Query 002378
Match_columns 929
No_of_seqs 278 out of 1735
Neff 7.4
Searched_HMMs 46136
Date Thu Mar 28 22:41:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002378.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002378hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1133 Helicase of the DEAD s 100.0 1E-163 3E-168 1367.9 64.8 797 9-924 6-818 (821)
2 KOG1132 Helicase of the DEAD s 100.0 5E-130 1E-134 1125.4 52.0 701 10-923 13-759 (945)
3 TIGR00604 rad3 DNA repair heli 100.0 7E-123 2E-127 1129.9 63.1 670 12-914 3-703 (705)
4 KOG1131 RNA polymerase II tran 100.0 5E-94 1.1E-98 781.1 47.5 677 13-925 10-724 (755)
5 COG1199 DinG Rad3-related DNA 100.0 5.5E-67 1.2E-71 637.8 45.7 608 16-903 13-636 (654)
6 TIGR01407 dinG_rel DnaQ family 100.0 7.7E-62 1.7E-66 603.9 47.7 540 221-920 294-850 (850)
7 PRK08074 bifunctional ATP-depe 100.0 2E-61 4.4E-66 602.2 51.3 490 339-920 412-928 (928)
8 PRK11747 dinG ATP-dependent DN 100.0 1.2E-60 2.7E-65 578.5 52.3 471 340-896 201-690 (697)
9 PRK07246 bifunctional ATP-depe 100.0 1.5E-53 3.2E-58 523.0 48.1 421 340-921 395-820 (820)
10 TIGR03117 cas_csf4 CRISPR-asso 100.0 2.7E-52 5.8E-57 490.7 50.6 520 220-884 47-622 (636)
11 smart00488 DEXDc2 DEAD-like he 100.0 6.2E-53 1.3E-57 461.7 22.0 278 13-428 3-281 (289)
12 smart00489 DEXDc3 DEAD-like he 100.0 6.2E-53 1.3E-57 461.7 22.0 278 13-428 3-281 (289)
13 PF13307 Helicase_C_2: Helicas 100.0 6.9E-40 1.5E-44 331.1 10.7 166 677-900 1-166 (167)
14 PF06733 DEAD_2: DEAD_2; Inte 100.0 3.2E-39 6.8E-44 328.9 6.4 169 224-412 1-174 (174)
15 smart00491 HELICc2 helicase su 100.0 1.1E-34 2.4E-39 283.8 15.6 142 695-880 1-142 (142)
16 smart00492 HELICc3 helicase su 100.0 8.4E-32 1.8E-36 263.0 15.4 140 695-879 1-140 (141)
17 PRK11192 ATP-dependent RNA hel 99.4 4.4E-10 9.5E-15 131.3 30.6 87 677-789 236-324 (434)
18 PRK04537 ATP-dependent RNA hel 99.4 2.3E-10 5E-15 137.4 28.7 80 685-790 257-337 (572)
19 PRK10590 ATP-dependent RNA hel 99.3 4.7E-10 1E-14 131.7 29.1 79 685-789 245-324 (456)
20 PRK04837 ATP-dependent RNA hel 99.3 7.3E-10 1.6E-14 129.0 29.3 80 684-789 254-334 (423)
21 PRK11776 ATP-dependent RNA hel 99.3 1.6E-09 3.5E-14 127.5 29.7 81 684-789 241-321 (460)
22 PTZ00110 helicase; Provisional 99.2 2.3E-09 5E-14 128.3 28.5 90 673-789 366-456 (545)
23 PLN00206 DEAD-box ATP-dependen 99.2 3.1E-09 6.7E-14 126.7 29.2 79 686-789 368-447 (518)
24 PRK11634 ATP-dependent RNA hel 99.2 4.5E-09 9.6E-14 127.3 30.3 80 684-789 244-324 (629)
25 PRK01297 ATP-dependent RNA hel 99.2 1.8E-08 3.9E-13 119.1 30.5 79 686-789 336-414 (475)
26 PTZ00424 helicase 45; Provisio 99.1 2.3E-08 5E-13 115.5 29.4 79 685-789 267-346 (401)
27 PRK13767 ATP-dependent helicas 99.1 1.4E-08 2.9E-13 127.9 28.4 97 671-789 271-369 (876)
28 TIGR03817 DECH_helic helicase/ 99.0 1.9E-07 4.1E-12 115.4 30.4 96 674-789 261-358 (742)
29 PRK01172 ski2-like helicase; P 98.9 3.6E-07 7.8E-12 112.7 29.7 41 14-58 18-58 (674)
30 PRK09401 reverse gyrase; Revie 98.7 1.3E-06 2.9E-11 112.0 25.2 85 678-789 321-410 (1176)
31 TIGR01054 rgy reverse gyrase. 98.7 5.3E-06 1.1E-10 106.7 29.0 87 678-790 319-410 (1171)
32 cd00079 HELICc Helicase superf 98.1 3.4E-05 7.3E-10 73.8 11.6 93 670-789 14-107 (131)
33 TIGR00614 recQ_fam ATP-depende 97.5 0.0021 4.6E-08 76.1 16.8 82 683-789 223-305 (470)
34 cd00268 DEADc DEAD-box helicas 97.5 0.00016 3.4E-09 75.3 5.8 46 15-64 17-63 (203)
35 PF00270 DEAD: DEAD/DEAH box h 97.4 0.00018 3.9E-09 72.2 5.1 41 20-64 1-41 (169)
36 PF04851 ResIII: Type III rest 97.3 0.00025 5.4E-09 71.9 4.8 40 17-56 2-44 (184)
37 PRK10917 ATP-dependent DNA hel 97.3 0.00032 6.9E-09 86.6 6.3 50 14-63 257-308 (681)
38 PRK11057 ATP-dependent DNA hel 97.2 0.0061 1.3E-07 74.5 16.1 80 684-789 235-315 (607)
39 TIGR01389 recQ ATP-dependent D 97.2 0.0056 1.2E-07 74.7 15.8 80 685-789 224-303 (591)
40 TIGR00614 recQ_fam ATP-depende 97.2 0.00042 9E-09 82.1 5.4 41 15-59 7-48 (470)
41 KOG0345 ATP-dependent RNA heli 97.0 0.00062 1.3E-08 76.7 4.7 44 17-64 26-70 (567)
42 TIGR00580 mfd transcription-re 97.0 0.00086 1.9E-08 84.7 6.3 50 14-63 447-498 (926)
43 TIGR00643 recG ATP-dependent D 96.9 0.0011 2.4E-08 81.3 6.3 50 14-63 231-282 (630)
44 PRK11057 ATP-dependent DNA hel 96.9 0.00098 2.1E-08 81.3 5.2 41 15-59 21-62 (607)
45 KOG0348 ATP-dependent RNA heli 96.7 0.00077 1.7E-08 76.9 2.6 46 19-68 160-205 (708)
46 COG0513 SrmB Superfamily II DN 96.7 0.0016 3.5E-08 77.8 5.5 88 675-788 262-351 (513)
47 PLN03137 ATP-dependent DNA hel 96.7 0.035 7.6E-07 70.4 17.1 79 685-789 680-759 (1195)
48 TIGR01587 cas3_core CRISPR-ass 96.7 0.027 5.9E-07 64.1 14.8 70 684-775 221-295 (358)
49 TIGR01389 recQ ATP-dependent D 96.7 0.0019 4.1E-08 78.8 5.3 41 15-59 9-50 (591)
50 smart00487 DEXDc DEAD-like hel 96.6 0.0022 4.7E-08 65.1 4.7 46 15-63 5-50 (201)
51 PRK12899 secA preprotein trans 96.5 0.0023 5E-08 79.0 5.1 47 12-62 86-132 (970)
52 PRK11664 ATP-dependent RNA hel 96.4 0.018 4E-07 72.2 12.1 101 671-795 198-300 (812)
53 PRK02362 ski2-like helicase; P 96.4 0.052 1.1E-06 68.1 16.2 40 18-60 23-62 (737)
54 PLN03137 ATP-dependent DNA hel 96.4 0.0032 6.9E-08 79.4 5.3 41 16-60 457-498 (1195)
55 PHA02558 uvsW UvsW helicase; P 96.3 0.04 8.6E-07 65.9 13.5 78 683-785 342-420 (501)
56 PRK10689 transcription-repair 96.3 0.0053 1.2E-07 79.4 6.2 50 13-62 595-646 (1147)
57 COG1201 Lhr Lhr-like helicases 96.2 0.0057 1.2E-07 75.3 5.8 45 17-65 20-65 (814)
58 TIGR02621 cas3_GSU0051 CRISPR- 96.2 0.0041 8.9E-08 76.9 4.4 36 17-56 14-50 (844)
59 PRK00254 ski2-like helicase; P 96.1 0.085 1.8E-06 66.0 15.7 40 18-60 23-62 (720)
60 KOG0344 ATP-dependent RNA heli 96.1 0.0048 1.1E-07 71.7 4.2 50 14-67 153-203 (593)
61 TIGR01970 DEAH_box_HrpB ATP-de 96.0 0.046 1E-06 68.6 12.5 103 670-796 194-298 (819)
62 TIGR00580 mfd transcription-re 96.0 0.16 3.5E-06 64.7 17.2 80 685-788 660-740 (926)
63 TIGR01967 DEAH_box_HrpA ATP-de 96.0 0.053 1.1E-06 70.3 12.8 102 668-795 262-365 (1283)
64 COG1205 Distinct helicase fami 96.0 0.0078 1.7E-07 75.7 5.4 45 16-64 68-112 (851)
65 PRK02362 ski2-like helicase; P 95.9 0.0082 1.8E-07 75.1 5.3 18 29-46 59-76 (737)
66 PF00271 Helicase_C: Helicase 95.9 0.0083 1.8E-07 52.2 3.7 44 727-789 19-62 (78)
67 TIGR02621 cas3_GSU0051 CRISPR- 95.8 0.42 9.1E-06 59.7 19.5 89 673-776 260-354 (844)
68 KOG0331 ATP-dependent RNA heli 95.7 0.0052 1.1E-07 71.8 2.3 43 19-65 114-156 (519)
69 smart00490 HELICc helicase sup 95.7 0.018 3.9E-07 49.7 5.2 44 727-789 23-66 (82)
70 PRK00254 ski2-like helicase; P 95.7 0.012 2.6E-07 73.4 5.5 11 36-46 67-77 (720)
71 PHA02653 RNA helicase NPH-II; 95.6 0.47 1E-05 58.4 18.6 82 684-789 394-475 (675)
72 TIGR00603 rad25 DNA repair hel 95.5 0.31 6.7E-06 60.1 16.5 77 684-790 495-572 (732)
73 PRK09751 putative ATP-dependen 95.5 0.31 6.8E-06 64.4 17.5 86 685-789 244-356 (1490)
74 KOG0335 ATP-dependent RNA heli 95.4 0.015 3.3E-07 67.0 4.7 42 19-64 97-138 (482)
75 PRK05580 primosome assembly pr 95.0 0.033 7.2E-07 68.9 6.0 49 13-62 139-187 (679)
76 PRK14701 reverse gyrase; Provi 94.9 0.025 5.5E-07 75.4 5.1 43 15-61 76-118 (1638)
77 PF02562 PhoH: PhoH-like prote 94.9 0.029 6.3E-07 58.6 4.5 41 20-64 6-46 (205)
78 PRK11131 ATP-dependent RNA hel 94.8 0.3 6.5E-06 63.5 14.1 97 667-789 268-366 (1294)
79 PRK09694 helicase Cas3; Provis 94.8 0.029 6.4E-07 70.5 5.0 40 16-59 284-323 (878)
80 TIGR00643 recG ATP-dependent D 94.8 0.71 1.5E-05 56.9 16.8 80 685-788 448-536 (630)
81 KOG0350 DEAD-box ATP-dependent 94.7 0.021 4.5E-07 65.3 3.1 46 19-64 160-210 (620)
82 PRK10917 ATP-dependent DNA hel 94.7 0.58 1.3E-05 58.1 16.0 80 685-788 471-559 (681)
83 PRK05298 excinuclease ABC subu 94.5 0.26 5.6E-06 60.8 12.2 78 685-788 446-524 (652)
84 KOG0342 ATP-dependent RNA heli 94.5 0.015 3.2E-07 66.4 1.2 42 19-64 105-146 (543)
85 KOG0345 ATP-dependent RNA heli 94.4 0.3 6.4E-06 55.9 11.1 90 677-795 247-338 (567)
86 TIGR00963 secA preprotein tran 94.4 0.035 7.7E-07 67.8 4.1 85 668-778 389-473 (745)
87 PRK04914 ATP-dependent helicas 94.3 0.28 6.1E-06 62.4 12.1 82 685-789 493-575 (956)
88 PRK11448 hsdR type I restricti 94.2 0.36 7.9E-06 62.7 13.0 86 684-788 697-784 (1123)
89 TIGR03714 secA2 accessory Sec 94.2 0.036 7.9E-07 68.1 3.8 80 670-775 410-489 (762)
90 PRK12898 secA preprotein trans 94.2 0.044 9.5E-07 66.5 4.4 92 671-788 460-557 (656)
91 KOG0330 ATP-dependent RNA heli 94.2 0.038 8.2E-07 61.5 3.4 43 18-64 83-125 (476)
92 COG1061 SSL2 DNA or RNA helica 94.1 0.56 1.2E-05 55.2 13.2 77 684-786 282-358 (442)
93 PRK14701 reverse gyrase; Provi 94.1 0.45 9.7E-06 64.0 13.6 86 677-789 322-412 (1638)
94 PRK10689 transcription-repair 93.8 1.1 2.4E-05 58.6 16.3 78 685-786 809-887 (1147)
95 TIGR02640 gas_vesic_GvpN gas v 93.8 0.074 1.6E-06 58.0 4.8 37 17-53 1-37 (262)
96 TIGR00631 uvrb excinuclease AB 93.8 0.48 1E-05 58.3 12.3 76 685-786 442-518 (655)
97 TIGR03158 cas3_cyano CRISPR-as 93.3 0.077 1.7E-06 60.6 4.2 83 667-777 253-337 (357)
98 PRK11448 hsdR type I restricti 93.2 0.14 3E-06 66.5 6.6 47 16-62 411-458 (1123)
99 PRK09200 preprotein translocas 93.2 0.086 1.9E-06 65.4 4.5 81 669-775 413-493 (790)
100 PHA02653 RNA helicase NPH-II; 93.1 0.098 2.1E-06 64.2 4.9 33 21-53 163-195 (675)
101 TIGR03158 cas3_cyano CRISPR-as 93.1 0.92 2E-05 51.8 12.5 31 29-59 4-36 (357)
102 PRK11664 ATP-dependent RNA hel 93.0 0.097 2.1E-06 65.9 4.8 36 25-60 8-43 (812)
103 PRK12904 preprotein translocas 92.9 0.079 1.7E-06 65.7 3.6 84 668-777 414-497 (830)
104 KOG0343 RNA Helicase [RNA proc 92.8 1.4 3.1E-05 51.4 13.1 87 677-788 304-393 (758)
105 PRK13766 Hef nuclease; Provisi 92.5 0.87 1.9E-05 57.6 12.3 93 670-788 349-451 (773)
106 COG1061 SSL2 DNA or RNA helica 92.4 0.16 3.4E-06 59.8 5.2 43 13-55 31-73 (442)
107 COG4581 Superfamily II RNA hel 92.3 0.12 2.5E-06 65.3 4.0 39 14-56 115-153 (1041)
108 PRK10536 hypothetical protein; 92.3 0.15 3.3E-06 54.9 4.4 40 21-64 62-101 (262)
109 KOG0342 ATP-dependent RNA heli 92.2 1.2 2.5E-05 51.5 11.4 87 686-808 331-419 (543)
110 KOG0346 RNA helicase [RNA proc 92.2 0.13 2.9E-06 58.1 3.8 44 19-66 42-85 (569)
111 TIGR01970 DEAH_box_HrpB ATP-de 92.1 0.16 3.5E-06 63.9 4.9 38 25-62 5-42 (819)
112 PHA02558 uvsW UvsW helicase; P 92.0 0.2 4.4E-06 59.9 5.6 35 16-54 112-146 (501)
113 PF13245 AAA_19: Part of AAA d 91.9 0.2 4.2E-06 43.8 3.9 34 30-63 3-36 (76)
114 cd00046 DEXDc DEAD-like helica 91.7 0.15 3.2E-06 48.2 3.3 43 354-397 75-117 (144)
115 COG4098 comFA Superfamily II D 91.6 7.2 0.00016 43.5 16.1 77 684-786 304-380 (441)
116 KOG0338 ATP-dependent RNA heli 91.5 0.1 2.2E-06 59.9 2.2 43 17-63 201-244 (691)
117 PRK13104 secA preprotein trans 91.5 0.13 2.8E-06 64.1 3.1 81 668-775 428-509 (896)
118 COG0513 SrmB Superfamily II DN 91.4 3.1 6.6E-05 50.0 14.7 43 17-63 49-92 (513)
119 PHA02244 ATPase-like protein 91.3 0.37 8.1E-06 54.6 6.3 49 11-62 92-142 (383)
120 COG1110 Reverse gyrase [DNA re 91.2 1.2 2.7E-05 55.6 10.8 85 677-788 327-416 (1187)
121 COG0514 RecQ Superfamily II DN 90.6 0.22 4.8E-06 59.6 3.9 39 19-61 18-56 (590)
122 KOG0337 ATP-dependent RNA heli 90.4 0.13 2.7E-06 58.0 1.5 44 19-66 44-87 (529)
123 KOG0343 RNA Helicase [RNA proc 90.2 0.1 2.3E-06 60.4 0.7 43 19-65 92-134 (758)
124 COG1643 HrpA HrpA-like helicas 90.0 1.2 2.6E-05 55.9 9.5 39 669-707 243-281 (845)
125 KOG0336 ATP-dependent RNA heli 89.6 0.11 2.4E-06 58.1 0.3 41 19-63 243-283 (629)
126 PF13086 AAA_11: AAA domain; P 89.6 0.4 8.7E-06 50.3 4.5 38 220-257 54-95 (236)
127 KOG0333 U5 snRNP-like RNA heli 89.5 0.22 4.8E-06 57.5 2.5 83 670-778 505-587 (673)
128 PRK13107 preprotein translocas 89.4 0.22 4.9E-06 61.9 2.7 79 670-775 435-514 (908)
129 COG0714 MoxR-like ATPases [Gen 89.2 0.22 4.7E-06 56.2 2.3 44 16-61 22-65 (329)
130 TIGR01587 cas3_core CRISPR-ass 89.1 0.28 6.1E-06 55.8 3.2 23 39-61 1-23 (358)
131 TIGR00348 hsdR type I site-spe 89.0 0.45 9.9E-06 58.9 5.1 42 19-60 239-286 (667)
132 PRK13531 regulatory ATPase Rav 88.9 0.3 6.5E-06 57.2 3.2 31 22-52 24-54 (498)
133 KOG0340 ATP-dependent RNA heli 88.8 0.35 7.6E-06 53.5 3.4 44 17-64 28-71 (442)
134 cd00046 DEXDc DEAD-like helica 88.6 0.22 4.8E-06 47.0 1.6 21 38-58 1-21 (144)
135 COG1204 Superfamily II helicas 88.0 0.4 8.6E-06 59.9 3.6 45 18-65 31-75 (766)
136 cd00009 AAA The AAA+ (ATPases 87.8 0.82 1.8E-05 43.5 5.0 30 23-52 3-34 (151)
137 PRK13407 bchI magnesium chelat 87.4 0.46 9.9E-06 53.6 3.3 40 14-53 4-45 (334)
138 PRK12898 secA preprotein trans 87.3 5.9 0.00013 48.6 12.8 40 16-61 101-140 (656)
139 KOG0333 U5 snRNP-like RNA heli 87.3 6.7 0.00015 45.9 12.4 14 600-613 452-465 (673)
140 PRK13894 conjugal transfer ATP 86.8 0.82 1.8E-05 51.3 4.9 33 29-62 140-172 (319)
141 KOG0926 DEAH-box RNA helicase 86.1 1.9 4E-05 52.6 7.4 84 602-708 416-504 (1172)
142 TIGR00963 secA preprotein tran 86.1 13 0.00029 46.1 15.0 40 17-62 55-95 (745)
143 PRK06835 DNA replication prote 86.1 1.2 2.6E-05 50.2 5.8 37 22-58 160-204 (329)
144 KOG0334 RNA helicase [RNA proc 85.9 0.42 9E-06 59.6 2.1 43 18-64 387-429 (997)
145 PRK13900 type IV secretion sys 85.6 1 2.2E-05 50.8 5.0 38 24-62 147-184 (332)
146 PRK13766 Hef nuclease; Provisi 85.5 0.85 1.8E-05 57.7 4.7 42 16-62 13-54 (773)
147 PF01695 IstB_IS21: IstB-like 85.4 0.94 2E-05 46.4 4.2 50 12-61 19-71 (178)
148 PF04851 ResIII: Type III rest 85.3 0.39 8.5E-06 48.3 1.3 55 346-400 99-163 (184)
149 KOG0352 ATP-dependent DNA heli 84.6 0.7 1.5E-05 52.2 2.9 38 19-59 21-58 (641)
150 TIGR00603 rad25 DNA repair hel 84.5 1.3 2.8E-05 54.8 5.5 41 15-58 252-294 (732)
151 PRK09200 preprotein translocas 84.5 24 0.00053 44.4 16.4 37 17-59 77-113 (790)
152 COG0556 UvrB Helicase subunit 84.3 11 0.00024 44.3 12.3 84 670-778 432-516 (663)
153 KOG0389 SNF2 family DNA-depend 83.6 0.8 1.7E-05 55.5 3.0 68 334-401 464-542 (941)
154 KOG0353 ATP-dependent DNA heli 83.4 0.9 2E-05 50.3 3.1 36 21-60 97-132 (695)
155 COG1203 CRISPR-associated heli 83.2 1.2 2.7E-05 55.7 4.6 46 19-64 196-241 (733)
156 PRK11331 5-methylcytosine-spec 83.1 1.3 2.8E-05 51.7 4.3 29 24-52 181-209 (459)
157 PRK09183 transposase/IS protei 82.8 1.4 3E-05 48.0 4.3 41 11-52 75-117 (259)
158 PRK09694 helicase Cas3; Provis 82.8 29 0.00063 44.4 16.4 74 685-775 560-638 (878)
159 PRK06526 transposase; Provisio 82.8 1.4 3.1E-05 47.7 4.4 41 13-53 71-114 (254)
160 PRK12900 secA preprotein trans 82.5 19 0.00041 46.0 14.2 99 668-792 582-684 (1025)
161 TIGR02030 BchI-ChlI magnesium 82.5 1.7 3.7E-05 49.1 5.0 40 15-54 1-42 (337)
162 PF13872 AAA_34: P-loop contai 82.5 0.8 1.7E-05 50.4 2.3 39 358-397 136-186 (303)
163 KOG0332 ATP-dependent RNA heli 82.0 12 0.00027 42.1 11.0 143 601-789 265-409 (477)
164 smart00382 AAA ATPases associa 81.8 1.1 2.4E-05 42.1 2.8 22 37-58 2-23 (148)
165 PRK08181 transposase; Validate 81.7 2.6 5.6E-05 46.2 5.9 43 10-52 75-121 (269)
166 COG1219 ClpX ATP-dependent pro 81.6 0.97 2.1E-05 49.7 2.5 26 37-64 97-122 (408)
167 PF00176 SNF2_N: SNF2 family N 81.6 0.55 1.2E-05 51.5 0.6 41 354-395 103-146 (299)
168 PF12775 AAA_7: P-loop contain 81.1 1.7 3.7E-05 47.6 4.3 35 19-53 15-49 (272)
169 PRK12906 secA preprotein trans 80.8 1.5 3.2E-05 54.6 4.0 95 668-788 424-524 (796)
170 COG1203 CRISPR-associated heli 80.6 13 0.00027 46.9 12.2 72 685-776 440-512 (733)
171 KOG0991 Replication factor C, 80.6 2.6 5.7E-05 44.4 5.1 42 24-65 33-76 (333)
172 COG1202 Superfamily II helicas 80.4 31 0.00067 41.2 14.0 179 602-880 374-558 (830)
173 KOG0331 ATP-dependent RNA heli 80.0 8.2 0.00018 45.8 9.5 106 668-808 324-430 (519)
174 COG1474 CDC6 Cdc6-related prot 79.8 2.1 4.5E-05 49.0 4.5 35 19-53 21-58 (366)
175 PF00270 DEAD: DEAD/DEAH box h 79.4 0.6 1.3E-05 46.5 0.0 41 357-398 94-134 (169)
176 PRK15483 type III restriction- 79.4 2.9 6.3E-05 53.1 5.9 27 38-64 60-86 (986)
177 KOG0327 Translation initiation 79.4 1 2.2E-05 50.6 1.7 96 677-808 256-352 (397)
178 smart00489 DEXDc3 DEAD-like he 79.3 1.3 2.7E-05 49.2 2.5 43 220-266 62-104 (289)
179 smart00488 DEXDc2 DEAD-like he 79.3 1.3 2.7E-05 49.2 2.5 43 220-266 62-104 (289)
180 TIGR02688 conserved hypothetic 78.6 3.2 7E-05 48.0 5.5 31 21-51 193-223 (449)
181 PLN03142 Probable chromatin-re 78.4 14 0.00031 47.8 11.7 86 684-792 486-572 (1033)
182 PRK12402 replication factor C 78.4 2.4 5.2E-05 47.6 4.5 33 22-54 19-53 (337)
183 KOG0347 RNA helicase [RNA proc 78.3 0.76 1.6E-05 53.6 0.4 43 18-63 203-245 (731)
184 PF01078 Mg_chelatase: Magnesi 78.2 2.1 4.6E-05 44.7 3.6 32 22-53 7-38 (206)
185 COG1223 Predicted ATPase (AAA+ 77.9 1.1 2.5E-05 47.8 1.5 16 37-52 151-166 (368)
186 PRK09751 putative ATP-dependen 77.8 1.2 2.5E-05 59.3 1.9 23 42-64 1-23 (1490)
187 KOG0989 Replication factor C, 77.8 3 6.5E-05 45.8 4.7 38 20-57 38-77 (346)
188 CHL00081 chlI Mg-protoporyphyr 77.1 1.8 3.8E-05 49.2 2.9 42 11-52 10-53 (350)
189 KOG0348 ATP-dependent RNA heli 76.8 12 0.00026 44.1 9.2 110 670-808 409-536 (708)
190 PF13604 AAA_30: AAA domain; P 76.6 3.8 8.2E-05 42.6 5.0 39 21-63 4-43 (196)
191 PRK13851 type IV secretion sys 76.3 2.5 5.5E-05 47.9 3.9 28 26-53 151-178 (344)
192 PF00437 T2SE: Type II/IV secr 76.3 2.1 4.5E-05 46.7 3.1 36 28-64 118-153 (270)
193 PRK13833 conjugal transfer pro 76.3 2.7 5.8E-05 47.3 4.0 26 28-53 135-160 (323)
194 TIGR01650 PD_CobS cobaltochela 75.9 3.1 6.8E-05 46.6 4.4 29 24-52 51-79 (327)
195 PRK12326 preprotein translocas 75.9 2.8 6.1E-05 51.4 4.3 141 589-775 351-492 (764)
196 COG5271 MDN1 AAA ATPase contai 75.4 2.9 6.3E-05 54.8 4.2 34 19-52 1832-1865(4600)
197 COG2804 PulE Type II secretory 75.1 3 6.4E-05 49.0 4.0 44 20-67 243-287 (500)
198 smart00487 DEXDc DEAD-like hel 75.0 1.2 2.7E-05 44.7 0.9 37 360-397 107-143 (201)
199 cd01129 PulE-GspE PulE/GspE Th 74.9 4 8.6E-05 44.6 4.8 34 30-64 72-106 (264)
200 cd01130 VirB11-like_ATPase Typ 74.9 3.4 7.4E-05 42.4 4.1 29 22-53 13-41 (186)
201 PLN03025 replication factor C 74.7 3.7 8E-05 46.1 4.6 34 22-55 17-52 (319)
202 COG1205 Distinct helicase fami 74.4 21 0.00045 45.6 11.5 169 588-790 214-394 (851)
203 TIGR02782 TrbB_P P-type conjug 74.4 3.4 7.3E-05 46.0 4.2 26 28-53 123-148 (299)
204 PRK06921 hypothetical protein; 74.4 4.4 9.5E-05 44.3 5.0 19 36-54 116-134 (266)
205 COG0556 UvrB Helicase subunit 74.2 2.7 5.9E-05 49.2 3.4 46 14-64 8-54 (663)
206 TIGR03714 secA2 accessory Sec 74.1 89 0.0019 39.3 16.5 36 18-59 70-105 (762)
207 PF07724 AAA_2: AAA domain (Cd 73.5 2.6 5.6E-05 42.9 2.7 15 38-52 4-18 (171)
208 KOG0327 Translation initiation 73.4 23 0.0005 40.1 10.2 22 771-792 306-327 (397)
209 PRK05201 hslU ATP-dependent pr 72.8 4.6 9.9E-05 46.8 4.8 30 22-51 19-64 (443)
210 KOG0952 DNA/RNA helicase MER3/ 72.7 78 0.0017 40.6 15.2 197 602-877 277-490 (1230)
211 KOG0328 Predicted ATP-dependen 72.6 0.89 1.9E-05 48.9 -0.9 46 14-63 44-90 (400)
212 PRK04914 ATP-dependent helicas 72.3 2.3 5.1E-05 54.3 2.6 38 358-396 247-285 (956)
213 TIGR03015 pepcterm_ATPase puta 72.0 4.6 0.0001 43.7 4.5 33 20-52 25-58 (269)
214 TIGR02928 orc1/cdc6 family rep 71.9 7.8 0.00017 44.1 6.5 24 38-62 41-64 (365)
215 PF05970 PIF1: PIF1-like helic 71.6 4.2 9.2E-05 46.6 4.2 34 21-54 4-39 (364)
216 COG1643 HrpA HrpA-like helicas 71.5 3.1 6.8E-05 52.3 3.3 29 25-53 53-81 (845)
217 COG4889 Predicted helicase [Ge 71.4 2.7 5.9E-05 51.7 2.6 44 768-873 538-583 (1518)
218 PRK10436 hypothetical protein; 70.9 5.7 0.00012 46.9 5.2 28 36-64 217-244 (462)
219 TIGR02538 type_IV_pilB type IV 70.6 5.5 0.00012 48.4 5.1 31 32-63 310-341 (564)
220 TIGR03420 DnaA_homol_Hda DnaA 70.5 4.4 9.4E-05 42.6 3.8 33 22-54 21-55 (226)
221 COG0630 VirB11 Type IV secreto 70.2 4.5 9.9E-05 45.3 4.0 38 26-64 132-169 (312)
222 KOG0344 ATP-dependent RNA heli 69.9 19 0.00041 42.8 8.9 77 684-784 386-462 (593)
223 PRK07952 DNA replication prote 69.9 9.8 0.00021 41.1 6.3 54 9-63 63-124 (244)
224 PRK05342 clpX ATP-dependent pr 69.8 4.2 9.2E-05 47.3 3.7 23 37-61 108-130 (412)
225 PF07728 AAA_5: AAA domain (dy 69.6 2.1 4.6E-05 41.4 1.1 23 39-63 1-23 (139)
226 PRK14956 DNA polymerase III su 69.6 5.5 0.00012 47.0 4.6 34 21-54 21-57 (484)
227 TIGR00376 DNA helicase, putati 69.5 5.1 0.00011 49.4 4.5 42 19-63 158-199 (637)
228 PRK00440 rfc replication facto 69.2 5.7 0.00012 44.1 4.6 36 20-55 19-56 (319)
229 COG1484 DnaC DNA replication p 69.1 8.7 0.00019 41.7 5.8 44 11-54 77-122 (254)
230 KOG0326 ATP-dependent RNA heli 69.1 0.71 1.5E-05 50.4 -2.5 45 16-64 104-149 (459)
231 PRK11131 ATP-dependent RNA hel 69.0 4.4 9.5E-05 53.2 4.0 28 26-53 78-105 (1294)
232 CHL00122 secA preprotein trans 68.9 4.3 9.3E-05 50.8 3.7 36 17-58 75-110 (870)
233 KOG0952 DNA/RNA helicase MER3/ 68.8 3.9 8.4E-05 51.4 3.3 47 15-64 106-153 (1230)
234 PRK13103 secA preprotein trans 68.8 3.8 8.2E-05 51.5 3.2 37 17-59 81-117 (913)
235 KOG0339 ATP-dependent RNA heli 68.6 34 0.00074 40.2 10.3 90 667-784 452-542 (731)
236 PF05673 DUF815: Protein of un 68.3 9.1 0.0002 41.1 5.5 45 19-64 31-78 (249)
237 COG1200 RecG RecG-like helicas 68.2 5 0.00011 48.6 3.9 51 14-64 258-310 (677)
238 COG1204 Superfamily II helicas 68.2 38 0.00083 42.7 11.8 94 601-706 181-274 (766)
239 PRK14962 DNA polymerase III su 68.1 6.2 0.00013 46.8 4.7 33 21-53 17-52 (472)
240 PRK12377 putative replication 68.1 9.9 0.00021 41.1 5.9 44 9-52 65-116 (248)
241 PRK08769 DNA polymerase III su 68.0 7.7 0.00017 43.6 5.2 38 19-56 5-45 (319)
242 KOG0328 Predicted ATP-dependen 67.6 39 0.00085 36.8 9.9 76 686-788 267-344 (400)
243 COG0606 Predicted ATPase with 67.6 4.8 0.0001 46.9 3.5 32 22-53 183-214 (490)
244 PHA00729 NTP-binding motif con 67.6 5.3 0.00011 42.5 3.6 24 28-51 6-31 (226)
245 PF13401 AAA_22: AAA domain; P 67.4 2.8 6.1E-05 39.8 1.4 20 35-54 2-21 (131)
246 PRK08939 primosomal protein Dn 67.3 10 0.00022 42.4 5.9 40 14-54 128-173 (306)
247 KOG0354 DEAD-box like helicase 67.3 6.3 0.00014 48.5 4.5 42 19-65 63-104 (746)
248 PRK00411 cdc6 cell division co 66.7 5.6 0.00012 45.8 4.0 17 38-54 56-72 (394)
249 KOG0351 ATP-dependent DNA heli 66.6 2.3 4.9E-05 54.2 0.7 35 21-59 267-301 (941)
250 TIGR02902 spore_lonB ATP-depen 66.5 5.1 0.00011 48.3 3.7 34 19-52 66-101 (531)
251 COG4096 HsdR Type I site-speci 66.4 5.3 0.00012 49.3 3.7 37 19-55 166-203 (875)
252 PF00158 Sigma54_activat: Sigm 66.3 5.2 0.00011 40.5 3.2 27 26-52 11-37 (168)
253 TIGR01967 DEAH_box_HrpA ATP-de 66.1 5.4 0.00012 52.5 4.0 34 19-53 65-98 (1283)
254 TIGR02639 ClpA ATP-dependent C 66.1 5.6 0.00012 50.0 4.1 30 22-51 458-498 (731)
255 TIGR00382 clpX endopeptidase C 66.1 5.9 0.00013 46.1 3.9 21 38-60 117-137 (413)
256 TIGR00390 hslU ATP-dependent p 66.0 5.5 0.00012 46.2 3.6 39 22-62 16-70 (441)
257 PRK05580 primosome assembly pr 65.9 13 0.00029 46.2 7.2 43 728-789 467-509 (679)
258 PRK14961 DNA polymerase III su 65.6 7.8 0.00017 44.4 4.8 33 22-54 20-55 (363)
259 TIGR00595 priA primosomal prot 65.5 3.7 8E-05 49.2 2.2 18 41-58 1-18 (505)
260 PRK14955 DNA polymerase III su 65.2 7.8 0.00017 45.0 4.7 34 21-54 19-55 (397)
261 TIGR02524 dot_icm_DotB Dot/Icm 65.1 6.6 0.00014 44.9 4.0 27 36-63 133-159 (358)
262 PRK14952 DNA polymerase III su 65.1 7.2 0.00016 47.4 4.5 35 22-56 17-54 (584)
263 KOG0922 DEAH-box RNA helicase 65.0 34 0.00074 41.5 9.8 49 660-708 232-281 (674)
264 TIGR00595 priA primosomal prot 64.5 18 0.00039 43.4 7.7 42 728-788 299-340 (505)
265 PF07517 SecA_DEAD: SecA DEAD- 64.3 7.8 0.00017 42.3 4.2 38 15-58 74-111 (266)
266 KOG0729 26S proteasome regulat 64.3 5.5 0.00012 42.8 2.9 34 21-54 183-228 (435)
267 PRK08903 DnaA regulatory inact 64.3 6.7 0.00015 41.5 3.7 16 36-51 41-56 (227)
268 KOG4439 RNA polymerase II tran 64.1 0.93 2E-05 54.3 -3.0 91 675-789 736-828 (901)
269 KOG2373 Predicted mitochondria 64.1 3.4 7.4E-05 45.9 1.4 27 26-52 262-288 (514)
270 PRK14950 DNA polymerase III su 64.0 7 0.00015 47.8 4.2 36 21-56 19-57 (585)
271 KOG0922 DEAH-box RNA helicase 63.8 6 0.00013 47.6 3.4 28 25-52 54-81 (674)
272 PF06309 Torsin: Torsin; Inte 63.8 8.9 0.00019 36.9 4.0 29 24-52 35-68 (127)
273 TIGR02880 cbbX_cfxQ probable R 63.7 3.9 8.5E-05 45.1 1.8 16 38-53 59-74 (284)
274 PF13191 AAA_16: AAA ATPase do 63.6 4.2 9E-05 41.0 1.9 18 35-52 22-39 (185)
275 COG1111 MPH1 ERCC4-like helica 63.4 1E+02 0.0022 36.5 13.0 96 671-791 351-455 (542)
276 TIGR00764 lon_rel lon-related 63.2 6.9 0.00015 48.0 4.0 39 15-53 15-53 (608)
277 PF00308 Bac_DnaA: Bacterial d 63.0 14 0.0003 39.2 5.7 25 39-64 36-60 (219)
278 PRK14963 DNA polymerase III su 62.9 8.4 0.00018 46.1 4.5 35 21-55 17-54 (504)
279 PRK14722 flhF flagellar biosyn 62.9 6.5 0.00014 45.1 3.4 24 35-58 135-158 (374)
280 PF05496 RuvB_N: Holliday junc 62.7 7.9 0.00017 41.1 3.7 43 18-66 24-73 (233)
281 TIGR02442 Cob-chelat-sub cobal 62.4 7.1 0.00015 48.2 3.9 39 15-53 1-41 (633)
282 KOG0744 AAA+-type ATPase [Post 62.3 4.3 9.3E-05 44.9 1.7 22 37-60 177-198 (423)
283 TIGR03346 chaperone_ClpB ATP-d 62.2 5.7 0.00012 50.8 3.1 40 20-61 567-617 (852)
284 KOG0745 Putative ATP-dependent 62.0 4.3 9.2E-05 46.6 1.7 27 36-64 225-251 (564)
285 PRK12902 secA preprotein trans 61.9 6.8 0.00015 49.2 3.5 36 17-58 84-119 (939)
286 KOG0341 DEAD-box protein abstr 61.3 22 0.00047 40.2 6.8 98 676-808 412-510 (610)
287 COG1222 RPT1 ATP-dependent 26S 61.1 4.5 9.8E-05 45.4 1.7 16 37-52 185-200 (406)
288 PF02562 PhoH: PhoH-like prote 61.1 4.7 0.0001 42.2 1.8 36 352-395 96-131 (205)
289 PRK06645 DNA polymerase III su 60.9 10 0.00022 45.4 4.7 35 21-55 24-61 (507)
290 PRK13342 recombination factor 60.7 7.5 0.00016 45.3 3.6 34 20-53 14-52 (413)
291 KOG0349 Putative DEAD-box RNA 60.7 3.2 6.9E-05 47.1 0.4 52 19-74 25-76 (725)
292 TIGR02881 spore_V_K stage V sp 60.1 4.5 9.8E-05 44.0 1.5 16 38-53 43-58 (261)
293 PRK14958 DNA polymerase III su 59.8 9.8 0.00021 45.6 4.4 33 21-53 19-54 (509)
294 PF02367 UPF0079: Uncharacteri 59.8 6.8 0.00015 37.6 2.4 27 25-51 3-29 (123)
295 TIGR02788 VirB11 P-type DNA tr 59.4 9.2 0.0002 42.7 3.8 32 30-62 137-168 (308)
296 CHL00095 clpC Clp protease ATP 59.3 8.9 0.00019 48.9 4.1 37 22-60 513-560 (821)
297 PRK10536 hypothetical protein; 59.3 5.5 0.00012 43.2 1.9 31 358-396 159-189 (262)
298 KOG1002 Nucleotide excision re 59.2 4.3 9.3E-05 46.9 1.1 58 344-401 258-334 (791)
299 TIGR00635 ruvB Holliday juncti 59.1 12 0.00026 41.5 4.7 32 22-53 8-46 (305)
300 KOG0347 RNA helicase [RNA proc 59.0 18 0.00038 42.9 5.9 74 680-776 458-531 (731)
301 COG2805 PilT Tfp pilus assembl 58.8 8 0.00017 42.6 3.0 50 15-66 101-153 (353)
302 cd00984 DnaB_C DnaB helicase C 58.8 7 0.00015 41.6 2.7 35 29-63 5-39 (242)
303 PRK00080 ruvB Holliday junctio 58.8 7.2 0.00016 43.9 2.9 36 20-55 27-69 (328)
304 PF00580 UvrD-helicase: UvrD/R 58.8 9.4 0.0002 41.9 3.8 37 21-63 3-39 (315)
305 TIGR00631 uvrb excinuclease AB 58.4 11 0.00024 46.6 4.6 41 14-54 5-46 (655)
306 PRK11034 clpA ATP-dependent Cl 57.9 7.4 0.00016 48.8 3.0 31 22-52 462-503 (758)
307 COG1419 FlhF Flagellar GTP-bin 57.8 8 0.00017 44.4 3.0 18 37-54 203-220 (407)
308 cd01124 KaiC KaiC is a circadi 57.5 8.4 0.00018 39.0 2.9 24 39-62 1-24 (187)
309 TIGR02525 plasmid_TraJ plasmid 57.3 11 0.00024 43.3 4.0 28 36-64 148-175 (372)
310 cd00268 DEADc DEAD-box helicas 57.2 4.9 0.00011 41.4 1.1 24 219-242 69-92 (203)
311 PTZ00112 origin recognition co 56.9 13 0.00027 46.9 4.6 35 22-56 762-800 (1164)
312 PRK09112 DNA polymerase III su 56.9 16 0.00034 41.7 5.2 33 22-54 27-62 (351)
313 KOG4284 DEAD box protein [Tran 56.7 2.8 6.1E-05 49.9 -0.8 42 19-64 48-89 (980)
314 PF13481 AAA_25: AAA domain; P 56.5 9.3 0.0002 39.0 3.0 29 35-63 30-58 (193)
315 PTZ00361 26 proteosome regulat 56.5 10 0.00022 44.5 3.6 18 36-53 216-233 (438)
316 PRK10865 protein disaggregatio 56.3 7.2 0.00016 49.9 2.5 33 20-52 570-613 (857)
317 PF06862 DUF1253: Protein of u 56.2 41 0.00089 39.4 8.4 88 682-792 297-384 (442)
318 TIGR03499 FlhF flagellar biosy 55.5 20 0.00044 39.4 5.7 18 37-54 194-211 (282)
319 PRK14954 DNA polymerase III su 55.5 14 0.0003 45.4 4.6 33 22-54 20-55 (620)
320 TIGR02397 dnaX_nterm DNA polym 55.2 13 0.00029 42.0 4.3 34 20-53 16-52 (355)
321 PRK03992 proteasome-activating 55.2 10 0.00022 43.8 3.4 21 38-60 166-186 (389)
322 KOG4150 Predicted ATP-dependen 55.1 2.2E+02 0.0049 34.1 13.7 150 602-789 453-612 (1034)
323 cd01131 PilT Pilus retraction 55.1 10 0.00022 39.4 3.0 25 38-63 2-26 (198)
324 KOG0336 ATP-dependent RNA heli 55.0 29 0.00062 39.6 6.5 91 684-808 464-554 (629)
325 PTZ00454 26S protease regulato 54.9 9.4 0.0002 44.3 3.0 48 12-61 139-201 (398)
326 COG1110 Reverse gyrase [DNA re 54.9 15 0.00033 46.5 4.8 44 15-62 79-122 (1187)
327 TIGR00150 HI0065_YjeE ATPase, 54.9 10 0.00022 36.9 2.8 27 25-51 10-36 (133)
328 TIGR02533 type_II_gspE general 54.6 12 0.00026 44.6 3.9 33 30-63 234-267 (486)
329 KOG0243 Kinesin-like protein [ 54.5 9.7 0.00021 48.3 3.2 40 15-54 97-146 (1041)
330 PRK13765 ATP-dependent proteas 54.5 15 0.00032 45.2 4.7 40 15-54 28-67 (637)
331 PRK14969 DNA polymerase III su 54.3 15 0.00032 44.4 4.6 33 22-54 20-55 (527)
332 PF14532 Sigma54_activ_2: Sigm 54.2 14 0.0003 35.9 3.6 25 28-52 12-36 (138)
333 PF01580 FtsK_SpoIIIE: FtsK/Sp 54.2 10 0.00022 39.4 2.9 31 34-64 35-65 (205)
334 PF13555 AAA_29: P-loop contai 54.2 8 0.00017 32.4 1.7 25 37-63 23-47 (62)
335 TIGR03689 pup_AAA proteasome A 54.1 14 0.00031 44.2 4.3 23 37-61 216-238 (512)
336 CHL00181 cbbX CbbX; Provisiona 54.0 9.5 0.00021 42.2 2.7 19 37-55 59-77 (287)
337 CHL00176 ftsH cell division pr 54.0 11 0.00023 46.6 3.4 44 15-60 180-237 (638)
338 PHA00547 hypothetical protein 53.8 23 0.0005 38.3 5.3 37 27-63 65-101 (337)
339 TIGR01420 pilT_fam pilus retra 53.8 8.6 0.00019 43.7 2.4 20 35-54 120-139 (343)
340 PRK13764 ATPase; Provisional 53.7 9.8 0.00021 46.3 3.0 28 35-63 255-282 (602)
341 PF01745 IPT: Isopentenyl tran 53.7 5.8 0.00013 41.6 0.9 14 39-52 3-16 (233)
342 KOG0341 DEAD-box protein abstr 53.5 2.7 5.9E-05 47.1 -1.5 44 18-65 192-235 (610)
343 PRK14957 DNA polymerase III su 53.1 16 0.00035 44.1 4.7 34 21-54 19-55 (546)
344 TIGR03263 guanyl_kin guanylate 52.9 7.5 0.00016 39.3 1.6 16 37-52 1-16 (180)
345 TIGR01241 FtsH_fam ATP-depende 52.7 11 0.00024 45.0 3.3 41 19-61 59-110 (495)
346 PRK08116 hypothetical protein; 52.5 28 0.0006 38.1 6.0 33 20-52 90-129 (268)
347 PRK05896 DNA polymerase III su 52.3 16 0.00034 44.6 4.3 37 20-56 18-57 (605)
348 TIGR03819 heli_sec_ATPase heli 52.2 16 0.00034 41.6 4.2 25 30-54 171-195 (340)
349 PRK14729 miaA tRNA delta(2)-is 52.0 6.5 0.00014 43.7 1.0 17 36-52 3-19 (300)
350 smart00763 AAA_PrkA PrkA AAA d 51.9 16 0.00035 41.5 4.2 34 19-52 56-93 (361)
351 KOG0731 AAA+-type ATPase conta 51.8 7.2 0.00016 48.2 1.4 15 38-52 345-359 (774)
352 TIGR00348 hsdR type I site-spe 51.8 1.5E+02 0.0033 36.9 13.0 19 756-776 591-609 (667)
353 PF00448 SRP54: SRP54-type pro 51.7 7 0.00015 40.7 1.2 18 38-55 2-19 (196)
354 PF00004 AAA: ATPase family as 51.7 11 0.00025 35.3 2.6 13 40-52 1-13 (132)
355 PF07726 AAA_3: ATPase family 51.7 7.3 0.00016 37.7 1.2 17 39-55 1-17 (131)
356 TIGR02639 ClpA ATP-dependent C 51.6 12 0.00026 47.0 3.5 36 18-53 182-219 (731)
357 PRK12723 flagellar biosynthesi 51.6 22 0.00048 41.0 5.3 22 37-58 174-195 (388)
358 PRK14949 DNA polymerase III su 51.6 16 0.00035 46.2 4.4 35 22-56 20-57 (944)
359 PRK14948 DNA polymerase III su 51.4 14 0.00031 45.4 3.9 37 20-56 18-57 (620)
360 PF02399 Herpes_ori_bp: Origin 51.4 3.6E+02 0.0079 34.1 15.6 29 851-880 363-391 (824)
361 KOG1803 DNA helicase [Replicat 51.0 13 0.00029 44.4 3.4 47 15-64 182-228 (649)
362 PRK14960 DNA polymerase III su 50.8 17 0.00037 44.6 4.3 33 22-54 19-54 (702)
363 PRK05298 excinuclease ABC subu 50.7 21 0.00046 44.3 5.3 43 13-55 7-50 (652)
364 PRK09111 DNA polymerase III su 50.3 18 0.0004 44.2 4.6 35 22-56 28-65 (598)
365 PRK12323 DNA polymerase III su 50.3 18 0.00039 44.3 4.4 33 22-54 20-55 (700)
366 PF12774 AAA_6: Hydrolytic ATP 50.2 17 0.00037 38.9 3.9 34 20-53 15-48 (231)
367 PF13177 DNA_pol3_delta2: DNA 49.9 26 0.00056 35.2 4.9 33 23-55 2-37 (162)
368 PRK08691 DNA polymerase III su 49.8 19 0.00042 44.4 4.6 35 21-55 19-56 (709)
369 KOG0738 AAA+-type ATPase [Post 49.8 10 0.00022 43.1 2.1 48 369-420 381-429 (491)
370 PRK05703 flhF flagellar biosyn 49.8 13 0.00027 43.7 3.0 26 36-61 220-245 (424)
371 PRK06871 DNA polymerase III su 49.7 25 0.00054 39.6 5.2 36 19-54 3-41 (325)
372 COG5271 MDN1 AAA ATPase contai 49.5 22 0.00047 47.6 5.0 36 19-54 869-905 (4600)
373 PRK08084 DNA replication initi 49.3 17 0.00036 38.9 3.6 31 22-52 28-60 (235)
374 PRK07003 DNA polymerase III su 49.1 19 0.00042 44.8 4.5 32 22-53 20-54 (830)
375 TIGR03238 dnd_assoc_3 dnd syst 49.0 10 0.00023 44.6 2.1 36 17-52 9-47 (504)
376 PRK14953 DNA polymerase III su 48.9 21 0.00045 42.7 4.6 34 20-53 18-54 (486)
377 PRK06090 DNA polymerase III su 48.8 26 0.00057 39.3 5.2 35 18-52 3-40 (319)
378 PRK04296 thymidine kinase; Pro 48.3 13 0.00029 38.2 2.6 25 37-61 2-26 (190)
379 COG1221 PspF Transcriptional r 48.2 13 0.00028 42.9 2.7 28 26-53 86-117 (403)
380 CHL00195 ycf46 Ycf46; Provisio 47.6 12 0.00025 44.7 2.3 23 37-61 259-281 (489)
381 PRK08727 hypothetical protein; 47.5 14 0.00031 39.4 2.8 15 38-52 42-56 (233)
382 KOG0920 ATP-dependent RNA heli 47.3 22 0.00048 45.1 4.7 104 603-712 322-440 (924)
383 PF12846 AAA_10: AAA-like doma 47.2 17 0.00036 39.7 3.3 24 38-61 2-25 (304)
384 COG0470 HolB ATPase involved i 47.1 24 0.00051 39.2 4.6 37 20-56 4-43 (325)
385 PRK06305 DNA polymerase III su 47.1 24 0.00051 41.7 4.8 36 20-55 19-57 (451)
386 PRK06647 DNA polymerase III su 46.9 21 0.00045 43.5 4.3 35 22-56 20-57 (563)
387 PF06745 KaiC: KaiC; InterPro 46.8 18 0.00039 38.2 3.4 18 35-52 17-34 (226)
388 TIGR00750 lao LAO/AO transport 46.7 20 0.00043 39.9 3.9 29 24-52 21-49 (300)
389 KOG1132 Helicase of the DEAD s 46.6 12 0.00026 46.6 2.2 95 581-684 391-487 (945)
390 PRK07994 DNA polymerase III su 46.6 22 0.00049 43.7 4.5 34 22-55 20-56 (647)
391 PRK00300 gmk guanylate kinase; 46.5 11 0.00023 39.1 1.6 17 35-51 3-19 (205)
392 TIGR03881 KaiC_arch_4 KaiC dom 46.1 16 0.00035 38.6 2.9 24 33-56 16-39 (229)
393 PRK07133 DNA polymerase III su 46.1 22 0.00048 44.2 4.4 35 21-55 21-58 (725)
394 KOG0742 AAA+-type ATPase [Post 46.1 11 0.00023 43.1 1.5 16 38-53 385-400 (630)
395 cd01122 GP4d_helicase GP4d_hel 46.0 16 0.00034 39.8 2.9 32 30-61 23-54 (271)
396 PF13173 AAA_14: AAA domain 45.8 15 0.00033 35.1 2.4 19 36-54 1-19 (128)
397 PF13476 AAA_23: AAA domain; P 45.5 13 0.00029 37.7 2.1 25 38-64 20-44 (202)
398 KOG0346 RNA helicase [RNA proc 45.3 2.6E+02 0.0055 32.8 12.0 77 602-697 203-280 (569)
399 TIGR01243 CDC48 AAA family ATP 45.3 21 0.00045 45.0 4.2 23 37-61 212-234 (733)
400 TIGR02903 spore_lon_C ATP-depe 45.2 15 0.00032 45.3 2.7 32 21-52 157-190 (615)
401 PRK14964 DNA polymerase III su 45.2 27 0.00058 41.7 4.8 33 22-54 17-52 (491)
402 TIGR01817 nifA Nif-specific re 44.8 19 0.0004 43.6 3.5 31 22-52 200-234 (534)
403 PRK06995 flhF flagellar biosyn 44.5 28 0.0006 41.4 4.7 26 36-61 255-280 (484)
404 TIGR01242 26Sp45 26S proteasom 44.5 20 0.00042 41.1 3.5 16 38-53 157-172 (364)
405 cd01375 KISc_KIF9_like Kinesin 44.3 16 0.00035 41.3 2.7 38 17-55 56-99 (334)
406 PRK07764 DNA polymerase III su 44.3 24 0.00051 44.9 4.4 37 22-58 19-58 (824)
407 PRK11608 pspF phage shock prot 44.1 24 0.00053 39.7 4.1 30 23-52 15-44 (326)
408 PF13238 AAA_18: AAA domain; P 44.1 11 0.00023 35.4 1.0 13 40-52 1-13 (129)
409 KOG0947 Cytoplasmic exosomal R 43.8 24 0.00051 44.5 4.0 39 12-54 291-329 (1248)
410 PF14516 AAA_35: AAA-like doma 43.8 29 0.00063 39.2 4.7 45 19-64 11-57 (331)
411 PF02534 T4SS-DNA_transf: Type 43.7 9.1 0.0002 45.3 0.6 22 38-59 45-66 (469)
412 COG2256 MGS1 ATPase related to 43.6 16 0.00036 41.7 2.5 32 20-51 26-62 (436)
413 PRK12903 secA preprotein trans 43.6 22 0.00049 44.7 3.9 35 17-57 77-111 (925)
414 PRK14951 DNA polymerase III su 43.5 27 0.00059 42.8 4.6 35 22-56 20-57 (618)
415 KOG0951 RNA helicase BRR2, DEA 43.3 21 0.00046 46.1 3.7 40 28-67 315-355 (1674)
416 PRK14970 DNA polymerase III su 43.3 22 0.00049 40.5 3.7 36 18-53 17-55 (367)
417 PRK05973 replicative DNA helic 43.3 10 0.00022 40.8 0.8 25 29-53 56-80 (237)
418 PRK12906 secA preprotein trans 43.3 2.7E+02 0.0058 35.3 13.1 38 16-59 78-115 (796)
419 PF13207 AAA_17: AAA domain; P 43.1 11 0.00024 35.1 1.0 13 39-51 1-13 (121)
420 cd01120 RecA-like_NTPases RecA 43.1 21 0.00046 34.6 3.1 16 40-55 2-17 (165)
421 PRK07993 DNA polymerase III su 42.9 27 0.00058 39.6 4.2 39 18-56 2-43 (334)
422 PRK15455 PrkA family serine pr 42.8 26 0.00056 42.4 4.1 15 37-51 103-117 (644)
423 PRK14965 DNA polymerase III su 42.5 27 0.00059 42.6 4.4 35 22-56 20-57 (576)
424 TIGR02974 phageshock_pspF psp 42.5 23 0.0005 40.0 3.6 25 28-52 13-37 (329)
425 TIGR00368 Mg chelatase-related 42.4 15 0.00032 44.0 2.1 39 16-54 190-228 (499)
426 COG1875 NYN ribonuclease and A 42.4 7.8 0.00017 43.7 -0.2 59 337-395 285-363 (436)
427 KOG0741 AAA+-type ATPase [Post 42.3 13 0.00028 43.9 1.5 16 38-53 257-272 (744)
428 COG4962 CpaF Flp pilus assembl 42.1 24 0.00052 39.8 3.5 35 29-64 165-199 (355)
429 PRK13341 recombination factor 41.7 28 0.00062 43.6 4.5 34 20-53 30-68 (725)
430 KOG0652 26S proteasome regulat 41.5 14 0.00031 39.7 1.5 16 38-53 206-221 (424)
431 KOG0734 AAA+-type ATPase conta 41.4 14 0.0003 43.6 1.6 32 21-52 310-352 (752)
432 PRK05707 DNA polymerase III su 41.4 23 0.00051 39.9 3.4 35 19-54 4-39 (328)
433 PLN02165 adenylate isopentenyl 41.4 14 0.0003 41.7 1.5 29 24-52 29-58 (334)
434 PRK05541 adenylylsulfate kinas 41.2 10 0.00022 38.3 0.5 19 33-51 3-21 (176)
435 PF08283 Gemini_AL1_M: Geminiv 41.2 17 0.00037 33.9 1.9 34 19-52 68-105 (106)
436 cd01126 TraG_VirD4 The TraG/Tr 41.1 7.4 0.00016 44.8 -0.7 22 39-60 1-22 (384)
437 PRK05563 DNA polymerase III su 41.0 31 0.00068 41.9 4.6 37 22-58 20-59 (559)
438 TIGR00763 lon ATP-dependent pr 40.8 32 0.00069 43.7 4.8 37 23-61 325-369 (775)
439 KOG1802 RNA helicase nonsense 40.5 25 0.00054 42.5 3.4 41 9-53 400-441 (935)
440 KOG0060 Long-chain acyl-CoA tr 40.4 14 0.0003 44.1 1.4 19 33-51 457-475 (659)
441 COG1702 PhoH Phosphate starvat 40.3 16 0.00035 40.9 1.9 16 379-394 239-254 (348)
442 PRK14974 cell division protein 39.8 47 0.001 37.7 5.4 26 38-64 141-166 (336)
443 COG0542 clpA ATP-binding subun 39.7 20 0.00044 44.7 2.7 31 22-52 495-536 (786)
444 TIGR03345 VI_ClpV1 type VI sec 39.7 21 0.00047 45.6 3.1 30 23-52 571-611 (852)
445 COG1202 Superfamily II helicas 39.6 15 0.00032 43.7 1.4 40 19-64 217-256 (830)
446 PHA02624 large T antigen; Prov 39.5 24 0.00052 42.8 3.2 34 26-61 420-453 (647)
447 cd01367 KISc_KIF2_like Kinesin 39.5 17 0.00037 40.9 1.9 42 14-55 52-103 (322)
448 COG0514 RecQ Superfamily II DN 39.4 1.2E+02 0.0027 36.9 9.0 150 602-808 168-319 (590)
449 PF06068 TIP49: TIP49 C-termin 39.3 14 0.0003 42.1 1.1 26 26-51 35-64 (398)
450 PRK12900 secA preprotein trans 39.3 24 0.00053 45.0 3.3 42 15-64 135-176 (1025)
451 PF03193 DUF258: Protein of un 39.0 26 0.00056 35.4 2.9 25 26-51 25-49 (161)
452 cd01125 repA Hexameric Replica 39.0 24 0.00052 37.7 2.9 25 37-61 1-25 (239)
453 PHA02544 44 clamp loader, smal 38.8 36 0.00078 37.8 4.4 32 22-53 25-59 (316)
454 PRK04195 replication factor C 38.7 42 0.0009 40.1 5.1 33 22-54 21-56 (482)
455 COG5008 PilU Tfp pilus assembl 38.6 22 0.00048 38.5 2.5 22 33-54 123-144 (375)
456 PF00176 SNF2_N: SNF2 family N 38.5 45 0.00097 36.3 5.1 37 23-59 2-47 (299)
457 KOG0350 DEAD-box ATP-dependent 38.5 1E+02 0.0022 36.5 7.7 60 329-399 250-311 (620)
458 KOG1808 AAA ATPase containing 38.2 31 0.00066 47.0 4.1 46 17-64 419-465 (1856)
459 PRK00091 miaA tRNA delta(2)-is 38.1 16 0.00035 40.8 1.4 16 37-52 4-19 (307)
460 KOG0736 Peroxisome assembly fa 38.1 16 0.00035 44.9 1.5 15 38-52 706-720 (953)
461 PRK06964 DNA polymerase III su 38.1 22 0.00047 40.4 2.5 35 19-53 2-37 (342)
462 PRK15429 formate hydrogenlyase 37.9 31 0.00067 43.1 4.0 38 15-52 373-414 (686)
463 TIGR00176 mobB molybdopterin-g 37.9 30 0.00066 34.5 3.2 24 40-64 2-25 (155)
464 KOG0339 ATP-dependent RNA heli 37.5 13 0.00027 43.5 0.5 43 19-65 246-288 (731)
465 PRK14087 dnaA chromosomal repl 37.3 52 0.0011 38.9 5.6 25 39-64 143-167 (450)
466 PRK00698 tmk thymidylate kinas 37.2 18 0.00038 37.3 1.5 17 36-52 2-18 (205)
467 cd00071 GMPK Guanosine monopho 37.2 17 0.00038 35.3 1.4 13 40-52 2-14 (137)
468 PF02399 Herpes_ori_bp: Origin 37.2 26 0.00057 43.7 3.1 26 36-65 48-73 (824)
469 TIGR02759 TraD_Ftype type IV c 37.1 28 0.0006 42.4 3.3 27 37-64 176-202 (566)
470 PLN02199 shikimate kinase 37.1 31 0.00067 38.3 3.4 34 19-52 83-117 (303)
471 CHL00206 ycf2 Ycf2; Provisiona 37.1 25 0.00053 48.0 3.0 41 12-60 1611-1651(2281)
472 PF07652 Flavi_DEAD: Flaviviru 36.9 20 0.00043 35.5 1.6 36 357-395 71-107 (148)
473 PRK12726 flagellar biosynthesi 36.9 28 0.00061 40.1 3.1 24 36-59 205-228 (407)
474 PRK12727 flagellar biosynthesi 36.8 29 0.00063 41.6 3.3 21 34-54 347-367 (559)
475 PRK06620 hypothetical protein; 36.7 19 0.0004 38.1 1.6 15 39-53 46-60 (214)
476 PRK08533 flagellar accessory p 36.7 28 0.00061 37.1 3.0 21 33-53 20-40 (230)
477 PRK09361 radB DNA repair and r 36.6 27 0.00059 36.8 2.8 22 33-54 19-40 (225)
478 cd01371 KISc_KIF3 Kinesin moto 36.6 23 0.00051 40.0 2.5 40 16-55 55-100 (333)
479 PRK10869 recombination and rep 36.5 28 0.0006 42.3 3.2 24 38-63 23-46 (553)
480 COG3839 MalK ABC-type sugar tr 36.4 19 0.00041 40.7 1.7 22 33-54 25-46 (338)
481 cd03115 SRP The signal recogni 36.4 32 0.00069 34.5 3.2 22 39-60 2-23 (173)
482 PRK07940 DNA polymerase III su 36.3 44 0.00095 38.8 4.6 33 22-54 9-53 (394)
483 TIGR02768 TraA_Ti Ti-type conj 36.3 40 0.00087 42.5 4.7 40 17-60 351-390 (744)
484 PRK14959 DNA polymerase III su 36.3 41 0.00088 41.3 4.5 34 22-55 20-56 (624)
485 TIGR03346 chaperone_ClpB ATP-d 36.3 31 0.00068 44.2 3.8 37 18-54 173-211 (852)
486 TIGR02237 recomb_radB DNA repa 36.2 25 0.00053 36.5 2.4 21 35-55 10-30 (209)
487 PF09848 DUF2075: Uncharacteri 36.2 26 0.00056 39.9 2.7 49 349-397 19-97 (352)
488 cd01376 KISc_KID_like Kinesin 36.1 19 0.00041 40.5 1.6 37 19-55 57-99 (319)
489 COG4133 CcmA ABC-type transpor 36.0 15 0.00032 37.9 0.6 19 33-51 24-42 (209)
490 PRK08451 DNA polymerase III su 36.0 39 0.00085 40.7 4.3 34 21-54 17-53 (535)
491 KOG0923 mRNA splicing factor A 35.8 29 0.00063 42.0 3.0 26 28-53 271-296 (902)
492 TIGR00041 DTMP_kinase thymidyl 35.7 19 0.00041 36.9 1.4 16 36-51 2-17 (195)
493 COG1224 TIP49 DNA helicase TIP 35.7 19 0.00041 40.6 1.4 23 29-51 53-79 (450)
494 PRK13850 type IV secretion sys 35.7 15 0.00032 45.5 0.7 24 37-60 139-162 (670)
495 PRK11034 clpA ATP-dependent Cl 35.6 29 0.00064 43.7 3.3 29 25-53 193-223 (758)
496 PRK13897 type IV secretion sys 35.3 13 0.00028 45.5 0.1 24 37-60 158-181 (606)
497 PRK00131 aroK shikimate kinase 35.3 18 0.00039 36.0 1.1 17 36-52 3-19 (175)
498 PRK10646 ADP-binding protein; 35.2 32 0.00069 34.4 2.8 27 25-51 16-42 (153)
499 TIGR00602 rad24 checkpoint pro 35.1 41 0.00088 41.5 4.3 36 21-56 87-129 (637)
500 TIGR00678 holB DNA polymerase 35.1 44 0.00096 34.1 4.0 25 29-53 3-30 (188)
No 1
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=1.3e-163 Score=1367.85 Aligned_cols=797 Identities=44% Similarity=0.737 Sum_probs=645.5
Q ss_pred ccCCCCCCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHHHHHHHHhHhhhhhccCCCCCCC
Q 002378 9 EAEFPAFPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQKQKQKQKQKYETMIKSDHSFTNN 88 (929)
Q Consensus 9 ~~~~~~FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (929)
....|+|||+||+||++||+.||++|++|++|||||||||||||||||++|+||.+++.+..++......+..+..
