. ++...-.+.+-++..+
T Consensus 474 ~~RlVGLSATLPNy~DV~~Fl~v~~~glf~fd~syRpvPL~qq~Igi~e--------------k~~~~~~qamNe~~yeK 539 (1674)
T KOG0951|consen 474 GSRLVGLSATLPNYEDVASFLRVDPEGLFYFDSSYRPVPLKQQYIGITE--------------KKPLKRFQAMNEACYEK 539 (1674)
T ss_pred CceeeeecccCCchhhhHHHhccCcccccccCcccCcCCccceEecccc--------------CCchHHHHHHHHHHHHH
Confidence 4578999999977677777777765311111 0 11122332333211 2211112334444333
Q ss_pred HHHHc-CCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHH-------------------------HhhcCCceecCCCC
Q 001656 511 IARIV-PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWER-------------------------ICKHKKPVVEPRQS 564 (1036)
Q Consensus 511 l~~~v-pggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~-------------------------i~~~K~v~~E~~~~ 564 (1036)
+++.. .+.||||..|...--++++.+++...++ .++-.- |..+..-+-.-+-.
T Consensus 540 Vm~~agk~qVLVFVHsRkET~ktA~aIRd~~le~-dtls~fmre~s~s~eilrtea~~~kn~dLkdLLpygfaIHhAGl~ 618 (1674)
T KOG0951|consen 540 VLEHAGKNQVLVFVHSRKETAKTARAIRDKALEE-DTLSRFMREDSASREILRTEAGQAKNPDLKDLLPYGFAIHHAGLN 618 (1674)
T ss_pred HHHhCCCCcEEEEEEechHHHHHHHHHHHHHhhh-hHHHHHHhcccchhhhhhhhhhcccChhHHHHhhccceeeccCCC
Confidence 33322 4699999999999999998888543321 111111 11111111111111
Q ss_pred CChHHHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccc
Q 001656 565 SLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYK 644 (1036)
Q Consensus 565 ~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~ 644 (1036)
.....+.++..+ .+.--||+++ ..+.-|+++|++ .|||-|----+|.+
T Consensus 619 R~dR~~~EdLf~-----~g~iqvlvst--atlawgvnlpah---tViikgtqvy~pek---------------------- 666 (1674)
T KOG0951|consen 619 RKDRELVEDLFA-----DGHIQVLVST--ATLAWGVNLPAH---TVIIKGTQVYDPEK---------------------- 666 (1674)
T ss_pred cchHHHHHHHHh-----cCceeEEEee--hhhhhhcCCCcc---eEEecCccccCccc----------------------
Confidence 111122222222 1345577766 899999999996 58888833322221
Q ss_pred hhhcccCCcccchHHHHHHHHHHhhCCccccCCC-cEEEEEEecCCCCchh
Q 001656 645 ETKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHD-YGAIIFCDERFAHPSR 694 (1036)
Q Consensus 645 ~~~~~~l~g~~wy~~~A~r~v~QaiGRlIR~~~D-~G~viLlD~Rf~~~~y 694 (1036)
..|- +-.-+-+.|.+||.=|...| +|-+++.+.+=.-.-|
T Consensus 667 ---------g~w~-elsp~dv~qmlgragrp~~D~~gegiiit~~se~qyy 707 (1674)
T KOG0951|consen 667 ---------GRWT-ELSPLDVMQMLGRAGRPQYDTCGEGIIITDHSELQYY 707 (1674)
T ss_pred ---------Cccc-cCCHHHHHHHHhhcCCCccCcCCceeeccCchHhhhh
Confidence 1121 12236788999999998865 7888888876443333
No 162
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=87.16 E-value=1.7 Score=56.45 Aligned_cols=84 Identities=21% Similarity=0.249 Sum_probs=53.9
Q ss_pred HHHH-HHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHH
Q 001656 28 VIQS-LQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQ 106 (1036)
Q Consensus 28 V~~a-L~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQ 106 (1036)
|+++ |....|+++.||||.|||-..+..+|.-...... . .++. .-..-+|+|....+++
T Consensus 317 v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r-~----------dgs~---------nl~~fKIVYIAPmKaL 376 (1674)
T KOG0951|consen 317 VYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLR-E----------DGSV---------NLAPFKIVYIAPMKAL 376 (1674)
T ss_pred HHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccc-c----------ccce---------ecccceEEEEeeHHHH
Confidence 4443 4455999999999999999998888753322111 0 0000 0122489999999999
Q ss_pred HHHHHHHHHh--cCCCCeEEEeCCccc
Q 001656 107 LRQVIQELKT--SNYRPKMVILGSREQ 131 (1036)
Q Consensus 107 l~Qvv~ELrk--l~~~~k~~vLgSR~~ 131 (1036)
.+..|+.+.+ .+|.+++.=+.|-.+
T Consensus 377 vqE~VgsfSkRla~~GI~V~ElTgD~~ 403 (1674)
T KOG0951|consen 377 VQEMVGSFSKRLAPLGITVLELTGDSQ 403 (1674)
T ss_pred HHHHHHHHHhhccccCcEEEEeccccc
Confidence 9999997643 355565554554433
No 163
>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=86.92 E-value=1.1 Score=48.15 Aligned_cols=20 Identities=35% Similarity=0.554 Sum_probs=16.6
Q ss_pred cCCceEEeccCCCChhHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L 53 (1036)
.|...++++|+|||||.-.+
T Consensus 18 ~gs~~li~G~~GsGKT~l~~ 37 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLAL 37 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHH
T ss_pred CCcEEEEEeCCCCCcHHHHH
Confidence 45789999999999998433
No 164
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=86.83 E-value=0.39 Score=61.99 Aligned_cols=46 Identities=24% Similarity=0.309 Sum_probs=38.5
Q ss_pred eecCCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 10 DVEFPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 10 ~v~FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
...|.+. .|+.|.+++. +...|+-.++..|||-||+|||-+||+.+
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 3567777 5789998654 77889999999999999999999998853
No 165
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=86.78 E-value=16 Score=46.82 Aligned_cols=139 Identities=14% Similarity=0.098 Sum_probs=77.8
Q ss_pred HHHHHhhhccCCeEEEEccCCCC-hHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHH
Q 001656 425 IAMQEFSRLEVGSIILTSGTLSP-MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQE 503 (1036)
Q Consensus 425 ~~~~~ll~~~~~svIltSgTLsp-~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~ 503 (1036)
..++.++. ....+--|+||... -+.|....|++... .| .+.-... .+.|+ .-|. ...+....
T Consensus 366 It~qnfFr-~Y~kl~GmTGTa~~e~~Ef~~iY~l~vv~---IP----tnkp~~r--~d~~d-----~i~~--t~~~K~~a 428 (796)
T PRK12906 366 ITYQNFFR-MYKKLSGMTGTAKTEEEEFREIYNMEVIT---IP----TNRPVIR--KDSPD-----LLYP--TLDSKFNA 428 (796)
T ss_pred ehHHHHHH-hcchhhccCCCCHHHHHHHHHHhCCCEEE---cC----CCCCeee--eeCCC-----eEEc--CHHHHHHH
Confidence 34555555 56688999999965 24566667776321 11 1110000 01111 0121 22333456
Q ss_pred HHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCC
Q 001656 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTST 583 (1036)
Q Consensus 504 l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~ 583 (1036)
+.+.|.+.. ..+..+|||+.|-..-+.+...+.+.... ..++..+.. ..+.. .+.....
T Consensus 429 l~~~i~~~~-~~g~pvLI~t~si~~se~ls~~L~~~gi~-------------~~~Lna~~~-~~Ea~------ii~~ag~ 487 (796)
T PRK12906 429 VVKEIKERH-AKGQPVLVGTVAIESSERLSHLLDEAGIP-------------HAVLNAKNH-AKEAE------IIMNAGQ 487 (796)
T ss_pred HHHHHHHHH-hCCCCEEEEeCcHHHHHHHHHHHHHCCCC-------------eeEecCCcH-HHHHH------HHHhcCC
Confidence 666665544 35679999999999999999888764321 122222221 11111 1222235
Q ss_pred CCeEEEEEccCCccccccCC
Q 001656 584 SGAVFFAVCRGKVSEGLDFA 603 (1036)
Q Consensus 584 ~gaVLfaV~rGk~sEGIDf~ 603 (1036)
+|.|++|+ .-...|+|++
T Consensus 488 ~g~VtIAT--nmAGRGtDI~ 505 (796)
T PRK12906 488 RGAVTIAT--NMAGRGTDIK 505 (796)
T ss_pred CceEEEEe--ccccCCCCCC
Confidence 78999998 7889999996
No 166
>cd07347 harmonin_N_like N-terminal protein-binding module of harmonin and similar domains. This domain is found in harmonin, and similar proteins such as delphilin, and whirlin. These are postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold proteins. Harmonin and whirlin are organizers of the Usher protein network of the inner ear and the retina, delphilin is found at the cerebellar parallel fiber-Purkinje cell synapses. This harmonin_N_like domain is found in either one or two copies. Harmonin contains a single copy, which is found at its N-terminus and binds specifically to a short internal peptide fragment of the cadherin 23 cytoplasmic domain; cadherin 23 is a component of the Usher protein network. Whirlin contains two copies of the harmonin_N_like domain; the first of these has been assayed for interaction with the cytoplasmic domain of cadherin 23 and no interaction could be detected.
Probab=86.28 E-value=1.3 Score=40.08 Aligned_cols=74 Identities=16% Similarity=0.391 Sum_probs=65.9
Q ss_pred chhhHHHHHHHhhCHHHHHHHHHHHHHHhhhhhchHHHHHHHHHhhcCCCChhhhhcccccccCCcchhHHHHhh
Q 001656 959 KGSAFLIQVQEKLSATEYKEFVGFMKAMKSKAMKISHVLQSIAKLFAGPERLPLLRRFKDYVPAKYHPLYEQYLM 1033 (1036)
Q Consensus 959 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 (1036)
.|--|=.||+.=|+.+|--.|.-|.+.-..+. .+......+.-++..|+++|||.--+-+||.+....|.++|.
T Consensus 4 ~~r~f~~q~~~LL~~~Er~~~~~~L~~Y~~~~-~Vd~LV~~L~~vLdtPaK~~Ll~~iR~lIp~~d~~~fD~lv~ 77 (78)
T cd07347 4 QAREFSQQVDHLLTDAEREQVTRALERYHQER-NVDDLVRDLYLVLDTPAKLPLLQFLRQVIPPKDQERFDELVA 77 (78)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHcCcHhHHHHHHHHHHHcCHHHHHHHHHHhc
Confidence 56678899999999999777777777777666 999999999999999999999999999999999999999874
No 167
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=86.05 E-value=2.5 Score=48.59 Aligned_cols=130 Identities=22% Similarity=0.278 Sum_probs=81.8
Q ss_pred cCCeEEEEccCCCC-hHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCc-cccccccCCCCHHHHHHHHH--HHH
Q 001656 434 EVGSIILTSGTLSP-MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGY-LLNSSYRNRDSIEYKQELGN--TIV 509 (1036)
Q Consensus 434 ~~~svIltSgTLsp-~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~-~l~~~Y~~r~~~~y~~~l~~--~I~ 509 (1036)
..|..+|.|||+.- +..|++.--+ -|..++ .|-.|. .|+. -.+-+|+..=+. +++
T Consensus 356 ~QRQTLLFSATMP~KIQ~FAkSALV-------KPvtvN----------VGRAGAAsldV----iQevEyVkqEaKiVylL 414 (610)
T KOG0341|consen 356 GQRQTLLFSATMPKKIQNFAKSALV-------KPVTVN----------VGRAGAASLDV----IQEVEYVKQEAKIVYLL 414 (610)
T ss_pred hhhheeeeeccccHHHHHHHHhhcc-------cceEEe----------cccccccchhH----HHHHHHHHhhhhhhhHH
Confidence 67899999999943 4566653211 122221 111110 1111 123355543333 345
Q ss_pred HHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCcee-cCCCCCChHHHHHHHHHHhccCCCCCeEE
Q 001656 510 NIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVV-EPRQSSLFPLAIEDYMAKLKDTSTSGAVF 588 (1036)
Q Consensus 510 ~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~-E~~~~~~~~~~i~~f~~~i~~~~~~gaVL 588 (1036)
+.++.++-.||+|.-.....+.+++++--.+- -.+-+ -.+|..+....++.|+. ++.-||
T Consensus 415 eCLQKT~PpVLIFaEkK~DVD~IhEYLLlKGV-------------EavaIHGGKDQedR~~ai~afr~------gkKDVL 475 (610)
T KOG0341|consen 415 ECLQKTSPPVLIFAEKKADVDDIHEYLLLKGV-------------EAVAIHGGKDQEDRHYAIEAFRA------GKKDVL 475 (610)
T ss_pred HHhccCCCceEEEeccccChHHHHHHHHHccc-------------eeEEeecCcchhHHHHHHHHHhc------CCCceE
Confidence 66777888999999999999999887743211 11222 34555677889999986 678999
Q ss_pred EEEccCCccccccCCCC
Q 001656 589 FAVCRGKVSEGLDFADH 605 (1036)
Q Consensus 589 faV~rGk~sEGIDf~gd 605 (1036)
+|+ .-.|.|+||+|-
T Consensus 476 VAT--DVASKGLDFp~i 490 (610)
T KOG0341|consen 476 VAT--DVASKGLDFPDI 490 (610)
T ss_pred EEe--cchhccCCCccc
Confidence 998 788999999993
No 168
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=85.57 E-value=8.3 Score=46.55 Aligned_cols=87 Identities=14% Similarity=0.176 Sum_probs=55.9
Q ss_pred HHHHHHHHHcC-CcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCce-ecCCCC-CChHHHHHHHHHHhccCC
Q 001656 506 NTIVNIARIVP-DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPV-VEPRQS-SLFPLAIEDYMAKLKDTS 582 (1036)
Q Consensus 506 ~~I~~l~~~vp-ggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~-~E~~~~-~~~~~~i~~f~~~i~~~~ 582 (1036)
..+..+++.++ -.++|||.|-....-++..+...-+. . .++ +.++.. ....++..+|.+
T Consensus 302 ~~L~sFI~shlk~K~iVF~SscKqvkf~~e~F~rlrpg--~----------~l~~L~G~~~Q~~R~ev~~~F~~------ 363 (758)
T KOG0343|consen 302 DMLWSFIKSHLKKKSIVFLSSCKQVKFLYEAFCRLRPG--I----------PLLALHGTMSQKKRIEVYKKFVR------ 363 (758)
T ss_pred HHHHHHHHhccccceEEEEehhhHHHHHHHHHHhcCCC--C----------ceeeeccchhHHHHHHHHHHHHH------
Confidence 45666777665 49999999999988888766554321 1 111 112221 112344555554
Q ss_pred CCCeEEEEEccCCccccccCCCCCceEEEEeC
Q 001656 583 TSGAVFFAVCRGKVSEGLDFADHAGRAVVITG 614 (1036)
Q Consensus 583 ~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvG 614 (1036)
.+.+||||+ .-.+.|+||+ ....||=+-
T Consensus 364 ~~~~vLF~T--Dv~aRGLDFp--aVdwViQ~D 391 (758)
T KOG0343|consen 364 KRAVVLFCT--DVAARGLDFP--AVDWVIQVD 391 (758)
T ss_pred hcceEEEee--hhhhccCCCc--ccceEEEec
Confidence 468999988 8999999999 466776554
No 169
>cd07354 HN_L-delphilin-R1_like First harmonin_N_like domain (repeat 1) of L-delphilin, and related domains. This subgroup contains the first of two harmonin_N_like domains of an alternatively spliced longer variant of mouse delphilin (L-delphilin, isoform 1), and related domains. Delphilin is a scaffold protein which binds the glutamate receptor delta-2 (GRID2) subunit and the monocarboxylate transporter 2 at the cerebellar parallel fiber-Purkinje cell synapses. The N-terminus of L-delphilin contains this harmonin_N_like domain preceded by a postsynaptic density-95/discs-large/ZO-1 (PDZ) protein-binding domain, PDZ1. L-delphilin, in common with the shorter C-terminal isoforms (S-delphilin/delphilin alpha and delphilin beta) has a second harmonin_N_like domain (not belonging to this subgroup) and a second PDZ domain, PDZ2. This first harmonin_N_like domain is a putative protein-binding module based on its sequence similarity to the harmonin N-domain.
Probab=85.39 E-value=0.8 Score=41.24 Aligned_cols=73 Identities=18% Similarity=0.296 Sum_probs=59.4
Q ss_pred chhhHHHHHHHhhCHH-HHHHHHHHHHHHhh--hhhchHHHHHHHHHhhcCCCChhhhhcccccccCCcchhHHHHhh
Q 001656 959 KGSAFLIQVQEKLSAT-EYKEFVGFMKAMKS--KAMKISHVLQSIAKLFAGPERLPLLRRFKDYVPAKYHPLYEQYLM 1033 (1036)
Q Consensus 959 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 (1036)
++--|..+|.+=|... +=||- .+.|||. ..|++...-.+++.+..-|.|.|||..-|-|||.||++=|.++|-
T Consensus 4 kA~eF~~Kvd~iL~~dp~~Ke~--l~~aLk~Ya~~k~vd~l~~aL~~~L~~e~~~~Lld~IR~fIP~KHr~~fD~lV~ 79 (80)
T cd07354 4 KAQEFSRKVDAILGDDPVKKEQ--VFAALKQYAADKNVDCLVWALCGLLQTEAHKKLLDEIRIFIPKKHRARFDELVS 79 (80)
T ss_pred HHHHHHHHHHHHhcCCHHHHHH--HHHHHHHHHHHcCHHHHHHHHHHHhCcHHHHHHHHHhHhcCCchhHHHHHHHhc
Confidence 3445777776666532 34553 4788884 679999999999999999999999999999999999999999873
No 170
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=85.37 E-value=1.6 Score=54.05 Aligned_cols=70 Identities=24% Similarity=0.306 Sum_probs=54.3
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCC
Q 001656 11 VEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSG 90 (1036)
Q Consensus 11 v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~ 90 (1036)
-.|||+--|-|.+ .+.|+++++.+++-|-|-.|||.+.=.| +|-.-+
T Consensus 124 k~YPF~LDpFQ~~----aI~Cidr~eSVLVSAHTSAGKTVVAeYA-IA~sLr---------------------------- 170 (1041)
T KOG0948|consen 124 KTYPFTLDPFQST----AIKCIDRGESVLVSAHTSAGKTVVAEYA-IAMSLR---------------------------- 170 (1041)
T ss_pred cCCCcccCchHhh----hhhhhcCCceEEEEeecCCCcchHHHHH-HHHHHH----------------------------
Confidence 3577777777776 5789999999999999999999987655 332222
Q ss_pred CCCCCeEEEEcCCHHHHHHHHHHHH
Q 001656 91 DSKLPTILYTSRTHSQLRQVIQELK 115 (1036)
Q Consensus 91 ~~~~pkIiy~TRThsQl~Qvv~ELr 115 (1036)
++.+|||+|.-+++=+|=.+||.
T Consensus 171 --~kQRVIYTSPIKALSNQKYREl~ 193 (1041)
T KOG0948|consen 171 --EKQRVIYTSPIKALSNQKYRELL 193 (1041)
T ss_pred --hcCeEEeeChhhhhcchhHHHHH
Confidence 22489999999999888777764
No 171
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=85.27 E-value=0.56 Score=51.74 Aligned_cols=76 Identities=17% Similarity=0.160 Sum_probs=53.5
Q ss_pred ecCCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCC
Q 001656 11 VEFPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQS 89 (1036)
Q Consensus 11 v~FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~ 89 (1036)
..+.|+ |-..|...+- .+-.|+.++..|..|||||.+|-|+.|.-..-
T Consensus 43 Y~yGfekPS~IQqrAi~----~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~--------------------------- 91 (400)
T KOG0328|consen 43 YAYGFEKPSAIQQRAIP----QILKGRDVIAQAQSGTGKTATFSISVLQSLDI--------------------------- 91 (400)
T ss_pred HHhccCCchHHHhhhhh----hhhcccceEEEecCCCCceEEEEeeeeeeccc---------------------------
Confidence 356777 5667765443 34568999999999999999998887732211
Q ss_pred CCCCCCeEEEEcCCHHHHHHHHHHHHhcC
Q 001656 90 GDSKLPTILYTSRTHSQLRQVIQELKTSN 118 (1036)
Q Consensus 90 ~~~~~pkIiy~TRThsQl~Qvv~ELrkl~ 118 (1036)
.....++++.|.|..+..|+-+-+..++
T Consensus 92 -~~r~tQ~lilsPTRELa~Qi~~vi~alg 119 (400)
T KOG0328|consen 92 -SVRETQALILSPTRELAVQIQKVILALG 119 (400)
T ss_pred -ccceeeEEEecChHHHHHHHHHHHHHhc
Confidence 1122478899999988888776666554
No 172
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=85.19 E-value=0.96 Score=51.52 Aligned_cols=35 Identities=23% Similarity=0.347 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHcCC--ceEEeccCCCChhHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC--NALLESPTGTGKTLCLL 53 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k--~~llEAPTGTGKTLa~L 53 (1036)
-+|.+..+.+..++..+. ++++.+|+|||||....
T Consensus 18 ~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~ 54 (337)
T PRK12402 18 LGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVR 54 (337)
T ss_pred cCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHH
Confidence 378888999999999887 89999999999998553
No 173
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=85.16 E-value=1.5 Score=50.00 Aligned_cols=42 Identities=33% Similarity=0.462 Sum_probs=33.5
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 13 FPFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 13 FPfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
|..+ .||.|++.++ +.-.|+.+++--|||-||+|||-+|||.
T Consensus 90 f~lekfrplq~~ain----~~ma~ed~~lil~tgggkslcyqlpal~ 132 (695)
T KOG0353|consen 90 FHLEKFRPLQLAAIN----ATMAGEDAFLILPTGGGKSLCYQLPALC 132 (695)
T ss_pred hhHHhcChhHHHHhh----hhhccCceEEEEeCCCccchhhhhhHHh
Confidence 4444 4788887554 4456888999999999999999999995
No 174
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=85.04 E-value=3 Score=53.06 Aligned_cols=142 Identities=13% Similarity=0.115 Sum_probs=79.3
Q ss_pred HHHHHHhhhccCCeEEEEccCCCCh-HHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHH
Q 001656 424 GIAMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQ 502 (1036)
Q Consensus 424 s~~~~~ll~~~~~svIltSgTLsp~-~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~ 502 (1036)
+..++.++. ....+--|+||...- ..|....|++... +|.+.-... .+.|+ .-|. ...+-..
T Consensus 351 sIT~QnfFr-~Y~kLsGMTGTA~te~~Ef~~iY~l~Vv~-------IPTnkP~~R--~D~~d-----~iy~--t~~~K~~ 413 (925)
T PRK12903 351 TITYQNFFR-LFKKLSGMTGTAKTEEQEFIDIYNMRVNV-------VPTNKPVIR--KDEPD-----SIFG--TKHAKWK 413 (925)
T ss_pred eehHHHHHH-hcchhhccCCCCHHHHHHHHHHhCCCEEE-------CCCCCCeee--eeCCC-----cEEE--cHHHHHH
Confidence 345566655 567888999998653 3566666765321 111110000 01111 1122 2223345
Q ss_pred HHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCC
Q 001656 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTS 582 (1036)
Q Consensus 503 ~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~ 582 (1036)
++.+.|.+... ....|||.+.|-+.-+.+...+.+.... .-++--++...=.+++ ...+
T Consensus 414 Aii~ei~~~~~-~gqPVLVgT~SIe~SE~ls~~L~~~gi~-------------h~vLNAk~~e~EA~II-------a~AG 472 (925)
T PRK12903 414 AVVKEVKRVHK-KGQPILIGTAQVEDSETLHELLLEANIP-------------HTVLNAKQNAREAEII-------AKAG 472 (925)
T ss_pred HHHHHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHCCCC-------------ceeecccchhhHHHHH-------HhCC
Confidence 67777766664 4569999999999999998888764221 1122212111111122 1224
Q ss_pred CCCeEEEEEccCCccccccCCCC
Q 001656 583 TSGAVFFAVCRGKVSEGLDFADH 605 (1036)
Q Consensus 583 ~~gaVLfaV~rGk~sEGIDf~gd 605 (1036)
..|+|-+|+ .-...|.|+.-.
T Consensus 473 ~~GaVTIAT--NMAGRGTDI~Lg 493 (925)
T PRK12903 473 QKGAITIAT--NMAGRGTDIKLS 493 (925)
T ss_pred CCCeEEEec--ccccCCcCccCc
Confidence 579999998 788899999743
No 175
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=84.97 E-value=3.3 Score=46.88 Aligned_cols=61 Identities=20% Similarity=0.405 Sum_probs=32.7
Q ss_pred CccEEEeccccccCHh-------hh-----hccCCCCCCcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHHHhhh
Q 001656 209 TVDIVFAPYNYLIDPW-------FR-----KGLGVEWKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEAKNCI 274 (1036)
Q Consensus 209 ~ADIIv~nYnYLld~~-------ir-----~~l~i~~~~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el~~~~ 274 (1036)
...|||++|+-|.... .| +.++-+. +.+|||||+|+--...... -.......++.+|++..
T Consensus 136 ~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~df-dgvivfDEcH~akn~~~~~----~~~sk~g~avl~LQ~~L 208 (303)
T PF13872_consen 136 KEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDF-DGVIVFDECHKAKNLSSGS----KKPSKTGIAVLELQNRL 208 (303)
T ss_pred CCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCC-CceEEeccchhcCCCCccC----ccccHHHHHHHHHHHhC
Confidence 3456777777666442 12 1123233 4599999999876642211 22333444555555543
No 176
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=84.72 E-value=3 Score=53.04 Aligned_cols=67 Identities=18% Similarity=0.173 Sum_probs=46.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
+...||+.|.--.- +|..|+ |.|..||.|||+...+|++..+.. +
T Consensus 77 ~g~~~~dvQlig~l----~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~-G---------------------------- 121 (796)
T PRK12906 77 LGLRPFDVQIIGGI----VLHEGN--IAEMKTGEGKTLTATLPVYLNALT-G---------------------------- 121 (796)
T ss_pred hCCCCchhHHHHHH----HHhcCC--cccccCCCCCcHHHHHHHHHHHHc-C----------------------------
Confidence 45778998865433 345555 999999999999988887754432 2
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
..|.+.|.|--+.+|-.+.+..
T Consensus 122 --~~v~vvT~neyLA~Rd~e~~~~ 143 (796)
T PRK12906 122 --KGVHVVTVNEYLSSRDATEMGE 143 (796)
T ss_pred --CCeEEEeccHHHHHhhHHHHHH
Confidence 2466777777777776666544
No 177
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=84.42 E-value=3.1 Score=47.57 Aligned_cols=72 Identities=14% Similarity=0.032 Sum_probs=50.7
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCC
Q 001656 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~ 94 (1036)
++|-|.|..-+ -.+-+|+.+|=.|-||+|||.|+-.|.|.-..+.. ..
T Consensus 28 ~~pTpiQ~~cI----pkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP----------------------------~g 75 (442)
T KOG0340|consen 28 KKPTPIQQACI----PKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDP----------------------------YG 75 (442)
T ss_pred CCCCchHhhhh----HHHhcccccccccccCCCcchhhhHHHHHhhccCC----------------------------Cc
Confidence 35778887644 44557899999999999999999999884222110 11
Q ss_pred CeEEEEcCCHHHHHHHHHHHHhcC
Q 001656 95 PTILYTSRTHSQLRQVIQELKTSN 118 (1036)
Q Consensus 95 pkIiy~TRThsQl~Qvv~ELrkl~ 118 (1036)
-=-++.|.|+.+.-|+-+.+..+|
T Consensus 76 iFalvlTPTrELA~QiaEQF~alG 99 (442)
T KOG0340|consen 76 IFALVLTPTRELALQIAEQFIALG 99 (442)
T ss_pred ceEEEecchHHHHHHHHHHHHHhc
Confidence 135566889999888877776554
No 178
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=84.40 E-value=3.3 Score=48.46 Aligned_cols=41 Identities=20% Similarity=0.301 Sum_probs=29.6
Q ss_pred CCCCHHHHHHHHHHHHHHHcC---CceEEeccCCCChhHHHHHH
Q 001656 15 FEAYDCQLVYMEKVIQSLQNK---CNALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~---k~~llEAPTGTGKTLa~L~~ 55 (1036)
++-|+.|.+-+..++...-.| .|+++-+|||||||.....-
T Consensus 19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v 62 (366)
T COG1474 19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFV 62 (366)
T ss_pred ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHH
Confidence 345888887666555555444 66999999999999976543
No 179
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=84.33 E-value=1.7 Score=50.53 Aligned_cols=45 Identities=27% Similarity=0.473 Sum_probs=35.6
Q ss_pred ecCCCCCC--HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 11 VEFPFEAY--DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 11 v~FPfepy--~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
-.|.|..+ +.|++.. .-+++.++.+.+..|||.||+|||-+|+|.
T Consensus 13 K~FGh~kFKs~LQE~A~---~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~ 59 (641)
T KOG0352|consen 13 KLFGHKKFKSRLQEQAI---NCIVKRKCDVYVSMPTGAGKSLCYQLPALV 59 (641)
T ss_pred HHhCchhhcChHHHHHH---HHHHhccCcEEEeccCCCchhhhhhchHHH
Confidence 35777754 6777643 344567789999999999999999999995
No 180
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=83.98 E-value=3.7 Score=53.15 Aligned_cols=139 Identities=16% Similarity=0.160 Sum_probs=76.6
Q ss_pred HHHHHhhhccCCeEEEEccCCCC-hHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHH
Q 001656 425 IAMQEFSRLEVGSIILTSGTLSP-MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQE 503 (1036)
Q Consensus 425 ~~~~~ll~~~~~svIltSgTLsp-~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~ 503 (1036)
..++.++. -.+.+--|+||... -..|....+++... ||.+.-... .+.++ .-|.+. .+-..+
T Consensus 554 IT~QnyFR-~Y~kLsGMTGTA~tea~Ef~~IY~L~Vv~-------IPTnrP~~R--~D~~D-----~vy~t~--~eK~~A 616 (1112)
T PRK12901 554 ITLQNYFR-MYHKLAGMTGTAETEAGEFWDIYKLDVVV-------IPTNRPIAR--KDKED-----LVYKTK--REKYNA 616 (1112)
T ss_pred eeHHHHHh-hCchhcccCCCCHHHHHHHHHHhCCCEEE-------CCCCCCcce--ecCCC-----eEecCH--HHHHHH
Confidence 34555555 55678888899865 23566666665321 111110000 01111 123222 232467
Q ss_pred HHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCC
Q 001656 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTST 583 (1036)
Q Consensus 504 l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~ 583 (1036)
+.+.|.++.. ....|||-.+|-+.=+.+...++..... -. ++--+....=.++++ ..+.
T Consensus 617 ii~ei~~~~~-~GrPVLVGT~SVe~SE~lS~~L~~~gI~------H~-------VLNAK~h~~EAeIVA-------~AG~ 675 (1112)
T PRK12901 617 VIEEITELSE-AGRPVLVGTTSVEISELLSRMLKMRKIP------HN-------VLNAKLHQKEAEIVA-------EAGQ 675 (1112)
T ss_pred HHHHHHHHHH-CCCCEEEEeCcHHHHHHHHHHHHHcCCc------HH-------HhhccchhhHHHHHH-------hcCC
Confidence 7777777764 5669999999999988888777754221 01 111111110112222 2246
Q ss_pred CCeEEEEEccCCccccccCC
Q 001656 584 SGAVFFAVCRGKVSEGLDFA 603 (1036)
Q Consensus 584 ~gaVLfaV~rGk~sEGIDf~ 603 (1036)
.|+|-+|+ .-...|-|+.
T Consensus 676 ~GaVTIAT--NMAGRGTDIk 693 (1112)
T PRK12901 676 PGTVTIAT--NMAGRGTDIK 693 (1112)
T ss_pred CCcEEEec--cCcCCCcCcc
Confidence 79999998 6778999987
No 181
>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=83.91 E-value=2 Score=44.42 Aligned_cols=21 Identities=38% Similarity=0.393 Sum_probs=15.8
Q ss_pred ceEEeccCCCChhHHHHHHHH
Q 001656 37 NALLESPTGTGKTLCLLCATL 57 (1036)
Q Consensus 37 ~~llEAPTGTGKTLa~L~~aL 57 (1036)
..++.+|+|||||.-.+--+.
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~ 21 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLY 21 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHH
Confidence 368999999999995543333
No 182
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=83.77 E-value=13 Score=44.36 Aligned_cols=77 Identities=14% Similarity=0.218 Sum_probs=52.0
Q ss_pred CcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhccCCCCCeEEEEEccCC
Q 001656 517 DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTSTSGAVFFAVCRGK 595 (1036)
Q Consensus 517 ggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk 595 (1036)
..++||||+-..-.-+++.++....+ +++ +..+.. .....+..+|+. .+.+||+|. .-
T Consensus 331 ~KiiVF~sT~~~vk~~~~lL~~~dlp----v~e---------iHgk~~Q~kRT~~~~~F~k------aesgIL~cT--DV 389 (543)
T KOG0342|consen 331 YKIIVFFSTCMSVKFHAELLNYIDLP----VLE---------IHGKQKQNKRTSTFFEFCK------AESGILVCT--DV 389 (543)
T ss_pred ceEEEEechhhHHHHHHHHHhhcCCc----hhh---------hhcCCcccccchHHHHHhh------cccceEEec--ch
Confidence 69999999998877777666532211 100 111111 124456788886 578999977 78
Q ss_pred ccccccCCCCCceEEEEeCCC
Q 001656 596 VSEGLDFADHAGRAVVITGMP 616 (1036)
Q Consensus 596 ~sEGIDf~gd~~R~VIIvGLP 616 (1036)
...|+|||+ ...||=+|.|
T Consensus 390 aARGlD~P~--V~~VvQ~~~P 408 (543)
T KOG0342|consen 390 AARGLDIPD--VDWVVQYDPP 408 (543)
T ss_pred hhccCCCCC--ceEEEEeCCC
Confidence 899999999 5678877755
No 183
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=83.59 E-value=15 Score=44.93 Aligned_cols=74 Identities=24% Similarity=0.203 Sum_probs=54.8
Q ss_pred CCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 14 PFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 14 Pfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
.|+ |.+.|...+-.+ -.|+.++..|+||||||+||++|.|........ ..
T Consensus 48 gf~~pt~IQ~~~IP~~----l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~-------------------------~~ 98 (513)
T COG0513 48 GFEEPTPIQLAAIPLI----LAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVE-------------------------RK 98 (513)
T ss_pred CCCCCCHHHHHHHHHH----hCCCCEEEECCCCChHHHHHHHHHHHHHhcccc-------------------------cC
Confidence 455 778888855544 455999999999999999999999976432110 00
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..+ .++.+.|..+..|+.++++++
T Consensus 99 ~~~-aLil~PTRELA~Qi~~~~~~~ 122 (513)
T COG0513 99 YVS-ALILAPTRELAVQIAEELRKL 122 (513)
T ss_pred CCc-eEEECCCHHHHHHHHHHHHHH
Confidence 112 788889999999999998764
No 184
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=83.54 E-value=3.2 Score=52.06 Aligned_cols=141 Identities=12% Similarity=0.104 Sum_probs=82.1
Q ss_pred HHHHHHhhhccCCeEEEEccCCCC-hHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHH
Q 001656 424 GIAMQEFSRLEVGSIILTSGTLSP-MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQ 502 (1036)
Q Consensus 424 s~~~~~ll~~~~~svIltSgTLsp-~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~ 502 (1036)
+..++.++. ....+--|+||... .+.|.+..+++... +|++.-... .+.|+ .-|. ...+...