T Consensus 6 ~~~~F~fPy~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~eek~~t~~~~~l~~v~~~~---- 81 (821)
T KOG1133|consen 6 GAIEFPFPYTPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDFEEKKRTEEARLLETVTGPL---- 81 (821)
T ss_pred cccccCCCCCchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHhHHhhhhHHHhhhccCCCcc----
Confidence 3334449999999999999999999999999999999999999999999999999998887766654432222211
Q ss_pred CCCCCCCcch----hHHHhhhchhhhHHHHH-HHhh-----hccCCCcccchhhhccccccccccccchhhchhhhhhhh
Q 002378 89 GDCSSNDEPD----WMRNFVVNRDFQAEDAK-IKKK-----KNGCGLGKTGERKHREISTDTFSHSMEKDKCFTKKECEN 158 (929)
Q Consensus 89 ~~~~~~~~pd----w~~~~~~~~~~~~e~~~-~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 (929)
....++|| |++++.+++.......+ ++.. +++.++++.+.. +... ...+.
T Consensus 82 --~d~kde~d~~s~wl~~~~~~~~er~~~~r~l~~~qa~~~~re~r~q~~~~~-------------~e~~--k~ak~--- 141 (821)
T KOG1133|consen 82 --HDEKDESDSSSAWLTQFVQKKEERDLVDRNLKAEQARFKQREERLQQLQHR-------------VQGK--KGAKR--- 141 (821)
T ss_pred --ccccccccchhHHHHHHHHHHHhhccchHHHHHhhchHHHHHHHHHhhhhH-------------Hhhh--hhhhc---
Confidence 22345555 99999887664411111 0000 011111111100 0000 00000
Q ss_pred cccccccCCccccccccccccc-ccccccCCCccccccCCCCCCC-CCCcccccCCccccCcccEEEEecccchhHHHHH
Q 002378 159 LQSINDQSELSDEEFLLEEYES-EEEGAIGGGKSKRKAGAGTISS-SSDEEEEDGLDEEGEEVLKVYFCSRTHSQLSQFI 236 (929)
Q Consensus 159 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~kIiy~SRTHSQL~Qvi 236 (929)
.+.++.+++|.. .++...+ .++.......++ +.|++..++-+.++..+.||||||||||||+|++
T Consensus 142 ----------~~~e~~~reyl~~~e~~~pg---~~eq~e~~~~~e~s~D~e~~~~~~~~e~~p~KI~ycSRTHSQL~Qfv 208 (821)
T KOG1133|consen 142 ----------LRQEEEEREYLLSREMLEPG---RLEQLESGEEAESSSDEEKKVASRVDEDAPVKIYYCSRTHSQLAQFV 208 (821)
T ss_pred ----------cccccccchhcchhhccCcc---chhhhhcccccccccchhhccccCccccCCeeEEEecccchHHHHHH
Confidence 011122333432 1111111 111111111111 1111111111233345589999999999999999
Q ss_pred HHHHhcccCCCeeEEEecccccccccHHHhhcCCchhhHHHHHHHhhhhhhhhhhhhhccccccccccCCCCCCcCcccc
Q 002378 237 KELRKTVFANEIKVVCLGSRKNFCINEEVLRLGNSTHINERCLELQNKKKNEICKIKNLGAEGKVRRTKAFSGCPVLRSH 316 (929)
Q Consensus 237 ~ELrkt~~~~~~~~~~L~SR~~lCin~~v~~~~~~~~~n~~C~~l~~~k~~~~~~~~~~~~~~~~~~~~~~~~C~y~~~~ 316 (929)
.|||||.|...+|++.||||++||||++|+++++.+.|||+|.+|++++...+.+ ......++.....||||+..
T Consensus 209 ~ELrKt~f~~~vr~vsL~SRk~LCiNe~V~Klk~~~~iNE~Cldlq~s~~~~~~~-----~~~~~~~~~~~~~Cpf~~~~ 283 (821)
T KOG1133|consen 209 AELKKTPFGKKVRSVSLGSRKNLCINEDVKKLKSVDAINERCLDLQKSKHSLKPS-----KKMRMTRTKATARCPFYNHT 283 (821)
T ss_pred HHHhhcccccCceEEeecchhhcccCHHhccccchhHHHHHHHHHHhccCccccc-----ccchhcccccccCCCccchh
Confidence 9999999998999999999999999999999999999999999999876533221 11223345567789999654
Q ss_pred hhhhccccccccCCCCCHHHHHHhcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChH
Q 002378 317 KLQKGFRNEISQQGALDIEDLVHLGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLA 396 (929)
Q Consensus 317 ~~~~~~~~~~~~~~v~DIEdL~~~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~ 396 (929)
.. .++++.++.+++|||||+.+|+..+.||||++|++++.||||++||+|||+.++|+++||.++++||||||||||.
T Consensus 284 q~--~~~rd~~l~e~~DiEdLv~lGk~~~~CPYY~SR~avp~aqlV~LPYQ~LL~~stR~slgI~LkdsIvIiDEAHNli 361 (821)
T KOG1133|consen 284 QM--EDLRDEALSEVLDIEDLVALGKELRGCPYYASRRAVPQAQLVTLPYQLLLHESTRKSLGISLKDSIVIIDEAHNLI 361 (821)
T ss_pred HH--HHHHHHHhhhhccHHHHHHhhhhcCCCCchhhhhccccccEEeccHHHHHhHHHHHhcCccccccEEEEechhHHH
Confidence 43 3478888899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcccccCHHHHHHHHHHHHHHHHHhhhccCCCCHHHHHHHHHHHHHHHHHHhhccccccccccccCcccCccCCC
Q 002378 397 DSLINMYNAKITLSQLENVHSHLEKYFGRFCSLLGPGNRRYIQTLMVFTRAFLQVLLKEKDENDVRQDSENSTGAKHAFD 476 (929)
Q Consensus 397 d~~~~~~S~~ls~~~l~~a~~~l~~~~~~~~~~l~~~n~~~~~~l~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 476 (929)
|++.+++|++|+..+|..|+.+|..|..+|+++|++.|++++++++.++..|+.++.+....+. .+
T Consensus 362 dti~smhsa~Is~~ql~~a~~~i~~Y~~rf~~rl~~~N~~~l~ql~~l~~~ll~fl~~~~~~~~--------------~~ 427 (821)
T KOG1133|consen 362 DTICSMHSAEISFSQLCRAHKQIQQYFERFGKRLKAKNLMYLKQLLSLLRRLLKFLDSNCELNG--------------NG 427 (821)
T ss_pred HHHHHhhhhheeHHHHHHHHHHHHHHHHHHHHhhCccchhHHHHHHHHHHHHHHHHHhhhhhCC--------------cc
Confidence 9999999999999999999999999999999999999999999999999999999877643110 11
Q ss_pred CcccHHHHHhhcccccccHHHHHHHHHHhhhHHHHhhhhhhhhhhccCc--cccCCC-CCcccCCCc-chHHHHHHHHHH
Q 002378 477 SSVAINEFLFSLNIDNINLVKLLKYIKESNIIHKVSGYGDKAASLQKGS--VLKDGG-ENYEEGSIL-SGFQSLVDMLIS 552 (929)
Q Consensus 477 ~~~~~~~~l~~~~~~~~nl~~l~~~l~~~~~~~kl~~~~~~~~~~~~~~--~~~~~~-~~~~~~~~~-~~l~~~~~fl~~ 552 (929)
..+..++||+..++|++|++++++|++.+++++|+.||.+.+.+..... .+.... +..+..... +.|..+.+||.+
T Consensus 428 ~~~~~~dfl~~~~id~iNL~kl~~Yi~~S~i~rKv~G~~~r~~~~~s~plq~l~~~~~~~~ee~~~~ps~l~~l~~FL~~ 507 (821)
T KOG1133|consen 428 ESLMRNDFLFSSGIDNINLFKLLDYIEKSKIARKVDGFGERLSEVFSQPLQSLQKKRVEAEEESQLKPSPLFELSSFLGA 507 (821)
T ss_pred cccchhhhhhhcCccceeHHHHHHHHHHhhHHHHhcchhhcchhhccchhhHhhhccccchhcccCCCchhHHHHHHHHH
Confidence 2344569999999999999999999999999999999998876321110 000000 000111111 579999999999
Q ss_pred hcCCCCCceEEEeecCCCCCCCCCCcCceEEEEecChhHHHHHHHHhhceEEEeccCCCChhhHHHhhCCCCCCCceeee
Q 002378 553 LTNNDGDGRIIISKARPISSGQQGQQGGYLKYVMLTGEKVFSEIVEQAHAVILAGGTLQPIEETRERLFPWLSPNKFHFF 632 (929)
Q Consensus 553 l~~~~~d~~v~~~~~~~~~~~~~~~~~~~L~~~cl~ps~~f~~l~~~~~svILtSGTLsP~~~f~~~L~~~~~~~~i~~~ 632 (929)
|++.++||++++++..+ ++|+|..|+|+..|.+++.+||+|||++|||+|++.|...||++.+ +++..+
T Consensus 508 LTn~~~dGri~~~k~~s----------~~lky~lL~pA~~f~evv~earavvLAGGTMeP~~e~~e~L~~~~~-~~i~~f 576 (821)
T KOG1133|consen 508 LTNNNEDGRIFYSKQGS----------GTLKYMLLNPAKHFAEVVLEARAVVLAGGTMEPVDELREQLFPGCP-ERISPF 576 (821)
T ss_pred HhCCCCCCcEEEeccCC----------ceEEEEecCcHHHHHHHHHHhheeeecCCccccHHHHHHHhcccch-hhccce
Confidence 99999999999987542 4899999999999999999999999999999999999999999876 688899
Q ss_pred ecCCccCCCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhH
Q 002378 633 SCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILD 712 (929)
Q Consensus 633 ~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~ 712 (929)
+|.||||++|+++++|+.||+|.+|.|+|+.|.+++++++||..|.+++.+|||||+||||||+||.+++++|++.|++.
T Consensus 577 sc~Hvip~e~il~~vv~~gpsg~p~eftf~~R~s~~~l~~l~~~~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~~gil~ 656 (821)
T KOG1133|consen 577 SCSHVIPPENILPLVVSSGPSGQPLEFTFETRESPEMIKDLGSSISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQNGILA 656 (821)
T ss_pred ecccccChhheeeeeeccCCCCCceEEEeeccCChHHHHHHHHHHHHHHhhCCCcEEEEeccHHHHHHHHHHHHhcchHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCCC
Q 002378 713 RIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSP 792 (929)
Q Consensus 713 ~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~ 792 (929)
+|..+|+||.|+++. .+++|+.|+.++..+ .|||||||+|||+||||||+|++|||||||||||||+
T Consensus 657 ri~~kK~vF~E~k~~--~~dvl~~Ya~a~~~g-----------~GaiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyPN~ 723 (821)
T KOG1133|consen 657 RIVGKKKVFYEPKDT--VEDVLEGYAEAAERG-----------RGAILLAVVGGKLSEGINFSDDLGRAVVVVGLPYPNI 723 (821)
T ss_pred HhhccchhhccCccc--HHHHHHHHHHHhhcC-----------CCeEEEEEeccccccccccccccccEEEEeecCCCCC
Confidence 999999999999855 899999999999865 6999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhhccCCCCCccCCccccccccCCcccccccccccCCCchhhHhhHHHHHHHHhhcccccCCCCeEEEE
Q 002378 793 SNIELLERIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGKEYYENLCMKAVNQSIGRAIRHINDHAAIL 872 (929)
Q Consensus 793 ~d~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~y~~~a~ravnQaiGR~IRh~~D~g~ii 872 (929)
.|+++++||+|++.+..++ +.|++||++.||+||||+|||+|||.+||++|+
T Consensus 724 ~s~EL~er~k~l~~k~~~~----------------------------gagke~yEnlCMkAVNQsIGRAIRH~~DYA~i~ 775 (821)
T KOG1133|consen 724 QSVELQERMKHLDGKLPTP----------------------------GAGKELYENLCMKAVNQSIGRAIRHRKDYASIY 775 (821)
T ss_pred CCHHHHHHHHHhhhccCCC----------------------------CchHHHHHHHHHHHHHHHHHHHHhhhccceeEE
Confidence 9999999999999874321 369999999999999999999999999999999
Q ss_pred EEecccccCCCcCCCCCccCCCcHHHHhhcccccCCHHHHHHHHHHHHHHhh
Q 002378 873 LVDLRYASESSKRSCSHPANKLPRWIKDRLVSSTNNYGEVHRLLHQFFKFNK 924 (929)
Q Consensus 873 LlD~R~~~~~~~~~~~~~~~~LP~Wir~~i~~~~~~~~~~~~~l~~Ff~~~~ 924 (929)
|||.||+.+. ..+||+||+.++. +..+|+++++.++.||+.+.
T Consensus 776 LlD~RY~~p~--------~RKLp~WI~~~v~-s~~~~G~~ir~~~~ff~~k~ 818 (821)
T KOG1133|consen 776 LLDKRYARPL--------SRKLPKWIRKRVH-SKAGFGPAIRATRKFFRAKS 818 (821)
T ss_pred EehhhhcCch--------hhhccHHHHhHhc-cccCccHHHHHHHHHHHHhc
Confidence 9999999664 4599999999888 66999999999999998654
No 2
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=5e-130 Score=1125.38 Aligned_cols=701 Identities=28% Similarity=0.475 Sum_probs=502.1
Q ss_pred cCCCCCCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHHHHHHHHhHhhhhhccCCCCCCCC
Q 002378 10 AEFPAFPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQKQKQKQKQKYETMIKSDHSFTNNG 89 (929)
Q Consensus 10 ~~~~~FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 89 (929)
.-.++|||+||++|+.||.+|++||+.+.++++||||||||||||||++|+|++.++.+...+..
T Consensus 13 Gv~V~fP~qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~--------------- 77 (945)
T KOG1132|consen 13 GVPVEFPFQPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKI--------------- 77 (945)
T ss_pred CceeeccCCcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccch---------------
Confidence 34578999999999999999999999999999999999999999999999999986543211000
Q ss_pred CCCCCCcchhHHHhhhchhhhHHHHHHHhhhccCCCcccchhhhccccccccccccchhhchhhhhhhhcccccccCCcc
Q 002378 90 DCSSNDEPDWMRNFVVNRDFQAEDAKIKKKKNGCGLGKTGERKHREISTDTFSHSMEKDKCFTKKECENLQSINDQSELS 169 (929)
Q Consensus 90 ~~~~~~~pdw~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 169 (929)
.+++
T Consensus 78 ---------------------s~~~------------------------------------------------------- 81 (945)
T KOG1132|consen 78 ---------------------SERK------------------------------------------------------- 81 (945)
T ss_pred ---------------------hhhh-------------------------------------------------------
Confidence 0000
Q ss_pred cccccccccccccccccCCCccccccCCCCCCCCCCcccccCCccccCcccEEEEecccchhHHHHHHHHHhcccCCCee
Q 002378 170 DEEFLLEEYESEEEGAIGGGKSKRKAGAGTISSSSDEEEEDGLDEEGEEVLKVYFCSRTHSQLSQFIKELRKTVFANEIK 249 (929)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIiy~SRTHSQL~Qvi~ELrkt~~~~~~~ 249 (929)
..|.| .-.++..+ +.. ++..+.......+|||||||||||||+|||+|||||.|+ ++
T Consensus 82 -~~~~p-~~~s~~~g-----------------~~s--~e~~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT~Y~--vk 138 (945)
T KOG1132|consen 82 -AGFIP-TQPSDSGG-----------------EKS--EEAGEPIACYTGIPKIYYASRTHSQLTQVVRELRRTGYR--VK 138 (945)
T ss_pred -ccccC-CCCccCCC-----------------Cch--hhhcCccccccCCceEEEecchHHHHHHHHHHHhhcCCC--Cc
Confidence 00111 00000000 000 000000012235899999999999999999999999999 99
Q ss_pred EEEecccccccccHHHhhcCCchhhHHHHHHHhhhhhhhhhhhhhccccccccccCCCCCCcCcccchhhhccccccccC
Q 002378 250 VVCLGSRKNFCINEEVLRLGNSTHINERCLELQNKKKNEICKIKNLGAEGKVRRTKAFSGCPVLRSHKLQKGFRNEISQQ 329 (929)
Q Consensus 250 ~~~L~SR~~lCin~~v~~~~~~~~~n~~C~~l~~~k~~~~~~~~~~~~~~~~~~~~~~~~C~y~~~~~~~~~~~~~~~~~ 329 (929)
|++||||+|+||||+|+++..+.+.++.|+++.+. ..|.||....... +......
T Consensus 139 mtVLgSReq~Cinpev~k~~~~~~~~~~C~k~~~~-----------------------~~C~f~~~~~~~s--l~~~l~~ 193 (945)
T KOG1132|consen 139 MTVLGSREQLCINPEVKKLEGNALQNHVCKKLVKS-----------------------RSCHFYKIVEEKS--LQPRLHD 193 (945)
T ss_pred eEEeecchhhccCHHHhhhhcchhhhhHHHhhccc-----------------------ccccccccccccc--cccccCC
Confidence 99999999999999999998888889999977643 4699996654322 3344566
Q ss_pred CCCCHHHHHHhcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChHHHHHhhcccccCH
Q 002378 330 GALDIEDLVHLGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLADSLINMYNAKITL 409 (929)
Q Consensus 330 ~v~DIEdL~~~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~d~~~~~~S~~ls~ 409 (929)
++|||||||++|+....||||++|++.++|||||||||||+||.+|++++++|+|+|||||||||||+.|+++.|++|+.
T Consensus 194 ~i~DIEDLVk~Gk~~~~CPYfaSR~l~edAdIIF~PYnYLiDp~iR~~~~v~LknsIVIfDEAHNiEdic~esaS~~lts 273 (945)
T KOG1132|consen 194 EIFDIEDLVKIGKKSRGCPYFASRELKEDADIIFCPYNYLIDPKIRRSHKVDLKNSIVIFDEAHNIEDICRESASFDLTS 273 (945)
T ss_pred CcccHHHHHHhCccCcCCcchhhhhhcccCcEEEechhhhcCHhhhccccccccccEEEEeccccHHHHHhhcccccccH
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred HHHHH---HHHHHHHHHHHhhhc---cCCCCHHHHH-------HHHHHHHHHHHHHhhccccccccccccCcccCccCCC
Q 002378 410 SQLEN---VHSHLEKYFGRFCSL---LGPGNRRYIQ-------TLMVFTRAFLQVLLKEKDENDVRQDSENSTGAKHAFD 476 (929)
Q Consensus 410 ~~l~~---a~~~l~~~~~~~~~~---l~~~n~~~~~-------~l~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 476 (929)
.+|.. ...++.+...+-... +.......+. .|..+ +-..-.+....+.-... ... .+...
T Consensus 274 ~~l~~~~~l~~e~~~~~~~~~~~~~pl~ev~~~l~s~l~~~~e~La~l-~~~~~~~~~~~d~~~~~-~~~-----~giT~ 346 (945)
T KOG1132|consen 274 SDLASGLELINELEQAVTKAAAIYEPLREVSLDLISWLELELEDLAKL-KEILLFLEEAIDKVLLP-LDD-----SGITR 346 (945)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhhcCchhhhhhccchhhhcchHHHHHH-HHHHHHhhhhcchhccc-ccc-----ccccC
Confidence 77764 344444332211100 0000000000 00000 00000000000000000 000 00000
Q ss_pred Ccc-cHHHHHhhcccccccHHHHHHHHHHhhhHHHHhhhhhhhhhhccCccccCCCCCcccCCCcchHHHHHHHHHHhcC
Q 002378 477 SSV-AINEFLFSLNIDNINLVKLLKYIKESNIIHKVSGYGDKAASLQKGSVLKDGGENYEEGSILSGFQSLVDMLISLTN 555 (929)
Q Consensus 477 ~~~-~~~~~l~~~~~~~~nl~~l~~~l~~~~~~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~fl~~l~~ 555 (929)
... .+.+.+...++.......+..-+. ..+..+++-.+.. .-...+.+..+.+++..+..
T Consensus 347 ~~~~~l~e~~~~a~~t~e~~~~i~~~~~--~~v~~le~~~q~~-----------------~t~~~s~~~~~~dlld~~fs 407 (945)
T KOG1132|consen 347 PGSPILYEEFAKALITSETAEKIVDSLD--IAVQHLEGEKQGT-----------------ATNTGSLWCIFADLLDISFS 407 (945)
T ss_pred CCcHHHHHHHHHhccCccccccchhhHH--HHHHHhhcccccc-----------------hhcccchHHHHHHHHHHHhh
Confidence 000 122222222222211111111000 0011111000000 00001111112222222111
Q ss_pred ---CC----CCce-----------------------E-EEeecCCCCCCCCCCcCceEEEEecChhHHHHHHHHh-hceE
Q 002378 556 ---ND----GDGR-----------------------I-IISKARPISSGQQGQQGGYLKYVMLTGEKVFSEIVEQ-AHAV 603 (929)
Q Consensus 556 ---~~----~d~~-----------------------v-~~~~~~~~~~~~~~~~~~~L~~~cl~ps~~f~~l~~~-~~sv 603 (929)
.+ .+.. . +|..... . .....+.++|||++|+..|++++.+ +++|
T Consensus 408 ~~~~~g~~~~~~~~~~e~s~~~~~~~d~~~~~~~~~~~v~~~~~s---~-~~~~~~vi~~wcf~p~~sf~d~~~k~vrsI 483 (945)
T KOG1132|consen 408 VILQNGSFSSDASFSVEQSYSFGNHLDAPHVINANLGDVWKGKSS---R-KLGNYPVINFWCFSPGYSFRDLLGKGVRSI 483 (945)
T ss_pred ccccCCccccchhhhhhhhhcccccCCcccccccccccccccccc---c-ccCcccceeeeecCcchhHHHHhcccceeE
Confidence 00 0000 0 1110000 0 0011356899999999999999987 9999
Q ss_pred EEeccCCCChhhHHHhhCCCCCCCceeeeecCCccCCCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHHhhc
Q 002378 604 ILAGGTLQPIEETRERLFPWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNLVSV 683 (929)
Q Consensus 604 ILtSGTLsP~~~f~~~L~~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~~~~ 683 (929)
|||||||+|++.|+.+|+..++ ..++++|+|+..|+|+.+|+.||+|..|+++|.+|.+++|+.+||+.|.++|++
T Consensus 484 iLtSGTLsP~~s~~~El~~~f~----~~lEn~hii~~~qv~~~vv~~Gp~~~ql~sty~nr~~~ey~~~lg~~i~~v~rv 559 (945)
T KOG1132|consen 484 ILTSGTLSPMDSFASELGLEFK----IQLENPHIINKSQVWVGVVPKGPDGAQLDSTYGNRFTPEYLSELGEAILNVARV 559 (945)
T ss_pred EEecccccCchhHHHHhCCccc----eeeecchhccccceEEEeeccCCCccccccccccccCHHHHHHHHHHHHHHHhh
Confidence 9999999999999999987775 368999999999999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
||.|+|||||||.+|+++.++|+..++|+++...|+|++||+...++.+++.+|.++|... ...|+++|||
T Consensus 560 Vp~G~L~FfPSY~vmdk~~tfw~~~~~we~~~~vk~l~vEPr~k~~f~e~m~~y~~~i~~p---------es~ga~~~aV 630 (945)
T KOG1132|consen 560 VPYGLLIFFPSYPVMDKLITFWQNRGLWERMEKVKKLVVEPRSKSEFTEVMSRYYNAIADP---------ESSGAVFFAV 630 (945)
T ss_pred cccceEEeccchHHHHHHHHHHHcchHHHHhhcccCceeccCCccchHHHHHHHHHHhhCc---------cccceEEEEE
Confidence 9999999999999999999999999999999999999999998889999999999999854 2468999999
Q ss_pred ecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhccCCCCCccCCccccccccCCcccccccccccCCCch
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGK 843 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 843 (929)
||||+||||||+|+.+|+||++|||||+..||.|.+|++|+|.+....+. ++..++|+
T Consensus 631 cRGKVSEGlDFsD~~~RaVI~tGlPyP~~~D~~V~lK~~y~D~~~~~~g~----------------------~s~~lsg~ 688 (945)
T KOG1132|consen 631 CRGKVSEGLDFSDDNGRAVIITGLPYPPVMDPRVKLKKQYLDENSSLKGA----------------------KSQLLSGQ 688 (945)
T ss_pred ecccccCCCCccccCCceeEEecCCCCCCCCHHHHHHHHhhhhhcccccc----------------------ccccccch
Confidence 99999999999999999999999999999999999999999998543221 13346899
Q ss_pred hhHhhHHHHHHHHhhcccccCCCCeEEEEEEecccccCCCcCCCCCccCCCcHHHHhhcccccCCHHHHHHHHHHHHHHh
Q 002378 844 EYYENLCMKAVNQSIGRAIRHINDHAAILLVDLRYASESSKRSCSHPANKLPRWIKDRLVSSTNNYGEVHRLLHQFFKFN 923 (929)
Q Consensus 844 ~~y~~~a~ravnQaiGR~IRh~~D~g~iiLlD~R~~~~~~~~~~~~~~~~LP~Wir~~i~~~~~~~~~~~~~l~~Ff~~~ 923 (929)
+||+.+|+|||||||||+|||++|||+|+|+|.||..+. ....||+|+|... ......++...+..+|+.+
T Consensus 689 eWY~~qA~RAvNQAiGRviRHR~D~Gav~l~D~Rfe~~~-------~~~~lskw~r~~~--~~~~~~~~~~~~~r~~r~~ 759 (945)
T KOG1132|consen 689 EWYSQQAYRAVNQAIGRVIRHRNDYGAVILCDDRFENAD-------ARSQLSKWIRSVK--CDSRYCEVISSLARKFRTH 759 (945)
T ss_pred HHHHhhHHHHHHHHHHHHHhhhcccceeeEeechhhcCc-------cccccchhhhccc--cccccccccchhhhhhhcc
Confidence 999999999999999999999999999999999999987 5667999999832 3344445555555555544
No 3
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=7.3e-123 Score=1129.86 Aligned_cols=670 Identities=31% Similarity=0.520 Sum_probs=534.4
Q ss_pred CCCCCCCC-CHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHHHHHHHHhHhhhhhccCCCCCCCCC
Q 002378 12 FPAFPYKP-YSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQKQKQKQKQKYETMIKSDHSFTNNGD 90 (929)
Q Consensus 12 ~~~FPf~p-y~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (929)
.+.|||+| ||.|.+||+.|+++|++|+++++|||||||||||+||++|+|+...
T Consensus 3 ~v~FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~------------------------- 57 (705)
T TIGR00604 3 LVYFPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEK------------------------- 57 (705)
T ss_pred ceecCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhc-------------------------
Confidence 35799997 9999999999999999999999999999999999999999996530
Q ss_pred CCCCCcchhHHHhhhchhhhHHHHHHHhhhccCCCcccchhhhccccccccccccchhhchhhhhhhhcccccccCCccc
Q 002378 91 CSSNDEPDWMRNFVVNRDFQAEDAKIKKKKNGCGLGKTGERKHREISTDTFSHSMEKDKCFTKKECENLQSINDQSELSD 170 (929)
Q Consensus 91 ~~~~~~pdw~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 170 (929)
T Consensus 58 -------------------------------------------------------------------------------- 57 (705)
T TIGR00604 58 -------------------------------------------------------------------------------- 57 (705)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ccccccccccccccccCCCccccccCCCCCCCCCCcccccCCccccCcccEEEEecccchhHHHHHHHHHhcc-------
Q 002378 171 EEFLLEEYESEEEGAIGGGKSKRKAGAGTISSSSDEEEEDGLDEEGEEVLKVYFCSRTHSQLSQFIKELRKTV------- 243 (929)
Q Consensus 171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIiy~SRTHSQL~Qvi~ELrkt~------- 243 (929)
+..+||||||||||||+|||+|||++.
T Consensus 58 ----------------------------------------------~~~~kIiy~sRThsQl~q~i~Elk~~~~~~~~~~ 91 (705)
T TIGR00604 58 ----------------------------------------------PEVRKIIYASRTHSQLEQATEELRKLMSYRTPRI 91 (705)
T ss_pred ----------------------------------------------cccccEEEEcccchHHHHHHHHHHhhhhcccccc
Confidence 012589999999999999999999976
Q ss_pred -cCCCeeEEEecccccccccHHHhhcCCchhhHHHHHHHhhhhhhhhhhhhhccccccccccCCCCCCcCcccchhhhcc
Q 002378 244 -FANEIKVVCLGSRKNFCINEEVLRLGNSTHINERCLELQNKKKNEICKIKNLGAEGKVRRTKAFSGCPVLRSHKLQKGF 322 (929)
Q Consensus 244 -~~~~~~~~~L~SR~~lCin~~v~~~~~~~~~n~~C~~l~~~k~~~~~~~~~~~~~~~~~~~~~~~~C~y~~~~~~~~~~ 322 (929)
+...+++++|+||++||||++|++..+...+|+.|+++++++.++++.. ......|+||++..... .
T Consensus 92 ~~~~~i~~v~L~SR~~lCin~~v~~~~~~~~~~~~C~~l~~~~~~~~~~~-----------~~~~~~C~yy~~~~~~~-~ 159 (705)
T TIGR00604 92 GEESPVSGLSLASRKNLCLHPEVSKERQGKVVNGKCIKLTVSKIKEQRTE-----------KPNVESCEFYENFDELR-E 159 (705)
T ss_pred ccCCceeEEEechHhhcccChHHHhhcchhhHHHHHHHHHhhhhcccccc-----------cCCCCCCCCCchhhhhh-h
Confidence 2235899999999999999999987777789999999876533211111 12345799998864321 2
Q ss_pred ccccccCCCCCHHHHHHhcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChHHHHHhh
Q 002378 323 RNEISQQGALDIEDLVHLGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLADSLINM 402 (929)
Q Consensus 323 ~~~~~~~~v~DIEdL~~~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~d~~~~~ 402 (929)
..+.+..+++|||||+++|++++.||||++|++++.||||||||||||||.+|+.++++++++||||||||||+|+|+++
T Consensus 160 ~~~~~~~~~~diEdL~~~g~~~~~CPY~~sr~~~~~advIi~pYnyl~dp~~r~~~~~~l~~~ivI~DEAHNL~d~~~~~ 239 (705)
T TIGR00604 160 VEDLLLSEIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSIELKDSIVIFDEAHNLDNVCISS 239 (705)
T ss_pred hhhhcccCCCCHHHHHHhcccCCCCccHHHHHhhhcCCEEEechHHhcCHHHHHHhhcccccCEEEEECccchHHHHHHH
Confidence 44556778999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCHHHHHHHHHHHHHHHHHhhhccCCCCHHHHHHHHHHHHHHHHHHhhccccccccccccCcccCccCCCCcccHH
Q 002378 403 YNAKITLSQLENVHSHLEKYFGRFCSLLGPGNRRYIQTLMVFTRAFLQVLLKEKDENDVRQDSENSTGAKHAFDSSVAIN 482 (929)
Q Consensus 403 ~S~~ls~~~l~~a~~~l~~~~~~~~~~l~~~n~~~~~~l~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 482 (929)
+|++|+..+|..|..+|..+.+++.+++...+...+..+..++..+.......... ....+. .........
T Consensus 240 ~S~~ls~~~l~~a~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~----~~~~~~-----~~~~~~~~~ 310 (705)
T TIGR00604 240 LSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKLLDELQKLVEGLKQEDLLTDED----IFLANP-----VLPKEVLPE 310 (705)
T ss_pred HhcccCHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcccch----hhhcCc-----CchhhccHH
Confidence 99999999999999999999888877776555555666666666555432111000 000000 001112223
Q ss_pred HHHhhcccccccHHHHHHHHHHhhhHHHHhhhhhhhhh-hcc---Ccc-c---------------cC-CCCCcccCCCcc
Q 002378 483 EFLFSLNIDNINLVKLLKYIKESNIIHKVSGYGDKAAS-LQK---GSV-L---------------KD-GGENYEEGSILS 541 (929)
Q Consensus 483 ~~l~~~~~~~~nl~~l~~~l~~~~~~~kl~~~~~~~~~-~~~---~~~-~---------------~~-~~~~~~~~~~~~ 541 (929)
++....+.+..++..+.+++.......++.++...... +.. ... . .. ............
T Consensus 311 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 390 (705)
T TIGR00604 311 AVPGNIRIAEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLEHLKEKTFIDRPLRFCSERLSNLLRELEITHPEDFSALV 390 (705)
T ss_pred HhcccCCchHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhcccchhhhHHHHHHHHHHhhhccccccccccch
Confidence 33333344444555566666555555555444322111 000 000 0 00 000001112223
Q ss_pred hHHHHHHHHHHhcCCCCCceEEEeecCCCCCCCCCCcCceEEEEecChhHHHHHHHHhhceEEEeccCCCChhhHHHhhC
Q 002378 542 GFQSLVDMLISLTNNDGDGRIIISKARPISSGQQGQQGGYLKYVMLTGEKVFSEIVEQAHAVILAGGTLQPIEETRERLF 621 (929)
Q Consensus 542 ~l~~~~~fl~~l~~~~~d~~v~~~~~~~~~~~~~~~~~~~L~~~cl~ps~~f~~l~~~~~svILtSGTLsP~~~f~~~L~ 621 (929)
.+..+..|+..+.+...+++..+..... ....|++|||||+.+|+.++++++|||||||||+|+++|..+||
T Consensus 391 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~l~~~~l~ps~~~~~i~~~~~svil~SgTL~p~~~~~~~Lg 462 (705)
T TIGR00604 391 LLFTFATLVLTYTNGFLEGIEPYENKTV--------PNPILKFMCLDPSIALKPLFERVRSVILASGTLSPLDAFPRNLG 462 (705)
T ss_pred HHHHHHHHHHHhccccccceeEeecCCC--------CCceEEEEecChHHHHHHHHHhcCEEEEecccCCcHHHHHHHhC
Confidence 5667777887776655566665542111 24589999999999999999999999999999999999999997
Q ss_pred CCCCCCceeeeecCCccCCCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHH
Q 002378 622 PWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERV 701 (929)
Q Consensus 622 ~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~ 701 (929)
...+ ...+++|+||++|+++++++.||+|.+|+++|.+|+++++++++|+.|.++++.+|||+|||||||.+|+++
T Consensus 463 ~~~~----~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~r~~~~~~~~l~~~i~~~~~~~pgg~lvfFpSy~~l~~v 538 (705)
T TIGR00604 463 FNPV----SQDSPTHILKRENLLTLIVTRGSDQVPLSSTFEIRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENI 538 (705)
T ss_pred CCCc----cceecCcccchHHeEEEEEeeCCCCCeeeeehhccCCHHHHHHHHHHHHHHhhcCCCcEEEEccCHHHHHHH
Confidence 6543 234779999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceE
Q 002378 702 YGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRC 781 (929)
Q Consensus 702 ~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ 781 (929)
++.|...+++++|...|+||+|+++..+++.++++|+++|+.+ +|+||||||||||||||||+|+.||+
T Consensus 539 ~~~~~~~~~~~~i~~~k~i~~E~~~~~~~~~~l~~f~~~~~~~-----------~gavL~av~gGk~sEGIDf~~~~~r~ 607 (705)
T TIGR00604 539 VSTWKEMGILENIEKKKLIFVETKDAQETSDALERYKQAVSEG-----------RGAVLLSVAGGKVSEGIDFCDDLGRA 607 (705)
T ss_pred HHHHHhcCHHHHHhcCCCEEEeCCCcchHHHHHHHHHHHHhcC-----------CceEEEEecCCcccCccccCCCCCcE
Confidence 9999999999999888999999987778999999999988643 68999999999999999999999999
Q ss_pred EEEEccCCCCCCCHHHHHHHHHHhhccCCCCCccCCccccccccCCcccccccccccCCCch-hhHhhHHHHHHHHhhcc
Q 002378 782 IVMVGLPYPSPSNIELLERIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGK-EYYENLCMKAVNQSIGR 860 (929)
Q Consensus 782 ViivGlPfp~~~d~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~-~~y~~~a~ravnQaiGR 860 (929)
|||||||||++.||.++++++|+++... ..|+ .||.++||++||||+||
T Consensus 608 ViivGlPf~~~~~~~~~~~~~~~~~~~~------------------------------~~~~~~~y~~~a~~~v~QaiGR 657 (705)
T TIGR00604 608 VIMVGIPYEYTESRILLARLEFLRDQYP------------------------------IRENQDFYEFDAMRAVNQAIGR 657 (705)
T ss_pred EEEEccCCCCCCCHHHHHHHHHHHhhcC------------------------------CCccHHHHHHHHHHHHHHHhCc
Confidence 9999999999999999999999987521 2355 89999999999999999
Q ss_pred cccCCCCeEEEEEEecccccCCCcCCCCCccCCCcHHHHhhcccccCCHHHHHH
Q 002378 861 AIRHINDHAAILLVDLRYASESSKRSCSHPANKLPRWIKDRLVSSTNNYGEVHR 914 (929)
Q Consensus 861 ~IRh~~D~g~iiLlD~R~~~~~~~~~~~~~~~~LP~Wir~~i~~~~~~~~~~~~ 914 (929)
+|||++|||+|+|+|+||.+++ ++..||+||+.+++ +..+++++++
T Consensus 658 ~IR~~~D~G~iillD~R~~~~~-------~~~~lp~W~~~~~~-~~~~~~~~i~ 703 (705)
T TIGR00604 658 VIRHKDDYGSIVLLDKRYARSN-------KRKKLPKWIQDTIQ-SSDLNGMAIS 703 (705)
T ss_pred cccCcCceEEEEEEehhcCCcc-------hhhhcCHHHHhhcc-ccCCCcchhc
Confidence 9999999999999999999977 78999999999998 5578887654
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=5e-94 Score=781.05 Aligned_cols=677 Identities=24% Similarity=0.420 Sum_probs=519.4
Q ss_pred CCCCCC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHHHHHHHHhHhhhhhccCCCCCCCCCC
Q 002378 13 PAFPYK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQKQKQKQKQKYETMIKSDHSFTNNGDC 91 (929)
Q Consensus 13 ~~FPf~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (929)
+.|||+ .||.|..||..|-++|+++.+++||.|+|||||.|||..+++|...+.
T Consensus 10 v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p------------------------- 64 (755)
T KOG1131|consen 10 VYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYP------------------------- 64 (755)
T ss_pred EecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCC-------------------------
Confidence 569998 999999999999999999999999999999999999999999965410
Q ss_pred CCCCcchhHHHhhhchhhhHHHHHHHhhhccCCCcccchhhhccccccccccccchhhchhhhhhhhcccccccCCcccc
Q 002378 92 SSNDEPDWMRNFVVNRDFQAEDAKIKKKKNGCGLGKTGERKHREISTDTFSHSMEKDKCFTKKECENLQSINDQSELSDE 171 (929)
Q Consensus 92 ~~~~~pdw~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 171 (929)
T Consensus 65 -------------------------------------------------------------------------------- 64 (755)
T KOG1131|consen 65 -------------------------------------------------------------------------------- 64 (755)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccccccccccccccCCCccccccCCCCCCCCCCcccccCCccccCcccEEEEecccchhHHHHHHHHHhc--------c
Q 002378 172 EFLLEEYESEEEGAIGGGKSKRKAGAGTISSSSDEEEEDGLDEEGEEVLKVYFCSRTHSQLSQFIKELRKT--------V 243 (929)
Q Consensus 172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIiy~SRTHSQL~Qvi~ELrkt--------~ 243 (929)
....|+||||||-+++..++.||+++ .
T Consensus 65 ---------------------------------------------~~~~KliYCSRTvpEieK~l~El~~l~~y~~k~~g 99 (755)
T KOG1131|consen 65 ---------------------------------------------DEHRKLIYCSRTVPEIEKALEELKRLMDYREKHLG 99 (755)
T ss_pred ---------------------------------------------cccceEEEecCcchHHHHHHHHHHHHHHHHHHhcC
Confidence 01258999999999999999999996 2
Q ss_pred cCCCeeEEEecccccccccHHHhhcCCchhhHHHHHHHhhhhhhhhhhhhhccccccccccCCCCCCcCcccchhhhccc
Q 002378 244 FANEIKVVCLGSRKNFCINEEVLRLGNSTHINERCLELQNKKKNEICKIKNLGAEGKVRRTKAFSGCPVLRSHKLQKGFR 323 (929)
Q Consensus 244 ~~~~~~~~~L~SR~~lCin~~v~~~~~~~~~n~~C~~l~~~k~~~~~~~~~~~~~~~~~~~~~~~~C~y~~~~~~~~~~~ 323 (929)
+...+..+.|.||++|||||+|.++.+.+.++.+|+.|..+..+.+... ......|.||.|... .
T Consensus 100 ~~~~flglglssRKNlCi~~~v~~~r~g~~VD~~Cr~ltas~vr~~~~e-----------d~~~~~C~f~en~~~----~ 164 (755)
T KOG1131|consen 100 YPEPFLGLGLSSRKNLCIHPEVLKERNGNVVDAACRKLTASYVRAKLAE-----------DPNVELCDFFENLED----K 164 (755)
T ss_pred CCCceeeeeeccccccccCHHHHHHhcCCchhHHHHHHhHHHHHHHHhc-----------CCCcchhhHHhhhhc----c
Confidence 4445789999999999999999999888889999999987654433321 123457999988765 2
Q ss_pred cccccCCCCCHHHHHHhcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhCCC-CCCCEEEEeCCcChHHHHHhh
Q 002378 324 NEISQQGALDIEDLVHLGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLGLN-LKNNIVIIDEAHNLADSLINM 402 (929)
Q Consensus 324 ~~~~~~~v~DIEdL~~~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~i~-l~~~ivI~DEAHNL~d~~~~~ 402 (929)
...+..+++++|||.++|++.+.||||.+|.++..|+|||-+|||||||.|.+...-. -+++||||||||||.++|.++
T Consensus 165 ~~~lp~gvy~~~dL~~~g~~k~~CPYflaR~~I~~~nvivYsYhYllDPkIa~~VSkels~~svVvFDEAHNIDnvCIes 244 (755)
T KOG1131|consen 165 ESLLPVGVYTLEDLKEYGEKKGWCPYFLARRMIPFANVIVYSYHYLLDPKIAELVSKELSKESVVVFDEAHNIDNVCIES 244 (755)
T ss_pred cccCCcccccHHHHHHhhhcCCcChHHHHHHhhhcccEEEEehhhhcChHHHHHHHHhhCcCcEEEecccccccchhhhh
Confidence 3456789999999999999999999999999999999999999999999997654433 468999999999999999999
Q ss_pred cccccCHHHHHHHHHHHHHHHHHhhhccCCCCHHHH-HHHHHHHHHHHHHHhhccccccc-cccccCcccCccCCCCccc
Q 002378 403 YNAKITLSQLENVHSHLEKYFGRFCSLLGPGNRRYI-QTLMVFTRAFLQVLLKEKDENDV-RQDSENSTGAKHAFDSSVA 480 (929)
Q Consensus 403 ~S~~ls~~~l~~a~~~l~~~~~~~~~~l~~~n~~~~-~~l~~l~~~l~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 480 (929)
+|+.|+...|+.|.+.|....+.+ ++.+..+...+ .+..++++.|...-.......+. +|--....-....++.+..
T Consensus 245 lSv~i~r~~l~ra~~~l~~l~~~v-~r~k~~d~~kl~~eY~klvegL~~~~~~~~~d~~lanPvLP~dvl~EavPGniR~ 323 (755)
T KOG1131|consen 245 LSVDITRRTLERASRNLNSLEQLV-NRVKETDSQKLQDEYEKLVEGLKDASAERDEDQFLANPVLPDDVLKEAVPGNIRR 323 (755)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHH-HhhhhcchhHHHHHHHHHHHHhhccccccCccchhcCCCCchhhhhhhCCcchhh
Confidence 999999999999988887654443 23333332211 23333444433221111000000 0000000000011122222
Q ss_pred HHHHHhhcccccccHHHHHHHHHHhhhHHH-----Hhhhhh------------------hhhhhccCccccCCCCCcccC
Q 002378 481 INEFLFSLNIDNINLVKLLKYIKESNIIHK-----VSGYGD------------------KAASLQKGSVLKDGGENYEEG 537 (929)
Q Consensus 481 ~~~~l~~~~~~~~nl~~l~~~l~~~~~~~k-----l~~~~~------------------~~~~~~~~~~~~~~~~~~~~~ 537 (929)
...|+.- +..+++|++..--... -.+|.. ++..+.... +. ..-
T Consensus 324 aeHFv~f-------LkR~~ey~ktrl~~~hv~~Esp~sFl~~i~~~~~IerKplrFCaeRL~~L~~tL------ei-td~ 389 (755)
T KOG1131|consen 324 AEHFVSF-------LKRLLEYLKTRLKVHHVIQESPASFLKSIKSLTFIERKPLRFCAERLSSLVRTL------EI-TDV 389 (755)
T ss_pred HHHHHHH-------HHHHHHHHHHhhhheeeeccCcHHHHHHHHHhhhhhccchHHHHHHHHHHHHHh------cc-Cch
Confidence 2333211 1233444432100000 011111 111110000 00 011
Q ss_pred CCcchHHHHHHHHHHhcCCCCCceEEEeecCCCCCCCCCCcCceEEEEecChhHHHHHHHHhhceEEEeccCCCChhhHH
Q 002378 538 SILSGFQSLVDMLISLTNNDGDGRIIISKARPISSGQQGQQGGYLKYVMLTGEKVFSEIVEQAHAVILAGGTLQPIEETR 617 (929)
Q Consensus 538 ~~~~~l~~~~~fl~~l~~~~~d~~v~~~~~~~~~~~~~~~~~~~L~~~cl~ps~~f~~l~~~~~svILtSGTLsP~~~f~ 617 (929)
....+|..+.+|....+.+.....+++++.+.... ...++.|+|.|+|++.+++.+++.++|||.|||||+|++.|.
T Consensus 390 ~df~~l~~v~~faTlVstY~kGF~iIiEPfd~~~~---tv~npil~~sClDaSiAikPVf~RFqsViITSGTlspldmyP 466 (755)
T KOG1131|consen 390 EDFGALKTVADFATLVSTYSKGFSIIIEPFDDRNP---TVPNPILRFSCLDASIAIKPVFERFQSVIITSGTLSPLDMYP 466 (755)
T ss_pred hhhhHHHHHHHHHHHHHHHhcCcEEEEcccccCCC---CCCCCeeEEeecccchhhhHHHHhhheEEEecCcccccccCc
Confidence 23556788888887776665555666665543221 123679999999999999999999999999999999999999
Q ss_pred Hhh-CCCCCCCceeeeecCCccCCCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHHhhccCCCeEEEccCHH
Q 002378 618 ERL-FPWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNLVSVVPEGIIVFFPSFE 696 (929)
Q Consensus 618 ~~L-~~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~~~~vpgg~LVfFpSy~ 696 (929)
..| |.. +...+.......+-+.++++++|.+...+...|..|+++......|+.+.++++.+|||++||||||-
T Consensus 467 k~lnf~p-----v~~~s~~mtLaR~c~~PmiitrG~Dqv~iss~fe~r~d~~VvrnyG~llve~sk~vpdG~v~ff~syl 541 (755)
T KOG1131|consen 467 KILNFGP-----VVGASFTMTLARNCLLPLIITRGNDQVAISSKFEARGDPSVVRNYGNLLVEMSKIVPDGIVCFFPSYL 541 (755)
T ss_pred hhhccCc-----ccchhhheecccccccceeeecCCcchhhhhhhhhccChHHHhhcCcceeeecccCCCceEEEEehHH
Confidence 988 321 11233344455667788999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCC
Q 002378 697 YVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSD 776 (929)
Q Consensus 697 ~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d 776 (929)
||+.+...|...||++.+.+.|-+|+|..+..+..-.++.|+.+|+.| +|||||+|+|||+||||||.+
T Consensus 542 Ymesiv~~w~~~gil~ei~k~KL~fIetpD~~ETs~al~ny~~aC~~g-----------RGavl~sVargkVsEgidF~h 610 (755)
T KOG1131|consen 542 YMESIVSRWYEQGILDEIMKYKLLFIETPDFRETSLALANYRYACDNG-----------RGAVLLSVARGKVSEGIDFDH 610 (755)
T ss_pred HHHHHHHHHHHHhHHHHHhhCceEEEeCCchhhhHHHHHHHHHHhcCC-----------CCceEEEEecCccccCccccc
Confidence 999999999999999999999999999998888999999999999875 899999999999999999999
Q ss_pred CcceEEEEEccCCCCCCCHHHHHHHHHHhhccCCCCCccCCccccccccCCcccccccccccCCCchhhHhhHHHHHHHH
Q 002378 777 GMGRCIVMVGLPYPSPSNIELLERIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGKEYYENLCMKAVNQ 856 (929)
Q Consensus 777 ~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~y~~~a~ravnQ 856 (929)
+.+|+|||.||||.-..+..+++|.+||.++.. +..++|....|||..-|
T Consensus 611 hyGR~ViM~gIP~qytesriLkarle~Lrd~~~------------------------------irE~dflTFDAmRhaAQ 660 (755)
T KOG1131|consen 611 HYGREVIMEGIPYQYTESRILKARLEYLRDQFQ------------------------------IRENDFLTFDAMRHAAQ 660 (755)
T ss_pred ccCceEEEEeccchhhHHHHHHHHHHHHHHHhc------------------------------ccccceechHhHHHHHH
Confidence 999999999999999999999999999998731 45678889999999999
Q ss_pred hhcccccCCCCeEEEEEEecccccCCCcCCCCCccCCCcHHHHhhcccccC--CHHHHHHHHHHHHHHhhh
Q 002378 857 SIGRAIRHINDHAAILLVDLRYASESSKRSCSHPANKLPRWIKDRLVSSTN--NYGEVHRLLHQFFKFNKN 925 (929)
Q Consensus 857 aiGR~IRh~~D~g~iiLlD~R~~~~~~~~~~~~~~~~LP~Wir~~i~~~~~--~~~~~~~~l~~Ff~~~~~ 925 (929)
|+||+||.++|||..|+.|+||.... -+.+||+|++..+..... +-+.+..--++|++.|++
T Consensus 661 C~GrvLr~K~dYg~mI~aDkRf~R~d-------KR~klp~wi~~~l~~~~~nlstd~a~~varrflR~maQ 724 (755)
T KOG1131|consen 661 CLGRVLRGKTDYGLMIFADKRFSRGD-------KRSKLPKWIRNHLFDAKLNLSTDMANQVARRFLRLMAQ 724 (755)
T ss_pred HHHHHHhccccceeeEeeehhhcccc-------chhhhhHHHHhhhhhhccCCCcchhHHHHHHHHHHhcC
Confidence 99999999999999999999999866 689999999998863322 346777888899999886
No 5
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=5.5e-67 Score=637.78 Aligned_cols=608 Identities=23% Similarity=0.261 Sum_probs=403.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHHHHHHHHhHhhhhhccCCCCCCCCCCCCCC
Q 002378 16 PYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQKQKQKQKQKYETMIKSDHSFTNNGDCSSND 95 (929)
Q Consensus 16 Pf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (929)
+|+||+.|..+|..|.+++.+++.+++|+||||||||+|||++|.|..+.