T Consensus 352 sIT~QnfFr-~Y~kLsGMTGTa~t~~~Ef~~iY~l~Vv~-------IPtnkp~~R--~d~~d-----~iy~--t~~~k~~ 414 (764)
T PRK12326 352 TITVQALIG-RYPTVCGMTGTAVAAGEQLRQFYDLGVSV-------IPPNKPNIR--EDEAD-----RVYA--TAAEKND 414 (764)
T ss_pred hhhHHHHHH-hcchheeecCCChhHHHHHHHHhCCcEEE-------CCCCCCcee--ecCCC-----ceEe--CHHHHHH
Confidence 456677766 56789999999975 34677777776321 111110000 11111 1122 2344556
Q ss_pred HHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCC
Q 001656 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTS 582 (1036)
Q Consensus 503 ~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~ 582 (1036)
++.+.|.++.+ ....|||.+.|-+.-+.+...+.+... +..++--++...=.++ |.+.+
T Consensus 415 Aii~ei~~~~~-~GrPVLVgt~sI~~SE~ls~~L~~~gI-------------~h~vLNAk~~~~EA~I-------Ia~AG 473 (764)
T PRK12326 415 AIVEHIAEVHE-TGQPVLVGTHDVAESEELAERLRAAGV-------------PAVVLNAKNDAEEARI-------IAEAG 473 (764)
T ss_pred HHHHHHHHHHH-cCCCEEEEeCCHHHHHHHHHHHHhCCC-------------cceeeccCchHhHHHH-------HHhcC
Confidence 77777777654 566999999999999999888876421 1112222221111112 22234
Q ss_pred CCCeEEEEEccCCccccccCCC
Q 001656 583 TSGAVFFAVCRGKVSEGLDFAD 604 (1036)
Q Consensus 583 ~~gaVLfaV~rGk~sEGIDf~g 604 (1036)
..|+|-+|+ .-...|.|+.=
T Consensus 474 ~~gaVTIAT--NMAGRGTDIkL 493 (764)
T PRK12326 474 KYGAVTVST--QMAGRGTDIRL 493 (764)
T ss_pred CCCcEEEEe--cCCCCccCeec
Confidence 679999998 77888999863
No 185
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=83.27 E-value=1.6 Score=50.11 Aligned_cols=40 Identities=15% Similarity=0.189 Sum_probs=30.3
Q ss_pred CHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
|-.-.+....|..+|..+++++|++|+|||||. |+-.|+.
T Consensus 47 y~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTt--la~~lA~ 86 (327)
T TIGR01650 47 YLFDKATTKAICAGFAYDRRVMVQGYHGTGKST--HIEQIAA 86 (327)
T ss_pred ccCCHHHHHHHHHHHhcCCcEEEEeCCCChHHH--HHHHHHH
Confidence 333344556788999999999999999999998 4445543
No 186
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=83.18 E-value=1.5 Score=49.28 Aligned_cols=38 Identities=26% Similarity=0.271 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCAT 56 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~a 56 (1036)
.+|...-..+..++.++ -+.++-+|.|||||-+.|+.|
T Consensus 39 ~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafa 78 (346)
T KOG0989|consen 39 AGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFA 78 (346)
T ss_pred cchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHH
Confidence 48988888888888774 679999999999999887554
No 187
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=82.99 E-value=14 Score=42.35 Aligned_cols=88 Identities=18% Similarity=0.242 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCC
Q 001656 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTS 582 (1036)
Q Consensus 503 ~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~ 582 (1036)
.|-.+|.... ....-+|+|||+.+.|+++.+.+++..+. .+...+...+. ..-+-++.|+.
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-----------ETIASVHSEDQ-HRKEKVEAFRD------ 353 (441)
T ss_pred HHHHHHHHHH-hcCCcEEEEecchHHHHHHHHHHHhhCCc-----------cceeeeeccCc-cHHHHHHHHHc------
Confidence 3444444443 34568999999999999999999764332 12234433332 34566788875
Q ss_pred CCCeEEEEEccCCccccccCCCCCceEEEEeC
Q 001656 583 TSGAVFFAVCRGKVSEGLDFADHAGRAVVITG 614 (1036)
Q Consensus 583 ~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvG 614 (1036)
++-.||+++ --+-.|+-|+. --|+++|
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 567899988 57788888877 3455555
No 188
>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=82.68 E-value=1 Score=42.78 Aligned_cols=19 Identities=32% Similarity=0.354 Sum_probs=16.2
Q ss_pred CCceEEeccCCCChhHHHH
Q 001656 35 KCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L 53 (1036)
+.++++-+|+|||||..+.
T Consensus 2 ~~~~~l~G~~G~GKTtl~~ 20 (148)
T smart00382 2 GEVILIVGPPGSGKTTLAR 20 (148)
T ss_pred CCEEEEECCCCCcHHHHHH
Confidence 5689999999999999543
No 189
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=82.55 E-value=1.4 Score=52.06 Aligned_cols=39 Identities=36% Similarity=0.331 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHcC----------------CceEEeccCCCChhHHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK----------------CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~----------------k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
-+|.+....+.-|+.++ +++++.+|||+|||. |+-+|+-
T Consensus 15 iGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~--lAraLA~ 69 (441)
T TIGR00390 15 IGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTE--IARRLAK 69 (441)
T ss_pred cCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHH--HHHHHHH
Confidence 58989889998888864 789999999999998 6666653
No 190
>PRK09183 transposase/IS protein; Provisional
Probab=82.50 E-value=1.2 Score=49.42 Aligned_cols=27 Identities=33% Similarity=0.598 Sum_probs=21.9
Q ss_pred HHcCCceEEeccCCCChhHHHHHHHHHHH
Q 001656 32 LQNKCNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 32 L~~~k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
+.++.++++-+|+|||||. |+.+|+..
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 7788999999999999998 55555543
No 191
>PRK08939 primosomal protein DnaI; Reviewed
Probab=82.47 E-value=2 Score=48.96 Aligned_cols=39 Identities=23% Similarity=0.207 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHH------cCCceEEeccCCCChhHHHHHHHHHHH
Q 001656 20 CQLVYMEKVIQSLQ------NKCNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~------~~k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
.+.+++..+.+-+. .+++++|-+|+|||||. |+.||+..
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 55555555555555 34689999999999998 66666543
No 192
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=82.23 E-value=3.2 Score=52.46 Aligned_cols=67 Identities=24% Similarity=0.196 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEE
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTIL 98 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIi 98 (1036)
+.|....+.|...+..-...++.+-||+|||-.||-.+-....+ ...++
T Consensus 201 ~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~-------------------------------GkqvL 249 (730)
T COG1198 201 QEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQ-------------------------------GKQVL 249 (730)
T ss_pred HHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHc-------------------------------CCEEE
Confidence 78999999999888334789999999999999999664433332 24799
Q ss_pred EEcCCHHHHHHHHHHHHh
Q 001656 99 YTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 99 y~TRThsQl~Qvv~ELrk 116 (1036)
+...-+++.-|++..++.
T Consensus 250 vLVPEI~Ltpq~~~rf~~ 267 (730)
T COG1198 250 VLVPEIALTPQLLARFKA 267 (730)
T ss_pred EEeccccchHHHHHHHHH
Confidence 999999999999998874
No 193
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=82.12 E-value=1.8 Score=49.61 Aligned_cols=33 Identities=33% Similarity=0.449 Sum_probs=25.0
Q ss_pred HHHHHHHHHHcCCceEEeccCCCChhHHHHHHHH
Q 001656 24 YMEKVIQSLQNKCNALLESPTGTGKTLCLLCATL 57 (1036)
Q Consensus 24 ~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aL 57 (1036)
+++.+..++..++++++-+|||+|||- +|-+.+
T Consensus 137 ~~~~L~~~v~~~~~ilI~G~tGSGKTT-ll~aL~ 169 (319)
T PRK13894 137 QREAIIAAVRAHRNILVIGGTGSGKTT-LVNAII 169 (319)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHH-HHHHHH
Confidence 445567788889999999999999993 443333
No 194
>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=82.01 E-value=1.9 Score=49.87 Aligned_cols=44 Identities=25% Similarity=0.298 Sum_probs=36.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHc--CCceEEeccCCCChhHHHHHHHHH
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQN--KCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~--~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
|||.---+|.++...+.-++-. ..+++|++|+|||||. |+-+|+
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 8999889999999998777766 5889999999999999 444443
No 195
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=81.99 E-value=2.8 Score=52.21 Aligned_cols=90 Identities=22% Similarity=0.326 Sum_probs=56.9
Q ss_pred CCeEEEEccCCCChHHHHHHhCCCCCccccCCCcC--CCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHH
Q 001656 435 VGSIILTSGTLSPMDSFAQELKLNFPLRVENPHVI--TSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIA 512 (1036)
Q Consensus 435 ~~svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~--~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~ 512 (1036)
.-..|+|||||..-++-....- |++ .|.++ +..|. +++.-|+.|..++|+++--+....|.
T Consensus 414 pLKLIIMSATLRVsDFtenk~L--Fpi---~pPlikVdARQf------------PVsIHF~krT~~DYi~eAfrKtc~IH 476 (1172)
T KOG0926|consen 414 PLKLIIMSATLRVSDFTENKRL--FPI---PPPLIKVDARQF------------PVSIHFNKRTPDDYIAEAFRKTCKIH 476 (1172)
T ss_pred ceeEEEEeeeEEecccccCcee--cCC---CCceeeeecccC------------ceEEEeccCCCchHHHHHHHHHHHHh
Confidence 4578999999977544321110 111 01122 12332 23445666766678766555555565
Q ss_pred HHc-CCcEEEEecCHHHHHHHHHHHhhcCC
Q 001656 513 RIV-PDGLLIFFPSYYLMDQCIACWKNTSH 541 (1036)
Q Consensus 513 ~~v-pggvLVfFpSy~~l~~v~~~~~~~~~ 541 (1036)
+.. |||+|||.+--...+++.+.++++.+
T Consensus 477 ~kLP~G~ILVFvTGQqEV~qL~~kLRK~~p 506 (1172)
T KOG0926|consen 477 KKLPPGGILVFVTGQQEVDQLCEKLRKRFP 506 (1172)
T ss_pred hcCCCCcEEEEEeChHHHHHHHHHHHhhCc
Confidence 554 58999999999999999999998744
No 196
>PRK06526 transposase; Provisional
Probab=81.55 E-value=1.5 Score=48.61 Aligned_cols=28 Identities=36% Similarity=0.457 Sum_probs=21.9
Q ss_pred HHHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 30 QSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 30 ~aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+-+.++.++++-+|+|||||. |+.+|+.
T Consensus 93 ~fi~~~~nlll~Gp~GtGKTh--La~al~~ 120 (254)
T PRK06526 93 DFVTGKENVVFLGPPGTGKTH--LAIGLGI 120 (254)
T ss_pred chhhcCceEEEEeCCCCchHH--HHHHHHH
Confidence 445677999999999999998 5555554
No 197
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=81.06 E-value=47 Score=40.48 Aligned_cols=182 Identities=14% Similarity=0.097 Sum_probs=97.9
Q ss_pred CeEEEEccCCCCh-HHHHHHhCCCCCc-cccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHH
Q 001656 436 GSIILTSGTLSPM-DSFAQELKLNFPL-RVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIAR 513 (1036)
Q Consensus 436 ~svIltSgTLsp~-~~f~~~LGl~~~~-~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~ 513 (1036)
-.++=-|+|+..- ....+..|++... ..+.+.+- ....+|+-=|..|+. ..+....++.+.+..+.+++.
T Consensus 452 ~~~~~~~~~~K~~~~~~~~~~~~~E~~Li~~DGSPs-~~K~~V~WNP~~~P~-------~~~~~~~~i~E~s~~~~~~i~ 523 (1034)
T KOG4150|consen 452 MGVYDGDTPYKDRTRLRSELANLSELELVTIDGSPS-SEKLFVLWNPSAPPT-------SKSEKSSKVVEVSHLFAEMVQ 523 (1034)
T ss_pred cceEeCCCCcCCHHHHHHHhcCCcceEEEEecCCCC-ccceEEEeCCCCCCc-------chhhhhhHHHHHHHHHHHHHH
Confidence 3567777888643 3334455665311 11112111 123334322322221 124445678889998888885
Q ss_pred HcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccC--CCCCeEEEEE
Q 001656 514 IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDT--STSGAVFFAV 591 (1036)
Q Consensus 514 ~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~--~~~gaVLfaV 591 (1036)
..-+++.|+||...-+-+...-++-..+-+..+-..+... |.+- +++=+++|... .++=.-++++
T Consensus 524 -~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SY-------RGGY-----~A~DRRKIE~~~F~G~L~giIaT 590 (1034)
T KOG4150|consen 524 -HGLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSY-------RGGY-----IAEDRRKIESDLFGGKLCGIIAT 590 (1034)
T ss_pred -cCCcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhh-------cCcc-----chhhHHHHHHHhhCCeeeEEEec
Confidence 4458999999999988776544432111000111111111 1110 01112233221 1122223344
Q ss_pred ccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCC
Q 001656 592 CRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGR 671 (1036)
Q Consensus 592 ~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGR 671 (1036)
..+-=|||+.+ +.+|+.+|.|+. +-.+.|-.||
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 78888999987 899999999983 3445688899
Q ss_pred ccccCCCcEEEEEE
Q 001656 672 VIRHRHDYGAIIFC 685 (1036)
Q Consensus 672 lIR~~~D~G~viLl 685 (1036)
.=|..+|-=++++.
T Consensus 624 AGRRNk~SLavyva 637 (1034)
T KOG4150|consen 624 AGRRNKPSLAVYVA 637 (1034)
T ss_pred ccccCCCceEEEEE
Confidence 98888886666665
No 198
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=80.96 E-value=3.3 Score=55.31 Aligned_cols=33 Identities=15% Similarity=0.386 Sum_probs=27.5
Q ss_pred HHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 25 MEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 25 m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
.+.|.++++++..+++.|+||+|||. .+|.+.+
T Consensus 79 r~~Il~ai~~~~VviI~GeTGSGKTT--qlPq~ll 111 (1294)
T PRK11131 79 KQDILEAIRDHQVVIVAGETGSGKTT--QLPKICL 111 (1294)
T ss_pred HHHHHHHHHhCCeEEEECCCCCCHHH--HHHHHHH
Confidence 36788889999999999999999999 4575544
No 199
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=80.88 E-value=1.2 Score=45.60 Aligned_cols=42 Identities=26% Similarity=0.396 Sum_probs=24.4
Q ss_pred CCCCHHHHHHHHHHHHHHHc--CCceEEeccCCCChhHHHHHHHHH
Q 001656 15 FEAYDCQLVYMEKVIQSLQN--KCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~--~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
|--|+.|.+-+....++... +.+++|.+|.|+|||. |+..+.
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 200
>PRK07952 DNA replication protein DnaC; Validated
Probab=80.82 E-value=6.9 Score=43.20 Aligned_cols=38 Identities=24% Similarity=0.383 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHH---cC-CceEEeccCCCChhHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQ---NK-CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~---~~-k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+.|......+.+..+ ++ ..++|-+|+|||||. |+.+++
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 467655555555443 22 479999999999998 555554
No 201
>PRK08116 hypothetical protein; Validated
Probab=80.78 E-value=7.2 Score=43.63 Aligned_cols=21 Identities=48% Similarity=0.526 Sum_probs=17.0
Q ss_pred ceEEeccCCCChhHHHHHHHHHH
Q 001656 37 NALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 37 ~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
.++|-+|+|||||. |+.+++.
T Consensus 116 gl~l~G~~GtGKTh--La~aia~ 136 (268)
T PRK08116 116 GLLLWGSVGTGKTY--LAACIAN 136 (268)
T ss_pred eEEEECCCCCCHHH--HHHHHHH
Confidence 49999999999998 6556654
No 202
>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=80.75 E-value=1.6 Score=46.81 Aligned_cols=34 Identities=26% Similarity=0.196 Sum_probs=27.6
Q ss_pred CHHHHHHHHHHHHHHHcCCceEEeccCCCChhHH
Q 001656 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLC 51 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa 51 (1036)
=.+|.+.-.++.-|...+.++++.+|.|||||+.
T Consensus 5 I~GQe~aKrAL~iAAaG~h~lLl~GppGtGKTml 38 (206)
T PF01078_consen 5 IVGQEEAKRALEIAAAGGHHLLLIGPPGTGKTML 38 (206)
T ss_dssp SSSTHHHHHHHHHHHHCC--EEEES-CCCTHHHH
T ss_pred hcCcHHHHHHHHHHHcCCCCeEEECCCCCCHHHH
Confidence 3578888899999999999999999999999993
No 203
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=80.72 E-value=4.9 Score=50.63 Aligned_cols=91 Identities=15% Similarity=0.096 Sum_probs=59.6
Q ss_pred HHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecC-CCCCChHHHHHHHHHHhcc
Q 001656 502 QELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEP-RQSSLFPLAIEDYMAKLKD 580 (1036)
Q Consensus 502 ~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~-~~~~~~~~~i~~f~~~i~~ 580 (1036)
..+.+.|..... ....++||+.+....+.+...+.+... +..++.. .+..+...+++.|+.
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 344455554442 345799999999999999888875421 1122322 222345567777763
Q ss_pred CCCCCeEEEEEccCCccccccCCCCCceEEEEeCCC
Q 001656 581 TSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (1036)
Q Consensus 581 ~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLP 616 (1036)
++-.|++|+ |.+++|+|+++ .+.||+...+
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 345566666 99999999998 5788888765
No 204
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=80.44 E-value=6.1 Score=47.89 Aligned_cols=75 Identities=19% Similarity=0.075 Sum_probs=56.7
Q ss_pred CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCe
Q 001656 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pk 96 (1036)
|-|.|.+. .-.+-.|+.++.-|-||+|||||||+|++.+....... ....+.|+
T Consensus 114 PtpIQaq~----wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~----------------------~~~~~~P~ 167 (519)
T KOG0331|consen 114 PTPIQAQG----WPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGK----------------------LSRGDGPI 167 (519)
T ss_pred Cchhhhcc----cceeccCCceEEEeccCCcchhhhhhHHHHHHHhcccc----------------------ccCCCCCe
Confidence 55666653 33445679999999999999999999999987752110 11235799
Q ss_pred EEEEcCCHHHHHHHHHHHHhc
Q 001656 97 ILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 97 Iiy~TRThsQl~Qvv~ELrkl 117 (1036)
+++.+.|..+..|+-.+++.+
T Consensus 168 vLVL~PTRELA~QV~~~~~~~ 188 (519)
T KOG0331|consen 168 VLVLAPTRELAVQVQAEAREF 188 (519)
T ss_pred EEEEcCcHHHHHHHHHHHHHH
Confidence 999999999999988887654
No 205
>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=80.35 E-value=6.7 Score=51.09 Aligned_cols=45 Identities=22% Similarity=0.206 Sum_probs=31.7
Q ss_pred hhcCccEEEeccccccCHh--hhhccC----CCCCCcEEEEeCccChHHHH
Q 001656 206 LQKTVDIVFAPYNYLIDPW--FRKGLG----VEWKNSILIFDEAHNLEGIC 250 (1036)
Q Consensus 206 ~~~~ADIIv~nYnYLld~~--ir~~l~----i~~~~~IlIfDEAHNLed~~ 250 (1036)
..-.|+|+||+=..++-.. .|...- +..-+++|||||.|-.+...
T Consensus 559 rll~apv~V~TIDQlL~a~~~~r~~~~~l~ll~La~svlVlDEVHaYD~~~ 609 (1110)
T TIGR02562 559 TLLAAPVLVCTIDHLIPATESHRGGHHIAPMLRLMSSDLILDEPDDYEPED 609 (1110)
T ss_pred hhhcCCeEEecHHHHHHHhhhcccchhHHHHHHhcCCCEEEECCccCCHHH
Confidence 4457899999988776544 342211 34568899999999888764
No 206
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=79.86 E-value=2.5 Score=50.44 Aligned_cols=35 Identities=34% Similarity=0.592 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 23 e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+..+.+..+|..++++++.+|+|||||... -.|+.
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 345667888889999999999999999743 44543
No 207
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=79.81 E-value=0.41 Score=58.45 Aligned_cols=52 Identities=25% Similarity=0.466 Sum_probs=33.3
Q ss_pred CCchhHHHH------hhhcCccEEEeccccccCHh---hh--hc----cCCCCCCcEEEEeCccChHHH
Q 001656 196 GPCPYFMTR------ELQKTVDIVFAPYNYLIDPW---FR--KG----LGVEWKNSILIFDEAHNLEGI 249 (1036)
Q Consensus 196 ~~CPY~~aR------~~~~~ADIIv~nYnYLld~~---ir--~~----l~i~~~~~IlIfDEAHNLed~ 249 (1036)
.+|-|+-.. +.+..-||||++|+.+.... .. .. +.|-|.. ||+|||||+-+.
T Consensus 412 sV~~~HG~n~r~i~~~~L~~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W~R--VILDEAH~IrN~ 478 (901)
T KOG4439|consen 412 SVYLYHGPNKREISAKELRKYDVVITTYNLVANKPDDELEEGKNSSPLARIAWSR--VILDEAHNIRNS 478 (901)
T ss_pred EEEEecCCccccCCHHHHhhcceEEEeeeccccCCchhhhcccCccHHHHhhHHH--hhhhhhhhhccc
Confidence 445555433 34578899999999997611 11 00 1255644 899999998664
No 208
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=79.79 E-value=1.3 Score=49.95 Aligned_cols=23 Identities=65% Similarity=0.814 Sum_probs=19.4
Q ss_pred CCceEEeccCCCChhHHHHHHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+.|+++=+|||+|||| |.-+||-
T Consensus 97 KSNILLiGPTGsGKTl--LAqTLAk 119 (408)
T COG1219 97 KSNILLIGPTGSGKTL--LAQTLAK 119 (408)
T ss_pred eccEEEECCCCCcHHH--HHHHHHH
Confidence 3679999999999999 7778863
No 209
>PLN03025 replication factor C subunit; Provisional
Probab=79.65 E-value=2 Score=49.02 Aligned_cols=34 Identities=26% Similarity=0.344 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHH
Q 001656 20 CQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L 53 (1036)
+|.+.+..+...+..+ .++++.+|+|||||..+.
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~ 52 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSIL 52 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHH
Confidence 7888888888877776 579999999999997554
No 210
>PRK12377 putative replication protein; Provisional
Probab=79.36 E-value=5.2 Score=44.24 Aligned_cols=39 Identities=26% Similarity=0.305 Sum_probs=25.8
Q ss_pred HHHHHHHHHHH---HHHHcC-CceEEeccCCCChhHHHHHHHHHH
Q 001656 19 DCQLVYMEKVI---QSLQNK-CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 19 ~~Q~e~m~~V~---~aL~~~-k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
++|...+..+. +.+..+ .+++|-+|+|||||. |+.|++.
T Consensus 81 ~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKTh--La~AIa~ 123 (248)
T PRK12377 81 DGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNH--LAAAIGN 123 (248)
T ss_pred hhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHH--HHHHHHH
Confidence 57765554433 333333 679999999999998 5555553
No 211
>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=79.33 E-value=2.3 Score=50.39 Aligned_cols=39 Identities=44% Similarity=0.429 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHc--------------------CCceEEeccCCCChhHHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQN--------------------KCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~--------------------~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
-+|.+....+..|+.+ +.+++|.+|||+|||. |+-+|+.
T Consensus 80 iGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~--lAraLA~ 138 (413)
T TIGR00382 80 IGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTL--LAQTLAR 138 (413)
T ss_pred cCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHH--HHHHHHH
Confidence 4788888888777621 2579999999999999 6666653
No 212
>cd07353 harmonin_N N-terminal protein-binding module of harmonin. Harmonin is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein, which organizes the Usher protein network of the inner ear and the retina. Harmonin contains a single copy of this domain, which is found at the N-terminus of all three harmonin isoform classes (a, b and c), and which preceeds the first PDZ protein-binding domain, PDZ1. This harmonin_N domain binds specifically to a short internal peptide fragment of the cadherin 23 cytoplasmic domain; cadherin 23 is a component of the Usher protein network.
Probab=79.31 E-value=5.1 Score=35.05 Aligned_cols=67 Identities=19% Similarity=0.446 Sum_probs=53.3
Q ss_pred HHHHHHHhhCHHHHHHHHHHHHHHh--hhhhchHHHHHHHHHhhcCCCChhhhhcccccccCCcchhHHHH
Q 001656 963 FLIQVQEKLSATEYKEFVGFMKAMK--SKAMKISHVLQSIAKLFAGPERLPLLRRFKDYVPAKYHPLYEQY 1031 (1036)
Q Consensus 963 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1031 (1036)
|--+|.--+-+++=|+.. -.+|+ -.+|.+.+..--|-..-..|.|+||.+.-|-.||-||.--|.|+
T Consensus 8 fr~kV~~~ie~EaEkd~l--Y~~Lr~YHqSm~lp~li~Dlk~VIN~P~R~pLfd~IR~liplkhqveyd~l 76 (79)
T cd07353 8 FRHKVELLIDNEAEKDYL--YDVLRMYHQSMNLPVLVGDLKLVINEPSRLPLFDAIRPLIPLKHQVEYDQL 76 (79)
T ss_pred HHHHHHHhhccHHHHHHH--HHHHHHHHhccCHHHHHHHHHHHhCCccccchHHHHHhhccchhhhhhhhc
Confidence 555565556666555543 34555 46899999999999999999999999999999999999888876
No 213
>COG4889 Predicted helicase [General function prediction only]
Probab=79.21 E-value=1.2 Score=55.85 Aligned_cols=25 Identities=44% Similarity=0.652 Sum_probs=21.3
Q ss_pred HHHHHHHhhCCccccC--CCcEEEEEE
Q 001656 661 ASRAVNQAVGRVIRHR--HDYGAIIFC 685 (1036)
Q Consensus 661 A~r~v~QaiGRlIR~~--~D~G~viLl 685 (1036)
+|..|.||+||++|.. +|||-|||-
T Consensus 558 smVDIVQaVGRVMRKa~gK~yGYIILP 584 (1518)
T COG4889 558 SMVDIVQAVGRVMRKAKGKKYGYIILP 584 (1518)
T ss_pred hHHHHHHHHHHHHHhCcCCccceEEEE
Confidence 4788999999999976 599998873
No 214
>PRK06921 hypothetical protein; Provisional
Probab=79.01 E-value=5.2 Score=44.67 Aligned_cols=23 Identities=35% Similarity=0.371 Sum_probs=18.1
Q ss_pred cCCceEEeccCCCChhHHHHHHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
.+.++++-+|||||||. |+.|++
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 36789999999999998 444454
No 215
>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=79.00 E-value=3.8 Score=44.67 Aligned_cols=48 Identities=21% Similarity=0.252 Sum_probs=39.5
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhc
Q 001656 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLG 64 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~ 64 (1036)
.--|+.|.+++.++.+. ..|++.+...-.|-|||-+.+ |.+++.-..+
T Consensus 22 iliR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKTsVI~-Pmla~~LAdg 69 (229)
T PF12340_consen 22 ILIRPVQVEIAREMISP-PSGKNSVMQLNMGEGKTSVIV-PMLALALADG 69 (229)
T ss_pred ceeeHHHHHHHHHHhCC-CCCCCeEeeecccCCccchHH-HHHHHHHcCC
Confidence 34689999999999875 678999999999999998754 8887766544
No 216
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=78.98 E-value=7.8 Score=44.48 Aligned_cols=34 Identities=26% Similarity=0.283 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCAT 56 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~a 56 (1036)
+.|..|++.|.+ ....+--+|-|||||.-.-..|
T Consensus 131 ~~Q~~y~eai~~----~di~fGiGpAGTGKTyLava~a 164 (348)
T COG1702 131 PGQNMYPEAIEE----HDIVFGIGPAGTGKTYLAVAKA 164 (348)
T ss_pred hhHHHHHHHHHh----cCeeeeecccccCChhhhHHhH
Confidence 799999877654 4567777899999998444333
No 217
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=78.94 E-value=2.8 Score=48.36 Aligned_cols=32 Identities=25% Similarity=0.216 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHcCCceEEeccCCCChhHHH
Q 001656 21 QLVYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 21 Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~ 52 (1036)
+.++++.+..++..++++++-+|||+|||-.+
T Consensus 146 ~~~~~~~L~~~v~~~~nili~G~tgSGKTTll 177 (332)
T PRK13900 146 EKKIKEFLEHAVISKKNIIISGGTSTGKTTFT 177 (332)
T ss_pred hHHHHHHHHHHHHcCCcEEEECCCCCCHHHHH
Confidence 34567778888899999999999999999843
No 218
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=78.94 E-value=6.2 Score=47.54 Aligned_cols=85 Identities=16% Similarity=0.208 Sum_probs=58.9
Q ss_pred HHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEE
Q 001656 511 IARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFA 590 (1036)
Q Consensus 511 l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfa 590 (1036)
++..-||.+|||++|.+...+++..++....+ ...+...+.+ ++ .-.-++.|++ ...+||+|
T Consensus 458 fl~ryPGrTlVF~NsId~vKRLt~~L~~L~i~-p~~LHA~M~Q--------Kq---RLknLEkF~~------~~~~VLia 519 (731)
T KOG0347|consen 458 FLTRYPGRTLVFCNSIDCVKRLTVLLNNLDIP-PLPLHASMIQ--------KQ---RLKNLEKFKQ------SPSGVLIA 519 (731)
T ss_pred EEeecCCceEEEechHHHHHHHHHHHhhcCCC-CchhhHHHHH--------HH---HHHhHHHHhc------CCCeEEEe
Confidence 44467999999999999999999888764322 1122222211 11 1123677775 57899999
Q ss_pred EccCCccccccCCCCCceEEEEeCCCC
Q 001656 591 VCRGKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 591 V~rGk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
+ .-...|+|++| ..-||=.-+|-
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 8 78899999999 56777777765
No 219
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=78.65 E-value=2.2 Score=50.68 Aligned_cols=39 Identities=41% Similarity=0.399 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHH------------------cCCceEEeccCCCChhHHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQ------------------NKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~------------------~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
-+|.+....+..++. ...++++.+|||||||. |+-+|+.
T Consensus 74 iGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~--lAr~lA~ 130 (412)
T PRK05342 74 IGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTL--LAQTLAR 130 (412)
T ss_pred eChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHH--HHHHHHH
Confidence 467777777766552 13679999999999998 5566654
No 220
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=78.32 E-value=12 Score=46.38 Aligned_cols=94 Identities=13% Similarity=0.238 Sum_probs=58.5
Q ss_pred HHHhhhccCC-eEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHH
Q 001656 427 MQEFSRLEVG-SIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELG 505 (1036)
Q Consensus 427 ~~~ll~~~~~-svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~ 505 (1036)
++.++.++.. .+|+|||||.- +-|..-++--..+.++. .-|+-+ +++. +....+|+++..
T Consensus 186 LKki~~~R~~LklIimSATlda-~kfS~yF~~a~i~~i~G-R~fPVe---i~y~--------------~~p~~dYv~a~~ 246 (674)
T KOG0922|consen 186 LKKILKKRPDLKLIIMSATLDA-EKFSEYFNNAPILTIPG-RTFPVE---ILYL--------------KEPTADYVDAAL 246 (674)
T ss_pred HHHHHhcCCCceEEEEeeeecH-HHHHHHhcCCceEeecC-CCCcee---EEec--------------cCCchhhHHHHH
Confidence 4555554444 89999999974 33333332211112111 112211 2222 233467988888
Q ss_pred HHHHHHHHH-cCCcEEEEecCHHHHHHHHHHHhhc
Q 001656 506 NTIVNIARI-VPDGLLIFFPSYYLMDQCIACWKNT 539 (1036)
Q Consensus 506 ~~I~~l~~~-vpggvLVfFpSy~~l~~v~~~~~~~ 539 (1036)
..+.++... -||.+|||.|.-+..+.+.+.+.+.
T Consensus 247 ~tv~~Ih~~E~~GDILvFLtGqeEIe~~~~~l~e~ 281 (674)
T KOG0922|consen 247 ITVIQIHLTEPPGDILVFLTGQEEIEAACELLRER 281 (674)
T ss_pred HHHHHHHccCCCCCEEEEeCCHHHHHHHHHHHHHH
Confidence 888887754 4689999999999999999988764
No 221
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=78.29 E-value=9.7 Score=42.00 Aligned_cols=77 Identities=17% Similarity=0.247 Sum_probs=53.8
Q ss_pred CCHHHHHHHHHHHHHHHcC---CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCC
Q 001656 17 AYDCQLVYMEKVIQSLQNK---CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSK 93 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~---k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~ 93 (1036)
-++.|++.+.+-.++|-.| .|+||.++-|||||-.+-...-.|+. +
T Consensus 31 Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~-------------------------------~ 79 (249)
T PF05673_consen 31 GIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYAD-------------------------------Q 79 (249)
T ss_pred CHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhh-------------------------------c
Confidence 3688999888888888887 77999999999998865543323322 1
Q ss_pred CCeEEEEcCCH-HHHHHHHHHHHhcCCCCeEEEe
Q 001656 94 LPTILYTSRTH-SQLRQVIQELKTSNYRPKMVIL 126 (1036)
Q Consensus 94 ~pkIiy~TRTh-sQl~Qvv~ELrkl~~~~k~~vL 126 (1036)
.-++|-.++.. ..+..++..|+..++ +++++
T Consensus 80 GLRlIev~k~~L~~l~~l~~~l~~~~~--kFIlf 111 (249)
T PF05673_consen 80 GLRLIEVSKEDLGDLPELLDLLRDRPY--KFILF 111 (249)
T ss_pred CceEEEECHHHhccHHHHHHHHhcCCC--CEEEE
Confidence 24788777754 347788888875443 44543
No 222
>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=78.13 E-value=4 Score=54.62 Aligned_cols=32 Identities=19% Similarity=0.376 Sum_probs=27.7
Q ss_pred HHHHHHHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 26 EKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 26 ~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+.|.++|+++..+||.||||+|||- .+|-+.+
T Consensus 73 ~~Il~~l~~~~vvii~g~TGSGKTT--qlPq~ll 104 (1283)
T TIGR01967 73 EDIAEAIAENQVVIIAGETGSGKTT--QLPKICL 104 (1283)
T ss_pred HHHHHHHHhCceEEEeCCCCCCcHH--HHHHHHH
Confidence 7788999999999999999999999 4576654
No 223
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=78.06 E-value=2.7 Score=48.66 Aligned_cols=34 Identities=29% Similarity=0.352 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 23 e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+++..+..+++.++++++-+|||+|||- |+.+|.
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 4666777888899999999999999998 445553
No 224
>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=77.70 E-value=2.9 Score=41.38 Aligned_cols=33 Identities=27% Similarity=0.330 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHH----HcC---CceE--EeccCCCChhHHH
Q 001656 20 CQLVYMEKVIQSL----QNK---CNAL--LESPTGTGKTLCL 52 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL----~~~---k~~l--lEAPTGTGKTLa~ 52 (1036)
+|--.-+.|.+|+ .+. ++++ +.+|||||||...
T Consensus 29 GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~ 70 (127)
T PF06309_consen 29 GQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVS 70 (127)
T ss_pred CcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHH
Confidence 4444444444444 332 5555 8999999999843
No 225
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=77.49 E-value=3 Score=47.92 Aligned_cols=28 Identities=21% Similarity=0.366 Sum_probs=23.5
Q ss_pred HHHHHHHHHHcCCceEEeccCCCChhHH
Q 001656 24 YMEKVIQSLQNKCNALLESPTGTGKTLC 51 (1036)
Q Consensus 24 ~m~~V~~aL~~~k~~llEAPTGTGKTLa 51 (1036)
++..+..++..++++++-+|||+|||-.
T Consensus 133 ~~~~L~~~v~~~~nilI~G~tGSGKTTl 160 (323)
T PRK13833 133 QASVIRSAIDSRLNIVISGGTGSGKTTL 160 (323)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHHH
Confidence 3455677888899999999999999983
No 226
>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=77.44 E-value=1.9 Score=42.57 Aligned_cols=22 Identities=50% Similarity=0.575 Sum_probs=16.9
Q ss_pred ceEEeccCCCChhHHHHHHHHHHH
Q 001656 37 NALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 37 ~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
+++|.+|+|||||. |+-.+++.