T Consensus 13 ~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~------------------------------ 62 (654)
T COG1199 13 GFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREE------------------------------ 62 (654)
T ss_pred CCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHc------------------------------
Confidence 55799999999999999999999999999999999999999999995430
Q ss_pred cchhHHHhhhchhhhHHHHHHHhhhccCCCcccchhhhccccccccccccchhhchhhhhhhhcccccccCCcccccccc
Q 002378 96 EPDWMRNFVVNRDFQAEDAKIKKKKNGCGLGKTGERKHREISTDTFSHSMEKDKCFTKKECENLQSINDQSELSDEEFLL 175 (929)
Q Consensus 96 ~pdw~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 175 (929)
T Consensus 63 -------------------------------------------------------------------------------- 62 (654)
T COG1199 63 -------------------------------------------------------------------------------- 62 (654)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccccccccccCCCccccccCCCCCCCCCCcccccCCccccCcccEEEEecccchhHHHHHHHHHhcc--cC-CCeeEEE
Q 002378 176 EEYESEEEGAIGGGKSKRKAGAGTISSSSDEEEEDGLDEEGEEVLKVYFCSRTHSQLSQFIKELRKTV--FA-NEIKVVC 252 (929)
Q Consensus 176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIiy~SRTHSQL~Qvi~ELrkt~--~~-~~~~~~~ 252 (929)
..+|||+++||.++.|+++|.+... .. -..+...
T Consensus 63 -------------------------------------------~~~viist~t~~lq~q~~~~~~~~~~~~~~~~~~~~~ 99 (654)
T COG1199 63 -------------------------------------------GKKVIISTRTKALQEQLLEEDLPIHKLLKKLGGKFAL 99 (654)
T ss_pred -------------------------------------------CCcEEEECCCHHHHHHHHHhhcchhhhhhhhhhHHHH
Confidence 0359999999999999999999862 11 0124578
Q ss_pred ecccccccccHHHhh-cCCchhhHHHHHHHhhhhhhhhhhhhhccccccccccCCCCCCcCcccchhhh--ccccc---c
Q 002378 253 LGSRKNFCINEEVLR-LGNSTHINERCLELQNKKKNEICKIKNLGAEGKVRRTKAFSGCPVLRSHKLQK--GFRNE---I 326 (929)
Q Consensus 253 L~SR~~lCin~~v~~-~~~~~~~n~~C~~l~~~k~~~~~~~~~~~~~~~~~~~~~~~~C~y~~~~~~~~--~~~~~---~ 326 (929)
+.||+++|....+.. ..........|.... .+...+ . ....|.+..+..... ..... .
T Consensus 100 ~kgr~n~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~-~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (654)
T COG1199 100 LKGRSNYLCLSRLERLAQLGGDDDDYLQSLA-LKALAD-L--------------LVWLTETKTGDLRELTPKALDDPLWT 163 (654)
T ss_pred HhccccccchHHHHHHHHccCcchhHHhhhh-HHHHHH-H--------------HHHhhcCCCCChhhccccccccchhh
Confidence 899999999988773 222233345565421 000000 0 000111211110000 00000 0
Q ss_pred ccCCCCCHHHHHHhcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhCC-CCCCCEEEEeCCcChHHHHHhhccc
Q 002378 327 SQQGALDIEDLVHLGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLGL-NLKNNIVIIDEAHNLADSLINMYNA 405 (929)
Q Consensus 327 ~~~~v~DIEdL~~~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~i-~l~~~ivI~DEAHNL~d~~~~~~S~ 405 (929)
......+.... ..|.....|||+.+|+.+..||||++||+|++.+..+....+ .+++.||||||||||++.|++..|.
T Consensus 164 ~~~~~~~~~~~-~~cp~~~~c~~~~~~~~~~~ad~vv~nh~~~~~~~~~~~~~~~~p~~~v~v~DEAH~l~d~a~~~~s~ 242 (654)
T COG1199 164 LVTDDKDSCLG-EDCPYYTECFYFPARKEAENADLVVTNHALLLADVALEESRILLPENDVVVFDEAHNLPDIARSALSI 242 (654)
T ss_pred hhhcccccccc-cCCcchhhhHHHHHHHHHhhCCEEEEccHHHHhHHHhhhhhccCCcccEEEEeccccchHHHHHHHHH
Confidence 11222334444 668888999999999999999999999999999998776655 5899999999999999999999999
Q ss_pred ccCHHHHHHHHHHHHHHHHHhhhccCCCCHHHHHHHHHHHHHHHHHHhhccccccccccccCcccCccCCCCcccHHHHH
Q 002378 406 KITLSQLENVHSHLEKYFGRFCSLLGPGNRRYIQTLMVFTRAFLQVLLKEKDENDVRQDSENSTGAKHAFDSSVAINEFL 485 (929)
Q Consensus 406 ~ls~~~l~~a~~~l~~~~~~~~~~l~~~n~~~~~~l~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 485 (929)
.|+..+|..+..++..+........... ......|...++.+...+....+. ..+. ..............
T Consensus 243 ~l~~~~L~~~~~~~~~~~~~~~~~~~~~-~~~~~~L~~~~~~~~~~~~~~~~~------~~~~---~~~~~~~~~~~~~~ 312 (654)
T COG1199 243 RLSERTLERLLKEIQALGETLEKDLKRL-EDLADRLEKALEDLRELLIFDVDE------LGNL---RERLREQLSSEEAK 312 (654)
T ss_pred HhhHHHHHHHHHHHHHhhhhhhhhHHHH-HhhHHHHHHHHHHHHHHHhcchhh------hhhH---HHhccccchhhHHH
Confidence 9999999999998877653211000000 000001111111111111100000 0000 00000000000000
Q ss_pred hhcccccccHHHHHHHHHHhhhHHHHhhhhhhhhhhccCccccCCCCCcccCCCcchHHHHHHHHHHhc-----CCCCCc
Q 002378 486 FSLNIDNINLVKLLKYIKESNIIHKVSGYGDKAASLQKGSVLKDGGENYEEGSILSGFQSLVDMLISLT-----NNDGDG 560 (929)
Q Consensus 486 ~~~~~~~~nl~~l~~~l~~~~~~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~fl~~l~-----~~~~d~ 560 (929)
. .+..+.+-+... ...+...... .+. ..+ ...+.+..+..++..+. ..+..+
T Consensus 313 ~-------~~~~~~~~~~~~--~~~~~~~~~~---~~~---------~~d--~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 369 (654)
T COG1199 313 E-------ALGKLEEALLEK--LKNLSELLGL---SQN---------ELD--RPTSILERLKEELDRLLSRELLLSDDPD 369 (654)
T ss_pred H-------HHHHHHHHHHHH--HHHHHHHHHh---hhh---------hcc--chhHHHHHHHHHHHHHHhhcccccCCCC
Confidence 0 001111111000 0011111000 000 000 00133444555554333 223445
Q ss_pred eEEEeecCCCCCCCCCCcCceEEEEecChhHHHHHHHHhhceEEEeccCCCChhhHHHhhCC-CCCCCceeeeecCCccC
Q 002378 561 RIIISKARPISSGQQGQQGGYLKYVMLTGEKVFSEIVEQAHAVILAGGTLQPIEETRERLFP-WLSPNKFHFFSCSHIVP 639 (929)
Q Consensus 561 ~v~~~~~~~~~~~~~~~~~~~L~~~cl~ps~~f~~l~~~~~svILtSGTLsP~~~f~~~L~~-~~~~~~i~~~~~~hvi~ 639 (929)
..+|........ ...+..+|+.|+...+.++.+++++|||||||+|+++|...++. .... ...++..+++|+
T Consensus 370 ~~~w~~~~~~~~------~~~~~~~~~~~~~l~~~~~~~~~~~vl~SaTL~~~~~f~~~~~~~~~~~-~~~~~~~~spf~ 442 (654)
T COG1199 370 YSYWLEIEEREG------VLLLVLPLLVPSKLLEELFSKVASVVLTSATLSPLDSFSSLLGLLGLEE-KLRFLSLPSPFN 442 (654)
T ss_pred ceEEEEeccccc------ceeEEeecccHHHHHHHHHhhcCcEEEeeeeccCCCcHHHHHHHcCCcc-ccceeccCCCCC
Confidence 666765443211 11468899999999999999999999999999999999987732 2221 122456677776
Q ss_pred CCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCcc
Q 002378 640 PESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKH 719 (929)
Q Consensus 640 ~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~ 719 (929)
........++ ..|..++.+.+...++..|.+++..+|||+|||||||.+|+.+++.|.....+ ..
T Consensus 443 ~~~~~~~~v~---------~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~lvlF~Sy~~l~~~~~~~~~~~~~------~~ 507 (654)
T COG1199 443 YEEQGQLYVP---------TDLPEPREPELLAKLAAYLREILKASPGGVLVLFPSYEYLKRVAERLKDERST------LP 507 (654)
T ss_pred hhhcceEecc---------ccCCCCCChHHHHHHHHHHHHHHhhcCCCEEEEeccHHHHHHHHHHHhhcCcc------ce
Confidence 4433223332 13445555789999999999999999999999999999999999999876432 35
Q ss_pred EEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCHHHHH
Q 002378 720 VFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLE 799 (929)
Q Consensus 720 if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~ 799 (929)
|+.++. .+.+.++++|.+. .++ +|+|+||+|||||||+|+.+|+|||+|||||+|+||.+++
T Consensus 508 v~~q~~--~~~~~~l~~f~~~--------------~~~--~~lv~~gsf~EGVD~~g~~l~~vvI~~lPfp~p~dp~~~~ 569 (654)
T COG1199 508 VLTQGE--DEREELLEKFKAS--------------GEG--LILVGGGSFWEGVDFPGDALRLVVIVGLPFPNPDDPLLKA 569 (654)
T ss_pred eeecCC--CcHHHHHHHHHHh--------------cCC--eEEEeeccccCcccCCCCCeeEEEEEecCCCCCCCHHHHH
Confidence 777765 4556899999983 223 7788889999999999999999999999999999999999
Q ss_pred HHHHHhhccCCCCCccCCccccccccCCcccccccccccCCCchhhHhhHHHHHHHHhhcccccCCCCeEEEEEEecccc
Q 002378 800 RIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGKEYYENLCMKAVNQSIGRAIRHINDHAAILLVDLRYA 879 (929)
Q Consensus 800 k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~y~~~a~ravnQaiGR~IRh~~D~g~iiLlD~R~~ 879 (929)
|.+|.++.+++ ....||..+||++|+||+||+|||++|||+|+|||+||.
T Consensus 570 r~~~~~~~g~~------------------------------~f~~~~l~~A~~~l~QavGRlIR~~~D~G~ivllD~R~~ 619 (654)
T COG1199 570 RLEFLKRLGGD------------------------------PFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIVLLDKRYA 619 (654)
T ss_pred HHHHHHHhcCC------------------------------CceEeehHHHHHHHHHhhccccccCCCceEEEEecccch
Confidence 99999887432 233678999999999999999999999999999999999
Q ss_pred cCCCcCCCCCccCCCcHHHHhhcc
Q 002378 880 SESSKRSCSHPANKLPRWIKDRLV 903 (929)
Q Consensus 880 ~~~~~~~~~~~~~~LP~Wir~~i~ 903 (929)
+.+ +...||.|+.....
T Consensus 620 ~~~-------y~~~l~~~l~~~~~ 636 (654)
T COG1199 620 TKR-------YGKLLLDSLPPFPK 636 (654)
T ss_pred hhh-------HHHHHHHhCCCCcc
Confidence 988 57899999988776
No 6
>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=7.7e-62 Score=603.92 Aligned_cols=540 Identities=17% Similarity=0.196 Sum_probs=345.7
Q ss_pred EEEEecccchhHHHH-HHHHHhcc--cCCCeeEEEecccccccccHHHhhcCCchhhHHHHHHHhhhhhhhhhhhhhccc
Q 002378 221 KVYFCSRTHSQLSQF-IKELRKTV--FANEIKVVCLGSRKNFCINEEVLRLGNSTHINERCLELQNKKKNEICKIKNLGA 297 (929)
Q Consensus 221 kIiy~SRTHSQL~Qv-i~ELrkt~--~~~~~~~~~L~SR~~lCin~~v~~~~~~~~~n~~C~~l~~~k~~~~~~~~~~~~ 297 (929)
+|++++.|.+=-.|+ -+|++.+. +.-+++++++-||.+||........-.....+..|..+..
T Consensus 294 ~vvi~t~t~~Lq~Ql~~~~~~~l~~~~~~~~~~~~~kG~~~ylcl~k~~~~l~~~~~~~~~~~~~~-------------- 359 (850)
T TIGR01407 294 PVVISTNTKVLQSQLLEKDIPLLNEILNFKINAALIKGKSNYLSLGKFSQILKDNTDNYEFNIFKM-------------- 359 (850)
T ss_pred eEEEEeCcHHHHHHHHHHHHHHHHHHcCCCceEEEEEcchhhccHHHHHHHHhcCCCcHHHHHHHH--------------
Confidence 589999999833454 34666542 2224899999999999876655431111112223432211
Q ss_pred cccccccCCCCCCcCcccchhhhcccccccc--------CCC-CCHHHHHHhcccCCCCchhhhhcccCCCcEEEecccc
Q 002378 298 EGKVRRTKAFSGCPVLRSHKLQKGFRNEISQ--------QGA-LDIEDLVHLGRHMRTCPYYGSRSMVPTADLVVLPYQS 368 (929)
Q Consensus 298 ~~~~~~~~~~~~C~y~~~~~~~~~~~~~~~~--------~~v-~DIEdL~~~g~~~~~CPYy~sR~~~~~AdII~~pYny 368 (929)
.-|.|+...... ++.+... ..+ .|- .+...|..++.|||+.+|+.++.|||||+||+|
T Consensus 360 ----------~~~~wl~~T~tG--D~~el~~~~~~~~~~~~i~~~~-~l~~~c~~~~~Cf~~~ar~~a~~AdivItNHa~ 426 (850)
T TIGR01407 360 ----------QVLVWLTETETG--DLDELNLKGGNKMFFAQVRHDG-NLSKKDLFYEVDFYNRAQKNAEQAQILITNHAY 426 (850)
T ss_pred ----------HHHHHhccCCcc--CHhhccCCCcchhhHHHhhcCC-CCCCCCCCccccHHHHHHHHHhcCCEEEecHHH
Confidence 124444322100 0000000 000 010 234456677899999999999999999999999
Q ss_pred ccCHHHHHHhCCCCCCCEEEEeCCcChHHHHHhhcccccCHHHHHHHHHHHHHHHHHhhhccCCCCHHHHHHHHHHHHHH
Q 002378 369 LLSKSARESLGLNLKNNIVIIDEAHNLADSLINMYNAKITLSQLENVHSHLEKYFGRFCSLLGPGNRRYIQTLMVFTRAF 448 (929)
Q Consensus 369 Ll~~~~R~~l~i~l~~~ivI~DEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~~~~~~l~~~n~~~~~~l~~l~~~l 448 (929)
||++.... ..+.+++.+|||||||||+|++++++|.+|+..++..+++++..... ......+..++..+
T Consensus 427 L~~~~~~~-~~ilp~~~~lIiDEAH~L~d~a~~~~~~~ls~~~~~~~l~~l~~~~~----------~~l~~~l~~~~~~~ 495 (850)
T TIGR01407 427 LITRLVDN-PELFPSFRDLIIDEAHHLPDIAENQLQEELDYADIKYQIDLIGKGEN----------EQLLKRIQQLEKQE 495 (850)
T ss_pred HHHHhhcc-cccCCCCCEEEEECcchHHHHHHHHhcceeCHHHHHHHHHHHHhhhh----------HHHHHHHHHHHHHH
Confidence 99997542 24678889999999999999999999999999999888887742110 00111122222211
Q ss_pred HHHHhhccccccccccccCcccCccCCCCcccHHHHHhhcccccccHHHHHHHHHHhhhHHHHhhhhhhhhhhccCcccc
Q 002378 449 LQVLLKEKDENDVRQDSENSTGAKHAFDSSVAINEFLFSLNIDNINLVKLLKYIKESNIIHKVSGYGDKAASLQKGSVLK 528 (929)
Q Consensus 449 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~nl~~l~~~l~~~~~~~kl~~~~~~~~~~~~~~~~~ 528 (929)
...+..... .......+...+. .+..++..+.+ +... ..+.+
T Consensus 496 ~~~~~~~~~----------------~~~~~~~l~~~~~-------~l~~~l~~~~~--~~~~---~~~~l---------- 537 (850)
T TIGR01407 496 ILEKLFDFE----------------TKDILKDLQAILD-------KLNKLLQIFSE--LSHK---TVDQL---------- 537 (850)
T ss_pred HHHHHhhhh----------------hhhHHHHHHHHHH-------HHHHHHHHHHh--hhhh---hHHHH----------
Confidence 111000000 0000000000000 00011100000 0000 00000
Q ss_pred CCCCCcccCCCcchHHHHHHHHHHhcCCCCCceEEEeecCCCCCCCCCCcCceEEEEecChhHHH-HHHHHhhceEEEec
Q 002378 529 DGGENYEEGSILSGFQSLVDMLISLTNNDGDGRIIISKARPISSGQQGQQGGYLKYVMLTGEKVF-SEIVEQAHAVILAG 607 (929)
Q Consensus 529 ~~~~~~~~~~~~~~l~~~~~fl~~l~~~~~d~~v~~~~~~~~~~~~~~~~~~~L~~~cl~ps~~f-~~l~~~~~svILtS 607 (929)
...+..+...+..+.....+..++|....... ......|+..|++|+..+ +.+++.++++||||
T Consensus 538 -----------~~~~~~~~~~~~~l~~~~~~~~~~wi~~~~~~----~~~~~~l~~~pl~~~~~l~~~~~~~~~~~il~S 602 (850)
T TIGR01407 538 -----------RKFDLALKDDFKNIEQSLKEGHTSWISIENLQ----QKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTS 602 (850)
T ss_pred -----------HHHHHHHHHHHHHHHHHhccCCeEEEEecCCC----CCceEEEEeeeCcHHHHHHHHHhccCCeEEEEe
Confidence 00011111111111111112346665543211 011346899999999888 57889999999999
Q ss_pred cCCC---ChhhHHHhhCCCCCCCceeeeecCCccC-CCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHHhhc
Q 002378 608 GTLQ---PIEETRERLFPWLSPNKFHFFSCSHIVP-PESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNLVSV 683 (929)
Q Consensus 608 GTLs---P~~~f~~~L~~~~~~~~i~~~~~~hvi~-~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~~~~ 683 (929)
|||+ |+++|.+.||..- .....+. +++|+ .+|..+++++..|. +..++.++|.+.++..|.+++..
T Consensus 603 ATL~~~~~~~~~~~~lGl~~--~~~~~~~-~spf~~~~~~~l~v~~d~~~-------~~~~~~~~~~~~ia~~i~~l~~~ 672 (850)
T TIGR01407 603 ATLKFSHSFESFPQLLGLTD--VHFNTIE-PTPLNYAENQRVLIPTDAPA-------IQNKSLEEYAQEIASYIIEITAI 672 (850)
T ss_pred cccccCCChHHHHHhcCCCc--cccceec-CCCCCHHHcCEEEecCCCCC-------CCCCChHHHHHHHHHHHHHHHHh
Confidence 9999 8899999987531 1122334 89998 68888877755442 23445678999999999999999
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
++|++|||||||.+|+.+++.|..... ....+++.|+.+ +++..++++|++ .+++||||+
T Consensus 673 ~~g~~LVlftS~~~l~~v~~~L~~~~~----~~~~~~l~q~~~-~~r~~ll~~F~~---------------~~~~iLlgt 732 (850)
T TIGR01407 673 TSPKILVLFTSYEMLHMVYDMLNELPE----FEGYEVLAQGIN-GSRAKIKKRFNN---------------GEKAILLGT 732 (850)
T ss_pred cCCCEEEEeCCHHHHHHHHHHHhhhcc----ccCceEEecCCC-ccHHHHHHHHHh---------------CCCeEEEEc
Confidence 999999999999999999999875321 123468888864 678999999987 468999999
Q ss_pred ecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhccCCCCCccCCccccccccCCcccccccccccCCCch
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGK 843 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 843 (929)
|+|||||||+|+.+++|||+|||||+|+||.++++++|+++.+++ ...
T Consensus 733 --~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~~~~~~~g~~------------------------------~f~ 780 (850)
T TIGR01407 733 --SSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQEGKN------------------------------PFY 780 (850)
T ss_pred --ceeecccccCCCceEEEEEeCCCCCCCCCHHHHHHHHHHHHhcCC------------------------------chH
Confidence 999999999999999999999999999999999999999875321 011
Q ss_pred hhHhhHHHHHHHHhhcccccCCCCeEEEEEEecccccCCCcCCCCCccCCCcHHHHhhcccccCCHHHHHHHHHHHH
Q 002378 844 EYYENLCMKAVNQSIGRAIRHINDHAAILLVDLRYASESSKRSCSHPANKLPRWIKDRLVSSTNNYGEVHRLLHQFF 920 (929)
Q Consensus 844 ~~y~~~a~ravnQaiGR~IRh~~D~g~iiLlD~R~~~~~~~~~~~~~~~~LP~Wir~~i~~~~~~~~~~~~~l~~Ff 920 (929)
+|+..+|+.+++||+||+||+++|+|+|+|+|.||.+++|| ..+.+.||+- ......+++++...++.||
T Consensus 781 ~~~lP~A~~~l~Qa~GRlIRs~~D~G~v~ilD~R~~~~~Yg---~~~~~sLp~~----~~~~~~~~~~~~~~~~~~~ 850 (850)
T TIGR01407 781 DYVLPMAIIRLRQALGRLIRRENDRGSIVILDRRLVGKRYG---KRFEKSLPEY----LQVKGDILGELLEAIKEFL 850 (850)
T ss_pred HhhHHHHHHHHHHhhccccccCCceEEEEEEccccccchHH---HHHHHhCCCc----cccccCCHHHHHHHHHhhC
Confidence 22233588999999999999999999999999999999875 4556666643 2213356899999999885
No 7
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=2e-61 Score=602.22 Aligned_cols=490 Identities=16% Similarity=0.184 Sum_probs=316.2
Q ss_pred HhcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChHHHHHhhcccccCHHHHHHHHHH
Q 002378 339 HLGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLADSLINMYNAKITLSQLENVHSH 418 (929)
Q Consensus 339 ~~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~d~~~~~~S~~ls~~~l~~a~~~ 418 (929)
..|.....|||+.+|+.++.|||||+||+|||.+... ..++.+++.+|||||||||+++|.+.++.+++...+...+..
T Consensus 412 ~~cp~~~~Cf~~~ar~~a~~AdivItNHalLl~dl~~-~~~ilp~~~~lViDEAH~l~d~A~~~~~~~~s~~~~~~~l~~ 490 (928)
T PRK08074 412 KQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDLTS-EEPLLPSYEHIIIDEAHHFEEAASRHLGEQFSYMSFQLLLSR 490 (928)
T ss_pred CCCCcccccHHHHHHHHHhcCCEEEECHHHHHHHHhh-hcccCCCCCeEEEECCchHHHHHHHHhcceecHHHHHHHHHH
Confidence 3355566799999999999999999999999998743 235778999999999999999999999999999999888777
Q ss_pred HHHH-----HHHhhhccCCCC----------HHHHHHHHHHHHHHHHHHhhccccccccccccCcccCccCCCCcccHHH
Q 002378 419 LEKY-----FGRFCSLLGPGN----------RRYIQTLMVFTRAFLQVLLKEKDENDVRQDSENSTGAKHAFDSSVAINE 483 (929)
Q Consensus 419 l~~~-----~~~~~~~l~~~n----------~~~~~~l~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 483 (929)
+... ..++...+.... ...+..+...+..++..+........ .... .......+..
T Consensus 491 l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~----~~~~-----~~~~~~~~~~ 561 (928)
T PRK08074 491 LGTLEEDGLLSKLAKLFKKSDQASRSSFRDLDESLKELKFEADELFQMLRSFVLKRK----KQEQ-----NGRLIYRYNT 561 (928)
T ss_pred HhhhccccHHHHHHHHHhhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc----cccc-----cccceeeccc
Confidence 6421 111111111000 01122222233333333322111000 0000 0000000000
Q ss_pred HHhhcccccccH----HHHHHHHHHhhhHHHHhhhhhhhhhhccCccccCCCCCcccCCCcchHHHHHHHHHHhcCCCCC
Q 002378 484 FLFSLNIDNINL----VKLLKYIKESNIIHKVSGYGDKAASLQKGSVLKDGGENYEEGSILSGFQSLVDMLISLTNNDGD 559 (929)
Q Consensus 484 ~l~~~~~~~~nl----~~l~~~l~~~~~~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~fl~~l~~~~~d 559 (929)
.. ..+.....+ ..+...+. .+...+....+......... ..........+..+.....-+..+.....+
T Consensus 562 ~~-~~~~~~~~~~~~~~~l~~~l~--~l~~~l~~~~~~l~~~~~~~----~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~ 634 (928)
T PRK08074 562 ES-EKGKLWDAITELANRLCYDLR--DLLTLLEAQKKELQEKMESE----SAFLTGEYAHLIDLLEKMAQLLQLLFEEDP 634 (928)
T ss_pred cc-ccchhhHHHHHHHHHHHHHHH--HHHHHHHHHHHHHhhhhhhh----hhhHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 00 000000000 00111110 01111111000000000000 000000000111111112212222222334
Q ss_pred ceEEEeecCCCCCCCCCCcCceEEEEecChhHHHH-HHHHhhceEEEeccCCC---ChhhHHHhhCCCCCCCceeeeecC
Q 002378 560 GRIIISKARPISSGQQGQQGGYLKYVMLTGEKVFS-EIVEQAHAVILAGGTLQ---PIEETRERLFPWLSPNKFHFFSCS 635 (929)
Q Consensus 560 ~~v~~~~~~~~~~~~~~~~~~~L~~~cl~ps~~f~-~l~~~~~svILtSGTLs---P~~~f~~~L~~~~~~~~i~~~~~~ 635 (929)
+.++|......+ ......|+..|++|+..+. .++..++++|||||||+ ++++|.+.||..- ..+..+..+
T Consensus 635 ~~v~w~e~~~~~----~~~~~~l~~~pld~~~~l~~~l~~~~~~~iltSATL~~~~~f~~~~~~lGl~~--~~~~~~~~~ 708 (928)
T PRK08074 635 DYVTWIEIDAKG----AINATRLYAQPVEVAERLADEFFAKKKSVILTSATLTVNGSFDYIIERLGLED--FYPRTLQIP 708 (928)
T ss_pred CeEEEEEecCCC----CCceEEEEEeeccHHHHHHHHHHhcCCcEEEEeeecccCCCcHHHHHhcCCCC--CCccEEEeC
Confidence 567787543211 0113468999999999997 56689999999999999 5667778886531 123356778
Q ss_pred CccCC-CCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHh
Q 002378 636 HIVPP-ESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRI 714 (929)
Q Consensus 636 hvi~~-~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l 714 (929)
++|+. +|..++++.+.|. ...++.+.|.+.+++.|.+++..++||+|||||||.+|++|++.|+.....
T Consensus 709 SpF~~~~q~~l~vp~d~p~-------~~~~~~~~~~~~la~~i~~l~~~~~g~~LVLFtSy~~l~~v~~~l~~~~~~--- 778 (928)
T PRK08074 709 SPFSYEEQAKLMIPTDMPP-------IKDVPIEEYIEEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEEL--- 778 (928)
T ss_pred CCCCHHHhcEEEeecCCCC-------CCCCChHHHHHHHHHHHHHHHHhCCCCEEEEECCHHHHHHHHHHHhhcccc---
Confidence 99985 6777777655543 234556889999999999999999999999999999999999999864321
Q ss_pred hcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCC
Q 002378 715 MKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSN 794 (929)
Q Consensus 715 ~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d 794 (929)
....++.|+.+.++...++++|++ ..++||||+ |+|||||||+|+.+++|||+|||||+|+|
T Consensus 779 -~~~~ll~Qg~~~~~r~~l~~~F~~---------------~~~~iLlG~--~sFwEGVD~pg~~l~~viI~kLPF~~p~d 840 (928)
T PRK08074 779 -EGYVLLAQGVSSGSRARLTKQFQQ---------------FDKAILLGT--SSFWEGIDIPGDELSCLVIVRLPFAPPDQ 840 (928)
T ss_pred -cCceEEecCCCCCCHHHHHHHHHh---------------cCCeEEEec--CcccCccccCCCceEEEEEecCCCCCCCC
Confidence 124588888655788999999987 468999998 99999999999999999999999999999
Q ss_pred HHHHHHHHHHhhccCCCCCccCCccccccccCCcccccccccccCCCchhhHhh---HHHHHHHHhhcccccCCCCeEEE
Q 002378 795 IELLERIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGKEYYEN---LCMKAVNQSIGRAIRHINDHAAI 871 (929)
Q Consensus 795 ~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~y~~---~a~ravnQaiGR~IRh~~D~g~i 871 (929)
|.+++|++|+++.++ +.||.+ +|+.+++||+||+|||++|+|+|
T Consensus 841 p~~~a~~~~~~~~g~---------------------------------~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~v 887 (928)
T PRK08074 841 PVMEAKSEWAKEQGE---------------------------------NPFQELSLPQAVLRFKQGFGRLIRTETDRGTV 887 (928)
T ss_pred HHHHHHHHHHHHhCC---------------------------------CchhhhhhHHHHHHHHhhhhhhcccCCceEEE
Confidence 999999999988632 234433 47888899999999999999999
Q ss_pred EEEecccccCCCcCCCCCccCCCcHHHHhhcccccCCHHHHHHHHHHHH
Q 002378 872 LLVDLRYASESSKRSCSHPANKLPRWIKDRLVSSTNNYGEVHRLLHQFF 920 (929)
Q Consensus 872 iLlD~R~~~~~~~~~~~~~~~~LP~Wir~~i~~~~~~~~~~~~~l~~Ff 920 (929)
+|||+|+.+++|| ..+.+.||+ ++. ...++.++...++.|+
T Consensus 888 ~ilD~R~~~k~Yg---~~~l~sLP~-~~~----~~~~~~~~~~~~~~~~ 928 (928)
T PRK08074 888 FVLDRRLTTTSYG---KYFLESLPT-VPV----YEGTLEELLEEVEEFL 928 (928)
T ss_pred EEecCccccchHH---HHHHHhCCC-CCc----ccCCHHHHHHHHHhhC
Confidence 9999999999875 578888886 221 3468899999999884
No 8
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=100.00 E-value=1.2e-60 Score=578.48 Aligned_cols=471 Identities=16% Similarity=0.171 Sum_probs=301.0
Q ss_pred hcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhCCCC--CCCEEEEeCCcChHHHHHhhcccccCHHHHHHHHH
Q 002378 340 LGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLGLNL--KNNIVIIDEAHNLADSLINMYNAKITLSQLENVHS 417 (929)
Q Consensus 340 ~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~i~l--~~~ivI~DEAHNL~d~~~~~~S~~ls~~~l~~a~~ 417 (929)
.|.....|||+.+|+.+..|||||+||+|||.+.....-+|.+ +..+|||||||||+|++.+.++.+++...+...++
T Consensus 201 ~Cp~~~~Cf~~~ar~~a~~AdivVtNH~LLladl~~~~~~iLp~~~~~~lViDEAH~L~d~A~~~~~~~~s~~~~~~~l~ 280 (697)
T PRK11747 201 NCPYFRECPFFKARREIDEADVVVANHDLVLADLELGGGVVLPDPENLLYVLDEGHHLPDVARDHFAASAELKGTADWLE 280 (697)
T ss_pred CCCCCccChHHHHHHHHhhCCEEEECcHHHHhhhhccCCcccCCCCCCEEEEECccchHHHHHHHhhhhccHHHHHHHHH
Confidence 3555668999999999999999999999999987421223554 58999999999999999999999999998888777
Q ss_pred HHHHHHHHhhhccCC---CCHHHHH----HHHHHHHHHHHHHhhccccccccccccCcccCccCCCCcc-cHHHHHhhcc
Q 002378 418 HLEKYFGRFCSLLGP---GNRRYIQ----TLMVFTRAFLQVLLKEKDENDVRQDSENSTGAKHAFDSSV-AINEFLFSLN 489 (929)
Q Consensus 418 ~l~~~~~~~~~~l~~---~n~~~~~----~l~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~ 489 (929)
.+.....+....+.. .....+. .+..+...+...+...... ....... .-...... .+.+....+.
T Consensus 281 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~-----~~~~~~~-~~~~~~~~~~~~~~~~~~~ 354 (697)
T PRK11747 281 KLLKLLTKLVALIMEPPLALPERLNAHCEELRELLASLNQILNLFLPA-----GGEEARY-RFEMGELPEELLELAERLA 354 (697)
T ss_pred HHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHHhhccc-----ccccccc-cccCCCCcHHHHHHHHHHH
Confidence 775543332221110 0001111 1222222222222111000 0000000 00000000 0000000000
Q ss_pred cccccHHHHHHHHHHhhhHHHHhhhhhhhhhhccCccccC--CCCCcccCCCcchHHHHHHHHHHhcCCCCC---ceEEE
Q 002378 490 IDNINLVKLLKYIKESNIIHKVSGYGDKAASLQKGSVLKD--GGENYEEGSILSGFQSLVDMLISLTNNDGD---GRIII 564 (929)
Q Consensus 490 ~~~~nl~~l~~~l~~~~~~~kl~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~fl~~l~~~~~d---~~v~~ 564 (929)
..+..+...+. .+...... .......... .....+.......+..+.+.+..+...+++ ..++|
T Consensus 355 ---~~l~~l~~~l~------~l~~~l~~--~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~v~W 423 (697)
T PRK11747 355 ---KLTEKLLGLLE------KLLNDLSE--AMKTGKIDIVRLERLLLELGRALGRLEALSKLWRLAAKEDQESGAPMARW 423 (697)
T ss_pred ---HHHHHHHHHHH------HHHHHHHH--HHhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCCCceEE
Confidence 00111111110 11100000 0000000000 000000011223334444444444433222 34778
Q ss_pred eecCCCCCCCCCCcCceEEEEecChhHHHH-HHHHhhceEEEeccCCCCh---hhHHHhhCCCCCCCceeeeecCCccCC
Q 002378 565 SKARPISSGQQGQQGGYLKYVMLTGEKVFS-EIVEQAHAVILAGGTLQPI---EETRERLFPWLSPNKFHFFSCSHIVPP 640 (929)
Q Consensus 565 ~~~~~~~~~~~~~~~~~L~~~cl~ps~~f~-~l~~~~~svILtSGTLsP~---~~f~~~L~~~~~~~~i~~~~~~hvi~~ 640 (929)
......+ +.....|+..|++|+..|+ .+++.++++|||||||+|. ++|.+.||... ...+..+..+++|+.
T Consensus 424 ie~~~~~----~~~~~~l~~~Pl~~~~~l~~~l~~~~~~vIltSATL~~~~~f~~~~~~lGL~~-~~~~~~~~~~SpF~~ 498 (697)
T PRK11747 424 ITREERD----GQGDYLFHASPIRVGDQLERLLWSRAPGAVLTSATLRSLNSFDRFQEQSGLPE-KDGDRFLALPSPFDY 498 (697)
T ss_pred EEeccCC----CCceEEEEEecCCHHHHHHHHHHhhCCEEEEEeeeCCCCCchHHHHHHcCCCC-CCCceEEEcCCCCCH
Confidence 7554221 0123579999999999995 7889999999999999976 56666776531 012345678999986
Q ss_pred CCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccE
Q 002378 641 ESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHV 720 (929)
Q Consensus 641 ~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~i 720 (929)
++...++++..+ +..+++++|.+.+++.|.+++. ++||+|||||||.+|+++++.|... ..++|
T Consensus 499 ~~q~~l~vp~~~--------~~p~~~~~~~~~~~~~i~~l~~-~~gg~LVlFtSy~~l~~v~~~l~~~-------~~~~l 562 (697)
T PRK11747 499 PNQGKLVIPKMR--------AEPDNEEAHTAEMAEFLPELLE-KHKGSLVLFASRRQMQKVADLLPRD-------LRLML 562 (697)
T ss_pred HHccEEEeCCCC--------CCCCCcHHHHHHHHHHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHh-------cCCcE
Confidence 444444444322 1225678899999999999999 9999999999999999999999752 13579
Q ss_pred EEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCHHHHHH
Q 002378 721 FREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLER 800 (929)
Q Consensus 721 f~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k 800 (929)
++|+. .+...++++|++.+..+ .++||||| |+|||||||+|+.+++|||+|||||+|+||.+.+|
T Consensus 563 l~Q~~--~~~~~ll~~f~~~~~~~-----------~~~VL~g~--~sf~EGVD~pGd~l~~vII~kLPF~~p~dp~~~ar 627 (697)
T PRK11747 563 LVQGD--QPRQRLLEKHKKRVDEG-----------EGSVLFGL--QSFAEGLDLPGDYLTQVIITKIPFAVPDSPVEATL 627 (697)
T ss_pred EEeCC--chHHHHHHHHHHHhccC-----------CCeEEEEe--ccccccccCCCCceEEEEEEcCCCCCCCCHHHHHH
Confidence 99985 56789999999877643 68999999 99999999999999999999999999999999999
Q ss_pred HHHHhhccCCCCCccCCccccccccCCcccccccccccCCCchhhHhhHHHHHHHHhhcccccCCCCeEEEEEEeccccc
Q 002378 801 IKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGKEYYENLCMKAVNQSIGRAIRHINDHAAILLVDLRYAS 880 (929)
Q Consensus 801 ~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~y~~~a~ravnQaiGR~IRh~~D~g~iiLlD~R~~~ 880 (929)
++|+++.+++.+ ..||...|+.+++||+||+||+++|+|+|+|||+||.+
T Consensus 628 ~~~~~~~g~~~F------------------------------~~~~lP~A~~kl~Qg~GRlIRs~~D~G~i~ilD~R~~~ 677 (697)
T PRK11747 628 AEWLKSRGGNPF------------------------------MEISVPDASFKLIQAVGRLIRSEQDRGRVTILDRRLLT 677 (697)
T ss_pred HHHHHHhcCCcH------------------------------HHHHHHHHHHHHHHHhccccccCCceEEEEEEcccccc
Confidence 999988632211 12344568889999999999999999999999999999
Q ss_pred CCCcCCCCCccCCCcH
Q 002378 881 ESSKRSCSHPANKLPR 896 (929)
Q Consensus 881 ~~~~~~~~~~~~~LP~ 896 (929)
++|| ..+.+.||+
T Consensus 678 ~~Yg---~~~l~sLP~ 690 (697)
T PRK11747 678 KRYG---KRLLDALPP 690 (697)
T ss_pred hhHH---HHHHHhCCC
Confidence 8875 678999997
No 9
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=1.5e-53 Score=522.95 Aligned_cols=421 Identities=17% Similarity=0.210 Sum_probs=283.0
Q ss_pred hcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChHHHHHhhcccccCHHHHHHHHHHH
Q 002378 340 LGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLADSLINMYNAKITLSQLENVHSHL 419 (929)
Q Consensus 340 ~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~d~~~~~~S~~ls~~~l~~a~~~l 419 (929)
-|...+.|+|+.+|+.++.|||||+||+||++..... +..++..+|||||||||++++.......++...+...+..+
T Consensus 395 ~cp~~~~cf~~~ar~~a~~AdivItNHall~~~~~~~--~~~p~~~~lIiDEAH~l~~~~~~~~~~~~~~~~~~~~l~~~ 472 (820)
T PRK07246 395 SSLFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDD--KDFARNKVLVFDEAQKLMLQLEQLSRHQLNITSFLQTIQKA 472 (820)
T ss_pred CCCcchhhHHHHHHHHHHhCCEEEEchHHHHHHHhhc--cCCCCCCEEEEECcchhHHHHHHHhcceecHHHHHHHHHHH
Confidence 4566678999999999999999999999999866332 23578999999999999999887777778877776554433
Q ss_pred HHHHHHhhhccCCCCHHHHHHHHHHHHHHHHHHhhccccccccccccCcccCccCCCCcccHHHHHhhcccccccHHHHH
Q 002378 420 EKYFGRFCSLLGPGNRRYIQTLMVFTRAFLQVLLKEKDENDVRQDSENSTGAKHAFDSSVAINEFLFSLNIDNINLVKLL 499 (929)
Q Consensus 420 ~~~~~~~~~~l~~~n~~~~~~l~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~nl~~l~ 499 (929)
... ....+.. ..+..+...+..+...+.... ....+.
T Consensus 473 ~~~---~~~~~~~---~~~~~~~~~~~~~~~~~~~~~-------------------------------------~~~~~~ 509 (820)
T PRK07246 473 LSG---PLPLLQK---RLLESISFELLQLSEQFYQGK-------------------------------------ERQLIH 509 (820)
T ss_pred HHH---HHHHHhh---hhHHHHHHHHHHHHHHHHhhh-------------------------------------hhHHHH
Confidence 211 0000000 011111111111111110000 000000
Q ss_pred HHHHHhhhHHHHhhhhhhhhhhccCccccCCCCCcccCCCcchHHHHHHHHHHhcCCCCCceEEEeecCCCCCCCCCCcC
Q 002378 500 KYIKESNIIHKVSGYGDKAASLQKGSVLKDGGENYEEGSILSGFQSLVDMLISLTNNDGDGRIIISKARPISSGQQGQQG 579 (929)
Q Consensus 500 ~~l~~~~~~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~fl~~l~~~~~d~~v~~~~~~~~~~~~~~~~~ 579 (929)
..+ ..+....+.+.. ..+..+..+ +.. .+ .++|......+. ...
T Consensus 510 ~~l------~~l~~~l~~l~~--------------------~~~~~~~~~---~~~--~~-~~~W~e~~~~~~----~~~ 553 (820)
T PRK07246 510 DSL------SRLHQYFSELEV--------------------AGFQELQAF---FAT--AE-GDYWLESEKQSE----KRV 553 (820)
T ss_pred HHH------HHHHHHHHHHHH--------------------HHHHHHHHH---HhC--CC-CeEEEEecCCCC----cce
Confidence 000 001000000000 001112222 211 11 267765432110 011
Q ss_pred ceEEEEecChhHHHHHHHHhhceEEEeccCCC--ChhhHHHhhCCCCCCCceeeeecCCccCCCCceEEEeecCCCCCce
Q 002378 580 GYLKYVMLTGEKVFSEIVEQAHAVILAGGTLQ--PIEETRERLFPWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSF 657 (929)
Q Consensus 580 ~~L~~~cl~ps~~f~~l~~~~~svILtSGTLs--P~~~f~~~L~~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l 657 (929)
..|+..+++++. |+.++...+++|||||||+ |..+|.+.||... ....+.++.. .+|..+++....|.
T Consensus 554 ~~l~~~pl~v~~-~~~~~~~~~~~i~tSATL~v~~~f~~~~~lGl~~----~~~~~~~~~~-~~~~~~~i~~~~p~---- 623 (820)
T PRK07246 554 TYLNSASKAFTH-FSQLLPETCKTYFVSATLQISPRVSLADLLGFEE----YLFHKIEKDK-KQDQLVVVDQDMPL---- 623 (820)
T ss_pred eEEEeeeCcHHH-HHHHHhcCCeEEEEecccccCCCCcHHHHcCCCc----cceecCCCCh-HHccEEEeCCCCCC----
Confidence 368999999985 5999999999999999997 5446888886532 1234444333 34544444434443
Q ss_pred eeeecccCChHHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHH
Q 002378 658 DFSYGSRSSSAMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEY 737 (929)
Q Consensus 658 ~~~y~~R~~~~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y 737 (929)
+...++++|.+.++..|..++ .++|++|||||||++|+.+++.+... ..++++|+.+ ++...++++|
T Consensus 624 ---~~~~~~~~~~~~~~~~i~~~~-~~~g~~LVLFtS~~~l~~v~~~l~~~--------~~~~l~Qg~~-~~~~~l~~~F 690 (820)
T PRK07246 624 ---VTETSDEVYAEEIAKRLEELK-QLQQPILVLFNSKKHLLAVSDLLDQW--------QVSHLAQEKN-GTAYNIKKRF 690 (820)
T ss_pred ---CCCCChHHHHHHHHHHHHHHH-hcCCCEEEEECcHHHHHHHHHHHhhc--------CCcEEEeCCC-ccHHHHHHHH
Confidence 223456789999999999988 78999999999999999999888542 2568999864 4567899999
Q ss_pred HHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhccCCCCCccCC
Q 002378 738 QKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLGDTNSKTLNT 817 (929)
Q Consensus 738 ~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~~~~~~~~~~ 817 (929)
++ ..++||||+ |+|||||||+++.+.+|||+|||||+|+||.+++|.+|+++.++
T Consensus 691 ~~---------------~~~~vLlG~--~sFwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g~-------- 745 (820)
T PRK07246 691 DR---------------GEQQILLGL--GSFWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQEGK-------- 745 (820)
T ss_pred Hc---------------CCCeEEEec--chhhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHhCC--------
Confidence 87 468999999 99999999998877889999999999999999999999987632
Q ss_pred ccccccccCCcccccccccccCCCchhhHh---hHHHHHHHHhhcccccCCCCeEEEEEEecccccCCCcCCCCCccCCC
Q 002378 818 SASDAYYNGDAQAGFGILRSCRGRGKEYYE---NLCMKAVNQSIGRAIRHINDHAAILLVDLRYASESSKRSCSHPANKL 894 (929)
Q Consensus 818 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~y~---~~a~ravnQaiGR~IRh~~D~g~iiLlD~R~~~~~~~~~~~~~~~~L 894 (929)
+.||. .+|+.+++||+||+||+++|+|+|+|||+|+.+++|| ..+.+.|
T Consensus 746 -------------------------~~F~~~~lP~A~iklkQg~GRLIRs~~D~Gvv~ilD~R~~~k~Yg---~~~l~sL 797 (820)
T PRK07246 746 -------------------------NPFYDYFLPMTILRLKQAIGRTMRREDQKSAVLILDRRILTKSYG---KQILASL 797 (820)
T ss_pred -------------------------CchhheeHHHHHHHHHHHhcccccCCCCcEEEEEECCcccccHHH---HHHHHhC
Confidence 23433 3467889999999999999999999999999998875 4667777
Q ss_pred cHHHHhhcccccCCHHHHHHHHHHHHH
Q 002378 895 PRWIKDRLVSSTNNYGEVHRLLHQFFK 921 (929)
Q Consensus 895 P~Wir~~i~~~~~~~~~~~~~l~~Ff~ 921 (929)
|+-+. ....+++++...++.||.
T Consensus 798 P~~~~----~~~~~~~~~~~~~~~f~~ 820 (820)
T PRK07246 798 AEEFL----ISQQNFSDVLVEIDRFLI 820 (820)
T ss_pred CCCCc----cccCCHHHHHHHHHHhhC
Confidence 75322 234789999999999983
No 10
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=100.00 E-value=2.7e-52 Score=490.69 Aligned_cols=520 Identities=13% Similarity=0.099 Sum_probs=315.8
Q ss_pred cEEEEecccchhHHHHHHHHHhcc---cCCCeeEEEecccccccccHHHhhcCCchhhHHHHHHHhhhhhhhhhhhhhcc
Q 002378 220 LKVYFCSRTHSQLSQFIKELRKTV---FANEIKVVCLGSRKNFCINEEVLRLGNSTHINERCLELQNKKKNEICKIKNLG 296 (929)
Q Consensus 220 ~kIiy~SRTHSQL~Qvi~ELrkt~---~~~~~~~~~L~SR~~lCin~~v~~~~~~~~~n~~C~~l~~~k~~~~~~~~~~~ 296 (929)
.+|++++.|+.+..|++++++.+. ....++++.+-+|.+||....+...-.....+.. ..+ ..+- .+...
T Consensus 47 ~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~~~i~~~~lkGr~nYlCl~rl~~~l~~~~~~~~-~~i-~~W~-----~~T~~ 119 (636)
T TIGR03117 47 QKIAIAVPTLALMGQLWSELERLTAEGLAGPVQAGFFPGSQEFVSPGALQELLDQSGYDKD-PAV-QLWI-----GQGGP 119 (636)
T ss_pred ceEEEECCcHHHHHHHHHHHHHHHHhhcCCCeeEEEEECCcccccHHHHHHHhcccchhHH-HHH-HHHH-----hcCCc
Confidence 369999999999999999999875 1225899999999998877666542111111110 001 0111 00000
Q ss_pred ccccccccCCCCCCcCcccchhhhccccccccCCCCCHHHHH------------HhcccCCCCchhhhhcc---cCCCcE
Q 002378 297 AEGKVRRTKAFSGCPVLRSHKLQKGFRNEISQQGALDIEDLV------------HLGRHMRTCPYYGSRSM---VPTADL 361 (929)
Q Consensus 297 ~~~~~~~~~~~~~C~y~~~~~~~~~~~~~~~~~~v~DIEdL~------------~~g~~~~~CPYy~sR~~---~~~AdI 361 (929)
.-+. ....|.+-... .+ .....-|..||. ..| .+..|.|+.+|+. +..|||
T Consensus 120 ~~~~-----~~~~~~~~~~~-~~-------~~~~tGD~~el~~~~~~~~~~~~~~~~-~~~~~~~~~aR~~~~~a~~Adi 185 (636)
T TIGR03117 120 LIHE-----AALIRCMSDAP-TK-------MHWMTHDLKAVATLLNRQDDVTLAIRE-DDEDKRLVESREYEAEARRCRI 185 (636)
T ss_pred cccc-----cchhccccchh-hc-------cCCCCCCHhhccCCcCcchhhhccccC-CCcccHHHHHHHHhhccccCCE
Confidence 0000 00011110000 00 000001111110 011 1234789999999 999999
Q ss_pred EEeccccccCHHHHHHhCCCCCCCEEEEeCCcChHHHHHhhcccccCHHHHHHHHHHHHHHHHHhhhccCCCCHHHHHHH
Q 002378 362 VVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLADSLINMYNAKITLSQLENVHSHLEKYFGRFCSLLGPGNRRYIQTL 441 (929)
Q Consensus 362 I~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~~~~~~~~~~l~~~n~~~~~~l 441 (929)
||+||+||+. ..|+..++.++.++|||||||||++++.+.++.+|+..++...+..+... . .... ...+
T Consensus 186 vItNHalL~~-~~~~~~~iLP~~~~lIiDEAH~L~d~A~~~~g~~ls~~~l~~~l~~l~~~--~------~~~~--~~~~ 254 (636)
T TIGR03117 186 LFCTHAMLGL-AFRDKWGLLPQPDILIVDEAHLFEQNISRVYSNALSLRRLHLYVEKRHTG--A------GKGI--VSAA 254 (636)
T ss_pred EEECHHHHHH-HhhhhcCCCCCCCEEEEeCCcchHHHHHHHhccEECHHHHHHHHHHHhhc--c------cchh--HHHH
Confidence 9999999997 46666789999999999999999999999999999999988887765210 0 0000 0011
Q ss_pred HHHHHHHHHHHhhccccccccccccCcccCccCCCCcccHHHHHhhcccccccHHHHHHHHHHhhhHHHHhhhhhhhhhh
Q 002378 442 MVFTRAFLQVLLKEKDENDVRQDSENSTGAKHAFDSSVAINEFLFSLNIDNINLVKLLKYIKESNIIHKVSGYGDKAASL 521 (929)
Q Consensus 442 ~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~nl~~l~~~l~~~~~~~kl~~~~~~~~~~ 521 (929)
...++.+++.+..... .. ......+.+... .+.++..-| ....+.+...
T Consensus 255 ~~~~~~~~~~l~~~~~-------~~--------~~~~~~~~~~~~-------~l~~l~~~L---------~~l~~~l~~~ 303 (636)
T TIGR03117 255 VAAVSHCIQRLRALDV-------FG--------DGQTLCLDAGNK-------ELETLFADL---------DAALDACSVG 303 (636)
T ss_pred HHHHHHHHHHHHhhhc-------cc--------ccccccHHHHHH-------HHHHHHHHH---------HHHHHHHhhc
Confidence 1112222222221000 00 000011111100 011111111 0000000000
Q ss_pred ccCccccCCCCCcccCCCcchHHHHHHHHHHhcCC--C---CCceEEEeecCCCCCCCCCCcCceEEEEecChhHHHHHH
Q 002378 522 QKGSVLKDGGENYEEGSILSGFQSLVDMLISLTNN--D---GDGRIIISKARPISSGQQGQQGGYLKYVMLTGEKVFSEI 596 (929)
Q Consensus 522 ~~~~~~~~~~~~~~~~~~~~~l~~~~~fl~~l~~~--~---~d~~v~~~~~~~~~~~~~~~~~~~L~~~cl~ps~~f~~l 596 (929)
.. ..........+..+.+-+..+... + .+..++|..... ....|+..+++.+..|+.+
T Consensus 304 ~~---------~~~~~~~~~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~L~~~Pl~va~~l~~~ 366 (636)
T TIGR03117 304 RN---------RDENKKALSVVKDVKKARFILDNAITAIQGKASAVLQFSPDR--------RFPSLIVGREDLGKVMGGL 366 (636)
T ss_pred cc---------chHHHHHHHHHHHHHHHHHHHhhhccccccccceEEEEecCC--------CceEEEEecccHHHHHHHH
Confidence 00 000001122233333333322221 1 113456653221 1247999999999999877
Q ss_pred HH-hhceEEEeccCCCC--------hhhHHHhhCCCCCCCceeeeecCCccC----CCCceEEEeecC-----CCCCcee
Q 002378 597 VE-QAHAVILAGGTLQP--------IEETRERLFPWLSPNKFHFFSCSHIVP----PESILPVALSCG-----PTGKSFD 658 (929)
Q Consensus 597 ~~-~~~svILtSGTLsP--------~~~f~~~L~~~~~~~~i~~~~~~hvi~----~~~~~~~iv~~g-----p~g~~l~ 658 (929)
+. ..+++|||||||+. +++|.+.||.. . ..+..++||+ ...+..+.++.. |....
T Consensus 367 ~~~~~~~~I~TSATL~v~~~~~~~~F~~f~~~lGL~--~---~~l~~~SPFd~~y~~qa~~~LyvP~~~~~~lP~p~~-- 439 (636)
T TIGR03117 367 WKDVTHGAIIVSATLYLPDRFGQMSCDYLKRVLSLP--L---SRLDTPSPIVAPWVRNAIPHLHVPNAKARFLRPVGK-- 439 (636)
T ss_pred HhcCCCeEEEEccccccCCcCCCcCcHHHHHhcCCC--c---cceeCCCCCCchhHhcCceEEEEcCccccCCCCCCC--
Confidence 64 57799999999996 67889998763 1 1567789998 333223344321 22100
Q ss_pred eeecccC----ChHHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHH
Q 002378 659 FSYGSRS----SSAMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVL 734 (929)
Q Consensus 659 ~~y~~R~----~~~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l 734 (929)
..+.... .+.|.++++..|..++....||+||+|+||..|+.+++.+... + .-+|++|+. ......++
T Consensus 440 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~lvLfTS~~~~~~~~~~l~~~-----l--~~~~l~qg~-~~~~~~l~ 511 (636)
T TIGR03117 440 DEQGDANLQEAERTWLENVSLSTAAILRKAQGGTLVLTTAFSHISAIGQLVELG-----I--PAEIVIQSE-KNRLASAE 511 (636)
T ss_pred CcccchhhhcchhhHHHHHHHHHHHHHHHcCCCEEEEechHHHHHHHHHHHHhh-----c--CCCEEEeCC-CccHHHHH
Confidence 0011110 1457888999999999999999999999999999999988653 2 257999985 33568899
Q ss_pred HHHHHHHhccCCCCCCCCCCCCCcEEEEEecCcccccccc--------CCCcceEEEEEccCCCCCCCHHHHHHHHHHhh
Q 002378 735 KEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINF--------SDGMGRCIVMVGLPYPSPSNIELLERIKHIEG 806 (929)
Q Consensus 735 ~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf--------~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~ 806 (929)
++|++.++. +.++||||+ ++||||||+ +|+.+++|||..||||+ .||. ++.++++.
T Consensus 512 ~~f~~~~~~-----------~~~~vL~gt--~sfweGvDv~~~~~~p~~G~~Ls~ViI~kLPF~~-~dp~--a~~~~~~~ 575 (636)
T TIGR03117 512 QQFLALYAN-----------GIQPVLIAA--GGAWTGIDLTHKPVSPDKDNLLTDLIITCAPFGL-NRSL--SMLKRIRK 575 (636)
T ss_pred HHHHHhhcC-----------CCCcEEEeC--CccccccccCCccCCCCCCCcccEEEEEeCCCCc-CChH--HHHHHHHh
Confidence 999997653 258999999 999999999 79999999999999996 5885 88888877
Q ss_pred ccCCCCCccCCccccccccCCcccccccccccCCCchhh-HhhHHHHHHHHhhcccccCCCC--eEEEEEEecccccCCC
Q 002378 807 LGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGKEY-YENLCMKAVNQSIGRAIRHIND--HAAILLVDLRYASESS 883 (929)
Q Consensus 807 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~-y~~~a~ravnQaiGR~IRh~~D--~g~iiLlD~R~~~~~~ 883 (929)
.+. +.| ....|..+++|++||+||+++| +|+|++||+| .++.|
T Consensus 576 ~g~---------------------------------~~f~~~p~a~i~lkQg~GRLIR~~~D~~~G~i~ilD~R-~~~~y 621 (636)
T TIGR03117 576 TSV---------------------------------RPWEIINESLMMLRQGLGRLVRHPDMPQNRRIHMLDGR-IHWPY 621 (636)
T ss_pred cCC---------------------------------ChHhhhHHHHHHHHHhcCceeecCCCcCceEEEEEeCC-CCchh
Confidence 532 233 2356677889999999999999 9999999999 66666
Q ss_pred c
Q 002378 884 K 884 (929)
Q Consensus 884 ~ 884 (929)
|
T Consensus 622 g 622 (636)
T TIGR03117 622 M 622 (636)
T ss_pred H
Confidence 4
No 11
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=100.00 E-value=6.2e-53 Score=461.66 Aligned_cols=278 Identities=33% Similarity=0.577 Sum_probs=218.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHHHHHHHHhHhhhhhccCCCCCCCCCCC
Q 002378 13 PAFPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQKQKQKQKQKYETMIKSDHSFTNNGDCS 92 (929)
Q Consensus 13 ~~FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (929)
|.|||+|||.|.+||+.|++++.+|+++|+||||||||||++||++|+|+..+....
T Consensus 3 ~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~----------------------- 59 (289)
T smart00488 3 FYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERI----------------------- 59 (289)
T ss_pred ccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccc-----------------------
Confidence 559999999999999999999999999999999999999999999999987633210
Q ss_pred CCCcchhHHHhhhchhhhHHHHHHHhhhccCCCcccchhhhccccccccccccchhhchhhhhhhhcccccccCCccccc
Q 002378 93 SNDEPDWMRNFVVNRDFQAEDAKIKKKKNGCGLGKTGERKHREISTDTFSHSMEKDKCFTKKECENLQSINDQSELSDEE 172 (929)
Q Consensus 93 ~~~~pdw~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 (929)
......|.+.-.... ++.+
T Consensus 60 ~~~kvi~~t~T~~~~-----~q~i-------------------------------------------------------- 78 (289)
T smart00488 60 QKIKLIYLSRTVSEI-----EKRL-------------------------------------------------------- 78 (289)
T ss_pred cccceeEEeccHHHH-----HHHH--------------------------------------------------------
Confidence 001233432210000 0000
Q ss_pred ccccccccccccccCCCccccccCCCCCCCCCCcccccCCccccCcccEEEEecccchhHHHHHHHHHhcccCCCeeEEE
Q 002378 173 FLLEEYESEEEGAIGGGKSKRKAGAGTISSSSDEEEEDGLDEEGEEVLKVYFCSRTHSQLSQFIKELRKTVFANEIKVVC 252 (929)
Q Consensus 173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIiy~SRTHSQL~Qvi~ELrkt~~~~~~~~~~ 252 (929)
. + .+ ....++|||+|||||||+|+|+||+++.+. +++++
T Consensus 79 ---~------~--------l~----------------------~~~~~~~~~~~~t~sq~~q~~~el~~~~~~--~~~~~ 117 (289)
T smart00488 79 ---E------E--------LR----------------------KLMQKVEYESDEESEKQAQLLHELGREKPK--VLGLS 117 (289)
T ss_pred ---H------H--------HH----------------------hcccccceecccchhHHHHHHHHHhccCCC--cceeE
Confidence 0 0 00 001245999999999999999999997665 99999
Q ss_pred ecccccccccHHHhhcCCchhhH-HHHHHHhhhhhhhhhhhhhccccccccccCCCCCCcCcccchhhhccccccccCCC
Q 002378 253 LGSRKNFCINEEVLRLGNSTHIN-ERCLELQNKKKNEICKIKNLGAEGKVRRTKAFSGCPVLRSHKLQKGFRNEISQQGA 331 (929)
Q Consensus 253 L~SR~~lCin~~v~~~~~~~~~n-~~C~~l~~~k~~~~~~~~~~~~~~~~~~~~~~~~C~y~~~~~~~~~~~~~~~~~~v 331 (929)
|+||+++|||+.|.++.....++ +.|+.+++.+...+.. .......|+|+.+.... ...+..+.++
T Consensus 118 l~sR~~lCin~~v~~~~~~~~~~~~~C~~l~~~~~~~~~~-----------~~~~~~~c~~~~~~~~~--~~~~~~~~~~ 184 (289)
T smart00488 118 LTSRKNLCLNPEVRTLKQNGLVVDEVCRSLTASKARKYRY-----------ENPKVERCPFYENTEFL--LVRDLLPAEV 184 (289)
T ss_pred eechhhcCCChHHhhcccccchHHHHHHHHHhhccccccc-----------cccCCCCCCccchhhhh--hhhhhcccCC
Confidence 99999999999998765444444 7899887543210000 01234579999875431 1233456789
Q ss_pred CCHHHHHHhcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChHHHHHhhcccccCHHH
Q 002378 332 LDIEDLVHLGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLADSLINMYNAKITLSQ 411 (929)
Q Consensus 332 ~DIEdL~~~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~d~~~~~~S~~ls~~~ 411 (929)
+|+|||+.+|++++.||||.+|+.+.+|||||+||+|||+|.+|+.+|+.+++++|||||||||+++|++++|.+|+..+
T Consensus 185 ~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l~~~~lIiDEAHnL~d~a~~~~s~~ls~~~ 264 (289)
T smart00488 185 YDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDNVCISALSSELSRRS 264 (289)
T ss_pred CCHHHHHHhcccCCCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhcccccccEEEEeCccChHHHHHHHhcCeeCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhh
Q 002378 412 LENVHSHLEKYFGRFCS 428 (929)
Q Consensus 412 l~~a~~~l~~~~~~~~~ 428 (929)
|..++.+|..|..+|..
T Consensus 265 l~~~~~~l~~~~~~~~~ 281 (289)
T smart00488 265 LERAHKNIKKYFERIEK 281 (289)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999999888754
No 12
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=100.00 E-value=6.2e-53 Score=461.66 Aligned_cols=278 Identities=33% Similarity=0.577 Sum_probs=218.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHHHHHHHHhHhhhhhccCCCCCCCCCCC
Q 002378 13 PAFPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQKQKQKQKQKYETMIKSDHSFTNNGDCS 92 (929)
Q Consensus 13 ~~FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (929)
|.|||+|||.|.+||+.|++++.+|+++|+||||||||||++||++|+|+..+....
T Consensus 3 ~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~----------------------- 59 (289)
T smart00489 3 FYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERI----------------------- 59 (289)
T ss_pred ccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccc-----------------------
Confidence 559999999999999999999999999999999999999999999999987633210
Q ss_pred CCCcchhHHHhhhchhhhHHHHHHHhhhccCCCcccchhhhccccccccccccchhhchhhhhhhhcccccccCCccccc
Q 002378 93 SNDEPDWMRNFVVNRDFQAEDAKIKKKKNGCGLGKTGERKHREISTDTFSHSMEKDKCFTKKECENLQSINDQSELSDEE 172 (929)
Q Consensus 93 ~~~~pdw~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 (929)
......|.+.-.... ++.+
T Consensus 60 ~~~kvi~~t~T~~~~-----~q~i-------------------------------------------------------- 78 (289)
T smart00489 60 QKIKLIYLSRTVSEI-----EKRL-------------------------------------------------------- 78 (289)
T ss_pred cccceeEEeccHHHH-----HHHH--------------------------------------------------------
Confidence 001233432210000 0000
Q ss_pred ccccccccccccccCCCccccccCCCCCCCCCCcccccCCccccCcccEEEEecccchhHHHHHHHHHhcccCCCeeEEE
Q 002378 173 FLLEEYESEEEGAIGGGKSKRKAGAGTISSSSDEEEEDGLDEEGEEVLKVYFCSRTHSQLSQFIKELRKTVFANEIKVVC 252 (929)
Q Consensus 173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kIiy~SRTHSQL~Qvi~ELrkt~~~~~~~~~~ 252 (929)
. + .+ ....++|||+|||||||+|+|+||+++.+. +++++
T Consensus 79 ---~------~--------l~----------------------~~~~~~~~~~~~t~sq~~q~~~el~~~~~~--~~~~~ 117 (289)
T smart00489 79 ---E------E--------LR----------------------KLMQKVEYESDEESEKQAQLLHELGREKPK--VLGLS 117 (289)
T ss_pred ---H------H--------HH----------------------hcccccceecccchhHHHHHHHHHhccCCC--cceeE
Confidence 0 0 00 001245999999999999999999997665 99999
Q ss_pred ecccccccccHHHhhcCCchhhH-HHHHHHhhhhhhhhhhhhhccccccccccCCCCCCcCcccchhhhccccccccCCC
Q 002378 253 LGSRKNFCINEEVLRLGNSTHIN-ERCLELQNKKKNEICKIKNLGAEGKVRRTKAFSGCPVLRSHKLQKGFRNEISQQGA 331 (929)
Q Consensus 253 L~SR~~lCin~~v~~~~~~~~~n-~~C~~l~~~k~~~~~~~~~~~~~~~~~~~~~~~~C~y~~~~~~~~~~~~~~~~~~v 331 (929)
|+||+++|||+.|.++.....++ +.|+.+++.+...+.. .......|+|+.+.... ...+..+.++
T Consensus 118 l~sR~~lCin~~v~~~~~~~~~~~~~C~~l~~~~~~~~~~-----------~~~~~~~c~~~~~~~~~--~~~~~~~~~~ 184 (289)
T smart00489 118 LTSRKNLCLNPEVRTLKQNGLVVDEVCRSLTASKARKYRY-----------ENPKVERCPFYENTEFL--LVRDLLPAEV 184 (289)
T ss_pred eechhhcCCChHHhhcccccchHHHHHHHHHhhccccccc-----------cccCCCCCCccchhhhh--hhhhhcccCC
Confidence 99999999999998765444444 7899887543210000 01234579999875431 1233456789
Q ss_pred CCHHHHHHhcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChHHHHHhhcccccCHHH
Q 002378 332 LDIEDLVHLGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLADSLINMYNAKITLSQ 411 (929)
Q Consensus 332 ~DIEdL~~~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~d~~~~~~S~~ls~~~ 411 (929)
+|+|||+.+|++++.||||.+|+.+.+|||||+||+|||+|.+|+.+|+.+++++|||||||||+++|++++|.+|+..+
T Consensus 185 ~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l~~~~lIiDEAHnL~d~a~~~~s~~ls~~~ 264 (289)
T smart00489 185 YDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDNVCISALSSELSRRS 264 (289)
T ss_pred CCHHHHHHhcccCCCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhcccccccEEEEeCccChHHHHHHHhcCeeCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhh
Q 002378 412 LENVHSHLEKYFGRFCS 428 (929)
Q Consensus 412 l~~a~~~l~~~~~~~~~ 428 (929)
|..++.+|..|..+|..
T Consensus 265 l~~~~~~l~~~~~~~~~ 281 (289)
T smart00489 265 LERAHKNIKKYFERIEK 281 (289)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999999888754
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=6.9e-40 Score=331.06 Aligned_cols=166 Identities=34% Similarity=0.650 Sum_probs=133.8
Q ss_pred HHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCC
Q 002378 677 LCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLN 756 (929)
Q Consensus 677 i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~ 756 (929)
|.++++.+|||+|||||||.+|+.+.+.|+..... ..++||.|. ..+.+.++++|++ .+
T Consensus 1 i~~l~~~~~g~~lv~f~Sy~~l~~~~~~~~~~~~~----~~~~v~~q~--~~~~~~~l~~~~~---------------~~ 59 (167)
T PF13307_consen 1 ILELISAVPGGVLVFFPSYRRLEKVYERLKERLEE----KGIPVFVQG--SKSRDELLEEFKR---------------GE 59 (167)
T ss_dssp HHHHHHCCSSEEEEEESSHHHHHHHHTT-TSS-E-----ETSCEEEST--CCHHHHHHHHHCC---------------SS
T ss_pred ChHHHhcCCCCEEEEeCCHHHHHHHHHHHHhhccc----ccceeeecC--cchHHHHHHHHHh---------------cc
Confidence 67889999999999999999999999999886422 245799995 5789999999987 57
Q ss_pred CcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhccCCCCCccCCccccccccCCccccccccc
Q 002378 757 GAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILR 836 (929)
Q Consensus 757 gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 836 (929)
++|||||+||++||||||+|+.||+|||+|||||++.||.+++|++|+++.+.
T Consensus 60 ~~il~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~--------------------------- 112 (167)
T PF13307_consen 60 GAILLAVAGGSFSEGIDFPGDLLRAVIIVGLPFPPPSDPLVQAKREYLDKQGK--------------------------- 112 (167)
T ss_dssp SEEEEEETTSCCGSSS--ECESEEEEEEES-----TTCHHHHHHHHHHHHCCT---------------------------
T ss_pred CeEEEEEecccEEEeecCCCchhheeeecCCCCCCCCCHHHHHHHHHHHHHhc---------------------------
Confidence 99999999999999999999999999999999999999999999999998642
Q ss_pred ccCCCchhhHhhHHHHHHHHhhcccccCCCCeEEEEEEecccccCCCcCCCCCccCCCcHHHHh
Q 002378 837 SCRGRGKEYYENLCMKAVNQSIGRAIRHINDHAAILLVDLRYASESSKRSCSHPANKLPRWIKD 900 (929)
Q Consensus 837 ~~~~~g~~~y~~~a~ravnQaiGR~IRh~~D~g~iiLlD~R~~~~~~~~~~~~~~~~LP~Wir~ 900 (929)
..+..||..+|+++|+||+||+|||++|||+|+|+|+||.++. +...||+|+++
T Consensus 113 ---~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~llD~R~~~~~-------y~~~l~~~l~~ 166 (167)
T PF13307_consen 113 ---NPFRDWYLPPAIRKLKQAIGRLIRSEDDYGVIILLDSRFLSKR-------YGKYLPKWLPP 166 (167)
T ss_dssp ---TCHHHHTHHHHHHHHHHHHHCC--STT-EEEEEEESGGGGGHH-------HHHH-T-----
T ss_pred ---cchhhHhhHHHHHHHhhhcCcceeccCCcEEEEEEcCccccch-------hhhcCcccccc
Confidence 2467899999999999999999999999999999999999987 68999999986
No 14
>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=100.00 E-value=3.2e-39 Score=328.88 Aligned_cols=169 Identities=43% Similarity=0.682 Sum_probs=135.2
Q ss_pred EecccchhHHHHHHHHHhcc-cC---CCeeEEEecccccccccHHHhhcCCchhhHHHHHHHhhhhhhhhhhhhhccccc
Q 002378 224 FCSRTHSQLSQFIKELRKTV-FA---NEIKVVCLGSRKNFCINEEVLRLGNSTHINERCLELQNKKKNEICKIKNLGAEG 299 (929)
Q Consensus 224 y~SRTHSQL~Qvi~ELrkt~-~~---~~~~~~~L~SR~~lCin~~v~~~~~~~~~n~~C~~l~~~k~~~~~~~~~~~~~~ 299 (929)
|||||||||+|+|+|||++. +. ..+++++|+||++||+|+.|..+.....+++.|..+.+..+
T Consensus 1 y~~RThsQl~q~i~El~~~~~~~~~~~~~~~~~l~gR~~~C~~~~v~~~~~~~~~~~~C~~l~~~~~------------- 67 (174)
T PF06733_consen 1 YASRTHSQLSQVIRELKKINKYRPKGESIKAVILKGRQNLCINSKVKRLANNEDINEFCRELRKSGK------------- 67 (174)
T ss_dssp EEESSHHHHHHHHHHHCCHCCCS-------EEEE--CCCC-TTCHHHTT-SHHHHHHHHHHHHHHHH-------------
T ss_pred CCCcCHHHHHHHHHHHHHHHhhcccccceeeeEeccccccccCchhhhhhhhhhHHHHHHHhhcccc-------------
Confidence 89999999999999999994 33 25899999999999999999987667889999999986532
Q ss_pred cccccCCCCCCcCcccchhhhccccccccCCCCCHHHHHHhcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhC
Q 002378 300 KVRRTKAFSGCPVLRSHKLQKGFRNEISQQGALDIEDLVHLGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLG 379 (929)
Q Consensus 300 ~~~~~~~~~~C~y~~~~~~~~~~~~~~~~~~v~DIEdL~~~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~ 379 (929)
....|+||.+..... ...+.....++|+|||++.|+.++.||||++|+.+.+|||||+||||||+|.+|+.++
T Consensus 68 ------~~~~C~~~~~~~~~~-~~~~~~~~~~~d~~~l~~~~~~~~~CPY~~~r~~~~~adivi~~y~yl~~~~~~~~~~ 140 (174)
T PF06733_consen 68 ------RKESCPYYNNFDEIE-ELSDLSNEEVWDIEELVEIGKKHGVCPYYLARELAKNADIVICNYNYLFDPSIRKSLF 140 (174)
T ss_dssp ------CTCCSTTTTGGGG-H-HHHHHHCHCHHHHHHHHHHHHHCT--HHHHHHHCGGG-SEEEEETHHHHSHHHHHHHC
T ss_pred ------cccccchhHHHHhHH-HhhhhcccccccHHHHHHhcCCCCCChhHHHHHhcccCCEEEeCHHHHhhHHHHhhhc
Confidence 113699998762211 1244566789999999999999999999999999999999999999999999999885
Q ss_pred -CCCCCCEEEEeCCcChHHHHHhhcccccCHHHH
Q 002378 380 -LNLKNNIVIIDEAHNLADSLINMYNAKITLSQL 412 (929)
Q Consensus 380 -i~l~~~ivI~DEAHNL~d~~~~~~S~~ls~~~l 412 (929)
+++++.||||||||||+++|++++|++|+..+|
T Consensus 141 ~~~~~~~ivI~DEAHNL~~~~~~~~s~~is~~~L 174 (174)
T PF06733_consen 141 GIDLKDNIVIFDEAHNLEDAARDSFSFSISESQL 174 (174)
T ss_dssp T--CCCEEEEETTGGGCGGGCHCCC-EEEEHHHH
T ss_pred cccccCcEEEEecccchHHHHHHHhcceechhhC
Confidence 999999999999999999999999999998876
No 15
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=100.00 E-value=1.1e-34 Score=283.84 Aligned_cols=142 Identities=41% Similarity=0.713 Sum_probs=126.1
Q ss_pred HHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCcccccccc
Q 002378 695 FEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINF 774 (929)
Q Consensus 695 y~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf 774 (929)
|.+|+++++.|+..+++ +..|+||+|+++..+.++++++|++.++. .|+|||||+||||||||||
T Consensus 1 y~~m~~v~~~~~~~~~~---~~~~~i~~e~~~~~~~~~~l~~f~~~~~~------------~g~iL~~v~~G~~~EGiD~ 65 (142)
T smart00491 1 YRYLEQVVEYWKENGIL---EINKPVFIEGKDSGETEELLEKYSAACEA------------RGALLLAVARGKVSEGIDF 65 (142)
T ss_pred ChHHHHHHHHHHhcCcc---ccCceEEEECCCCchHHHHHHHHHHhcCC------------CCEEEEEEeCCeeecceec
Confidence 78999999999988765 34588999999777888999999985532 3899999999999999999
Q ss_pred CCCcceEEEEEccCCCCCCCHHHHHHHHHHhhccCCCCCccCCccccccccCCcccccccccccCCCchhhHhhHHHHHH
Q 002378 775 SDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGKEYYENLCMKAV 854 (929)
Q Consensus 775 ~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~y~~~a~rav 854 (929)
+|+.||+|||+|||||+|.||.+++|++|+++.... .....||..+|+++|
T Consensus 66 ~g~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~-----------------------------~~~~~~~~~~a~~~~ 116 (142)
T smart00491 66 PDDLGRAVIIVGIPFPNPDSPILRARLEYLDEKGGI-----------------------------RPFDEVYLFDAMRAL 116 (142)
T ss_pred CCCccEEEEEEecCCCCCCCHHHHHHHHHHHHhcCC-----------------------------CcHHHHHHHHHHHHH
Confidence 999999999999999999999999999999886310 235678999999999
Q ss_pred HHhhcccccCCCCeEEEEEEeccccc
Q 002378 855 NQSIGRAIRHINDHAAILLVDLRYAS 880 (929)
Q Consensus 855 nQaiGR~IRh~~D~g~iiLlD~R~~~ 880 (929)
+||+||+|||++|||+|+|+|+||.+
T Consensus 117 ~Qa~GR~iR~~~D~g~i~l~D~R~~~ 142 (142)
T smart00491 117 AQAIGRAIRHKNDYGVVVLLDKRYAR 142 (142)
T ss_pred HHHhCccccCccceEEEEEEeccccC
Confidence 99999999999999999999999963
No 16
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=99.97 E-value=8.4e-32 Score=262.99 Aligned_cols=140 Identities=28% Similarity=0.489 Sum_probs=124.2
Q ss_pred HHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCcccccccc
Q 002378 695 FEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINF 774 (929)
Q Consensus 695 y~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf 774 (929)
|.+|+++++.|+..+.+.+|...|+||+|++++.+.+.++++|+++ ..++|||||++ |||||||
T Consensus 1 y~~m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~--------------~~~~iL~~~~~--~~EGiD~ 64 (141)
T smart00492 1 YQYMESFVQYWKENGILENINKNLLLLVQGEDGKETGKLLEKYVEA--------------CENAILLATAR--FSEGVDF 64 (141)
T ss_pred CHHHHHHHHHHHHcCchhhHhcCCeEEEeCCChhHHHHHHHHHHHc--------------CCCEEEEEccc--eecceec
Confidence 7899999999999999999999999999998777889999999983 12499999965 9999999
Q ss_pred CCCcceEEEEEccCCCCCCCHHHHHHHHHHhhccCCCCCccCCccccccccCCcccccccccccCCCchhhHhhHHHHHH
Q 002378 775 SDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGKEYYENLCMKAV 854 (929)
Q Consensus 775 ~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~y~~~a~rav 854 (929)
+|+.||+|||+|||||+|.||.+++|++|++..+.. .....||..+|++++
T Consensus 65 ~g~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~-----------------------------~~~~~~~~~~a~~~l 115 (141)
T smart00492 65 PGDYLRAVIIDGLPFPYPDSPILKARLELLRDKGQI-----------------------------RPFDFVSLPDAMRTL 115 (141)
T ss_pred CCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhCCC-----------------------------CchhHHHHHHHHHHH
Confidence 999999999999999999999999999999876310 112334668899999
Q ss_pred HHhhcccccCCCCeEEEEEEecccc
Q 002378 855 NQSIGRAIRHINDHAAILLVDLRYA 879 (929)
Q Consensus 855 nQaiGR~IRh~~D~g~iiLlD~R~~ 879 (929)
+||+||+|||++|||+|+|+|+||.
T Consensus 116 ~Qa~GR~iR~~~D~g~i~l~D~R~~ 140 (141)
T smart00492 116 AQCVGRLIRGANDYGVVVIADKRFA 140 (141)
T ss_pred HHHhCccccCcCceEEEEEEecccc
Confidence 9999999999999999999999986
No 17
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.36 E-value=4.4e-10 Score=131.32 Aligned_cols=87 Identities=22% Similarity=0.324 Sum_probs=66.1
Q ss_pred HHHHhhc-cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCC-CCchHHHHHHHHHHHHhccCCCCCCCCCC
Q 002378 677 LCNLVSV-VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPR-GNTHVESVLKEYQKTIDTLSSRPKEDSTP 754 (929)
Q Consensus 677 i~~~~~~-vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~-~~~~~~~~l~~y~~~i~~~~~~~~~~~~~ 754 (929)
|..+.+. ..+.+|||++|-...+.++..+...++ ...++.+. ...++..+++.|+.
T Consensus 236 l~~l~~~~~~~~~lVF~~s~~~~~~l~~~L~~~~~-------~~~~l~g~~~~~~R~~~l~~f~~--------------- 293 (434)
T PRK11192 236 LCHLLKQPEVTRSIVFVRTRERVHELAGWLRKAGI-------NCCYLEGEMVQAKRNEAIKRLTD--------------- 293 (434)
T ss_pred HHHHHhcCCCCeEEEEeCChHHHHHHHHHHHhCCC-------CEEEecCCCCHHHHHHHHHHHhC---------------
Confidence 4444444 456799999999999999999887542 33555553 23578889999976
Q ss_pred CCCcEEEEEecCccccccccCCCcceEEEEEccCC
Q 002378 755 LNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 755 ~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
+.--||+|+ .-+++|||+++ ++.||..++|.
T Consensus 294 G~~~vLVaT--d~~~~GiDip~--v~~VI~~d~p~ 324 (434)
T PRK11192 294 GRVNVLVAT--DVAARGIDIDD--VSHVINFDMPR 324 (434)
T ss_pred CCCcEEEEc--cccccCccCCC--CCEEEEECCCC
Confidence 466788888 89999999987 67799988875
No 18
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.35 E-value=2.3e-10 Score=137.42 Aligned_cols=80 Identities=21% Similarity=0.301 Sum_probs=62.5
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCC-CCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPR-GNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~-~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
...+|||+++-...+.+++.+...++ +-.++-+. ...+.+.+++.|++ +.-.||+|+
T Consensus 257 ~~k~LVF~nt~~~ae~l~~~L~~~g~-------~v~~lhg~l~~~eR~~il~~Fr~---------------G~~~VLVaT 314 (572)
T PRK04537 257 GARTMVFVNTKAFVERVARTLERHGY-------RVGVLSGDVPQKKRESLLNRFQK---------------GQLEILVAT 314 (572)
T ss_pred CCcEEEEeCCHHHHHHHHHHHHHcCC-------CEEEEeCCCCHHHHHHHHHHHHc---------------CCCeEEEEe
Confidence 45799999999999999999877642 22333332 33578899999986 467899999
Q ss_pred ecCccccccccCCCcceEEEEEccCCC
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLPYP 790 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlPfp 790 (929)
.-+++|||+++ ++.||..++|+.
T Consensus 315 --dv~arGIDip~--V~~VInyd~P~s 337 (572)
T PRK04537 315 --DVAARGLHIDG--VKYVYNYDLPFD 337 (572)
T ss_pred --hhhhcCCCccC--CCEEEEcCCCCC
Confidence 89999999997 678999998863
No 19
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.33 E-value=4.7e-10 Score=131.74 Aligned_cols=79 Identities=14% Similarity=0.206 Sum_probs=60.9
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccE-EEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHV-FREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~i-f~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
...+|||+++....+.+++.+...++ +.. |--.....+...+++.|+. +.-.||+|+
T Consensus 245 ~~~~lVF~~t~~~~~~l~~~L~~~g~-------~~~~lhg~~~~~~R~~~l~~F~~---------------g~~~iLVaT 302 (456)
T PRK10590 245 WQQVLVFTRTKHGANHLAEQLNKDGI-------RSAAIHGNKSQGARTRALADFKS---------------GDIRVLVAT 302 (456)
T ss_pred CCcEEEEcCcHHHHHHHHHHHHHCCC-------CEEEEECCCCHHHHHHHHHHHHc---------------CCCcEEEEc
Confidence 45799999999999999998876542 122 3223334578889999986 456789888
Q ss_pred ecCccccccccCCCcceEEEEEccCC
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.-+++|||+++ ++.||..++|.
T Consensus 303 --dv~~rGiDip~--v~~VI~~~~P~ 324 (456)
T PRK10590 303 --DIAARGLDIEE--LPHVVNYELPN 324 (456)
T ss_pred --cHHhcCCCccc--CCEEEEeCCCC
Confidence 89999999998 67899988874
No 20
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.32 E-value=7.3e-10 Score=129.02 Aligned_cols=80 Identities=16% Similarity=0.250 Sum_probs=63.2
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcC-CCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREP-RGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLA 762 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~-~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~a 762 (929)
.++.+|||+++-...+.+++.+...++ +-.++-+ ....+...+++.|++ +.-.||+|
T Consensus 254 ~~~~~lVF~~t~~~~~~l~~~L~~~g~-------~v~~lhg~~~~~~R~~~l~~F~~---------------g~~~vLVa 311 (423)
T PRK04837 254 WPDRAIIFANTKHRCEEIWGHLAADGH-------RVGLLTGDVAQKKRLRILEEFTR---------------GDLDILVA 311 (423)
T ss_pred CCCeEEEEECCHHHHHHHHHHHHhCCC-------cEEEecCCCChhHHHHHHHHHHc---------------CCCcEEEE
Confidence 467899999999999999998876542 2233333 233578899999987 46689999
Q ss_pred EecCccccccccCCCcceEEEEEccCC
Q 002378 763 VVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 763 V~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
+ .-+++|||+++ ++.||..++|.
T Consensus 312 T--dv~~rGiDip~--v~~VI~~d~P~ 334 (423)
T PRK04837 312 T--DVAARGLHIPA--VTHVFNYDLPD 334 (423)
T ss_pred e--chhhcCCCccc--cCEEEEeCCCC
Confidence 9 89999999998 68899999986
No 21
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.28 E-value=1.6e-09 Score=127.49 Aligned_cols=81 Identities=16% Similarity=0.241 Sum_probs=63.5
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
.++.+|||+++-...+.+++.+...++. -..+-......+.+.+++.|++ +.-.||+|+
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 4678999999999999999998876531 1122233334578999999987 456899998
Q ss_pred ecCccccccccCCCcceEEEEEccCC
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.-+++|||+++ ++.||..++|.
T Consensus 300 --dv~~rGiDi~~--v~~VI~~d~p~ 321 (460)
T PRK11776 300 --DVAARGLDIKA--LEAVINYELAR 321 (460)
T ss_pred --cccccccchhc--CCeEEEecCCC
Confidence 99999999998 67899999987
No 22
>PTZ00110 helicase; Provisional
Probab=99.24 E-value=2.3e-09 Score=128.32 Aligned_cols=90 Identities=16% Similarity=0.265 Sum_probs=65.8
Q ss_pred HHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcC-CCCchHHHHHHHHHHHHhccCCCCCCC
Q 002378 673 LGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREP-RGNTHVESVLKEYQKTIDTLSSRPKED 751 (929)
Q Consensus 673 l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~-~~~~~~~~~l~~y~~~i~~~~~~~~~~ 751 (929)
|...|..+.. ..+.+|||+++....+.+...+...++ ..+.+-+ ....+++.++++|++
T Consensus 366 L~~ll~~~~~-~~~k~LIF~~t~~~a~~l~~~L~~~g~-------~~~~ihg~~~~~eR~~il~~F~~------------ 425 (545)
T PTZ00110 366 LKMLLQRIMR-DGDKILIFVETKKGADFLTKELRLDGW-------PALCIHGDKKQEERTWVLNEFKT------------ 425 (545)
T ss_pred HHHHHHHhcc-cCCeEEEEecChHHHHHHHHHHHHcCC-------cEEEEECCCcHHHHHHHHHHHhc------------
Confidence 3344443332 356899999999999999998876542 2233333 334578889999987
Q ss_pred CCCCCCcEEEEEecCccccccccCCCcceEEEEEccCC
Q 002378 752 STPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 752 ~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
+...||+|+ .-+++|||+++ +++||..++|.
T Consensus 426 ---G~~~ILVaT--dv~~rGIDi~~--v~~VI~~d~P~ 456 (545)
T PTZ00110 426 ---GKSPIMIAT--DVASRGLDVKD--VKYVINFDFPN 456 (545)
T ss_pred ---CCCcEEEEc--chhhcCCCccc--CCEEEEeCCCC
Confidence 456788888 89999999998 78899988764
No 23
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.24 E-value=3.1e-09 Score=126.66 Aligned_cols=79 Identities=15% Similarity=0.210 Sum_probs=59.0
Q ss_pred CCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcC-CCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEe
Q 002378 686 EGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREP-RGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVV 764 (929)
Q Consensus 686 gg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~-~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~ 764 (929)
+.+|||++|-...+.+...+.... ..+-..+-+ ....+...+++.|+. +.-.||+|+
T Consensus 368 ~~~iVFv~s~~~a~~l~~~L~~~~------g~~~~~~Hg~~~~~eR~~il~~Fr~---------------G~~~ILVaT- 425 (518)
T PLN00206 368 PPAVVFVSSRLGADLLANAITVVT------GLKALSIHGEKSMKERREVMKSFLV---------------GEVPVIVAT- 425 (518)
T ss_pred CCEEEEcCCchhHHHHHHHHhhcc------CcceEEeeCCCCHHHHHHHHHHHHC---------------CCCCEEEEe-
Confidence 469999999999888887765321 112223333 334578899999987 456799998
Q ss_pred cCccccccccCCCcceEEEEEccCC
Q 002378 765 GGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 765 rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.-+++|||+++ ++.||..++|.
T Consensus 426 -dvl~rGiDip~--v~~VI~~d~P~ 447 (518)
T PLN00206 426 -GVLGRGVDLLR--VRQVIIFDMPN 447 (518)
T ss_pred -cHhhccCCccc--CCEEEEeCCCC
Confidence 89999999997 88999998874
No 24
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.23 E-value=4.5e-09 Score=127.31 Aligned_cols=80 Identities=15% Similarity=0.141 Sum_probs=60.5
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcC-CCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREP-RGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLA 762 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~-~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~a 762 (929)
.+..+|||+++-...+.+++.+...++ ....+-+ ....+.+.+++.|+. +.--||+|
T Consensus 244 ~~~~~IVF~~tk~~a~~l~~~L~~~g~-------~~~~lhgd~~q~~R~~il~~Fr~---------------G~~~ILVA 301 (629)
T PRK11634 244 DFDAAIIFVRTKNATLEVAEALERNGY-------NSAALNGDMNQALREQTLERLKD---------------GRLDILIA 301 (629)
T ss_pred CCCCEEEEeccHHHHHHHHHHHHhCCC-------CEEEeeCCCCHHHHHHHHHHHhC---------------CCCCEEEE
Confidence 357899999999999999998887653 1122222 223467889999976 45678888
Q ss_pred EecCccccccccCCCcceEEEEEccCC
Q 002378 763 VVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 763 V~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
+ .-+++|||+++ ++.||...+|.
T Consensus 302 T--dv~arGIDip~--V~~VI~~d~P~ 324 (629)
T PRK11634 302 T--DVAARGLDVER--ISLVVNYDIPM 324 (629)
T ss_pred c--chHhcCCCccc--CCEEEEeCCCC
Confidence 8 89999999997 67788888775
No 25
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.16 E-value=1.8e-08 Score=119.09 Aligned_cols=79 Identities=18% Similarity=0.196 Sum_probs=59.7
Q ss_pred CCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEec
Q 002378 686 EGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVG 765 (929)
Q Consensus 686 gg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~r 765 (929)
+.+|||++|-...+.+++.+...++ ....+.-.....+...+++.|++ +.-.+|+|+
T Consensus 336 ~~~IVF~~s~~~~~~l~~~L~~~~~------~~~~~~g~~~~~~R~~~~~~Fr~---------------G~~~vLvaT-- 392 (475)
T PRK01297 336 ERVMVFANRKDEVRRIEERLVKDGI------NAAQLSGDVPQHKRIKTLEGFRE---------------GKIRVLVAT-- 392 (475)
T ss_pred CeEEEEeCCHHHHHHHHHHHHHcCC------CEEEEECCCCHHHHHHHHHHHhC---------------CCCcEEEEc--
Confidence 5799999999999999988876542 11122222233567789999986 456788887
Q ss_pred CccccccccCCCcceEEEEEccCC
Q 002378 766 GKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 766 Gk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.-+++|||+++ +++||..|+|.
T Consensus 393 ~~l~~GIDi~~--v~~VI~~~~P~ 414 (475)
T PRK01297 393 DVAGRGIHIDG--ISHVINFTLPE 414 (475)
T ss_pred cccccCCcccC--CCEEEEeCCCC
Confidence 89999999997 78899999885
No 26
>PTZ00424 helicase 45; Provisional
Probab=99.14 E-value=2.3e-08 Score=115.54 Aligned_cols=79 Identities=10% Similarity=0.183 Sum_probs=59.9
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEc-CCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFRE-PRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E-~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
...+|||++|-...+.+.+.+...++ ...++- .....++..+++.|+. +.-.||+|+
T Consensus 267 ~~~~ivF~~t~~~~~~l~~~l~~~~~-------~~~~~h~~~~~~~R~~i~~~f~~---------------g~~~vLvaT 324 (401)
T PTZ00424 267 ITQAIIYCNTRRKVDYLTKKMHERDF-------TVSCMHGDMDQKDRDLIMREFRS---------------GSTRVLITT 324 (401)
T ss_pred CCeEEEEecCcHHHHHHHHHHHHCCC-------cEEEEeCCCCHHHHHHHHHHHHc---------------CCCCEEEEc
Confidence 46799999999999999988876532 122232 2334577888999976 456888888
Q ss_pred ecCccccccccCCCcceEEEEEccCC
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.-+++|||+++ +++||..++|.
T Consensus 325 --~~l~~GiDip~--v~~VI~~~~p~ 346 (401)
T PTZ00424 325 --DLLARGIDVQQ--VSLVINYDLPA 346 (401)
T ss_pred --ccccCCcCccc--CCEEEEECCCC
Confidence 89999999998 67899888775
No 27
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.12 E-value=1.4e-08 Score=127.89 Aligned_cols=97 Identities=14% Similarity=0.111 Sum_probs=64.1
Q ss_pred HHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEc--CCCCchHHHHHHHHHHHHhccCCCC
Q 002378 671 EELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFRE--PRGNTHVESVLKEYQKTIDTLSSRP 748 (929)
Q Consensus 671 ~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E--~~~~~~~~~~l~~y~~~i~~~~~~~ 748 (929)
..+...|..+++. .+.+|||.+|-...+.++..++.... +... ...|+.- .....++..+++.|++
T Consensus 271 ~~l~~~L~~~i~~-~~~~LVF~nTr~~ae~la~~L~~~~~-~~~~-~~~i~~hHg~ls~~~R~~ve~~fk~--------- 338 (876)
T PRK13767 271 EALYETLHELIKE-HRTTLIFTNTRSGAERVLYNLRKRFP-EEYD-EDNIGAHHSSLSREVRLEVEEKLKR--------- 338 (876)
T ss_pred HHHHHHHHHHHhc-CCCEEEEeCCHHHHHHHHHHHHHhch-hhcc-ccceeeeeCCCCHHHHHHHHHHHHc---------
Confidence 4444555555443 46799999999999998887765210 0000 1123322 2223467788888876
Q ss_pred CCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCC
Q 002378 749 KEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 749 ~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
+.-.+|+|+ ..+..|||+++ .+.||.+|.|.
T Consensus 339 ------G~i~vLVaT--s~Le~GIDip~--Vd~VI~~~~P~ 369 (876)
T PRK13767 339 ------GELKVVVSS--TSLELGIDIGY--IDLVVLLGSPK 369 (876)
T ss_pred ------CCCeEEEEC--ChHHhcCCCCC--CcEEEEeCCCC
Confidence 345677777 89999999988 67899998874
No 28
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=98.99 E-value=1.9e-07 Score=115.43 Aligned_cols=96 Identities=16% Similarity=0.127 Sum_probs=63.1
Q ss_pred HHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChh--HHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCC
Q 002378 674 GLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGIL--DRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKED 751 (929)
Q Consensus 674 ~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~--~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~ 751 (929)
...+..++.. ...+|||++|-...+.++..++....- ..+...-..+.-+....++..+++.|++
T Consensus 261 ~~~l~~l~~~-~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~------------ 327 (742)
T TIGR03817 261 ADLLADLVAE-GARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRD------------ 327 (742)
T ss_pred HHHHHHHHHC-CCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHc------------
Confidence 3445555443 568999999999999998876542000 0000011122222233478888888876
Q ss_pred CCCCCCcEEEEEecCccccccccCCCcceEEEEEccCC
Q 002378 752 STPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 752 ~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
+.-.+|+|+ ..++.|||+++ ..+||..|+|.
T Consensus 328 ---G~i~vLVaT--d~lerGIDI~~--vd~VI~~~~P~ 358 (742)
T TIGR03817 328 ---GELLGVATT--NALELGVDISG--LDAVVIAGFPG 358 (742)
T ss_pred ---CCceEEEEC--chHhccCCccc--ccEEEEeCCCC
Confidence 345677777 89999999997 78899999886
No 29
>PRK01172 ski2-like helicase; Provisional
Probab=98.93 E-value=3.6e-07 Score=112.70 Aligned_cols=41 Identities=24% Similarity=0.354 Sum_probs=34.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHH
Q 002378 14 AFPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 14 ~FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~ 58 (929)
..+|++||+|.+.+.. +.+|+++|+.+|||+|||++++.+.
T Consensus 18 ~~~~~l~~~Q~~ai~~----l~~~~nvlv~apTGSGKTl~a~lai 58 (674)
T PRK01172 18 GNDFELYDHQRMAIEQ----LRKGENVIVSVPTAAGKTLIAYSAI 58 (674)
T ss_pred hCCCCCCHHHHHHHHH----HhcCCcEEEECCCCchHHHHHHHHH
Confidence 3578899999998774 5789999999999999998766544
No 30
>PRK09401 reverse gyrase; Reviewed
Probab=98.72 E-value=1.3e-06 Score=111.96 Aligned_cols=85 Identities=25% Similarity=0.429 Sum_probs=62.0
Q ss_pred HHHhhccCCCeEEEccC---HHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCC
Q 002378 678 CNLVSVVPEGIIVFFPS---FEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTP 754 (929)
Q Consensus 678 ~~~~~~vpgg~LVfFpS---y~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~ 754 (929)
..+++..++|+|||+|+ ..+.+.+.+.+...|+ +-..+-+. ....+++|++
T Consensus 321 ~~ll~~l~~~~LIFv~t~~~~~~ae~l~~~L~~~gi-------~v~~~hg~----l~~~l~~F~~--------------- 374 (1176)
T PRK09401 321 VELVKRLGDGGLIFVPSDKGKEYAEELAEYLEDLGI-------NAELAISG----FERKFEKFEE--------------- 374 (1176)
T ss_pred HHHHHhcCCCEEEEEecccChHHHHHHHHHHHHCCC-------cEEEEeCc----HHHHHHHHHC---------------
Confidence 34444556799999998 4458999998887764 11222221 2455688887
Q ss_pred CCCcEEEEEe--cCccccccccCCCcceEEEEEccCC
Q 002378 755 LNGAMLLAVV--GGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 755 ~~gaiL~aV~--rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
++-.||+|+. .|-++.|||+|+ ..|.||-+|+|-
T Consensus 375 G~~~VLVatas~tdv~aRGIDiP~-~IryVI~y~vP~ 410 (1176)
T PRK09401 375 GEVDVLVGVASYYGVLVRGIDLPE-RIRYAIFYGVPK 410 (1176)
T ss_pred CCCCEEEEecCCCCceeecCCCCc-ceeEEEEeCCCC
Confidence 4668999963 588999999998 678999999997
No 31
>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=98.68 E-value=5.3e-06 Score=106.72 Aligned_cols=87 Identities=20% Similarity=0.284 Sum_probs=63.8
Q ss_pred HHHhhccCCCeEEEccCH---HHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCC
Q 002378 678 CNLVSVVPEGIIVFFPSF---EYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTP 754 (929)
Q Consensus 678 ~~~~~~vpgg~LVfFpSy---~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~ 754 (929)
..+++..++|.|||+++- ...+.+.+.++..|+ +-..+.+... +..++.|++
T Consensus 319 ~~ll~~l~~~~IVFv~t~~~~~~a~~l~~~L~~~g~-------~a~~lhg~~~---~~~l~~Fr~--------------- 373 (1171)
T TIGR01054 319 LEIVKKLGTGGIVYVSIDYGKEKAEEIAEFLENHGV-------KAVAYHATKP---KEDYEKFAE--------------- 373 (1171)
T ss_pred HHHHHHcCCCEEEEEeccccHHHHHHHHHHHHhCCc-------eEEEEeCCCC---HHHHHHHHc---------------
Confidence 334444467899999998 999999999887653 1122322211 478899987
Q ss_pred CCCcEEEEEe--cCccccccccCCCcceEEEEEccCCC
Q 002378 755 LNGAMLLAVV--GGKISEGINFSDGMGRCIVMVGLPYP 790 (929)
Q Consensus 755 ~~gaiL~aV~--rGk~sEGIDf~d~~~r~ViivGlPfp 790 (929)
+.--||+|+. .|-++.|||+|+ ..|.||-+|+|--
T Consensus 374 G~~~vLVata~~tdv~aRGIDip~-~V~~vI~~~~P~~ 410 (1171)
T TIGR01054 374 GEIDVLIGVASYYGTLVRGLDLPE-RVRYAVFLGVPKF 410 (1171)
T ss_pred CCCCEEEEeccccCcccccCCCCc-cccEEEEECCCCE
Confidence 4567899963 588999999999 5688999999954
No 32
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=98.08 E-value=3.4e-05 Score=73.75 Aligned_cols=93 Identities=22% Similarity=0.327 Sum_probs=65.6
Q ss_pred HHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcC-CCCchHHHHHHHHHHHHhccCCCC
Q 002378 670 IEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREP-RGNTHVESVLKEYQKTIDTLSSRP 748 (929)
Q Consensus 670 ~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~-~~~~~~~~~l~~y~~~i~~~~~~~ 748 (929)
...+...+.+... ..+.+|||+++...++.+.+.++..+ ....++.+ ....+...+++.|..
T Consensus 14 ~~~i~~~i~~~~~-~~~~~lvf~~~~~~~~~~~~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~f~~--------- 76 (131)
T cd00079 14 LEALLELLKEHLK-KGGKVLIFCPSKKMLDELAELLRKPG-------IKVAALHGDGSQEEREEVLKDFRE--------- 76 (131)
T ss_pred HHHHHHHHHhccc-CCCcEEEEeCcHHHHHHHHHHHHhcC-------CcEEEEECCCCHHHHHHHHHHHHc---------
Confidence 3455555555432 46789999999999999999987631 12233333 223456777777766
Q ss_pred CCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCC
Q 002378 749 KEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 749 ~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
+...+|+++ ..++||+|+++ +..||+.+.|+
T Consensus 77 ------~~~~ili~t--~~~~~G~d~~~--~~~vi~~~~~~ 107 (131)
T cd00079 77 ------GEIVVLVAT--DVIARGIDLPN--VSVVINYDLPW 107 (131)
T ss_pred ------CCCcEEEEc--ChhhcCcChhh--CCEEEEeCCCC
Confidence 346788888 89999999986 77888888744
No 33
>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=97.51 E-value=0.0021 Score=76.12 Aligned_cols=82 Identities=22% Similarity=0.293 Sum_probs=63.1
Q ss_pred ccCCCe-EEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEE
Q 002378 683 VVPEGI-IVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLL 761 (929)
Q Consensus 683 ~vpgg~-LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~ 761 (929)
..++.. |||++|-...+.+...++..++- -..+--.....+...+++.|+. +.-.||+
T Consensus 223 ~~~~~~~IIF~~s~~~~e~la~~L~~~g~~------~~~~H~~l~~~eR~~i~~~F~~---------------g~~~vLV 281 (470)
T TIGR00614 223 EFKGKSGIIYCPSRKKSEQVTASLQNLGIA------AGAYHAGLEISARDDVHHKFQR---------------DEIQVVV 281 (470)
T ss_pred hcCCCceEEEECcHHHHHHHHHHHHhcCCC------eeEeeCCCCHHHHHHHHHHHHc---------------CCCcEEE
Confidence 345555 99999999999999998876531 1123333334578889999986 4678999
Q ss_pred EEecCccccccccCCCcceEEEEEccCC
Q 002378 762 AVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 762 aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
|+ ..+++|||+++ .+.||..++|.
T Consensus 282 aT--~~~~~GID~p~--V~~VI~~~~P~ 305 (470)
T TIGR00614 282 AT--VAFGMGINKPD--VRFVIHYSLPK 305 (470)
T ss_pred Ee--chhhccCCccc--ceEEEEeCCCC
Confidence 99 89999999998 78999999885
No 34
>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=97.46 E-value=0.00016 Score=75.27 Aligned_cols=46 Identities=24% Similarity=0.376 Sum_probs=38.5
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 15 FPYK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 15 FPf~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
+.|+ ||+.|.+.+..+.+ |+++++++|||+|||++++.+++..+..
T Consensus 17 ~~~~~~~~~Q~~~~~~~~~----~~~~li~~~TG~GKT~~~~~~~l~~~~~ 63 (203)
T cd00268 17 LGFEKPTPIQARAIPPLLS----GRDVIGQAQTGSGKTAAFLIPILEKLDP 63 (203)
T ss_pred cCCCCCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 4565 99999999876665 8999999999999999998888776554
No 35
>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=97.40 E-value=0.00018 Score=72.18 Aligned_cols=41 Identities=32% Similarity=0.562 Sum_probs=35.2
Q ss_pred CHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 20 YSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
.|.|.+.+..++ +|++.++.+|||+|||++++.+++.++..
T Consensus 1 t~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~ 41 (169)
T PF00270_consen 1 TPLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQE 41 (169)
T ss_dssp -HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhcc
Confidence 478888887665 78999999999999999999999988764
No 36
>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=97.30 E-value=0.00025 Score=71.89 Aligned_cols=40 Identities=35% Similarity=0.524 Sum_probs=35.6
Q ss_pred CCCCHHHHHHHHHHHHHHHcC---CceeeeCCCCCcchHHHHH
Q 002378 17 YKPYSIQTDFMKALYCSLENG---GVSMLESPTGTGKTLSIIC 56 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~---~~~~~esptgtgktl~~l~ 56 (929)
|+++|-|.+.+..+++.+... ..++|.+|||||||...+.
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~ 44 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALA 44 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhh
Confidence 578999999999999999986 9999999999999998884
No 37
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.28 E-value=0.00032 Score=86.60 Aligned_cols=50 Identities=20% Similarity=0.325 Sum_probs=45.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 14 AFPYKPYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 14 ~FPf~py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
.|||+|+++|...+..+...+..+ .+.|+.+|||||||++++++++..+.
T Consensus 257 ~l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~ 308 (681)
T PRK10917 257 SLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE 308 (681)
T ss_pred hCCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH
Confidence 489999999999999999998765 58999999999999999999998764
No 38
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.20 E-value=0.0061 Score=74.48 Aligned_cols=80 Identities=21% Similarity=0.203 Sum_probs=62.2
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEE-cCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFR-EPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLA 762 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~-E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~a 762 (929)
.++.++||++|-...+.++..++..++ +-.++ -.....+...+++.|.. +.-.||+|
T Consensus 235 ~~~~~IIFc~tr~~~e~la~~L~~~g~-------~v~~~Ha~l~~~~R~~i~~~F~~---------------g~~~VLVa 292 (607)
T PRK11057 235 RGKSGIIYCNSRAKVEDTAARLQSRGI-------SAAAYHAGLDNDVRADVQEAFQR---------------DDLQIVVA 292 (607)
T ss_pred CCCCEEEEECcHHHHHHHHHHHHhCCC-------CEEEecCCCCHHHHHHHHHHHHC---------------CCCCEEEE
Confidence 446789999999999999999987653 11222 23334578889999976 45679999
Q ss_pred EecCccccccccCCCcceEEEEEccCC
Q 002378 763 VVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 763 V~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
+ .-+++|||+++ .|.||..++|.
T Consensus 293 T--~a~~~GIDip~--V~~VI~~d~P~ 315 (607)
T PRK11057 293 T--VAFGMGINKPN--VRFVVHFDIPR 315 (607)
T ss_pred e--chhhccCCCCC--cCEEEEeCCCC
Confidence 8 78999999998 78999999875
No 39
>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=97.20 E-value=0.0056 Score=74.71 Aligned_cols=80 Identities=16% Similarity=0.197 Sum_probs=61.2
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEe
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVV 764 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~ 764 (929)
.+..+||++|-...+.+++.+...++- -..|--+....+.+.+++.|.. +.-.||+|+
T Consensus 224 ~~~~IIf~~sr~~~e~la~~L~~~g~~------~~~~H~~l~~~~R~~i~~~F~~---------------g~~~vlVaT- 281 (591)
T TIGR01389 224 GQSGIIYASSRKKVEELAERLESQGIS------ALAYHAGLSNKVRAENQEDFLY---------------DDVKVMVAT- 281 (591)
T ss_pred CCCEEEEECcHHHHHHHHHHHHhCCCC------EEEEECCCCHHHHHHHHHHHHc---------------CCCcEEEEe-
Confidence 456899999999999999988765421 1233333444678889999976 456788888
Q ss_pred cCccccccccCCCcceEEEEEccCC
Q 002378 765 GGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 765 rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.-|.+|||+++ .|.||..++|.
T Consensus 282 -~a~~~GID~p~--v~~VI~~~~p~ 303 (591)
T TIGR01389 282 -NAFGMGIDKPN--VRFVIHYDMPG 303 (591)
T ss_pred -chhhccCcCCC--CCEEEEcCCCC
Confidence 89999999998 68899988764
No 40
>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=97.16 E-value=0.00042 Score=82.05 Aligned_cols=41 Identities=27% Similarity=0.364 Sum_probs=36.2
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHH
Q 002378 15 FPYK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 15 FPf~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l 59 (929)
|.|+ |+|+|.+.+. ++.+|+++++.+|||+||||+|+.++|
T Consensus 7 ~g~~~~r~~Q~~ai~----~~l~g~dvlv~apTGsGKTl~y~lp~l 48 (470)
T TIGR00614 7 FGLSSFRPVQLEVIN----AVLLGRDCFVVMPTGGGKSLCYQLPAL 48 (470)
T ss_pred cCCCCCCHHHHHHHH----HHHcCCCEEEEcCCCCcHhHHHHHHHH
Confidence 6675 9999999877 556789999999999999999999987
No 41
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.02 E-value=0.00062 Score=76.69 Aligned_cols=44 Identities=23% Similarity=0.345 Sum_probs=39.4
Q ss_pred CC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 17 YK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 17 f~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
|+ .+|+|...+- -|..++++++||||||||||++|.|.|.-+.+
T Consensus 26 F~~mTpVQa~tIP----lll~~KDVvveavTGSGKTlAFllP~le~i~r 70 (567)
T KOG0345|consen 26 FEKMTPVQAATIP----LLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYR 70 (567)
T ss_pred CcccCHHHHhhhH----HHhcCCceEEEcCCCCCchhhHHHHHHHHHHh
Confidence 54 8899998765 77889999999999999999999999999865
No 42
>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=97.00 E-value=0.00086 Score=84.66 Aligned_cols=50 Identities=20% Similarity=0.286 Sum_probs=44.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 14 AFPYKPYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 14 ~FPf~py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
.|||+|+|.|...+..++..+..+ .+.++.+|||+|||++++.+++.-+.
T Consensus 447 ~~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~ 498 (926)
T TIGR00580 447 SFPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVL 498 (926)
T ss_pred hCCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHH
Confidence 489999999999999999988876 58999999999999999999886553
No 43
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=96.93 E-value=0.0011 Score=81.25 Aligned_cols=50 Identities=24% Similarity=0.353 Sum_probs=43.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 14 AFPYKPYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 14 ~FPf~py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
.+||+|++.|...+..+...+... .+.++.+|||||||++++.+++..+.
T Consensus 231 ~lpf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~ 282 (630)
T TIGR00643 231 SLPFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE 282 (630)
T ss_pred hCCCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH
Confidence 589999999999999999988654 47899999999999999988887653
No 44
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=96.88 E-value=0.00098 Score=81.35 Aligned_cols=41 Identities=29% Similarity=0.437 Sum_probs=36.1
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHH
Q 002378 15 FPYK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 15 FPf~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l 59 (929)
|.|+ |+|+|.+.+. .+.+|+++++.+|||+||||+|+.++|
T Consensus 21 fG~~~~r~~Q~~ai~----~il~g~dvlv~apTGsGKTl~y~lpal 62 (607)
T PRK11057 21 FGYQQFRPGQQEIID----AVLSGRDCLVVMPTGGGKSLCYQIPAL 62 (607)
T ss_pred cCCCCCCHHHHHHHH----HHHcCCCEEEEcCCCchHHHHHHHHHH
Confidence 6675 9999999877 455799999999999999999999887
No 45
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.75 E-value=0.00077 Score=76.92 Aligned_cols=46 Identities=28% Similarity=0.427 Sum_probs=39.7
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQKQK 68 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~~~ 68 (929)
|..+|.+.+-.| -+|+++++.|+||+||||+||.+.+.-|+....+
T Consensus 160 pTsVQkq~IP~l----L~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~k 205 (708)
T KOG0348|consen 160 PTSVQKQAIPVL----LEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPK 205 (708)
T ss_pred cchHhhcchhhh----hcCcceEEEcCCCCcccHHHHHHHHHHHHhcCcc
Confidence 889999887744 4599999999999999999999999999875443
No 46
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=96.74 E-value=0.0016 Score=77.77 Aligned_cols=88 Identities=19% Similarity=0.259 Sum_probs=64.7
Q ss_pred HHHHHHhhccC-CCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcC-CCCchHHHHHHHHHHHHhccCCCCCCCC
Q 002378 675 LLLCNLVSVVP-EGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREP-RGNTHVESVLKEYQKTIDTLSSRPKEDS 752 (929)
Q Consensus 675 ~~i~~~~~~vp-gg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~-~~~~~~~~~l~~y~~~i~~~~~~~~~~~ 752 (929)
..|..++.... +-++||+.+-...+.+...|...|+ +-..+.+ .....+...++.|++
T Consensus 262 ~~L~~ll~~~~~~~~IVF~~tk~~~~~l~~~l~~~g~-------~~~~lhG~l~q~~R~~~l~~F~~------------- 321 (513)
T COG0513 262 ELLLKLLKDEDEGRVIVFVRTKRLVEELAESLRKRGF-------KVAALHGDLPQEERDRALEKFKD------------- 321 (513)
T ss_pred HHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHHCCC-------eEEEecCCCCHHHHHHHHHHHHc-------------
Confidence 34556666544 4599999999999999998887762 2233333 334578999999986
Q ss_pred CCCCCcEEEEEecCccccccccCCCcceEEEEEccC
Q 002378 753 TPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLP 788 (929)
Q Consensus 753 ~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlP 788 (929)
+.-.||+|. .-.++|||+++ ...||-.-+|
T Consensus 322 --g~~~vLVaT--DvaaRGiDi~~--v~~VinyD~p 351 (513)
T COG0513 322 --GELRVLVAT--DVAARGLDIPD--VSHVINYDLP 351 (513)
T ss_pred --CCCCEEEEe--chhhccCCccc--cceeEEccCC
Confidence 467899999 89999999998 4556665555
No 47
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.74 E-value=0.035 Score=70.42 Aligned_cols=79 Identities=24% Similarity=0.225 Sum_probs=62.0
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEE-cCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFR-EPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~-E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
.+..+||+.|....+.+.+.+...|+ +-.+. -+.+..++..+++.|.. +.-.||+|+
T Consensus 680 ~esgIIYC~SRke~E~LAe~L~~~Gi-------ka~~YHAGLs~eeR~~vqe~F~~---------------Gei~VLVAT 737 (1195)
T PLN03137 680 DECGIIYCLSRMDCEKVAERLQEFGH-------KAAFYHGSMDPAQRAFVQKQWSK---------------DEINIICAT 737 (1195)
T ss_pred CCCceeEeCchhHHHHHHHHHHHCCC-------CeeeeeCCCCHHHHHHHHHHHhc---------------CCCcEEEEe
Confidence 34578999999999999998887653 22333 33344578889999987 456788888
Q ss_pred ecCccccccccCCCcceEEEEEccCC
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.-|..|||++| .|.||-.++|.
T Consensus 738 --dAFGMGIDkPD--VR~VIHydlPk 759 (1195)
T PLN03137 738 --VAFGMGINKPD--VRFVIHHSLPK 759 (1195)
T ss_pred --chhhcCCCccC--CcEEEEcCCCC
Confidence 89999999999 78899999886
No 48
>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=96.68 E-value=0.027 Score=64.09 Aligned_cols=70 Identities=14% Similarity=0.206 Sum_probs=47.2
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCC-CCchHH----HHHHHHHHHHhccCCCCCCCCCCCCCc
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPR-GNTHVE----SVLKEYQKTIDTLSSRPKEDSTPLNGA 758 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~-~~~~~~----~~l~~y~~~i~~~~~~~~~~~~~~~ga 758 (929)
.++.+|||+++....+.+++.+++.+... .-..+-+. ...+.. ++++.|++ ++..
T Consensus 221 ~~~~~lVf~~t~~~~~~~~~~L~~~~~~~-----~~~~~h~~~~~~~r~~~~~~~~~~f~~---------------~~~~ 280 (358)
T TIGR01587 221 KGGKIAIIVNTVDRAQEFYQQLKENAPEE-----EIMLLHSRFTEKDRAKKEAELLEEMKK---------------NEKF 280 (358)
T ss_pred CCCeEEEEECCHHHHHHHHHHHHhhcCCC-----eEEEEECCCCHHHHHHHHHHHHHHhcC---------------CCCe
Confidence 46789999999999999999887653211 12333332 122333 34666654 3567
Q ss_pred EEEEEecCccccccccC
Q 002378 759 MLLAVVGGKISEGINFS 775 (929)
Q Consensus 759 iL~aV~rGk~sEGIDf~ 775 (929)
+|+|+ ..++.|||++
T Consensus 281 ilvaT--~~~~~GiDi~ 295 (358)
T TIGR01587 281 VIVAT--QVIEASLDIS 295 (358)
T ss_pred EEEEC--cchhceeccC
Confidence 88888 8999999996
No 49
>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=96.65 E-value=0.0019 Score=78.81 Aligned_cols=41 Identities=29% Similarity=0.425 Sum_probs=36.1
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHH
Q 002378 15 FPYK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 15 FPf~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l 59 (929)
|.|+ +.|+|.+.+. ++.+|+++++.+|||+|||||++.++|
T Consensus 9 fg~~~fr~~Q~~~i~----~il~g~dvlv~~PTG~GKTl~y~lpal 50 (591)
T TIGR01389 9 FGYDDFRPGQEEIIS----HVLDGRDVLVVMPTGGGKSLCYQVPAL 50 (591)
T ss_pred cCCCCCCHHHHHHHH----HHHcCCCEEEEcCCCccHhHHHHHHHH
Confidence 6776 8899999877 555789999999999999999999987
No 50
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=96.60 E-value=0.0022 Score=65.11 Aligned_cols=46 Identities=30% Similarity=0.327 Sum_probs=37.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 15 FPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
+++.|++.|.+.+..++... ++.++.+|||||||.+++..++..+.