T Consensus 1 ~vlL~G~~G~GKt~--l~~~la~~ 22 (139)
T PF07728_consen 1 PVLLVGPPGTGKTT--LARELAAL 22 (139)
T ss_dssp EEEEEESSSSSHHH--HHHHHHHH
T ss_pred CEEEECCCCCCHHH--HHHHHHHH
Confidence 58999999999998 44455543
No 227
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=77.32 E-value=1.3 Score=53.94 Aligned_cols=182 Identities=19% Similarity=0.327 Sum_probs=96.5
Q ss_pred eEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHHHcC
Q 001656 437 SIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARIVP 516 (1036)
Q Consensus 437 svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~~vp 516 (1036)
.++++||||.. +-|..-++ +.++ |.++..+.- ++.-|...-+.+|+++....|.+|....|
T Consensus 412 KllIsSAT~DA-ekFS~fFD-dapI-----F~iPGRRyP------------Vdi~Yt~~PEAdYldAai~tVlqIH~tqp 472 (902)
T KOG0923|consen 412 KLLISSATMDA-EKFSAFFD-DAPI-----FRIPGRRYP------------VDIFYTKAPEADYLDAAIVTVLQIHLTQP 472 (902)
T ss_pred eEEeeccccCH-HHHHHhcc-CCcE-----EeccCcccc------------eeeecccCCchhHHHHHHhhheeeEeccC
Confidence 78999999965 33333333 1222 122222211 22234444556898887777777665444
Q ss_pred -CcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHh-hcCCceecCCCCCChHHHHHHHHHHhccCCCC--CeEEEEEc
Q 001656 517 -DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERIC-KHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTS--GAVFFAVC 592 (1036)
Q Consensus 517 -ggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~-~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~--gaVLfaV~ 592 (1036)
|-+|||++=-+.++.+.+.+++.. .+|. +.+.+++.|=-+ ++. .+...+|.++..+ .-|.+|+
T Consensus 473 ~GDILVFltGQeEIEt~~e~l~~~~--------~~LGski~eliv~PiYa-NLP---selQakIFePtP~gaRKVVLAT- 539 (902)
T KOG0923|consen 473 LGDILVFLTGQEEIETVKENLKERC--------RRLGSKIRELIVLPIYA-NLP---SELQAKIFEPTPPGARKVVLAT- 539 (902)
T ss_pred CccEEEEeccHHHHHHHHHHHHHHH--------HHhccccceEEEeeccc-cCC---hHHHHhhcCCCCCCceeEEEee-
Confidence 789999999999998888776542 2222 123344444322 222 2334456655333 3477777
Q ss_pred cCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccch--HHHHHHHHHHhhC
Q 001656 593 RGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWY--NQQASRAVNQAVG 670 (1036)
Q Consensus 593 rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy--~~~A~r~v~QaiG 670 (1036)
...| ..+-|.|+=| .-||-..-...|... +|-+-+ .|-.=-..+|+.|
T Consensus 540 --NIAE---------TSlTIdgI~y--ViDpGf~K~nsynpr-----------------tGmesL~v~piSKAsA~QRaG 589 (902)
T KOG0923|consen 540 --NIAE---------TSLTIDGIKY--VIDPGFVKQNSYNPR-----------------TGMESLLVTPISKASANQRAG 589 (902)
T ss_pred --cchh---------hceeecCeEE--EecCccccccCcCCC-----------------cCceeEEEeeechhhhhhhcc
Confidence 4444 4555666655 234432221222111 222222 2222334789999
Q ss_pred CccccCCCcE
Q 001656 671 RVIRHRHDYG 680 (1036)
Q Consensus 671 RlIR~~~D~G 680 (1036)
|.=|..--.+
T Consensus 590 RAGRtgPGKC 599 (902)
T KOG0923|consen 590 RAGRTGPGKC 599 (902)
T ss_pred ccCCCCCCce
Confidence 9987654433
No 228
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=77.19 E-value=3.9 Score=44.39 Aligned_cols=27 Identities=26% Similarity=0.466 Sum_probs=20.1
Q ss_pred HHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 31 SLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 31 aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
.+-.|..+++.+|+|+|||. |+-.++|
T Consensus 21 G~~~g~~~~i~G~~GsGKt~--l~~~~~~ 47 (234)
T PRK06067 21 GIPFPSLILIEGDHGTGKSV--LSQQFVY 47 (234)
T ss_pred CCcCCcEEEEECCCCCChHH--HHHHHHH
Confidence 34456889999999999998 4444444
No 229
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=76.99 E-value=1.5 Score=50.59 Aligned_cols=86 Identities=13% Similarity=0.200 Sum_probs=58.4
Q ss_pred HHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeE
Q 001656 508 IVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAV 587 (1036)
Q Consensus 508 I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaV 587 (1036)
+..+.+ .-.+.++|++..+.+..+...+...... .+. +--..+..+.+.++.+|+. +...|
T Consensus 256 l~dl~~-~~~q~~if~nt~r~v~~l~~~L~~~~~~-~s~-----------~~~d~~q~~R~~~~~ef~~------gssrv 316 (397)
T KOG0327|consen 256 LCDLYR-RVTQAVIFCNTRRKVDNLTDKLRAHGFT-VSA-----------IHGDMEQNERDTLMREFRS------GSSRV 316 (397)
T ss_pred HHHHHH-hhhcceEEecchhhHHHHHHHHhhCCce-EEE-----------eecccchhhhhHHHHHhhc------CCceE
Confidence 344444 4568899999999999998877543221 000 0001112345667888885 57789
Q ss_pred EEEEccCCccccccCCCCCceEEEEeCCC
Q 001656 588 FFAVCRGKVSEGLDFADHAGRAVVITGMP 616 (1036)
Q Consensus 588 LfaV~rGk~sEGIDf~gd~~R~VIIvGLP 616 (1036)
|+.. +.++.|||+.. +..||..=+|
T Consensus 317 lItt--dl~argidv~~--~slvinydlP 341 (397)
T KOG0327|consen 317 LITT--DLLARGIDVQQ--VSLVVNYDLP 341 (397)
T ss_pred Eeec--cccccccchhh--cceeeeeccc
Confidence 9988 89999999987 6788888777
No 230
>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=76.85 E-value=4.9 Score=46.92 Aligned_cols=35 Identities=26% Similarity=0.476 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHH--cCCceEEeccCCCChhHHHH
Q 001656 19 DCQLVYMEKVIQSLQ--NKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~--~~k~~llEAPTGTGKTLa~L 53 (1036)
+.|+..++.|++++. ++.++++-+|-|||||..+-
T Consensus 4 ~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~ 40 (364)
T PF05970_consen 4 EEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIK 40 (364)
T ss_pred HHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHH
Confidence 579999999999994 55789999999999999553
No 231
>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=76.74 E-value=3.2 Score=44.44 Aligned_cols=37 Identities=16% Similarity=0.109 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHH--cCCceEEeccCCCChhHHHHHHHHH
Q 001656 20 CQLVYMEKVIQSLQ--NKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~--~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
.+.+.++.+.+.+. .+.+++|.+|+|||||. |+-+++
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~--la~~~~ 59 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSH--LLQAAC 59 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHH--HHHHHH
Confidence 46666676666543 34779999999999998 434444
No 232
>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=76.37 E-value=3.5 Score=46.89 Aligned_cols=28 Identities=25% Similarity=0.304 Sum_probs=24.0
Q ss_pred HHHHHHHHHHcCCceEEeccCCCChhHH
Q 001656 24 YMEKVIQSLQNKCNALLESPTGTGKTLC 51 (1036)
Q Consensus 24 ~m~~V~~aL~~~k~~llEAPTGTGKTLa 51 (1036)
++..+..+++.++++++-+|||+|||-.
T Consensus 121 ~~~~L~~~v~~~~~ilI~G~tGSGKTTl 148 (299)
T TIGR02782 121 QRDVLREAVLARKNILVVGGTGSGKTTL 148 (299)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHHH
Confidence 4566777888899999999999999984
No 233
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=76.32 E-value=57 Score=42.06 Aligned_cols=144 Identities=18% Similarity=0.045 Sum_probs=80.6
Q ss_pred CeEEEEccCCCChHHHHHHhCCCC-CccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHHH
Q 001656 436 GSIILTSGTLSPMDSFAQELKLNF-PLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARI 514 (1036)
Q Consensus 436 ~svIltSgTLsp~~~f~~~LGl~~-~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~~ 514 (1036)
-..|..|||..|.+..++.|+-.. +..+-.+..-.+-++.|. .| .++. .+. ++. ...+...|.++++.
T Consensus 184 ~qRIGLSATV~~~~~varfL~g~~~~~~Iv~~~~~k~~~i~v~-~p-~~~~-----~~~---~~~-~~~~~~~i~~~v~~ 252 (814)
T COG1201 184 FQRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSAAKKLEIKVI-SP-VEDL-----IYD---EEL-WAALYERIAELVKK 252 (814)
T ss_pred cEEEeehhccCCHHHHHHHhcCCCCceEEEEcccCCcceEEEE-ec-CCcc-----ccc---cch-hHHHHHHHHHHHhh
Confidence 467899999999999999887654 322111111111123332 22 1110 011 112 24455667777765
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCC-CCC-hHHHHHHHHHHhccCCCCCeEEEEEc
Q 001656 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSL-FPLAIEDYMAKLKDTSTSGAVFFAVC 592 (1036)
Q Consensus 515 vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~-~~~-~~~~i~~f~~~i~~~~~~gaVLfaV~ 592 (1036)
.. .+|||.++....+.+...+++... +.+.+.-.. +.+ ...+=+.+++ |.+=.-||
T Consensus 253 ~~-ttLIF~NTR~~aE~l~~~L~~~~~-------------~~i~~HHgSlSre~R~~vE~~lk~--------G~lravV~ 310 (814)
T COG1201 253 HR-TTLIFTNTRSGAERLAFRLKKLGP-------------DIIEVHHGSLSRELRLEVEERLKE--------GELKAVVA 310 (814)
T ss_pred cC-cEEEEEeChHHHHHHHHHHHHhcC-------------CceeeecccccHHHHHHHHHHHhc--------CCceEEEE
Confidence 44 999999999999999988876421 122222111 111 1122233332 22333345
Q ss_pred cCCccccccCCCCCceEEEEeC
Q 001656 593 RGKVSEGLDFADHAGRAVVITG 614 (1036)
Q Consensus 593 rGk~sEGIDf~gd~~R~VIIvG 614 (1036)
..++.=|||..+ ...||-+|
T Consensus 311 TSSLELGIDiG~--vdlVIq~~ 330 (814)
T COG1201 311 TSSLELGIDIGD--IDLVIQLG 330 (814)
T ss_pred ccchhhccccCC--ceEEEEeC
Confidence 589999999988 56777776
No 234
>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=76.29 E-value=2.7 Score=43.63 Aligned_cols=34 Identities=26% Similarity=0.366 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHH
Q 001656 22 LVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATL 57 (1036)
Q Consensus 22 ~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aL 57 (1036)
+++++.+..+.....+++|++++||||++ ++-++
T Consensus 9 ~~~~~~~~~~a~~~~pVlI~GE~GtGK~~--lA~~I 42 (168)
T PF00158_consen 9 KRLREQAKRAASSDLPVLITGETGTGKEL--LARAI 42 (168)
T ss_dssp HHHHHHHHHHTTSTS-EEEECSTTSSHHH--HHHHH
T ss_pred HHHHHHHHHHhCCCCCEEEEcCCCCcHHH--HHHHH
Confidence 45566666666778999999999999998 44444
No 235
>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=76.28 E-value=6.6 Score=42.50 Aligned_cols=45 Identities=20% Similarity=0.356 Sum_probs=25.7
Q ss_pred cCCCCCC-HHH-HHHHHHHHHHHHcC-----CceEEeccCCCChhHHHHHHHHH
Q 001656 12 EFPFEAY-DCQ-LVYMEKVIQSLQNK-----CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 12 ~FPfepy-~~Q-~e~m~~V~~aL~~~-----k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
.|.|+.+ .+. -+++..+.+++.++ ..++|-+|+|+|||- |+-|++
T Consensus 4 ~~tFdnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTH--LL~Ai~ 55 (219)
T PF00308_consen 4 KYTFDNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTH--LLQAIA 55 (219)
T ss_dssp T-SCCCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHH--HHHHHH
T ss_pred CCccccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHH--HHHHHH
Confidence 4566654 222 23333444445332 358999999999999 444443
No 236
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=76.22 E-value=3.7 Score=44.62 Aligned_cols=37 Identities=27% Similarity=0.417 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHH
Q 001656 22 LVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 22 ~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
++.++.+.--..+| -|+++-+|+|||||-+.+|-|=.
T Consensus 33 e~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~ 71 (333)
T KOG0991|consen 33 EDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARE 71 (333)
T ss_pred HHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHH
Confidence 45666666666666 67999999999999999986643
No 237
>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=76.09 E-value=3.1 Score=51.93 Aligned_cols=39 Identities=28% Similarity=0.321 Sum_probs=34.0
Q ss_pred CHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
-.+|.+.+..+..++..+.++++-+|+|||||. |+-+++
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 444454
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=75.93 E-value=3.8 Score=44.73 Aligned_cols=22 Identities=27% Similarity=0.457 Sum_probs=17.7
Q ss_pred HHHcCCceEEeccCCCChhHHH
Q 001656 31 SLQNKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 31 aL~~~k~~llEAPTGTGKTLa~ 52 (1036)
.|..|...++.+|+|+|||.-.
T Consensus 17 G~~~gs~~lI~G~pGsGKT~la 38 (237)
T TIGR03877 17 GIPERNVVLLSGGPGTGKSIFS 38 (237)
T ss_pred CCcCCeEEEEEcCCCCCHHHHH
Confidence 3445688999999999999933
No 239
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=75.74 E-value=2 Score=47.40 Aligned_cols=21 Identities=48% Similarity=0.740 Sum_probs=17.8
Q ss_pred CceEEeccCCCChhHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+|+++-+|+|||||+ +.-||+
T Consensus 152 knVLFyGppGTGKTm--~Akala 172 (368)
T COG1223 152 KNVLFYGPPGTGKTM--MAKALA 172 (368)
T ss_pred ceeEEECCCCccHHH--HHHHHh
Confidence 899999999999999 555553
No 240
>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=75.52 E-value=4.5 Score=46.90 Aligned_cols=51 Identities=24% Similarity=0.289 Sum_probs=33.4
Q ss_pred CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELK 115 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ELr 115 (1036)
..++|++..|||||+.++.-+-..... . ...+++|.+..+.+...+-+.+.
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~-~----------------------------~~~~~~~l~~n~~l~~~l~~~l~ 52 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNS-E----------------------------EGKKVLYLCGNHPLRNKLREQLA 52 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhcc-c----------------------------cCCceEEEEecchHHHHHHHHHh
Confidence 468999999999999665333222001 0 22468888888888776665554
No 241
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=75.37 E-value=3.3 Score=49.03 Aligned_cols=38 Identities=37% Similarity=0.323 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHc----------------CCceEEeccCCCChhHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQN----------------KCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~----------------~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
.+|.+....+..|+.+ .+++++.+|||+|||. |+-+|+
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 5899999999888865 3789999999999996 444443
No 242
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=75.20 E-value=2.5 Score=50.30 Aligned_cols=32 Identities=31% Similarity=0.306 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhH
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTL 50 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTL 50 (1036)
.+|.+-=..+.-|-..|.|+++.+|.|||||+
T Consensus 182 ~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTm 213 (490)
T COG0606 182 KGQEQAKRALEIAAAGGHNLLLVGPPGTGKTM 213 (490)
T ss_pred cCcHHHHHHHHHHHhcCCcEEEecCCCCchHH
Confidence 48988888889999999999999999999999
No 243
>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=75.07 E-value=4.2 Score=42.61 Aligned_cols=28 Identities=25% Similarity=0.323 Sum_probs=23.2
Q ss_pred HHHHHHHHHHcCCceEEeccCCCChhHH
Q 001656 24 YMEKVIQSLQNKCNALLESPTGTGKTLC 51 (1036)
Q Consensus 24 ~m~~V~~aL~~~k~~llEAPTGTGKTLa 51 (1036)
+...+..+++.++++++-+|||+|||-.
T Consensus 14 ~~~~l~~~v~~g~~i~I~G~tGSGKTTl 41 (186)
T cd01130 14 QAAYLWLAVEARKNILISGGTGSGKTTL 41 (186)
T ss_pred HHHHHHHHHhCCCEEEEECCCCCCHHHH
Confidence 4555666788899999999999999973
No 244
>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=74.87 E-value=3 Score=45.24 Aligned_cols=35 Identities=20% Similarity=0.132 Sum_probs=25.1
Q ss_pred HHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHh
Q 001656 27 KVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRK 61 (1036)
Q Consensus 27 ~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~ 61 (1036)
.+...|..|...+|-||||+|||.-.+--+..++.
T Consensus 5 ~~~~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~ 39 (242)
T cd00984 5 NLTGGLQPGDLIIIAARPSMGKTAFALNIAENIAK 39 (242)
T ss_pred hhhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 44446777889999999999999855544444443
No 245
>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=74.73 E-value=34 Score=41.02 Aligned_cols=85 Identities=19% Similarity=0.176 Sum_probs=60.1
Q ss_pred HHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCc-eecCCCCCChHHHHHHHHHHhccCCCCCeEEEEE
Q 001656 513 RIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKP-VVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAV 591 (1036)
Q Consensus 513 ~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v-~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV 591 (1036)
....+|+|||.|||-..=++.+++++.... .. +-|=-...+...+...|.. ++..||+-+
T Consensus 297 ~~~~~~~LIfIPSYfDfVRlRN~lk~~~~s-------------F~~i~EYts~~~isRAR~~F~~------G~~~iLL~T 357 (442)
T PF06862_consen 297 DSKMSGTLIFIPSYFDFVRLRNYLKKENIS-------------FVQISEYTSNSDISRARSQFFH------GRKPILLYT 357 (442)
T ss_pred ccCCCcEEEEecchhhhHHHHHHHHhcCCe-------------EEEecccCCHHHHHHHHHHHHc------CCceEEEEE
Confidence 345689999999999999998888754221 11 1122222344455555653 578899988
Q ss_pred ccCCccccccCCCCCceEEEEeCCCCC
Q 001656 592 CRGKVSEGLDFADHAGRAVVITGMPFA 618 (1036)
Q Consensus 592 ~rGk~sEGIDf~gd~~R~VIIvGLPfp 618 (1036)
-|--|..=..++| .+-||..|+|--
T Consensus 358 ER~HFfrRy~irG--i~~viFY~~P~~ 382 (442)
T PF06862_consen 358 ERFHFFRRYRIRG--IRHVIFYGPPEN 382 (442)
T ss_pred hHHhhhhhceecC--CcEEEEECCCCC
Confidence 8888888888888 899999998864
No 246
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=74.64 E-value=2.4 Score=47.72 Aligned_cols=72 Identities=25% Similarity=0.212 Sum_probs=47.4
Q ss_pred CCC-CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 14 PFE-AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 14 Pfe-py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
.|+ |-|.|++-+-. .-.|+.++.-|-.|||||-||.+|.|.-......
T Consensus 104 G~ekPSPiQeesIPi----aLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~--------------------------- 152 (459)
T KOG0326|consen 104 GFEKPSPIQEESIPI----ALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKN--------------------------- 152 (459)
T ss_pred ccCCCCCccccccce----eecchhhhhhccCCCCCccceechhhhhcCcccc---------------------------
Confidence 455 55667653322 2357889999999999999999999854321110
Q ss_pred CC-CeEEEEcCCHH-HHHHHHHHHHh
Q 001656 93 KL-PTILYTSRTHS-QLRQVIQELKT 116 (1036)
Q Consensus 93 ~~-pkIiy~TRThs-Ql~Qvv~ELrk 116 (1036)
.. --|++-||--. |..|++.||-+
T Consensus 153 ~IQ~~ilVPtrelALQtSqvc~~lsk 178 (459)
T KOG0326|consen 153 VIQAIILVPTRELALQTSQVCKELSK 178 (459)
T ss_pred ceeEEEEeecchhhHHHHHHHHHHhc
Confidence 11 13556677554 56899999876
No 247
>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=74.64 E-value=25 Score=44.64 Aligned_cols=98 Identities=9% Similarity=0.106 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHHH----HcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCC----------
Q 001656 500 YKQELGNTIVNIAR----IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSS---------- 565 (1036)
Q Consensus 500 y~~~l~~~I~~l~~----~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~---------- 565 (1036)
.+..++..|.+... ..+++.+|+..|......++..+.+...... + .-.+++-.....
T Consensus 494 ~~~~ia~~i~~h~~~~~~~~~~kamvv~~sr~~a~~~~~~l~~~~~~~~-~-------~~~vv~s~~~~~~~~~~~~~~~ 565 (667)
T TIGR00348 494 RLESIAKDIAEHYAKFKELFKFKAMVVAISRYACVEEKNALDEELNEKF-E-------ASAIVMTGKESDDAEIRDYNKH 565 (667)
T ss_pred HHHHHHHHHHHHHHHhhhcccCceeEEEecHHHHHHHHHHHHhhccccc-C-------CeeEEecCCccchhHHHHHHHH
Confidence 34455555554432 2247899999999988888777654321100 0 000111111100
Q ss_pred ------------ChHHHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeC
Q 001656 566 ------------LFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITG 614 (1036)
Q Consensus 566 ------------~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvG 614 (1036)
....+++.|+. . +.--||+.| +.+.+|+|.|. +.++++.+
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 11245555553 1 345788877 89999999998 66777776
No 248
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.57 E-value=3.5 Score=48.07 Aligned_cols=35 Identities=23% Similarity=0.123 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHcCC--c-eEEeccCCCChhHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLL 53 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L 53 (1036)
-+|......+..++..++ | .++.+|.|+|||..+.
T Consensus 19 iGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~ 56 (363)
T PRK14961 19 IGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIAR 56 (363)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHH
Confidence 399999999999999874 4 4899999999998554
No 249
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=74.50 E-value=4 Score=47.68 Aligned_cols=70 Identities=20% Similarity=0.099 Sum_probs=49.0
Q ss_pred CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCe
Q 001656 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pk 96 (1036)
|-|.|+.-|--| -+++.++--|-||+|||.|+|+|++.-++.... ..-+
T Consensus 44 ptpiqRKTipli----Le~~dvv~martgsgktaaf~ipm~e~Lk~~s~---------------------------~g~R 92 (529)
T KOG0337|consen 44 PTPIQRKTIPLI----LEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQ---------------------------TGLR 92 (529)
T ss_pred CCchhcccccce----eeccccceeeecCCcchhhHHHHHHHHHhhccc---------------------------cccc
Confidence 556776655443 456778888999999999999999976654221 1235
Q ss_pred EEEEcCCHHHHHHHHHHHHhc
Q 001656 97 ILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 97 Iiy~TRThsQl~Qvv~ELrkl 117 (1036)
-.+.+.|..+..|.++-++.+
T Consensus 93 alilsptreLa~qtlkvvkdl 113 (529)
T KOG0337|consen 93 ALILSPTRELALQTLKVVKDL 113 (529)
T ss_pred eeeccCcHHHHHHHHHHHHHh
Confidence 666777888888877655543
No 250
>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=74.28 E-value=5.3 Score=46.45 Aligned_cols=49 Identities=20% Similarity=0.207 Sum_probs=31.3
Q ss_pred eeecCCC-C-----CCHHHHHHHHHHHHHHH----cCCceEEeccCCCChhHHHHHHHHHH
Q 001656 9 IDVEFPF-E-----AYDCQLVYMEKVIQSLQ----NKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 9 i~v~FPf-e-----py~~Q~e~m~~V~~aL~----~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
....||| . -.+...++++.+..+.. .++.++|.+|+|+|||. |+-+|+.
T Consensus 42 ~~~~y~~F~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKSt--la~~La~ 100 (361)
T smart00763 42 GIKRYRFFDHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSS--LVECLKR 100 (361)
T ss_pred ceeeccccchhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHH--HHHHHHH
Confidence 3456663 3 12345555555555554 24778999999999998 5566653
No 251
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=74.28 E-value=58 Score=38.01 Aligned_cols=145 Identities=19% Similarity=0.192 Sum_probs=87.9
Q ss_pred cCCeEEEEccCCCC-hHHHHHHhCCC-CCccc--cCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHH
Q 001656 434 EVGSIILTSGTLSP-MDSFAQELKLN-FPLRV--ENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIV 509 (1036)
Q Consensus 434 ~~~svIltSgTLsp-~~~f~~~LGl~-~~~~l--e~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~ 509 (1036)
....+||.|||..- ...|+..+=-+ .++.+ +.-+..+-.|+++.+ ..|. ..| +.|.+ |.
T Consensus 263 ~~~QllLFSATf~e~V~~Fa~kivpn~n~i~Lk~eel~L~~IkQlyv~C--------------~~~~-~K~-~~l~~-ly 325 (477)
T KOG0332|consen 263 RNQQLLLFSATFVEKVAAFALKIVPNANVIILKREELALDNIKQLYVLC--------------ACRD-DKY-QALVN-LY 325 (477)
T ss_pred CcceEEeeechhHHHHHHHHHHhcCCCceeeeehhhccccchhhheeec--------------cchh-hHH-HHHHH-HH
Confidence 45688999999874 34454433111 11221 222333334554431 1232 344 45555 55
Q ss_pred HHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEE
Q 001656 510 NIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFF 589 (1036)
Q Consensus 510 ~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLf 589 (1036)
.++. =|..+||+.-......++..+...+++- . .-++..-+ .+.+.++++|++ +..-||+
T Consensus 326 g~~t--igqsiIFc~tk~ta~~l~~~m~~~Gh~V--~-----~l~G~l~~-----~~R~~ii~~Fr~------g~~kVLi 385 (477)
T KOG0332|consen 326 GLLT--IGQSIIFCHTKATAMWLYEEMRAEGHQV--S-----LLHGDLTV-----EQRAAIIDRFRE------GKEKVLI 385 (477)
T ss_pred hhhh--hhheEEEEeehhhHHHHHHHHHhcCcee--E-----Eeeccchh-----HHHHHHHHHHhc------CcceEEE
Confidence 5553 3889999999999999999988765430 0 01122222 345678999996 5678999
Q ss_pred EEccCCccccccCCCCCceEEEEeCCCCCC
Q 001656 590 AVCRGKVSEGLDFADHAGRAVVITGMPFAT 619 (1036)
Q Consensus 590 aV~rGk~sEGIDf~gd~~R~VIIvGLPfp~ 619 (1036)
++ .-+..|||.+- ...||=.-||--.
T Consensus 386 tT--nV~ARGiDv~q--Vs~VvNydlP~~~ 411 (477)
T KOG0332|consen 386 TT--NVCARGIDVAQ--VSVVVNYDLPVKY 411 (477)
T ss_pred Ee--chhhcccccce--EEEEEecCCcccc
Confidence 98 89999999975 4566666676643
No 252
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=74.20 E-value=4.5 Score=45.96 Aligned_cols=35 Identities=37% Similarity=0.460 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHH------------cCCceEEeccCCCChhHHHHHHHHH
Q 001656 22 LVYMEKVIQSLQ------------NKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 22 ~e~m~~V~~aL~------------~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
..+|.-+..+|. -++.+++.+|+|||||- ||-||+
T Consensus 152 ~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTS--LCKaLa 198 (423)
T KOG0744|consen 152 ERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTS--LCKALA 198 (423)
T ss_pred HHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhH--HHHHHH
Confidence 445666666653 12458999999999998 999997
No 253
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=73.79 E-value=2.2 Score=49.42 Aligned_cols=40 Identities=25% Similarity=0.294 Sum_probs=34.9
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhH
Q 001656 11 VEFPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTL 50 (1036)
Q Consensus 11 v~FPfepy~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTL 50 (1036)
-.|||.---+|.++..++..++-+. ..+++.+|+|||||.
T Consensus 12 ~~~pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~ 53 (350)
T CHL00081 12 PVFPFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKST 53 (350)
T ss_pred CCCCHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHH
Confidence 4688888889999999999998764 468999999999998
No 254
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=73.75 E-value=36 Score=41.25 Aligned_cols=130 Identities=12% Similarity=0.171 Sum_probs=76.7
Q ss_pred cCCeEEEEccCCCCh-HHHHHHhCCCCC-ccccC---CCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHH
Q 001656 434 EVGSIILTSGTLSPM-DSFAQELKLNFP-LRVEN---PHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTI 508 (1036)
Q Consensus 434 ~~~svIltSgTLsp~-~~f~~~LGl~~~-~~le~---p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I 508 (1036)
..+..++.+|||.|- +-+++..=.++. ++.-+ |++- -+|.++. ++ ++.. ...|.+++
T Consensus 451 ~yrqT~mftatm~p~verlar~ylr~pv~vtig~~gk~~~r-veQ~v~m-~~---------------ed~k-~kkL~eil 512 (673)
T KOG0333|consen 451 KYRQTVMFTATMPPAVERLARSYLRRPVVVTIGSAGKPTPR-VEQKVEM-VS---------------EDEK-RKKLIEIL 512 (673)
T ss_pred ceeEEEEEecCCChHHHHHHHHHhhCCeEEEeccCCCCccc-hheEEEE-ec---------------chHH-HHHHHHHH
Confidence 347889999999983 333332211211 11111 1111 1455443 32 2222 34444444
Q ss_pred HHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCC-CCCChHHHHHHHHHHhccCCCCCeE
Q 001656 509 VNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPR-QSSLFPLAIEDYMAKLKDTSTSGAV 587 (1036)
Q Consensus 509 ~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~-~~~~~~~~i~~f~~~i~~~~~~gaV 587 (1036)
.+. ..-.++||.+-..-.+.+++.+.+.++. ...+... .-+..+..++.|+. +.+.|
T Consensus 513 ~~~---~~ppiIIFvN~kk~~d~lAk~LeK~g~~-------------~~tlHg~k~qeQRe~aL~~fr~------~t~dI 570 (673)
T KOG0333|consen 513 ESN---FDPPIIIFVNTKKGADALAKILEKAGYK-------------VTTLHGGKSQEQRENALADFRE------GTGDI 570 (673)
T ss_pred HhC---CCCCEEEEEechhhHHHHHHHHhhccce-------------EEEeeCCccHHHHHHHHHHHHh------cCCCE
Confidence 333 2458999999999999998888765321 1222222 22446678899986 57889
Q ss_pred EEEEccCCccccccCCCC
Q 001656 588 FFAVCRGKVSEGLDFADH 605 (1036)
Q Consensus 588 LfaV~rGk~sEGIDf~gd 605 (1036)
|+|+ .-...|||+++-
T Consensus 571 lVaT--DvAgRGIDIpnV 586 (673)
T KOG0333|consen 571 LVAT--DVAGRGIDIPNV 586 (673)
T ss_pred EEEe--cccccCCCCCcc
Confidence 9988 888999999994
No 255
>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=73.75 E-value=3.4 Score=46.36 Aligned_cols=30 Identities=37% Similarity=0.379 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHcCCceEEeccCCCChhHHH
Q 001656 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 23 e~m~~V~~aL~~~k~~llEAPTGTGKTLa~ 52 (1036)
.+..-+.-.+.++++++|-+|||||||...
T Consensus 21 r~~~ll~~l~~~~~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 21 RYSYLLDLLLSNGRPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp HHHHHHHHHHHCTEEEEEESSTTSSHHHHH
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCchhHHH
Confidence 334444455678899999999999999944
No 256
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=73.69 E-value=5.4 Score=43.52 Aligned_cols=21 Identities=24% Similarity=0.333 Sum_probs=18.2
Q ss_pred HHcCCceEEeccCCCChhHHH
Q 001656 32 LQNKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 32 L~~~k~~llEAPTGTGKTLa~ 52 (1036)
+..+...++.+|+|||||.-.
T Consensus 21 i~~g~~~~i~G~~G~GKTtl~ 41 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSILS 41 (230)
T ss_pred CCCCcEEEEECCCCCCHHHHH
Confidence 566789999999999999853
No 257
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=73.52 E-value=6.1 Score=46.54 Aligned_cols=23 Identities=65% Similarity=0.853 Sum_probs=19.5
Q ss_pred CCceEEeccCCCChhHHHHHHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+.|+|+=+|||+|||| |.-+||-
T Consensus 226 KSNvLllGPtGsGKTl--laqTLAr 248 (564)
T KOG0745|consen 226 KSNVLLLGPTGSGKTL--LAQTLAR 248 (564)
T ss_pred cccEEEECCCCCchhH--HHHHHHH
Confidence 4689999999999999 7777763
No 258
>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=73.27 E-value=1.8 Score=43.12 Aligned_cols=17 Identities=41% Similarity=0.479 Sum_probs=11.1
Q ss_pred ceEEeccCCCChhHHHH
Q 001656 37 NALLESPTGTGKTLCLL 53 (1036)
Q Consensus 37 ~~llEAPTGTGKTLa~L 53 (1036)
|+++|+++|+|||...-
T Consensus 1 HvLleg~PG~GKT~la~ 17 (131)
T PF07726_consen 1 HVLLEGVPGVGKTTLAK 17 (131)
T ss_dssp -EEEES---HHHHHHHH
T ss_pred CEeeECCCccHHHHHHH
Confidence 68999999999999544
No 259
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=72.94 E-value=16 Score=44.37 Aligned_cols=38 Identities=26% Similarity=0.316 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHcCC---ceEEeccCCCChhHHHHHHHH
Q 001656 20 CQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLLCATL 57 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~k---~~llEAPTGTGKTLa~L~~aL 57 (1036)
+|..+...+..++..++ ..|+.+|.|||||-...+-|-
T Consensus 17 GQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk 57 (491)
T PRK14964 17 GQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISL 57 (491)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHH
Confidence 89999999999999883 589999999999986654443
No 260
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=72.60 E-value=4.2 Score=48.03 Aligned_cols=37 Identities=19% Similarity=0.161 Sum_probs=31.2
Q ss_pred CHHHHHHHHHHHHHHHcCC--c-eEEeccCCCChhHHHHH
Q 001656 18 YDCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLLC 54 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L~ 54 (1036)
--+|......+..++.+++ | .|+.+|.|+|||.+..+
T Consensus 18 iiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~ 57 (397)
T PRK14955 18 ITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARV 57 (397)
T ss_pred ccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHH
Confidence 3489999999999999883 3 78999999999986653
No 261
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=72.19 E-value=5.4 Score=44.10 Aligned_cols=25 Identities=36% Similarity=0.503 Sum_probs=20.3
Q ss_pred HHHcCCceEEeccCCCChhHHHHHH
Q 001656 31 SLQNKCNALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 31 aL~~~k~~llEAPTGTGKTLa~L~~ 55 (1036)
.|..|...++.+++|||||.-.+=.
T Consensus 19 G~p~g~~~lI~G~pGsGKT~f~~qf 43 (260)
T COG0467 19 GLPRGSVVLITGPPGTGKTIFALQF 43 (260)
T ss_pred CCcCCcEEEEEcCCCCcHHHHHHHH
Confidence 4667899999999999999954433
No 262
>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=71.83 E-value=6 Score=42.56 Aligned_cols=19 Identities=26% Similarity=0.205 Sum_probs=15.8
Q ss_pred cCCceEEeccCCCChhHHH
Q 001656 34 NKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~ 52 (1036)
.|...++.+|+|+|||.-.