T Consensus 5 ~~~~~~~~Q~~~~~~~~~~~---~~~~i~~~~GsGKT~~~~~~~~~~~~ 50 (201)
T smart00487 5 GFEPLRPYQKEAIEALLSGL---RDVILAAPTGSGKTLAALLPALEALK 50 (201)
T ss_pred CCCCCCHHHHHHHHHHHcCC---CcEEEECCCCCchhHHHHHHHHHHhc
Confidence 56679999998887555333 89999999999999988888777655
No 51
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.55 E-value=0.0023 Score=78.97 Aligned_cols=47 Identities=15% Similarity=0.087 Sum_probs=38.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhH
Q 002378 12 FPAFPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 12 ~~~FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
-+..||+.+|+|.+.|- .+..+...|.++||||||||++++|++.-+
T Consensus 86 G~~~p~~~tp~qvQ~I~----~i~l~~gvIAeaqTGeGKTLAf~LP~l~~a 132 (970)
T PRK12899 86 GYHQQWDMVPYDVQILG----AIAMHKGFITEMQTGEGKTLTAVMPLYLNA 132 (970)
T ss_pred cccCCCCCChHHHHHhh----hhhcCCCeEEEeCCCCChHHHHHHHHHHHH
Confidence 35688777777777665 666678899999999999999999999644
No 52
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=96.44 E-value=0.018 Score=72.20 Aligned_cols=101 Identities=13% Similarity=0.121 Sum_probs=67.4
Q ss_pred HHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEE-EcCC-CCchHHHHHHHHHHHHhccCCCC
Q 002378 671 EELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVF-REPR-GNTHVESVLKEYQKTIDTLSSRP 748 (929)
Q Consensus 671 ~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if-~E~~-~~~~~~~~l~~y~~~i~~~~~~~ 748 (929)
..+...|..++...+|.+|||+|+..-++.+.+.+... +.....|+ .-+. ...+...+++.|..
T Consensus 198 ~~v~~~l~~~l~~~~g~iLVFlpg~~ei~~l~~~L~~~-----~~~~~~v~~Lhg~l~~~eq~~~~~~~~~--------- 263 (812)
T PRK11664 198 EAVARATAELLRQESGSLLLFLPGVGEIQRVQEQLASR-----VASDVLLCPLYGALSLAEQQKAILPAPA--------- 263 (812)
T ss_pred HHHHHHHHHHHHhCCCCEEEEcCCHHHHHHHHHHHHHh-----ccCCceEEEeeCCCCHHHHHHHhccccC---------
Confidence 44556677776666789999999999999999998752 10111122 2221 12244555555433
Q ss_pred CCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCH
Q 002378 749 KEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNI 795 (929)
Q Consensus 749 ~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~ 795 (929)
+...|++|. .-..-|||++| .+.||-.|+|=-...||
T Consensus 264 ------G~rkVlvAT--nIAErsLtIp~--V~~VID~Gl~r~~~yd~ 300 (812)
T PRK11664 264 ------GRRKVVLAT--NIAETSLTIEG--IRLVVDSGLERVARFDP 300 (812)
T ss_pred ------CCeEEEEec--chHHhcccccC--ceEEEECCCcccccccc
Confidence 356899998 88888999998 77899999985433343
No 53
>PRK02362 ski2-like helicase; Provisional
Probab=96.44 E-value=0.052 Score=68.05 Aligned_cols=40 Identities=30% Similarity=0.382 Sum_probs=33.9
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHH
Q 002378 18 KPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~ 60 (929)
+|||+|.+.... .+..|+++|+.+|||+|||++++.+.|.
T Consensus 23 ~l~p~Q~~ai~~---~~~~g~nvlv~APTGSGKTlia~lail~ 62 (737)
T PRK02362 23 ELYPPQAEAVEA---GLLDGKNLLAAIPTASGKTLIAELAMLK 62 (737)
T ss_pred cCCHHHHHHHHH---HHhCCCcEEEECCCcchHHHHHHHHHHH
Confidence 499999998764 3667999999999999999988876653
No 54
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.44 E-value=0.0032 Score=79.42 Aligned_cols=41 Identities=24% Similarity=0.237 Sum_probs=34.9
Q ss_pred CCC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHH
Q 002378 16 PYK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 16 Pf~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~ 60 (929)
-|. ++|.|.+.+. ++.+|+++|+-+|||+||||||+.++|.
T Consensus 457 G~~sFRp~Q~eaI~----aiL~GrDVLVimPTGSGKSLcYQLPAL~ 498 (1195)
T PLN03137 457 GNHSFRPNQREIIN----ATMSGYDVFVLMPTGGGKSLTYQLPALI 498 (1195)
T ss_pred CCCCCCHHHHHHHH----HHHcCCCEEEEcCCCccHHHHHHHHHHH
Confidence 343 7889988655 6678999999999999999999999874
No 55
>PHA02558 uvsW UvsW helicase; Provisional
Probab=96.30 E-value=0.04 Score=65.88 Aligned_cols=78 Identities=18% Similarity=0.180 Sum_probs=54.6
Q ss_pred ccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCC-CchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEE
Q 002378 683 VVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRG-NTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLL 761 (929)
Q Consensus 683 ~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~-~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~ 761 (929)
..++.+||||.+-...+.+++.+...+. +-.++.+.. ..++..+++.|+. +...||+
T Consensus 342 ~~~~~~lV~~~~~~h~~~L~~~L~~~g~-------~v~~i~G~~~~~eR~~i~~~~~~---------------~~~~vLv 399 (501)
T PHA02558 342 KKGENTFVMFKYVEHGKPLYEMLKKVYD-------KVYYVSGEVDTEDRNEMKKIAEG---------------GKGIIIV 399 (501)
T ss_pred hcCCCEEEEEEEHHHHHHHHHHHHHcCC-------CEEEEeCCCCHHHHHHHHHHHhC---------------CCCeEEE
Confidence 3467899999999999999988877542 335555543 2456677776654 3445676
Q ss_pred EEecCccccccccCCCcceEEEEE
Q 002378 762 AVVGGKISEGINFSDGMGRCIVMV 785 (929)
Q Consensus 762 aV~rGk~sEGIDf~d~~~r~Viiv 785 (929)
|. ++-++||||+|+ +.+||+.
T Consensus 400 aT-~~~l~eG~Dip~--ld~vIl~ 420 (501)
T PHA02558 400 AS-YGVFSTGISIKN--LHHVIFA 420 (501)
T ss_pred EE-cceecccccccc--ccEEEEe
Confidence 65 268999999997 5667754
No 56
>PRK10689 transcription-repair coupling factor; Provisional
Probab=96.27 E-value=0.0053 Score=79.41 Aligned_cols=50 Identities=20% Similarity=0.240 Sum_probs=43.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchHHHHHHHHHhH
Q 002378 13 PAFPYKPYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 13 ~~FPf~py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
-.|||+|.++|.+.+..+..-+... .+.|+.+|||+|||+.++.+++..+
T Consensus 595 ~~~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~ 646 (1147)
T PRK10689 595 DSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAV 646 (1147)
T ss_pred HhCCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHH
Confidence 3599999999999999999888765 7899999999999998887776543
No 57
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=96.21 E-value=0.0057 Score=75.32 Aligned_cols=45 Identities=18% Similarity=0.288 Sum_probs=40.0
Q ss_pred CC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHH
Q 002378 17 YK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQ 65 (929)
Q Consensus 17 f~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~ 65 (929)
|. |.|.|...+. .+.+|+|+++-||||+|||++-+.++|.-|-..
T Consensus 20 ~~~~t~~Q~~a~~----~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~ 65 (814)
T COG1201 20 FTSLTPPQRYAIP----EIHSGENVLIIAPTGSGKTEAAFLPVINELLSL 65 (814)
T ss_pred cCCCCHHHHHHHH----HHhCCCceEEEcCCCCChHHHHHHHHHHHHHhc
Confidence 64 9999999877 566999999999999999999999999888763
No 58
>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=96.18 E-value=0.0041 Score=76.92 Aligned_cols=36 Identities=31% Similarity=0.493 Sum_probs=29.0
Q ss_pred CCCCHHHHHHHHHHHHHHHcCC-ceeeeCCCCCcchHHHHH
Q 002378 17 YKPYSIQTDFMKALYCSLENGG-VSMLESPTGTGKTLSIIC 56 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~~-~~~~esptgtgktl~~l~ 56 (929)
|+|||+|.+.+..+ .+|+ ..++.+|||||||.++..
T Consensus 14 ~~PtpiQ~~~i~~i----l~G~~~v~~~apTGSGKTaa~aa 50 (844)
T TIGR02621 14 YSPFPWQLSLAERF----VAGQPPESCSTPTGLGKTSIIAA 50 (844)
T ss_pred CCCCHHHHHHHHHH----HcCCCcceEecCCCCcccHHHHH
Confidence 44999999998864 4676 678899999999987643
No 59
>PRK00254 ski2-like helicase; Provisional
Probab=96.12 E-value=0.085 Score=65.97 Aligned_cols=40 Identities=28% Similarity=0.370 Sum_probs=33.6
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHH
Q 002378 18 KPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~ 60 (929)
+|||+|.+.+.. .+.+|+++|+.+|||+|||+++..+.+.
T Consensus 23 ~l~~~Q~~ai~~---~~~~g~nvlv~apTGsGKT~~~~l~il~ 62 (720)
T PRK00254 23 ELYPPQAEALKS---GVLEGKNLVLAIPTASGKTLVAEIVMVN 62 (720)
T ss_pred CCCHHHHHHHHH---HHhCCCcEEEECCCCcHHHHHHHHHHHH
Confidence 499999998764 3678999999999999999998776653
No 60
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.11 E-value=0.0048 Score=71.65 Aligned_cols=50 Identities=28% Similarity=0.337 Sum_probs=43.1
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHHH
Q 002378 14 AFPYK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQKQ 67 (929)
Q Consensus 14 ~FPf~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~~ 67 (929)
.-+|+ |.|+|.+. +-.+-.+.+++.++|||+||||||+|+.|.-|+++..
T Consensus 153 ~~~F~~Pt~iq~~a----ipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~ 203 (593)
T KOG0344|consen 153 ELGFDEPTPIQKQA----IPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQ 203 (593)
T ss_pred hCCCCCCCcccchh----hhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhc
Confidence 45686 99999844 5588889999999999999999999999999998653
No 61
>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=96.02 E-value=0.046 Score=68.60 Aligned_cols=103 Identities=12% Similarity=0.116 Sum_probs=70.9
Q ss_pred HHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEE-EcCC-CCchHHHHHHHHHHHHhccCCC
Q 002378 670 IEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVF-REPR-GNTHVESVLKEYQKTIDTLSSR 747 (929)
Q Consensus 670 ~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if-~E~~-~~~~~~~~l~~y~~~i~~~~~~ 747 (929)
...+...|..++...+|.+|||+|+...++.+++.+... +.....|+ .-+. ...+...+++.|..
T Consensus 194 ~~~v~~~l~~~l~~~~g~iLVFlpg~~eI~~l~~~L~~~-----~~~~~~v~pLHg~L~~~eq~~~~~~~~~-------- 260 (819)
T TIGR01970 194 EDAVSRAVEHALASETGSILVFLPGQAEIRRVQEQLAER-----LDSDVLICPLYGELSLAAQDRAIKPDPQ-------- 260 (819)
T ss_pred HHHHHHHHHHHHHhcCCcEEEEECCHHHHHHHHHHHHhh-----cCCCcEEEEecCCCCHHHHHHHHhhccc--------
Confidence 344556666666666889999999999999999988752 11111222 2221 12345666666644
Q ss_pred CCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCHH
Q 002378 748 PKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIE 796 (929)
Q Consensus 748 ~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~ 796 (929)
+..-|++|. .-..-|||++| .+.||-.|+|--...||.
T Consensus 261 -------G~rkVlVAT--nIAErgItIp~--V~~VID~Gl~r~~~yd~~ 298 (819)
T TIGR01970 261 -------GRRKVVLAT--NIAETSLTIEG--IRVVIDSGLARVARFDPK 298 (819)
T ss_pred -------CCeEEEEec--chHhhcccccC--ceEEEEcCcccccccccc
Confidence 356788888 89999999999 789999999976555553
No 62
>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=95.98 E-value=0.16 Score=64.65 Aligned_cols=80 Identities=15% Similarity=0.251 Sum_probs=58.6
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCC-CCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPR-GNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~-~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
.+.++||+|+-..++.+++.+++. +...+-..+-++ +..+++.++++|++ ++-.||+|+
T Consensus 660 g~qv~if~n~i~~~e~l~~~L~~~-----~p~~~v~~lHG~m~~~eRe~im~~F~~---------------Gk~~ILVaT 719 (926)
T TIGR00580 660 GGQVFYVHNRIESIEKLATQLREL-----VPEARIAIAHGQMTENELEEVMLEFYK---------------GEFQVLVCT 719 (926)
T ss_pred CCeEEEEECCcHHHHHHHHHHHHh-----CCCCeEEEecCCCCHHHHHHHHHHHHc---------------CCCCEEEEC
Confidence 467899999999888888887753 111122344443 23578999999987 467899998
Q ss_pred ecCccccccccCCCcceEEEEEccC
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLP 788 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlP 788 (929)
.-++.|||+++ +.+||+...|
T Consensus 720 --~iie~GIDIp~--v~~VIi~~a~ 740 (926)
T TIGR00580 720 --TIIETGIDIPN--ANTIIIERAD 740 (926)
T ss_pred --Chhhccccccc--CCEEEEecCC
Confidence 89999999998 5678877654
No 63
>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=95.95 E-value=0.053 Score=70.34 Aligned_cols=102 Identities=14% Similarity=0.184 Sum_probs=68.1
Q ss_pred HHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEE-EcCC-CCchHHHHHHHHHHHHhccC
Q 002378 668 AMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVF-REPR-GNTHVESVLKEYQKTIDTLS 745 (929)
Q Consensus 668 ~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if-~E~~-~~~~~~~~l~~y~~~i~~~~ 745 (929)
.+.+.+...|..++...+|.+|||+|+...++.+.+.+...+.. ...|+ .-+. ...+...+ |+.
T Consensus 262 ~~~~~i~~~I~~l~~~~~GdILVFLpg~~EI~~l~~~L~~~~~~-----~~~VlpLhg~Ls~~eQ~~v---f~~------ 327 (1283)
T TIGR01967 262 DQLEAILDAVDELFAEGPGDILIFLPGEREIRDAAEILRKRNLR-----HTEILPLYARLSNKEQQRV---FQP------ 327 (1283)
T ss_pred hHHHHHHHHHHHHHhhCCCCEEEeCCCHHHHHHHHHHHHhcCCC-----CcEEEeccCCCCHHHHHHH---hCC------
Confidence 45677778888887777899999999999999999988764320 01121 1111 11222333 221
Q ss_pred CCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCH
Q 002378 746 SRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNI 795 (929)
Q Consensus 746 ~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~ 795 (929)
....-|++|+ .-..-|||++| .+.||=.|+|--+..||
T Consensus 328 --------~~~rkIVLAT--NIAEtSLTIpg--V~yVIDsGl~r~~~yd~ 365 (1283)
T TIGR01967 328 --------HSGRRIVLAT--NVAETSLTVPG--IHYVIDTGTARISRYSY 365 (1283)
T ss_pred --------CCCceEEEec--cHHHhccccCC--eeEEEeCCCcccccccc
Confidence 1124799998 88888999999 78899999986544443
No 64
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=95.95 E-value=0.0078 Score=75.66 Aligned_cols=45 Identities=27% Similarity=0.392 Sum_probs=40.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 16 PYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 16 Pf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
|..+|.-|.+.++ .+.+|++.|+.+|||+|||+||+.+.|.-+-.
T Consensus 68 ~~~lY~HQ~~A~~----~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~ 112 (851)
T COG1205 68 IERLYSHQVDALR----LIREGRNVVVTTGTGSGKTESFLLPILDHLLR 112 (851)
T ss_pred cccccHHHHHHHH----HHHCCCCEEEECCCCCchhHHHHHHHHHHHhh
Confidence 3348999999866 88899999999999999999999999988765
No 65
>PRK02362 ski2-like helicase; Provisional
Probab=95.90 E-value=0.0082 Score=75.14 Aligned_cols=18 Identities=22% Similarity=0.457 Sum_probs=13.3
Q ss_pred HHHHHHHcCCceeeeCCC
Q 002378 29 ALYCSLENGGVSMLESPT 46 (929)
Q Consensus 29 ~v~~~~~~~~~~~~espt 46 (929)
.+++.+..+..+|+-+||
T Consensus 59 ail~~l~~~~kal~i~P~ 76 (737)
T PRK02362 59 AMLKAIARGGKALYIVPL 76 (737)
T ss_pred HHHHHHhcCCcEEEEeCh
Confidence 455666677778888888
No 66
>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=95.87 E-value=0.0083 Score=52.16 Aligned_cols=44 Identities=20% Similarity=0.460 Sum_probs=36.8
Q ss_pred CchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCC
Q 002378 727 NTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 727 ~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
..+...+++.|.. ....||++. ..+++|||+++ +..||..++|+
T Consensus 19 ~~~r~~~~~~f~~---------------~~~~vli~t--~~~~~Gid~~~--~~~vi~~~~~~ 62 (78)
T PF00271_consen 19 QKERQEILKKFNS---------------GEIRVLIAT--DILGEGIDLPD--ASHVIFYDPPW 62 (78)
T ss_dssp HHHHHHHHHHHHT---------------TSSSEEEES--CGGTTSSTSTT--ESEEEESSSES
T ss_pred HHHHHHHHHHhhc---------------cCceEEEee--ccccccccccc--cccccccccCC
Confidence 3578889999987 467899998 89999999996 78899988854
No 67
>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=95.84 E-value=0.42 Score=59.69 Aligned_cols=89 Identities=13% Similarity=0.148 Sum_probs=53.4
Q ss_pred HHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCC-CCchHH-----HHHHHHHHHHhccCC
Q 002378 673 LGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPR-GNTHVE-----SVLKEYQKTIDTLSS 746 (929)
Q Consensus 673 l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~-~~~~~~-----~~l~~y~~~i~~~~~ 746 (929)
+...+..+....++.+|||+++-...+.+++.+++.++ +++-++ ...+++ .++++|+.-...+.
T Consensus 260 lv~~L~~ll~e~g~~vLVF~NTv~~Aq~L~~~L~~~g~---------~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~- 329 (844)
T TIGR02621 260 MVKELNLLMKDSGGAILVFCRTVKHVRKVFAKLPKEKF---------ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGS- 329 (844)
T ss_pred HHHHHHHHHhhCCCcEEEEECCHHHHHHHHHHHHhcCC---------eEeeCCCCHHHHhhHHHHHHHHHHhccccccc-
Confidence 33334444444456799999999999999999886542 333332 233455 66888875111010
Q ss_pred CCCCCCCCCCCcEEEEEecCccccccccCC
Q 002378 747 RPKEDSTPLNGAMLLAVVGGKISEGINFSD 776 (929)
Q Consensus 747 ~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d 776 (929)
.........||+|. .-+..|||++.
T Consensus 330 ---~~~~~~g~~ILVAT--dVaerGLDId~ 354 (844)
T TIGR02621 330 ---RARPQQGTVYLVCT--SAGEVGVNISA 354 (844)
T ss_pred ---cccccccceEEecc--chhhhcccCCc
Confidence 00000113467776 89999999986
No 68
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.73 E-value=0.0052 Score=71.76 Aligned_cols=43 Identities=26% Similarity=0.280 Sum_probs=38.8
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQ 65 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~ 65 (929)
|.|||-+. +-.+..|+++|.-+-|||||||||+.|++.+|...
T Consensus 114 PtpIQaq~----wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~ 156 (519)
T KOG0331|consen 114 PTPIQAQG----WPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNE 156 (519)
T ss_pred Cchhhhcc----cceeccCCceEEEeccCCcchhhhhhHHHHHHHhc
Confidence 89999877 45778899999999999999999999999999863
No 69
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=95.71 E-value=0.018 Score=49.72 Aligned_cols=44 Identities=16% Similarity=0.386 Sum_probs=35.4
Q ss_pred CchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCC
Q 002378 727 NTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 727 ~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
..+...+++.|.+ ....||+++ ..+++|||+++ ++.||+.+.|+
T Consensus 23 ~~~r~~~~~~f~~---------------~~~~vli~t--~~~~~Gi~~~~--~~~vi~~~~~~ 66 (82)
T smart00490 23 QEEREEILEKFNN---------------GKIKVLVAT--DVAERGLDLPG--VDLVIIYDLPW 66 (82)
T ss_pred HHHHHHHHHHHHc---------------CCCeEEEEC--ChhhCCcChhc--CCEEEEeCCCC
Confidence 3467788888876 345888887 89999999988 88999999854
No 70
>PRK00254 ski2-like helicase; Provisional
Probab=95.68 E-value=0.012 Score=73.45 Aligned_cols=11 Identities=27% Similarity=0.534 Sum_probs=7.8
Q ss_pred cCCceeeeCCC
Q 002378 36 NGGVSMLESPT 46 (929)
Q Consensus 36 ~~~~~~~espt 46 (929)
.+..+|+-.||
T Consensus 67 ~~~~~l~l~P~ 77 (720)
T PRK00254 67 EGGKAVYLVPL 77 (720)
T ss_pred cCCeEEEEeCh
Confidence 46667777886
No 71
>PHA02653 RNA helicase NPH-II; Provisional
Probab=95.62 E-value=0.47 Score=58.45 Aligned_cols=82 Identities=11% Similarity=0.125 Sum_probs=55.4
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
.+|.+|||+|+-...+.+.+.+.... ...+-+-+.+. -...++.++.|.+ .++..||+|.
T Consensus 394 ~~g~iLVFlpg~~ei~~l~~~L~~~~-----~~~~v~~LHG~-Lsq~eq~l~~ff~--------------~gk~kILVAT 453 (675)
T PHA02653 394 KGSSGIVFVASVSQCEEYKKYLEKRL-----PIYDFYIIHGK-VPNIDEILEKVYS--------------SKNPSIIIST 453 (675)
T ss_pred cCCcEEEEECcHHHHHHHHHHHHhhc-----CCceEEeccCC-cCHHHHHHHHHhc--------------cCceeEEecc
Confidence 34679999999999999988886541 00111222332 1223456666642 1356799998
Q ss_pred ecCccccccccCCCcceEEEEEccCC
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.-...|||++| .+.||=.|+.+
T Consensus 454 --dIAERGIDIp~--V~~VID~G~~k 475 (675)
T PHA02653 454 --PYLESSVTIRN--ATHVYDTGRVY 475 (675)
T ss_pred --ChhhccccccC--eeEEEECCCcc
Confidence 89999999999 68899999655
No 72
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.52 E-value=0.31 Score=60.10 Aligned_cols=77 Identities=13% Similarity=0.128 Sum_probs=51.8
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCC-CchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRG-NTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLA 762 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~-~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~a 762 (929)
.+..+|||..+-..++.+...+. . .++-+.. ..++..++++|+. .+.-.+|++
T Consensus 495 ~g~kiLVF~~~~~~l~~~a~~L~-----------~-~~I~G~ts~~ER~~il~~Fr~--------------~~~i~vLv~ 548 (732)
T TIGR00603 495 RGDKIIVFSDNVFALKEYAIKLG-----------K-PFIYGPTSQQERMQILQNFQH--------------NPKVNTIFL 548 (732)
T ss_pred cCCeEEEEeCCHHHHHHHHHHcC-----------C-ceEECCCCHHHHHHHHHHHHh--------------CCCccEEEE
Confidence 45689999887777666665431 1 2344433 3589999999986 012245555
Q ss_pred EecCccccccccCCCcceEEEEEccCCC
Q 002378 763 VVGGKISEGINFSDGMGRCIVMVGLPYP 790 (929)
Q Consensus 763 V~rGk~sEGIDf~d~~~r~ViivGlPfp 790 (929)
. --..||||+|+ +.+||++..|+-
T Consensus 549 S--kVgdeGIDlP~--a~vvI~~s~~~g 572 (732)
T TIGR00603 549 S--KVGDTSIDLPE--ANVLIQISSHYG 572 (732)
T ss_pred e--cccccccCCCC--CCEEEEeCCCCC
Confidence 4 45679999999 678999887754
No 73
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=95.52 E-value=0.31 Score=64.41 Aligned_cols=86 Identities=13% Similarity=0.089 Sum_probs=56.5
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChh------------HHhh-----------cC--ccEEE--cCCCCchHHHHHHHH
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGIL------------DRIM-----------KK--KHVFR--EPRGNTHVESVLKEY 737 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~------------~~l~-----------~~--K~if~--E~~~~~~~~~~l~~y 737 (929)
...+|||.+|-...+.+...+.+..-- ..+. .. ..++. ...+..++..+.+.|
T Consensus 244 ~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~f 323 (1490)
T PRK09751 244 HRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQAL 323 (1490)
T ss_pred CCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHHH
Confidence 456899999999999999887653100 0000 00 00111 223334678888888
Q ss_pred HHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCC
Q 002378 738 QKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 738 ~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
++ +.-.+|+|. -.+.-|||+++ ...||.+|.|+
T Consensus 324 K~---------------G~LrvLVAT--ssLELGIDIg~--VDlVIq~gsP~ 356 (1490)
T PRK09751 324 KS---------------GELRCVVAT--SSLELGIDMGA--VDLVIQVATPL 356 (1490)
T ss_pred Hh---------------CCceEEEeC--cHHHccCCccc--CCEEEEeCCCC
Confidence 77 344566666 89999999987 67799999876
No 74
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.45 E-value=0.015 Score=66.97 Aligned_cols=42 Identities=24% Similarity=0.414 Sum_probs=37.6
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
|.|+|+--+. .|.+|...+.++|||+|||.++|.+++.++.+
T Consensus 97 ptpvQk~sip----~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~ 138 (482)
T KOG0335|consen 97 PTPVQKYSIP----IISGGRDLMACAQTGSGKTAAFLIPIISYLLD 138 (482)
T ss_pred CCcceeeccc----eeecCCceEEEccCCCcchHHHHHHHHHHHHh
Confidence 7888876644 88899999999999999999999999999876
No 75
>PRK05580 primosome assembly protein PriA; Validated
Probab=94.96 E-value=0.033 Score=68.88 Aligned_cols=49 Identities=18% Similarity=0.124 Sum_probs=39.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhH
Q 002378 13 PAFPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 13 ~~FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
..-|+++++.|.+.++.+...+ .+.+.++-+|||+|||++++.++...+
T Consensus 139 ~~~~~~Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l 187 (679)
T PRK05580 139 AFEPPTLNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVL 187 (679)
T ss_pred ccCCCCCCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHH
Confidence 3357889999999988887655 568899999999999999987655444
No 76
>PRK14701 reverse gyrase; Provisional
Probab=94.93 E-value=0.025 Score=75.36 Aligned_cols=43 Identities=28% Similarity=0.302 Sum_probs=36.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHh
Q 002378 15 FPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
+.|+|+++|...+. .+.+|++.++-+|||||||++++.+++..
T Consensus 76 ~G~~pt~iQ~~~i~----~il~G~d~li~APTGsGKTl~~~~~al~~ 118 (1638)
T PRK14701 76 TGFEFWSIQKTWAK----RILRGKSFSIVAPTGMGKSTFGAFIALFL 118 (1638)
T ss_pred hCCCCCHHHHHHHH----HHHcCCCEEEEEcCCCCHHHHHHHHHHHH
Confidence 67799999999977 45568999999999999999777666644
No 77
>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=94.90 E-value=0.029 Score=58.59 Aligned_cols=41 Identities=32% Similarity=0.468 Sum_probs=33.1
Q ss_pred CHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 20 YSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
.+.|..+|+.+. +.+..++.||.|||||+.-+..++..+.+
T Consensus 6 ~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~ 46 (205)
T PF02562_consen 6 NEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKE 46 (205)
T ss_dssp SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 457999988655 78899999999999999999999998875
No 78
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=94.82 E-value=0.3 Score=63.52 Aligned_cols=97 Identities=12% Similarity=0.171 Sum_probs=64.6
Q ss_pred hHHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEE-EcCC-CCchHHHHHHHHHHHHhcc
Q 002378 667 SAMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVF-REPR-GNTHVESVLKEYQKTIDTL 744 (929)
Q Consensus 667 ~~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if-~E~~-~~~~~~~~l~~y~~~i~~~ 744 (929)
.+++..+...+..++...+|.+|||+|+...++.+.+.+...++- ...|+ .-+. ...+...+++.
T Consensus 268 ~d~l~~ll~~V~~l~~~~~GdILVFLpg~~EIe~lae~L~~~~~~-----~~~VlpLhg~Ls~~eQ~~Vf~~-------- 334 (1294)
T PRK11131 268 RDQLQAIFDAVDELGREGPGDILIFMSGEREIRDTADALNKLNLR-----HTEILPLYARLSNSEQNRVFQS-------- 334 (1294)
T ss_pred HHHHHHHHHHHHHHhcCCCCCEEEEcCCHHHHHHHHHHHHhcCCC-----cceEeecccCCCHHHHHHHhcc--------
Confidence 456666777777776666788999999999999999999865420 00111 1111 11233333321
Q ss_pred CCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCC
Q 002378 745 SSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 745 ~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.+..-|++|. .-..-|||++| .+.||=.|+.=
T Consensus 335 ---------~g~rkIIVAT--NIAEtSITIpg--I~yVID~Gl~k 366 (1294)
T PRK11131 335 ---------HSGRRIVLAT--NVAETSLTVPG--IKYVIDPGTAR 366 (1294)
T ss_pred ---------cCCeeEEEec--cHHhhccccCc--ceEEEECCCcc
Confidence 1235688888 88999999998 78899888754
No 79
>PRK09694 helicase Cas3; Provisional
Probab=94.81 E-value=0.029 Score=70.51 Aligned_cols=40 Identities=33% Similarity=0.486 Sum_probs=31.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHH
Q 002378 16 PYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 16 Pf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l 59 (929)
-|.|||.|...+.. ...++..|+|+|||+|||.+.|..+.
T Consensus 284 ~~~p~p~Q~~~~~~----~~~pgl~ileApTGsGKTEAAL~~A~ 323 (878)
T PRK09694 284 GYQPRQLQTLVDAL----PLQPGLTIIEAPTGSGKTEAALAYAW 323 (878)
T ss_pred CCCChHHHHHHHhh----ccCCCeEEEEeCCCCCHHHHHHHHHH
Confidence 45799999977432 23578899999999999999776655
No 80
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=94.76 E-value=0.71 Score=56.87 Aligned_cols=80 Identities=20% Similarity=0.289 Sum_probs=52.5
Q ss_pred CCCeEEEccCHH--------HHHHHHHHHHhcChhHHhhcCccEEEcCC-CCchHHHHHHHHHHHHhccCCCCCCCCCCC
Q 002378 685 PEGIIVFFPSFE--------YVERVYGAWKSLGILDRIMKKKHVFREPR-GNTHVESVLKEYQKTIDTLSSRPKEDSTPL 755 (929)
Q Consensus 685 pgg~LVfFpSy~--------~l~~~~~~w~~~~~~~~l~~~K~if~E~~-~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~ 755 (929)
.+.++||+|... ..+.+++.|... +...+-.++-++ ...+.+.+++.|++ +
T Consensus 448 g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~-----~~~~~v~~lHG~m~~~eR~~i~~~F~~---------------g 507 (630)
T TIGR00643 448 GRQAYVVYPLIEESEKLDLKAAEALYERLKKA-----FPKYNVGLLHGRMKSDEKEAVMEEFRE---------------G 507 (630)
T ss_pred CCcEEEEEccccccccchHHHHHHHHHHHHhh-----CCCCcEEEEeCCCCHHHHHHHHHHHHc---------------C
Confidence 457899998753 233444444431 111222344443 34578999999987 5
Q ss_pred CCcEEEEEecCccccccccCCCcceEEEEEccC
Q 002378 756 NGAMLLAVVGGKISEGINFSDGMGRCIVMVGLP 788 (929)
Q Consensus 756 ~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlP 788 (929)
...||+|+ .-+..|||+++ ++.||+.+.|
T Consensus 508 ~~~ILVaT--~vie~GvDiP~--v~~VIi~~~~ 536 (630)
T TIGR00643 508 EVDILVAT--TVIEVGVDVPN--ATVMVIEDAE 536 (630)
T ss_pred CCCEEEEC--ceeecCcccCC--CcEEEEeCCC
Confidence 67899999 89999999998 5667776544
No 81
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.74 E-value=0.021 Score=65.26 Aligned_cols=46 Identities=22% Similarity=0.379 Sum_probs=39.5
Q ss_pred CCHHHHHHHHHHHHHHH-----cCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 19 PYSIQTDFMKALYCSLE-----NGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~-----~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
-+|+|....-.++..+. .+.++.+-+|||+||||||-++.++-|-.
T Consensus 160 ~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~ 210 (620)
T KOG0350|consen 160 LFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSS 210 (620)
T ss_pred ccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHcc
Confidence 46799999999999988 35677889999999999999999987653
No 82
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=94.71 E-value=0.58 Score=58.14 Aligned_cols=80 Identities=14% Similarity=0.213 Sum_probs=54.4
Q ss_pred CCCeEEEccC--------HHHHHHHHHHHHhcChhHHhhcCccEEEcCC-CCchHHHHHHHHHHHHhccCCCCCCCCCCC
Q 002378 685 PEGIIVFFPS--------FEYVERVYGAWKSLGILDRIMKKKHVFREPR-GNTHVESVLKEYQKTIDTLSSRPKEDSTPL 755 (929)
Q Consensus 685 pgg~LVfFpS--------y~~l~~~~~~w~~~~~~~~l~~~K~if~E~~-~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~ 755 (929)
.+.++||+|. +...+.+++.|... +...+-.++-++ +..+.+.++++|++ +
T Consensus 471 g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~-----~~~~~v~~lHG~m~~~eR~~i~~~F~~---------------g 530 (681)
T PRK10917 471 GRQAYVVCPLIEESEKLDLQSAEETYEELQEA-----FPELRVGLLHGRMKPAEKDAVMAAFKA---------------G 530 (681)
T ss_pred CCcEEEEEcccccccchhHHHHHHHHHHHHHH-----CCCCcEEEEeCCCCHHHHHHHHHHHHc---------------C
Confidence 4579999994 44455566666543 111123344443 34578999999987 4
Q ss_pred CCcEEEEEecCccccccccCCCcceEEEEEccC
Q 002378 756 NGAMLLAVVGGKISEGINFSDGMGRCIVMVGLP 788 (929)
Q Consensus 756 ~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlP 788 (929)
.-.||+|+ .-+.+|||+|+ +++||+.+.|
T Consensus 531 ~~~ILVaT--~vie~GiDip~--v~~VIi~~~~ 559 (681)
T PRK10917 531 EIDILVAT--TVIEVGVDVPN--ATVMVIENAE 559 (681)
T ss_pred CCCEEEEC--cceeeCcccCC--CcEEEEeCCC
Confidence 56899998 89999999998 4668877654
No 83
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=94.51 E-value=0.26 Score=60.79 Aligned_cols=78 Identities=14% Similarity=0.213 Sum_probs=57.0
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEE-cCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFR-EPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~-E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
...+|||+++....+.+.+.+...++ +-.++ .+.+..++..+++.|+. +.-.||+|+
T Consensus 446 g~~viIf~~t~~~ae~L~~~L~~~gi-------~~~~~h~~~~~~~R~~~l~~f~~---------------g~i~vlV~t 503 (652)
T PRK05298 446 GERVLVTTLTKRMAEDLTDYLKELGI-------KVRYLHSDIDTLERVEIIRDLRL---------------GEFDVLVGI 503 (652)
T ss_pred CCEEEEEeCCHHHHHHHHHHHhhcce-------eEEEEECCCCHHHHHHHHHHHHc---------------CCceEEEEe
Confidence 34589999999999999999887653 22333 33444577888988865 344566666
Q ss_pred ecCccccccccCCCcceEEEEEccC
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLP 788 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlP 788 (929)
|.+++|+|+++- +.||+...+
T Consensus 504 --~~L~rGfdlp~v--~lVii~d~e 524 (652)
T PRK05298 504 --NLLREGLDIPEV--SLVAILDAD 524 (652)
T ss_pred --CHHhCCccccCC--cEEEEeCCc
Confidence 999999999984 567877755
No 84
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=94.49 E-value=0.015 Score=66.41 Aligned_cols=42 Identities=26% Similarity=0.370 Sum_probs=37.0
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
+.++|...+. -|..|++++.-+-|||||||++|++++.|+..
T Consensus 105 MT~VQ~~ti~----pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k 146 (543)
T KOG0342|consen 105 MTPVQQKTIP----PLLEGKDVLAAAKTGTGKTLAFLLPAIELLRK 146 (543)
T ss_pred hhHHHHhhcC----ccCCCccceeeeccCCCceeeehhHHHHHHHh
Confidence 7788876644 67789999999999999999999999999875
No 85
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.40 E-value=0.3 Score=55.87 Aligned_cols=90 Identities=21% Similarity=0.373 Sum_probs=60.5
Q ss_pred HHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEE-EcCCC-CchHHHHHHHHHHHHhccCCCCCCCCCC
Q 002378 677 LCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVF-REPRG-NTHVESVLKEYQKTIDTLSSRPKEDSTP 754 (929)
Q Consensus 677 i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if-~E~~~-~~~~~~~l~~y~~~i~~~~~~~~~~~~~ 754 (929)
+.-+++..-..++||||+-...+.++..+.. +.....|| +.++- ...+..+++.|++
T Consensus 247 v~~L~~~~~kK~iVFF~TCasVeYf~~~~~~------~l~~~~i~~iHGK~~q~~R~k~~~~F~~--------------- 305 (567)
T KOG0345|consen 247 VHLLNNNKDKKCIVFFPTCASVEYFGKLFSR------LLKKREIFSIHGKMSQKARAKVLEAFRK--------------- 305 (567)
T ss_pred HHHHhccccccEEEEecCcchHHHHHHHHHH------HhCCCcEEEecchhcchhHHHHHHHHHh---------------
Confidence 3334446678999999998877666655443 33334455 34432 2358899999998
Q ss_pred CCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCH
Q 002378 755 LNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNI 795 (929)
Q Consensus 755 ~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~ 795 (929)
...++||+. .-.+.|||+||- ..|| -|.+|.||
T Consensus 306 ~~~~vl~~T--DVaARGlDip~i--D~Vv----Q~DpP~~~ 338 (567)
T KOG0345|consen 306 LSNGVLFCT--DVAARGLDIPGI--DLVV----QFDPPKDP 338 (567)
T ss_pred ccCceEEee--hhhhccCCCCCc--eEEE----ecCCCCCh
Confidence 357899999 999999999993 3343 34455453
No 86
>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=94.35 E-value=0.035 Score=67.85 Aligned_cols=85 Identities=16% Similarity=0.081 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCC
Q 002378 668 AMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSR 747 (929)
Q Consensus 668 ~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~ 747 (929)
+-...+...|.+.. ..+..+|||+.|-..-+.+...+...++- ....-.+ ..+.+..+..+..
T Consensus 389 ~k~~ai~~~i~~~~-~~grpvLV~t~si~~se~ls~~L~~~gi~-------~~~Lna~-q~~rEa~ii~~ag-------- 451 (745)
T TIGR00963 389 EKWKAVVDEIKERH-AKGQPVLVGTTSVEKSELLSNLLKERGIP-------HNVLNAK-NHEREAEIIAQAG-------- 451 (745)
T ss_pred HHHHHHHHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHcCCC-------eEEeeCC-hHHHHHHHHHhcC--------
Confidence 33456666565553 34668999999999999999999887642 1222222 2345566655543
Q ss_pred CCCCCCCCCCcEEEEEecCccccccccCCCc
Q 002378 748 PKEDSTPLNGAMLLAVVGGKISEGINFSDGM 778 (929)
Q Consensus 748 ~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~ 778 (929)
..|+|++|. .-.+.|+|++.+.
T Consensus 452 -------~~g~VtIAT--nmAgRGtDI~l~~ 473 (745)
T TIGR00963 452 -------RKGAVTIAT--NMAGRGTDIKLEE 473 (745)
T ss_pred -------CCceEEEEe--ccccCCcCCCccc
Confidence 579999999 7889999999943
No 87
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=94.35 E-value=0.28 Score=62.45 Aligned_cols=82 Identities=22% Similarity=0.280 Sum_probs=60.6
Q ss_pred CCCeEEEccCHHHHHHHHHHHH-hcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 685 PEGIIVFFPSFEYVERVYGAWK-SLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~-~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
+..+|||+.+-..+..+.+.++ ..|+ ..-+|-.+....+++.+++.|+.. .+...||+|.
T Consensus 493 ~~KvLVF~~~~~t~~~L~~~L~~~~Gi------~~~~ihG~~s~~eR~~~~~~F~~~-------------~~~~~VLIsT 553 (956)
T PRK04914 493 SEKVLVICAKAATALQLEQALREREGI------RAAVFHEGMSIIERDRAAAYFADE-------------EDGAQVLLCS 553 (956)
T ss_pred CCeEEEEeCcHHHHHHHHHHHhhccCe------eEEEEECCCCHHHHHHHHHHHhcC-------------CCCccEEEec
Confidence 6689999999999999999884 3332 122466665556889999999860 1124566666
Q ss_pred ecCccccccccCCCcceEEEEEccCC
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
...+||+||.. +..||..-+|.
T Consensus 554 --dvgseGlNlq~--a~~VInfDlP~ 575 (956)
T PRK04914 554 --EIGSEGRNFQF--ASHLVLFDLPF 575 (956)
T ss_pred --hhhccCCCccc--ccEEEEecCCC
Confidence 78899999976 56799999987
No 88
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=94.23 E-value=0.36 Score=62.73 Aligned_cols=86 Identities=8% Similarity=0.081 Sum_probs=55.5
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcC--hhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLG--ILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLL 761 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~--~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~ 761 (929)
.++.+|||+.|-...+.+.+.+.... .+..+....-+.+-+. ....+.++++|++ .....|++
T Consensus 697 ~~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~~~~~~v~~itg~-~~~~~~li~~Fk~--------------~~~p~IlV 761 (1123)
T PRK11448 697 GEGKTLIFAATDAHADMVVRLLKEAFKKKYGQVEDDAVIKITGS-IDKPDQLIRRFKN--------------ERLPNIVV 761 (1123)
T ss_pred CCCcEEEEEcCHHHHHHHHHHHHHHHHhhcCCcCccceEEEeCC-ccchHHHHHHHhC--------------CCCCeEEE
Confidence 35789999999998888877765420 0001111011123332 2456789999976 11236888
Q ss_pred EEecCccccccccCCCcceEEEEEccC
Q 002378 762 AVVGGKISEGINFSDGMGRCIVMVGLP 788 (929)
Q Consensus 762 aV~rGk~sEGIDf~d~~~r~ViivGlP 788 (929)
+| +-+++|||.|. +.+||+..-|
T Consensus 762 sv--dmL~TG~DvP~--v~~vVf~rpv 784 (1123)
T PRK11448 762 TV--DLLTTGIDVPS--ICNLVFLRRV 784 (1123)
T ss_pred Ee--cccccCCCccc--ccEEEEecCC
Confidence 88 99999999996 6778887643
No 89
>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=94.22 E-value=0.036 Score=68.08 Aligned_cols=80 Identities=14% Similarity=0.103 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCC
Q 002378 670 IEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPK 749 (929)
Q Consensus 670 ~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~ 749 (929)
...+...|.+.. ..+.-+|||+.|-...+.+...+...|+ +....-.+. ...+..+-. ..
T Consensus 410 ~~ai~~~i~~~~-~~~~pvLIft~s~~~se~ls~~L~~~gi-------~~~~L~a~~-~~~E~~ii~-----~a------ 469 (762)
T TIGR03714 410 LMATLEDVKEYH-ETGQPVLLITGSVEMSEIYSELLLREGI-------PHNLLNAQN-AAKEAQIIA-----EA------ 469 (762)
T ss_pred HHHHHHHHHHHh-hCCCCEEEEECcHHHHHHHHHHHHHCCC-------CEEEecCCC-hHHHHHHHH-----Hc------
Confidence 344555444432 2456799999999999999988877653 123333321 122221111 11
Q ss_pred CCCCCCCCcEEEEEecCccccccccC
Q 002378 750 EDSTPLNGAMLLAVVGGKISEGINFS 775 (929)
Q Consensus 750 ~~~~~~~gaiL~aV~rGk~sEGIDf~ 775 (929)
...|+|++|. .-.+.|+|++
T Consensus 470 ----g~~g~VlIAT--dmAgRGtDI~ 489 (762)
T TIGR03714 470 ----GQKGAVTVAT--SMAGRGTDIK 489 (762)
T ss_pred ----CCCCeEEEEc--cccccccCCC
Confidence 1468999998 7789999998
No 90
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=94.20 E-value=0.044 Score=66.50 Aligned_cols=92 Identities=12% Similarity=0.116 Sum_probs=57.4
Q ss_pred HHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCC
Q 002378 671 EELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKE 750 (929)
Q Consensus 671 ~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~ 750 (929)
..|...|.++. ..+..+|||+.|-...+.+...+...|+ +-..+-++ ....+..+..+..
T Consensus 460 ~aL~~~i~~~~-~~~~pvLIft~t~~~se~L~~~L~~~gi-------~~~~Lhg~-~~~rE~~ii~~ag----------- 519 (656)
T PRK12898 460 AAVAARVRELH-AQGRPVLVGTRSVAASERLSALLREAGL-------PHQVLNAK-QDAEEAAIVARAG----------- 519 (656)
T ss_pred HHHHHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCC-------CEEEeeCC-cHHHHHHHHHHcC-----------
Confidence 44555554432 2345699999999999999999987653 22333333 2233433333321
Q ss_pred CCCCCCCcEEEEEecCccccccccCCC-cce-----EEEEEccC
Q 002378 751 DSTPLNGAMLLAVVGGKISEGINFSDG-MGR-----CIVMVGLP 788 (929)
Q Consensus 751 ~~~~~~gaiL~aV~rGk~sEGIDf~d~-~~r-----~ViivGlP 788 (929)
..|.|++|. .-.+.|+|++.. ..+ .||..-+|
T Consensus 520 ----~~g~VlVAT--dmAgRGtDI~l~~~V~~~GGLhVI~~d~P 557 (656)
T PRK12898 520 ----QRGRITVAT--NMAGRGTDIKLEPGVAARGGLHVILTERH 557 (656)
T ss_pred ----CCCcEEEEc--cchhcccCcCCccchhhcCCCEEEEcCCC
Confidence 468899988 888999999832 222 55555544
No 91
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.16 E-value=0.038 Score=61.49 Aligned_cols=43 Identities=28% Similarity=0.312 Sum_probs=39.2
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 18 KPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
.|.+||.+.|- ....|+++|.-+-||+|||++|++|.|.-|-+
T Consensus 83 ~PT~IQ~~aiP----~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~ 125 (476)
T KOG0330|consen 83 KPTKIQSEAIP----VALGGRDVIGLAETGSGKTGAFALPILQRLLQ 125 (476)
T ss_pred CCchhhhhhcc----hhhCCCcEEEEeccCCCchhhhHHHHHHHHHc
Confidence 39999999988 66789999999999999999999999998876
No 92
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=94.08 E-value=0.56 Score=55.21 Aligned_cols=77 Identities=16% Similarity=0.311 Sum_probs=55.7
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
-..++++|-.+-...+.+...+...++ ...|-.+. ...+.+.++++|+. +.--+|++|
T Consensus 282 ~~~~~lif~~~~~~a~~i~~~~~~~~~------~~~it~~t-~~~eR~~il~~fr~---------------g~~~~lv~~ 339 (442)
T COG1061 282 RGDKTLIFASDVEHAYEIAKLFLAPGI------VEAITGET-PKEEREAILERFRT---------------GGIKVLVTV 339 (442)
T ss_pred CCCcEEEEeccHHHHHHHHHHhcCCCc------eEEEECCC-CHHHHHHHHHHHHc---------------CCCCEEEEe
Confidence 356899999999998888887766543 11222222 24689999999988 335677777
Q ss_pred ecCccccccccCCCcceEEEEEc
Q 002378 764 VGGKISEGINFSDGMGRCIVMVG 786 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivG 786 (929)
.-+.||||+|+ +.++|+++
T Consensus 340 --~vl~EGvDiP~--~~~~i~~~ 358 (442)
T COG1061 340 --KVLDEGVDIPD--ADVLIILR 358 (442)
T ss_pred --eeccceecCCC--CcEEEEeC
Confidence 78999999999 55677766
No 93
>PRK14701 reverse gyrase; Provisional
Probab=94.05 E-value=0.45 Score=63.96 Aligned_cols=86 Identities=19% Similarity=0.261 Sum_probs=63.8
Q ss_pred HHHHhhccCCCeEEEccCHHH---HHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCC
Q 002378 677 LCNLVSVVPEGIIVFFPSFEY---VERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDST 753 (929)
Q Consensus 677 i~~~~~~vpgg~LVfFpSy~~---l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~ 753 (929)
|..+++..+.|.|||++|-.- .+.+.+.+...|+ +-..+. +.+...+++|++
T Consensus 322 L~~ll~~~g~~gIVF~~t~~~~e~ae~la~~L~~~Gi-------~a~~~h----~~R~~~l~~F~~-------------- 376 (1638)
T PRK14701 322 VRELLKKLGKGGLIFVPIDEGAEKAEEIEKYLLEDGF-------KIELVS----AKNKKGFDLFEE-------------- 376 (1638)
T ss_pred HHHHHHhCCCCeEEEEeccccchHHHHHHHHHHHCCC-------eEEEec----chHHHHHHHHHc--------------
Confidence 334444446789999998764 4777888877653 112222 236789999988
Q ss_pred CCCCcEEEEEe--cCccccccccCCCcceEEEEEccCC
Q 002378 754 PLNGAMLLAVV--GGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 754 ~~~gaiL~aV~--rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
+..-||+|+. +|-++.|||+|+ ..|.||-+|+|=
T Consensus 377 -G~~~VLVaT~s~~gvaaRGIDiP~-~Vryvi~~~~Pk 412 (1638)
T PRK14701 377 -GEIDYLIGVATYYGTLVRGLDLPE-RIRFAVFYGVPK 412 (1638)
T ss_pred -CCCCEEEEecCCCCeeEecCccCC-ccCEEEEeCCCC
Confidence 5778999993 578999999999 779999999997
No 94
>PRK10689 transcription-repair coupling factor; Provisional
Probab=93.83 E-value=1.1 Score=58.58 Aligned_cols=78 Identities=12% Similarity=0.224 Sum_probs=57.0
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcC-CCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREP-RGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~-~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
.|.++||+++-..++.+++.++... ...+-....+ .+..+++.++.+|++ ++--||+|+
T Consensus 809 ~gqv~vf~n~i~~ie~la~~L~~~~-----p~~~v~~lHG~m~q~eRe~im~~Fr~---------------Gk~~VLVaT 868 (1147)
T PRK10689 809 GGQVYYLYNDVENIQKAAERLAELV-----PEARIAIGHGQMRERELERVMNDFHH---------------QRFNVLVCT 868 (1147)
T ss_pred CCeEEEEECCHHHHHHHHHHHHHhC-----CCCcEEEEeCCCCHHHHHHHHHHHHh---------------cCCCEEEEC
Confidence 4679999999999999988887541 1112223333 233568899999987 567899998
Q ss_pred ecCccccccccCCCcceEEEEEc
Q 002378 764 VGGKISEGINFSDGMGRCIVMVG 786 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivG 786 (929)
.-++.|||+++ +++|||..
T Consensus 869 --dIierGIDIP~--v~~VIi~~ 887 (1147)
T PRK10689 869 --TIIETGIDIPT--ANTIIIER 887 (1147)
T ss_pred --chhhccccccc--CCEEEEec
Confidence 89999999998 56677653
No 95
>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=93.78 E-value=0.074 Score=58.01 Aligned_cols=37 Identities=24% Similarity=0.253 Sum_probs=33.1
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 17 YKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
|-+.|..+.+.+.+..++..|.+.+|++|+|||||..
T Consensus 1 ~~~t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~l 37 (262)
T TIGR02640 1 FIETDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTL 37 (262)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHH
Confidence 3467888999999999999999999999999999963
No 96
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=93.76 E-value=0.48 Score=58.30 Aligned_cols=76 Identities=14% Similarity=0.238 Sum_probs=54.7
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEE-cCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFR-EPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~-E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
...+|||+++-...+.+.+.+...++ +-.++ ...+..++.++++.|+. +.-.||+|+
T Consensus 442 g~~vLIf~~tk~~ae~L~~~L~~~gi-------~~~~lh~~~~~~eR~~~l~~fr~---------------G~i~VLV~t 499 (655)
T TIGR00631 442 NERVLVTTLTKKMAEDLTDYLKELGI-------KVRYLHSEIDTLERVEIIRDLRL---------------GEFDVLVGI 499 (655)
T ss_pred CCEEEEEECCHHHHHHHHHHHhhhcc-------ceeeeeCCCCHHHHHHHHHHHhc---------------CCceEEEEc
Confidence 45699999999999999999987653 12233 22334577888988865 344566666
Q ss_pred ecCccccccccCCCcceEEEEEc
Q 002378 764 VGGKISEGINFSDGMGRCIVMVG 786 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivG 786 (929)
|.+++|+|+++ ...||+..
T Consensus 500 --~~L~rGfDiP~--v~lVvi~D 518 (655)
T TIGR00631 500 --NLLREGLDLPE--VSLVAILD 518 (655)
T ss_pred --ChhcCCeeeCC--CcEEEEeC
Confidence 99999999998 44566654
No 97
>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=93.32 E-value=0.077 Score=60.58 Aligned_cols=83 Identities=14% Similarity=0.220 Sum_probs=52.0
Q ss_pred hHHHHHHHHHHHHHhhccC-CCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEE-EcCCCCchHHHHHHHHHHHHhcc
Q 002378 667 SAMIEELGLLLCNLVSVVP-EGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVF-REPRGNTHVESVLKEYQKTIDTL 744 (929)
Q Consensus 667 ~~~~~~l~~~i~~~~~~vp-gg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if-~E~~~~~~~~~~l~~y~~~i~~~ 744 (929)
.+.+..+...+.+..+..+ +.+||||++....+.++..++..+. ...+. .-+.... .+ +-+.
T Consensus 253 ~~~l~~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l~~~L~~~~~------~~~~~~l~g~~~~-~~----R~~~----- 316 (357)
T TIGR03158 253 EEELSELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQQGL------GDDIGRITGFAPK-KD----RERA----- 316 (357)
T ss_pred HHHHHHHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHhhhCC------CceEEeeecCCCH-HH----HHHh-----
Confidence 3445666666666555444 5699999999999999998876421 01121 2221111 11 1111
Q ss_pred CCCCCCCCCCCCCcEEEEEecCccccccccCCC
Q 002378 745 SSRPKEDSTPLNGAMLLAVVGGKISEGINFSDG 777 (929)
Q Consensus 745 ~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~ 777 (929)
.+..||+|. .-++.||||+++
T Consensus 317 ----------~~~~iLVaT--dv~~rGiDi~~~ 337 (357)
T TIGR03158 317 ----------MQFDILLGT--STVDVGVDFKRD 337 (357)
T ss_pred ----------ccCCEEEEe--cHHhcccCCCCc
Confidence 246799888 899999999885
No 98
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=93.18 E-value=0.14 Score=66.48 Aligned_cols=47 Identities=26% Similarity=0.253 Sum_probs=38.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHcC-CceeeeCCCCCcchHHHHHHHHHhH
Q 002378 16 PYKPYSIQTDFMKALYCSLENG-GVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 16 Pf~py~~Q~~~M~~v~~~~~~~-~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
-+.+.+.|...++.+.+++.+| ..+|+..|||||||+..+..+..++
T Consensus 411 ~~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~ 458 (1123)
T PRK11448 411 GLGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLL 458 (1123)
T ss_pred CCCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHH
Confidence 3568999999999999999876 5789999999999988655444443
No 99
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=93.18 E-value=0.086 Score=65.42 Aligned_cols=81 Identities=14% Similarity=0.089 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCC
Q 002378 669 MIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRP 748 (929)
Q Consensus 669 ~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~ 748 (929)
-...|...|.+.. ..+.-+|||+.|-...+.+...+...++ ......++. ...+..+..+ .
T Consensus 413 K~~al~~~i~~~~-~~~~pvLIf~~t~~~se~l~~~L~~~gi-------~~~~L~~~~-~~~e~~~i~~-----a----- 473 (790)
T PRK09200 413 KYKAVIEEVKERH-ETGRPVLIGTGSIEQSETFSKLLDEAGI-------PHNLLNAKN-AAKEAQIIAE-----A----- 473 (790)
T ss_pred HHHHHHHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCC-------CEEEecCCc-cHHHHHHHHH-----c-----
Confidence 3455555554432 2356799999999999999998887653 122333321 1222211111 1
Q ss_pred CCCCCCCCCcEEEEEecCccccccccC
Q 002378 749 KEDSTPLNGAMLLAVVGGKISEGINFS 775 (929)
Q Consensus 749 ~~~~~~~~gaiL~aV~rGk~sEGIDf~ 775 (929)
...|.|++|. .-.+.|+|++
T Consensus 474 -----g~~g~VlIAT--dmAgRG~DI~ 493 (790)
T PRK09200 474 -----GQKGAVTVAT--NMAGRGTDIK 493 (790)
T ss_pred -----CCCCeEEEEc--cchhcCcCCC
Confidence 1368999988 8899999995
No 100
>PHA02653 RNA helicase NPH-II; Provisional
Probab=93.11 E-value=0.098 Score=64.23 Aligned_cols=33 Identities=27% Similarity=0.320 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 21 SIQTDFMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
+.|.+.=++++..+.+|++.|+.||||||||.+
T Consensus 163 ~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtq 195 (675)
T PHA02653 163 SLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQ 195 (675)
T ss_pred chhHHHHHHHHHHHHhCCCEEEECCCCCCchhH
Confidence 345555556677889999999999999999987
No 101
>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=93.06 E-value=0.92 Score=51.83 Aligned_cols=31 Identities=32% Similarity=0.498 Sum_probs=25.4
Q ss_pred HHHHHHHcCCc--eeeeCCCCCcchHHHHHHHH
Q 002378 29 ALYCSLENGGV--SMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 29 ~v~~~~~~~~~--~~~esptgtgktl~~l~~~l 59 (929)
.+++++.++.+ .++.+|||+|||++++.++|
T Consensus 4 ~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l 36 (357)
T TIGR03158 4 ATFEALQSKDADIIFNTAPTGAGKTLAWLTPLL 36 (357)
T ss_pred HHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHH
Confidence 35667777764 78899999999999988877
No 102
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=93.03 E-value=0.097 Score=65.85 Aligned_cols=36 Identities=28% Similarity=0.429 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHH
Q 002378 25 DFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 25 ~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~ 60 (929)
..+..|+++|.+++++|+.+|||||||.++..+.|.
T Consensus 8 ~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~ 43 (812)
T PRK11664 8 AVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQ 43 (812)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHH
Confidence 467888899999999999999999999999988774
No 103
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=92.85 E-value=0.079 Score=65.69 Aligned_cols=84 Identities=17% Similarity=0.093 Sum_probs=57.1
Q ss_pred HHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCC
Q 002378 668 AMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSR 747 (929)
Q Consensus 668 ~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~ 747 (929)
+-...+...|.+.. ..+.-+|||+.|-..-+.+...+...++-. ...-.+ ..+.+..+..|..
T Consensus 414 ~K~~aI~~~I~~~~-~~grpVLIft~Si~~se~Ls~~L~~~gi~~-------~vLnak-q~eREa~Iia~Ag-------- 476 (830)
T PRK12904 414 EKFDAVVEDIKERH-KKGQPVLVGTVSIEKSELLSKLLKKAGIPH-------NVLNAK-NHEREAEIIAQAG-------- 476 (830)
T ss_pred HHHHHHHHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCCce-------EeccCc-hHHHHHHHHHhcC--------
Confidence 33456666665443 245569999999999999999998775411 122222 2345666655544
Q ss_pred CCCCCCCCCCcEEEEEecCccccccccCCC
Q 002378 748 PKEDSTPLNGAMLLAVVGGKISEGINFSDG 777 (929)
Q Consensus 748 ~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~ 777 (929)
..|+|++|. .-.+.|+|++=.
T Consensus 477 -------~~g~VtIAT--NmAGRGtDI~Lg 497 (830)
T PRK12904 477 -------RPGAVTIAT--NMAGRGTDIKLG 497 (830)
T ss_pred -------CCceEEEec--ccccCCcCccCC
Confidence 579999999 899999999654
No 104
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=92.83 E-value=1.4 Score=51.43 Aligned_cols=87 Identities=17% Similarity=0.292 Sum_probs=58.9
Q ss_pred HHHHhhcc-CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcC-C-CCchHHHHHHHHHHHHhccCCCCCCCCC
Q 002378 677 LCNLVSVV-PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREP-R-GNTHVESVLKEYQKTIDTLSSRPKEDST 753 (929)
Q Consensus 677 i~~~~~~v-pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~-~-~~~~~~~~l~~y~~~i~~~~~~~~~~~~ 753 (929)
|..++... .-.++|||+|-....-+++.+.. |...-+|+.=. + ....+-.+..+|-+
T Consensus 304 L~sFI~shlk~K~iVF~SscKqvkf~~e~F~r------lrpg~~l~~L~G~~~Q~~R~ev~~~F~~-------------- 363 (758)
T KOG0343|consen 304 LWSFIKSHLKKKSIVFLSSCKQVKFLYEAFCR------LRPGIPLLALHGTMSQKKRIEVYKKFVR-------------- 363 (758)
T ss_pred HHHHHHhccccceEEEEehhhHHHHHHHHHHh------cCCCCceeeeccchhHHHHHHHHHHHHH--------------
Confidence 33344433 35799999999999888887653 44455666432 1 11234555666655
Q ss_pred CCCCcEEEEEecCccccccccCCCcceEEEEEccC
Q 002378 754 PLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLP 788 (929)
Q Consensus 754 ~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlP 788 (929)
.+.+||||. .-.+.|+||+ ....||=+--|
T Consensus 364 -~~~~vLF~T--Dv~aRGLDFp--aVdwViQ~DCP 393 (758)
T KOG0343|consen 364 -KRAVVLFCT--DVAARGLDFP--AVDWVIQVDCP 393 (758)
T ss_pred -hcceEEEee--hhhhccCCCc--ccceEEEecCc
Confidence 478999999 8999999999 56677765544
No 105
>PRK13766 Hef nuclease; Provisional
Probab=92.47 E-value=0.87 Score=57.60 Aligned_cols=93 Identities=16% Similarity=0.199 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHhhc-cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCC---------CCchHHHHHHHHHH
Q 002378 670 IEELGLLLCNLVSV-VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPR---------GNTHVESVLKEYQK 739 (929)
Q Consensus 670 ~~~l~~~i~~~~~~-vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~---------~~~~~~~~l~~y~~ 739 (929)
.+.|...|..+... .++.+|||..+-...+.+.+.+...++ +...+.+. ...+...+++.|+.
T Consensus 349 ~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~~~-------~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~ 421 (773)
T PRK13766 349 LEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGI-------KAVRFVGQASKDGDKGMSQKEQIEILDKFRA 421 (773)
T ss_pred HHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhCCC-------ceEEEEccccccccCCCCHHHHHHHHHHHHc
Confidence 35566667666553 456799999999999999998865542 11222221 11356678888876
Q ss_pred HHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccC
Q 002378 740 TIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLP 788 (929)
Q Consensus 740 ~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlP 788 (929)
+...+|++. .-.+||+|+++ ++.||+...|
T Consensus 422 ---------------g~~~vLvaT--~~~~eGldi~~--~~~VI~yd~~ 451 (773)
T PRK13766 422 ---------------GEFNVLVST--SVAEEGLDIPS--VDLVIFYEPV 451 (773)
T ss_pred ---------------CCCCEEEEC--ChhhcCCCccc--CCEEEEeCCC
Confidence 356889988 68899999974 8888887754
No 106
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=92.43 E-value=0.16 Score=59.76 Aligned_cols=43 Identities=26% Similarity=0.336 Sum_probs=37.9
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHH
Q 002378 13 PAFPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSII 55 (929)
Q Consensus 13 ~~FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l 55 (929)
+.|-+.++|-|.+.++++......+..+++-.|||+|||+.-+
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~ 73 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAA 73 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHH
Confidence 5577789999999999999988889999999999999996543
No 107
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=92.28 E-value=0.12 Score=65.31 Aligned_cols=39 Identities=26% Similarity=0.472 Sum_probs=34.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHH
Q 002378 14 AFPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIIC 56 (929)
Q Consensus 14 ~FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~ 56 (929)
.|||++++.|++.. .+|+.|..+++++|||.|||..---
T Consensus 115 ~~~F~LD~fQ~~a~----~~Ler~esVlV~ApTssGKTvVaey 153 (1041)
T COG4581 115 EYPFELDPFQQEAI----AILERGESVLVCAPTSSGKTVVAEY 153 (1041)
T ss_pred hCCCCcCHHHHHHH----HHHhCCCcEEEEccCCCCcchHHHH
Confidence 38999999999874 4999999999999999999965443
No 108
>PRK10536 hypothetical protein; Provisional
Probab=92.28 E-value=0.15 Score=54.90 Aligned_cols=40 Identities=20% Similarity=0.333 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 21 SIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
..|..+|. +|.+...+++.+|+|||||+..++.++..+.+
T Consensus 62 ~~Q~~~l~----al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~ 101 (262)
T PRK10536 62 EAQAHYLK----AIESKQLIFATGEAGCGKTWISAAKAAEALIH 101 (262)
T ss_pred HHHHHHHH----HHhcCCeEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 36777766 55668899999999999999888888876643
No 109
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=92.22 E-value=1.2 Score=51.51 Aligned_cols=87 Identities=22% Similarity=0.289 Sum_probs=61.6
Q ss_pred CCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEE-cC-CCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 686 EGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFR-EP-RGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 686 gg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~-E~-~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
..++||||+-....-+++.+.... -+|+. -+ +....+..+..+|.+ .+.+||+|.
T Consensus 331 ~KiiVF~sT~~~vk~~~~lL~~~d--------lpv~eiHgk~~Q~kRT~~~~~F~k---------------aesgIL~cT 387 (543)
T KOG0342|consen 331 YKIIVFFSTCMSVKFHAELLNYID--------LPVLEIHGKQKQNKRTSTFFEFCK---------------AESGILVCT 387 (543)
T ss_pred ceEEEEechhhHHHHHHHHHhhcC--------CchhhhhcCCcccccchHHHHHhh---------------cccceEEec
Confidence 789999999988887777766331 22331 11 222356778889988 368999998
Q ss_pred ecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhcc
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLG 808 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~ 808 (929)
.-.+.|+|||+ ...||=+|+| +||. +|+-+.+
T Consensus 388 --DVaARGlD~P~--V~~VvQ~~~P----~d~~-----~YIHRvG 419 (543)
T KOG0342|consen 388 --DVAARGLDIPD--VDWVVQYDPP----SDPE-----QYIHRVG 419 (543)
T ss_pred --chhhccCCCCC--ceEEEEeCCC----CCHH-----HHHHHhc
Confidence 88999999998 5678877765 4654 6765543
No 110
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=92.17 E-value=0.13 Score=58.12 Aligned_cols=44 Identities=27% Similarity=0.314 Sum_probs=37.2
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQK 66 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~ 66 (929)
|.-||...+ --+.+|++++.-+-||+|||++||++.|.-|-..+
T Consensus 42 pTlIQs~aI----plaLEgKDvvarArTGSGKT~AYliPllqkll~~k 85 (569)
T KOG0346|consen 42 PTLIQSSAI----PLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEK 85 (569)
T ss_pred cchhhhccc----chhhcCcceeeeeccCCCchHHHHHHHHHHHHHhh
Confidence 677787654 46677999999999999999999999999987643
No 111
>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=92.05 E-value=0.16 Score=63.90 Aligned_cols=38 Identities=26% Similarity=0.329 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhH
Q 002378 25 DFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 25 ~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
.++..|+++|.++.++|+.+|||||||.++..+.|.-.
T Consensus 5 ~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~ 42 (819)
T TIGR01970 5 AVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAP 42 (819)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhh
Confidence 46778899999999999999999999999999887543
No 112
>PHA02558 uvsW UvsW helicase; Provisional
Probab=92.02 E-value=0.2 Score=59.88 Aligned_cols=35 Identities=26% Similarity=0.262 Sum_probs=28.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHH
Q 002378 16 PYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 16 Pf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~ 54 (929)
.+.|+|.|.+....++ .+..+|+.+|||+|||+..
T Consensus 112 ~~~~r~~Q~~av~~~l----~~~~~il~apTGsGKT~i~ 146 (501)
T PHA02558 112 KIEPHWYQYDAVYEGL----KNNRRLLNLPTSAGKSLIQ 146 (501)
T ss_pred cCCCCHHHHHHHHHHH----hcCceEEEeCCCCCHHHHH
Confidence 4689999998765443 4678999999999999864
No 113
>PF13245 AAA_19: Part of AAA domain
Probab=91.92 E-value=0.2 Score=43.83 Aligned_cols=34 Identities=21% Similarity=0.385 Sum_probs=25.9
Q ss_pred HHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 30 LYCSLENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 30 v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
|..++..+...++.+|.|||||-.++-.+..++.
T Consensus 3 v~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~ 36 (76)
T PF13245_consen 3 VRRALAGSPLFVVQGPPGTGKTTTLAARIAELLA 36 (76)
T ss_pred HHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4457775566777999999999877777776663
No 114
>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=91.70 E-value=0.15 Score=48.23 Aligned_cols=43 Identities=30% Similarity=0.298 Sum_probs=28.7
Q ss_pred cccCCCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChHH
Q 002378 354 SMVPTADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLAD 397 (929)
Q Consensus 354 ~~~~~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~d 397 (929)
......+|+++.|+.++....+.. .......+|||||||++..
T Consensus 75 ~~~~~~~i~i~t~~~~~~~~~~~~-~~~~~~~~iiiDE~h~~~~ 117 (144)
T cd00046 75 LLSGKTDIVVGTPGRLLDELERLK-LSLKKLDLLILDEAHRLLN 117 (144)
T ss_pred HhcCCCCEEEECcHHHHHHHHcCC-cchhcCCEEEEeCHHHHhh
Confidence 334577888888887765443211 1234567999999999876
No 115
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=91.63 E-value=7.2 Score=43.45 Aligned_cols=77 Identities=18% Similarity=0.382 Sum_probs=54.5
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
...-+|+|||+-..|+++.+.++.. +...+..++-.. ...+-+-++.|++ +.-.||++.
T Consensus 304 ~~~P~liF~p~I~~~eq~a~~lk~~-----~~~~~i~~Vhs~-d~~R~EkV~~fR~---------------G~~~lLiTT 362 (441)
T COG4098 304 TGRPVLIFFPEIETMEQVAAALKKK-----LPKETIASVHSE-DQHRKEKVEAFRD---------------GKITLLITT 362 (441)
T ss_pred cCCcEEEEecchHHHHHHHHHHHhh-----CCccceeeeecc-CccHHHHHHHHHc---------------CceEEEEEe
Confidence 3456999999999999999998653 333343455543 2455667888887 567899988
Q ss_pred ecCccccccccCCCcceEEEEEc
Q 002378 764 VGGKISEGINFSDGMGRCIVMVG 786 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivG 786 (929)
--+-.|+-||+ --|+|+|
T Consensus 363 --TILERGVTfp~---vdV~Vlg 380 (441)
T COG4098 363 --TILERGVTFPN---VDVFVLG 380 (441)
T ss_pred --ehhhccccccc---ceEEEec
Confidence 67777888776 3355555
No 116
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.50 E-value=0.1 Score=59.88 Aligned_cols=43 Identities=28% Similarity=0.320 Sum_probs=35.4
Q ss_pred CC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 17 YK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 17 f~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
|. |.|||...+- .-.-|++++..+-||||||-+|..|+|..|-
T Consensus 201 y~~PTpIQ~a~IP----vallgkDIca~A~TGsGKTAAF~lPiLERLl 244 (691)
T KOG0338|consen 201 YKKPTPIQVATIP----VALLGKDICACAATGSGKTAAFALPILERLL 244 (691)
T ss_pred CCCCCchhhhccc----HHhhcchhhheecccCCchhhhHHHHHHHHh
Confidence 54 8888887754 4455899999999999999999999998765
No 117
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=91.47 E-value=0.13 Score=64.09 Aligned_cols=81 Identities=15% Similarity=0.108 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCC-CCchHHHHHHHHHHHHhccCC
Q 002378 668 AMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPR-GNTHVESVLKEYQKTIDTLSS 746 (929)
Q Consensus 668 ~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~-~~~~~~~~l~~y~~~i~~~~~ 746 (929)
+-...+.+.|.++ .....-+|||..|-..-+.+...++..|+-.. ++ -.+ ...+.+-+++.+
T Consensus 428 ~k~~av~~~i~~~-~~~g~PVLVgt~Sie~sE~ls~~L~~~gi~h~------vL-nak~~q~Ea~iia~Ag--------- 490 (896)
T PRK13104 428 DKFQAIIEDVREC-GVRKQPVLVGTVSIEASEFLSQLLKKENIKHQ------VL-NAKFHEKEAQIIAEAG--------- 490 (896)
T ss_pred HHHHHHHHHHHHH-HhCCCCEEEEeCcHHHHHHHHHHHHHcCCCeE------ee-cCCCChHHHHHHHhCC---------
Confidence 3344555555554 33556799999999999999999888764221 22 222 122334344332
Q ss_pred CCCCCCCCCCCcEEEEEecCccccccccC
Q 002378 747 RPKEDSTPLNGAMLLAVVGGKISEGINFS 775 (929)
Q Consensus 747 ~~~~~~~~~~gaiL~aV~rGk~sEGIDf~ 775 (929)
..|+|++|. .-.+.|+|+.
T Consensus 491 --------~~G~VtIAT--NmAGRGtDI~ 509 (896)
T PRK13104 491 --------RPGAVTIAT--NMAGRGTDIV 509 (896)
T ss_pred --------CCCcEEEec--cCccCCccee
Confidence 358899998 8889999986
No 118
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=91.44 E-value=3.1 Score=50.01 Aligned_cols=43 Identities=28% Similarity=0.395 Sum_probs=38.0
Q ss_pred CC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 17 YK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 17 f~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
|+ |+|||...+- .+..|++.+..++||||||+||+++.|.-+.
T Consensus 49 f~~pt~IQ~~~IP----~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~ 92 (513)
T COG0513 49 FEEPTPIQLAAIP----LILAGRDVLGQAQTGTGKTAAFLLPLLQKIL 92 (513)
T ss_pred CCCCCHHHHHHHH----HHhCCCCEEEECCCCChHHHHHHHHHHHHHh
Confidence 54 9999998866 6777899999999999999999999998754
No 119
>PHA02244 ATPase-like protein
Probab=91.30 E-value=0.37 Score=54.60 Aligned_cols=49 Identities=10% Similarity=0.004 Sum_probs=35.1
Q ss_pred CCCCCCCC--CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhH
Q 002378 11 EFPAFPYK--PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 11 ~~~~FPf~--py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
..++|||- .+..+..++ .+.+.+..+.+++|.+|||||||. |+-+|++.
T Consensus 92 ~~~d~~~ig~sp~~~~~~~-ri~r~l~~~~PVLL~GppGtGKTt--LA~aLA~~ 142 (383)
T PHA02244 92 SGIDTTKIASNPTFHYETA-DIAKIVNANIPVFLKGGAGSGKNH--IAEQIAEA 142 (383)
T ss_pred hhCCCcccCCCHHHHHHHH-HHHHHHhcCCCEEEECCCCCCHHH--HHHHHHHH
Confidence 34667774 344445554 667899999999999999999995 34445543
No 120
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=91.18 E-value=1.2 Score=55.58 Aligned_cols=85 Identities=25% Similarity=0.398 Sum_probs=64.8
Q ss_pred HHHHhhccCCCeEEEccC---HHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCC
Q 002378 677 LCNLVSVVPEGIIVFFPS---FEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDST 753 (929)
Q Consensus 677 i~~~~~~vpgg~LVfFpS---y~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~ 753 (929)
+.++++....|.|||.|. -++.+.++++++..|+-.. .++.+ ....++.|.+
T Consensus 327 ~~elvk~lG~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a~-----~~~a~------~~~~le~F~~-------------- 381 (1187)
T COG1110 327 VVELVKKLGDGGLIFVPIDYGREKAEELAEYLRSHGINAE-----LIHAE------KEEALEDFEE-------------- 381 (1187)
T ss_pred HHHHHHHhCCCeEEEEEcHHhHHHHHHHHHHHHhcCceEE-----Eeecc------chhhhhhhcc--------------
Confidence 455666677899999999 8999999999998876322 12221 2567888876
Q ss_pred CCCCcEEEEE--ecCccccccccCCCcceEEEEEccC
Q 002378 754 PLNGAMLLAV--VGGKISEGINFSDGMGRCIVMVGLP 788 (929)
Q Consensus 754 ~~~gaiL~aV--~rGk~sEGIDf~d~~~r~ViivGlP 788 (929)
+.=.+|+|| .-|.+-.|||+|. ..|-+|.+|+|
T Consensus 382 -GeidvLVGvAsyYG~lVRGlDLP~-rirYaIF~GvP 416 (1187)
T COG1110 382 -GEVDVLVGVASYYGVLVRGLDLPH-RIRYAVFYGVP 416 (1187)
T ss_pred -CceeEEEEecccccceeecCCchh-heeEEEEecCC
Confidence 345566655 5799999999998 77999999999
No 121
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=90.61 E-value=0.22 Score=59.59 Aligned_cols=39 Identities=28% Similarity=0.278 Sum_probs=33.7
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHh
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
--|-|. .||+++.+|+++|.--|||.||||||-+|+|-.
T Consensus 18 FR~gQ~----evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~ 56 (590)
T COG0514 18 FRPGQQ----EIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL 56 (590)
T ss_pred cCCCHH----HHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc
Confidence 345666 567789999999999999999999999999876
No 122
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.37 E-value=0.13 Score=57.98 Aligned_cols=44 Identities=20% Similarity=0.280 Sum_probs=40.3
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQK 66 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~ 66 (929)
|.|||+..|. .|.+|...+--|-||+|||.|+++++++-|+.+.
T Consensus 44 ptpiqRKTip----liLe~~dvv~martgsgktaaf~ipm~e~Lk~~s 87 (529)
T KOG0337|consen 44 PTPIQRKTIP----LILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHS 87 (529)
T ss_pred CCchhccccc----ceeeccccceeeecCCcchhhHHHHHHHHHhhcc
Confidence 8999998877 8888999999999999999999999999988753
No 123
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=90.19 E-value=0.1 Score=60.37 Aligned_cols=43 Identities=26% Similarity=0.277 Sum_probs=35.7
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQ 65 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~ 65 (929)
|.+||.+.+- .-..|..+|--+-|||||||++|.|+|.-|-..
T Consensus 92 ~teiQ~~~Ip----~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~ 134 (758)
T KOG0343|consen 92 MTEIQRDTIP----MALQGHDVLGAAKTGSGKTLAFLVPVLEALYRL 134 (758)
T ss_pred HHHHHHhhcc----hhccCcccccccccCCCceeeehHHHHHHHHHc
Confidence 6677877644 445689999999999999999999999988763
No 124
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=89.97 E-value=1.2 Score=55.91 Aligned_cols=39 Identities=15% Similarity=0.202 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHh
Q 002378 669 MIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKS 707 (929)
Q Consensus 669 ~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~ 707 (929)
..+.+...+......-+|.+|||+|.=.-.+.+.+.+.+
T Consensus 243 l~~ai~~~v~~~~~~~~GdILvFLpG~~EI~~~~~~L~~ 281 (845)
T COG1643 243 LLDAIVAAVDIHLREGSGSILVFLPGQREIERTAEWLEK 281 (845)
T ss_pred HHHHHHHHHHHhccCCCCCEEEECCcHHHHHHHHHHHHh
Confidence 567788888888888899999999999999999998876
No 125
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.64 E-value=0.11 Score=58.05 Aligned_cols=41 Identities=29% Similarity=0.326 Sum_probs=33.2
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
|.|||-+. +--+..|++.|--+-|||||||++|.+.+-.+.
T Consensus 243 PtPIqSQa----WPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~ 283 (629)
T KOG0336|consen 243 PTPIQSQA----WPILLQGIDLIGVAQTGTGKTLAFLLPGFIHID 283 (629)
T ss_pred CCcchhcc----cceeecCcceEEEEecCCCcCHHHhccceeeee
Confidence 66666554 446778999999999999999999999876654
No 126
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=89.59 E-value=0.4 Score=50.27 Aligned_cols=38 Identities=21% Similarity=0.339 Sum_probs=23.8
Q ss_pred cEEEEecccchhHHHHHHHHHhc----ccCCCeeEEEecccc
Q 002378 220 LKVYFCSRTHSQLSQFIKELRKT----VFANEIKVVCLGSRK 257 (929)
Q Consensus 220 ~kIiy~SRTHSQL~Qvi~ELrkt----~~~~~~~~~~L~SR~ 257 (929)
.+|++|+.||+-+.+++..|.+. .....++++-++++.
T Consensus 54 ~~il~~~~sN~avd~~~~~l~~~~~~~~~~~~~~~ir~~~~~ 95 (236)
T PF13086_consen 54 KKILVVSPSNAAVDNILERLKKLLDEDGKVYKPKIIRLGSEE 95 (236)
T ss_dssp S-EEEEESSHHHHHHHHHHHHC--------TT--EEE---GG
T ss_pred ccceeecCCchhHHHHHHHHHhhccccccccccchhhhcccc
Confidence 46999999999999999999981 111247788888876
No 127
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=89.47 E-value=0.22 Score=57.53 Aligned_cols=83 Identities=17% Similarity=0.242 Sum_probs=61.3
Q ss_pred HHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCC
Q 002378 670 IEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPK 749 (929)
Q Consensus 670 ~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~ 749 (929)
...|-.+|.+. .---++||.+--.-.+.+.+.+.+.|+ +-.++--++...+.+..|+.|+.
T Consensus 505 ~kkL~eil~~~---~~ppiIIFvN~kk~~d~lAk~LeK~g~------~~~tlHg~k~qeQRe~aL~~fr~---------- 565 (673)
T KOG0333|consen 505 RKKLIEILESN---FDPPIIIFVNTKKGADALAKILEKAGY------KVTTLHGGKSQEQRENALADFRE---------- 565 (673)
T ss_pred HHHHHHHHHhC---CCCCEEEEEechhhHHHHHHHHhhccc------eEEEeeCCccHHHHHHHHHHHHh----------
Confidence 45555555443 334799999999999999988887763 12234444444578999999998
Q ss_pred CCCCCCCCcEEEEEecCccccccccCCCc
Q 002378 750 EDSTPLNGAMLLAVVGGKISEGINFSDGM 778 (929)
Q Consensus 750 ~~~~~~~gaiL~aV~rGk~sEGIDf~d~~ 778 (929)
+.+.||+|. .-...|||.+|=.
T Consensus 566 -----~t~dIlVaT--DvAgRGIDIpnVS 587 (673)
T KOG0333|consen 566 -----GTGDILVAT--DVAGRGIDIPNVS 587 (673)
T ss_pred -----cCCCEEEEe--cccccCCCCCccc
Confidence 689999999 8999999999943
No 128
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=89.37 E-value=0.22 Score=61.92 Aligned_cols=79 Identities=15% Similarity=0.063 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCC-CchHHHHHHHHHHHHhccCCCC
Q 002378 670 IEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRG-NTHVESVLKEYQKTIDTLSSRP 748 (929)
Q Consensus 670 ~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~-~~~~~~~l~~y~~~i~~~~~~~ 748 (929)
...+.+.|.++.. ..-.+|||..|-..-+.+...++..++-. .++ -.+. ..+.+-+++.+
T Consensus 435 ~~Aii~ei~~~~~-~GrpVLV~t~sv~~se~ls~~L~~~gi~~------~vL-nak~~~~Ea~ii~~Ag----------- 495 (908)
T PRK13107 435 YQAIIKDIKDCRE-RGQPVLVGTVSIEQSELLARLMVKEKIPH------EVL-NAKFHEREAEIVAQAG----------- 495 (908)
T ss_pred HHHHHHHHHHHHH-cCCCEEEEeCcHHHHHHHHHHHHHCCCCe------Eec-cCcccHHHHHHHHhCC-----------
Confidence 3456666666543 45569999999999998888888765411 122 2221 12233232221
Q ss_pred CCCCCCCCCcEEEEEecCccccccccC
Q 002378 749 KEDSTPLNGAMLLAVVGGKISEGINFS 775 (929)
Q Consensus 749 ~~~~~~~~gaiL~aV~rGk~sEGIDf~ 775 (929)
..|+|++|. .-...|+|+.
T Consensus 496 ------~~G~VtIAT--nmAGRGTDIk 514 (908)
T PRK13107 496 ------RTGAVTIAT--NMAGRGTDIV 514 (908)
T ss_pred ------CCCcEEEec--CCcCCCccee
Confidence 468899998 7789999986
No 129
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=89.23 E-value=0.22 Score=56.24 Aligned_cols=44 Identities=32% Similarity=0.414 Sum_probs=35.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHh
Q 002378 16 PYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 16 Pf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
+...|-.+.+.+..++.++..|.+++||+|+|||||+ |.-+++.
T Consensus 22 ~~~~~~g~~~~~~~~l~a~~~~~~vll~G~PG~gKT~--la~~lA~ 65 (329)
T COG0714 22 LEKVVVGDEEVIELALLALLAGGHVLLEGPPGVGKTL--LARALAR 65 (329)
T ss_pred cCCeeeccHHHHHHHHHHHHcCCCEEEECCCCccHHH--HHHHHHH
Confidence 3333445999999999999999999999999999995 4444443
No 130
>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=89.11 E-value=0.28 Score=55.77 Aligned_cols=23 Identities=39% Similarity=0.518 Sum_probs=19.8
Q ss_pred ceeeeCCCCCcchHHHHHHHHHh
Q 002378 39 VSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 39 ~~~~esptgtgktl~~l~~~l~~ 61 (929)
..|+.+|||+|||++++.++|.-
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~ 23 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHS 23 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHH
Confidence 36899999999999999888843
No 131
>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=89.04 E-value=0.45 Score=58.88 Aligned_cols=42 Identities=21% Similarity=0.278 Sum_probs=35.0
Q ss_pred CCHHHHHHHHHHHHHHHc------CCceeeeCCCCCcchHHHHHHHHH
Q 002378 19 PYSIQTDFMKALYCSLEN------GGVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~------~~~~~~esptgtgktl~~l~~~l~ 60 (929)
|..-|....+++++.+.+ .+.+|+..|||||||++.+..+..
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~ 286 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARK 286 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHH
Confidence 556799999999999976 368999999999999887766543
No 132
>PRK13531 regulatory ATPase RavA; Provisional
Probab=88.94 E-value=0.3 Score=57.24 Aligned_cols=31 Identities=19% Similarity=0.295 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHcCCceeeeCCCCCcchH
Q 002378 22 IQTDFMKALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~~~~~esptgtgktl 52 (929)
.|.+.++.+..++..|.+++|++|+|||||+
T Consensus 24 gre~vI~lll~aalag~hVLL~GpPGTGKT~ 54 (498)
T PRK13531 24 ERSHAIRLCLLAALSGESVFLLGPPGIAKSL 54 (498)
T ss_pred CcHHHHHHHHHHHccCCCEEEECCCChhHHH
Confidence 4778899999999999999999999999996
No 133
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=88.80 E-value=0.35 Score=53.48 Aligned_cols=44 Identities=25% Similarity=0.318 Sum_probs=37.9
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 17 YKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
++|.|+|..-+- .|.+|.++|-.+-||||||.+|-.+.|.-|..
T Consensus 28 ~~pTpiQ~~cIp----kILeGrdcig~AkTGsGKT~AFaLPil~rLse 71 (442)
T KOG0340|consen 28 KKPTPIQQACIP----KILEGRDCIGCAKTGSGKTAAFALPILNRLSE 71 (442)
T ss_pred CCCCchHhhhhH----HHhcccccccccccCCCcchhhhHHHHHhhcc
Confidence 469999987654 77789999999999999999999999887664
No 134
>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=88.64 E-value=0.22 Score=47.03 Aligned_cols=21 Identities=38% Similarity=0.615 Sum_probs=17.5
Q ss_pred CceeeeCCCCCcchHHHHHHH
Q 002378 38 GVSMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l~~~ 58 (929)
+++++.+|||||||..++...
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~ 21 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPI 21 (144)
T ss_pred CCEEEECCCCCchhHHHHHHH
Confidence 468999999999998876653
No 135
>COG1204 Superfamily II helicase [General function prediction only]
Probab=88.01 E-value=0.4 Score=59.88 Aligned_cols=45 Identities=22% Similarity=0.392 Sum_probs=37.1
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHH
Q 002378 18 KPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQ 65 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~ 65 (929)
+-|+.|+....+ .+..++|.|+.+|||+||||--+.+.+.-+.+.
T Consensus 31 el~~~qq~av~~---~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~ 75 (766)
T COG1204 31 ELFNPQQEAVEK---GLLSDENVLISAPTGSGKTLIALLAILSTLLEG 75 (766)
T ss_pred HhhHHHHHHhhc---cccCCCcEEEEcCCCCchHHHHHHHHHHHHHhc
Confidence 688888876544 444499999999999999998888888888774
No 136
>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=87.78 E-value=0.82 Score=43.49 Aligned_cols=30 Identities=40% Similarity=0.438 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHc--CCceeeeCCCCCcchH
Q 002378 23 QTDFMKALYCSLEN--GGVSMLESPTGTGKTL 52 (929)
Q Consensus 23 Q~~~M~~v~~~~~~--~~~~~~esptgtgktl 52 (929)
|...+..+...+.. +.+.++-||+|||||.
T Consensus 3 ~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~ 34 (151)
T cd00009 3 QEEAIEALREALELPPPKNLLLYGPPGTGKTT 34 (151)
T ss_pred hHHHHHHHHHHHhCCCCCeEEEECCCCCCHHH
Confidence 56677888888887 7899999999999995
No 137
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=87.37 E-value=0.46 Score=53.61 Aligned_cols=40 Identities=25% Similarity=0.461 Sum_probs=32.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHH-HcC-CceeeeCCCCCcchHH
Q 002378 14 AFPYKPYSIQTDFMKALYCSL-ENG-GVSMLESPTGTGKTLS 53 (929)
Q Consensus 14 ~FPf~py~~Q~~~M~~v~~~~-~~~-~~~~~esptgtgktl~ 53 (929)
.|||.-.--|...++.+.-++ ..| .+.+|++|.|||||..
T Consensus 4 ~~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~l 45 (334)
T PRK13407 4 PFPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTA 45 (334)
T ss_pred CCCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHH
Confidence 377777778999999888655 456 7899999999999953
No 138
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=87.34 E-value=5.9 Score=48.58 Aligned_cols=40 Identities=28% Similarity=0.216 Sum_probs=32.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHh
Q 002378 16 PYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 16 Pf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
=..|||+|..-.- .|..|+ |.|+.||+||||+++.+++.-
T Consensus 101 g~~p~~VQ~~~~~----~ll~G~--Iae~~TGeGKTla~~lp~~~~ 140 (656)
T PRK12898 101 GQRHFDVQLMGGL----ALLSGR--LAEMQTGEGKTLTATLPAGTA 140 (656)
T ss_pred CCCCChHHHHHHH----HHhCCC--eeeeeCCCCcHHHHHHHHHHH
Confidence 3568999988755 445677 999999999999999999853
No 139
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=87.29 E-value=6.7 Score=45.91 Aligned_cols=14 Identities=14% Similarity=0.313 Sum_probs=10.7
Q ss_pred hceEEEeccCCCCh
Q 002378 600 AHAVILAGGTLQPI 613 (929)
Q Consensus 600 ~~svILtSGTLsP~ 613 (929)
.+-.+..++||.|.
T Consensus 452 yrqT~mftatm~p~ 465 (673)
T KOG0333|consen 452 YRQTVMFTATMPPA 465 (673)
T ss_pred eeEEEEEecCCChH
Confidence 46677888999884
No 140
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=86.80 E-value=0.82 Score=51.31 Aligned_cols=33 Identities=18% Similarity=0.324 Sum_probs=25.5
Q ss_pred HHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhH
Q 002378 29 ALYCSLENGGVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 29 ~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
.+..++..+++.++-+|||+||| +++-+.+.++
T Consensus 140 ~L~~~v~~~~~ilI~G~tGSGKT-Tll~aL~~~~ 172 (319)
T PRK13894 140 AIIAAVRAHRNILVIGGTGSGKT-TLVNAIINEM 172 (319)
T ss_pred HHHHHHHcCCeEEEECCCCCCHH-HHHHHHHHhh
Confidence 34556778999999999999999 6666655554
No 141
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=86.11 E-value=1.9 Score=52.58 Aligned_cols=84 Identities=23% Similarity=0.461 Sum_probs=55.1
Q ss_pred eEEEeccCCCChhhHHH--hhCCCCCCCceeeeecCCcc--CCCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHH
Q 002378 602 AVILAGGTLQPIEETRE--RLFPWLSPNKFHFFSCSHIV--PPESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLL 677 (929)
Q Consensus 602 svILtSGTLsP~~~f~~--~L~~~~~~~~i~~~~~~hvi--~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i 677 (929)
-.|+|||||. .++|.. .||+..|+ +| +..|. |...-|+.|...+|+.+--+..
T Consensus 416 KLIIMSATLR-VsDFtenk~LFpi~pP----------likVdARQf------------PVsIHF~krT~~DYi~eAfrKt 472 (1172)
T KOG0926|consen 416 KLIIMSATLR-VSDFTENKRLFPIPPP----------LIKVDARQF------------PVSIHFNKRTPDDYIAEAFRKT 472 (1172)
T ss_pred eEEEEeeeEE-ecccccCceecCCCCc----------eeeeecccC------------ceEEEeccCCCchHHHHHHHHH
Confidence 5799999995 455542 23443221 22 22332 2233467777777776655555
Q ss_pred HHHhhcc-CCCeEEEccCHHHHHHHHHHHHhc
Q 002378 678 CNLVSVV-PEGIIVFFPSFEYVERVYGAWKSL 708 (929)
Q Consensus 678 ~~~~~~v-pgg~LVfFpSy~~l~~~~~~w~~~ 708 (929)
+.|-+.. |||+|||.+--.-.+++.+.+++.
T Consensus 473 c~IH~kLP~G~ILVFvTGQqEV~qL~~kLRK~ 504 (1172)
T KOG0926|consen 473 CKIHKKLPPGGILVFVTGQQEVDQLCEKLRKR 504 (1172)
T ss_pred HHHhhcCCCCcEEEEEeChHHHHHHHHHHHhh
Confidence 5665554 599999999999999999988775
No 142
>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=86.08 E-value=13 Score=46.06 Aligned_cols=40 Identities=33% Similarity=0.417 Sum_probs=31.1
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHH-HHhH
Q 002378 17 YKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSA-LQWV 62 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~-l~~~ 62 (929)
..||++|..-.- .|..|. |.|++||+||||+++.++ |..+
T Consensus 55 ~~p~~vQlig~~----~l~~G~--Iaem~TGeGKTLva~lpa~l~aL 95 (745)
T TIGR00963 55 MRPFDVQLIGGI----ALHKGK--IAEMKTGEGKTLTATLPAYLNAL 95 (745)
T ss_pred CCccchHHhhhh----hhcCCc--eeeecCCCccHHHHHHHHHHHHH
Confidence 458999987643 344555 999999999999999888 4554
No 143
>PRK06835 DNA replication protein DnaC; Validated
Probab=86.06 E-value=1.2 Score=50.16 Aligned_cols=37 Identities=27% Similarity=0.289 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHH--------cCCceeeeCCCCCcchHHHHHHH
Q 002378 22 IQTDFMKALYCSLE--------NGGVSMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~--------~~~~~~~esptgtgktl~~l~~~ 58 (929)
...+.|..+++.+. .+.+.+|-||||||||--..|.+
T Consensus 160 ~~~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa 204 (329)
T PRK06835 160 SPRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIA 204 (329)
T ss_pred CHHHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHH
Confidence 45566666666333 46889999999999997433333
No 144
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=85.87 E-value=0.42 Score=59.64 Aligned_cols=43 Identities=28% Similarity=0.450 Sum_probs=38.2
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 18 KPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
.|.|||-+.+- +|..|..+|--|-||+|||++|+.+.+..+.+
T Consensus 387 k~~~IQ~qAiP----~ImsGrdvIgvakTgSGKT~af~LPmirhi~d 429 (997)
T KOG0334|consen 387 KPTPIQAQAIP----AIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKD 429 (997)
T ss_pred CCcchhhhhcc----hhccCcceEEeeccCCccchhhhcchhhhhhc
Confidence 49999998865 88999999999999999999999999955555
No 145
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=85.64 E-value=1 Score=50.84 Aligned_cols=38 Identities=21% Similarity=0.154 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhH
Q 002378 24 TDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 24 ~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
..++.-+..++..+++.++.+|||+|||-.+ -+.+.++
T Consensus 147 ~~~~~~L~~~v~~~~nili~G~tgSGKTTll-~aL~~~i 184 (332)
T PRK13900 147 KKIKEFLEHAVISKKNIIISGGTSTGKTTFT-NAALREI 184 (332)
T ss_pred HHHHHHHHHHHHcCCcEEEECCCCCCHHHHH-HHHHhhC
Confidence 3455666778889999999999999999543 4444443
No 146
>PRK13766 Hef nuclease; Provisional
Probab=85.46 E-value=0.85 Score=57.67 Aligned_cols=42 Identities=17% Similarity=0.156 Sum_probs=31.5
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhH
Q 002378 16 PYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 16 Pf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
+++|.+-|.++...++ . + ++|+..|||+|||++.+..++..+
T Consensus 13 ~~~~r~yQ~~~~~~~l---~-~-n~lv~~ptG~GKT~~a~~~i~~~l 54 (773)
T PRK13766 13 TIEARLYQQLLAATAL---K-K-NTLVVLPTGLGKTAIALLVIAERL 54 (773)
T ss_pred cCCccHHHHHHHHHHh---c-C-CeEEEcCCCccHHHHHHHHHHHHH
Confidence 3457888888765443 3 2 899999999999998877666655
No 147
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=85.43 E-value=0.94 Score=46.40 Aligned_cols=50 Identities=28% Similarity=0.351 Sum_probs=22.4
Q ss_pred CCCCCCCCC-HHHHHHHHHHHH--HHHcCCceeeeCCCCCcchHHHHHHHHHh
Q 002378 12 FPAFPYKPY-SIQTDFMKALYC--SLENGGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 12 ~~~FPf~py-~~Q~~~M~~v~~--~~~~~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
+-.|.|.+. +.+...+..+.. -++++.+.+|-||+|||||--..+.+-..
T Consensus 19 ~~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKThLa~ai~~~~ 71 (178)
T PF01695_consen 19 LENFDFSNERGIDKAQIAQLAALEFIENGENLILYGPPGTGKTHLAVAIANEA 71 (178)
T ss_dssp ---------------HHHHHHHH-S-SC--EEEEEESTTSSHHHHHHHHHHHH
T ss_pred cccccccchhhHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHHHHHHHHHHh
Confidence 333555533 345555555533 35678999999999999996544443333
No 148
>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=85.32 E-value=0.39 Score=48.30 Aligned_cols=55 Identities=33% Similarity=0.285 Sum_probs=36.5
Q ss_pred CCchhhhhcccCCCcEEEeccccccCHHHHHH---------h-CCCCCCCEEEEeCCcChHHHHH
Q 002378 346 TCPYYGSRSMVPTADLVVLPYQSLLSKSARES---------L-GLNLKNNIVIIDEAHNLADSLI 400 (929)
Q Consensus 346 ~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~---------l-~i~l~~~ivI~DEAHNL~d~~~ 400 (929)
.|............++++++|+-|........ . .......+|||||||+....-.
T Consensus 99 ~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEaH~~~~~~~ 163 (184)
T PF04851_consen 99 DDISDKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEAHHYPSDSS 163 (184)
T ss_dssp TEEEHHHHHCBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETGGCTHHHHH
T ss_pred cccccccccccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehhhhcCCHHH
Confidence 45555556667788999999998887753211 1 1123457999999999987653
No 149
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=84.59 E-value=0.7 Score=52.24 Aligned_cols=38 Identities=24% Similarity=0.312 Sum_probs=28.5
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l 59 (929)
-.|.|.+.... ....++++.+..|||.||+|||-.++|
T Consensus 21 Ks~LQE~A~~c---~VK~k~DVyVsMPTGaGKSLCyQLPaL 58 (641)
T KOG0352|consen 21 KSRLQEQAINC---IVKRKCDVYVSMPTGAGKSLCYQLPAL 58 (641)
T ss_pred cChHHHHHHHH---HHhccCcEEEeccCCCchhhhhhchHH
Confidence 45678776543 334568899999999999999977654
No 150
>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=84.54 E-value=1.3 Score=54.76 Aligned_cols=41 Identities=22% Similarity=0.338 Sum_probs=32.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchHHHHHHH
Q 002378 15 FPYKPYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl~~l~~~ 58 (929)
+.+.++|-|.+.+++.+ .+| ..||+..|||+|||+.-+.++
T Consensus 252 ~~~~LRpYQ~eAl~~~~---~~gr~r~GIIvLPtGaGKTlvai~aa 294 (732)
T TIGR00603 252 PTTQIRPYQEKSLSKMF---GNGRARSGIIVLPCGAGKSLVGVTAA 294 (732)
T ss_pred cCCCcCHHHHHHHHHHH---hcCCCCCcEEEeCCCCChHHHHHHHH
Confidence 34668899999877664 455 589999999999999887554
No 151
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=84.52 E-value=24 Score=44.37 Aligned_cols=37 Identities=32% Similarity=0.446 Sum_probs=29.2
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHH
Q 002378 17 YKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l 59 (929)
..||++|..-.- .+..|. |.|+.||+||||+.+.+++
T Consensus 77 ~~p~~vQl~~~~----~l~~G~--Iaem~TGeGKTL~a~lp~~ 113 (790)
T PRK09200 77 MRPYDVQLIGAL----VLHEGN--IAEMQTGEGKTLTATMPLY 113 (790)
T ss_pred CCCchHHHHhHH----HHcCCc--eeeecCCCcchHHHHHHHH
Confidence 358999976633 445565 9999999999999999886
No 152
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=84.29 E-value=11 Score=44.34 Aligned_cols=84 Identities=15% Similarity=0.208 Sum_probs=59.5
Q ss_pred HHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcC-CCCchHHHHHHHHHHHHhccCCCC
Q 002378 670 IEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREP-RGNTHVESVLKEYQKTIDTLSSRP 748 (929)
Q Consensus 670 ~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~-~~~~~~~~~l~~y~~~i~~~~~~~ 748 (929)
++.|..-|...+. ....+||-.-...+.+.+.+++...|+ |.-+... -+.-++-+++...+.
T Consensus 432 vdDL~~EI~~r~~-~~eRvLVTtLTKkmAEdLT~Yl~e~gi-------kv~YlHSdidTlER~eIirdLR~--------- 494 (663)
T COG0556 432 VDDLLSEIRKRVA-KNERVLVTTLTKKMAEDLTEYLKELGI-------KVRYLHSDIDTLERVEIIRDLRL--------- 494 (663)
T ss_pred HHHHHHHHHHHHh-cCCeEEEEeehHHHHHHHHHHHHhcCc-------eEEeeeccchHHHHHHHHHHHhc---------
Confidence 4454444544333 347899999999999999999998875 2222222 134567788887776
Q ss_pred CCCCCCCCCcEEEEEecCccccccccCCCc
Q 002378 749 KEDSTPLNGAMLLAVVGGKISEGINFSDGM 778 (929)
Q Consensus 749 ~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~ 778 (929)
+.=-||+|+ .=+-||+|+|.-.
T Consensus 495 ------G~~DvLVGI--NLLREGLDiPEVs 516 (663)
T COG0556 495 ------GEFDVLVGI--NLLREGLDLPEVS 516 (663)
T ss_pred ------CCccEEEee--hhhhccCCCccee
Confidence 456899999 8999999999843
No 153
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=83.55 E-value=0.8 Score=55.53 Aligned_cols=68 Identities=26% Similarity=0.397 Sum_probs=49.8
Q ss_pred HHHHHHhcccCCCCchhhhhc-------cc----CCCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChHHHHHh
Q 002378 334 IEDLVHLGRHMRTCPYYGSRS-------MV----PTADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLADSLIN 401 (929)
Q Consensus 334 IEdL~~~g~~~~~CPYy~sR~-------~~----~~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~d~~~~ 401 (929)
+-++.++|....+=|||.+.. .+ ..-|||++.||+.-+..--+++=-..+=++||+||||-|=+...+
T Consensus 464 lrEf~kwCPsl~Ve~YyGSq~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmLKN~~Se 542 (941)
T KOG0389|consen 464 LREFAKWCPSLKVEPYYGSQDERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSE 542 (941)
T ss_pred HHHHHHhCCceEEEeccCcHHHHHHHHHHHhccCCCccEEEEEeecccCChHHHHHHHhccccEEEecchhhhhccchH
Confidence 457899999999999998742 11 256999999999987654223323456689999999998764443
No 154
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=83.39 E-value=0.9 Score=50.33 Aligned_cols=36 Identities=31% Similarity=0.308 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHH
Q 002378 21 SIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~ 60 (929)
|.|+.. +.+.+.|+.+++--|||-||+|||-.++|+
T Consensus 97 plq~~a----in~~ma~ed~~lil~tgggkslcyqlpal~ 132 (695)
T KOG0353|consen 97 PLQLAA----INATMAGEDAFLILPTGGGKSLCYQLPALC 132 (695)
T ss_pred hhHHHH----hhhhhccCceEEEEeCCCccchhhhhhHHh
Confidence 455544 557889999999999999999999766654
No 155
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=83.19 E-value=1.2 Score=55.74 Aligned_cols=46 Identities=26% Similarity=0.345 Sum_probs=38.4
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
+|+-|...++.+.+.-..+...+|++|||.|||++-+..++.=+.+
T Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~ 241 (733)
T COG1203 196 GYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDE 241 (733)
T ss_pred hhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhc
Confidence 6999999999888777766699999999999999888777665544
No 156
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=83.05 E-value=1.3 Score=51.71 Aligned_cols=29 Identities=24% Similarity=0.391 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHcCCceeeeCCCCCcchH
Q 002378 24 TDFMKALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 24 ~~~M~~v~~~~~~~~~~~~esptgtgktl 52 (929)
....+.++..|..+++.||.+|+|||||.
T Consensus 181 e~~le~l~~~L~~~~~iil~GppGtGKT~ 209 (459)
T PRK11331 181 ETTIETILKRLTIKKNIILQGPPGVGKTF 209 (459)
T ss_pred HHHHHHHHHHHhcCCCEEEECCCCCCHHH
Confidence 44456778899999999999999999994
No 157
>PRK09183 transposase/IS protein; Provisional
Probab=82.83 E-value=1.4 Score=48.00 Aligned_cols=41 Identities=27% Similarity=0.322 Sum_probs=27.8
Q ss_pred CCCCCCCCCCHHHHHHHHHHHH--HHHcCCceeeeCCCCCcchH
Q 002378 11 EFPAFPYKPYSIQTDFMKALYC--SLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 11 ~~~~FPf~py~~Q~~~M~~v~~--~~~~~~~~~~esptgtgktl 52 (929)
+.|+|-|.|..-.. .+..+-. -+..+.+.+|-||+|||||-
T Consensus 75 ~~fd~~~~~~~~~~-~i~~L~~~~~i~~~~~v~l~Gp~GtGKTh 117 (259)
T PRK09183 75 EEYDFTFATGAPQK-QLQSLRSLSFIERNENIVLLGPSGVGKTH 117 (259)
T ss_pred hhcccccCCCCCHH-HHHHHhcCCchhcCCeEEEEeCCCCCHHH
Confidence 44556666665332 3333422 27889999999999999994
No 158
>PRK09694 helicase Cas3; Provisional
Probab=82.81 E-value=29 Score=44.39 Aligned_cols=74 Identities=12% Similarity=0.190 Sum_probs=46.6
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCC-CchH----HHHHHHHHHHHhccCCCCCCCCCCCCCcE
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRG-NTHV----ESVLKEYQKTIDTLSSRPKEDSTPLNGAM 759 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~-~~~~----~~~l~~y~~~i~~~~~~~~~~~~~~~gai 759 (929)
.+.+|||+++-.-.+.+++.+++.+. ...+-+++-.+- ..++ +++++.|.+. + ....+.|
T Consensus 560 g~~vLVf~NTV~~Aq~ly~~L~~~~~----~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~---g--------~r~~~~I 624 (878)
T PRK09694 560 GAQVCLICNLVDDAQKLYQRLKELNN----TQVDIDLFHARFTLNDRREKEQRVIENFGKN---G--------KRNQGRI 624 (878)
T ss_pred CCEEEEEECCHHHHHHHHHHHHhhCC----CCceEEEEeCCCCHHHHHHHHHHHHHHHHhc---C--------CcCCCeE
Confidence 34589999999999999998875421 011223444431 1233 3567777431 1 1123689
Q ss_pred EEEEecCccccccccC
Q 002378 760 LLAVVGGKISEGINFS 775 (929)
Q Consensus 760 L~aV~rGk~sEGIDf~ 775 (929)
|+|. --+..|||+.
T Consensus 625 LVaT--QViE~GLDId 638 (878)
T PRK09694 625 LVAT--QVVEQSLDLD 638 (878)
T ss_pred EEEC--cchhheeecC
Confidence 9888 8899999994
No 159
>PRK06526 transposase; Provisional
Probab=82.76 E-value=1.4 Score=47.75 Aligned_cols=41 Identities=22% Similarity=0.297 Sum_probs=26.0
Q ss_pred CCCCCCCCH-HHHHHHHHHHH--HHHcCCceeeeCCCCCcchHH
Q 002378 13 PAFPYKPYS-IQTDFMKALYC--SLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 13 ~~FPf~py~-~Q~~~M~~v~~--~~~~~~~~~~esptgtgktl~ 53 (929)
=.|.|..++ +-...+..+.. =++.+.+.+|-||+|||||-.
T Consensus 71 e~fd~~~~~~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThL 114 (254)
T PRK06526 71 EEFDFDHQRSLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHL 114 (254)
T ss_pred hhccCccCCCcchHHHHHHhcCchhhcCceEEEEeCCCCchHHH
Confidence 345555433 33334444333 366788999999999999953
No 160
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=82.46 E-value=19 Score=45.95 Aligned_cols=99 Identities=15% Similarity=0.136 Sum_probs=65.5
Q ss_pred HHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCC
Q 002378 668 AMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSR 747 (929)
Q Consensus 668 ~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~ 747 (929)
+-+..|...|.+.. ..+..+|||+.|-...+.+...++..++-.. ++- .+ ....+..+-.|..
T Consensus 582 eK~~Ali~~I~~~~-~~grpVLIft~Sve~sE~Ls~~L~~~gI~h~------vLn-ak-q~~REa~Iia~AG-------- 644 (1025)
T PRK12900 582 EKYNAIVLKVEELQ-KKGQPVLVGTASVEVSETLSRMLRAKRIAHN------VLN-AK-QHDREAEIVAEAG-------- 644 (1025)
T ss_pred HHHHHHHHHHHHHh-hCCCCEEEEeCcHHHHHHHHHHHHHcCCCce------eec-CC-HHHhHHHHHHhcC--------
Confidence 34456666665543 3567899999999999999998887764221 221 22 2345666655543
Q ss_pred CCCCCCCCCCcEEEEEecCccccccccCCC-cc---eEEEEEccCCCCC
Q 002378 748 PKEDSTPLNGAMLLAVVGGKISEGINFSDG-MG---RCIVMVGLPYPSP 792 (929)
Q Consensus 748 ~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~-~~---r~ViivGlPfp~~ 792 (929)
..|+|++|. .-...|+|++-. .. =+++|+|.+.|..
T Consensus 645 -------~~g~VtIAT--NMAGRGtDIkl~~~V~~vGGL~VIgterhes 684 (1025)
T PRK12900 645 -------QKGAVTIAT--NMAGRGTDIKLGEGVRELGGLFILGSERHES 684 (1025)
T ss_pred -------CCCeEEEec--cCcCCCCCcCCccchhhhCCceeeCCCCCch
Confidence 579999999 778999999832 22 2347778776543
No 161
>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=82.45 E-value=1.7 Score=49.12 Aligned_cols=40 Identities=28% Similarity=0.411 Sum_probs=35.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHc--CCceeeeCCCCCcchHHH
Q 002378 15 FPYKPYSIQTDFMKALYCSLEN--GGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~~~--~~~~~~esptgtgktl~~ 54 (929)
|||.----|...+..++-++-+ ....++++|+|||||..+
T Consensus 1 ~pf~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~ 42 (337)
T TIGR02030 1 FPFTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAV 42 (337)
T ss_pred CCccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHH
Confidence 8999888999999999888877 678999999999999654
No 162
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=82.45 E-value=0.8 Score=50.38 Aligned_cols=39 Identities=23% Similarity=0.553 Sum_probs=28.3
Q ss_pred CCcEEEeccccccCHH-------HH-----HHhCCCCCCCEEEEeCCcChHH
Q 002378 358 TADLVVLPYQSLLSKS-------AR-----ESLGLNLKNNIVIIDEAHNLAD 397 (929)
Q Consensus 358 ~AdII~~pYnyLl~~~-------~R-----~~l~i~l~~~ivI~DEAHNL~d 397 (929)
...|||+.|+-|.... +| +-+|-+. +-+|||||+|+.-.
T Consensus 136 ~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~df-dgvivfDEcH~akn 186 (303)
T PF13872_consen 136 KEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDF-DGVIVFDECHKAKN 186 (303)
T ss_pred CCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCC-CceEEeccchhcCC
Confidence 5689999999999884 23 1244343 44999999999654
No 163
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=82.01 E-value=12 Score=42.10 Aligned_cols=143 Identities=12% Similarity=0.171 Sum_probs=90.5
Q ss_pred ceEEEeccCCC-ChhhHHHhhCCCCCCCceeeeecCCccCCCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHH
Q 002378 601 HAVILAGGTLQ-PIEETRERLFPWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCN 679 (929)
Q Consensus 601 ~svILtSGTLs-P~~~f~~~L~~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~ 679 (929)
-.+||.|+|.. +.-.|+....+.-..-.+. -++-|+++-.|+++.+- .|. .. ++.|. +
T Consensus 265 ~QllLFSATf~e~V~~Fa~kivpn~n~i~Lk-~eel~L~~IkQlyv~C~--------------~~~-~K-~~~l~----~ 323 (477)
T KOG0332|consen 265 QQLLLFSATFVEKVAAFALKIVPNANVIILK-REELALDNIKQLYVLCA--------------CRD-DK-YQALV----N 323 (477)
T ss_pred ceEEeeechhHHHHHHHHHHhcCCCceeeee-hhhccccchhhheeecc--------------chh-hH-HHHHH----H
Confidence 35789999987 5566665554432111111 14557777777776553 222 22 23333 3
Q ss_pred Hhhc-cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCc
Q 002378 680 LVSV-VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGA 758 (929)
Q Consensus 680 ~~~~-vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~ga 758 (929)
++.. .=|..++|.....-..-++..+...|- .-.++--.-...++..++++|++ +..-
T Consensus 324 lyg~~tigqsiIFc~tk~ta~~l~~~m~~~Gh------~V~~l~G~l~~~~R~~ii~~Fr~---------------g~~k 382 (477)
T KOG0332|consen 324 LYGLLTIGQSIIFCHTKATAMWLYEEMRAEGH------QVSLLHGDLTVEQRAAIIDRFRE---------------GKEK 382 (477)
T ss_pred HHhhhhhhheEEEEeehhhHHHHHHHHHhcCc------eeEEeeccchhHHHHHHHHHHhc---------------Ccce
Confidence 4432 237899999999999999998887652 11223222234578999999998 5678
Q ss_pred EEEEEecCccccccccCCCcceEEEEEccCC
Q 002378 759 MLLAVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 759 iL~aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
||++. .-+..|||.+- ...||=.-||-
T Consensus 383 VLitT--nV~ARGiDv~q--Vs~VvNydlP~ 409 (477)
T KOG0332|consen 383 VLITT--NVCARGIDVAQ--VSVVVNYDLPV 409 (477)
T ss_pred EEEEe--chhhcccccce--EEEEEecCCcc
Confidence 99999 89999999875 34455555554
No 164
>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=81.83 E-value=1.1 Score=42.07 Aligned_cols=22 Identities=36% Similarity=0.513 Sum_probs=17.6
Q ss_pred CCceeeeCCCCCcchHHHHHHH
Q 002378 37 GGVSMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~ 58 (929)
+.+.+|.+|+|||||..+..-+
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~ 23 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALA 23 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHH
Confidence 5688999999999997665443
No 165
>PRK08181 transposase; Validated
Probab=81.67 E-value=2.6 Score=46.16 Aligned_cols=43 Identities=23% Similarity=0.298 Sum_probs=27.6
Q ss_pred cCCCCCCCCCCH----HHHHHHHHHHHHHHcCCceeeeCCCCCcchH
Q 002378 10 AEFPAFPYKPYS----IQTDFMKALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 10 ~~~~~FPf~py~----~Q~~~M~~v~~~~~~~~~~~~esptgtgktl 52 (929)
..+-.|.|.+.| .|..-...+-+-++.+.+.+|-||+|||||-
T Consensus 75 ~tle~fd~~~~~~~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTH 121 (269)
T PRK08181 75 KTLDSFDFEAVPMVSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSH 121 (269)
T ss_pred CCHhhCCccCCCCCCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHH
Confidence 344556666544 3333333222346788999999999999994
No 166
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=81.62 E-value=0.97 Score=49.68 Aligned_cols=26 Identities=35% Similarity=0.588 Sum_probs=21.3
Q ss_pred CCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
+.|++|-+|||+|||| |.-+|+.+-+
T Consensus 97 KSNILLiGPTGsGKTl--LAqTLAk~Ln 122 (408)
T COG1219 97 KSNILLIGPTGSGKTL--LAQTLAKILN 122 (408)
T ss_pred eccEEEECCCCCcHHH--HHHHHHHHhC
Confidence 4678999999999995 7778877665
No 167
>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=81.58 E-value=0.55 Score=51.53 Aligned_cols=41 Identities=39% Similarity=0.643 Sum_probs=28.6
Q ss_pred cccCCCcEEEecccccc---CHHHHHHhCCCCCCCEEEEeCCcCh
Q 002378 354 SMVPTADLVVLPYQSLL---SKSARESLGLNLKNNIVIIDEAHNL 395 (929)
Q Consensus 354 ~~~~~AdII~~pYnyLl---~~~~R~~l~i~l~~~ivI~DEAHNL 395 (929)
......++|+++|..+. .+.....+. ...-.+||+||||++
T Consensus 103 ~~~~~~~vvi~ty~~~~~~~~~~~~~~l~-~~~~~~vIvDEaH~~ 146 (299)
T PF00176_consen 103 NQLPKYDVVITTYETLRKARKKKDKEDLK-QIKWDRVIVDEAHRL 146 (299)
T ss_dssp SSCCCSSEEEEEHHHHH--TSTHTTHHHH-TSEEEEEEETTGGGG
T ss_pred cccccceeeeccccccccccccccccccc-cccceeEEEeccccc
Confidence 55677899999999998 111111221 134678999999999
No 168
>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=81.10 E-value=1.7 Score=47.65 Aligned_cols=35 Identities=34% Similarity=0.392 Sum_probs=22.7
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
|...-..+..-+=-.+.++..++|.||||||||..