T Consensus 15 ~g~~~li~G~~G~GKt~~~ 33 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFS 33 (224)
T ss_pred CCeEEEEECCCCCCHHHHH
Confidence 4678999999999998733
No 263
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=71.67 E-value=2.3 Score=48.03 Aligned_cols=20 Identities=35% Similarity=0.595 Sum_probs=18.0
Q ss_pred CeEEEEcCCHHHHHHHHHHH
Q 001656 95 PTILYTSRTHSQLRQVIQEL 114 (1036)
Q Consensus 95 pkIiy~TRThsQl~Qvv~EL 114 (1036)
.+|+|+||||+|++|+++++
T Consensus 62 ~kvi~~t~T~~~~~q~i~~l 81 (289)
T smart00488 62 IKLIYLSRTVSEIEKRLEEL 81 (289)
T ss_pred cceeEEeccHHHHHHHHHHH
Confidence 48999999999999998865
No 264
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=71.67 E-value=2.3 Score=48.03 Aligned_cols=20 Identities=35% Similarity=0.595 Sum_probs=18.0
Q ss_pred CeEEEEcCCHHHHHHHHHHH
Q 001656 95 PTILYTSRTHSQLRQVIQEL 114 (1036)
Q Consensus 95 pkIiy~TRThsQl~Qvv~EL 114 (1036)
.+|+|+||||+|++|+++++
T Consensus 62 ~kvi~~t~T~~~~~q~i~~l 81 (289)
T smart00489 62 IKLIYLSRTVSEIEKRLEEL 81 (289)
T ss_pred cceeEEeccHHHHHHHHHHH
Confidence 48999999999999998865
No 265
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=71.55 E-value=16 Score=48.34 Aligned_cols=83 Identities=12% Similarity=0.094 Sum_probs=47.0
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhccCCCCCeEEEEEcc
Q 001656 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTSTSGAVFFAVCR 593 (1036)
Q Consensus 515 vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~~~~~gaVLfaV~r 593 (1036)
....||||...-..|+.+...+..... +...+.+..+ .+...+++.|... .+..-.+|+++
T Consensus 486 ~g~KVLIFSQft~~LdiLed~L~~~g~-------------~y~rIdGsts~~eRq~~Id~Fn~~---~s~~~VfLLST-- 547 (1033)
T PLN03142 486 RDSRVLIFSQMTRLLDILEDYLMYRGY-------------QYCRIDGNTGGEDRDASIDAFNKP---GSEKFVFLLST-- 547 (1033)
T ss_pred cCCeEEeehhHHHHHHHHHHHHHHcCC-------------cEEEECCCCCHHHHHHHHHHhccc---cCCceEEEEec--
Confidence 345777766555555555444443211 1222333222 3466788888641 11112345544
Q ss_pred CCccccccCCCCCceEEEEeCCCC
Q 001656 594 GKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 594 Gk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
....+|||+.. +..||+.-+|+
T Consensus 548 rAGGlGINLt~--Ad~VIiyD~dW 569 (1033)
T PLN03142 548 RAGGLGINLAT--ADIVILYDSDW 569 (1033)
T ss_pred cccccCCchhh--CCEEEEeCCCC
Confidence 68899999987 78999987776
No 266
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=71.43 E-value=16 Score=45.67 Aligned_cols=72 Identities=19% Similarity=0.115 Sum_probs=43.9
Q ss_pred cCCCCC--CHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCC
Q 001656 12 EFPFEA--YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQS 89 (1036)
Q Consensus 12 ~FPfep--y~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~ 89 (1036)
.||... -+.|++-+ ..++. +...+|-+|+|||||...-.-...+.+..+.
T Consensus 146 lf~~~~~~~d~Qk~Av---~~a~~-~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~------------------------ 197 (615)
T PRK10875 146 LFGPVTDEVDWQKVAA---AVALT-RRISVISGGPGTGKTTTVAKLLAALIQLADG------------------------ 197 (615)
T ss_pred hcCcCCCCCHHHHHHH---HHHhc-CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCC------------------------
Confidence 455432 36888744 34443 5789999999999998543221122221110
Q ss_pred CCCCCCeEEEEcCCHHHHHHHHHHH
Q 001656 90 GDSKLPTILYTSRTHSQLRQVIQEL 114 (1036)
Q Consensus 90 ~~~~~pkIiy~TRThsQl~Qvv~EL 114 (1036)
...+|..++.|......+-+.+
T Consensus 198 ---~~~~i~l~APTgkAA~rL~e~~ 219 (615)
T PRK10875 198 ---ERCRIRLAAPTGKAAARLTESL 219 (615)
T ss_pred ---CCcEEEEECCcHHHHHHHHHHH
Confidence 1247888999988877666543
No 267
>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=71.43 E-value=15 Score=45.80 Aligned_cols=66 Identities=24% Similarity=0.190 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEE
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTIL 98 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIi 98 (1036)
+.|+.. |..++. +...+|.+|.|||||..+-.-...+.+..+. ...++|.
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 566643 444444 5899999999999998654332223222111 0125799
Q ss_pred EEcCCHHHHHHHHHHH
Q 001656 99 YTSRTHSQLRQVIQEL 114 (1036)
Q Consensus 99 y~TRThsQl~Qvv~EL 114 (1036)
.++.|+.-...+-+-+
T Consensus 198 l~APTGkAA~rL~e~~ 213 (586)
T TIGR01447 198 LAAPTGKAAARLAESL 213 (586)
T ss_pred EECCcHHHHHHHHHHH
Confidence 9999998876655543
No 268
>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=71.37 E-value=6.1 Score=43.44 Aligned_cols=34 Identities=21% Similarity=0.200 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHcCC-ceEEeccCCCChhHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC-NALLESPTGTGKTLCL 52 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k-~~llEAPTGTGKTLa~ 52 (1036)
+.+.+....+...+..+. .+++-+|+|+|||..+
T Consensus 26 ~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 26 KGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLI 60 (269)
T ss_pred HHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH
Confidence 466777778878887764 7999999999999743
No 269
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=71.21 E-value=2.5 Score=40.90 Aligned_cols=21 Identities=29% Similarity=0.479 Sum_probs=13.2
Q ss_pred HcCCceEEeccCCCChhHHHH
Q 001656 33 QNKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 33 ~~~k~~llEAPTGTGKTLa~L 53 (1036)
++++.+++.+|+|+|||..+-
T Consensus 2 ~~~~~~~i~G~~G~GKT~~~~ 22 (131)
T PF13401_consen 2 QSQRILVISGPPGSGKTTLIK 22 (131)
T ss_dssp -----EEEEE-TTSSHHHHHH
T ss_pred CCCcccEEEcCCCCCHHHHHH
Confidence 456889999999999999543
No 270
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=71.09 E-value=13 Score=48.02 Aligned_cols=213 Identities=15% Similarity=0.191 Sum_probs=108.2
Q ss_pred eEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccC-CCCHH-HHHHHHHHHHHHHHH
Q 001656 437 SIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRN-RDSIE-YKQELGNTIVNIARI 514 (1036)
Q Consensus 437 svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~-r~~~~-y~~~l~~~I~~l~~~ 514 (1036)
.+|+|||||.+ +-|...+|--+.+.++ +..|+ +...|.. ..... ..+.+...+......
T Consensus 197 KiIimSATld~-~rfs~~f~~apvi~i~-GR~fP-----------------Vei~Y~~~~~~d~~l~~ai~~~v~~~~~~ 257 (845)
T COG1643 197 KLIIMSATLDA-ERFSAYFGNAPVIEIE-GRTYP-----------------VEIRYLPEAEADYILLDAIVAAVDIHLRE 257 (845)
T ss_pred eEEEEecccCH-HHHHHHcCCCCEEEec-CCccc-----------------eEEEecCCCCcchhHHHHHHHHHHHhccC
Confidence 57999999966 5566666532112211 11121 1222311 11112 456677777777777
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhh-cCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhccCCCCCeEEEEEc
Q 001656 515 VPDGLLIFFPSYYLMDQCIACWKN-TSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTSTSGAVFFAVC 592 (1036)
Q Consensus 515 vpggvLVfFpSy~~l~~v~~~~~~-~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~~~~~gaVLfaV~ 592 (1036)
-+|.+|||+|--...+++.+.+.+ ... ..+.+.|=-+ -+..+...-|.- ...++..|.+++
T Consensus 258 ~~GdILvFLpG~~EI~~~~~~L~~~~l~-------------~~~~i~PLy~~L~~~eQ~rvF~p---~~~~~RKVVlAT- 320 (845)
T COG1643 258 GSGSILVFLPGQREIERTAEWLEKAELG-------------DDLEILPLYGALSAEEQVRVFEP---APGGKRKVVLAT- 320 (845)
T ss_pred CCCCEEEECCcHHHHHHHHHHHHhcccc-------------CCcEEeeccccCCHHHHHhhcCC---CCCCcceEEEEc-
Confidence 789999999999999999998876 210 1122222111 112222222221 011212288887
Q ss_pred cCCccc-cccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHHHHhhCC
Q 001656 593 RGKVSE-GLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAVNQAVGR 671 (1036)
Q Consensus 593 rGk~sE-GIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v~QaiGR 671 (1036)
.+.| +|=.+| .|.||=.|+=--+..||.. +- ..|. .+|.. + -..+|..||
T Consensus 321 --NIAETSLTI~g--Ir~VIDsG~ak~~~y~~~~----------g~-----------~~L~-~~~IS-q--AsA~QRaGR 371 (845)
T COG1643 321 --NIAETSLTIPG--IRYVIDSGLAKEKRYDPRT----------GL-----------TRLE-TEPIS-K--ASADQRAGR 371 (845)
T ss_pred --cccccceeeCC--eEEEecCCccccccccccc----------Cc-----------eeee-EEEec-h--hhhhhhccc
Confidence 5554 555555 6777766643222222110 00 0010 11222 2 236799999
Q ss_pred ccccCCCcEEEEEEecCCCCc-hhhhHHHhhhhcchhccCChhHHHHHHHHH
Q 001656 672 VIRHRHDYGAIIFCDERFAHP-SRKSQISLWIQPHIQCYSKFGDVVYTLTRF 722 (1036)
Q Consensus 672 lIR~~~D~G~viLlD~Rf~~~-~y~~~l~~wl~~~i~~~~~~~e~~~~l~~F 722 (1036)
+.|... |..+ |+... .|. .++..-.|.|.. .++..++-.|.++
T Consensus 372 AGR~~p--Gicy----RLyse~~~~-~~~~~t~PEIlr-tdLs~~vL~l~~~ 415 (845)
T COG1643 372 AGRTGP--GICY----RLYSEEDFL-AFPEFTLPEILR-TDLSGLVLQLKSL 415 (845)
T ss_pred cccCCC--ceEE----EecCHHHHH-hcccCCChhhhh-cchHHHHHHHHhc
Confidence 999665 4333 44443 344 667776666654 3455555455443
No 271
>PRK05973 replicative DNA helicase; Provisional
Probab=70.55 E-value=6.4 Score=43.28 Aligned_cols=30 Identities=33% Similarity=0.328 Sum_probs=23.0
Q ss_pred HHHHHHHHcCCceEEeccCCCChhHHHHHH
Q 001656 26 EKVIQSLQNKCNALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 26 ~~V~~aL~~~k~~llEAPTGTGKTLa~L~~ 55 (1036)
+.+...|..|...+|-|++|+|||.-.|--
T Consensus 55 ~~l~GGl~~Gsl~LIaG~PG~GKT~lalqf 84 (237)
T PRK05973 55 EELFSQLKPGDLVLLGARPGHGKTLLGLEL 84 (237)
T ss_pred HHhcCCCCCCCEEEEEeCCCCCHHHHHHHH
Confidence 345556677888999999999999955533
No 272
>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=70.22 E-value=7.3 Score=49.38 Aligned_cols=55 Identities=25% Similarity=0.425 Sum_probs=40.1
Q ss_pred cCCceEEeccCCCChhHHHHHHHHHHHhhh-cCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLLCATLAWRKSL-GSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQ 112 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~aLa~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ 112 (1036)
.+...++-||.|||||-+++ .|.+.. +. ..-+|++.|...+..+++..
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi----~wLk~~l~~---------------------------~~~~VLvVShRrSL~~sL~~ 96 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALI----RWLKDALKN---------------------------PDKSVLVVSHRRSLTKSLAE 96 (824)
T ss_pred CCCeEEEECCCCCCcHHHHH----HHHHHhccC---------------------------CCCeEEEEEhHHHHHHHHHH
Confidence 44678999999999999774 455543 11 12368888888899999998
Q ss_pred HHHhcCC
Q 001656 113 ELKTSNY 119 (1036)
Q Consensus 113 ELrkl~~ 119 (1036)
.+++-++
T Consensus 97 rf~~~~l 103 (824)
T PF02399_consen 97 RFKKAGL 103 (824)
T ss_pred HHhhcCC
Confidence 8876543
No 273
>PHA00729 NTP-binding motif containing protein
Probab=70.14 E-value=5.7 Score=43.33 Aligned_cols=34 Identities=24% Similarity=0.407 Sum_probs=25.8
Q ss_pred HHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHH
Q 001656 24 YMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 24 ~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
++..+.+.|.++ .++++-+|+|||||- |+-+|+.
T Consensus 4 ~~k~~~~~l~~~~f~nIlItG~pGvGKT~--LA~aLa~ 39 (226)
T PHA00729 4 LAKKIVSAYNNNGFVSAVIFGKQGSGKTT--YALKVAR 39 (226)
T ss_pred HHHHHHHHHhcCCeEEEEEECCCCCCHHH--HHHHHHH
Confidence 556677777666 579999999999997 5555543
No 274
>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=70.09 E-value=5.4 Score=44.93 Aligned_cols=34 Identities=26% Similarity=0.195 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHc-----C--CceEEeccCCCChhHHH
Q 001656 19 DCQLVYMEKVIQSLQN-----K--CNALLESPTGTGKTLCL 52 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~-----~--k~~llEAPTGTGKTLa~ 52 (1036)
-+|.+..+.+...+.. + .++++.+|+|||||...
T Consensus 7 iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 7 IGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLA 47 (305)
T ss_pred cCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 3677777777766652 2 56999999999999733
No 275
>PRK04328 hypothetical protein; Provisional
Probab=69.89 E-value=6.3 Score=43.48 Aligned_cols=19 Identities=32% Similarity=0.573 Sum_probs=16.0
Q ss_pred HHcCCceEEeccCCCChhH
Q 001656 32 LQNKCNALLESPTGTGKTL 50 (1036)
Q Consensus 32 L~~~k~~llEAPTGTGKTL 50 (1036)
+-.|...++.+|+|+|||.
T Consensus 20 ip~gs~ili~G~pGsGKT~ 38 (249)
T PRK04328 20 IPERNVVLLSGGPGTGKSI 38 (249)
T ss_pred CcCCcEEEEEcCCCCCHHH
Confidence 3356789999999999988
No 276
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=69.83 E-value=4 Score=49.06 Aligned_cols=81 Identities=21% Similarity=0.197 Sum_probs=49.6
Q ss_pred CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCe
Q 001656 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPT 96 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pk 96 (1036)
|-+.|.-. +-.|+....-++=-|-||+||||||=+|.++-..+.... +.+. .+.....|+
T Consensus 204 Pt~IQsl~---lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~--------------s~e~---~~~~~k~~k 263 (731)
T KOG0347|consen 204 PTEIQSLV---LPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDD--------------SQEL---SNTSAKYVK 263 (731)
T ss_pred Cccchhhc---ccHhhccchhcccccccCCCceeeecchhhhhhhhccch--------------Hhhh---hhHHhccCc
Confidence 55566442 223344446788889999999999999988733221100 0000 011123344
Q ss_pred --EEEEcCCHHHHHHHHHHHHhc
Q 001656 97 --ILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 97 --Iiy~TRThsQl~Qvv~ELrkl 117 (1036)
-++.|.|..+.-|+.+-|..+
T Consensus 264 ~~~LV~tPTRELa~QV~~Hl~ai 286 (731)
T KOG0347|consen 264 PIALVVTPTRELAHQVKQHLKAI 286 (731)
T ss_pred ceeEEecChHHHHHHHHHHHHHh
Confidence 777899999999998877764
No 277
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=69.78 E-value=5.5 Score=39.50 Aligned_cols=29 Identities=21% Similarity=0.311 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHcCCceEEeccCCCChhHH
Q 001656 23 VYMEKVIQSLQNKCNALLESPTGTGKTLC 51 (1036)
Q Consensus 23 e~m~~V~~aL~~~k~~llEAPTGTGKTLa 51 (1036)
++.+.+......+.+++|.+++||||+..
T Consensus 9 ~l~~~l~~~a~~~~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 9 RLRRQLERLAKSSSPVLITGEPGTGKSLL 37 (138)
T ss_dssp HHHHHHHHHHCSSS-EEEECCTTSSHHHH
T ss_pred HHHHHHHHHhCCCCcEEEEcCCCCCHHHH
Confidence 44555556666779999999999999993
No 278
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=69.70 E-value=5.4 Score=44.95 Aligned_cols=34 Identities=32% Similarity=0.423 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHH
Q 001656 20 CQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L 53 (1036)
+|.+.++.+...++.+ .++++.+|+|||||..+.
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~ 56 (319)
T PRK00440 21 GQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAAL 56 (319)
T ss_pred CcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHH
Confidence 7888999999999877 469999999999998654
No 279
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.67 E-value=5.3 Score=48.37 Aligned_cols=35 Identities=26% Similarity=0.276 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHcCCc---eEEeccCCCChhHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLL 53 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~---~llEAPTGTGKTLa~L 53 (1036)
-+|......+..++.+++. .|+.+|+|||||....
T Consensus 17 vGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~ 54 (472)
T PRK14962 17 VGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVAR 54 (472)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 4899999999999998854 6999999999997544
No 280
>PHA02533 17 large terminase protein; Provisional
Probab=69.54 E-value=18 Score=44.64 Aligned_cols=71 Identities=13% Similarity=-0.001 Sum_probs=53.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
-||+++|.|+.++..+. .++..+++.|=..|||.....-+|.++....
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 58999999999887763 4567799999999999976544444433211
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
...|++++.|..|...++++++.
T Consensus 104 -~~~v~i~A~~~~QA~~vF~~ik~ 126 (534)
T PHA02533 104 -DKNVGILAHKASMAAEVLDRTKQ 126 (534)
T ss_pred -CCEEEEEeCCHHHHHHHHHHHHH
Confidence 24799999999999998887763
No 281
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=69.18 E-value=3.8 Score=52.56 Aligned_cols=30 Identities=20% Similarity=0.423 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHcCCceEEeccCCCChhHHH
Q 001656 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 23 e~m~~V~~aL~~~k~~llEAPTGTGKTLa~ 52 (1036)
+...+|.+++.+...++|.+|||+|||-.+
T Consensus 53 ~~~~~i~~ai~~~~vvii~getGsGKTTql 82 (845)
T COG1643 53 AVRDEILKAIEQNQVVIIVGETGSGKTTQL 82 (845)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCChHHHH
Confidence 456789999999999999999999999844
No 282
>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=69.07 E-value=14 Score=41.24 Aligned_cols=43 Identities=28% Similarity=0.302 Sum_probs=28.2
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHH
Q 001656 12 EFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 12 ~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
...+.||+.|.--.-.+ .. .-|+|.-||=|||+..-++|...+
T Consensus 73 ~~g~~p~~vQll~~l~L----~~--G~laEm~TGEGKTli~~l~a~~~A 115 (266)
T PF07517_consen 73 TLGLRPYDVQLLGALAL----HK--GRLAEMKTGEGKTLIAALPAALNA 115 (266)
T ss_dssp HTS----HHHHHHHHHH----HT--TSEEEESTTSHHHHHHHHHHHHHH
T ss_pred HcCCcccHHHHhhhhhc----cc--ceeEEecCCCCcHHHHHHHHHHHH
Confidence 45678999997654332 33 349999999999998887776544
No 283
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=68.85 E-value=5.4 Score=48.64 Aligned_cols=36 Identities=25% Similarity=0.202 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHcCC---ceEEeccCCCChhHHHHHH
Q 001656 20 CQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~k---~~llEAPTGTGKTLa~L~~ 55 (1036)
+|..+...+..++.+++ ..|+.+|.|||||....+-
T Consensus 25 Gq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~Aril 63 (507)
T PRK06645 25 GQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARII 63 (507)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHH
Confidence 99999999999999886 5899999999999866544
No 284
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=68.82 E-value=4.5 Score=38.83 Aligned_cols=21 Identities=52% Similarity=0.670 Sum_probs=16.3
Q ss_pred eEEeccCCCChhHHHHHHHHHHH
Q 001656 38 ALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 38 ~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
+++.+|.|||||. |+-.++..
T Consensus 1 ill~G~~G~GKT~--l~~~la~~ 21 (132)
T PF00004_consen 1 ILLHGPPGTGKTT--LARALAQY 21 (132)
T ss_dssp EEEESSTTSSHHH--HHHHHHHH
T ss_pred CEEECcCCCCeeH--HHHHHHhh
Confidence 5899999999999 55566543
No 285
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=68.79 E-value=19 Score=43.94 Aligned_cols=79 Identities=18% Similarity=0.180 Sum_probs=55.0
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccC
Q 001656 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (1036)
Q Consensus 515 vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rG 594 (1036)
.+--+|||.-||+...+++..+. +|+.|. ..++.-.+.....++.++.|+. ++=.||+|+ +
T Consensus 386 ~~PP~lIfVQs~eRak~L~~~L~---------~~~~i~--v~vIh~e~~~~qrde~~~~FR~------g~IwvLicT--d 446 (593)
T KOG0344|consen 386 FKPPVLIFVQSKERAKQLFEELE---------IYDNIN--VDVIHGERSQKQRDETMERFRI------GKIWVLICT--D 446 (593)
T ss_pred CCCCeEEEEecHHHHHHHHHHhh---------hccCcc--eeeEecccchhHHHHHHHHHhc------cCeeEEEeh--h
Confidence 56689999999999999988774 112221 1122222344567788999986 455677655 9
Q ss_pred CccccccCCCCCceEEEEeC
Q 001656 595 KVSEGLDFADHAGRAVVITG 614 (1036)
Q Consensus 595 k~sEGIDf~gd~~R~VIIvG 614 (1036)
-+..||||.| ..+||..-
T Consensus 447 ll~RGiDf~g--vn~VInyD 464 (593)
T KOG0344|consen 447 LLARGIDFKG--VNLVINYD 464 (593)
T ss_pred hhhccccccC--cceEEecC
Confidence 9999999999 56777743
No 286
>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=68.53 E-value=9 Score=45.53 Aligned_cols=34 Identities=21% Similarity=0.418 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~ 52 (1036)
..+...+.....-++++.|+++=+|+|||||.-+
T Consensus 193 r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla 226 (449)
T TIGR02688 193 RQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIY 226 (449)
T ss_pred HHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHH
Confidence 4555555666677899999999999999999633
No 287
>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=68.48 E-value=7 Score=45.15 Aligned_cols=36 Identities=31% Similarity=0.389 Sum_probs=23.3
Q ss_pred CCHHHHHHHHHHHH-HHHcC--CceEEeccCCCChhHHH
Q 001656 17 AYDCQLVYMEKVIQ-SLQNK--CNALLESPTGTGKTLCL 52 (1036)
Q Consensus 17 py~~Q~e~m~~V~~-aL~~~--k~~llEAPTGTGKTLa~ 52 (1036)
-|+.|.+-+...+. ++..+ .+++|-+|+|||||..+
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 35555544444433 33332 57999999999999754
No 288
>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=68.47 E-value=5.2 Score=44.35 Aligned_cols=36 Identities=33% Similarity=0.401 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 23 e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
++.+.+..+++.++++++-+|||+|||-.+ .+.+.+
T Consensus 115 ~~~~~l~~~v~~~~~ili~G~tGSGKTT~l-~all~~ 150 (270)
T PF00437_consen 115 EIAEFLRSAVRGRGNILISGPTGSGKTTLL-NALLEE 150 (270)
T ss_dssp HHHHHHHHCHHTTEEEEEEESTTSSHHHHH-HHHHHH
T ss_pred HHHHHHhhccccceEEEEECCCccccchHH-HHHhhh
Confidence 344455556677899999999999999855 333433
No 289
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=68.28 E-value=11 Score=48.34 Aligned_cols=141 Identities=13% Similarity=0.101 Sum_probs=78.5
Q ss_pred HHHHHhhhccCCeEEEEccCCCCh-HHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHH
Q 001656 425 IAMQEFSRLEVGSIILTSGTLSPM-DSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQE 503 (1036)
Q Consensus 425 ~~~~~ll~~~~~svIltSgTLsp~-~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~ 503 (1036)
..++.++. ..+.+.-|+||...- ..|....|++... + .||. + .+. .+-|+ .-| .+..+-...
T Consensus 350 IT~QnfFr-~Y~kL~GMTGTa~te~~Ef~~iY~l~vv~-I-Ptnk-p-~~R-----~d~~d-----~v~--~t~~~K~~A 412 (870)
T CHL00122 350 ITYQNFFL-LYPKLSGMTGTAKTEELEFEKIYNLEVVC-I-PTHR-P-MLR-----KDLPD-----LIY--KDELSKWRA 412 (870)
T ss_pred eeHHHHHH-hCchhcccCCCCHHHHHHHHHHhCCCEEE-C-CCCC-C-ccc-----eeCCC-----eEE--eCHHHHHHH
Confidence 34566655 567899999999763 3566777775321 1 1111 0 000 01111 012 222333456
Q ss_pred HHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCC--CCChHHHHHHHHHHhccC
Q 001656 504 LGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ--SSLFPLAIEDYMAKLKDT 581 (1036)
Q Consensus 504 l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~--~~~~~~~i~~f~~~i~~~ 581 (1036)
+.+.|.+... ....|||-..|-..=+.+...+...... .-++.-+. ...=.++++ ..
T Consensus 413 I~~ei~~~~~-~grPVLIgT~SIe~SE~ls~~L~~~gi~-------------h~vLNAk~~~~~~EA~IIA-------~A 471 (870)
T CHL00122 413 IADECLQMHQ-TGRPILIGTTTIEKSELLSQLLKEYRLP-------------HQLLNAKPENVRRESEIVA-------QA 471 (870)
T ss_pred HHHHHHHHHh-cCCCEEEeeCCHHHHHHHHHHHHHcCCc-------------cceeeCCCccchhHHHHHH-------hc
Confidence 7777766553 5669999999999999888887764321 11222221 111112222 23
Q ss_pred CCCCeEEEEEccCCccccccCCCC
Q 001656 582 STSGAVFFAVCRGKVSEGLDFADH 605 (1036)
Q Consensus 582 ~~~gaVLfaV~rGk~sEGIDf~gd 605 (1036)
+..|+|-+|+ .-...|.|..=.
T Consensus 472 G~~G~VTIAT--NMAGRGTDI~Lg 493 (870)
T CHL00122 472 GRKGSITIAT--NMAGRGTDIILG 493 (870)
T ss_pred CCCCcEEEec--cccCCCcCeecC
Confidence 4679999988 788899997433
No 290
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=68.20 E-value=12 Score=43.91 Aligned_cols=69 Identities=20% Similarity=0.288 Sum_probs=46.3
Q ss_pred CHHHHHHH---HHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 18 YDCQLVYM---EKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 18 y~~Q~e~m---~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
+-+|..+. .-+.++++.+ .+.|+-+|+|||||- |..+|+. ..+.
T Consensus 26 ~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTT--lA~liA~--~~~~--------------------------- 74 (436)
T COG2256 26 VVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTT--LARLIAG--TTNA--------------------------- 74 (436)
T ss_pred hcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHH--HHHHHHH--hhCC---------------------------
Confidence 34888887 4577888877 569999999999997 5555543 2111
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHhc
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKTS 117 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrkl 117 (1036)
..-++=-++.+...+++++++.++.
T Consensus 75 ~f~~~sAv~~gvkdlr~i~e~a~~~ 99 (436)
T COG2256 75 AFEALSAVTSGVKDLREIIEEARKN 99 (436)
T ss_pred ceEEeccccccHHHHHHHHHHHHHH
Confidence 1112222355778899999987653
No 291
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.15 E-value=5.4 Score=49.50 Aligned_cols=38 Identities=24% Similarity=0.191 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHcC--Cc-eEEeccCCCChhHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLLCAT 56 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~--k~-~llEAPTGTGKTLa~L~~a 56 (1036)
-+|......+..++..+ .| .|+.+|.|||||....+-|
T Consensus 16 vGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lA 56 (584)
T PRK14952 16 VGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILA 56 (584)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 48999999999999988 34 5899999999998766443
No 292
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.04 E-value=6 Score=47.75 Aligned_cols=35 Identities=20% Similarity=0.150 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHcCCc---eEEeccCCCChhHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLL 53 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~---~llEAPTGTGKTLa~L 53 (1036)
-+|...+..+..++.+++. .|+.+|.|||||-...
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 4999999999999999864 5999999999998554
No 293
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=67.63 E-value=7.6 Score=41.81 Aligned_cols=35 Identities=14% Similarity=0.128 Sum_probs=23.3
Q ss_pred HHHHHHHHHHH---cCCceEEeccCCCChhHHHHHHHHHH
Q 001656 23 VYMEKVIQSLQ---NKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 23 e~m~~V~~aL~---~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+....+.+... .+.++++-+|+|||||- |+.+++.
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 34689999999999997 5455543
No 294
>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=67.62 E-value=4.4 Score=40.04 Aligned_cols=35 Identities=31% Similarity=0.337 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 22 LVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 22 ~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
++++..+.+.|..+..++|+++-|+|||- |+-+++
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 555554
No 295
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=67.50 E-value=5.8 Score=45.51 Aligned_cols=36 Identities=25% Similarity=0.183 Sum_probs=27.0
Q ss_pred CHHHHHHHHHHHHHHHc----C---CceEEeccCCCChhHHHH
Q 001656 18 YDCQLVYMEKVIQSLQN----K---CNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~----~---k~~llEAPTGTGKTLa~L 53 (1036)
+-+|.+.++.+...+.. + .++++.+|+|||||..+.
T Consensus 27 ~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 27 FIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred hcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence 34777777777666642 2 579999999999998554
No 296
>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=67.29 E-value=4.9 Score=49.42 Aligned_cols=34 Identities=21% Similarity=0.202 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHH
Q 001656 19 DCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCL 52 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~ 52 (1036)
-+|...|..+..++... .++++.+|+|||||.+.
T Consensus 68 iGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lA 103 (531)
T TIGR02902 68 IGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAA 103 (531)
T ss_pred eCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHH
Confidence 48999999999888654 78999999999999844
No 297
>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=67.10 E-value=19 Score=45.97 Aligned_cols=36 Identities=19% Similarity=0.132 Sum_probs=28.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHH
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~ 52 (1036)
+++..-+.|++.+..+ ..++..+|.++.|||||..+
T Consensus 320 ~~~~l~~~Q~~Ai~~~----~~~~~~iitGgpGTGKTt~l 355 (720)
T TIGR01448 320 LRKGLSEEQKQALDTA----IQHKVVILTGGPGTGKTTIT 355 (720)
T ss_pred cCCCCCHHHHHHHHHH----HhCCeEEEECCCCCCHHHHH
Confidence 4566678999976665 34679999999999999854
No 298
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=67.08 E-value=20 Score=41.46 Aligned_cols=41 Identities=17% Similarity=0.207 Sum_probs=33.9
Q ss_pred CCCHHHHHHHHHHHHHHHcCC---ceEEeccCCCChhHHHHHHH
Q 001656 16 EAYDCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLLCAT 56 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~k---~~llEAPTGTGKTLa~L~~a 56 (1036)
..||.|...-+.+..++.+++ -.++.+|.|+||+...+.-|
T Consensus 2 ~~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A 45 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALS 45 (334)
T ss_pred CCCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHH
Confidence 468899999999999999874 36799999999998666443
No 299
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=66.89 E-value=31 Score=39.77 Aligned_cols=40 Identities=15% Similarity=0.239 Sum_probs=32.9
Q ss_pred CCHHHHHHHHHHHHHHHcCC--c-eEEeccCCCChhHHHHHHH
Q 001656 17 AYDCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLLCAT 56 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L~~a 56 (1036)
.||.|...-..+..++.+|+ | .++++|.|+||+.....-|
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A 45 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALA 45 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHH
Confidence 48999999999999999984 3 5699999999998665443
No 300
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=66.65 E-value=5.4 Score=50.99 Aligned_cols=37 Identities=32% Similarity=0.447 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHcC-----------CceEEeccCCCChhHHHHHHHHH
Q 001656 20 CQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~-----------k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+|.+.++.|.+++... .++++.+|||||||. |+-+|+
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 7888999999998742 247999999999996 555554
No 301
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=66.17 E-value=28 Score=39.93 Aligned_cols=39 Identities=23% Similarity=0.407 Sum_probs=32.5
Q ss_pred CCHHHHHHHHHHHHHHHcCC---ceEEeccCCCChhHHHHHH
Q 001656 17 AYDCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k---~~llEAPTGTGKTLa~L~~ 55 (1036)
-=-+|.+....+..++.+++ ..++.+|.|+||+...++-
T Consensus 5 ~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~ 46 (314)
T PRK07399 5 NLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCF 46 (314)
T ss_pred HhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHH
Confidence 33589999999999999984 5999999999999866543
No 302
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=66.10 E-value=13 Score=47.75 Aligned_cols=68 Identities=22% Similarity=0.292 Sum_probs=51.0
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCC
Q 001656 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKL 94 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~ 94 (1036)
|.|-.+|.++ .+.++.++.+++-|||-.|||+.--.+.=...+. ++.
T Consensus 510 F~Pd~WQ~el----LDsvDr~eSavIVAPTSaGKTfisfY~iEKVLRe-----------------------------sD~ 556 (1330)
T KOG0949|consen 510 FCPDEWQREL----LDSVDRNESAVIVAPTSAGKTFISFYAIEKVLRE-----------------------------SDS 556 (1330)
T ss_pred cCCcHHHHHH----hhhhhcccceEEEeeccCCceeccHHHHHHHHhh-----------------------------cCC
Confidence 6777889885 5667899999999999999998543332122222 134
Q ss_pred CeEEEEcCCHHHHHHHHHHHH
Q 001656 95 PTILYTSRTHSQLRQVIQELK 115 (1036)
Q Consensus 95 pkIiy~TRThsQl~Qvv~ELr 115 (1036)
..|||+..|.++..|+-.++.
T Consensus 557 ~VVIyvaPtKaLVnQvsa~Vy 577 (1330)
T KOG0949|consen 557 DVVIYVAPTKALVNQVSANVY 577 (1330)
T ss_pred CEEEEecchHHHhhhhhHHHH
Confidence 689999999999999988754
No 303
>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=66.07 E-value=5.5 Score=50.06 Aligned_cols=40 Identities=23% Similarity=0.264 Sum_probs=34.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHH
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCL 52 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~ 52 (1036)
|||..--+|..+...+.-++-+. .++||++|+|||||...
T Consensus 1 ~pf~~ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~la 42 (633)
T TIGR02442 1 FPFTAIVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTAA 42 (633)
T ss_pred CCcchhcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHHH
Confidence 89998889999998888887764 46999999999999843
No 304
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=65.84 E-value=5.7 Score=50.78 Aligned_cols=34 Identities=26% Similarity=0.282 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHc--------C---CceEEeccCCCChhHHH
Q 001656 19 DCQLVYMEKVIQSLQN--------K---CNALLESPTGTGKTLCL 52 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~--------~---k~~llEAPTGTGKTLa~ 52 (1036)
-+|.+.++.|.+++.. + .++++.+|||+|||...
T Consensus 461 iGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lA 505 (758)
T PRK11034 461 FGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVT 505 (758)
T ss_pred eCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHH
Confidence 3799999999999873 1 35899999999999743
No 305
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=65.83 E-value=7.6 Score=44.70 Aligned_cols=33 Identities=30% Similarity=0.449 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHH
Q 001656 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATL 57 (1036)
Q Consensus 23 e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aL 57 (1036)
+++..+..++....|+|+-++||+|||- |+-+|
T Consensus 161 ~~a~~L~~av~~r~NILisGGTGSGKTT--lLNal 193 (355)
T COG4962 161 RAAKFLRRAVGIRCNILISGGTGSGKTT--LLNAL 193 (355)
T ss_pred HHHHHHHHHHhhceeEEEeCCCCCCHHH--HHHHH
Confidence 4566677778888999999999999997 44444
No 306
>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=65.76 E-value=7.8 Score=44.18 Aligned_cols=32 Identities=25% Similarity=0.369 Sum_probs=25.1
Q ss_pred HHHHHHHHHHcCCceEEeccCCCChhHHHHHHHH
Q 001656 24 YMEKVIQSLQNKCNALLESPTGTGKTLCLLCATL 57 (1036)
Q Consensus 24 ~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aL 57 (1036)
+.+.+.-++..++++++-+|||+|||- |+.+|
T Consensus 133 ~~~~l~~~v~~~~~ili~G~tGsGKTT--ll~al 164 (308)
T TIGR02788 133 IKEFLRLAIASRKNIIISGGTGSGKTT--FLKSL 164 (308)
T ss_pred HHHHHHHHhhCCCEEEEECCCCCCHHH--HHHHH
Confidence 444566678899999999999999998 43444
No 307
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=65.71 E-value=9.2 Score=49.36 Aligned_cols=109 Identities=17% Similarity=0.187 Sum_probs=0.0
Q ss_pred HHHHHhhhccCC-eEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEE-EccCCCCCccccccc--cCCC----
Q 001656 425 IAMQEFSRLEVG-SIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAG-IVPVGPSGYLLNSSY--RNRD---- 496 (1036)
Q Consensus 425 ~~~~~ll~~~~~-svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~-iv~~gp~~~~l~~~Y--~~r~---- 496 (1036)
..++.++..+.+ .|||||||+. .+.|..-+| .-++.-...+.++-...+.- ++....-...-...| ..++
T Consensus 308 i~lk~lL~~~p~LkvILMSAT~d-ae~fs~YF~-~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~~~~~ 385 (924)
T KOG0920|consen 308 ILLKDLLPRNPDLKVILMSATLD-AELFSDYFG-GCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRL 385 (924)
T ss_pred HHHHHHhhhCCCceEEEeeeecc-hHHHHHHhC-CCceEeecCCCcchHHHHHHHHHHHhcccccccccccccccCcccc
Q ss_pred ----------CHHHHHHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHh
Q 001656 497 ----------SIEYKQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWK 537 (1036)
Q Consensus 497 ----------~~~y~~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~ 537 (1036)
+.+.+..+...|..- ..+|.+|||.|.|..+..+++.+.
T Consensus 386 ~~~~~~~~~id~~Li~~li~~I~~~--~~~GaILVFLPG~~eI~~~~~~L~ 434 (924)
T KOG0920|consen 386 ARLKLWEPEIDYDLIEDLIEYIDER--EFEGAILVFLPGWEEILQLKELLE 434 (924)
T ss_pred ccchhccccccHHHHHHHHHhcccC--CCCceEEEEcCCHHHHHHHHHHhh
No 308
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=65.68 E-value=7.6 Score=46.74 Aligned_cols=36 Identities=31% Similarity=0.387 Sum_probs=26.2
Q ss_pred HHHHHHcC-CceEEeccCCCChhHHHHHHHHHHHhhhc
Q 001656 28 VIQSLQNK-CNALLESPTGTGKTLCLLCATLAWRKSLG 64 (1036)
Q Consensus 28 V~~aL~~~-k~~llEAPTGTGKTLa~L~~aLa~~~~~~ 64 (1036)
+.+.+... ..+|+-+|||+|||-. |.++|.+.....
T Consensus 250 ~~~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~~~ 286 (500)
T COG2804 250 LLRLLNRPQGLILVTGPTGSGKTTT-LYAALSELNTPE 286 (500)
T ss_pred HHHHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcCCC
Confidence 44445444 7799999999999985 567788876533
No 309
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=65.64 E-value=65 Score=36.25 Aligned_cols=79 Identities=13% Similarity=0.156 Sum_probs=53.9
Q ss_pred CcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccCCc
Q 001656 517 DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGKV 596 (1036)
Q Consensus 517 ggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~ 596 (1036)
...++|++...-.+.+.+.+++.++. + -+-|... .-.+.+.++.+|+. ++.-||++. .-+
T Consensus 267 tQavIFcnTk~kVdwLtekm~~~nft----V---ssmHGDm-----~qkERd~im~dFRs------g~SrvLitT--DVw 326 (400)
T KOG0328|consen 267 TQAVIFCNTKRKVDWLTEKMREANFT----V---SSMHGDM-----EQKERDKIMNDFRS------GKSRVLITT--DVW 326 (400)
T ss_pred heEEEEecccchhhHHHHHHHhhCce----e---eeccCCc-----chhHHHHHHHHhhc------CCceEEEEe--chh
Confidence 57899999999988888888765331 0 0001111 12457789999986 677899988 789
Q ss_pred cccccCCCCCceEEEEeCCCC
Q 001656 597 SEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 597 sEGIDf~gd~~R~VIIvGLPf 617 (1036)
+.|||.+- ...||=.-||-
T Consensus 327 aRGiDv~q--VslviNYDLP~ 345 (400)
T KOG0328|consen 327 ARGIDVQQ--VSLVINYDLPN 345 (400)
T ss_pred hccCCcce--eEEEEecCCCc
Confidence 99999986 44555555543
No 310
>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=65.63 E-value=8.5 Score=39.59 Aligned_cols=34 Identities=24% Similarity=0.320 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHcC--Cc-eEEeccCCCChhHHHH
Q 001656 20 CQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLL 53 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~--k~-~llEAPTGTGKTLa~L 53 (1036)
||.+..+.+.+.++++ -+ .|+++|.|+||+...+
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 5899999999999998 33 6999999999988554
No 311
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=65.53 E-value=6.9 Score=49.05 Aligned_cols=36 Identities=17% Similarity=0.213 Sum_probs=32.4
Q ss_pred CCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHH
Q 001656 17 AYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~ 52 (1036)
--.+|.+.+..+..++..+.++++.+|+|||||...
T Consensus 32 ~vigq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla 67 (637)
T PRK13765 32 QVIGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLA 67 (637)
T ss_pred HcCChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHH
Confidence 345899999999999999999999999999999844
No 312
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=65.46 E-value=4.5 Score=46.58 Aligned_cols=21 Identities=52% Similarity=0.721 Sum_probs=17.4
Q ss_pred CceEEeccCCCChhHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+-+||-+|+|||||| |+=|.|
T Consensus 186 KGVLLYGPPGTGKTL--LAkAVA 206 (406)
T COG1222 186 KGVLLYGPPGTGKTL--LAKAVA 206 (406)
T ss_pred CceEeeCCCCCcHHH--HHHHHH
Confidence 669999999999999 555554
No 313
>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=65.36 E-value=7.9 Score=38.76 Aligned_cols=35 Identities=26% Similarity=0.262 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 22 LVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 22 ~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
.++...+.+.|..+..++|.++.|+|||. |+-+++
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 35677888888899999999999999998 555554
No 314
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=65.29 E-value=21 Score=41.72 Aligned_cols=38 Identities=26% Similarity=0.300 Sum_probs=25.2
Q ss_pred CHHHH-HHHHHHHHHHHcC--CceEEeccCCCChhHHHHHH
Q 001656 18 YDCQL-VYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 18 y~~Q~-e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~ 55 (1036)
|+.|. +++..+..++..+ .++++-+|+|||||..+-..
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v 75 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKV 75 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHH
Confidence 55553 4444444555433 67999999999999966533
No 315
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=65.12 E-value=8.1 Score=45.58 Aligned_cols=22 Identities=50% Similarity=0.676 Sum_probs=17.9
Q ss_pred CceEEeccCCCChhHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+.++|.+|+|||||+ |+-+++.
T Consensus 166 ~gvLL~GppGtGKT~--lAkaia~ 187 (389)
T PRK03992 166 KGVLLYGPPGTGKTL--LAKAVAH 187 (389)
T ss_pred CceEEECCCCCChHH--HHHHHHH
Confidence 569999999999998 5556654
No 316
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=65.04 E-value=24 Score=41.14 Aligned_cols=139 Identities=19% Similarity=0.214 Sum_probs=71.6
Q ss_pred cCCeEEEEccCCCC-hHHHHHHhCCCCCccccCCCcCCC----CceEEEEccCCCCCccccccccCCCCHHHHHHHHHHH
Q 001656 434 EVGSIILTSGTLSP-MDSFAQELKLNFPLRVENPHVITS----KQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTI 508 (1036)
Q Consensus 434 ~~~svIltSgTLsp-~~~f~~~LGl~~~~~le~p~v~~~----~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I 508 (1036)
.-+..+|.|||++- ..-++ .--++.++++..++-|.. .|.|.+ ++. .| + +.|+
T Consensus 234 ~erqt~LfsATMt~kv~kL~-rasl~~p~~v~~s~ky~tv~~lkQ~ylf-v~~---------k~--K--~~yL------- 291 (476)
T KOG0330|consen 234 RERQTFLFSATMTKKVRKLQ-RASLDNPVKVAVSSKYQTVDHLKQTYLF-VPG---------KD--K--DTYL------- 291 (476)
T ss_pred ccceEEEEEeecchhhHHHH-hhccCCCeEEeccchhcchHHhhhheEe-ccc---------cc--c--chhH-------
Confidence 45788999999975 23333 334555665555554431 344433 332 11 2 2332
Q ss_pred HHHHHHcCC-cEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhccCCCCCe
Q 001656 509 VNIARIVPD-GLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTSTSGA 586 (1036)
Q Consensus 509 ~~l~~~vpg-gvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~~~~~ga 586 (1036)
..++....| -++||+.+-.--+.+.-.++..... .|.-+ ++-+ ...-..++.|++ +.-.
T Consensus 292 V~ll~e~~g~s~iVF~~t~~tt~~la~~L~~lg~~-------a~~Lh------Gqmsq~~Rlg~l~~Fk~------~~r~ 352 (476)
T KOG0330|consen 292 VYLLNELAGNSVIVFCNTCNTTRFLALLLRNLGFQ-------AIPLH------GQMSQSKRLGALNKFKA------GARS 352 (476)
T ss_pred HHHHHhhcCCcEEEEEeccchHHHHHHHHHhcCcc-------eeccc------chhhHHHHHHHHHHHhc------cCCc
Confidence 233334445 5555555555544444444433211 11111 1111 112345677875 4678
Q ss_pred EEEEEccCCccccccCCCCCceEEEEeCCCC
Q 001656 587 VFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 587 VLfaV~rGk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
||+|+ .--|.|+|.++ .+.||=.-+|-
T Consensus 353 iLv~T--DVaSRGLDip~--Vd~VVNyDiP~ 379 (476)
T KOG0330|consen 353 ILVCT--DVASRGLDIPH--VDVVVNYDIPT 379 (476)
T ss_pred EEEec--chhcccCCCCC--ceEEEecCCCC
Confidence 99877 78899999998 45555544443
No 317
>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=64.98 E-value=6.1 Score=51.42 Aligned_cols=39 Identities=33% Similarity=0.309 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHcC-----------CceEEeccCCCChhHHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~-----------k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
-+|...|..|.+++... ..+++.+|||||||. |+-+|+.
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 58999999999999752 348899999999997 5556654
No 318
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.86 E-value=6.7 Score=47.94 Aligned_cols=36 Identities=19% Similarity=0.171 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHcC--Cc-eEEeccCCCChhHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLLC 54 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~--k~-~llEAPTGTGKTLa~L~ 54 (1036)
-+|...+..+..++.++ .| .|+.+|.|||||....+
T Consensus 19 vGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~ 57 (509)
T PRK14958 19 IGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRI 57 (509)
T ss_pred cCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHH
Confidence 49999999999999887 34 59999999999975543
No 319
>PRK08727 hypothetical protein; Validated
Probab=64.72 E-value=12 Score=40.73 Aligned_cols=22 Identities=41% Similarity=0.442 Sum_probs=16.5
Q ss_pred CceEEeccCCCChhHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
..+++-+|+|||||- |+-+++.
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 459999999999997 4444443
No 320
>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=64.63 E-value=13 Score=40.00 Aligned_cols=24 Identities=25% Similarity=0.328 Sum_probs=19.1
Q ss_pred HHHcCCceEEeccCCCChhHHHHH
Q 001656 31 SLQNKCNALLESPTGTGKTLCLLC 54 (1036)
Q Consensus 31 aL~~~k~~llEAPTGTGKTLa~L~ 54 (1036)
-+..|..+++.+|+|+|||.-.+.
T Consensus 16 Gi~~G~~~~i~G~~G~GKT~l~~~ 39 (229)
T TIGR03881 16 GIPRGFFVAVTGEPGTGKTIFCLH 39 (229)
T ss_pred CCcCCeEEEEECCCCCChHHHHHH
Confidence 455678899999999999885543
No 321
>PF12207 DUF3600: Domain of unknown function (DUF3600); InterPro: IPR022019 This family of proteins is found in bacteria. Proteins in this family are approximately 230 amino acids in length. This domain is the C-terminal of the putative ecf-type sigma factor negative effector. ; PDB: 3FGG_A 3FH3_A.
Probab=64.56 E-value=6.9 Score=39.26 Aligned_cols=35 Identities=26% Similarity=0.431 Sum_probs=28.1
Q ss_pred hhHHHHHHHhhCHHHHHHHHHHHHHHhhhhhchHH
Q 001656 961 SAFLIQVQEKLSATEYKEFVGFMKAMKSKAMKISH 995 (1036)
Q Consensus 961 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 995 (1036)
.|=|.|++.+|+++||.+|....|-|-.-.+++++
T Consensus 30 eaKLqqAK~~lgeeEfeef~~lLK~lt~~kLkygD 64 (162)
T PF12207_consen 30 EAKLQQAKGELGEEEFEEFKELLKKLTNAKLKYGD 64 (162)
T ss_dssp HHHHHHHHHCS-HHHHHHHHHHHHHHHHHHHHHB-
T ss_pred HHHHHHHHHhhhHHHHHHHHHHHHHHHHhHHhhcc
Confidence 47799999999999999999999988766666654
No 322
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=64.15 E-value=16 Score=48.06 Aligned_cols=82 Identities=18% Similarity=0.247 Sum_probs=46.2
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccC
Q 001656 515 VPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRG 594 (1036)
Q Consensus 515 vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rG 594 (1036)
...++||||.=..+++-|.+.+.+..... -+ |=|+ .+ -++| ....+++++|.. ...-..+|+.+--|
T Consensus 1339 sqHRiLIFcQlK~mlDlVekDL~k~~mps-Vt-ymRL--DG--SVpp---~~R~kiV~~FN~----DptIDvLlLTThVG 1405 (1549)
T KOG0392|consen 1339 SQHRILIFCQLKSMLDLVEKDLFKKYMPS-VT-YMRL--DG--SVPP---GDRQKIVERFNE----DPTIDVLLLTTHVG 1405 (1549)
T ss_pred ccceeEEeeeHHHHHHHHHHHHhhhhcCc-ee-EEEe--cC--CCCc---HHHHHHHHHhcC----CCceeEEEEeeecc
Confidence 45799999999999888876664321100 00 0000 00 0122 335567777764 22345677775434
Q ss_pred CccccccCCCCCceEEEEe
Q 001656 595 KVSEGLDFADHAGRAVVIT 613 (1036)
Q Consensus 595 k~sEGIDf~gd~~R~VIIv 613 (1036)
-+ |+++.| +..||.+
T Consensus 1406 GL--GLNLTG--ADTVVFv 1420 (1549)
T KOG0392|consen 1406 GL--GLNLTG--ADTVVFV 1420 (1549)
T ss_pred cc--ccccCC--CceEEEE
Confidence 43 888888 5678877
No 323
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=64.14 E-value=1e+02 Score=38.30 Aligned_cols=140 Identities=12% Similarity=0.132 Sum_probs=86.4
Q ss_pred CeEEEEccCCCC--hHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHH
Q 001656 436 GSIILTSGTLSP--MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIAR 513 (1036)
Q Consensus 436 ~svIltSgTLsp--~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~ 513 (1036)
-.++...||=+| .......|++..+..+...+ +..|++.-+++. .++ ...+. .|.+...
T Consensus 167 ~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~~sf--dRpNi~~~v~~~--------------~~~--~~q~~-fi~~~~~ 227 (590)
T COG0514 167 PPVLALTATATPRVRDDIREQLGLQDANIFRGSF--DRPNLALKVVEK--------------GEP--SDQLA-FLATVLP 227 (590)
T ss_pred CCEEEEeCCCChHHHHHHHHHhcCCCcceEEecC--CCchhhhhhhhc--------------ccH--HHHHH-HHHhhcc
Confidence 477888888887 46788899998754333332 223433222221 111 12333 4444333
Q ss_pred HcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC-CChHHHHHHHHHHhccCCCCCeEEEEEc
Q 001656 514 IVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS-SLFPLAIEDYMAKLKDTSTSGAVFFAVC 592 (1036)
Q Consensus 514 ~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~-~~~~~~i~~f~~~i~~~~~~gaVLfaV~ 592 (1036)
...+..+|++.|....+.+++.+..... +..++..+-. .+....-+.|.. ++..|++|+
T Consensus 228 ~~~~~GIIYc~sRk~~E~ia~~L~~~g~-------------~a~~YHaGl~~~eR~~~q~~f~~------~~~~iiVAT- 287 (590)
T COG0514 228 QLSKSGIIYCLTRKKVEELAEWLRKNGI-------------SAGAYHAGLSNEERERVQQAFLN------DEIKVMVAT- 287 (590)
T ss_pred ccCCCeEEEEeeHHhHHHHHHHHHHCCC-------------ceEEecCCCCHHHHHHHHHHHhc------CCCcEEEEe-
Confidence 4445689999999999999998886522 1223333322 222233344442 467888887
Q ss_pred cCCccccccCCCCCceEEEEeCCCC
Q 001656 593 RGKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 593 rGk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
-.|-=|||-+| .|.||=..+|-
T Consensus 288 -~AFGMGIdKpd--VRfViH~~lP~ 309 (590)
T COG0514 288 -NAFGMGIDKPD--VRFVIHYDLPG 309 (590)
T ss_pred -ccccCccCCCC--ceEEEEecCCC
Confidence 59999999999 79999988876
No 324
>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=64.09 E-value=18 Score=46.45 Aligned_cols=34 Identities=21% Similarity=0.211 Sum_probs=26.5
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHH
Q 001656 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLC 51 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa 51 (1036)
+..-+.|++.+..|. ..++..+|.+|.|||||..
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 445689999776654 4457899999999999974
No 325
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=63.94 E-value=8.9 Score=45.94 Aligned_cols=23 Identities=43% Similarity=0.580 Sum_probs=18.2
Q ss_pred CCceEEeccCCCChhHHHHHHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
.+.++|.+|+|||||+ |+-+++.
T Consensus 217 p~gVLL~GPPGTGKT~--LAraIA~ 239 (438)
T PTZ00361 217 PKGVILYGPPGTGKTL--LAKAVAN 239 (438)
T ss_pred CcEEEEECCCCCCHHH--HHHHHHH
Confidence 3679999999999999 5556654
No 326
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=63.38 E-value=9.9 Score=43.67 Aligned_cols=39 Identities=21% Similarity=0.232 Sum_probs=33.8
Q ss_pred CCHHHHHHHHHHHHHHHcCC---ceEEeccCCCChhHHHHHH
Q 001656 17 AYDCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k---~~llEAPTGTGKTLa~L~~ 55 (1036)
.||.|......+..++.+++ ..++.+|.|+||+...+.-
T Consensus 5 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~l 46 (319)
T PRK08769 5 FSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALAL 46 (319)
T ss_pred ccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHH
Confidence 68999999999999999885 4889999999999866543
No 327
>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=63.21 E-value=8 Score=42.76 Aligned_cols=30 Identities=30% Similarity=0.290 Sum_probs=22.0
Q ss_pred HHHHcCCceEEeccCCCChhHHHHHHHHHH
Q 001656 30 QSLQNKCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 30 ~aL~~~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
..+..|...++-||||+|||.-.+--+..+
T Consensus 25 gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~ 54 (271)
T cd01122 25 KGLRKGELIILTAGTGVGKTTFLREYALDL 54 (271)
T ss_pred EEEcCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence 456677889999999999998554433333
No 328
>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=63.06 E-value=6.8 Score=41.79 Aligned_cols=48 Identities=19% Similarity=0.269 Sum_probs=40.6
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHH
Q 001656 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 1 m~~~~i~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~ 52 (1036)
|+..++.++..+|+=.| +...+.|--.+..|..+++=+|.|+|||--+
T Consensus 1 M~~l~~~~~sl~y~g~~----~~~le~vsL~ia~ge~vv~lGpSGcGKTTLL 48 (259)
T COG4525 1 MCMLNVSHLSLSYEGKP----RSALEDVSLTIASGELVVVLGPSGCGKTTLL 48 (259)
T ss_pred CceeehhheEEecCCcc----hhhhhccceeecCCCEEEEEcCCCccHHHHH
Confidence 88999999999998777 4556667777889999999999999999743
No 329
>PRK13342 recombination factor protein RarA; Reviewed
Probab=62.81 E-value=6.2 Score=46.88 Aligned_cols=35 Identities=23% Similarity=0.210 Sum_probs=28.4
Q ss_pred CHHHHHHHHH---HHHHHHcCC--ceEEeccCCCChhHHH
Q 001656 18 YDCQLVYMEK---VIQSLQNKC--NALLESPTGTGKTLCL 52 (1036)
Q Consensus 18 y~~Q~e~m~~---V~~aL~~~k--~~llEAPTGTGKTLa~ 52 (1036)
.-+|..++.. +...++++. +++|-+|+|||||...
T Consensus 14 ~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA 53 (413)
T PRK13342 14 VVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLA 53 (413)
T ss_pred hcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHH
Confidence 4478888766 888888774 6999999999999743
No 330
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=62.51 E-value=9.9 Score=46.41 Aligned_cols=29 Identities=31% Similarity=0.511 Sum_probs=21.1
Q ss_pred HHHHHH-HHHcCCceEEeccCCCChhHHHH
Q 001656 25 MEKVIQ-SLQNKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 25 m~~V~~-aL~~~k~~llEAPTGTGKTLa~L 53 (1036)
+++++. -+-.|...++.+++|||||.-.+
T Consensus 20 LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~ 49 (509)
T PRK09302 20 FDDITHGGLPKGRPTLVSGTAGTGKTLFAL 49 (509)
T ss_pred HHHhhcCCCCCCcEEEEEeCCCCCHHHHHH
Confidence 344432 45567889999999999999544
No 331
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.43 E-value=8.4 Score=47.03 Aligned_cols=37 Identities=27% Similarity=0.232 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHcCCc--e-EEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCN--A-LLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~--~-llEAPTGTGKTLa~L~~ 55 (1036)
-+|......+..++..++. + |+.+|.|||||....+-
T Consensus 17 vGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~l 56 (504)
T PRK14963 17 VGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLI 56 (504)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 3899999999999998854 4 99999999999876543
No 332
>cd07357 HN_L-whirlin_R2_like Second harmonin_N_like domain (repeat 2) of the long isoform of whirlin, and related domains. This subgroup contains the second of two harmonin_N_like domains found in the long isoform of whirlin, and related domains. Whirlin is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein which binds various components of the Usher protein network of the inner ear and the retina: erythrocyte protein p55, usherin, VlGR1, and myosin XVa. The long isoform of whirlin contains two harmonin_N_like domains, and three PDZ protein-binding domains, PDZ1-3. The short whirlin isoform, derived from an alternative start ATG, lacks the first harmonin_N_like domain but has in common with the long isoform, this second harmonin_N_like domain (designated repeat 2, included in this subgroup) and PDZ3. This second harmonin_N_like domain is a putative protein-binding module based on its sequence similarity to the harmonin N-domain.
Probab=62.34 E-value=13 Score=33.62 Aligned_cols=70 Identities=13% Similarity=0.296 Sum_probs=65.8
Q ss_pred HHHHHHhhCHHHHHHHHHHHHHHhhhhhchHHHHHHHHHhhcCCCChhhhhcccccccCCcchhHHHHhh
Q 001656 964 LIQVQEKLSATEYKEFVGFMKAMKSKAMKISHVLQSIAKLFAGPERLPLLRRFKDYVPAKYHPLYEQYLM 1033 (1036)
Q Consensus 964 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1033 (1036)
-.|+|.=||..|..-.--|.+--.+..|.+.....+.-.||.-|+++-||.--|.+|...-++-|..+|-
T Consensus 9 ee~Ar~lL~e~E~~tm~yyl~eY~~~~~tVealV~aL~elLnt~~K~sLLsEiR~lI~p~Dl~RFD~LVl 78 (81)
T cd07357 9 EEQARHLLSENERATLSYYLDEYRSGHISVDALVMALFELLNTHEKFSLLSEIRELISPQDLDRFDDLVL 78 (81)
T ss_pred HHHHHHHcCHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhccHHHHHHHHHHHHhcChhhhhHHHHHHH
Confidence 3588999999999999999999999999999999999999999999999999999999999998888874
No 333
>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=62.31 E-value=14 Score=39.33 Aligned_cols=21 Identities=48% Similarity=0.534 Sum_probs=16.0
Q ss_pred ceEEeccCCCChhHHHHHHHHHH
Q 001656 37 NALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 37 ~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
.+++=+|||+|||-.+ +=|++
T Consensus 3 vi~lvGptGvGKTTt~--aKLAa 23 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTI--AKLAA 23 (196)
T ss_dssp EEEEEESTTSSHHHHH--HHHHH
T ss_pred EEEEECCCCCchHhHH--HHHHH
Confidence 5788999999999955 34443
No 334
>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=62.21 E-value=6 Score=44.61 Aligned_cols=17 Identities=29% Similarity=0.341 Sum_probs=14.9
Q ss_pred CceEEeccCCCChhHHH
Q 001656 36 CNALLESPTGTGKTLCL 52 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~ 52 (1036)
.++++.+|+|||||...
T Consensus 59 ~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVA 75 (284)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 47999999999999754
No 335
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.78 E-value=8.2 Score=48.27 Aligned_cols=37 Identities=19% Similarity=0.161 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHcCC--c-eEEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L~~ 55 (1036)
-+|......+..++.+++ | .|+.+|.|+|||....+-
T Consensus 19 vGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~l 58 (620)
T PRK14954 19 TAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVF 58 (620)
T ss_pred cCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHH
Confidence 489999999999999873 3 789999999999866543
No 336
>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=61.69 E-value=19 Score=38.99 Aligned_cols=53 Identities=26% Similarity=0.443 Sum_probs=36.4
Q ss_pred CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELK 115 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ELr 115 (1036)
..+++|++-|||||. ||--++|.--.. .-+|.|.| |..-..-++....
T Consensus 29 sL~lIEGd~~tGKSv--Lsqr~~YG~L~~-----------------------------g~~v~yvs-Te~T~refi~qm~ 76 (235)
T COG2874 29 SLILIEGDNGTGKSV--LSQRFAYGFLMN-----------------------------GYRVTYVS-TELTVREFIKQME 76 (235)
T ss_pred eEEEEECCCCccHHH--HHHHHHHHHHhC-----------------------------CceEEEEE-echhHHHHHHHHH
Confidence 558999999999998 888888864322 13566665 4444566666666
Q ss_pred hcCCC
Q 001656 116 TSNYR 120 (1036)
Q Consensus 116 kl~~~ 120 (1036)
.++|.
T Consensus 77 sl~yd 81 (235)
T COG2874 77 SLSYD 81 (235)
T ss_pred hcCCC
Confidence 66653
No 337
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=61.54 E-value=46 Score=39.95 Aligned_cols=84 Identities=17% Similarity=0.211 Sum_probs=57.3
Q ss_pred CeEEEEccCCCChHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHHH-
Q 001656 436 GSIILTSGTLSPMDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIARI- 514 (1036)
Q Consensus 436 ~svIltSgTLsp~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~~- 514 (1036)
-.+|.|||||. .+-|++-+|=.+.+.+.+.|++. +++.+. -..+|.+...+++.++...
T Consensus 192 Lk~vvmSatl~-a~Kfq~yf~n~Pll~vpg~~PvE-----i~Yt~e--------------~erDylEaairtV~qih~~e 251 (699)
T KOG0925|consen 192 LKLVVMSATLD-AEKFQRYFGNAPLLAVPGTHPVE-----IFYTPE--------------PERDYLEAAIRTVLQIHMCE 251 (699)
T ss_pred ceEEEeecccc-hHHHHHHhCCCCeeecCCCCceE-----EEecCC--------------CChhHHHHHHHHHHHHHhcc
Confidence 38999999995 45566666643333444434332 222221 2357888888888888764
Q ss_pred cCCcEEEEecCHHHHHHHHHHHhhc
Q 001656 515 VPDGLLIFFPSYYLMDQCIACWKNT 539 (1036)
Q Consensus 515 vpggvLVfFpSy~~l~~v~~~~~~~ 539 (1036)
-||-+|||.|+-+.++.+.+.+...
T Consensus 252 e~GDilvFLtgeeeIe~aC~~i~re 276 (699)
T KOG0925|consen 252 EPGDILVFLTGEEEIEDACRKISRE 276 (699)
T ss_pred CCCCEEEEecCHHHHHHHHHHHHHH
Confidence 4899999999999999998888743
No 338
>CHL00095 clpC Clp protease ATP binding subunit
Probab=61.29 E-value=7.4 Score=50.43 Aligned_cols=39 Identities=31% Similarity=0.279 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHcC--------C---ceEEeccCCCChhHHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK--------C---NALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~--------k---~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
-+|.+.+..|.+++... + ..++-+|||+|||. |+-+|+.
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 48999999999999743 1 36899999999996 5556653
No 339
>PRK10865 protein disaggregation chaperone; Provisional
Probab=61.05 E-value=6.7 Score=51.03 Aligned_cols=38 Identities=34% Similarity=0.402 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHcC-----------CceEEeccCCCChhHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~-----------k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
-+|...+..|.+++... ..+++.+|||||||.. +-+|+
T Consensus 571 iGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~l--A~aLa 619 (857)
T PRK10865 571 IGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTEL--CKALA 619 (857)
T ss_pred eCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHH--HHHHH
Confidence 48999999999998742 2589999999999994 34454
No 340
>KOG4284 consensus DEAD box protein [Transcription]
Probab=60.98 E-value=12 Score=45.99 Aligned_cols=80 Identities=19% Similarity=0.186 Sum_probs=53.1
Q ss_pred ecCCCCCCHHHHHHHHHHHHHHHcC-------------------CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCc
Q 001656 11 VEFPFEAYDCQLVYMEKVIQSLQNK-------------------CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGS 71 (1036)
Q Consensus 11 v~FPfepy~~Q~e~m~~V~~aL~~~-------------------k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~ 71 (1036)
|--.=.|-..|..+-..|+..|+.. =-+|+.|-.|||||+.|-+.|+.-...
T Consensus 19 V~~~~~~~fe~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~--------- 89 (980)
T KOG4284|consen 19 VQSNCTPGFEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDS--------- 89 (980)
T ss_pred cccCCCCCHHHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCc---------
Confidence 3333345567888888888777733 248999999999999887666532111
Q ss_pred cccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHHHhcC
Q 001656 72 QVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELKTSN 118 (1036)
Q Consensus 72 ~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ELrkl~ 118 (1036)
...-+.+++.+.|....-|+-.-++++.
T Consensus 90 -------------------~~~~~q~~Iv~PTREiaVQI~~tv~~v~ 117 (980)
T KOG4284|consen 90 -------------------RSSHIQKVIVTPTREIAVQIKETVRKVA 117 (980)
T ss_pred -------------------ccCcceeEEEecchhhhhHHHHHHHHhc
Confidence 1133678888888777777666566543
No 341
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=60.87 E-value=9.1 Score=47.02 Aligned_cols=36 Identities=22% Similarity=0.220 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHcCC--ce-EEeccCCCChhHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC--NA-LLESPTGTGKTLCLLC 54 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k--~~-llEAPTGTGKTLa~L~ 54 (1036)
-+|......+..++..++ |+ |+.+|.|+|||....+
T Consensus 19 vGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~ 57 (527)
T PRK14969 19 VGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARI 57 (527)
T ss_pred cCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHH
Confidence 389999999999999874 44 8999999999985544
No 342
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=60.67 E-value=9.9 Score=48.63 Aligned_cols=42 Identities=31% Similarity=0.348 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHH
Q 001656 16 EAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+|--+|.+.+..+++.|..+ .+.+|-+|+|||||. |+-+|+.
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 45557888888899888765 789999999999999 4555554
No 343
>PRK06893 DNA replication initiation factor; Validated
Probab=60.65 E-value=18 Score=39.26 Aligned_cols=29 Identities=10% Similarity=0.158 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHcC--CceEEeccCCCChhH
Q 001656 22 LVYMEKVIQSLQNK--CNALLESPTGTGKTL 50 (1036)
Q Consensus 22 ~e~m~~V~~aL~~~--k~~llEAPTGTGKTL 50 (1036)
..++..+.+.+... ..+++-+|+|||||.
T Consensus 24 ~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTh 54 (229)
T PRK06893 24 LLLLDSLRKNFIDLQQPFFYIWGGKSSGKSH 54 (229)
T ss_pred HHHHHHHHHHhhccCCCeEEEECCCCCCHHH
Confidence 34455555555433 236899999999998
No 344
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=60.51 E-value=17 Score=46.17 Aligned_cols=55 Identities=16% Similarity=0.124 Sum_probs=37.8
Q ss_pred CCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQEL 114 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~EL 114 (1036)
..+++|-|+.|||||..+..- ++|.-.... -+..+|+..|=|......+-+.+
T Consensus 15 ~g~~lV~AgpGSGKT~vL~~R-ia~Li~~~~--------------------------v~p~~IL~lTFT~kAA~em~~Rl 67 (672)
T PRK10919 15 TGPCLVLAGAGSGKTRVITNK-IAHLIRGCG--------------------------YQARHIAAVTFTNKAAREMKERV 67 (672)
T ss_pred CCCEEEEecCCCCHHHHHHHH-HHHHHHhcC--------------------------CCHHHeeeEechHHHHHHHHHHH
Confidence 578899999999999986544 666543211 02247999999988877655555
Q ss_pred Hh
Q 001656 115 KT 116 (1036)
Q Consensus 115 rk 116 (1036)
.+
T Consensus 68 ~~ 69 (672)
T PRK10919 68 AQ 69 (672)
T ss_pred HH
Confidence 43
No 345
>PRK05642 DNA replication initiation factor; Validated
Probab=60.25 E-value=17 Score=39.76 Aligned_cols=22 Identities=18% Similarity=0.196 Sum_probs=16.9
Q ss_pred CceEEeccCCCChhHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
.+++|-+|+|+|||- |+-++++
T Consensus 46 ~~l~l~G~~G~GKTH--Ll~a~~~ 67 (234)
T PRK05642 46 SLIYLWGKDGVGRSH--LLQAACL 67 (234)
T ss_pred CeEEEECCCCCCHHH--HHHHHHH
Confidence 468999999999998 4444543
No 346
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=60.13 E-value=11 Score=48.46 Aligned_cols=39 Identities=13% Similarity=0.171 Sum_probs=26.4
Q ss_pred CCHHHH-HHHHHHHHHHHcCC--c-eEEeccCCCChhHHHHHH
Q 001656 17 AYDCQL-VYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 17 py~~Q~-e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L~~ 55 (1036)
-|+.|. +++..+..++.++. + ++|-+|||||||++....
T Consensus 759 hREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~V 801 (1164)
T PTZ00112 759 CREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSV 801 (1164)
T ss_pred ChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHH
Confidence 366444 45555666676432 3 459999999999988654
No 347
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=60.11 E-value=14 Score=40.42 Aligned_cols=42 Identities=21% Similarity=0.263 Sum_probs=27.2
Q ss_pred CCCCHHHHHHHHHHHH---HHHc-C---CceEEeccCCCChhHHHHHHHHH
Q 001656 15 FEAYDCQLVYMEKVIQ---SLQN-K---CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~---aL~~-~---k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
++-|-+|.++.....- +... + .++++-+|+|+|||- |+-.++
T Consensus 23 L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTT--LA~IIA 71 (233)
T PF05496_consen 23 LDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTT--LARIIA 71 (233)
T ss_dssp CCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHH--HHHHHH
T ss_pred HHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhH--HHHHHH
Confidence 4567799999887543 3332 2 479999999999987 444443
No 348
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=60.10 E-value=37 Score=39.17 Aligned_cols=46 Identities=22% Similarity=0.219 Sum_probs=38.8
Q ss_pred CHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhc
Q 001656 18 YDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLG 64 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~ 64 (1036)
-++|+...+.+.+.+++.+..++-|=||.|||=- +..+++.+...+
T Consensus 99 s~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEM-if~~i~~al~~G 144 (441)
T COG4098 99 SPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEM-IFQGIEQALNQG 144 (441)
T ss_pred ChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhh-hHHHHHHHHhcC
Confidence 3799999999999999999999999999999974 446676665443
No 349
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=60.04 E-value=8.9 Score=47.74 Aligned_cols=37 Identities=19% Similarity=0.152 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHcCCc---eEEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~---~llEAPTGTGKTLa~L~~ 55 (1036)
-+|......+..++.+++. .||.+|.|+|||....+-
T Consensus 19 iGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~l 58 (585)
T PRK14950 19 VGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARIL 58 (585)
T ss_pred cCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHH
Confidence 4899999999999998743 489999999999876543
No 350
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=59.87 E-value=10 Score=46.64 Aligned_cols=36 Identities=19% Similarity=0.190 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHcCCc---eEEeccCCCChhHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLLC 54 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~---~llEAPTGTGKTLa~L~ 54 (1036)
-+|......+..++..++. .|+.+|.|+|||....+
T Consensus 19 iGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~ 57 (546)
T PRK14957 19 AGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRL 57 (546)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 4899999999999998744 68999999999985543
No 351
>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=59.85 E-value=11 Score=45.90 Aligned_cols=22 Identities=50% Similarity=0.640 Sum_probs=18.5
Q ss_pred CceEEeccCCCChhHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+.++|.+|+|||||+ |+-+++.