T Consensus 15 pT~dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~l 49 (272)
T PF12775_consen 15 PTVDTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSL 49 (272)
T ss_dssp --HHHHHHHHHHHHHHHCTEEEEEESSTTSSHHHH
T ss_pred CcHHHHHHHHHHHHHHHcCCcEEEECCCCCchhHH
Confidence 44433333333333467889999999999999974
No 169
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=80.82 E-value=1.5 Score=54.60 Aligned_cols=95 Identities=12% Similarity=0.079 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCC
Q 002378 668 AMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSR 747 (929)
Q Consensus 668 ~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~ 747 (929)
+-...+...|.+.. ..+..+|||+.|-..-+.+...+.+.++-. ...-.+. .+.+..+-. ..
T Consensus 424 ~K~~al~~~i~~~~-~~g~pvLI~t~si~~se~ls~~L~~~gi~~-------~~Lna~~-~~~Ea~ii~-----~a---- 485 (796)
T PRK12906 424 SKFNAVVKEIKERH-AKGQPVLVGTVAIESSERLSHLLDEAGIPH-------AVLNAKN-HAKEAEIIM-----NA---- 485 (796)
T ss_pred HHHHHHHHHHHHHH-hCCCCEEEEeCcHHHHHHHHHHHHHCCCCe-------eEecCCc-HHHHHHHHH-----hc----
Confidence 33455655555443 356789999999999999999998876421 1222221 122222211 11
Q ss_pred CCCCCCCCCCcEEEEEecCccccccccC-CCcce-----EEEEEccC
Q 002378 748 PKEDSTPLNGAMLLAVVGGKISEGINFS-DGMGR-----CIVMVGLP 788 (929)
Q Consensus 748 ~~~~~~~~~gaiL~aV~rGk~sEGIDf~-d~~~r-----~ViivGlP 788 (929)
...|+|++|+ .-...|+|++ ++... .||.+-+|
T Consensus 486 ------g~~g~VtIAT--nmAGRGtDI~l~~~V~~~GGLhVI~te~p 524 (796)
T PRK12906 486 ------GQRGAVTIAT--NMAGRGTDIKLGPGVKELGGLAVIGTERH 524 (796)
T ss_pred ------CCCceEEEEe--ccccCCCCCCCCcchhhhCCcEEEeeecC
Confidence 2578999999 7889999996 33333 55555444
No 170
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=80.62 E-value=13 Score=46.87 Aligned_cols=72 Identities=18% Similarity=0.239 Sum_probs=44.3
Q ss_pred CCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCC-CchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 685 PEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRG-NTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 685 pgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~-~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
.+.+||.+.+=.-...+|..++..+. +.+++-++= ..++++.+++..+.-. ...+.|++|.
T Consensus 440 ~~kvlvI~NTV~~Aie~Y~~Lk~~~~-------~v~LlHSRf~~~dR~~ke~~l~~~~~-----------~~~~~IvVaT 501 (733)
T COG1203 440 GKKVLVIVNTVDRAIELYEKLKEKGP-------KVLLLHSRFTLKDREEKERELKKLFK-----------QNEGFIVVAT 501 (733)
T ss_pred CCcEEEEEecHHHHHHHHHHHHhcCC-------CEEEEecccchhhHHHHHHHHHHHHh-----------ccCCeEEEEe
Confidence 35799999999999999998887642 345555542 2355555554443211 1467888877
Q ss_pred ecCccccccccCC
Q 002378 764 VGGKISEGINFSD 776 (929)
Q Consensus 764 ~rGk~sEGIDf~d 776 (929)
--+-=|||+.-
T Consensus 502 --QVIEagvDidf 512 (733)
T COG1203 502 --QVIEAGVDIDF 512 (733)
T ss_pred --eEEEEEecccc
Confidence 44444555554
No 171
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=80.57 E-value=2.6 Score=44.43 Aligned_cols=42 Identities=33% Similarity=0.502 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHcC--CceeeeCCCCCcchHHHHHHHHHhHHHH
Q 002378 24 TDFMKALYCSLENG--GVSMLESPTGTGKTLSIICSALQWVVDQ 65 (929)
Q Consensus 24 ~~~M~~v~~~~~~~--~~~~~esptgtgktl~~l~~~l~~~~~~ 65 (929)
.+.|..+---..+| .+.|+.+|.|||||-|.+|-+=.-|-+.
T Consensus 33 e~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~ 76 (333)
T KOG0991|consen 33 EDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDS 76 (333)
T ss_pred HHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChh
Confidence 45677666666666 6899999999999999999887777653
No 172
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=80.44 E-value=31 Score=41.17 Aligned_cols=179 Identities=21% Similarity=0.214 Sum_probs=103.3
Q ss_pred eEEEeccCCCChhhHHHhhCCCCCCCceeeeecCCccCCCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHHh
Q 002378 602 AVILAGGTLQPIEETRERLFPWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNLV 681 (929)
Q Consensus 602 svILtSGTLsP~~~f~~~L~~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~~ 681 (929)
..|..|||.-....++..|+..+ . .-...|+|-+.=++++ . +.......+..|+..=...-
T Consensus 374 Q~i~LSATVgNp~elA~~l~a~l-----V-~y~~RPVplErHlvf~--~-----------~e~eK~~ii~~L~k~E~~~~ 434 (830)
T COG1202 374 QFIYLSATVGNPEELAKKLGAKL-----V-LYDERPVPLERHLVFA--R-----------NESEKWDIIARLVKREFSTE 434 (830)
T ss_pred eEEEEEeecCChHHHHHHhCCee-----E-eecCCCCChhHeeeee--c-----------CchHHHHHHHHHHHHHHhhh
Confidence 57899999999999999986532 1 1234455544333322 1 11122344455444322221
Q ss_pred h--ccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcE
Q 002378 682 S--VVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAM 759 (929)
Q Consensus 682 ~--~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gai 759 (929)
. --.|.++||..|-.--+.+...+...|+-.. -+--+-.-.++..+=..|.+ +.=++
T Consensus 435 sskg~rGQtIVFT~SRrr~h~lA~~L~~kG~~a~------pYHaGL~y~eRk~vE~~F~~---------------q~l~~ 493 (830)
T COG1202 435 SSKGYRGQTIVFTYSRRRCHELADALTGKGLKAA------PYHAGLPYKERKSVERAFAA---------------QELAA 493 (830)
T ss_pred hccCcCCceEEEecchhhHHHHHHHhhcCCcccc------cccCCCcHHHHHHHHHHHhc---------------CCcce
Confidence 1 1257899999999998888888875543111 11111111233444445544 23455
Q ss_pred EEEEecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhccCCCCCccCCccccccccCCcccccccccccC
Q 002378 760 LLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCR 839 (929)
Q Consensus 760 L~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 839 (929)
.+.. .-++=|||||-.. .+ ++..
T Consensus 494 VVTT--AAL~AGVDFPASQ-----------------VI------FEsL-------------------------------- 516 (830)
T COG1202 494 VVTT--AALAAGVDFPASQ-----------------VI------FESL-------------------------------- 516 (830)
T ss_pred Eeeh--hhhhcCCCCchHH-----------------HH------HHHH--------------------------------
Confidence 5555 6888899987622 11 2222
Q ss_pred CCchhhHhhHHHHHHHHhhcccccCC-CCeEEEEEE---eccccc
Q 002378 840 GRGKEYYENLCMKAVNQSIGRAIRHI-NDHAAILLV---DLRYAS 880 (929)
Q Consensus 840 ~~g~~~y~~~a~ravnQaiGR~IRh~-~D~g~iiLl---D~R~~~ 880 (929)
.=|.+|.+ ++-.-|-+||+=|-. .|.|.|+|+ +.+|..
T Consensus 517 aMG~~WLs---~~EF~QM~GRAGRp~yHdrGkVyllvepg~~Y~~ 558 (830)
T COG1202 517 AMGIEWLS---VREFQQMLGRAGRPDYHDRGKVYLLVEPGKKYHA 558 (830)
T ss_pred HcccccCC---HHHHHHHhcccCCCCcccCceEEEEecCChhhcc
Confidence 13678865 445679999999954 699999987 455543
No 173
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=80.00 E-value=8.2 Score=45.78 Aligned_cols=106 Identities=20% Similarity=0.329 Sum_probs=76.1
Q ss_pred HHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcC-CCCchHHHHHHHHHHHHhccCC
Q 002378 668 AMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREP-RGNTHVESVLKEYQKTIDTLSS 746 (929)
Q Consensus 668 ~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~-~~~~~~~~~l~~y~~~i~~~~~ 746 (929)
+....|...|..+....+|.++||.-....-+.+...++..+ .+-+-+-+ +...+++.+|+.|++
T Consensus 324 ~K~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~-------~~a~~iHGd~sQ~eR~~~L~~Fre------- 389 (519)
T KOG0331|consen 324 AKLRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKG-------WPAVAIHGDKSQSERDWVLKGFRE------- 389 (519)
T ss_pred HHHHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcC-------cceeeecccccHHHHHHHHHhccc-------
Confidence 445667777777776677889999999999888888776542 12233333 334588999999987
Q ss_pred CCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhcc
Q 002378 747 RPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLG 808 (929)
Q Consensus 747 ~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~ 808 (929)
++-.||+|. .-.+.|+|++| .+.||-.-.| .+.+ +|+-+.+
T Consensus 390 --------G~~~vLVAT--dVAaRGLDi~d--V~lVInydfP----~~vE-----dYVHRiG 430 (519)
T KOG0331|consen 390 --------GKSPVLVAT--DVAARGLDVPD--VDLVINYDFP----NNVE-----DYVHRIG 430 (519)
T ss_pred --------CCcceEEEc--ccccccCCCcc--ccEEEeCCCC----CCHH-----HHHhhcC
Confidence 567899999 99999999999 5666654433 3443 6776654
No 174
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=79.76 E-value=2.1 Score=49.04 Aligned_cols=35 Identities=23% Similarity=0.342 Sum_probs=27.5
Q ss_pred CCHHHHHHHHHHHHHHHcC---CceeeeCCCCCcchHH
Q 002378 19 PYSIQTDFMKALYCSLENG---GVSMLESPTGTGKTLS 53 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~---~~~~~esptgtgktl~ 53 (929)
--+.|..-+..++.....| .++++.+|||||||..
T Consensus 21 ~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~ 58 (366)
T COG1474 21 HREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTAT 58 (366)
T ss_pred ccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHH
Confidence 4568887777777777666 6799999999999954
No 175
>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=79.43 E-value=0.6 Score=46.49 Aligned_cols=41 Identities=29% Similarity=0.509 Sum_probs=29.7
Q ss_pred CCCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChHHH
Q 002378 357 PTADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLADS 398 (929)
Q Consensus 357 ~~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~d~ 398 (929)
..++|+|+.+.+|++........+ ..-.+|||||+|.+.+.
T Consensus 94 ~~~~ilv~T~~~l~~~~~~~~~~~-~~~~~iViDE~h~l~~~ 134 (169)
T PF00270_consen 94 NQADILVTTPEQLLDLISNGKINI-SRLSLIVIDEAHHLSDE 134 (169)
T ss_dssp TTSSEEEEEHHHHHHHHHTTSSTG-TTESEEEEETHHHHHHT
T ss_pred ccccccccCcchhhcccccccccc-ccceeeccCcccccccc
Confidence 469999999999887654311222 23678999999999773
No 176
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=79.37 E-value=2.9 Score=53.06 Aligned_cols=27 Identities=22% Similarity=0.128 Sum_probs=22.9
Q ss_pred CceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 38 GVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
.+..|+.+||||||.++|...+.-.+.
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~ 86 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQK 86 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHH
Confidence 478899999999999999888776555
No 177
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=79.35 E-value=1 Score=50.57 Aligned_cols=96 Identities=16% Similarity=0.321 Sum_probs=66.6
Q ss_pred HHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcC-CCCchHHHHHHHHHHHHhccCCCCCCCCCCC
Q 002378 677 LCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREP-RGNTHVESVLKEYQKTIDTLSSRPKEDSTPL 755 (929)
Q Consensus 677 i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~-~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~ 755 (929)
+..+.. .-.+.++|+.+-..+..+...+...++ +-..+-+ .+..+++.++.+|+. +
T Consensus 256 l~dl~~-~~~q~~if~nt~r~v~~l~~~L~~~~~-------~~s~~~~d~~q~~R~~~~~ef~~---------------g 312 (397)
T KOG0327|consen 256 LCDLYR-RVTQAVIFCNTRRKVDNLTDKLRAHGF-------TVSAIHGDMEQNERDTLMREFRS---------------G 312 (397)
T ss_pred HHHHHH-hhhcceEEecchhhHHHHHHHHhhCCc-------eEEEeecccchhhhhHHHHHhhc---------------C
Confidence 444444 446889999999999999887754432 1122222 223578899999987 5
Q ss_pred CCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhcc
Q 002378 756 NGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLG 808 (929)
Q Consensus 756 ~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~ 808 (929)
+..||+.. +.++.|||+.. +..||..=+| .+ +..|+-+.+
T Consensus 313 ssrvlItt--dl~argidv~~--~slvinydlP----~~-----~~~yihR~g 352 (397)
T KOG0327|consen 313 SSRVLITT--DLLARGIDVQQ--VSLVVNYDLP----AR-----KENYIHRIG 352 (397)
T ss_pred CceEEeec--cccccccchhh--cceeeeeccc----cc-----hhhhhhhcc
Confidence 77899988 99999999987 5567877777 12 346776653
No 178
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=79.26 E-value=1.3 Score=49.17 Aligned_cols=43 Identities=23% Similarity=0.247 Sum_probs=31.6
Q ss_pred cEEEEecccchhHHHHHHHHHhcccCCCeeEEEecccccccccHHHh
Q 002378 220 LKVYFCSRTHSQLSQFIKELRKTVFANEIKVVCLGSRKNFCINEEVL 266 (929)
Q Consensus 220 ~kIiy~SRTHSQL~Qvi~ELrkt~~~~~~~~~~L~SR~~lCin~~v~ 266 (929)
.||+|++|||+|+.|++.|||+..-. .+...+|.|-=++.-|.
T Consensus 62 ~kvi~~t~T~~~~~q~i~~l~~~~~~----~~~~~~~t~sq~~q~~~ 104 (289)
T smart00489 62 IKLIYLSRTVSEIEKRLEELRKLMQK----VEYESDEESEKQAQLLH 104 (289)
T ss_pred cceeEEeccHHHHHHHHHHHHhcccc----cceecccchhHHHHHHH
Confidence 58999999999999999999987321 24556776555544444
No 179
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=79.26 E-value=1.3 Score=49.17 Aligned_cols=43 Identities=23% Similarity=0.247 Sum_probs=31.6
Q ss_pred cEEEEecccchhHHHHHHHHHhcccCCCeeEEEecccccccccHHHh
Q 002378 220 LKVYFCSRTHSQLSQFIKELRKTVFANEIKVVCLGSRKNFCINEEVL 266 (929)
Q Consensus 220 ~kIiy~SRTHSQL~Qvi~ELrkt~~~~~~~~~~L~SR~~lCin~~v~ 266 (929)
.||+|++|||+|+.|++.|||+..-. .+...+|.|-=++.-|.
T Consensus 62 ~kvi~~t~T~~~~~q~i~~l~~~~~~----~~~~~~~t~sq~~q~~~ 104 (289)
T smart00488 62 IKLIYLSRTVSEIEKRLEELRKLMQK----VEYESDEESEKQAQLLH 104 (289)
T ss_pred cceeEEeccHHHHHHHHHHHHhcccc----cceecccchhHHHHHHH
Confidence 58999999999999999999987321 24556776555544444
No 180
>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=78.60 E-value=3.2 Score=47.98 Aligned_cols=31 Identities=23% Similarity=0.203 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHcCCceeeeCCCCCcch
Q 002378 21 SIQTDFMKALYCSLENGGVSMLESPTGTGKT 51 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~~~~esptgtgkt 51 (929)
..+...+.+++.-++++.|.|+-+|+|||||
T Consensus 193 r~k~~~L~rl~~fve~~~Nli~lGp~GTGKT 223 (449)
T TIGR02688 193 RQKLLLLARLLPLVEPNYNLIELGPKGTGKS 223 (449)
T ss_pred HHHHHHHHhhHHHHhcCCcEEEECCCCCCHH
Confidence 3455566666677899999999999999999
No 181
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=78.40 E-value=14 Score=47.76 Aligned_cols=86 Identities=9% Similarity=0.124 Sum_probs=54.0
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCC-chHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGN-THVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLA 762 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~-~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~a 762 (929)
....||||...=.+|+.+.+++...+ ...+.+.+..+ .++..++++|.+. .+..-.+|++
T Consensus 486 ~g~KVLIFSQft~~LdiLed~L~~~g-------~~y~rIdGsts~~eRq~~Id~Fn~~------------~s~~~VfLLS 546 (1033)
T PLN03142 486 RDSRVLIFSQMTRLLDILEDYLMYRG-------YQYCRIDGNTGGEDRDASIDAFNKP------------GSEKFVFLLS 546 (1033)
T ss_pred cCCeEEeehhHHHHHHHHHHHHHHcC-------CcEEEECCCCCHHHHHHHHHHhccc------------cCCceEEEEe
Confidence 34567776655555555555554332 23345565433 4789999999651 0112245555
Q ss_pred EecCccccccccCCCcceEEEEEccCCCCC
Q 002378 763 VVGGKISEGINFSDGMGRCIVMVGLPYPSP 792 (929)
Q Consensus 763 V~rGk~sEGIDf~d~~~r~ViivGlPfp~~ 792 (929)
. ....+|||+.. +..||+.-+|+-|.
T Consensus 547 T--rAGGlGINLt~--Ad~VIiyD~dWNP~ 572 (1033)
T PLN03142 547 T--RAGGLGINLAT--ADIVILYDSDWNPQ 572 (1033)
T ss_pred c--cccccCCchhh--CCEEEEeCCCCChH
Confidence 5 78899999987 78899998887443
No 182
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=78.36 E-value=2.4 Score=47.61 Aligned_cols=33 Identities=21% Similarity=0.426 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHcCC--ceeeeCCCCCcchHHH
Q 002378 22 IQTDFMKALYCSLENGG--VSMLESPTGTGKTLSI 54 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~--~~~~esptgtgktl~~ 54 (929)
.|....+.+...+..+. +.+|.||+|||||...
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la 53 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAV 53 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHH
Confidence 46777888888888887 8999999999999544
No 183
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=78.27 E-value=0.76 Score=53.59 Aligned_cols=43 Identities=23% Similarity=0.316 Sum_probs=33.5
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 18 KPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
.|.+||-..+-. ++..+.++|--+-||+||||+|-++.++-+.
T Consensus 203 ~Pt~IQsl~lp~---ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~ 245 (731)
T KOG0347|consen 203 RPTEIQSLVLPA---AIRGKVDILGAAETGSGKTLAFGIPIVERLL 245 (731)
T ss_pred CCccchhhcccH---hhccchhcccccccCCCceeeecchhhhhhh
Confidence 399999876552 3334477888999999999999999999443
No 184
>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=78.18 E-value=2.1 Score=44.75 Aligned_cols=32 Identities=34% Similarity=0.398 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 22 IQTDFMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
-|...-+.+.-+...+.+.++.+|.|||||+.
T Consensus 7 GQe~aKrAL~iAAaG~h~lLl~GppGtGKTml 38 (206)
T PF01078_consen 7 GQEEAKRALEIAAAGGHHLLLIGPPGTGKTML 38 (206)
T ss_dssp STHHHHHHHHHHHHCC--EEEES-CCCTHHHH
T ss_pred CcHHHHHHHHHHHcCCCCeEEECCCCCCHHHH
Confidence 47778888888888899999999999999963
No 185
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=77.90 E-value=1.1 Score=47.81 Aligned_cols=16 Identities=38% Similarity=0.594 Sum_probs=14.7
Q ss_pred CCceeeeCCCCCcchH
Q 002378 37 GGVSMLESPTGTGKTL 52 (929)
Q Consensus 37 ~~~~~~esptgtgktl 52 (929)
-++++|-+|+|||||+
T Consensus 151 PknVLFyGppGTGKTm 166 (368)
T COG1223 151 PKNVLFYGPPGTGKTM 166 (368)
T ss_pred cceeEEECCCCccHHH
Confidence 3899999999999996
No 186
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=77.83 E-value=1.2 Score=59.31 Aligned_cols=23 Identities=39% Similarity=0.579 Sum_probs=20.3
Q ss_pred eeCCCCCcchHHHHHHHHHhHHH
Q 002378 42 LESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 42 ~esptgtgktl~~l~~~l~~~~~ 64 (929)
+.+|||||||||++.++|..+..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~ 23 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFR 23 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHh
Confidence 35899999999999999988764
No 187
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=77.80 E-value=3 Score=45.84 Aligned_cols=38 Identities=24% Similarity=0.233 Sum_probs=28.9
Q ss_pred CHHHHHHHHHHHHHHHc--CCceeeeCCCCCcchHHHHHH
Q 002378 20 YSIQTDFMKALYCSLEN--GGVSMLESPTGTGKTLSIICS 57 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~--~~~~~~esptgtgktl~~l~~ 57 (929)
--.|......+..++.. .-+-+|-+|.|||||-+.+..
T Consensus 38 ~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalaf 77 (346)
T KOG0989|consen 38 LAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAF 77 (346)
T ss_pred hcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHH
Confidence 34677777777777776 478899999999999765543
No 188
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=77.13 E-value=1.8 Score=49.21 Aligned_cols=42 Identities=31% Similarity=0.447 Sum_probs=35.7
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchH
Q 002378 11 EFPAFPYKPYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTL 52 (929)
Q Consensus 11 ~~~~FPf~py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl 52 (929)
+.+.|||.----|.+.+..++-++.+. ..+++.+|+|||||.
T Consensus 10 ~~~~~pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~ 53 (350)
T CHL00081 10 ERPVFPFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKST 53 (350)
T ss_pred cCCCCCHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHH
Confidence 356799998889999999999998774 357899999999994
No 189
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=76.80 E-value=12 Score=44.06 Aligned_cols=110 Identities=22% Similarity=0.360 Sum_probs=73.3
Q ss_pred HHHHHHHHHHHhhccCC-CeEEEccCHHHHHHHHHHHHhcChhHHhh---------------cCccEEEcC--CCCchHH
Q 002378 670 IEELGLLLCNLVSVVPE-GIIVFFPSFEYVERVYGAWKSLGILDRIM---------------KKKHVFREP--RGNTHVE 731 (929)
Q Consensus 670 ~~~l~~~i~~~~~~vpg-g~LVfFpSy~~l~~~~~~w~~~~~~~~l~---------------~~K~if~E~--~~~~~~~ 731 (929)
+-.|+.+|.+.|+.-+. .++|||.+-+..+-=|+.+... +|.+++ ..-++|.=- ....++.
T Consensus 409 LV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~-l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRt 487 (708)
T KOG0348|consen 409 LVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEA-LLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERT 487 (708)
T ss_pred HHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhh-hhcccccccCCcccCCChhhhhcceEEEecCchhHHHHH
Confidence 45688888888887654 6999999988888777766543 111111 111233211 1123677
Q ss_pred HHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhcc
Q 002378 732 SVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLG 808 (929)
Q Consensus 732 ~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~ 808 (929)
.+++.|+. .+.+||||. .-.+.|+|||+ .++||=.--||... +|+-+.+
T Consensus 488 s~f~~Fs~---------------~~~~VLLcT--DVAaRGLDlP~--V~~vVQYd~P~s~a---------dylHRvG 536 (708)
T KOG0348|consen 488 SVFQEFSH---------------SRRAVLLCT--DVAARGLDLPH--VGLVVQYDPPFSTA---------DYLHRVG 536 (708)
T ss_pred HHHHhhcc---------------ccceEEEeh--hhhhccCCCCC--cCeEEEeCCCCCHH---------HHHHHhh
Confidence 88889987 467899999 89999999998 56777766666432 5776654
No 190
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=76.59 E-value=3.8 Score=42.61 Aligned_cols=39 Identities=31% Similarity=0.450 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHcC-CceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 21 SIQTDFMKALYCSLENG-GVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~-~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
+.|...++.++ .++ ...++.+|.|||||-.+ ......+.
T Consensus 4 ~~Q~~a~~~~l---~~~~~~~~l~G~aGtGKT~~l-~~~~~~~~ 43 (196)
T PF13604_consen 4 EEQREAVRAIL---TSGDRVSVLQGPAGTGKTTLL-KALAEALE 43 (196)
T ss_dssp HHHHHHHHHHH---HCTCSEEEEEESTTSTHHHHH-HHHHHHHH
T ss_pred HHHHHHHHHHH---hcCCeEEEEEECCCCCHHHHH-HHHHHHHH
Confidence 57888888764 344 57889999999999754 33443333
No 191
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=76.32 E-value=2.5 Score=47.90 Aligned_cols=28 Identities=29% Similarity=0.302 Sum_probs=23.3
Q ss_pred HHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 26 FMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 26 ~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
+..-+..++..+++.++.+|||+|||-.
T Consensus 151 ~~~~l~~~v~~~~nilI~G~tGSGKTTl 178 (344)
T PRK13851 151 LEAFLHACVVGRLTMLLCGPTGSGKTTM 178 (344)
T ss_pred HHHHHHHHHHcCCeEEEECCCCccHHHH
Confidence 4555667788999999999999999943
No 192
>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=76.26 E-value=2.1 Score=46.73 Aligned_cols=36 Identities=25% Similarity=0.397 Sum_probs=26.7
Q ss_pred HHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 28 KALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 28 ~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
+.+..++..+.+.++.||||+|||-.+ .+.+.++..
T Consensus 118 ~~l~~~v~~~~~ili~G~tGSGKTT~l-~all~~i~~ 153 (270)
T PF00437_consen 118 EFLRSAVRGRGNILISGPTGSGKTTLL-NALLEEIPP 153 (270)
T ss_dssp HHHHHCHHTTEEEEEEESTTSSHHHHH-HHHHHHCHT
T ss_pred HHHhhccccceEEEEECCCccccchHH-HHHhhhccc
Confidence 344445677899999999999999554 666666654
No 193
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=76.26 E-value=2.7 Score=47.26 Aligned_cols=26 Identities=19% Similarity=0.287 Sum_probs=21.5
Q ss_pred HHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 28 KALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 28 ~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
..+..++..+++.|+.+|||+|||-.
T Consensus 135 ~~L~~~v~~~~nilI~G~tGSGKTTl 160 (323)
T PRK13833 135 SVIRSAIDSRLNIVISGGTGSGKTTL 160 (323)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHHHH
Confidence 44566777899999999999999943
No 194
>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=75.91 E-value=3.1 Score=46.63 Aligned_cols=29 Identities=24% Similarity=0.305 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHcCCceeeeCCCCCcchH
Q 002378 24 TDFMKALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 24 ~~~M~~v~~~~~~~~~~~~esptgtgktl 52 (929)
.+.-+.|..+|..+++++|++|+|||||.
T Consensus 51 ~~~~~~vl~~l~~~~~ilL~G~pGtGKTt 79 (327)
T TIGR01650 51 KATTKAICAGFAYDRRVMVQGYHGTGKST 79 (327)
T ss_pred HHHHHHHHHHHhcCCcEEEEeCCCChHHH
Confidence 34455688889899999999999999995
No 195
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=75.90 E-value=2.8 Score=51.42 Aligned_cols=141 Identities=11% Similarity=0.117 Sum_probs=77.3
Q ss_pred hhHHHHHHHHhhceEEEeccCCCCh-hhHHHhhCCCCCCCceeeeecCCccCCCCceEEEeecCCCCCceeeeecccCCh
Q 002378 589 GEKVFSEIVEQAHAVILAGGTLQPI-EETRERLFPWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSS 667 (929)
Q Consensus 589 ps~~f~~l~~~~~svILtSGTLsP~-~~f~~~L~~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~ 667 (929)
.+..++.++.....+--|+||...- +.|.+..... .+ +||++.-. +-.+-|+ .-|.+ ..
T Consensus 351 AsIT~QnfFr~Y~kLsGMTGTa~t~~~Ef~~iY~l~-------Vv----~IPtnkp~--~R~d~~d-----~iy~t--~~ 410 (764)
T PRK12326 351 DTITVQALIGRYPTVCGMTGTAVAAGEQLRQFYDLG-------VS----VIPPNKPN--IREDEAD-----RVYAT--AA 410 (764)
T ss_pred ehhhHHHHHHhcchheeecCCChhHHHHHHHHhCCc-------EE----ECCCCCCc--eeecCCC-----ceEeC--HH
Confidence 3556777777777788999998643 2333222111 11 12322111 1111122 12333 23
Q ss_pred HHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCC
Q 002378 668 AMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSR 747 (929)
Q Consensus 668 ~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~ 747 (929)
+....+.+.|..+.+ ..-.|||...|-..-+.+...+++.++-. .|+-- ++...=..++. ..|
T Consensus 411 ~k~~Aii~ei~~~~~-~GrPVLVgt~sI~~SE~ls~~L~~~gI~h------~vLNA-k~~~~EA~IIa------~AG--- 473 (764)
T PRK12326 411 EKNDAIVEHIAEVHE-TGQPVLVGTHDVAESEELAERLRAAGVPA------VVLNA-KNDAEEARIIA------EAG--- 473 (764)
T ss_pred HHHHHHHHHHHHHHH-cCCCEEEEeCCHHHHHHHHHHHHhCCCcc------eeecc-CchHhHHHHHH------hcC---
Confidence 445666666666533 55679999999999999999988876422 23311 11111122222 122
Q ss_pred CCCCCCCCCCcEEEEEecCccccccccC
Q 002378 748 PKEDSTPLNGAMLLAVVGGKISEGINFS 775 (929)
Q Consensus 748 ~~~~~~~~~gaiL~aV~rGk~sEGIDf~ 775 (929)
..|+|-+|. .=...|.|+.
T Consensus 474 -------~~gaVTIAT--NMAGRGTDIk 492 (764)
T PRK12326 474 -------KYGAVTVST--QMAGRGTDIR 492 (764)
T ss_pred -------CCCcEEEEe--cCCCCccCee
Confidence 479999999 6667887764
No 196
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=75.41 E-value=2.9 Score=54.85 Aligned_cols=34 Identities=21% Similarity=0.201 Sum_probs=32.5
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl 52 (929)
|-.+|++..+.|++||+.+-..|+-+|||||||-
T Consensus 1832 ~l~sql~vlEsV~~cIn~nwPlIlvG~t~~GKt~ 1865 (4600)
T COG5271 1832 LLHSQLQVLESVMRCINMNWPLILVGDTGVGKTS 1865 (4600)
T ss_pred hhhhhhHHHHHHHHHHhcCCCEEEEcCCCCchHH
Confidence 7789999999999999999999999999999994
No 197
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=75.06 E-value=3 Score=48.99 Aligned_cols=44 Identities=27% Similarity=0.419 Sum_probs=28.7
Q ss_pred CHHHHHHHHHHHHHHHcC-CceeeeCCCCCcchHHHHHHHHHhHHHHHH
Q 002378 20 YSIQTDFMKALYCSLENG-GVSMLESPTGTGKTLSIICSALQWVVDQKQ 67 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~-~~~~~esptgtgktl~~l~~~l~~~~~~~~ 67 (929)
++-|...+..+ +... ...++.+|||+|||-+ |-++|.|+.....
T Consensus 243 ~~~~~~~~~~~---~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~~~~ 287 (500)
T COG2804 243 SPFQLARLLRL---LNRPQGLILVTGPTGSGKTTT-LYAALSELNTPER 287 (500)
T ss_pred CHHHHHHHHHH---HhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcCCCc
Confidence 44555554433 2322 5566799999999976 5678888887443
No 198
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=75.02 E-value=1.2 Score=44.67 Aligned_cols=37 Identities=32% Similarity=0.347 Sum_probs=26.6
Q ss_pred cEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChHH
Q 002378 360 DLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLAD 397 (929)
Q Consensus 360 dII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~d 397 (929)
+|++++|..+.+..-... .......++||||||++..
T Consensus 107 ~v~~~t~~~l~~~~~~~~-~~~~~~~~iIiDE~h~~~~ 143 (201)
T smart00487 107 DILVTTPGRLLDLLENDL-LELSNVDLVILDEAHRLLD 143 (201)
T ss_pred CEEEeChHHHHHHHHcCC-cCHhHCCEEEEECHHHHhc
Confidence 999999998888753211 1122346899999999975
No 199
>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=74.89 E-value=4 Score=44.59 Aligned_cols=34 Identities=35% Similarity=0.496 Sum_probs=23.2
Q ss_pred HHHHHH-cCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 30 LYCSLE-NGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 30 v~~~~~-~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
+.+.+. .+..+++-+|||+|||-.+ .+.|.++.+
T Consensus 72 l~~~~~~~~GlilisG~tGSGKTT~l-~all~~i~~ 106 (264)
T cd01129 72 FRKLLEKPHGIILVTGPTGSGKTTTL-YSALSELNT 106 (264)
T ss_pred HHHHHhcCCCEEEEECCCCCcHHHHH-HHHHhhhCC
Confidence 344444 3467899999999999554 556666643
No 200
>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=74.89 E-value=3.4 Score=42.44 Aligned_cols=29 Identities=24% Similarity=0.380 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 22 IQTDFMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
-|.++++ .++..|++.++-+|||+|||-.
T Consensus 13 ~~~~~l~---~~v~~g~~i~I~G~tGSGKTTl 41 (186)
T cd01130 13 LQAAYLW---LAVEARKNILISGGTGSGKTTL 41 (186)
T ss_pred HHHHHHH---HHHhCCCEEEEECCCCCCHHHH
Confidence 4555544 5677899999999999999954
No 201
>PLN03025 replication factor C subunit; Provisional
Probab=74.67 E-value=3.7 Score=46.10 Aligned_cols=34 Identities=35% Similarity=0.453 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHcC--CceeeeCCCCCcchHHHH
Q 002378 22 IQTDFMKALYCSLENG--GVSMLESPTGTGKTLSII 55 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl~~l 55 (929)
.|.+.++.+...+..+ .+.+|.||.|||||-...
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~ 52 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSIL 52 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHH
Confidence 4667777777777766 578999999999995443
No 202
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=74.45 E-value=21 Score=45.64 Aligned_cols=169 Identities=20% Similarity=0.206 Sum_probs=91.1
Q ss_pred ChhHHHHHHHHhhc------eEEEeccCCCChhhHHHhhCCCCCCCceeeeecCCccCCCCceEEEeecCCCCCceeeee
Q 002378 588 TGEKVFSEIVEQAH------AVILAGGTLQPIEETRERLFPWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSFDFSY 661 (929)
Q Consensus 588 ~ps~~f~~l~~~~~------svILtSGTLsP~~~f~~~L~~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l~~~y 661 (929)
+.+..++.|..-++ .+|++|||+.-..+|...++... +...-.....|..-..+ ++-.-|. ... ..
T Consensus 214 ~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np~e~~~~l~~~~----f~~~v~~~g~~~~~~~~-~~~~p~~-~~~--~~ 285 (851)
T COG1205 214 EVALLLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFGRD----FEVPVDEDGSPRGLRYF-VRREPPI-REL--AE 285 (851)
T ss_pred HHHHHHHHHHHHHhccCCCceEEEEeccccChHHHHHHhcCCc----ceeeccCCCCCCCceEE-EEeCCcc-hhh--hh
Confidence 35677777776555 79999999999999998885321 11100111122222221 2111110 000 00
Q ss_pred cccCChHHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHH----hcC--hhHHhhcCccEEEcCCCCchHHHHHH
Q 002378 662 GSRSSSAMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWK----SLG--ILDRIMKKKHVFREPRGNTHVESVLK 735 (929)
Q Consensus 662 ~~R~~~~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~----~~~--~~~~l~~~K~if~E~~~~~~~~~~l~ 735 (929)
.-|. +....+...+..+. ...--+||||-|....+.++..-. ..+ +...+. .+.-.-...+...+..
T Consensus 286 ~~r~--s~~~~~~~~~~~~~-~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~----~~~~~~~~~er~~ie~ 358 (851)
T COG1205 286 SIRR--SALAELATLAALLV-RNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVS----TYRAGLHREERRRIEA 358 (851)
T ss_pred hccc--chHHHHHHHHHHHH-HcCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhhee----eccccCCHHHHHHHHH
Confidence 0122 22233333333332 234469999999999999873322 222 111111 1111111235666777
Q ss_pred HHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCC
Q 002378 736 EYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYP 790 (929)
Q Consensus 736 ~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp 790 (929)
.++. ++..+++++ --+-=|||.-+ +-+||+.|+|.-
T Consensus 359 ~~~~---------------g~~~~~~st--~AlelgidiG~--ldavi~~g~P~~ 394 (851)
T COG1205 359 EFKE---------------GELLGVIAT--NALELGIDIGS--LDAVIAYGYPGV 394 (851)
T ss_pred HHhc---------------CCccEEecc--hhhhhceeehh--hhhHhhcCCCCc
Confidence 7766 466777777 78888999987 567999999874
No 203
>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=74.41 E-value=3.4 Score=46.04 Aligned_cols=26 Identities=23% Similarity=0.188 Sum_probs=21.1
Q ss_pred HHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 28 KALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 28 ~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
.-+..++..+++.++.+|||+|||-.
T Consensus 123 ~~L~~~v~~~~~ilI~G~tGSGKTTl 148 (299)
T TIGR02782 123 DVLREAVLARKNILVVGGTGSGKTTL 148 (299)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHHHH
Confidence 34556677899999999999999943
No 204
>PRK06921 hypothetical protein; Provisional
Probab=74.35 E-value=4.4 Score=44.32 Aligned_cols=19 Identities=26% Similarity=0.296 Sum_probs=15.9
Q ss_pred cCCceeeeCCCCCcchHHH
Q 002378 36 NGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 36 ~~~~~~~esptgtgktl~~ 54 (929)
.+.+.+|-||||||||--+
T Consensus 116 ~~~~l~l~G~~G~GKThLa 134 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLL 134 (266)
T ss_pred CCCeEEEECCCCCcHHHHH
Confidence 4678999999999999533
No 205
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=74.25 E-value=2.7 Score=49.17 Aligned_cols=46 Identities=33% Similarity=0.463 Sum_probs=39.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHcC-CceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 14 AFPYKPYSIQTDFMKALYCSLENG-GVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 14 ~FPf~py~~Q~~~M~~v~~~~~~~-~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
+=||+|-.=|-..++++.+.|.+| +.-+|-+-||||||. +++|+-.
T Consensus 8 ~s~f~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTf-----T~AnVI~ 54 (663)
T COG0556 8 HSPFKPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTF-----TMANVIA 54 (663)
T ss_pred ccCCCCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchh-----HHHHHHH
Confidence 358999999999999999999999 678899999999996 4566654
No 206
>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=74.08 E-value=89 Score=39.30 Aligned_cols=36 Identities=36% Similarity=0.488 Sum_probs=26.7
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHH
Q 002378 18 KPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l 59 (929)
.||++|..- .+ .+..| .|+|+|||+||||+++.+++
T Consensus 70 rpydVQlig--~l--~l~~G--~Iaem~TGeGKTLta~Lpa~ 105 (762)
T TIGR03714 70 FPYDVQVLG--AI--VLHQG--NIAEMKTGEGKTLTATMPLY 105 (762)
T ss_pred CccHHHHHH--HH--HhcCC--ceeEecCCcchHHHHHHHHH
Confidence 478888543 22 33444 69999999999999999953
No 207
>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=73.50 E-value=2.6 Score=42.90 Aligned_cols=15 Identities=40% Similarity=0.618 Sum_probs=13.1
Q ss_pred CceeeeCCCCCcchH
Q 002378 38 GVSMLESPTGTGKTL 52 (929)
Q Consensus 38 ~~~~~esptgtgktl 52 (929)
.+.+|-+|||+|||.
T Consensus 4 ~~~ll~GpsGvGKT~ 18 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTE 18 (171)
T ss_dssp EEEEEESSTTSSHHH
T ss_pred EEEEEECCCCCCHHH
Confidence 467899999999994
No 208
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=73.37 E-value=23 Score=40.13 Aligned_cols=22 Identities=18% Similarity=0.220 Sum_probs=17.7
Q ss_pred ccccCCCcceEEEEEccCCCCC
Q 002378 771 GINFSDGMGRCIVMVGLPYPSP 792 (929)
Q Consensus 771 GIDf~d~~~r~ViivGlPfp~~ 792 (929)
...|.....|++|...+-=+..
T Consensus 306 ~~ef~~gssrvlIttdl~argi 327 (397)
T KOG0327|consen 306 MREFRSGSSRVLITTDLLARGI 327 (397)
T ss_pred HHHhhcCCceEEeecccccccc
Confidence 5678888889998888877766
No 209
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=72.77 E-value=4.6 Score=46.83 Aligned_cols=30 Identities=37% Similarity=0.420 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHc----------------CCceeeeCCCCCcch
Q 002378 22 IQTDFMKALYCSLEN----------------GGVSMLESPTGTGKT 51 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~----------------~~~~~~esptgtgkt 51 (929)
-|...-+.|..++.+ .++.+|.+|||||||
T Consensus 19 GQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT 64 (443)
T PRK05201 19 GQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKT 64 (443)
T ss_pred CHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHH
Confidence 567777777777754 478999999999999
No 210
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=72.70 E-value=78 Score=40.59 Aligned_cols=197 Identities=16% Similarity=0.137 Sum_probs=102.8
Q ss_pred eEEEeccCCCChhhHHHhhCCCCCCCceeeeecCCccCCCCceEEEeecCCCCCceeeeecccCChHHHHHH-HHHHHHH
Q 002378 602 AVILAGGTLQPIEETRERLFPWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSSAMIEEL-GLLLCNL 680 (929)
Q Consensus 602 svILtSGTLsP~~~f~~~L~~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l-~~~i~~~ 680 (929)
-+|-.||||--+.+.+..|..+.. ...|+....+-|-.+.-.++ |.+. . +++...+.+++. ...+.+.
T Consensus 277 RivgLSATlPN~eDvA~fL~vn~~---~glfsFd~~yRPvpL~~~~i-----G~k~--~-~~~~~~~~~d~~~~~kv~e~ 345 (1230)
T KOG0952|consen 277 RIVGLSATLPNYEDVARFLRVNPY---AGLFSFDQRYRPVPLTQGFI-----GIKG--K-KNRQQKKNIDEVCYDKVVEF 345 (1230)
T ss_pred EEEEeeccCCCHHHHHHHhcCCCc---cceeeecccccccceeeeEE-----eeec--c-cchhhhhhHHHHHHHHHHHH
Confidence 468899999888888888854421 12344444443222222222 1111 1 233333333332 2222222
Q ss_pred hhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHH---------------HHHHHhccC
Q 002378 681 VSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKE---------------YQKTIDTLS 745 (929)
Q Consensus 681 ~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~---------------y~~~i~~~~ 745 (929)
.+ -..-++||.+|-.---...+.+.+... -...+..|+-.+....+.+++++ +.+-+..
T Consensus 346 ~~-~g~qVlvFvhsR~~Ti~tA~~l~~~a~---~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~E~~F~-- 419 (1230)
T KOG0952|consen 346 LQ-EGHQVLVFVHSRNETIRTAKKLRERAE---TNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVEKEFK-- 419 (1230)
T ss_pred HH-cCCeEEEEEecChHHHHHHHHHHHHHH---hcCcccccCCChhhHHHHHHHHhhhhhcccccchhhHHHHHHHHh--
Confidence 21 234699999998877766666655422 11233444433211111111110 0010110
Q ss_pred CCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhccCCCCCccCCcccccccc
Q 002378 746 SRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLGDTNSKTLNTSASDAYYN 825 (929)
Q Consensus 746 ~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~ 825 (929)
.+.-.||+|. ..+.=|+|+|. -+|||-|-|+-... . +
T Consensus 420 --------~G~i~vL~cT--aTLAwGVNLPA---~aViIKGT~~ydss-------------k----g------------- 456 (1230)
T KOG0952|consen 420 --------EGHIKVLCCT--ATLAWGVNLPA---YAVIIKGTQVYDSS-------------K----G------------- 456 (1230)
T ss_pred --------cCCceEEEec--ceeeeccCCcc---eEEEecCCcccccc-------------c----C-------------
Confidence 0223556665 89999999998 56999997764331 1 0
Q ss_pred CCcccccccccccCCCchhhHhhHHHHHHHHhhcccccCC-CCeEEEEEEecc
Q 002378 826 GDAQAGFGILRSCRGRGKEYYENLCMKAVNQSIGRAIRHI-NDHAAILLVDLR 877 (929)
Q Consensus 826 ~~~~~~~~~~~~~~~~g~~~y~~~a~ravnQaiGR~IRh~-~D~g~iiLlD~R 877 (929)
++ .....--|-|-+||+=|-. ++.|..+|+=.|
T Consensus 457 ----------------~f---~dlgilDVlQifGRAGRPqFd~~G~giIiTt~ 490 (1230)
T KOG0952|consen 457 ----------------SF---VDLGILDVLQIFGRAGRPQFDSSGEGIIITTR 490 (1230)
T ss_pred ----------------ce---eeehHHHHHHHHhccCCCCCCCCceEEEEecc
Confidence 00 1113445889999999987 466877777554
No 211
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=72.59 E-value=0.89 Score=48.90 Aligned_cols=46 Identities=28% Similarity=0.418 Sum_probs=38.1
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 14 AFPYK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 14 ~FPf~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
.+-|+ |-.||...+. .|-.|.++|..|-.|||||.++-|+.|.-++
T Consensus 44 ~yGfekPS~IQqrAi~----~IlkGrdViaQaqSGTGKTa~~si~vlq~~d 90 (400)
T KOG0328|consen 44 AYGFEKPSAIQQRAIP----QILKGRDVIAQAQSGTGKTATFSISVLQSLD 90 (400)
T ss_pred HhccCCchHHHhhhhh----hhhcccceEEEecCCCCceEEEEeeeeeecc
Confidence 35676 8889987755 6677999999999999999999999886543
No 212
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=72.32 E-value=2.3 Score=54.34 Aligned_cols=38 Identities=26% Similarity=0.352 Sum_probs=27.4
Q ss_pred CCcEEEeccccccCH-HHHHHhCCCCCCCEEEEeCCcChH
Q 002378 358 TADLVVLPYQSLLSK-SARESLGLNLKNNIVIIDEAHNLA 396 (929)
Q Consensus 358 ~AdII~~pYnyLl~~-~~R~~l~i~l~~~ivI~DEAHNL~ 396 (929)
..++||++|.+|-.. ..++.+. ...-.+|||||||+|-
T Consensus 247 ~~~~vI~S~~~l~~~~~~~~~l~-~~~wdlvIvDEAH~lk 285 (956)
T PRK04914 247 TEQLVICSLDFLRRNKQRLEQAL-AAEWDLLVVDEAHHLV 285 (956)
T ss_pred cCcEEEEEHHHhhhCHHHHHHHh-hcCCCEEEEechhhhc
Confidence 579999999999873 3333321 2245689999999995
No 213
>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=71.97 E-value=4.6 Score=43.70 Aligned_cols=33 Identities=21% Similarity=0.207 Sum_probs=25.0
Q ss_pred CHHHHHHHHHHHHHHHcCC-ceeeeCCCCCcchH
Q 002378 20 YSIQTDFMKALYCSLENGG-VSMLESPTGTGKTL 52 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~~-~~~~esptgtgktl 52 (929)
-+.+...+..+-..+..+. .+++-+|+|+|||.
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTt 58 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTT 58 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHH
Confidence 3456667777766677654 78999999999994
No 214
>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=71.89 E-value=7.8 Score=44.09 Aligned_cols=24 Identities=25% Similarity=0.238 Sum_probs=17.1
Q ss_pred CceeeeCCCCCcchHHHHHHHHHhH
Q 002378 38 GVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
.++++-||+|||||.. +..++.-+
T Consensus 41 ~~i~I~G~~GtGKT~l-~~~~~~~l 64 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAV-TKYVMKEL 64 (365)
T ss_pred CcEEEECCCCCCHHHH-HHHHHHHH
Confidence 5799999999999943 34444333
No 215
>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=71.56 E-value=4.2 Score=46.57 Aligned_cols=34 Identities=26% Similarity=0.417 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHH--HcCCceeeeCCCCCcchHHH
Q 002378 21 SIQTDFMKALYCSL--ENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~--~~~~~~~~esptgtgktl~~ 54 (929)
+.|+..+..|++++ ..+.+.++.+|-|||||..+
T Consensus 4 ~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~ 39 (364)
T PF05970_consen 4 EEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLI 39 (364)
T ss_pred HHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHH
Confidence 57999999998888 45678889999999999754
No 216
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=71.50 E-value=3.1 Score=52.29 Aligned_cols=29 Identities=24% Similarity=0.389 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 25 DFMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 25 ~~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
..+.+|.++|.+...+|+.+|||+|||--
T Consensus 53 ~~~~~i~~ai~~~~vvii~getGsGKTTq 81 (845)
T COG1643 53 AVRDEILKAIEQNQVVIIVGETGSGKTTQ 81 (845)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCChHHH
Confidence 45677788999999999999999999954
No 217
>COG4889 Predicted helicase [General function prediction only]
Probab=71.40 E-value=2.7 Score=51.66 Aligned_cols=44 Identities=25% Similarity=0.525 Sum_probs=0.0
Q ss_pred cccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhccCCCCCccCCccccccccCCcccccccccccCCCchhhHh
Q 002378 768 ISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLGDTNSKTLNTSASDAYYNGDAQAGFGILRSCRGRGKEYYE 847 (929)
Q Consensus 768 ~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~y~ 847 (929)
+|||||.|- +.+|| |-+|.+
T Consensus 538 LSEGVDVPa--LDsVi-----Ff~pr~----------------------------------------------------- 557 (1518)
T COG4889 538 LSEGVDVPA--LDSVI-----FFDPRS----------------------------------------------------- 557 (1518)
T ss_pred hhcCCCccc--cceEE-----EecCch-----------------------------------------------------
Q ss_pred hHHHHHHHHhhcccccCC--CCeEEEEE
Q 002378 848 NLCMKAVNQSIGRAIRHI--NDHAAILL 873 (929)
Q Consensus 848 ~~a~ravnQaiGR~IRh~--~D~g~iiL 873 (929)
+|--|.||+||++|.. .|||-|||
T Consensus 558 --smVDIVQaVGRVMRKa~gK~yGYIIL 583 (1518)
T COG4889 558 --SMVDIVQAVGRVMRKAKGKKYGYIIL 583 (1518)
T ss_pred --hHHHHHHHHHHHHHhCcCCccceEEE
No 218
>PRK10436 hypothetical protein; Provisional
Probab=70.86 E-value=5.7 Score=46.92 Aligned_cols=28 Identities=39% Similarity=0.633 Sum_probs=22.5
Q ss_pred cCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 36 NGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 36 ~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
.+...|+.+|||+|||-.+ -++|.++..
T Consensus 217 ~~GliLvtGpTGSGKTTtL-~a~l~~~~~ 244 (462)
T PRK10436 217 PQGLILVTGPTGSGKTVTL-YSALQTLNT 244 (462)
T ss_pred cCCeEEEECCCCCChHHHH-HHHHHhhCC
Confidence 5578899999999999776 567777654
No 219
>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=70.60 E-value=5.5 Score=48.43 Aligned_cols=31 Identities=32% Similarity=0.589 Sum_probs=23.5
Q ss_pred HHHH-cCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 32 CSLE-NGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 32 ~~~~-~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
+.+. .+..+|+.+|||+|||-++ .+.|.++.
T Consensus 310 ~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~~ 341 (564)
T TIGR02538 310 EAIHKPQGMVLVTGPTGSGKTVSL-YTALNILN 341 (564)
T ss_pred HHHHhcCCeEEEECCCCCCHHHHH-HHHHHhhC
Confidence 3444 3577889999999999775 77787774
No 220
>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=70.47 E-value=4.4 Score=42.65 Aligned_cols=33 Identities=18% Similarity=0.198 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHH--cCCceeeeCCCCCcchHHH
Q 002378 22 IQTDFMKALYCSLE--NGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~--~~~~~~~esptgtgktl~~ 54 (929)
.+...++.+-+.+. .+.+.+|.||+|||||...
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la 55 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLL 55 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHH
Confidence 46666666666543 3467999999999999543
No 221
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=70.17 E-value=4.5 Score=45.28 Aligned_cols=38 Identities=18% Similarity=0.310 Sum_probs=30.4
Q ss_pred HHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 26 FMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 26 ~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
.|.-++.+++++++.++.+|||+||| .+|.+.+..+-.
T Consensus 132 ~~ayL~~~ie~~~siii~G~t~sGKT-t~lnall~~Ip~ 169 (312)
T COG0630 132 QAAYLWLAIEARKSIIICGGTASGKT-TLLNALLDFIPP 169 (312)
T ss_pred HHHHHHHHHHcCCcEEEECCCCCCHH-HHHHHHHHhCCc
Confidence 44559999999999999999999999 455666666554
No 222
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=69.89 E-value=19 Score=42.85 Aligned_cols=77 Identities=16% Similarity=0.315 Sum_probs=55.0
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
.+--+|||.-||+--.+++..+. +++.|. ..+..-.+.....+..+++|+. +.--+|+|.
T Consensus 386 ~~PP~lIfVQs~eRak~L~~~L~---~~~~i~--v~vIh~e~~~~qrde~~~~FR~---------------g~IwvLicT 445 (593)
T KOG0344|consen 386 FKPPVLIFVQSKERAKQLFEELE---IYDNIN--VDVIHGERSQKQRDETMERFRI---------------GKIWVLICT 445 (593)
T ss_pred CCCCeEEEEecHHHHHHHHHHhh---hccCcc--eeeEecccchhHHHHHHHHHhc---------------cCeeEEEeh
Confidence 55679999999999999988774 334443 2233333345678999999987 334455555
Q ss_pred ecCccccccccCCCcceEEEE
Q 002378 764 VGGKISEGINFSDGMGRCIVM 784 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~Vii 784 (929)
+-+..||||.| .++||.
T Consensus 446 --dll~RGiDf~g--vn~VIn 462 (593)
T KOG0344|consen 446 --DLLARGIDFKG--VNLVIN 462 (593)
T ss_pred --hhhhccccccC--cceEEe
Confidence 99999999999 455776
No 223
>PRK07952 DNA replication protein DnaC; Validated
Probab=69.88 E-value=9.8 Score=41.06 Aligned_cols=54 Identities=13% Similarity=0.156 Sum_probs=32.4
Q ss_pred ccCCCCCCCCCC----HHHHHHHHHHHHHHHc---C-CceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 9 EAEFPAFPYKPY----SIQTDFMKALYCSLEN---G-GVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 9 ~~~~~~FPf~py----~~Q~~~M~~v~~~~~~---~-~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
|..+.+..|+-| +.|...+..+.+-+++ + ...+|-+|+|||||-- +++...++.
T Consensus 63 ~~~~~~~tFdnf~~~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThL-a~aia~~l~ 124 (244)
T PRK07952 63 RPLHQNCSFENYRVECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHL-AAAICNELL 124 (244)
T ss_pred CccccCCccccccCCCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHH-HHHHHHHHH
Confidence 444444556544 3565566666555543 2 4688999999999953 344444443
No 224
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=69.79 E-value=4.2 Score=47.31 Aligned_cols=23 Identities=39% Similarity=0.589 Sum_probs=17.6
Q ss_pred CCceeeeCCCCCcchHHHHHHHHHh
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
+.+.+|.+|||||||+ |.-+|++
T Consensus 108 ~~~iLl~Gp~GtGKT~--lAr~lA~ 130 (412)
T PRK05342 108 KSNILLIGPTGSGKTL--LAQTLAR 130 (412)
T ss_pred CceEEEEcCCCCCHHH--HHHHHHH
Confidence 3679999999999995 4455553
No 225
>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=69.57 E-value=2.1 Score=41.37 Aligned_cols=23 Identities=35% Similarity=0.540 Sum_probs=16.0
Q ss_pred ceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 39 VSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 39 ~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
++||.+|+|||||. |+-.|+++.
T Consensus 1 ~vlL~G~~G~GKt~--l~~~la~~~ 23 (139)
T PF07728_consen 1 PVLLVGPPGTGKTT--LARELAALL 23 (139)
T ss_dssp EEEEEESSSSSHHH--HHHHHHHHH
T ss_pred CEEEECCCCCCHHH--HHHHHHHHh
Confidence 47899999999994 334444433
No 226
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.56 E-value=5.5 Score=47.02 Aligned_cols=34 Identities=29% Similarity=0.335 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHcCCc---eeeeCCCCCcchHHH
Q 002378 21 SIQTDFMKALYCSLENGGV---SMLESPTGTGKTLSI 54 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~---~~~esptgtgktl~~ 54 (929)
-.|...++.+...+..++. .||.||.|||||-..
T Consensus 21 VGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlA 57 (484)
T PRK14956 21 IHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIA 57 (484)
T ss_pred hChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 3688999999999999975 399999999999543
No 227
>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=69.51 E-value=5.1 Score=49.41 Aligned_cols=42 Identities=24% Similarity=0.302 Sum_probs=30.8
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
.-+.|...+.. ++......++.+|.|||||-.+......+++
T Consensus 158 ln~~Q~~Av~~---~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~ 199 (637)
T TIGR00376 158 LNESQKEAVSF---ALSSKDLFLIHGPPGTGKTRTLVELIRQLVK 199 (637)
T ss_pred CCHHHHHHHHH---HhcCCCeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 35678876654 5556689999999999999776665555554
No 228
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=69.20 E-value=5.7 Score=44.12 Aligned_cols=36 Identities=22% Similarity=0.349 Sum_probs=29.1
Q ss_pred CHHHHHHHHHHHHHHHcCC--ceeeeCCCCCcchHHHH
Q 002378 20 YSIQTDFMKALYCSLENGG--VSMLESPTGTGKTLSII 55 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~~--~~~~esptgtgktl~~l 55 (929)
+-.|.+.++.+...+..+. +.+|.||.|||||...-
T Consensus 19 ~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~ 56 (319)
T PRK00440 19 IVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAAL 56 (319)
T ss_pred hcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHH
Confidence 3367888899999988874 58999999999996553
No 229
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=69.07 E-value=8.7 Score=41.72 Aligned_cols=44 Identities=27% Similarity=0.291 Sum_probs=28.3
Q ss_pred CCCCCCCCCCHHHHHHH--HHHHHHHHcCCceeeeCCCCCcchHHH
Q 002378 11 EFPAFPYKPYSIQTDFM--KALYCSLENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 11 ~~~~FPf~py~~Q~~~M--~~v~~~~~~~~~~~~esptgtgktl~~ 54 (929)
++|+|=+.|=-.+..++ ....+-+..+++.+|-||+|||||--.