T Consensus 89 ~giLL~GppGtGKT~--la~alA~ 110 (495)
T TIGR01241 89 KGVLLVGPPGTGKTL--LAKAVAG 110 (495)
T ss_pred CcEEEECCCCCCHHH--HHHHHHH
Confidence 469999999999999 6677764
No 352
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.80 E-value=32 Score=41.65 Aligned_cols=95 Identities=17% Similarity=0.209 Sum_probs=69.0
Q ss_pred HHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCC
Q 001656 503 ELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTS 582 (1036)
Q Consensus 503 ~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~ 582 (1036)
-+...+-.+...+..|+||+.|||...=++.+++++.... |-.|+... .....+.+.+-|..
T Consensus 539 Fv~~ImPq~~k~t~s~~LiyIPSYfDFVRvRNy~K~e~i~-----F~~i~EYs-------sk~~vsRAR~lF~q------ 600 (698)
T KOG2340|consen 539 FVDKIMPQLIKRTESGILIYIPSYFDFVRVRNYMKKEEIS-----FVMINEYS-------SKSKVSRARELFFQ------ 600 (698)
T ss_pred HHHhhchhhcccccCceEEEecchhhHHHHHHHhhhhhcc-----hHHHhhhh-------hHhhhhHHHHHHHh------
Confidence 3556677777777889999999999999999999875321 33343321 11224445555554
Q ss_pred CCCeEEEEEccCCccccccCCCCCceEEEEeCCCC
Q 001656 583 TSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 583 ~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
++..||+-+-|.-|..--+++| .|.||..++|-
T Consensus 601 gr~~vlLyTER~hffrR~~ikG--Vk~vVfYqpP~ 633 (698)
T KOG2340|consen 601 GRKSVLLYTERAHFFRRYHIKG--VKNVVFYQPPN 633 (698)
T ss_pred cCceEEEEehhhhhhhhheecc--eeeEEEecCCC
Confidence 5678888888999999999998 79999998764
No 353
>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=59.67 E-value=13 Score=45.12 Aligned_cols=22 Identities=36% Similarity=0.406 Sum_probs=17.5
Q ss_pred HHcCCceEEeccCCCChhHHHH
Q 001656 32 LQNKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 32 L~~~k~~llEAPTGTGKTLa~L 53 (1036)
+-.|...++.+|+|||||.-.|
T Consensus 260 ~~~gs~~li~G~~G~GKt~l~~ 281 (484)
T TIGR02655 260 FFKDSIILATGATGTGKTLLVS 281 (484)
T ss_pred ccCCcEEEEECCCCCCHHHHHH
Confidence 3455779999999999999443
No 354
>CHL00176 ftsH cell division protein; Validated
Probab=59.56 E-value=11 Score=47.45 Aligned_cols=40 Identities=35% Similarity=0.429 Sum_probs=29.0
Q ss_pred CHHHHHHHHHHHHHHHcC-----------CceEEeccCCCChhHHHHHHHHHH
Q 001656 18 YDCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~-----------k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
.+.+++-+..+.+.++.. +.++|.+|+|||||+ |+-+++.
T Consensus 188 ~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~--LAralA~ 238 (638)
T CHL00176 188 IEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTL--LAKAIAG 238 (638)
T ss_pred hHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHH--HHHHHHH
Confidence 455666666666666643 359999999999999 6667754
No 355
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=59.48 E-value=32 Score=40.84 Aligned_cols=35 Identities=14% Similarity=0.115 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHc-----CCceEEeccCCCChhHHHHHHHHHH
Q 001656 23 VYMEKVIQSLQN-----KCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 23 e~m~~V~~aL~~-----~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+++..+..++.+ ...++|-+|+|.|||- |+-|+.+
T Consensus 96 ~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTH--Ll~Aign 135 (408)
T COG0593 96 RLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTH--LLQAIGN 135 (408)
T ss_pred HHHHHHHHHHHhccCCcCCcEEEECCCCCCHHH--HHHHHHH
Confidence 445555566655 4679999999999999 5555543
No 356
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=59.37 E-value=9.8 Score=47.42 Aligned_cols=37 Identities=16% Similarity=0.127 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHcCC---ceEEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k---~~llEAPTGTGKTLa~L~~ 55 (1036)
-+|..++..+..++..++ ..|+.+|.|+|||....+-
T Consensus 27 iGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~l 66 (598)
T PRK09111 27 IGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARIL 66 (598)
T ss_pred cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHH
Confidence 389999999999999984 4899999999999866544
No 357
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=59.26 E-value=21 Score=45.72 Aligned_cols=39 Identities=8% Similarity=-0.095 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHH--cCCcEEEEecCHHHHHHHHHHHhhc
Q 001656 501 KQELGNTIVNIARI--VPDGLLIFFPSYYLMDQCIACWKNT 539 (1036)
Q Consensus 501 ~~~l~~~I~~l~~~--vpggvLVfFpSy~~l~~v~~~~~~~ 539 (1036)
...+++.|.++... .++-+.|++.+......+...+...
T Consensus 330 a~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~~L~~~ 370 (721)
T PRK11773 330 ARFVVERIKTWQDNGGALSDCAILYRSNAQSRVLEEALLQA 370 (721)
T ss_pred HHHHHHHHHHHHHcCCCcccEEEEEecchhHHHHHHHHHHC
Confidence 45677778777653 3468999999998888888777654
No 358
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=59.10 E-value=54 Score=39.58 Aligned_cols=116 Identities=18% Similarity=0.174 Sum_probs=70.2
Q ss_pred HHHHHcC-CcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceec---CCCCCChHHHHHHHHHHhccCCCCC
Q 001656 510 NIARIVP-DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVE---PRQSSLFPLAIEDYMAKLKDTSTSG 585 (1036)
Q Consensus 510 ~l~~~vp-ggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E---~~~~~~~~~~i~~f~~~i~~~~~~g 585 (1036)
.++.... ..+|||..|-+...+....++-.. ++...-+-+ +-+.......++.|.. +.-
T Consensus 422 ~lI~~~k~~r~lcf~~S~~sa~Rl~~~L~v~~-----------~~~~~~~s~~t~~l~~k~r~k~l~~f~~------g~i 484 (620)
T KOG0350|consen 422 ALITSNKLNRTLCFVNSVSSANRLAHVLKVEF-----------CSDNFKVSEFTGQLNGKRRYKMLEKFAK------GDI 484 (620)
T ss_pred HHHHHhhcceEEEEecchHHHHHHHHHHHHHh-----------ccccchhhhhhhhhhHHHHHHHHHHHhc------CCc
Confidence 3444333 599999999999888877666210 111100111 1112223344555543 345
Q ss_pred eEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccchhhcccCCcccchHHHHHHHH
Q 001656 586 AVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKETKLSFLSGEDWYNQQASRAV 665 (1036)
Q Consensus 586 aVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~~~~~~l~g~~wy~~~A~r~v 665 (1036)
-||+|. .-++.|||+.|- .+||=.-.|- + .+..
T Consensus 485 ~vLIcS--D~laRGiDv~~v--~~VINYd~P~----~---------------------------------------~kty 517 (620)
T KOG0350|consen 485 NVLICS--DALARGIDVNDV--DNVINYDPPA----S---------------------------------------DKTY 517 (620)
T ss_pred eEEEeh--hhhhcCCccccc--ceEeecCCCc----h---------------------------------------hhHH
Confidence 667655 899999999993 4555433222 1 2334
Q ss_pred HHhhCCccccCCCcEEEEEEecCC
Q 001656 666 NQAVGRVIRHRHDYGAIIFCDERF 689 (1036)
Q Consensus 666 ~QaiGRlIR~~~D~G~viLlD~Rf 689 (1036)
..++||--|...|--++-|+|.+=
T Consensus 518 VHR~GRTARAgq~G~a~tll~~~~ 541 (620)
T KOG0350|consen 518 VHRAGRTARAGQDGYAITLLDKHE 541 (620)
T ss_pred HHhhcccccccCCceEEEeecccc
Confidence 467999999999988899998863
No 359
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=58.78 E-value=7.7 Score=49.07 Aligned_cols=29 Identities=34% Similarity=0.369 Sum_probs=22.5
Q ss_pred ceEEeccCCCChhHHHHHHHHHHHhhhcC
Q 001656 37 NALLESPTGTGKTLCLLCATLAWRKSLGS 65 (1036)
Q Consensus 37 ~~llEAPTGTGKTLa~L~~aLa~~~~~~~ 65 (1036)
++=++..||||||.|||=-..+-.+.++-
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLhk~YG~ 104 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELHKKYGL 104 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHHHHhCc
Confidence 46689999999999999776665555553
No 360
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=58.74 E-value=27 Score=46.02 Aligned_cols=33 Identities=18% Similarity=0.105 Sum_probs=25.2
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHH
Q 001656 16 EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLC 51 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa 51 (1036)
..-+.|++.+..| +..+..++|.++.|||||..
T Consensus 346 ~Ls~eQr~Av~~i---l~s~~v~vv~G~AGTGKTT~ 378 (988)
T PRK13889 346 VLSGEQADALAHV---TDGRDLGVVVGYAGTGKSAM 378 (988)
T ss_pred CCCHHHHHHHHHH---hcCCCeEEEEeCCCCCHHHH
Confidence 3457888865544 45456899999999999985
No 361
>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=58.58 E-value=9.1 Score=44.87 Aligned_cols=22 Identities=27% Similarity=0.451 Sum_probs=19.8
Q ss_pred ceEEeccCCCChhHHHHHHHHH
Q 001656 37 NALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 37 ~~llEAPTGTGKTLa~L~~aLa 58 (1036)
|+++-||||+|||.+++.|.|.
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll 22 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLL 22 (384)
T ss_pred CeeEecCCCCCCccEEEccchh
Confidence 6789999999999999988874
No 362
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=58.24 E-value=65 Score=37.89 Aligned_cols=70 Identities=23% Similarity=0.285 Sum_probs=43.9
Q ss_pred CCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhccCCCCCeEEEEEccCC
Q 001656 516 PDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKDTSTSGAVFFAVCRGK 595 (1036)
Q Consensus 516 pggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk 595 (1036)
.+.++||+.+..+.+.+.+.+--. +|... -+--.++..+.+..++.|+. ++=-||+|+ .-
T Consensus 465 ndKvIiFv~~K~~AD~LSSd~~l~------gi~~q------~lHG~r~Q~DrE~al~~~ks------G~vrILvaT--Dl 524 (629)
T KOG0336|consen 465 NDKVIIFVSRKVMADHLSSDFCLK------GISSQ------SLHGNREQSDREMALEDFKS------GEVRILVAT--DL 524 (629)
T ss_pred CceEEEEEechhhhhhccchhhhc------ccchh------hccCChhhhhHHHHHHhhhc------CceEEEEEe--ch
Confidence 468999998888766654433211 11000 01122333456778888885 455678777 89
Q ss_pred ccccccCCCC
Q 001656 596 VSEGLDFADH 605 (1036)
Q Consensus 596 ~sEGIDf~gd 605 (1036)
.|.|+|++|-
T Consensus 525 aSRGlDv~Di 534 (629)
T KOG0336|consen 525 ASRGLDVPDI 534 (629)
T ss_pred hhcCCCchhc
Confidence 9999999993
No 363
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=58.18 E-value=10 Score=48.92 Aligned_cols=35 Identities=23% Similarity=0.253 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHcC--Cce-EEeccCCCChhHHHHH
Q 001656 20 CQLVYMEKVIQSLQNK--CNA-LLESPTGTGKTLCLLC 54 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~--k~~-llEAPTGTGKTLa~L~ 54 (1036)
+|......+..++..+ .|+ ||.+|.|||||....+
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARi 57 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARL 57 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHH
Confidence 8999999999999987 445 8999999999986554
No 364
>PRK05580 primosome assembly protein PriA; Validated
Probab=58.11 E-value=19 Score=45.75 Aligned_cols=78 Identities=13% Similarity=0.245 Sum_probs=53.9
Q ss_pred ChHHHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHHccCCCCccch
Q 001656 566 LFPLAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQAQSQGGEYKE 645 (1036)
Q Consensus 566 ~~~~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~~~~~f~~~~~ 645 (1036)
+.+.++++|+. ++-.||+|+ --++.|+||++ ..+|+|+....+-- -|. |
T Consensus 468 ~~~~~l~~f~~------g~~~ILVgT--~~iakG~d~p~--v~lV~il~aD~~l~-~pd---------------f----- 516 (679)
T PRK05580 468 ALEQLLAQFAR------GEADILIGT--QMLAKGHDFPN--VTLVGVLDADLGLF-SPD---------------F----- 516 (679)
T ss_pred hHHHHHHHHhc------CCCCEEEEC--hhhccCCCCCC--cCEEEEEcCchhcc-CCc---------------c-----
Confidence 46677888874 467899998 57999999998 57788887544311 010 1
Q ss_pred hhcccCCcccchHHHHHHHHHHhhCCccccCCCcEEEEEE
Q 001656 646 TKLSFLSGEDWYNQQASRAVNQAVGRVIRHRHDYGAIIFC 685 (1036)
Q Consensus 646 ~~~~~l~g~~wy~~~A~r~v~QaiGRlIR~~~D~G~viLl 685 (1036)
+....++..+.|.+||.=|.. ..|.++|.
T Consensus 517 ----------ra~Er~~~~l~q~~GRagR~~-~~g~viiq 545 (679)
T PRK05580 517 ----------RASERTFQLLTQVAGRAGRAE-KPGEVLIQ 545 (679)
T ss_pred ----------chHHHHHHHHHHHHhhccCCC-CCCEEEEE
Confidence 123456888999999998854 44777665
No 365
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=58.04 E-value=46 Score=37.88 Aligned_cols=41 Identities=17% Similarity=0.191 Sum_probs=32.1
Q ss_pred CCCCHHHHHHHHHHHHHHHcCC--ce-EEeccCCCChhHHHHHH
Q 001656 15 FEAYDCQLVYMEKVIQSLQNKC--NA-LLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~k--~~-llEAPTGTGKTLa~L~~ 55 (1036)
|..--+|....+.+..++..++ |+ ++.+|-|+|||.....-
T Consensus 3 ~~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~ 46 (313)
T PRK05564 3 FHTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEI 46 (313)
T ss_pred hhhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHH
Confidence 3334479999999999998873 44 89999999999866544
No 366
>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=57.89 E-value=11 Score=43.28 Aligned_cols=35 Identities=26% Similarity=0.263 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHcCC---ceEEeccCCCChhHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLL 53 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k---~~llEAPTGTGKTLa~L 53 (1036)
-+|.+..+.+.+++.+|+ ..++.+|.|+|||....
T Consensus 17 ig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~ 54 (355)
T TIGR02397 17 IGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIAR 54 (355)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 489999999999999885 36899999999997554
No 367
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=57.83 E-value=12 Score=43.57 Aligned_cols=34 Identities=21% Similarity=0.205 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHcCC---ceEEeccCCCChhHHHH
Q 001656 20 CQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLL 53 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~k---~~llEAPTGTGKTLa~L 53 (1036)
+|.+....+..++.+|+ ..++.+|+|+|||....
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 89999999999999996 49999999999997544
No 368
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=57.73 E-value=35 Score=41.40 Aligned_cols=105 Identities=14% Similarity=0.198 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHHHcCC-cEEEEecCHHHHHHHHHHHhhcCCC----C-----chhHHHHHhhcCCceecCCCC---CChH
Q 001656 502 QELGNTIVNIARIVPD-GLLIFFPSYYLMDQCIACWKNTSHG----N-----LTTIWERICKHKKPVVEPRQS---SLFP 568 (1036)
Q Consensus 502 ~~l~~~I~~l~~~vpg-gvLVfFpSy~~l~~v~~~~~~~~~~----~-----~~~i~~~i~~~K~v~~E~~~~---~~~~ 568 (1036)
-.|+..|.+.++.-+. .++|||.+-+..+-=++.+...... . ..+... +...-+ |+.=-.+ .+..
T Consensus 410 V~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~-l~~~~k-~~rLHGsm~QeeRt 487 (708)
T KOG0348|consen 410 VALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPP-LFMDLK-FYRLHGSMEQEERT 487 (708)
T ss_pred HHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChh-hhhcce-EEEecCchhHHHHH
Confidence 4678888888876554 8999999988887777666543111 0 001100 111111 2211111 2344
Q ss_pred HHHHHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeCCCCC
Q 001656 569 LAIEDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITGMPFA 618 (1036)
Q Consensus 569 ~~i~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvGLPfp 618 (1036)
.++..|.. .+.+||||+ .-.+.|+|||+ .++||=.--||.
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 56677765 467899987 88999999998 577887777774
No 369
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=57.71 E-value=12 Score=42.94 Aligned_cols=38 Identities=26% Similarity=0.318 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+.-.++.+.+..+...+.+++|.+++||||+. +..++.
T Consensus 13 ~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~--lA~~iH 50 (326)
T PRK11608 13 NSFLEVLEQVSRLAPLDKPVLIIGERGTGKEL--IASRLH 50 (326)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECCCCCcHHH--HHHHHH
Confidence 34556677777777888999999999999998 444443
No 370
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=57.69 E-value=7.1 Score=49.30 Aligned_cols=17 Identities=53% Similarity=0.679 Sum_probs=14.7
Q ss_pred CceEEeccCCCChhHHH
Q 001656 36 CNALLESPTGTGKTLCL 52 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~ 52 (1036)
+-+||.+|.||||||-+
T Consensus 345 kGvLL~GPPGTGKTLLA 361 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTLLA 361 (774)
T ss_pred CceEEECCCCCcHHHHH
Confidence 55999999999999943
No 371
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=57.60 E-value=37 Score=40.78 Aligned_cols=22 Identities=23% Similarity=0.247 Sum_probs=17.1
Q ss_pred CceEEeccCCCChhHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
.++++-+|+|+|||. |+-+++.
T Consensus 131 n~l~lyG~~G~GKTH--Ll~ai~~ 152 (440)
T PRK14088 131 NPLFIYGGVGLGKTH--LLQSIGN 152 (440)
T ss_pred CeEEEEcCCCCcHHH--HHHHHHH
Confidence 469999999999998 5445543
No 372
>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=57.52 E-value=7.6 Score=42.99 Aligned_cols=17 Identities=29% Similarity=0.462 Sum_probs=14.7
Q ss_pred CceEEeccCCCChhHHH
Q 001656 36 CNALLESPTGTGKTLCL 52 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~ 52 (1036)
.++++.+|+|||||...
T Consensus 43 ~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVA 59 (261)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 57899999999999844
No 373
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=57.50 E-value=32 Score=41.31 Aligned_cols=22 Identities=23% Similarity=0.225 Sum_probs=17.1
Q ss_pred CceEEeccCCCChhHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
..+++-+|+|+|||. |+-+++.
T Consensus 149 ~~l~l~G~~G~GKTh--L~~ai~~ 170 (450)
T PRK00149 149 NPLFIYGGVGLGKTH--LLHAIGN 170 (450)
T ss_pred CeEEEECCCCCCHHH--HHHHHHH
Confidence 458999999999998 5455543
No 374
>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=57.43 E-value=22 Score=48.33 Aligned_cols=36 Identities=25% Similarity=0.233 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
+.|.+.+. ..++++++.|+-|||||..+..-++...
T Consensus 4 ~~Q~~ai~------~~~~~~lv~A~AGsGKT~~lv~r~~~~~ 39 (1232)
T TIGR02785 4 DEQWQAIY------TRGQNILVSASAGSGKTAVLVERIIKKI 39 (1232)
T ss_pred HHHHHHHh------CCCCCEEEEecCCCcHHHHHHHHHHHHH
Confidence 56776554 3678999999999999998877666543
No 375
>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=57.25 E-value=15 Score=44.64 Aligned_cols=22 Identities=36% Similarity=0.493 Sum_probs=17.8
Q ss_pred HHcCCceEEeccCCCChhHHHH
Q 001656 32 LQNKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 32 L~~~k~~llEAPTGTGKTLa~L 53 (1036)
|-.|...+|.+|+|||||.-.+
T Consensus 18 lp~g~~~Li~G~pGsGKT~la~ 39 (484)
T TIGR02655 18 LPIGRSTLVSGTSGTGKTLFSI 39 (484)
T ss_pred CCCCeEEEEEcCCCCCHHHHHH
Confidence 4456889999999999999444
No 376
>PRK08084 DNA replication initiation factor; Provisional
Probab=57.09 E-value=24 Score=38.57 Aligned_cols=31 Identities=16% Similarity=0.171 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHc--CCceEEeccCCCChhH
Q 001656 20 CQLVYMEKVIQSLQN--KCNALLESPTGTGKTL 50 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~--~k~~llEAPTGTGKTL 50 (1036)
.+......+.+.... +.++++-+|+|+|||-
T Consensus 28 ~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKTh 60 (235)
T PRK08084 28 DNDSLLAALQNALRQEHSGYIYLWSREGAGRSH 60 (235)
T ss_pred ccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHH
Confidence 345555555444432 3679999999999997
No 377
>CHL00195 ycf46 Ycf46; Provisional
Probab=57.01 E-value=15 Score=44.75 Aligned_cols=22 Identities=36% Similarity=0.400 Sum_probs=18.4
Q ss_pred CceEEeccCCCChhHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+.++|-+|+|||||+ |+-+++.
T Consensus 260 kGILL~GPpGTGKTl--lAkaiA~ 281 (489)
T CHL00195 260 RGLLLVGIQGTGKSL--TAKAIAN 281 (489)
T ss_pred ceEEEECCCCCcHHH--HHHHHHH
Confidence 669999999999998 6667764
No 378
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=56.46 E-value=39 Score=40.68 Aligned_cols=88 Identities=16% Similarity=0.156 Sum_probs=59.9
Q ss_pred HHHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCcee-cCCCCCChHHHHHHHHHHhc
Q 001656 501 KQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVV-EPRQSSLFPLAIEDYMAKLK 579 (1036)
Q Consensus 501 ~~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~-E~~~~~~~~~~i~~f~~~i~ 579 (1036)
+..+...|...+ ..|.+|+|.+-....+.+...++-..++ ...+ ...+-.+.++.+.+|++
T Consensus 455 l~wl~~~L~~f~--S~gkvlifVTKk~~~e~i~a~Lklk~~~-------------v~llhgdkdqa~rn~~ls~fKk--- 516 (731)
T KOG0339|consen 455 LNWLLRHLVEFS--SEGKVLIFVTKKADAEEIAANLKLKGFN-------------VSLLHGDKDQAERNEVLSKFKK--- 516 (731)
T ss_pred HHHHHHHhhhhc--cCCcEEEEEeccCCHHHHHHHhccccce-------------eeeecCchhhHHHHHHHHHHhh---
Confidence 455555554444 3589999999999999998877644321 1111 22334567788999996
Q ss_pred cCCCCCeEEEEEccCCccccccCCCCCceEEEEe
Q 001656 580 DTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVIT 613 (1036)
Q Consensus 580 ~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIv 613 (1036)
...-||+++ .--..|+|++ ..+.||..
T Consensus 517 ---k~~~Vlvat--DvaargldI~--~ikTVvny 543 (731)
T KOG0339|consen 517 ---KRKPVLVAT--DVAARGLDIP--SIKTVVNY 543 (731)
T ss_pred ---cCCceEEEe--eHhhcCCCcc--ccceeecc
Confidence 457889888 6778999999 46777643
No 379
>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional
Probab=56.34 E-value=3.9 Score=44.79 Aligned_cols=50 Identities=24% Similarity=0.381 Sum_probs=38.1
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 1 m~~~~i~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
||.+.+.++.+.|+= . ...+.|-=.+..|+.+.|-+|.|+|||. |+-+|+
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 888999999988751 1 2344555566789999999999999998 555564
No 380
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.22 E-value=12 Score=47.03 Aligned_cols=37 Identities=19% Similarity=0.095 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHcCC--c-eEEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L~~ 55 (1036)
-+|......+..++.+++ + .|+.+|.|+|||....+-
T Consensus 18 IGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriL 57 (702)
T PRK14960 18 VGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARIL 57 (702)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 389999999999999884 3 499999999999866543
No 381
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=56.19 E-value=22 Score=45.44 Aligned_cols=39 Identities=10% Similarity=-0.032 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHH--cCCcEEEEecCHHHHHHHHHHHhhc
Q 001656 501 KQELGNTIVNIARI--VPDGLLIFFPSYYLMDQCIACWKNT 539 (1036)
Q Consensus 501 ~~~l~~~I~~l~~~--vpggvLVfFpSy~~l~~v~~~~~~~ 539 (1036)
.+.+++.|.++.+. .++-+.|++-+......+...+...
T Consensus 325 a~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~~L~~~ 365 (715)
T TIGR01075 325 ARFVVSRIKTWQRNGGALDECAVLYRSNAQSRVLEEALLQA 365 (715)
T ss_pred HHHHHHHHHHHHHcCCCccCEEEEEecCchHHHHHHHHHHc
Confidence 35677778777653 3467899999988888887777654
No 382
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=55.95 E-value=46 Score=38.39 Aligned_cols=40 Identities=20% Similarity=0.229 Sum_probs=26.9
Q ss_pred CHHHHHHHHHHHHHHHcCCc-eEEeccCCCChhHHHHHHHH
Q 001656 18 YDCQLVYMEKVIQSLQNKCN-ALLESPTGTGKTLCLLCATL 57 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k~-~llEAPTGTGKTLa~L~~aL 57 (1036)
||.|...-..+.....+--| .++.+|.|+|||.....-|-
T Consensus 3 yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~~a~ 43 (325)
T PRK08699 3 YPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARFAAQ 43 (325)
T ss_pred CCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHHHHH
Confidence 66666666666666333344 77999999999986654443
No 383
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=55.93 E-value=12 Score=46.47 Aligned_cols=38 Identities=18% Similarity=0.214 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHcC--C-ceEEeccCCCChhHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK--C-NALLESPTGTGKTLCLLCAT 56 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~--k-~~llEAPTGTGKTLa~L~~a 56 (1036)
-+|......+..++..+ . ..|+.+|.|+|||..+.+-|
T Consensus 19 IGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lA 59 (605)
T PRK05896 19 IGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFA 59 (605)
T ss_pred cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHH
Confidence 49999999999999886 2 36799999999998766443
No 384
>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=55.91 E-value=16 Score=36.00 Aligned_cols=18 Identities=22% Similarity=0.281 Sum_probs=14.3
Q ss_pred CCCcEEEEeCccChHHHH
Q 001656 233 WKNSILIFDEAHNLEGIC 250 (1036)
Q Consensus 233 ~~~~IlIfDEAHNLed~~ 250 (1036)
.+..++|+||.+.+.+..
T Consensus 84 ~~~~~lviDe~~~~~~~~ 101 (165)
T cd01120 84 GGDDLIILDELTRLVRAL 101 (165)
T ss_pred CCCEEEEEEcHHHHHHHH
Confidence 456789999999987754
No 385
>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional
Probab=55.83 E-value=3.9 Score=44.79 Aligned_cols=50 Identities=18% Similarity=0.248 Sum_probs=38.1
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 1 m~~~~i~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
|+.+.+.++.+.|+= ....+.|-=.+..|+.+.|-+|.|+|||. |+-+|+
T Consensus 1 ~~~l~~~~l~~~~~~------~~~l~~i~~~i~~Ge~~~i~G~nGsGKST--Ll~~i~ 50 (250)
T PRK14262 1 EPIIEIENFSAYYGE------KKAVKNVTMKIFKNQITAIIGPSGCGKTT--LLRSIN 50 (250)
T ss_pred CceEEEEeeEEEeCC------ceeEeeeeEeecCCCEEEEECCCCCCHHH--HHHHHh
Confidence 777889999988861 12445555566789999999999999998 656664
No 386
>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=55.71 E-value=12 Score=43.18 Aligned_cols=34 Identities=29% Similarity=0.338 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 23 e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
++.+.+..+...+.+++|.+++||||++ +.-+|.
T Consensus 10 ~~~~~~~~~a~~~~pVLI~GE~GtGK~~--lAr~iH 43 (329)
T TIGR02974 10 EVLEQVSRLAPLDRPVLIIGERGTGKEL--IAARLH 43 (329)
T ss_pred HHHHHHHHHhCCCCCEEEECCCCChHHH--HHHHHH
Confidence 3455556666678999999999999998 444453
No 387
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=55.34 E-value=13 Score=46.64 Aligned_cols=37 Identities=24% Similarity=0.175 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHcCCc---eEEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~---~llEAPTGTGKTLa~L~~ 55 (1036)
.+|.+....+..++..++. .|+.+|.|||||....+-
T Consensus 19 iGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~l 58 (620)
T PRK14948 19 VGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARIL 58 (620)
T ss_pred cChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHH
Confidence 3899999999999998854 599999999999866543
No 388
>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=55.23 E-value=14 Score=47.60 Aligned_cols=39 Identities=26% Similarity=0.243 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHH--------cCCceEEeccCCCChhHHHHHHHHHHH
Q 001656 20 CQLVYMEKVIQSLQ--------NKCNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~--------~~k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
+|.+..+.|.+.+. .+.++++-+|+|||||. |+-+|+..
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 46666666666432 34679999999999997 55566543
No 389
>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=55.02 E-value=15 Score=44.95 Aligned_cols=22 Identities=41% Similarity=0.570 Sum_probs=18.0
Q ss_pred CceEEeccCCCChhHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+.++|-+|+|||||+ |+-+++.
T Consensus 217 ~GILLyGPPGTGKT~--LAKAlA~ 238 (512)
T TIGR03689 217 KGVLLYGPPGCGKTL--IAKAVAN 238 (512)
T ss_pred cceEEECCCCCcHHH--HHHHHHH
Confidence 679999999999999 5556654
No 390
>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=54.97 E-value=16 Score=42.30 Aligned_cols=28 Identities=21% Similarity=0.215 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHcCCceEEeccCCCChhH
Q 001656 23 VYMEKVIQSLQNKCNALLESPTGTGKTL 50 (1036)
Q Consensus 23 e~m~~V~~aL~~~k~~llEAPTGTGKTL 50 (1036)
+++.-+..+++.++++++-+|||+|||-
T Consensus 166 ~~~~~L~~~v~~~~~ili~G~tGsGKTT 193 (340)
T TIGR03819 166 GVARLLRAIVAARLAFLISGGTGSGKTT 193 (340)
T ss_pred HHHHHHHHHHhCCCeEEEECCCCCCHHH
Confidence 4455566677888999999999999987
No 391
>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=54.88 E-value=12 Score=41.44 Aligned_cols=23 Identities=17% Similarity=0.198 Sum_probs=18.1
Q ss_pred HHHcCCceEEeccCCCChhHHHH
Q 001656 31 SLQNKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 31 aL~~~k~~llEAPTGTGKTLa~L 53 (1036)
.|-.|...++.+|+|||||.-.+
T Consensus 32 Gip~gs~~lI~G~pGtGKT~l~~ 54 (259)
T TIGR03878 32 GIPAYSVINITGVSDTGKSLMVE 54 (259)
T ss_pred CeECCcEEEEEcCCCCCHHHHHH
Confidence 34456889999999999999443
No 392
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.88 E-value=14 Score=44.95 Aligned_cols=37 Identities=22% Similarity=0.241 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHcCC--ce-EEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC--NA-LLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k--~~-llEAPTGTGKTLa~L~~ 55 (1036)
-+|...+..+..++.+++ |+ ++.+|.|+|||....+-
T Consensus 19 iGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~l 58 (486)
T PRK14953 19 IGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARIL 58 (486)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 399999999999999874 43 78999999998865543
No 393
>PRK10436 hypothetical protein; Provisional
Probab=54.87 E-value=16 Score=44.14 Aligned_cols=27 Identities=33% Similarity=0.455 Sum_probs=21.3
Q ss_pred cCCceEEeccCCCChhHHHHHHHHHHHh
Q 001656 34 NKCNALLESPTGTGKTLCLLCATLAWRK 61 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~aLa~~~ 61 (1036)
.+..+++-+|||+|||-.+ .++|.+..
T Consensus 217 ~~GliLvtGpTGSGKTTtL-~a~l~~~~ 243 (462)
T PRK10436 217 PQGLILVTGPTGSGKTVTL-YSALQTLN 243 (462)
T ss_pred cCCeEEEECCCCCChHHHH-HHHHHhhC
Confidence 5578999999999999865 56676653
No 394
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=54.72 E-value=1.4e+02 Score=35.73 Aligned_cols=88 Identities=16% Similarity=0.203 Sum_probs=45.2
Q ss_pred cCCeEEEEccCCCC-hHHHHHHhCCCCCc--cccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHH
Q 001656 434 EVGSIILTSGTLSP-MDSFAQELKLNFPL--RVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVN 510 (1036)
Q Consensus 434 ~~~svIltSgTLsp-~~~f~~~LGl~~~~--~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~ 510 (1036)
.....+||||||+. +..+. .|=+..|+ .+..+....++|+.-+.|.. ...+.+.--++ +..
T Consensus 200 r~~Q~~LmSATl~dDv~~LK-kL~l~nPviLkl~e~el~~~dqL~Qy~v~c-------------se~DKflllya--llK 263 (569)
T KOG0346|consen 200 RIYQCFLMSATLSDDVQALK-KLFLHNPVILKLTEGELPNPDQLTQYQVKC-------------SEEDKFLLLYA--LLK 263 (569)
T ss_pred chhhheeehhhhhhHHHHHH-HHhccCCeEEEeccccCCCcccceEEEEEe-------------ccchhHHHHHH--HHH
Confidence 34577999999986 33333 33344343 33333322344433232321 12234433222 222
Q ss_pred HHHHcCCcEEEEecCHHHHHHHHHHHhh
Q 001656 511 IARIVPDGLLIFFPSYYLMDQCIACWKN 538 (1036)
Q Consensus 511 l~~~vpggvLVfFpSy~~l~~v~~~~~~ 538 (1036)
+ +.+.|.+|+|.++.+.--++.=.+..
T Consensus 264 L-~LI~gKsliFVNtIdr~YrLkLfLeq 290 (569)
T KOG0346|consen 264 L-RLIRGKSLIFVNTIDRCYRLKLFLEQ 290 (569)
T ss_pred H-HHhcCceEEEEechhhhHHHHHHHHH
Confidence 2 35679999999998776555544443
No 395
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=54.70 E-value=17 Score=44.34 Aligned_cols=22 Identities=36% Similarity=0.379 Sum_probs=17.2
Q ss_pred HHcCCceEEeccCCCChhHHHH
Q 001656 32 LQNKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 32 L~~~k~~llEAPTGTGKTLa~L 53 (1036)
+..|...++.+|+|+|||.-.+
T Consensus 270 ~~~g~~~li~G~~G~GKT~l~~ 291 (509)
T PRK09302 270 FFRGSIILVSGATGTGKTLLAS 291 (509)
T ss_pred CCCCcEEEEEcCCCCCHHHHHH
Confidence 3445778999999999999443
No 396
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=54.50 E-value=24 Score=37.87 Aligned_cols=24 Identities=25% Similarity=0.329 Sum_probs=18.6
Q ss_pred HHHcCCceEEeccCCCChhHHHHH
Q 001656 31 SLQNKCNALLESPTGTGKTLCLLC 54 (1036)
Q Consensus 31 aL~~~k~~llEAPTGTGKTLa~L~ 54 (1036)
.+..|...++.+|+|+|||.-.+-
T Consensus 19 Gi~~g~i~~i~G~~GsGKT~l~~~ 42 (225)
T PRK09361 19 GFERGTITQIYGPPGSGKTNICLQ 42 (225)
T ss_pred CCCCCeEEEEECCCCCCHHHHHHH
Confidence 344567899999999999985443
No 397
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=54.47 E-value=8.8 Score=44.72 Aligned_cols=45 Identities=24% Similarity=0.346 Sum_probs=26.8
Q ss_pred CHhhhhcc-CCCCCCcEEEEeCccChHHHHHhhcccccCHHHHHHHHHHH
Q 001656 222 DPWFRKGL-GVEWKNSILIFDEAHNLEGICADAASFDLSSGLLTACISEA 270 (1036)
Q Consensus 222 d~~ir~~l-~i~~~~~IlIfDEAHNLed~~~~a~S~~ls~~~L~~~i~el 270 (1036)
|...|..+ .+.+.. +..|+--|+++.++..-.+ |-.+|..+.+++
T Consensus 383 ~~~~R~~Li~~~l~~--~~~~~~~~~~~lae~~eGy--SGaDI~nvCreA 428 (491)
T KOG0738|consen 383 DAEARSALIKILLRS--VELDDPVNLEDLAERSEGY--SGADITNVCREA 428 (491)
T ss_pred CHHHHHHHHHHhhcc--ccCCCCccHHHHHHHhcCC--ChHHHHHHHHHH
Confidence 44445332 244443 5778888999988765544 356666655553
No 398
>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=54.40 E-value=17 Score=42.43 Aligned_cols=42 Identities=26% Similarity=0.394 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHcC----CceEEeccCCCChhHHHHHHHHHHHhhhcC
Q 001656 20 CQLVYMEKVIQSLQNK----CNALLESPTGTGKTLCLLCATLAWRKSLGS 65 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~----k~~llEAPTGTGKTLa~L~~aLa~~~~~~~ 65 (1036)
..++.+.-|.+-++++ +.+|+-+|+|||||. |.-++ +++.++
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 4566777788888776 569999999999998 43333 466554
No 399
>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=54.32 E-value=15 Score=41.97 Aligned_cols=31 Identities=16% Similarity=0.149 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHcCCceEEeccCCCChhHHHH
Q 001656 23 VYMEKVIQSLQNKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 23 e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L 53 (1036)
..|..+..+++.++++++-+|||+|||-.+.
T Consensus 131 ~~~ayL~~~ie~~~siii~G~t~sGKTt~ln 161 (312)
T COG0630 131 EQAAYLWLAIEARKSIIICGGTASGKTTLLN 161 (312)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHH
Confidence 3555599999999999999999999998544
No 400
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=54.26 E-value=13 Score=44.69 Aligned_cols=38 Identities=21% Similarity=0.072 Sum_probs=31.5
Q ss_pred CHHHHHHHHHHHHHHHcCC--c-eEEeccCCCChhHHHHHH
Q 001656 18 YDCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L~~ 55 (1036)
.-+|...+..+..++..++ + .|+.+|.|+|||....+-
T Consensus 19 iiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~l 59 (451)
T PRK06305 19 ILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIF 59 (451)
T ss_pred hcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHH
Confidence 3499999999999999874 3 689999999999866533
No 401
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=54.21 E-value=8.6 Score=45.54 Aligned_cols=23 Identities=43% Similarity=0.629 Sum_probs=18.5
Q ss_pred CCceEEeccCCCChhHHHHHHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
.+.++|.+|+|||||+ |+-+++.
T Consensus 179 pkgvLL~GppGTGKT~--LAkalA~ 201 (398)
T PTZ00454 179 PRGVLLYGPPGTGKTM--LAKAVAH 201 (398)
T ss_pred CceEEEECCCCCCHHH--HHHHHHH
Confidence 4679999999999999 5556654
No 402
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=54.14 E-value=43 Score=40.43 Aligned_cols=22 Identities=23% Similarity=0.206 Sum_probs=16.8
Q ss_pred CceEEeccCCCChhHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
..+++-+|+|+|||. |+-|++.
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 458999999999995 5455543
No 403
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=54.12 E-value=16 Score=42.50 Aligned_cols=22 Identities=50% Similarity=0.676 Sum_probs=17.5
Q ss_pred CceEEeccCCCChhHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+.++|.+|+|||||+ |+-+++.
T Consensus 157 ~gvLL~GppGtGKT~--lakaia~ 178 (364)
T TIGR01242 157 KGVLLYGPPGTGKTL--LAKAVAH 178 (364)
T ss_pred ceEEEECCCCCCHHH--HHHHHHH
Confidence 459999999999998 5556643
No 404
>CHL00181 cbbX CbbX; Provisional
Probab=54.02 E-value=10 Score=42.94 Aligned_cols=20 Identities=30% Similarity=0.313 Sum_probs=16.1
Q ss_pred CCceEEeccCCCChhHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLC 54 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~ 54 (1036)
+-++++-+|+|||||...-+
T Consensus 59 ~~~ill~G~pGtGKT~lAr~ 78 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVALK 78 (287)
T ss_pred CceEEEECCCCCCHHHHHHH
Confidence 45689999999999985543
No 405
>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=53.67 E-value=14 Score=43.09 Aligned_cols=26 Identities=23% Similarity=0.475 Sum_probs=20.2
Q ss_pred HHHHHHH-cCCceEEeccCCCChhHHH
Q 001656 27 KVIQSLQ-NKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 27 ~V~~aL~-~~k~~llEAPTGTGKTLa~ 52 (1036)
.+.+.+. .++.+++-+|||+|||-.+
T Consensus 125 ~~~~~~~~~~glilI~GpTGSGKTTtL 151 (358)
T TIGR02524 125 AIIDAIAPQEGIVFITGATGSGKSTLL 151 (358)
T ss_pred HHHHHHhccCCEEEEECCCCCCHHHHH
Confidence 3455555 6789999999999999843
No 406
>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=53.66 E-value=25 Score=37.15 Aligned_cols=22 Identities=23% Similarity=0.280 Sum_probs=17.8
Q ss_pred cCCceEEeccCCCChhHHHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~ 55 (1036)
.|....+.+|+|+|||.-.+--
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~ 32 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMIL 32 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHH
Confidence 4577999999999999966543
No 407
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=53.59 E-value=14 Score=46.51 Aligned_cols=37 Identities=22% Similarity=0.137 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHcCC---ceEEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k---~~llEAPTGTGKTLa~L~~ 55 (1036)
-+|..+...+..++..++ .+||.+|.|+|||....+-
T Consensus 19 IGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriL 58 (709)
T PRK08691 19 VGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARIL 58 (709)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHH
Confidence 489999999999999885 3699999999999865543
No 408
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=53.44 E-value=34 Score=43.11 Aligned_cols=69 Identities=30% Similarity=0.329 Sum_probs=45.4
Q ss_pred CCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQEL 114 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~EL 114 (1036)
.+-.|+.+|.|||||+.-|-+.=+-.. +.. .-...-.|...+-|.+-++|+..-+
T Consensus 393 yelsliqgppGTgkt~vtlkav~tLL~-n~s------------------------~~~~~epIlvvC~Tnhavdq~ligi 447 (1025)
T KOG1807|consen 393 YELSLIQGPPGTGKTLVTLKAVDTLLL-NSS------------------------GYTEPEPILVVCLTNHAVDQYLIGI 447 (1025)
T ss_pred hhhheeecCCCCCceeehHHHHHHHHh-ccc------------------------ccccccceeeeehhhHHHHHHHHHH
Confidence 477999999999999988765432221 110 0112234888888999999987643
Q ss_pred HhcCCCCeEEEeCCc
Q 001656 115 KTSNYRPKMVILGSR 129 (1036)
Q Consensus 115 rkl~~~~k~~vLgSR 129 (1036)
-. .-+|+++-+|||
T Consensus 448 y~-~qrpsImr~gsr 461 (1025)
T KOG1807|consen 448 YY-HQRPSIMRQGSR 461 (1025)
T ss_pred Hh-cCCceEEEeccc
Confidence 21 126888888988
No 409
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=53.28 E-value=11 Score=46.55 Aligned_cols=28 Identities=18% Similarity=0.442 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHcCCceEEeccCCCChhH
Q 001656 23 VYMEKVIQSLQNKCNALLESPTGTGKTL 50 (1036)
Q Consensus 23 e~m~~V~~aL~~~k~~llEAPTGTGKTL 50 (1036)
++.+.|..++++++.+|+-+.||+|||-
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKST 81 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKST 81 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCccc
Confidence 7889999999999999999999999997
No 410
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=53.13 E-value=15 Score=42.67 Aligned_cols=36 Identities=25% Similarity=0.385 Sum_probs=30.7
Q ss_pred CHHHHHHHHHHHHHHHcCC---ceEEeccCCCChhHHHH
Q 001656 18 YDCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLL 53 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k---~~llEAPTGTGKTLa~L 53 (1036)
.-+|....+.+.+.+++++ +.++.+|.|+|||....
T Consensus 19 iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~ 57 (367)
T PRK14970 19 VVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCAR 57 (367)
T ss_pred cCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 3499999999999999874 58899999999997554
No 411
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=53.08 E-value=29 Score=43.88 Aligned_cols=56 Identities=18% Similarity=0.163 Sum_probs=37.1
Q ss_pred cCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQE 113 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~E 113 (1036)
...++++-|+.|||||-.++.-+.......+. +..+|+..|=|..-...+-+.
T Consensus 13 ~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~---------------------------~p~~IL~vTFt~~Aa~em~~R 65 (664)
T TIGR01074 13 VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGY---------------------------KARNIAAVTFTNKAAREMKER 65 (664)
T ss_pred CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCC---------------------------CHHHeEEEeccHHHHHHHHHH
Confidence 35799999999999999887664433322111 224688888887776665555
Q ss_pred HHh
Q 001656 114 LKT 116 (1036)
Q Consensus 114 Lrk 116 (1036)
|.+
T Consensus 66 l~~ 68 (664)
T TIGR01074 66 VAK 68 (664)
T ss_pred HHH
Confidence 543
No 412
>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=53.05 E-value=13 Score=45.74 Aligned_cols=32 Identities=22% Similarity=0.436 Sum_probs=22.6
Q ss_pred HHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 25 MEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 25 m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
.+.+..+...+.+++|.++||||||+ +.-+|.
T Consensus 209 ~~~~~~~a~~~~pvli~Ge~GtGK~~--lA~~ih 240 (534)
T TIGR01817 209 VDQARVVARSNSTVLLRGESGTGKEL--IAKAIH 240 (534)
T ss_pred HHHHHHHhCcCCCEEEECCCCccHHH--HHHHHH
Confidence 33344444567899999999999998 444553
No 413
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=52.86 E-value=18 Score=40.80 Aligned_cols=38 Identities=26% Similarity=0.321 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHc--CCc-eEEeccCCCChhHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQN--KCN-ALLESPTGTGKTLCLLCAT 56 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~--~k~-~llEAPTGTGKTLa~L~~a 56 (1036)
+.|.........+... ..| +++.+|.|||||.+.++-|
T Consensus 5 ~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA 45 (325)
T COG0470 5 PWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALA 45 (325)
T ss_pred cchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHH
Confidence 3344444444444433 366 9999999999999766443
No 414
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=52.65 E-value=15 Score=46.78 Aligned_cols=35 Identities=20% Similarity=0.154 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHcCC--c-eEEeccCCCChhHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLL 53 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L 53 (1036)
-+|..+...+..++..++ | .||.+|.|||||....
T Consensus 19 IGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAr 56 (830)
T PRK07003 19 VGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSR 56 (830)
T ss_pred cCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHH
Confidence 389999999999999874 4 5999999999998554
No 415
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=52.58 E-value=34 Score=42.68 Aligned_cols=22 Identities=23% Similarity=0.306 Sum_probs=16.9
Q ss_pred CceEEeccCCCChhHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
..++|-+|+|+|||. |+-+++.
T Consensus 315 NpL~LyG~sGsGKTH--LL~AIa~ 336 (617)
T PRK14086 315 NPLFIYGESGLGKTH--LLHAIGH 336 (617)
T ss_pred CcEEEECCCCCCHHH--HHHHHHH
Confidence 348999999999998 5555543
No 416
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=52.55 E-value=18 Score=45.86 Aligned_cols=33 Identities=27% Similarity=0.417 Sum_probs=23.4
Q ss_pred HHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 24 YMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 24 ~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+.+.+..+...+.+++|.++||||||+ |.-+|.
T Consensus 388 ~~~~~~~~a~~~~pVLI~GE~GTGK~~--lA~~ih 420 (686)
T PRK15429 388 VLKQVEMVAQSDSTVLILGETGTGKEL--IARAIH 420 (686)
T ss_pred HHHHHHHHhCCCCCEEEECCCCcCHHH--HHHHHH
Confidence 333444444566899999999999998 545554
No 417
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=52.54 E-value=15 Score=46.03 Aligned_cols=36 Identities=19% Similarity=0.174 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHcCC--c-eEEeccCCCChhHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLLC 54 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L~ 54 (1036)
-+|..+...+.+++.+++ | .||.+|.|||||....+
T Consensus 19 IGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAri 57 (700)
T PRK12323 19 VGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRI 57 (700)
T ss_pred cCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHH
Confidence 399999999999999985 4 59999999999985543
No 418
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=52.35 E-value=18 Score=42.41 Aligned_cols=24 Identities=42% Similarity=0.423 Sum_probs=18.9
Q ss_pred HcCCceEEeccCCCChhHHHHHHHHH
Q 001656 33 QNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 33 ~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
..+++++|-+|||+|||... ..|+
T Consensus 135 ~~g~ii~lvGptGvGKTTti--akLA 158 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTT--AKLA 158 (374)
T ss_pred cCCcEEEEECCCCCCHHHHH--HHHH
Confidence 45688999999999999944 4454
No 419
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=52.29 E-value=24 Score=42.53 Aligned_cols=49 Identities=20% Similarity=0.280 Sum_probs=29.3
Q ss_pred eeecCCCCCCH--HHHHHHHHHHHHHHc------C---CceEEeccCCCChhHHHHHHHHHH
Q 001656 9 IDVEFPFEAYD--CQLVYMEKVIQSLQN------K---CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 9 i~v~FPfepy~--~Q~e~m~~V~~aL~~------~---k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
+.-.|.|+-|- ..-+++..+..++.+ + ..++|-+|+|+|||. |+-+++.
T Consensus 104 l~~~~tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTH--Ll~Ai~~ 163 (445)
T PRK12422 104 LDPLMTFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTH--LMQAAVH 163 (445)
T ss_pred CCccccccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHH--HHHHHHH
Confidence 44456666541 223344444444421 2 469999999999998 5556654
No 420
>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=52.13 E-value=5.5 Score=47.91 Aligned_cols=23 Identities=35% Similarity=0.579 Sum_probs=21.1
Q ss_pred CceEEeccCCCChhHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
.|+++-||||+|||.++.+|.|.
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll 67 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLL 67 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHH
Confidence 58999999999999999999883
No 421
>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=52.06 E-value=13 Score=48.25 Aligned_cols=39 Identities=28% Similarity=0.248 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHcC-----------CceEEeccCCCChhHHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~-----------k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
-+|.+.+..|.+++... ..+++-+|||+|||. |+-+|+-
T Consensus 569 ~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~--lA~~La~ 618 (852)
T TIGR03345 569 IGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTE--TALALAE 618 (852)
T ss_pred cChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHH--HHHHHHH
Confidence 48999999999998531 137999999999998 5556653
No 422
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=51.96 E-value=63 Score=36.41 Aligned_cols=18 Identities=44% Similarity=0.490 Sum_probs=14.7
Q ss_pred CCceEEeccCCCChhHHH
Q 001656 35 KCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~ 52 (1036)
++.+++-+|||+|||-..
T Consensus 194 ~~vi~~vGptGvGKTTt~ 211 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTL 211 (282)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 356888899999999844
No 423
>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=51.57 E-value=12 Score=39.03 Aligned_cols=21 Identities=52% Similarity=0.735 Sum_probs=16.0
Q ss_pred CceEEeccCCCChhHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
.++++-+|||+|||. |+-+|+
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 468999999999996 444443
No 424
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=51.51 E-value=13 Score=48.44 Aligned_cols=51 Identities=27% Similarity=0.386 Sum_probs=37.8
Q ss_pred eeEcCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHH
Q 001656 4 YKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 4 ~~i~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
+.+.|-++.....||+.|+-=. +-=.+--|.|..||=||||+.-+|+..-+
T Consensus 126 ~~~~g~~~~wdm~~ydVQLiGg------ivLh~G~IAEM~TGEGKTLvatlp~yLnA 176 (1025)
T PRK12900 126 YQVMGREMTWDMVPYDVQLIGG------IVLHSGKISEMATGEGKTLVSTLPTFLNA 176 (1025)
T ss_pred ccccccccccCccccchHHhhh------HHhhcCCccccCCCCCcchHhHHHHHHHH
Confidence 4567889999999999996422 22234456899999999999887765433
No 425
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=51.47 E-value=16 Score=45.83 Aligned_cols=37 Identities=19% Similarity=0.068 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHcCCc---eEEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~---~llEAPTGTGKTLa~L~~ 55 (1036)
-+|......+..++.+++. .|+.+|.|+|||....+-
T Consensus 19 vGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~l 58 (647)
T PRK07994 19 VGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLL 58 (647)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 3899999999999999854 599999999999865543
No 426
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=51.44 E-value=18 Score=42.92 Aligned_cols=36 Identities=14% Similarity=0.214 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHcCC------------ceEEeccCCCChhHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC------------NALLESPTGTGKTLCLLC 54 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k------------~~llEAPTGTGKTLa~L~ 54 (1036)
-+|......+.+++..++ ..|+.+|.|+|||.....
T Consensus 8 iGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~ 55 (394)
T PRK07940 8 VGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARA 55 (394)
T ss_pred cChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHH
Confidence 489999999999998864 278999999999985543
No 427
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=51.14 E-value=12 Score=38.67 Aligned_cols=25 Identities=16% Similarity=0.389 Sum_probs=20.7
Q ss_pred CceEEeccCCCChhHHHHHHHHHHHhh
Q 001656 36 CNALLESPTGTGKTLCLLCATLAWRKS 62 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~~~~ 62 (1036)
+..+|-||+|+|||- |+-||.|+-.
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 568899999999998 6678888764
No 428
>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=50.83 E-value=19 Score=44.63 Aligned_cols=32 Identities=28% Similarity=0.512 Sum_probs=23.3
Q ss_pred HHHHHH-cCCceEEeccCCCChhHHHHHHHHHHH
Q 001656 28 VIQSLQ-NKCNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 28 V~~aL~-~~k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
+.+++. .+..+++-+|||+|||-.+ .++|.+.
T Consensus 308 l~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~ 340 (564)
T TIGR02538 308 FLEAIHKPQGMVLVTGPTGSGKTVSL-YTALNIL 340 (564)
T ss_pred HHHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhh
Confidence 444444 3578899999999999864 5666654
No 429
>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=50.73 E-value=31 Score=40.82 Aligned_cols=21 Identities=24% Similarity=0.292 Sum_probs=16.3
Q ss_pred CceEEeccCCCChhHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
..++|-+|+|||||. |+-+++
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 358999999999998 444444
No 430
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=50.58 E-value=11 Score=45.53 Aligned_cols=38 Identities=37% Similarity=0.536 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHcC-----------CceEEeccCCCChhHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~-----------k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+.=++=.+.|.+-|++- +-++|-+|+|||||| |.-|+|
T Consensus 310 DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTl--LARAvA 358 (752)
T KOG0734|consen 310 DEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTL--LARAVA 358 (752)
T ss_pred HHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhH--HHHHhh
Confidence 44455567777777642 559999999999999 656654
No 431
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=50.09 E-value=17 Score=31.52 Aligned_cols=25 Identities=24% Similarity=0.337 Sum_probs=20.0
Q ss_pred CCceEEeccCCCChhHHHHHHHHHHHh
Q 001656 35 KCNALLESPTGTGKTLCLLCATLAWRK 61 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aLa~~~ 61 (1036)
|...+|-+|+|+|||- |+=|+.|.-
T Consensus 23 g~~tli~G~nGsGKST--llDAi~~~L 47 (62)
T PF13555_consen 23 GDVTLITGPNGSGKST--LLDAIQTVL 47 (62)
T ss_pred CcEEEEECCCCCCHHH--HHHHHHHHH
Confidence 3579999999999998 666776654
No 432
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=49.76 E-value=24 Score=40.64 Aligned_cols=38 Identities=18% Similarity=0.155 Sum_probs=32.8
Q ss_pred CCCHHHHHHHHHHHHHHHcCC---ceEEeccCCCChhHHHH
Q 001656 16 EAYDCQLVYMEKVIQSLQNKC---NALLESPTGTGKTLCLL 53 (1036)
Q Consensus 16 epy~~Q~e~m~~V~~aL~~~k---~~llEAPTGTGKTLa~L 53 (1036)
..||.|...-..+..++++++ ..++.+|.|+||+....
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 468999999999999999885 48999999999997544
No 433
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=49.69 E-value=56 Score=43.61 Aligned_cols=64 Identities=20% Similarity=0.164 Sum_probs=46.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCC
Q 001656 14 PFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSK 93 (1036)
Q Consensus 14 Pfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~ 93 (1036)
++.--+.|++.+..|. ..++..+|.++-|||||..+-...-+|... +
T Consensus 379 ~~~Ls~eQ~~Av~~i~---~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~-G----------------------------- 425 (1102)
T PRK13826 379 HARLSDEQKTAIEHVA---GPARIAAVVGRAGAGKTTMMKAAREAWEAA-G----------------------------- 425 (1102)
T ss_pred CCCCCHHHHHHHHHHh---ccCCeEEEEeCCCCCHHHHHHHHHHHHHHc-C-----------------------------
Confidence 3455689999877763 557899999999999998766544445331 2
Q ss_pred CCeEEEEcCCHHHHHHHH
Q 001656 94 LPTILYTSRTHSQLRQVI 111 (1036)
Q Consensus 94 ~pkIiy~TRThsQl~Qvv 111 (1036)
.+|+-++.|+.....+-
T Consensus 426 -~~V~g~ApTgkAA~~L~ 442 (1102)
T PRK13826 426 -YRVVGGALAGKAAEGLE 442 (1102)
T ss_pred -CeEEEEcCcHHHHHHHH
Confidence 36888888888765553
No 434
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=49.67 E-value=21 Score=41.37 Aligned_cols=40 Identities=25% Similarity=0.422 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHcC----CceEEeccCCCChhHHHHHHHHHHHhhhcC
Q 001656 22 LVYMEKVIQSLQNK----CNALLESPTGTGKTLCLLCATLAWRKSLGS 65 (1036)
Q Consensus 22 ~e~m~~V~~aL~~~----k~~llEAPTGTGKTLa~L~~aLa~~~~~~~ 65 (1036)
++.|--|.+-+++| +-+|+-+|+|||||. | |++-+++.++
T Consensus 48 ReAaGvIv~mik~gk~aGrgiLi~GppgTGKTA--l--A~gIa~eLG~ 91 (450)
T COG1224 48 REAAGVIVKMIKQGKMAGRGILIVGPPGTGKTA--L--AMGIARELGE 91 (450)
T ss_pred HHhhhHHHHHHHhCcccccEEEEECCCCCcHHH--H--HHHHHHHhCC
Confidence 34566677778776 669999999999997 3 2334566664
No 435
>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional
Probab=49.57 E-value=7.5 Score=42.48 Aligned_cols=50 Identities=20% Similarity=0.344 Sum_probs=38.4
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 1 m~~~~i~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
|+.+.+.++.+.|+-. ...+.|-=.+..|+...|-+|.|+|||. |+-+|+
T Consensus 1 ~~~l~~~~l~~~~~~~------~~l~~vs~~i~~Ge~~~i~G~nGsGKST--Ll~~l~ 50 (249)
T PRK14253 1 MNKFNIENLDLFYGEN------QALKSINLPIPARQVTALIGPSGCGKST--LLRCLN 50 (249)
T ss_pred CCeEEEeccEEEECCe------eeeecceEEecCCCEEEEECCCCCCHHH--HHHHHH
Confidence 8889999999988721 2445555566789999999999999997 555554
No 436
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=49.50 E-value=54 Score=37.87 Aligned_cols=37 Identities=22% Similarity=0.244 Sum_probs=27.2
Q ss_pred CCHHHHHHHHHHHHHHHcCCc-eEEeccCCCChhHHHHH
Q 001656 17 AYDCQLVYMEKVIQSLQNKCN-ALLESPTGTGKTLCLLC 54 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~k~-~llEAPTGTGKTLa~L~ 54 (1036)
.||.|...-..+.+. .+-.| .++.+|.|+|||.....
T Consensus 4 ~yPWl~~~~~~~~~~-~r~~ha~Lf~G~~G~GK~~~A~~ 41 (328)
T PRK05707 4 IYPWQQSLWQQLAGR-GRHPHAYLLHGPAGIGKRALAER 41 (328)
T ss_pred CCCCcHHHHHHHHHC-CCcceeeeeECCCCCCHHHHHHH
Confidence 378888888888765 22233 77999999999975543
No 437
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=49.49 E-value=18 Score=46.92 Aligned_cols=39 Identities=23% Similarity=0.169 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHcC--Cc-eEEeccCCCChhHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLLCATL 57 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~--k~-~llEAPTGTGKTLa~L~~aL 57 (1036)
-+|....+.+..++..+ .| .||.+|.|+|||...++-+-
T Consensus 18 iGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr 59 (824)
T PRK07764 18 IGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILAR 59 (824)
T ss_pred cCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHH
Confidence 38999999999999987 34 68999999999997775543
No 438
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=49.45 E-value=85 Score=37.19 Aligned_cols=34 Identities=24% Similarity=0.336 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHH---------cCCceEEeccCCCChhHHHH
Q 001656 20 CQLVYMEKVIQSLQ---------NKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~---------~~k~~llEAPTGTGKTLa~L 53 (1036)
.+..+++.+.+.+. ...++++-+|||+|||-...
T Consensus 150 v~~~l~~~l~~~i~~~~~~~~~~~~~vi~lvGptGvGKTTT~a 192 (388)
T PRK12723 150 VRDSVIIYIAKTIKCSGSIIDNLKKRVFILVGPTGVGKTTTIA 192 (388)
T ss_pred HHHHHHHHHHHHhhccCccccCCCCeEEEEECCCCCCHHHHHH
Confidence 44455555555542 23579999999999998653
No 439
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=49.29 E-value=16 Score=37.86 Aligned_cols=28 Identities=29% Similarity=0.312 Sum_probs=23.2
Q ss_pred cCCceEEeccCCCChhHHHHHHHHHHHh
Q 001656 34 NKCNALLESPTGTGKTLCLLCATLAWRK 61 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~aLa~~~ 61 (1036)
.|...++-||+|+|||...+--+++++.
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~ 58 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALAT 58 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 5678999999999999988776666653
No 440
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=49.28 E-value=18 Score=45.24 Aligned_cols=38 Identities=18% Similarity=0.121 Sum_probs=31.8
Q ss_pred CHHHHHHHHHHHHHHHcCCc---eEEeccCCCChhHHHHHH
Q 001656 18 YDCQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~k~---~llEAPTGTGKTLa~L~~ 55 (1036)
.-+|...+..+..++..++. .|+.+|.|||||....+-
T Consensus 18 viGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~l 58 (618)
T PRK14951 18 MVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRIL 58 (618)
T ss_pred hcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 34899999999999998843 499999999999866543
No 441
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=49.26 E-value=13 Score=45.84 Aligned_cols=27 Identities=22% Similarity=0.516 Sum_probs=23.8
Q ss_pred HHHHHHHHHHcCCceEEeccCCCChhH
Q 001656 24 YMEKVIQSLQNKCNALLESPTGTGKTL 50 (1036)
Q Consensus 24 ~m~~V~~aL~~~k~~llEAPTGTGKTL 50 (1036)
|=+.++.|+.+.+.+++++.||+|||-
T Consensus 269 ykdell~av~e~QVLiI~GeTGSGKTT 295 (902)
T KOG0923|consen 269 YKDELLKAVKEHQVLIIVGETGSGKTT 295 (902)
T ss_pred hHHHHHHHHHhCcEEEEEcCCCCCccc
Confidence 345678889999999999999999997
No 442
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=49.19 E-value=18 Score=45.98 Aligned_cols=37 Identities=22% Similarity=0.199 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHcCC--c-eEEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L~~ 55 (1036)
-+|......+..++..++ | .|+.+|.|+|||.++.+-
T Consensus 21 iGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriL 60 (725)
T PRK07133 21 VGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIF 60 (725)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHH
Confidence 389999999999999873 4 489999999999876543
No 443
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=49.08 E-value=19 Score=39.90 Aligned_cols=35 Identities=34% Similarity=0.488 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHH------------HcCCceEEeccCCCChhHHHH
Q 001656 19 DCQLVYMEKVIQSL------------QNKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL------------~~~k~~llEAPTGTGKTLa~L 53 (1036)
..|++-+..|.+.= +--+-+++-+|+|||||||.=
T Consensus 183 keqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~ar 229 (435)
T KOG0729|consen 183 KEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCAR 229 (435)
T ss_pred HHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHH
Confidence 35666666665531 223679999999999999653
No 444
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=49.07 E-value=19 Score=40.75 Aligned_cols=33 Identities=27% Similarity=0.254 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHcCC--ceEE-eccCCCChhHHH
Q 001656 20 CQLVYMEKVIQSLQNKC--NALL-ESPTGTGKTLCL 52 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~k--~~ll-EAPTGTGKTLa~ 52 (1036)
+|.+....+...+.+++ ++++ .+|+|+|||...
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la 60 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVA 60 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHH
Confidence 78888888888888873 4555 999999999843
No 445
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=48.76 E-value=7.1 Score=45.59 Aligned_cols=17 Identities=47% Similarity=0.675 Sum_probs=15.4
Q ss_pred CceEEeccCCCChhHHH
Q 001656 36 CNALLESPTGTGKTLCL 52 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~ 52 (1036)
+|+++-+|+|||||++.
T Consensus 385 RNilfyGPPGTGKTm~A 401 (630)
T KOG0742|consen 385 RNILFYGPPGTGKTMFA 401 (630)
T ss_pred hheeeeCCCCCCchHHH
Confidence 67999999999999965
No 446
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=48.72 E-value=19 Score=44.55 Aligned_cols=41 Identities=22% Similarity=0.188 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHcC--Cc-eEEeccCCCChhHHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK--CN-ALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~--k~-~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
-+|......+..++..+ .| .|+.+|.|||||.+..+-+-++
T Consensus 19 iGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal 62 (559)
T PRK05563 19 VGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAV 62 (559)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 49999999999999887 34 5789999999998776555443
No 447
>PRK10865 protein disaggregation chaperone; Provisional
Probab=48.38 E-value=20 Score=46.81 Aligned_cols=44 Identities=30% Similarity=0.344 Sum_probs=34.4
Q ss_pred CCCCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHHH
Q 001656 15 FEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
++|--+|..-+..+++.|.++ .+.||-+|+|+|||. |+-+|+..
T Consensus 177 l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~--l~~~la~~ 222 (857)
T PRK10865 177 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTA--IVEGLAQR 222 (857)
T ss_pred CCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHH--HHHHHHHH
Confidence 345557888899999988665 689999999999999 55666654
No 448
>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=48.25 E-value=17 Score=38.41 Aligned_cols=29 Identities=24% Similarity=0.313 Sum_probs=19.9
Q ss_pred HcCCceEEeccCCCChhHHHHHHHHHHHh
Q 001656 33 QNKCNALLESPTGTGKTLCLLCATLAWRK 61 (1036)
Q Consensus 33 ~~~k~~llEAPTGTGKTLa~L~~aLa~~~ 61 (1036)
....|+++-++||+|||.++-.-+++.+.
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 34469999999999999988765555544
No 449
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=48.24 E-value=19 Score=45.41 Aligned_cols=25 Identities=20% Similarity=0.181 Sum_probs=22.4
Q ss_pred cCCceEEeccCCCChhHHHHHHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
...|+++-||||+|||.++.+|+|.
T Consensus 223 g~~H~Lv~ApTgsGKt~g~VIPnLL 247 (641)
T PRK13822 223 GSTHGLVFAGSGGFKTTSVVVPTAL 247 (641)
T ss_pred CCceEEEEeCCCCCccceEehhhhh
Confidence 3479999999999999999999974
No 450
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=48.22 E-value=7.4 Score=49.04 Aligned_cols=25 Identities=28% Similarity=0.440 Sum_probs=22.4
Q ss_pred cCCceEEeccCCCChhHHHHHHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
...|+++-||||+|||.++.+|.|.
T Consensus 138 ~~~hvlviApTgSGKgvg~VIPnLL 162 (670)
T PRK13850 138 EQPHSLVVAPTRAGKGVGVVIPTLL 162 (670)
T ss_pred CCceEEEEecCCCCceeeehHhHHh
Confidence 3469999999999999999999885
No 451
>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=48.16 E-value=6.7 Score=41.35 Aligned_cols=55 Identities=20% Similarity=0.233 Sum_probs=37.7
Q ss_pred CeeeEcCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 2 PTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 2 ~~~~i~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+++.+.++.+.|+=..+..+......+-=.+..|+...|-+|.|+|||. |+-+|+
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 4677888888775211111233555555667789999999999999996 656664
No 452
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=48.15 E-value=36 Score=43.56 Aligned_cols=39 Identities=8% Similarity=0.001 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHH---cCCcEEEEecCHHHHHHHHHHHhhc
Q 001656 501 KQELGNTIVNIARI---VPDGLLIFFPSYYLMDQCIACWKNT 539 (1036)
Q Consensus 501 ~~~l~~~I~~l~~~---vpggvLVfFpSy~~l~~v~~~~~~~ 539 (1036)
.+.+++.|.+++.. .++-+.|++.+......+...+...
T Consensus 326 a~~ia~~I~~l~~~~~~~~~diAVL~R~~~~~~~l~~~L~~~ 367 (726)
T TIGR01073 326 AQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEETLLKA 367 (726)
T ss_pred HHHHHHHHHHHHHcCCCCcCCEEEEEeCchhHHHHHHHHHHc
Confidence 45678888888753 3468899999999988888777764
No 453
>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional
Probab=47.89 E-value=6.3 Score=43.05 Aligned_cols=50 Identities=16% Similarity=0.248 Sum_probs=37.7
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 1 m~~~~i~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
|+.+.+.++.+.|+= + .....|-=.+..|+.+.|-+|.|+|||. |+-+|+
T Consensus 1 m~~l~~~~l~~~~~~--~----~~l~~vs~~i~~Ge~~~i~G~nGsGKST--Ll~~l~ 50 (250)
T PRK11264 1 MSAIEVKNLVKKFHG--Q----TVLHGIDLEVKPGEVVAIIGPSGSGKTT--LLRCIN 50 (250)
T ss_pred CCcEEEeceEEEECC--e----eeeccceEEEcCCCEEEEECCCCCCHHH--HHHHHh
Confidence 777889999888861 1 2445555566789999999999999997 555554
No 454
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=47.77 E-value=20 Score=44.62 Aligned_cols=37 Identities=16% Similarity=0.114 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHcCC--c-eEEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L~~ 55 (1036)
-+|......+..++..++ | .|+.+|.|+|||.+..+-
T Consensus 19 iGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~l 58 (576)
T PRK14965 19 TGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARIL 58 (576)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 499999999999999883 4 489999999999876643
No 455
>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=47.59 E-value=21 Score=46.59 Aligned_cols=44 Identities=27% Similarity=0.325 Sum_probs=33.7
Q ss_pred CCCCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHHH
Q 001656 15 FEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
++|--+|..-+..+++.|.++ .+.+|-+|+|+|||. |+-+|+..
T Consensus 172 ~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~--l~~~la~~ 217 (852)
T TIGR03346 172 LDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTA--IVEGLAQR 217 (852)
T ss_pred CCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHH--HHHHHHHH
Confidence 345557788889999988665 689999999999998 44556543
No 456
>PRK11823 DNA repair protein RadA; Provisional
Probab=47.50 E-value=28 Score=41.89 Aligned_cols=30 Identities=23% Similarity=0.251 Sum_probs=21.9
Q ss_pred HHHcCCceEEeccCCCChhHHHHHHHHHHH
Q 001656 31 SLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 31 aL~~~k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
.+..|...++-+|+|+|||.-.+--+..++
T Consensus 76 Gi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a 105 (446)
T PRK11823 76 GLVPGSVVLIGGDPGIGKSTLLLQVAARLA 105 (446)
T ss_pred CccCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence 445567899999999999996655444443
No 457
>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=47.37 E-value=21 Score=39.88 Aligned_cols=26 Identities=35% Similarity=0.454 Sum_probs=19.5
Q ss_pred HHHHHHHc-CCceEEeccCCCChhHHH
Q 001656 27 KVIQSLQN-KCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 27 ~V~~aL~~-~k~~llEAPTGTGKTLa~ 52 (1036)
.+.+++.. +..+++-+|||+|||-.+
T Consensus 71 ~l~~~~~~~~GlilisG~tGSGKTT~l 97 (264)
T cd01129 71 IFRKLLEKPHGIILVTGPTGSGKTTTL 97 (264)
T ss_pred HHHHHHhcCCCEEEEECCCCCcHHHHH
Confidence 34555554 467999999999999854
No 458
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=47.09 E-value=18 Score=46.08 Aligned_cols=39 Identities=33% Similarity=0.297 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHcC-----------CceEEeccCCCChhHHHHHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~-----------k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
-+|-+....|.++++.. ...++-+|||+|||- |+=+||-
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 38999999999999753 348899999999998 6556653
No 459
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=46.98 E-value=1.9e+02 Score=38.31 Aligned_cols=140 Identities=16% Similarity=0.159 Sum_probs=85.5
Q ss_pred CeEEEEccCCCC--hHHHHHHhCCCCCccccCCCcCCCCceEEEEccCCCCCccccccccCCCCHHHHHHHHHHHHHHHH
Q 001656 436 GSIILTSGTLSP--MDSFAQELKLNFPLRVENPHVITSKQIWAGIVPVGPSGYLLNSSYRNRDSIEYKQELGNTIVNIAR 513 (1036)
Q Consensus 436 ~svIltSgTLsp--~~~f~~~LGl~~~~~le~p~v~~~~qi~v~iv~~gp~~~~l~~~Y~~r~~~~y~~~l~~~I~~l~~ 513 (1036)
..+|-+.||.++ -....+.||+..+..+... +...+++..+.++.. +. .+-..+..+-.
T Consensus 421 vP~iALTATAT~~v~~DIi~~L~l~~~~~~~~s--fnR~NL~yeV~~k~~-----------~~------~~~~~~~~~~~ 481 (941)
T KOG0351|consen 421 VPFIALTATATERVREDVIRSLGLRNPELFKSS--FNRPNLKYEVSPKTD-----------KD------ALLDILEESKL 481 (941)
T ss_pred CCeEEeehhccHHHHHHHHHHhCCCCcceeccc--CCCCCceEEEEeccC-----------cc------chHHHHHHhhh
Confidence 689999999986 4678889999765433333 334566655555421 11 11112222333
Q ss_pred HcC-CcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCC-CCChHHHHHHHHHHhccCCCCCeEEEEE
Q 001656 514 IVP-DGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQ-SSLFPLAIEDYMAKLKDTSTSGAVFFAV 591 (1036)
Q Consensus 514 ~vp-ggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~-~~~~~~~i~~f~~~i~~~~~~gaVLfaV 591 (1036)
..| +-.+|++.|....+++...++..+. +..++...- ......+-..|.. . .-..|...|
T Consensus 482 ~~~~~s~IIYC~sr~~ce~vs~~L~~~~~-------------~a~~YHAGl~~~~R~~Vq~~w~~---~--~~~VivATV 543 (941)
T KOG0351|consen 482 RHPDQSGIIYCLSRKECEQVSAVLRSLGK-------------SAAFYHAGLPPKERETVQKAWMS---D--KIRVIVATV 543 (941)
T ss_pred cCCCCCeEEEeCCcchHHHHHHHHHHhch-------------hhHhhhcCCCHHHHHHHHHHHhc---C--CCeEEEEEe
Confidence 344 4789999999999999998886532 111222221 1223344455553 1 223444445
Q ss_pred ccCCccccccCCCCCceEEEEeCCCC
Q 001656 592 CRGKVSEGLDFADHAGRAVVITGMPF 617 (1036)
Q Consensus 592 ~rGk~sEGIDf~gd~~R~VIIvGLPf 617 (1036)
.|.=|||.+| .|.||=.+||-
T Consensus 544 ---AFGMGIdK~D--VR~ViH~~lPk 564 (941)
T KOG0351|consen 544 ---AFGMGIDKPD--VRFVIHYSLPK 564 (941)
T ss_pred ---eccCCCCCCc--eeEEEECCCch
Confidence 7889999999 79999999986
No 460
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=46.78 E-value=1e+02 Score=39.19 Aligned_cols=95 Identities=17% Similarity=0.128 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHHHHcCCcEEEEecCH-HHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCC--------CChHHHH
Q 001656 501 KQELGNTIVNIARIVPDGLLIFFPSY-YLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQS--------SLFPLAI 571 (1036)
Q Consensus 501 ~~~l~~~I~~l~~~vpggvLVfFpSy-~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~--------~~~~~~i 571 (1036)
+..+.+.|.+.....++--.+.|.-+ .....+...+.. ... .++ ....|+-+..+ ....+++
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 LEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQ-LHE--LGI------KAEIFIGQGKSTQSTGMTQKEQKEVL 467 (746)
T ss_pred HHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHh-hhh--ccc------ccceeeeccccccccccCHHHHHHHH
Confidence 46788888888887777555555555 444444443332 111 011 11234433222 2344778
Q ss_pred HHHHHHhccCCCCCeEEEEEccCCccccccCCCCCceEEEEeC
Q 001656 572 EDYMAKLKDTSTSGAVFFAVCRGKVSEGLDFADHAGRAVVITG 614 (1036)
Q Consensus 572 ~~f~~~i~~~~~~gaVLfaV~rGk~sEGIDf~gd~~R~VIIvG 614 (1036)
+.|+. ++--||+|+ .---||+|.+. |..||..+
T Consensus 468 ~~Fr~------G~~NvLVAT--SV~EEGLDI~e--c~lVIcYd 500 (746)
T KOG0354|consen 468 DKFRD------GEINVLVAT--SVAEEGLDIGE--CNLVICYD 500 (746)
T ss_pred HHHhC------CCccEEEEe--cchhccCCccc--ccEEEEec
Confidence 88885 566788888 56689999998 67777764
No 461
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=46.64 E-value=20 Score=44.39 Aligned_cols=37 Identities=22% Similarity=0.269 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHcCCc---eEEeccCCCChhHHHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKCN---ALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k~---~llEAPTGTGKTLa~L~~ 55 (1036)
-+|......+..++.+++. .|+.+|.|+|||.++.+-
T Consensus 19 iGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~l 58 (563)
T PRK06647 19 EGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAF 58 (563)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 3899999999999998844 589999999999977643
No 462
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=46.58 E-value=43 Score=39.04 Aligned_cols=44 Identities=25% Similarity=0.250 Sum_probs=31.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHH
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
|.-.||..+..|+ +++|-.. +.+.+-++-|||||+-.||++|.-
T Consensus 224 wGi~prn~eQ~~A---LdlLld~dI~lV~L~G~AGtGKTlLALaAgleq 269 (436)
T COG1875 224 WGIRPRNAEQRVA---LDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQ 269 (436)
T ss_pred hccCcccHHHHHH---HHHhcCCCCCeEEeeccCCccHhHHHHHHHHHH
Confidence 4456775444443 3444444 668899999999999999999853
No 463
>PF05729 NACHT: NACHT domain
Probab=46.38 E-value=20 Score=35.68 Aligned_cols=20 Identities=30% Similarity=0.424 Sum_probs=15.8
Q ss_pred ceEEeccCCCChhHHHHHHHHH
Q 001656 37 NALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 37 ~~llEAPTGTGKTLa~L~~aLa 58 (1036)
.++|.++.|+|||. |+..++
T Consensus 2 ~l~I~G~~G~GKSt--ll~~~~ 21 (166)
T PF05729_consen 2 VLWISGEPGSGKST--LLRKLA 21 (166)
T ss_pred EEEEECCCCCChHH--HHHHHH
Confidence 57999999999999 444444
No 464
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=46.33 E-value=19 Score=46.09 Aligned_cols=23 Identities=48% Similarity=0.598 Sum_probs=18.3
Q ss_pred CCceEEeccCCCChhHHHHHHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
++.++|.+|+|||||. |+-+++.
T Consensus 212 ~~giLL~GppGtGKT~--laraia~ 234 (733)
T TIGR01243 212 PKGVLLYGPPGTGKTL--LAKAVAN 234 (733)
T ss_pred CceEEEECCCCCChHH--HHHHHHH
Confidence 4679999999999997 5556654
No 465
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=46.28 E-value=25 Score=41.18 Aligned_cols=35 Identities=14% Similarity=0.180 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHcCC--c-eEEeccCCCChhHHHH
Q 001656 19 DCQLVYMEKVIQSLQNKC--N-ALLESPTGTGKTLCLL 53 (1036)
Q Consensus 19 ~~Q~e~m~~V~~aL~~~k--~-~llEAPTGTGKTLa~L 53 (1036)
-+|.+....+.+++.+++ | .|+.+|.|+||+...+
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 499999999999999983 3 8899999999998554
No 466
>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=46.11 E-value=51 Score=43.03 Aligned_cols=43 Identities=23% Similarity=0.288 Sum_probs=34.1
Q ss_pred CCCCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHH
Q 001656 15 FEAYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
++|--+|.+.+..+++.|.++ .+.+|-+|.|+|||. |+-.|+.
T Consensus 186 ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTa--l~~~La~ 230 (852)
T TIGR03345 186 IDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTA--VVEGLAL 230 (852)
T ss_pred CCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHH--HHHHHHH
Confidence 345557888899999988776 689999999999998 5556654
No 467
>PRK04195 replication factor C large subunit; Provisional
Probab=46.06 E-value=21 Score=43.42 Aligned_cols=33 Identities=27% Similarity=0.256 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHH---c---CCceEEeccCCCChhHHH
Q 001656 20 CQLVYMEKVIQSLQ---N---KCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~---~---~k~~llEAPTGTGKTLa~ 52 (1036)
+|.+....+.+.+. . .++++|-+|+|||||..+
T Consensus 18 g~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLA 56 (482)
T ss_pred CCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 45555555555444 4 468999999999999744
No 468
>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=45.87 E-value=88 Score=31.81 Aligned_cols=58 Identities=16% Similarity=0.332 Sum_probs=37.0
Q ss_pred HHHHHHHHhccCCCCCeEEEEEccCCccc-cccCCCCCceEEEEeCCCCCCCCCHHHHHHHHHHHHH
Q 001656 570 AIEDYMAKLKDTSTSGAVFFAVCRGKVSE-GLDFADHAGRAVVITGMPFATMTDPKVRLKREYLDLQ 635 (1036)
Q Consensus 570 ~i~~f~~~i~~~~~~gaVLfaV~rGk~sE-GIDf~gd~~R~VIIvGLPfp~~~Dp~v~~K~eyl~~~ 635 (1036)
.+.++.+.++..+.++.++++. ..-|. +-++.+ ..+.+..+|+...++ ..|++.++++
T Consensus 72 ~L~~w~~~l~~~GFkhV~~lT~--D~~Wk~~~~~~~---~liwlPaipLe~md~---~~k~~iv~~q 130 (142)
T PF10673_consen 72 RLNDWCEELKESGFKHVFYLTS--DSEWKQEEELEG---SLIWLPAIPLEHMDD---SAKQEIVEDQ 130 (142)
T ss_pred HHHHHHHHHHhcCCcEEEEEec--CcccccccCCCC---cEEEEeCccccccCH---HHHHHHHHHH
Confidence 3455555555555667777765 45566 555555 478899999988765 5566666554
No 469
>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=45.84 E-value=17 Score=37.42 Aligned_cols=21 Identities=29% Similarity=0.520 Sum_probs=17.2
Q ss_pred CCceEEeccCCCChhHHHHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLCATL 57 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aL 57 (1036)
|+.++|.+|+|+|||- |+..|
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 5678999999999998 55555
No 470
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=45.80 E-value=20 Score=43.94 Aligned_cols=33 Identities=21% Similarity=0.328 Sum_probs=23.1
Q ss_pred HHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 24 YMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 24 ~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+.+.|..+-..+.+++|.+++|||||+ +.-+|.
T Consensus 199 ~~~~i~~~a~~~~pVlI~Ge~GtGK~~--~A~~ih 231 (509)
T PRK05022 199 LKKEIEVVAASDLNVLILGETGVGKEL--VARAIH 231 (509)
T ss_pred HHHHHHHHhCCCCcEEEECCCCccHHH--HHHHHH
Confidence 334444444567899999999999998 444443
No 471
>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=45.76 E-value=23 Score=43.92 Aligned_cols=28 Identities=25% Similarity=0.534 Sum_probs=21.0
Q ss_pred CCceEEeccCCCChhHHHHHHHHHHHhhh
Q 001656 35 KCNALLESPTGTGKTLCLLCATLAWRKSL 63 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aLa~~~~~ 63 (1036)
.+|+++-||||+|||.+ +-..|.|.+..
T Consensus 176 ~~h~li~G~tGsGKs~~-i~~ll~~~~~~ 203 (566)
T TIGR02759 176 TQHILIHGTTGSGKSVA-IRKLLRWIRQR 203 (566)
T ss_pred ccceEEEcCCCCCHHHH-HHHHHHHHHhc
Confidence 47999999999999964 44456666543
No 472
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=45.52 E-value=19 Score=42.55 Aligned_cols=28 Identities=25% Similarity=0.431 Sum_probs=20.7
Q ss_pred HHHHHHHHH----cCCceEEeccCCCChhHHH
Q 001656 25 MEKVIQSLQ----NKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 25 m~~V~~aL~----~~k~~llEAPTGTGKTLa~ 52 (1036)
|.++.+-++ .+.++++.++|||||++..
T Consensus 87 ~~~~~eqik~~ap~~~~vLi~GetGtGKel~A 118 (403)
T COG1221 87 LQELREQIKAYAPSGLPVLIIGETGTGKELFA 118 (403)
T ss_pred HHHHHHHHHhhCCCCCcEEEecCCCccHHHHH
Confidence 444444443 5799999999999999844
No 473
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=45.09 E-value=7.3 Score=48.54 Aligned_cols=24 Identities=38% Similarity=0.502 Sum_probs=22.1
Q ss_pred CCceEEeccCCCChhHHHHHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
..|+++-||||+|||.++..|.|.
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnLL 181 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNLL 181 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhHH
Confidence 478999999999999999999985
No 474
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=45.06 E-value=8.1 Score=48.65 Aligned_cols=25 Identities=32% Similarity=0.379 Sum_probs=22.7
Q ss_pred cCCceEEeccCCCChhHHHHHHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
...|+++-||||+|||.++.+|.|.
T Consensus 143 g~~hvLviApTrSGKgvg~VIPnLL 167 (663)
T PRK13876 143 GPEHVLCFAPTRSGKGVGLVVPTLL 167 (663)
T ss_pred CCceEEEEecCCCCcceeEehhhHH
Confidence 3489999999999999999999985
No 475
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=44.89 E-value=28 Score=39.45 Aligned_cols=24 Identities=29% Similarity=0.445 Sum_probs=17.1
Q ss_pred EEeccCCCChhHHHHHHHHHHHhh
Q 001656 39 LLESPTGTGKTLCLLCATLAWRKS 62 (1036)
Q Consensus 39 llEAPTGTGKTLa~L~~aLa~~~~ 62 (1036)
++++|.|.|||.....-++.|+..
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~ 24 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALT 24 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHS
T ss_pred CCcCCccccHHHHHHHHHHHHHhh
Confidence 588999999999887777777654
No 476
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=44.89 E-value=27 Score=47.72 Aligned_cols=47 Identities=23% Similarity=0.268 Sum_probs=37.5
Q ss_pred eEcCeeecCCC----CCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHH
Q 001656 5 KIRGIDVEFPF----EAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLC 51 (1036)
Q Consensus 5 ~i~gi~v~FPf----epy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa 51 (1036)
.++..+...|. -+-.+|.+..+.|+.|+..+=++++-+|||+|||-.
T Consensus 1816 ~vr~~err~~l~~~~~~l~sql~vlEsV~~cIn~nwPlIlvG~t~~GKt~~ 1866 (4600)
T COG5271 1816 TVRMKERRPRLDDSFVLLHSQLQVLESVMRCINMNWPLILVGDTGVGKTSL 1866 (4600)
T ss_pred EEeccccCCCcccchhhhhhhhHHHHHHHHHHhcCCCEEEEcCCCCchHHH
Confidence 34444445553 245699999999999999999999999999999963
No 477
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=44.83 E-value=26 Score=44.85 Aligned_cols=23 Identities=48% Similarity=0.596 Sum_probs=18.7
Q ss_pred CceEEeccCCCChhHHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
+.++|.+|+|||||+ |+-++++.
T Consensus 488 ~giLL~GppGtGKT~--lakalA~e 510 (733)
T TIGR01243 488 KGVLLFGPPGTGKTL--LAKAVATE 510 (733)
T ss_pred ceEEEECCCCCCHHH--HHHHHHHh
Confidence 458999999999999 66677653
No 478
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=44.49 E-value=26 Score=41.74 Aligned_cols=37 Identities=27% Similarity=0.371 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHcC-----------CceEEeccCCCChhHHHHHHHHH
Q 001656 20 CQLVYMEKVIQSLQNK-----------CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~-----------k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
.=+++|+.+.+-++++ +-=||=+|+|||||- +++|+|
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 4567778877777654 337999999999998 788886
No 479
>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=44.39 E-value=38 Score=38.75 Aligned_cols=44 Identities=18% Similarity=0.321 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHHHhhhc
Q 001656 20 CQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWRKSLG 64 (1036)
Q Consensus 20 ~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~~~~~~ 64 (1036)
.=.++++.+.++-.++ ...+|-++.|||||.+++ -+++|+...+
T Consensus 6 ~t~el~~~l~~~~~~~~~~r~vL~G~~GsGKS~~L~-q~~~~A~~~~ 51 (309)
T PF10236_consen 6 PTLELINKLKEADKSSKNNRYVLTGERGSGKSVLLA-QAVHYARENG 51 (309)
T ss_pred HHHHHHHHHHHhcccCCceEEEEECCCCCCHHHHHH-HHHHHHHhCC
Confidence 3345666666664333 559999999999999765 5578987654
No 480
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=44.12 E-value=13 Score=45.44 Aligned_cols=38 Identities=24% Similarity=0.233 Sum_probs=32.4
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHH
Q 001656 15 FEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCL 52 (1036)
Q Consensus 15 fepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~ 52 (1036)
|.--.+|......+.-++..+.++++-+|+|||||...
T Consensus 191 ~~dv~Gq~~~~~al~~aa~~g~~vlliG~pGsGKTtla 228 (499)
T TIGR00368 191 LKDIKGQQHAKRALEIAAAGGHNLLLFGPPGSGKTMLA 228 (499)
T ss_pred HHHhcCcHHHHhhhhhhccCCCEEEEEecCCCCHHHHH
Confidence 33445799999999999999999999999999999844
No 481
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=44.01 E-value=22 Score=42.46 Aligned_cols=33 Identities=24% Similarity=0.219 Sum_probs=23.7
Q ss_pred HHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 26 EKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 26 ~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+.+...|..|...+|-|+||+|||.-.|--+..
T Consensus 186 D~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~ 218 (434)
T TIGR00665 186 DKLTSGLQPSDLIILAARPSMGKTAFALNIAEN 218 (434)
T ss_pred HhhcCCCCCCeEEEEEeCCCCChHHHHHHHHHH
Confidence 334445666778999999999999866644443
No 482
>PF12846 AAA_10: AAA-like domain
Probab=43.94 E-value=21 Score=39.33 Aligned_cols=21 Identities=33% Similarity=0.355 Sum_probs=17.3
Q ss_pred CCceEEeccCCCChhHHHHHH
Q 001656 35 KCNALLESPTGTGKTLCLLCA 55 (1036)
Q Consensus 35 ~k~~llEAPTGTGKTLa~L~~ 55 (1036)
+.|.++=++||+|||..+..-
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l 21 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNL 21 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHH
Confidence 368999999999999877733
No 483
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=43.77 E-value=8.1e+02 Score=31.64 Aligned_cols=67 Identities=19% Similarity=0.260 Sum_probs=48.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCC
Q 001656 13 FPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDS 92 (1036)
Q Consensus 13 FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~ 92 (1036)
....||+.|.--|-.+. .| -|.|..||.|||+...+|+...+.. +
T Consensus 75 lg~r~ydvQlig~l~Ll----~G--~VaEM~TGEGKTLvA~l~a~l~AL~-G---------------------------- 119 (764)
T PRK12326 75 LGLRPFDVQLLGALRLL----AG--DVIEMATGEGKTLAGAIAAAGYALQ-G---------------------------- 119 (764)
T ss_pred cCCCcchHHHHHHHHHh----CC--CcccccCCCCHHHHHHHHHHHHHHc-C----------------------------
Confidence 45779999988776654 33 4779999999999999888765532 2
Q ss_pred CCCeEEEEcCCHHHHHHHHHHHHh
Q 001656 93 KLPTILYTSRTHSQLRQVIQELKT 116 (1036)
Q Consensus 93 ~~pkIiy~TRThsQl~Qvv~ELrk 116 (1036)
..|.++|-|--+.+|-.++++.
T Consensus 120 --~~VhvvT~NdyLA~RDae~m~~ 141 (764)
T PRK12326 120 --RRVHVITVNDYLARRDAEWMGP 141 (764)
T ss_pred --CCeEEEcCCHHHHHHHHHHHHH
Confidence 3577778777776666666543
No 484
>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=43.73 E-value=25 Score=41.86 Aligned_cols=34 Identities=15% Similarity=0.082 Sum_probs=24.8
Q ss_pred HHHHHHHcCCceEEeccCCCChhHHHHHHHHHHH
Q 001656 27 KVIQSLQNKCNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 27 ~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
.+...|..|...++-|+||+|||.-.|--+...+
T Consensus 186 ~~~~G~~~g~liviag~pg~GKT~~al~ia~~~a 219 (421)
T TIGR03600 186 RLTNGLVKGDLIVIGARPSMGKTTLALNIAENVA 219 (421)
T ss_pred HHhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHH
Confidence 3344566678899999999999997765554443
No 485
>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional
Probab=43.66 E-value=5.7 Score=43.19 Aligned_cols=50 Identities=20% Similarity=0.195 Sum_probs=37.6
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 1 m~~~~i~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
|+.+.+.++.+.|+= . .....+-=.+..|+.+.|-+|.|+|||. |+-+|+
T Consensus 1 ~~~l~~~~l~~~~~~--~----~~l~~~sl~i~~Ge~~~l~G~nGsGKST--Ll~~l~ 50 (241)
T PRK10895 1 MATLTAKNLAKAYKG--R----RVVEDVSLTVNSGEIVGLLGPNGAGKTT--TFYMVV 50 (241)
T ss_pred CceEEEeCcEEEeCC--E----EEEeeeeEEEcCCcEEEEECCCCCCHHH--HHHHHh
Confidence 778889999988761 1 2344454556789999999999999997 666664
No 486
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=43.65 E-value=24 Score=45.04 Aligned_cols=34 Identities=21% Similarity=0.220 Sum_probs=26.3
Q ss_pred HHHHHHHH---HHHHHHHcC--CceEEeccCCCChhHHH
Q 001656 19 DCQLVYME---KVIQSLQNK--CNALLESPTGTGKTLCL 52 (1036)
Q Consensus 19 ~~Q~e~m~---~V~~aL~~~--k~~llEAPTGTGKTLa~ 52 (1036)
-+|...+. .+.+++..+ .+++|-+|+|||||...
T Consensus 31 vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA 69 (725)
T PRK13341 31 VGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLA 69 (725)
T ss_pred cCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHH
Confidence 48888874 566667666 47999999999999743
No 487
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=43.65 E-value=16 Score=45.70 Aligned_cols=33 Identities=21% Similarity=0.280 Sum_probs=27.2
Q ss_pred CHHHHHHHHHHHHHHHcC--CceEEeccCCCChhH
Q 001656 18 YDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTL 50 (1036)
Q Consensus 18 y~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTL 50 (1036)
--+|...|..+.+.+... .+++|-+|+|||||.
T Consensus 156 iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTT 190 (615)
T TIGR02903 156 IVGQERAIKALLAKVASPFPQHIILYGPPGVGKTT 190 (615)
T ss_pred ceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHH
Confidence 347888888888888644 569999999999997
No 488
>PF02375 JmjN: jmjN domain; InterPro: IPR003349 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with JmjC (see IPR003347 from INTERPRO).; PDB: 2XML_A 2W2I_C 3DXT_A 3DXU_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=43.63 E-value=18 Score=27.67 Aligned_cols=23 Identities=13% Similarity=0.421 Sum_probs=18.1
Q ss_pred CHHHHHHHHHHHHHHhhhhhchH
Q 001656 972 SATEYKEFVGFMKAMKSKAMKIS 994 (1036)
Q Consensus 972 ~~~~~~~~~~~~~~~~~~~~~~~ 994 (1036)
|.+|+++|.+||..+.+.+++-+
T Consensus 6 t~eEF~dp~~yi~~i~~~g~~~G 28 (34)
T PF02375_consen 6 TMEEFKDPIKYISSIEPEGEKYG 28 (34)
T ss_dssp -HHHHS-HHHHHHHHHHTTGGGS
T ss_pred CHHHHhCHHHHHHHHHHHHHHCC
Confidence 67999999999999998887643
No 489
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=43.57 E-value=2.7e+02 Score=36.52 Aligned_cols=20 Identities=25% Similarity=0.165 Sum_probs=16.5
Q ss_pred eEEEEccCCCChHHHHHHhC
Q 001656 437 SIILTSGTLSPMDSFAQELK 456 (1036)
Q Consensus 437 svIltSgTLsp~~~f~~~LG 456 (1036)
++|-|||||...+.++..|.
T Consensus 379 ~iIGMSATi~N~~lL~~~L~ 398 (1008)
T KOG0950|consen 379 QIIGMSATIPNNSLLQDWLD 398 (1008)
T ss_pred eEeeeecccCChHHHHHHhh
Confidence 58999999988877777765
No 490
>CHL00095 clpC Clp protease ATP binding subunit
Probab=43.39 E-value=27 Score=45.37 Aligned_cols=42 Identities=33% Similarity=0.362 Sum_probs=30.1
Q ss_pred CCHHHHHHHHHHHHHHHcC--CceEEeccCCCChhHHHHHHHHHHH
Q 001656 17 AYDCQLVYMEKVIQSLQNK--CNALLESPTGTGKTLCLLCATLAWR 60 (1036)
Q Consensus 17 py~~Q~e~m~~V~~aL~~~--k~~llEAPTGTGKTLa~L~~aLa~~ 60 (1036)
|--+..+-++.+.+.|... .+.+|-+|+|+|||. |+=+|++.
T Consensus 180 ~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTa--l~~~la~~ 223 (821)
T CHL00095 180 PVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTA--IAEGLAQR 223 (821)
T ss_pred CCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHH--HHHHHHHH
Confidence 3335566666777777543 689999999999999 55566554
No 491
>PF13173 AAA_14: AAA domain
Probab=43.37 E-value=18 Score=35.33 Aligned_cols=20 Identities=40% Similarity=0.544 Sum_probs=16.9
Q ss_pred cCCceEEeccCCCChhHHHH
Q 001656 34 NKCNALLESPTGTGKTLCLL 53 (1036)
Q Consensus 34 ~~k~~llEAPTGTGKTLa~L 53 (1036)
+++.++|.+|.|+|||..+.
T Consensus 1 n~~~~~l~G~R~vGKTtll~ 20 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLLK 20 (128)
T ss_pred CCCeEEEECCCCCCHHHHHH
Confidence 46889999999999998543
No 492
>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=43.32 E-value=19 Score=34.24 Aligned_cols=19 Identities=37% Similarity=0.730 Sum_probs=15.7
Q ss_pred eEEeccCCCChhHHHHHHHHH
Q 001656 38 ALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 38 ~llEAPTGTGKTLa~L~~aLa 58 (1036)
++|.+|+|+|||- ++-.|+
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 666664
No 493
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=43.28 E-value=15 Score=44.55 Aligned_cols=21 Identities=52% Similarity=0.721 Sum_probs=16.8
Q ss_pred CceEEeccCCCChhHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
+.+|+.+|.|||||+ |+.+++
T Consensus 277 ~giLl~GpPGtGKT~--lAkava 297 (494)
T COG0464 277 KGVLLYGPPGTGKTL--LAKAVA 297 (494)
T ss_pred CeeEEECCCCCCHHH--HHHHHH
Confidence 569999999999999 444543
No 494
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=42.95 E-value=26 Score=38.61 Aligned_cols=37 Identities=19% Similarity=0.252 Sum_probs=27.7
Q ss_pred HHHHHHHHcCCceEEeccCCCChhHHHHHHHHHHHhh
Q 001656 26 EKVIQSLQNKCNALLESPTGTGKTLCLLCATLAWRKS 62 (1036)
Q Consensus 26 ~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa~~~~ 62 (1036)
+.+...|..|...+|=|+||.|||.-+|--++.++..
T Consensus 10 D~~lgG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~ 46 (259)
T PF03796_consen 10 DRLLGGLRPGELTVIAARPGVGKTAFALQIALNAALN 46 (259)
T ss_dssp HHHHSSB-TT-EEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred HHHhcCCCcCcEEEEEecccCCchHHHHHHHHHHHHh
Confidence 4455556777899999999999999888777766654
No 495
>PRK06620 hypothetical protein; Validated
Probab=42.81 E-value=33 Score=37.06 Aligned_cols=15 Identities=33% Similarity=0.671 Sum_probs=13.5
Q ss_pred CceEEeccCCCChhH
Q 001656 36 CNALLESPTGTGKTL 50 (1036)
Q Consensus 36 k~~llEAPTGTGKTL 50 (1036)
..+++-+|+|+|||-
T Consensus 45 ~~l~l~Gp~G~GKTh 59 (214)
T PRK06620 45 FTLLIKGPSSSGKTY 59 (214)
T ss_pred ceEEEECCCCCCHHH
Confidence 348999999999998
No 496
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=42.80 E-value=32 Score=39.95 Aligned_cols=56 Identities=21% Similarity=0.236 Sum_probs=40.6
Q ss_pred CceEEeccCCCChhHHHHHHHHHHHhhhcCccccCccccccccCCCCccCCCCCCCCCCCeEEEEcCCHHHHHHHHHHHH
Q 001656 36 CNALLESPTGTGKTLCLLCATLAWRKSLGSFSTLGSQVNNQISGSQSSVNSSQSGDSKLPTILYTSRTHSQLRQVIQELK 115 (1036)
Q Consensus 36 k~~llEAPTGTGKTLa~L~~aLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~pkIiy~TRThsQl~Qvv~ELr 115 (1036)
+|+|..|..|||||.|+.+.-|.-.. ..-..|..+-...|..+..|..+=+.
T Consensus 130 ~nlIaQsqsGtGKTaaFvL~MLsrvd----------------------------~~~~~PQ~iCLaPtrELA~Q~~eVv~ 181 (477)
T KOG0332|consen 130 QNLIAQSQSGTGKTAAFVLTMLSRVD----------------------------PDVVVPQCICLAPTRELAPQTGEVVE 181 (477)
T ss_pred hhhhhhhcCCCchhHHHHHHHHHhcC----------------------------ccccCCCceeeCchHHHHHHHHHHHH
Confidence 88999999999999999877764221 11134666666888888888777666
Q ss_pred hcCC
Q 001656 116 TSNY 119 (1036)
Q Consensus 116 kl~~ 119 (1036)
..|-
T Consensus 182 eMGK 185 (477)
T KOG0332|consen 182 EMGK 185 (477)
T ss_pred HhcC
Confidence 5553
No 497
>PRK00300 gmk guanylate kinase; Provisional
Probab=42.76 E-value=19 Score=37.90 Aligned_cols=23 Identities=30% Similarity=0.527 Sum_probs=18.3
Q ss_pred HcCCceEEeccCCCChhHHHHHHHH
Q 001656 33 QNKCNALLESPTGTGKTLCLLCATL 57 (1036)
Q Consensus 33 ~~~k~~llEAPTGTGKTLa~L~~aL 57 (1036)
..|+.+++.+|+|+|||- |+..|
T Consensus 3 ~~g~~i~i~G~sGsGKst--l~~~l 25 (205)
T PRK00300 3 RRGLLIVLSGPSGAGKST--LVKAL 25 (205)
T ss_pred CCCCEEEEECCCCCCHHH--HHHHH
Confidence 357889999999999996 54444
No 498
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=42.48 E-value=5.2e+02 Score=34.24 Aligned_cols=83 Identities=16% Similarity=0.081 Sum_probs=57.6
Q ss_pred HHHHHHHHHHHHHHcCCcEEEEecCHHHHHHHHHHHhhcCCCCchhHHHHHhhcCCceecCCCCCChHHHHHHHHHHhcc
Q 001656 501 KQELGNTIVNIARIVPDGLLIFFPSYYLMDQCIACWKNTSHGNLTTIWERICKHKKPVVEPRQSSLFPLAIEDYMAKLKD 580 (1036)
Q Consensus 501 ~~~l~~~I~~l~~~vpggvLVfFpSy~~l~~v~~~~~~~~~~~~~~i~~~i~~~K~v~~E~~~~~~~~~~i~~f~~~i~~ 580 (1036)
+..|-+.|..... .+.++||+.+-.....+...+.+.+..- . .-|. ..+..+.+..++.|+.
T Consensus 600 f~kL~eLl~e~~e--~~~tiiFv~~qe~~d~l~~~L~~ag~~~---~----slHG-----gv~q~dR~sti~dfK~---- 661 (997)
T KOG0334|consen 600 FLKLLELLGERYE--DGKTIIFVDKQEKADALLRDLQKAGYNC---D----SLHG-----GVDQHDRSSTIEDFKN---- 661 (997)
T ss_pred HHHHHHHHHHHhh--cCCEEEEEcCchHHHHHHHHHHhcCcch---h----hhcC-----CCchHHHHhHHHHHhc----
Confidence 3456666666655 6899999999999999999998754320 0 0111 1122446678999985
Q ss_pred CCCCCeEEEEEccCCccccccCCCC
Q 001656 581 TSTSGAVFFAVCRGKVSEGLDFADH 605 (1036)
Q Consensus 581 ~~~~gaVLfaV~rGk~sEGIDf~gd 605 (1036)
+.-.+|+++ .-++.|+|++..
T Consensus 662 --~~~~LLvaT--svvarGLdv~~l 682 (997)
T KOG0334|consen 662 --GVVNLLVAT--SVVARGLDVKEL 682 (997)
T ss_pred --cCceEEEeh--hhhhcccccccc
Confidence 455677766 789999999984
No 499
>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=42.47 E-value=20 Score=34.10 Aligned_cols=20 Identities=30% Similarity=0.330 Sum_probs=15.3
Q ss_pred eEEeccCCCChhHHHHHHHHHH
Q 001656 38 ALLESPTGTGKTLCLLCATLAW 59 (1036)
Q Consensus 38 ~llEAPTGTGKTLa~L~~aLa~ 59 (1036)
++|.+++|+|||- |+-.|+.
T Consensus 1 I~i~G~~GsGKtT--ia~~L~~ 20 (129)
T PF13238_consen 1 IGISGIPGSGKTT--IAKELAE 20 (129)
T ss_dssp EEEEESTTSSHHH--HHHHHHH
T ss_pred CEEECCCCCCHHH--HHHHHHH
Confidence 5789999999998 5555543
No 500
>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional
Probab=42.39 E-value=10 Score=41.34 Aligned_cols=50 Identities=12% Similarity=0.196 Sum_probs=37.0
Q ss_pred CCeeeEcCeeecCCCCCCHHHHHHHHHHHHHHHcCCceEEeccCCCChhHHHHHHHHH
Q 001656 1 MPTYKIRGIDVEFPFEAYDCQLVYMEKVIQSLQNKCNALLESPTGTGKTLCLLCATLA 58 (1036)
Q Consensus 1 m~~~~i~gi~v~FPfepy~~Q~e~m~~V~~aL~~~k~~llEAPTGTGKTLa~L~~aLa 58 (1036)
|+.+.+.++.+.|+=. .....|-=.+..|+.+.|-+|.|+|||. |+-+|+
T Consensus 1 ~~~l~~~~l~~~~~~~------~~l~~vsl~i~~Ge~~~i~G~nGsGKST--Ll~~l~ 50 (241)
T PRK14250 1 MNEIEFKEVSYSSFGK------EILKDISVKFEGGAIYTIVGPSGAGKST--LIKLIN 50 (241)
T ss_pred CceEEEEeEEEEeCCe------eeeeeeeEEEcCCCEEEEECCCCCCHHH--HHHHHh
Confidence 7888999999887521 1344454556788999999999999997 656664
Done!