T Consensus 77 ~~~d~~~~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa 122 (254)
T COG1484 77 EEFDFEFQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLA 122 (254)
T ss_pred ccccccCCcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHH
Confidence 44555554432333333 233456778999999999999999533
No 230
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=69.06 E-value=0.71 Score=50.37 Aligned_cols=45 Identities=22% Similarity=0.286 Sum_probs=36.7
Q ss_pred CCC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 16 PYK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 16 Pf~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
-|+ |-|+|.+-+- ....|++.+.-+-.|||||-||++++|..++-
T Consensus 104 G~ekPSPiQeesIP----iaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~ 149 (459)
T KOG0326|consen 104 GFEKPSPIQEESIP----IALTGRDILARAKNGTGKTAAYCIPVLEKIDP 149 (459)
T ss_pred ccCCCCCccccccc----eeecchhhhhhccCCCCCccceechhhhhcCc
Confidence 344 7888987755 44568999999999999999999999987764
No 231
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=69.02 E-value=4.4 Score=53.18 Aligned_cols=28 Identities=21% Similarity=0.344 Sum_probs=24.2
Q ss_pred HHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 26 FMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 26 ~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
.-..|.++|.++.+.|+.|+||||||..
T Consensus 78 ~r~~Il~ai~~~~VviI~GeTGSGKTTq 105 (1294)
T PRK11131 78 KKQDILEAIRDHQVVIVAGETGSGKTTQ 105 (1294)
T ss_pred HHHHHHHHHHhCCeEEEECCCCCCHHHH
Confidence 3456777999999999999999999984
No 232
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=68.90 E-value=4.3 Score=50.80 Aligned_cols=36 Identities=28% Similarity=0.212 Sum_probs=26.5
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHH
Q 002378 17 YKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~ 58 (929)
+.||++|+--. |.-.+--|.|..||-||||+...++
T Consensus 75 ~r~ydvQlig~------l~L~~G~IaEm~TGEGKTL~a~l~a 110 (870)
T CHL00122 75 LRHFDVQLIGG------LVLNDGKIAEMKTGEGKTLVATLPA 110 (870)
T ss_pred CCCCchHhhhh------HhhcCCccccccCCCCchHHHHHHH
Confidence 45899998653 2223557889999999999766655
No 233
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=68.84 E-value=3.9 Score=51.43 Aligned_cols=47 Identities=23% Similarity=0.492 Sum_probs=32.5
Q ss_pred CCCCCC-HHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 15 FPYKPY-SIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 15 FPf~py-~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
|+|+-+ .+|-..-..+| ....|.|+.+|||+|||--.+...|.-+++
T Consensus 106 f~f~~fN~iQS~vFp~aY---~SneNMLIcAPTGsGKT~la~L~ILr~ik~ 153 (1230)
T KOG0952|consen 106 FSFEEFNRIQSEVFPVAY---KSNENMLICAPTGSGKTVLAELCILRTIKE 153 (1230)
T ss_pred ccHHHHHHHHHHhhhhhh---cCCCCEEEECCCCCCchHHHHHHHHHHHHh
Confidence 444422 24444433333 346899999999999998888888887776
No 234
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=68.75 E-value=3.8 Score=51.53 Aligned_cols=37 Identities=27% Similarity=0.369 Sum_probs=26.2
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHH
Q 002378 17 YKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l 59 (929)
..||++|+.- .+ +|..| -|.|..||.||||...++++
T Consensus 81 m~~ydVQliG--g~--~Lh~G--~iaEM~TGEGKTLvA~l~a~ 117 (913)
T PRK13103 81 MRHFDVQLIG--GM--TLHEG--KIAEMRTGEGKTLVGTLAVY 117 (913)
T ss_pred CCcchhHHHh--hh--HhccC--ccccccCCCCChHHHHHHHH
Confidence 4589999754 22 34444 46799999999997666654
No 235
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=68.65 E-value=34 Score=40.17 Aligned_cols=90 Identities=14% Similarity=0.217 Sum_probs=62.1
Q ss_pred hHHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccE-EEcCCCCchHHHHHHHHHHHHhccC
Q 002378 667 SAMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHV-FREPRGNTHVESVLKEYQKTIDTLS 745 (929)
Q Consensus 667 ~~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~i-f~E~~~~~~~~~~l~~y~~~i~~~~ 745 (929)
+.-+..|...|..++ .-|.+|+|.+--.-.+.+...++-.++ .-. +--.++..++.++|.+|++
T Consensus 452 ~~Kl~wl~~~L~~f~--S~gkvlifVTKk~~~e~i~a~Lklk~~-------~v~llhgdkdqa~rn~~ls~fKk------ 516 (731)
T KOG0339|consen 452 EKKLNWLLRHLVEFS--SEGKVLIFVTKKADAEEIAANLKLKGF-------NVSLLHGDKDQAERNEVLSKFKK------ 516 (731)
T ss_pred HHHHHHHHHHhhhhc--cCCcEEEEEeccCCHHHHHHHhccccc-------eeeeecCchhhHHHHHHHHHHhh------
Confidence 333444544444442 458899999988888888887765432 222 2233445688999999998
Q ss_pred CCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEE
Q 002378 746 SRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVM 784 (929)
Q Consensus 746 ~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~Vii 784 (929)
+..-||.++ .--..|+|.+ ..+.||-
T Consensus 517 ---------k~~~Vlvat--DvaargldI~--~ikTVvn 542 (731)
T KOG0339|consen 517 ---------KRKPVLVAT--DVAARGLDIP--SIKTVVN 542 (731)
T ss_pred ---------cCCceEEEe--eHhhcCCCcc--ccceeec
Confidence 467888888 7788999999 4677764
No 236
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=68.29 E-value=9.1 Score=41.14 Aligned_cols=45 Identities=22% Similarity=0.210 Sum_probs=35.0
Q ss_pred CCHHHHHHHHHHHHHHHcC---CceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 19 PYSIQTDFMKALYCSLENG---GVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~---~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
-|+.|++.+.+=.+.+.+| .+++|-++.||||| |++=+.|....+
T Consensus 31 Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKS-SlVkall~~y~~ 78 (249)
T PF05673_consen 31 GIERQKEALIENTEQFLQGLPANNVLLWGARGTGKS-SLVKALLNEYAD 78 (249)
T ss_pred CHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHH-HHHHHHHHHHhh
Confidence 6888998888888888888 78999999999997 555555554443
No 237
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=68.19 E-value=5 Score=48.59 Aligned_cols=51 Identities=24% Similarity=0.374 Sum_probs=44.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 14 AFPYKPYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 14 ~FPf~py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
..||+++..|+...+.|..-|... .+-++.+--|+|||+..+++.|+=+..
T Consensus 258 ~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~ 310 (677)
T COG1200 258 ALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEA 310 (677)
T ss_pred hCCCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHc
Confidence 489999999999999999999988 678999999999998888887766543
No 238
>COG1204 Superfamily II helicase [General function prediction only]
Probab=68.18 E-value=38 Score=42.70 Aligned_cols=94 Identities=18% Similarity=0.125 Sum_probs=48.1
Q ss_pred ceEEEeccCCCChhhHHHhhCCCCCCCceeeeecCCccCCCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHH
Q 002378 601 HAVILAGGTLQPIEETRERLFPWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNL 680 (929)
Q Consensus 601 ~svILtSGTLsP~~~f~~~L~~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~ 680 (929)
-.+|-.|+||.-...++..|........+.....-..++..+.... . +| ..+..+.-.+.....+..-
T Consensus 181 ~rivgLSATlpN~~evA~wL~a~~~~~~~rp~~l~~~v~~~~~~~~-~-~~----------~~k~~~~~~~~~~~~~v~~ 248 (766)
T COG1204 181 IRIVGLSATLPNAEEVADWLNAKLVESDWRPVPLRRGVPYVGAFLG-A-DG----------KKKTWPLLIDNLALELVLE 248 (766)
T ss_pred eEEEEEeeecCCHHHHHHHhCCcccccCCCCcccccCCccceEEEE-e-cC----------ccccccccchHHHHHHHHH
Confidence 3689999999999999998843211001110111111221211111 1 11 1111111122333333333
Q ss_pred hhccCCCeEEEccCHHHHHHHHHHHH
Q 002378 681 VSVVPEGIIVFFPSFEYVERVYGAWK 706 (929)
Q Consensus 681 ~~~vpgg~LVfFpSy~~l~~~~~~w~ 706 (929)
+-.-.|.+|||.||-..-..+...+.
T Consensus 249 ~~~~~~qvLvFv~sR~~a~~~A~~l~ 274 (766)
T COG1204 249 SLAEGGQVLVFVHSRKEAEKTAKKLR 274 (766)
T ss_pred HHhcCCeEEEEEecCchHHHHHHHHH
Confidence 33456789999999999888887776
No 239
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.11 E-value=6.2 Score=46.83 Aligned_cols=33 Identities=27% Similarity=0.396 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHcCCc---eeeeCCCCCcchHH
Q 002378 21 SIQTDFMKALYCSLENGGV---SMLESPTGTGKTLS 53 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~---~~~esptgtgktl~ 53 (929)
-.|...++.+...+.++.. .||.||.|||||..
T Consensus 17 vGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTl 52 (472)
T PRK14962 17 VGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTV 52 (472)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 3578889999999999855 48999999999943
No 240
>PRK12377 putative replication protein; Provisional
Probab=68.09 E-value=9.9 Score=41.13 Aligned_cols=44 Identities=18% Similarity=0.176 Sum_probs=26.6
Q ss_pred ccCCCCCCCCCC----HHHHHHHHHHH---HHHHcC-CceeeeCCCCCcchH
Q 002378 9 EAEFPAFPYKPY----SIQTDFMKALY---CSLENG-GVSMLESPTGTGKTL 52 (929)
Q Consensus 9 ~~~~~~FPf~py----~~Q~~~M~~v~---~~~~~~-~~~~~esptgtgktl 52 (929)
|..+.+--|+-| +.|...+..+. +.+..+ .+.+|-||+|||||-
T Consensus 65 ~~~~~~~tFdnf~~~~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKTh 116 (248)
T PRK12377 65 QPLHRKCSFANYQVQNDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNH 116 (248)
T ss_pred CcccccCCcCCcccCChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHH
Confidence 444544455544 45654444433 333333 578999999999995
No 241
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=68.02 E-value=7.7 Score=43.56 Aligned_cols=38 Identities=18% Similarity=0.218 Sum_probs=32.7
Q ss_pred CCHHHHHHHHHHHHHHHcCC---ceeeeCCCCCcchHHHHH
Q 002378 19 PYSIQTDFMKALYCSLENGG---VSMLESPTGTGKTLSIIC 56 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~---~~~~esptgtgktl~~l~ 56 (929)
.||-|....+.+...+..|+ -.+|.||.|+||+..-++
T Consensus 5 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~ 45 (319)
T PRK08769 5 FSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALA 45 (319)
T ss_pred ccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHH
Confidence 79999999999999999985 467999999999864443
No 242
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=67.59 E-value=39 Score=36.84 Aligned_cols=76 Identities=11% Similarity=0.233 Sum_probs=52.7
Q ss_pred CCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEE-cC-CCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 686 EGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFR-EP-RGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 686 gg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~-E~-~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
-..++|.++..-.+-+.+.++..++ .|-. .+ ....++++++.+|+. +..-||++.
T Consensus 267 tQavIFcnTk~kVdwLtekm~~~nf--------tVssmHGDm~qkERd~im~dFRs---------------g~SrvLitT 323 (400)
T KOG0328|consen 267 TQAVIFCNTKRKVDWLTEKMREANF--------TVSSMHGDMEQKERDKIMNDFRS---------------GKSRVLITT 323 (400)
T ss_pred heEEEEecccchhhHHHHHHHhhCc--------eeeeccCCcchhHHHHHHHHhhc---------------CCceEEEEe
Confidence 4689999999988887777776532 1111 11 112478999999987 567899998
Q ss_pred ecCccccccccCCCcceEEEEEccC
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLP 788 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlP 788 (929)
.-++.|||.+- ...||=.-||
T Consensus 324 --DVwaRGiDv~q--VslviNYDLP 344 (400)
T KOG0328|consen 324 --DVWARGIDVQQ--VSLVINYDLP 344 (400)
T ss_pred --chhhccCCcce--eEEEEecCCC
Confidence 89999999986 3334444443
No 243
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=67.59 E-value=4.8 Score=46.91 Aligned_cols=32 Identities=34% Similarity=0.386 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 22 IQTDFMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
-|...=+.+.-+...|.+.+|.+|.|||||+.
T Consensus 183 GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTml 214 (490)
T COG0606 183 GQEQAKRALEIAAAGGHNLLLVGPPGTGKTML 214 (490)
T ss_pred CcHHHHHHHHHHHhcCCcEEEecCCCCchHHh
Confidence 47778888888888899999999999999963
No 244
>PHA00729 NTP-binding motif containing protein
Probab=67.58 E-value=5.3 Score=42.48 Aligned_cols=24 Identities=25% Similarity=0.394 Sum_probs=17.8
Q ss_pred HHHHHHHHcC--CceeeeCCCCCcch
Q 002378 28 KALYCSLENG--GVSMLESPTGTGKT 51 (929)
Q Consensus 28 ~~v~~~~~~~--~~~~~esptgtgkt 51 (929)
+++.+.+..+ .++++.||+|||||
T Consensus 6 k~~~~~l~~~~f~nIlItG~pGvGKT 31 (226)
T PHA00729 6 KKIVSAYNNNGFVSAVIFGKQGSGKT 31 (226)
T ss_pred HHHHHHHhcCCeEEEEEECCCCCCHH
Confidence 3445555554 57899999999999
No 245
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=67.35 E-value=2.8 Score=39.77 Aligned_cols=20 Identities=30% Similarity=0.589 Sum_probs=12.2
Q ss_pred HcCCceeeeCCCCCcchHHH
Q 002378 35 ENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 35 ~~~~~~~~esptgtgktl~~ 54 (929)
+.+..+++.+|+|+|||..+
T Consensus 2 ~~~~~~~i~G~~G~GKT~~~ 21 (131)
T PF13401_consen 2 QSQRILVISGPPGSGKTTLI 21 (131)
T ss_dssp -----EEEEE-TTSSHHHHH
T ss_pred CCCcccEEEcCCCCCHHHHH
Confidence 35678999999999999543
No 246
>PRK08939 primosomal protein DnaI; Reviewed
Probab=67.27 E-value=10 Score=42.43 Aligned_cols=40 Identities=20% Similarity=0.079 Sum_probs=26.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHH------cCCceeeeCCCCCcchHHH
Q 002378 14 AFPYKPYSIQTDFMKALYCSLE------NGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 14 ~FPf~py~~Q~~~M~~v~~~~~------~~~~~~~esptgtgktl~~ 54 (929)
+|.+... .+...+..+.+-+. .++..+|-||+|||||--+
T Consensus 128 ~~~~~~~-~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa 173 (306)
T PRK08939 128 DIDLDDR-DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLL 173 (306)
T ss_pred HhcCCCh-HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHH
Confidence 3444432 45555666666665 3567889999999999533
No 247
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=67.25 E-value=6.3 Score=48.47 Aligned_cols=42 Identities=21% Similarity=0.283 Sum_probs=31.6
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQ 65 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~ 65 (929)
+-+-|.++.. .+| |++.|+..|||.|||..-.--++.|++..
T Consensus 63 lR~YQ~eivq---~AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~ 104 (746)
T KOG0354|consen 63 LRNYQEELVQ---PAL--GKNTIIALPTGSGKTFIAAVIMKNHFEWR 104 (746)
T ss_pred ccHHHHHHhH---Hhh--cCCeEEEeecCCCccchHHHHHHHHHhcC
Confidence 4445666543 355 99999999999999987777777777664
No 248
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=66.72 E-value=5.6 Score=45.80 Aligned_cols=17 Identities=35% Similarity=0.552 Sum_probs=14.8
Q ss_pred CceeeeCCCCCcchHHH
Q 002378 38 GVSMLESPTGTGKTLSI 54 (929)
Q Consensus 38 ~~~~~esptgtgktl~~ 54 (929)
.++++-||+|||||..+
T Consensus 56 ~~~lI~G~~GtGKT~l~ 72 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTV 72 (394)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 67899999999999754
No 249
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=66.59 E-value=2.3 Score=54.16 Aligned_cols=35 Identities=29% Similarity=0.321 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHH
Q 002378 21 SIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l 59 (929)
|-|.+.+ .++..|+..++..|||-||+|||-.+++
T Consensus 267 ~~Q~eaI----~~~l~Gkd~fvlmpTG~GKSLCYQlPA~ 301 (941)
T KOG0351|consen 267 PNQLEAI----NATLSGKDCFVLMPTGGGKSLCYQLPAL 301 (941)
T ss_pred hhHHHHH----HHHHcCCceEEEeecCCceeeEeecccc
Confidence 4566553 3888999999999999999999977765
No 250
>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=66.50 E-value=5.1 Score=48.31 Aligned_cols=34 Identities=29% Similarity=0.280 Sum_probs=28.5
Q ss_pred CCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchH
Q 002378 19 PYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTL 52 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl 52 (929)
..-.|...|+.+...+... .+.||.+|+|||||.
T Consensus 66 ~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~ 101 (531)
T TIGR02902 66 EIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTA 101 (531)
T ss_pred HeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHH
Confidence 3456889999999888765 789999999999995
No 251
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=66.35 E-value=5.3 Score=49.28 Aligned_cols=37 Identities=30% Similarity=0.368 Sum_probs=32.7
Q ss_pred CCHHHHHHHHHHHHHHHcCCc-eeeeCCCCCcchHHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGV-SMLESPTGTGKTLSII 55 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~-~~~esptgtgktl~~l 55 (929)
|-..|...++++.+++..|.. ++|-.-||||||-.-+
T Consensus 166 ~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAi 203 (875)
T COG4096 166 PRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAI 203 (875)
T ss_pred chHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHH
Confidence 677899999999999999954 8889999999997654
No 252
>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=66.33 E-value=5.2 Score=40.53 Aligned_cols=27 Identities=22% Similarity=0.254 Sum_probs=18.8
Q ss_pred HHHHHHHHHHcCCceeeeCCCCCcchH
Q 002378 26 FMKALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 26 ~M~~v~~~~~~~~~~~~esptgtgktl 52 (929)
.++.+-+.......+++++++||||++
T Consensus 11 ~~~~~~~~a~~~~pVlI~GE~GtGK~~ 37 (168)
T PF00158_consen 11 LREQAKRAASSDLPVLITGETGTGKEL 37 (168)
T ss_dssp HHHHHHHHTTSTS-EEEECSTTSSHHH
T ss_pred HHHHHHHHhCCCCCEEEEcCCCCcHHH
Confidence 334444444556889999999999995
No 253
>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=66.07 E-value=5.4 Score=52.45 Aligned_cols=34 Identities=18% Similarity=0.323 Sum_probs=27.6
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
..|+.... ..|.++|.++.++|+.+|||+|||--
T Consensus 65 ~LPi~~~~-~~Il~~l~~~~vvii~g~TGSGKTTq 98 (1283)
T TIGR01967 65 NLPVSAKR-EDIAEAIAENQVVIIAGETGSGKTTQ 98 (1283)
T ss_pred CCCHHHHH-HHHHHHHHhCceEEEeCCCCCCcHHH
Confidence 35554433 77888999999999999999999984
No 254
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=66.07 E-value=5.6 Score=49.97 Aligned_cols=30 Identities=33% Similarity=0.551 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHcC-----------CceeeeCCCCCcch
Q 002378 22 IQTDFMKALYCSLENG-----------GVSMLESPTGTGKT 51 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~-----------~~~~~esptgtgkt 51 (929)
.|...++.|..++... .+.+|.+|||||||
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT 498 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKT 498 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHH
Confidence 3667778887777742 24689999999999
No 255
>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=66.06 E-value=5.9 Score=46.07 Aligned_cols=21 Identities=43% Similarity=0.687 Sum_probs=16.7
Q ss_pred CceeeeCCCCCcchHHHHHHHHH
Q 002378 38 GVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l~~~l~ 60 (929)
.+.+|.+|||||||+ |+-+|+
T Consensus 117 ~~iLL~GP~GsGKT~--lAraLA 137 (413)
T TIGR00382 117 SNILLIGPTGSGKTL--LAQTLA 137 (413)
T ss_pred ceEEEECCCCcCHHH--HHHHHH
Confidence 579999999999995 445555
No 256
>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=66.03 E-value=5.5 Score=46.17 Aligned_cols=39 Identities=31% Similarity=0.326 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHcC----------------CceeeeCCCCCcchHHHHHHHHHhH
Q 002378 22 IQTDFMKALYCSLENG----------------GVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~----------------~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
-|.+.-+.+.-++.++ ++.+|.+|||||||. |+-+|+.+
T Consensus 16 GQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~--lAraLA~~ 70 (441)
T TIGR00390 16 GQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTE--IARRLAKL 70 (441)
T ss_pred CHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHH--HHHHHHHH
Confidence 4666666666666653 789999999999995 45555543
No 257
>PRK05580 primosome assembly protein PriA; Validated
Probab=65.86 E-value=13 Score=46.25 Aligned_cols=43 Identities=12% Similarity=0.313 Sum_probs=34.0
Q ss_pred chHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCC
Q 002378 728 THVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 728 ~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.+.+.+|++|++ ++-.||+|. --++.|+||++ ...|+|+....
T Consensus 467 ~~~~~~l~~f~~---------------g~~~ILVgT--~~iakG~d~p~--v~lV~il~aD~ 509 (679)
T PRK05580 467 GALEQLLAQFAR---------------GEADILIGT--QMLAKGHDFPN--VTLVGVLDADL 509 (679)
T ss_pred hhHHHHHHHHhc---------------CCCCEEEEC--hhhccCCCCCC--cCEEEEEcCch
Confidence 467889999987 467899998 67999999998 45677776544
No 258
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=65.61 E-value=7.8 Score=44.36 Aligned_cols=33 Identities=27% Similarity=0.320 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHcCC--ce-eeeCCCCCcchHHH
Q 002378 22 IQTDFMKALYCSLENGG--VS-MLESPTGTGKTLSI 54 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~--~~-~~esptgtgktl~~ 54 (929)
.|....+.+..++..|+ ++ ||.||.|||||-..
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla 55 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIA 55 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHH
Confidence 78999999999999884 44 89999999999543
No 259
>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=65.54 E-value=3.7 Score=49.21 Aligned_cols=18 Identities=33% Similarity=0.383 Sum_probs=15.1
Q ss_pred eeeCCCCCcchHHHHHHH
Q 002378 41 MLESPTGTGKTLSIICSA 58 (929)
Q Consensus 41 ~~esptgtgktl~~l~~~ 58 (929)
+|.+|||+|||+.++-.+
T Consensus 1 LL~g~TGsGKT~v~l~~i 18 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAI 18 (505)
T ss_pred CccCCCCCCHHHHHHHHH
Confidence 578999999999987554
No 260
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=65.21 E-value=7.8 Score=44.97 Aligned_cols=34 Identities=26% Similarity=0.381 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHcCCc---eeeeCCCCCcchHHH
Q 002378 21 SIQTDFMKALYCSLENGGV---SMLESPTGTGKTLSI 54 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~---~~~esptgtgktl~~ 54 (929)
-.|...++.+...+.+|.. .||.||.|+|||..-
T Consensus 19 iGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A 55 (397)
T PRK14955 19 TAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAA 55 (397)
T ss_pred cChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHH
Confidence 3689999999999999833 679999999999543
No 261
>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=65.10 E-value=6.6 Score=44.86 Aligned_cols=27 Identities=19% Similarity=0.465 Sum_probs=20.7
Q ss_pred cCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 36 NGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 36 ~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
.+..+++.+|||+|||-.+ -+.+.++.
T Consensus 133 ~~glilI~GpTGSGKTTtL-~aLl~~i~ 159 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLL-AAIIRELA 159 (358)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHHh
Confidence 6789999999999999654 44555554
No 262
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=65.08 E-value=7.2 Score=47.44 Aligned_cols=35 Identities=29% Similarity=0.362 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHcCC--c-eeeeCCCCCcchHHHHH
Q 002378 22 IQTDFMKALYCSLENGG--V-SMLESPTGTGKTLSIIC 56 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~--~-~~~esptgtgktl~~l~ 56 (929)
.|....+.+...+..|. + .||.||.|||||.+..+
T Consensus 17 Gq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~ 54 (584)
T PRK14952 17 GQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARI 54 (584)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 68889999999999984 4 48999999999966544
No 263
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=64.98 E-value=34 Score=41.50 Aligned_cols=49 Identities=14% Similarity=0.225 Sum_probs=38.3
Q ss_pred eecccCChHHHHHHHHHHHHHhhcc-CCCeEEEccCHHHHHHHHHHHHhc
Q 002378 660 SYGSRSSSAMIEELGLLLCNLVSVV-PEGIIVFFPSFEYVERVYGAWKSL 708 (929)
Q Consensus 660 ~y~~R~~~~~~~~l~~~i~~~~~~v-pgg~LVfFpSy~~l~~~~~~w~~~ 708 (929)
-|.+....+|+++.-..+.+|...- ||.+|||.|.-+-.+.+.+.+.+.
T Consensus 232 ~y~~~p~~dYv~a~~~tv~~Ih~~E~~GDILvFLtGqeEIe~~~~~l~e~ 281 (674)
T KOG0922|consen 232 LYLKEPTADYVDAALITVIQIHLTEPPGDILVFLTGQEEIEAACELLRER 281 (674)
T ss_pred EeccCCchhhHHHHHHHHHHHHccCCCCCEEEEeCCHHHHHHHHHHHHHH
Confidence 3444456788888777777776654 688999999999999999888754
No 264
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=64.54 E-value=18 Score=43.43 Aligned_cols=42 Identities=14% Similarity=0.293 Sum_probs=32.9
Q ss_pred chHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccC
Q 002378 728 THVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLP 788 (929)
Q Consensus 728 ~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlP 788 (929)
...+.+|+.|.+ ++-.||+|+ .-++.|+||++ ...|+|+..-
T Consensus 299 ~~~~~~l~~f~~---------------g~~~ILVgT--~~i~kG~d~~~--v~lV~vl~aD 340 (505)
T TIGR00595 299 GAHEALLNQFAN---------------GKADILIGT--QMIAKGHHFPN--VTLVGVLDAD 340 (505)
T ss_pred cHHHHHHHHHhc---------------CCCCEEEeC--cccccCCCCCc--ccEEEEEcCc
Confidence 356789999877 467899999 78999999997 5567777643
No 265
>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=64.27 E-value=7.8 Score=42.33 Aligned_cols=38 Identities=34% Similarity=0.438 Sum_probs=25.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHH
Q 002378 15 FPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~ 58 (929)
+-+.||++|..-.= +|..|. |.|--||=||||...+++
T Consensus 74 ~g~~p~~vQll~~l----~L~~G~--laEm~TGEGKTli~~l~a 111 (266)
T PF07517_consen 74 LGLRPYDVQLLGAL----ALHKGR--LAEMKTGEGKTLIAALPA 111 (266)
T ss_dssp TS----HHHHHHHH----HHHTTS--EEEESTTSHHHHHHHHHH
T ss_pred cCCcccHHHHhhhh----hcccce--eEEecCCCCcHHHHHHHH
Confidence 45679999987654 335454 999999999999775444
No 266
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=64.26 E-value=5.5 Score=42.77 Aligned_cols=34 Identities=26% Similarity=0.340 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHH------------HHcCCceeeeCCCCCcchHHH
Q 002378 21 SIQTDFMKALYCS------------LENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 21 ~~Q~~~M~~v~~~------------~~~~~~~~~esptgtgktl~~ 54 (929)
..|.+-|+.|.+. |+--+-+++-+|.|||||||-
T Consensus 183 keqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~a 228 (435)
T KOG0729|consen 183 KEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCA 228 (435)
T ss_pred HHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHH
Confidence 4577777777654 333477889999999999753
No 267
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=64.26 E-value=6.7 Score=41.47 Aligned_cols=16 Identities=19% Similarity=0.314 Sum_probs=14.1
Q ss_pred cCCceeeeCCCCCcch
Q 002378 36 NGGVSMLESPTGTGKT 51 (929)
Q Consensus 36 ~~~~~~~esptgtgkt 51 (929)
.+...+|-+|+|||||
T Consensus 41 ~~~~~~l~G~~G~GKT 56 (227)
T PRK08903 41 ADRFFYLWGEAGSGRS 56 (227)
T ss_pred CCCeEEEECCCCCCHH
Confidence 4468999999999999
No 268
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=64.13 E-value=0.93 Score=54.29 Aligned_cols=91 Identities=15% Similarity=0.219 Sum_probs=50.8
Q ss_pred HHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCC-CCchHHHHHHHHHHHHhccCCCCCCCCC
Q 002378 675 LLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPR-GNTHVESVLKEYQKTIDTLSSRPKEDST 753 (929)
Q Consensus 675 ~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~-~~~~~~~~l~~y~~~i~~~~~~~~~~~~ 753 (929)
..+..+.......++|.-.=-.+|+-+..++++.|. ...-+-|. ...++..++++|... .
T Consensus 736 ~~le~i~~~skeK~viVSQwtsvLniv~~hi~~~g~-------~y~si~Gqv~vK~Rq~iv~~FN~~--k---------- 796 (901)
T KOG4439|consen 736 EILETILTSSKEKVVIVSQWTSVLNIVRKHIQKGGH-------IYTSITGQVLVKDRQEIVDEFNQE--K---------- 796 (901)
T ss_pred HHHHHHhhcccceeeehhHHHHHHHHHHHHHhhCCe-------eeeeecCccchhHHHHHHHHHHhc--c----------
Confidence 344444344556666654444556666677666542 01111221 234788999999871 0
Q ss_pred CCCCcEEEEE-ecCccccccccCCCcceEEEEEccCC
Q 002378 754 PLNGAMLLAV-VGGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 754 ~~~gaiL~aV-~rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.+...+|+.. .|| =|+|+-| +.-+|+|+|=+
T Consensus 797 ~~~rVmLlSLtAGG---VGLNL~G--aNHlilvDlHW 828 (901)
T KOG4439|consen 797 GGARVMLLSLTAGG---VGLNLIG--ANHLILVDLHW 828 (901)
T ss_pred CCceEEEEEEccCc---ceeeecc--cceEEEEeccc
Confidence 0122344443 333 3788887 56799999987
No 269
>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]
Probab=64.10 E-value=3.4 Score=45.89 Aligned_cols=27 Identities=30% Similarity=0.528 Sum_probs=23.6
Q ss_pred HHHHHHHHHHcCCceeeeCCCCCcchH
Q 002378 26 FMKALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 26 ~M~~v~~~~~~~~~~~~esptgtgktl 52 (929)
...++++....|...||.+|||+|||-
T Consensus 262 vLNk~LkGhR~GElTvlTGpTGsGKTT 288 (514)
T KOG2373|consen 262 VLNKYLKGHRPGELTVLTGPTGSGKTT 288 (514)
T ss_pred HHHHHhccCCCCceEEEecCCCCCcee
Confidence 466777888899999999999999994
No 270
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.98 E-value=7 Score=47.77 Aligned_cols=36 Identities=25% Similarity=0.400 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHcCCce---eeeCCCCCcchHHHHH
Q 002378 21 SIQTDFMKALYCSLENGGVS---MLESPTGTGKTLSIIC 56 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~~---~~esptgtgktl~~l~ 56 (929)
-.|...++.+..++..+... ||.||.|+|||....+
T Consensus 19 iGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~ 57 (585)
T PRK14950 19 VGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARI 57 (585)
T ss_pred cCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHH
Confidence 36889999999999988554 8999999999965544
No 271
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=63.83 E-value=6 Score=47.61 Aligned_cols=28 Identities=21% Similarity=0.453 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHcCCceeeeCCCCCcchH
Q 002378 25 DFMKALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 25 ~~M~~v~~~~~~~~~~~~esptgtgktl 52 (929)
++++.++.++++.++.|+-++||+|||-
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKST 81 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKST 81 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCccc
Confidence 6889999999999999999999999994
No 272
>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=63.82 E-value=8.9 Score=36.93 Aligned_cols=29 Identities=28% Similarity=0.288 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHcC---Ccee--eeCCCCCcchH
Q 002378 24 TDFMKALYCSLENG---GVSM--LESPTGTGKTL 52 (929)
Q Consensus 24 ~~~M~~v~~~~~~~---~~~~--~esptgtgktl 52 (929)
...++.|-.-+.+. |..+ |-+|||||||.
T Consensus 35 ~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~ 68 (127)
T PF06309_consen 35 EVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNF 68 (127)
T ss_pred HHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHH
Confidence 34444444444442 5555 79999999994
No 273
>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=63.67 E-value=3.9 Score=45.13 Aligned_cols=16 Identities=31% Similarity=0.239 Sum_probs=13.8
Q ss_pred CceeeeCCCCCcchHH
Q 002378 38 GVSMLESPTGTGKTLS 53 (929)
Q Consensus 38 ~~~~~esptgtgktl~ 53 (929)
.+.+|.+|+|||||..
T Consensus 59 ~~vll~G~pGTGKT~l 74 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTV 74 (284)
T ss_pred ceEEEEcCCCCCHHHH
Confidence 4789999999999953
No 274
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=63.56 E-value=4.2 Score=41.01 Aligned_cols=18 Identities=28% Similarity=0.364 Sum_probs=10.2
Q ss_pred HcCCceeeeCCCCCcchH
Q 002378 35 ENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 35 ~~~~~~~~esptgtgktl 52 (929)
..+.+.++.||.|+|||-
T Consensus 22 ~~~~~~ll~G~~G~GKT~ 39 (185)
T PF13191_consen 22 GSPRNLLLTGESGSGKTS 39 (185)
T ss_dssp -----EEE-B-TTSSHHH
T ss_pred CCCcEEEEECCCCCCHHH
Confidence 334789999999999994
No 275
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=63.38 E-value=1e+02 Score=36.47 Aligned_cols=96 Identities=21% Similarity=0.288 Sum_probs=64.7
Q ss_pred HHHHHHHHHHhhccCC-CeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCC--C------CchHHHHHHHHHHHH
Q 002378 671 EELGLLLCNLVSVVPE-GIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPR--G------NTHVESVLKEYQKTI 741 (929)
Q Consensus 671 ~~l~~~i~~~~~~vpg-g~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~--~------~~~~~~~l~~y~~~i 741 (929)
..+-..+.+..+..++ .++||...-+-.+.+++++.+.++-. +-+|+-.- + ..+..+++++|++
T Consensus 351 ~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~-----~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~-- 423 (542)
T COG1111 351 EKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKA-----RVRFIGQASREGDKGMSQKEQKEIIDQFRK-- 423 (542)
T ss_pred HHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCcc-----eeEEeeccccccccccCHHHHHHHHHHHhc--
Confidence 4555667777765554 67777777788899999998876422 13676421 1 1256778999988
Q ss_pred hccCCCCCCCCCCCCCcEEEEEecCccccccccCCCcceEEEEEccCCCC
Q 002378 742 DTLSSRPKEDSTPLNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPS 791 (929)
Q Consensus 742 ~~~~~~~~~~~~~~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~ 791 (929)
+..-||+|. .---||+|.|+-- +||+==|-|+
T Consensus 424 -------------Ge~nVLVaT--SVgEEGLDIp~vD---lVifYEpvpS 455 (542)
T COG1111 424 -------------GEYNVLVAT--SVGEEGLDIPEVD---LVIFYEPVPS 455 (542)
T ss_pred -------------CCceEEEEc--ccccccCCCCccc---EEEEecCCcH
Confidence 678999998 4456899999943 4555444443
No 276
>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=63.23 E-value=6.9 Score=47.96 Aligned_cols=39 Identities=13% Similarity=0.078 Sum_probs=34.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 15 FPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
..++..-.|.+.++.+..++..+.+++|-+|+|||||..
T Consensus 15 ~~~~~viG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~l 53 (608)
T TIGR00764 15 RLIDQVIGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSML 53 (608)
T ss_pred hhHhhccCHHHHHHHHHHHHHcCCCEEEECCCCCCHHHH
Confidence 345566689999999999999999999999999999963
No 277
>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=62.96 E-value=14 Score=39.20 Aligned_cols=25 Identities=24% Similarity=0.295 Sum_probs=19.7
Q ss_pred ceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 39 VSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 39 ~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
..++-||+|+|||= ||.+....+..
T Consensus 36 ~l~l~G~~G~GKTH-LL~Ai~~~~~~ 60 (219)
T PF00308_consen 36 PLFLYGPSGLGKTH-LLQAIANEAQK 60 (219)
T ss_dssp EEEEEESTTSSHHH-HHHHHHHHHHH
T ss_pred ceEEECCCCCCHHH-HHHHHHHHHHh
Confidence 37899999999998 67776666554
No 278
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.87 E-value=8.4 Score=46.12 Aligned_cols=35 Identities=26% Similarity=0.427 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHcCCce---eeeCCCCCcchHHHH
Q 002378 21 SIQTDFMKALYCSLENGGVS---MLESPTGTGKTLSII 55 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~~---~~esptgtgktl~~l 55 (929)
-.|....+.+...+..++.. ||.+|.|||||....
T Consensus 17 vGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~ 54 (504)
T PRK14963 17 VGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTAR 54 (504)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 36888888899999998654 999999999996543
No 279
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=62.86 E-value=6.5 Score=45.10 Aligned_cols=24 Identities=50% Similarity=0.621 Sum_probs=18.9
Q ss_pred HcCCceeeeCCCCCcchHHHHHHH
Q 002378 35 ENGGVSMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 35 ~~~~~~~~esptgtgktl~~l~~~ 58 (929)
..|.+.+|-+|||+|||..+.--+
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA 158 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLA 158 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHH
Confidence 457899999999999997654433
No 280
>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=62.74 E-value=7.9 Score=41.12 Aligned_cols=43 Identities=21% Similarity=0.345 Sum_probs=28.9
Q ss_pred CCCHHHHHHHHHHH---HHHHc-C---CceeeeCCCCCcchHHHHHHHHHhHHHHH
Q 002378 18 KPYSIQTDFMKALY---CSLEN-G---GVSMLESPTGTGKTLSIICSALQWVVDQK 66 (929)
Q Consensus 18 ~py~~Q~~~M~~v~---~~~~~-~---~~~~~esptgtgktl~~l~~~l~~~~~~~ 66 (929)
+-|=.|..+...+- ++... + .+.||-+|.|+||| +|+++-.++
T Consensus 24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKT------TLA~IIA~e 73 (233)
T PF05496_consen 24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKT------TLARIIANE 73 (233)
T ss_dssp CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHH------HHHHHHHHH
T ss_pred HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchh------HHHHHHHhc
Confidence 45668988887653 34333 2 47999999999998 777776643
No 281
>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=62.41 E-value=7.1 Score=48.17 Aligned_cols=39 Identities=26% Similarity=0.389 Sum_probs=33.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchHH
Q 002378 15 FPYKPYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTLS 53 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl~ 53 (929)
|||.-.--|...+..+.-++.+. ..+||++|.|||||..
T Consensus 1 ~pf~~ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~l 41 (633)
T TIGR02442 1 FPFTAIVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTA 41 (633)
T ss_pred CCcchhcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHH
Confidence 89987778999999988888864 3589999999999953
No 282
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=62.26 E-value=4.3 Score=44.93 Aligned_cols=22 Identities=45% Similarity=0.827 Sum_probs=18.3
Q ss_pred CCceeeeCCCCCcchHHHHHHHHH
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~ 60 (929)
+...++-+|.|||||- ||-+|+
T Consensus 177 NRliLlhGPPGTGKTS--LCKaLa 198 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTS--LCKALA 198 (423)
T ss_pred eeEEEEeCCCCCChhH--HHHHHH
Confidence 4678899999999994 787776
No 283
>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=62.18 E-value=5.7 Score=50.84 Aligned_cols=40 Identities=28% Similarity=0.336 Sum_probs=29.6
Q ss_pred CHHHHHHHHHHHHHHHcC-----------CceeeeCCCCCcchHHHHHHHHHh
Q 002378 20 YSIQTDFMKALYCSLENG-----------GVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~-----------~~~~~esptgtgktl~~l~~~l~~ 61 (929)
.-.|-..|+.|.++|... ...+|.||||||||. +.-+|+.
T Consensus 567 v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~--lA~~La~ 617 (852)
T TIGR03346 567 VVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTE--LAKALAE 617 (852)
T ss_pred cCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHH--HHHHHHH
Confidence 346888999999999762 357899999999993 4444443
No 284
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=61.97 E-value=4.3 Score=46.58 Aligned_cols=27 Identities=41% Similarity=0.644 Sum_probs=22.0
Q ss_pred cCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 36 NGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 36 ~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
++.|+||-+|||+|||| |.-+|+-+-+
T Consensus 225 eKSNvLllGPtGsGKTl--laqTLAr~ld 251 (564)
T KOG0745|consen 225 EKSNVLLLGPTGSGKTL--LAQTLARVLD 251 (564)
T ss_pred ecccEEEECCCCCchhH--HHHHHHHHhC
Confidence 35689999999999995 7777877665
No 285
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=61.87 E-value=6.8 Score=49.21 Aligned_cols=36 Identities=22% Similarity=0.199 Sum_probs=25.5
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHH
Q 002378 17 YKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~ 58 (929)
..||++|+.- +|.=-+--|.|..||-||||+...++
T Consensus 84 ~r~ydVQliG------gl~Lh~G~IAEM~TGEGKTL~atlpa 119 (939)
T PRK12902 84 MRHFDVQLIG------GMVLHEGQIAEMKTGEGKTLVATLPS 119 (939)
T ss_pred CCcchhHHHh------hhhhcCCceeeecCCCChhHHHHHHH
Confidence 4589999754 33223445789999999999766554
No 286
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=61.27 E-value=22 Score=40.24 Aligned_cols=98 Identities=16% Similarity=0.283 Sum_probs=70.7
Q ss_pred HHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEc-CCCCchHHHHHHHHHHHHhccCCCCCCCCCC
Q 002378 676 LLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFRE-PRGNTHVESVLKEYQKTIDTLSSRPKEDSTP 754 (929)
Q Consensus 676 ~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E-~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~ 754 (929)
+|++..+.++--||+|.-...-.+.+++++--.|. ..+-+. +++..++...++.|+.
T Consensus 412 ylLeCLQKT~PpVLIFaEkK~DVD~IhEYLLlKGV-------EavaIHGGKDQedR~~ai~afr~--------------- 469 (610)
T KOG0341|consen 412 YLLECLQKTSPPVLIFAEKKADVDDIHEYLLLKGV-------EAVAIHGGKDQEDRHYAIEAFRA--------------- 469 (610)
T ss_pred hHHHHhccCCCceEEEeccccChHHHHHHHHHccc-------eeEEeecCcchhHHHHHHHHHhc---------------
Confidence 35667777888999999999999999988753331 224444 3556688899999987
Q ss_pred CCCcEEEEEecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhcc
Q 002378 755 LNGAMLLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLG 808 (929)
Q Consensus 755 ~~gaiL~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~ 808 (929)
++.-||+|. .-.|.|+||+|-. .| |-|.-|.+.+ .|+-+.+
T Consensus 470 gkKDVLVAT--DVASKGLDFp~iq--HV----INyDMP~eIE-----NYVHRIG 510 (610)
T KOG0341|consen 470 GKKDVLVAT--DVASKGLDFPDIQ--HV----INYDMPEEIE-----NYVHRIG 510 (610)
T ss_pred CCCceEEEe--cchhccCCCccch--hh----ccCCChHHHH-----HHHHHhc
Confidence 578999999 8999999999943 33 3455454433 6776654
No 287
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=61.12 E-value=4.5 Score=45.41 Aligned_cols=16 Identities=50% Similarity=0.638 Sum_probs=14.4
Q ss_pred CCceeeeCCCCCcchH
Q 002378 37 GGVSMLESPTGTGKTL 52 (929)
Q Consensus 37 ~~~~~~esptgtgktl 52 (929)
-+-+||-+|.||||||
T Consensus 185 PKGVLLYGPPGTGKTL 200 (406)
T COG1222 185 PKGVLLYGPPGTGKTL 200 (406)
T ss_pred CCceEeeCCCCCcHHH
Confidence 4778999999999996
No 288
>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=61.11 E-value=4.7 Score=42.24 Aligned_cols=36 Identities=22% Similarity=0.443 Sum_probs=23.8
Q ss_pred hhcccCCCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcCh
Q 002378 352 SRSMVPTADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNL 395 (929)
Q Consensus 352 sR~~~~~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL 395 (929)
...++..-.|-+.|.+|+=- -.+++++||||||.|+
T Consensus 96 ~~~~~~~~~Ie~~~~~~iRG--------rt~~~~~iIvDEaQN~ 131 (205)
T PF02562_consen 96 LEELIQNGKIEIEPLAFIRG--------RTFDNAFIIVDEAQNL 131 (205)
T ss_dssp HHHHHHTTSEEEEEGGGGTT----------B-SEEEEE-SGGG-
T ss_pred HHHHhhcCeEEEEehhhhcC--------ccccceEEEEecccCC
Confidence 34444566788888888743 3568999999999997
No 289
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=60.88 E-value=10 Score=45.39 Aligned_cols=35 Identities=29% Similarity=0.230 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHcCC---ceeeeCCCCCcchHHHH
Q 002378 21 SIQTDFMKALYCSLENGG---VSMLESPTGTGKTLSII 55 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~---~~~~esptgtgktl~~l 55 (929)
-.|...++.+-.++..++ ..||.||.|||||-...
T Consensus 24 iGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~Ar 61 (507)
T PRK06645 24 QGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSAR 61 (507)
T ss_pred cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHH
Confidence 478999999999899886 58899999999995443
No 290
>PRK13342 recombination factor protein RarA; Reviewed
Probab=60.72 E-value=7.5 Score=45.33 Aligned_cols=34 Identities=32% Similarity=0.360 Sum_probs=26.6
Q ss_pred CHHHHHHHHH---HHHHHHcCC--ceeeeCCCCCcchHH
Q 002378 20 YSIQTDFMKA---LYCSLENGG--VSMLESPTGTGKTLS 53 (929)
Q Consensus 20 y~~Q~~~M~~---v~~~~~~~~--~~~~esptgtgktl~ 53 (929)
+-.|...+.. +.+.+.++. +.||.||+|||||..
T Consensus 14 ~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtL 52 (413)
T PRK13342 14 VVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTL 52 (413)
T ss_pred hcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHH
Confidence 3467778665 888888774 689999999999943
No 291
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=60.68 E-value=3.2 Score=47.13 Aligned_cols=52 Identities=23% Similarity=0.360 Sum_probs=41.9
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHHHHHHHHHhH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQKQKQKQKQK 74 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~~~~~~~~~~ 74 (929)
|.++|-+.+- .|..|..++.-+-||+|||=++.++.|+-+-+.-+.+.++.+
T Consensus 25 ptdvqaeaip----lilgggdvlmaaetgsgktgaf~lpilqiv~etlrd~~egk~ 76 (725)
T KOG0349|consen 25 PTDVQAEAIP----LILGGGDVLMAAETGSGKTGAFCLPILQIVWETLRDLEEGKA 76 (725)
T ss_pred cccccccccc----EEecCCcEEEEeccCCCCccceehhhHHHHHHHHHhHhhccc
Confidence 8889987754 677899999999999999999999999877765555554443
No 292
>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=60.13 E-value=4.5 Score=43.97 Aligned_cols=16 Identities=31% Similarity=0.347 Sum_probs=13.7
Q ss_pred CceeeeCCCCCcchHH
Q 002378 38 GVSMLESPTGTGKTLS 53 (929)
Q Consensus 38 ~~~~~esptgtgktl~ 53 (929)
.+.||.+|+|||||..
T Consensus 43 ~~vll~GppGtGKTtl 58 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTV 58 (261)
T ss_pred ceEEEEcCCCCCHHHH
Confidence 5779999999999953
No 293
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=59.77 E-value=9.8 Score=45.62 Aligned_cols=33 Identities=24% Similarity=0.299 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHcC--Cce-eeeCCCCCcchHH
Q 002378 21 SIQTDFMKALYCSLENG--GVS-MLESPTGTGKTLS 53 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~--~~~-~~esptgtgktl~ 53 (929)
-.|...++.+...+..+ .++ ||.||.|||||..
T Consensus 19 vGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~ 54 (509)
T PRK14958 19 IGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTI 54 (509)
T ss_pred cCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHH
Confidence 36899999999999988 344 8999999999943
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=59.77 E-value=6.8 Score=37.62 Aligned_cols=27 Identities=37% Similarity=0.481 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHcCCceeeeCCCCCcch
Q 002378 25 DFMKALYCSLENGGVSMLESPTGTGKT 51 (929)
Q Consensus 25 ~~M~~v~~~~~~~~~~~~esptgtgkt 51 (929)
++-+.+-+.|..|.+++|.+|-|+|||
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGaGKT 29 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGAGKT 29 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTSSHH
T ss_pred HHHHHHHHhCCCCCEEEEECCCCCCHH
Confidence 456778889999999999999999999
No 295
>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=59.39 E-value=9.2 Score=42.72 Aligned_cols=32 Identities=22% Similarity=0.262 Sum_probs=23.6
Q ss_pred HHHHHHcCCceeeeCCCCCcchHHHHHHHHHhH
Q 002378 30 LYCSLENGGVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 30 v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
+--++..|++.++-+|||+|||-.+ .+.+.++
T Consensus 137 l~~~v~~~~~ili~G~tGsGKTTll-~al~~~~ 168 (308)
T TIGR02788 137 LRLAIASRKNIIISGGTGSGKTTFL-KSLVDEI 168 (308)
T ss_pred HHHHhhCCCEEEEECCCCCCHHHHH-HHHHccC
Confidence 4457788999999999999999543 3333333
No 296
>CHL00095 clpC Clp protease ATP binding subunit
Probab=59.34 E-value=8.9 Score=48.88 Aligned_cols=37 Identities=27% Similarity=0.349 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHcCC-----------ceeeeCCCCCcchHHHHHHHHH
Q 002378 22 IQTDFMKALYCSLENGG-----------VSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~-----------~~~~esptgtgktl~~l~~~l~ 60 (929)
.|...++.|.++|.... ..+|-+||||||| .|+-+|+
T Consensus 513 GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt--~lA~~LA 560 (821)
T CHL00095 513 GQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKT--ELTKALA 560 (821)
T ss_pred ChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHH--HHHHHHH
Confidence 68899999988887432 3589999999999 3444444
No 297
>PRK10536 hypothetical protein; Provisional
Probab=59.30 E-value=5.5 Score=43.18 Aligned_cols=31 Identities=29% Similarity=0.607 Sum_probs=24.8
Q ss_pred CCcEEEeccccccCHHHHHHhCCCCCCCEEEEeCCcChH
Q 002378 358 TADLVVLPYQSLLSKSARESLGLNLKNNIVIIDEAHNLA 396 (929)
Q Consensus 358 ~AdII~~pYnyLl~~~~R~~l~i~l~~~ivI~DEAHNL~ 396 (929)
.--|.|+|.+|+= |-.+.+.+||+|||+|+.
T Consensus 159 ~~~Iei~~l~ymR--------Grtl~~~~vIvDEaqn~~ 189 (262)
T PRK10536 159 IGKVEIAPFAYMR--------GRTFENAVVILDEAQNVT 189 (262)
T ss_pred cCcEEEecHHHhc--------CCcccCCEEEEechhcCC
Confidence 4568888888873 446789999999999983
No 298
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=59.16 E-value=4.3 Score=46.95 Aligned_cols=58 Identities=28% Similarity=0.418 Sum_probs=35.0
Q ss_pred CCCCchhhhhcc-----cCCCcEEEeccccccCHHHHHHhCCCC--------------CCCEEEEeCCcChHHHHHh
Q 002378 344 MRTCPYYGSRSM-----VPTADLVVLPYQSLLSKSARESLGLNL--------------KNNIVIIDEAHNLADSLIN 401 (929)
Q Consensus 344 ~~~CPYy~sR~~-----~~~AdII~~pYnyLl~~~~R~~l~i~l--------------~~~ivI~DEAHNL~d~~~~ 401 (929)
..+--|+.+++. +..-|+|+..|+-+=+.--++..|..- +=.-||+||||||-++-.+
T Consensus 258 lkv~~YhG~~R~~nikel~~YDvVLTty~vvEs~yRk~~~GfrrKngv~ke~SlLHsi~~~RiIlDEAH~IK~R~sn 334 (791)
T KOG1002|consen 258 LKVYIYHGAKRDKNIKELMNYDVVLTTYAVVESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRIILDEAHNIKDRQSN 334 (791)
T ss_pred eEEEEEecccccCCHHHhhcCcEEEEecHHHHHHHHhccccccccCCcccccchhhhceeeeeehhhhccccccccc
Confidence 344455555432 346799999999775443222344222 2234899999999775443
No 299
>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=59.10 E-value=12 Score=41.47 Aligned_cols=32 Identities=28% Similarity=0.252 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHc-----C--CceeeeCCCCCcchHH
Q 002378 22 IQTDFMKALYCSLEN-----G--GVSMLESPTGTGKTLS 53 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~-----~--~~~~~esptgtgktl~ 53 (929)
.|....+.+...|.. + .+.+|.+|.|||||..
T Consensus 8 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~l 46 (305)
T TIGR00635 8 GQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTL 46 (305)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHH
Confidence 355555555555542 2 4689999999999943
No 300
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=58.95 E-value=18 Score=42.86 Aligned_cols=74 Identities=16% Similarity=0.262 Sum_probs=51.4
Q ss_pred HhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcE
Q 002378 680 LVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAM 759 (929)
Q Consensus 680 ~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gai 759 (929)
++..-||.+|||.+|-+-..+++..+..-++-. -++-. ......+=.-|++|++ ...+|
T Consensus 458 fl~ryPGrTlVF~NsId~vKRLt~~L~~L~i~p-----~~LHA-~M~QKqRLknLEkF~~---------------~~~~V 516 (731)
T KOG0347|consen 458 FLTRYPGRTLVFCNSIDCVKRLTVLLNNLDIPP-----LPLHA-SMIQKQRLKNLEKFKQ---------------SPSGV 516 (731)
T ss_pred EEeecCCceEEEechHHHHHHHHHHHhhcCCCC-----chhhH-HHHHHHHHHhHHHHhc---------------CCCeE
Confidence 445579999999999999999998887653211 00000 0011234456788887 46799
Q ss_pred EEEEecCccccccccCC
Q 002378 760 LLAVVGGKISEGINFSD 776 (929)
Q Consensus 760 L~aV~rGk~sEGIDf~d 776 (929)
|+|. .-.+.|+|.|+
T Consensus 517 LiaT--DVAARGLDIp~ 531 (731)
T KOG0347|consen 517 LIAT--DVAARGLDIPG 531 (731)
T ss_pred EEee--hhhhccCCCCC
Confidence 9999 89999999987
No 301
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=58.85 E-value=8 Score=42.59 Aligned_cols=50 Identities=22% Similarity=0.511 Sum_probs=29.6
Q ss_pred CCCC-CCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchHHHHHHHHHhHHHHH
Q 002378 15 FPYK-PYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTLSIICSALQWVVDQK 66 (929)
Q Consensus 15 FPf~-py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl~~l~~~l~~~~~~~ 66 (929)
-|.+ |.-.|+-+ -.++..+.+. .-+++.+|||+|||-. |.+-+.|++.+.
T Consensus 101 Ip~~i~~~e~Lgl-P~i~~~~~~~~~GLILVTGpTGSGKSTT-lAamId~iN~~~ 153 (353)
T COG2805 101 IPSKIPTLEELGL-PPIVRELAESPRGLILVTGPTGSGKSTT-LAAMIDYINKHK 153 (353)
T ss_pred cCccCCCHHHcCC-CHHHHHHHhCCCceEEEeCCCCCcHHHH-HHHHHHHHhccC
Confidence 3555 33334433 3444445555 4456799999999965 455667776644
No 302
>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=58.82 E-value=7 Score=41.62 Aligned_cols=35 Identities=20% Similarity=0.199 Sum_probs=24.8
Q ss_pred HHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 29 ALYCSLENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 29 ~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
+++..|..|...++.+|+|+|||.-.+--++.+..
T Consensus 5 ~~~~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~ 39 (242)
T cd00984 5 NLTGGLQPGDLIIIAARPSMGKTAFALNIAENIAK 39 (242)
T ss_pred hhhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 34446777899999999999999644444444443
No 303
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=58.78 E-value=7.2 Score=43.90 Aligned_cols=36 Identities=28% Similarity=0.299 Sum_probs=25.6
Q ss_pred CHHHHHHHHHHHHHHHc----C---CceeeeCCCCCcchHHHH
Q 002378 20 YSIQTDFMKALYCSLEN----G---GVSMLESPTGTGKTLSII 55 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~----~---~~~~~esptgtgktl~~l 55 (929)
+-.|...++.+...+.. + .+.+|.+|+|||||....
T Consensus 27 ~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 27 FIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred hcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence 34677777766655542 2 578999999999996554
No 304
>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=58.78 E-value=9.4 Score=41.94 Aligned_cols=37 Identities=19% Similarity=0.323 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 21 SIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
+.|...++ . ..++.++.++-|||||..++.-++..|.
T Consensus 3 ~eQ~~~i~----~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~ 39 (315)
T PF00580_consen 3 DEQRRIIR----S--TEGPLLVNAGAGSGKTTTLLERIAYLLY 39 (315)
T ss_dssp HHHHHHHH----S---SSEEEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHh----C--CCCCEEEEeCCCCCchHHHHHHHHHhhc
Confidence 55666644 3 5788889999999999988776654444
No 305
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=58.40 E-value=11 Score=46.56 Aligned_cols=41 Identities=29% Similarity=0.438 Sum_probs=36.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHcCC-ceeeeCCCCCcchHHH
Q 002378 14 AFPYKPYSIQTDFMKALYCSLENGG-VSMLESPTGTGKTLSI 54 (929)
Q Consensus 14 ~FPf~py~~Q~~~M~~v~~~~~~~~-~~~~esptgtgktl~~ 54 (929)
+=||.|-..|-....++.+.+.+|. ..+|-+-||||||+.+
T Consensus 5 ~~~~~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~ 46 (655)
T TIGR00631 5 HSPFQPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTM 46 (655)
T ss_pred ccCCCCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHH
Confidence 3589999999999999999998874 6679999999999764
No 306
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=57.93 E-value=7.4 Score=48.85 Aligned_cols=31 Identities=32% Similarity=0.422 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHcC-----------CceeeeCCCCCcchH
Q 002378 22 IQTDFMKALYCSLENG-----------GVSMLESPTGTGKTL 52 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~-----------~~~~~esptgtgktl 52 (929)
.|.+.++.|..+|... ...+|.+|||||||.
T Consensus 462 GQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~ 503 (758)
T PRK11034 462 GQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTE 503 (758)
T ss_pred CcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHH
Confidence 4777888888887731 357899999999995
No 307
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=57.76 E-value=8 Score=44.39 Aligned_cols=18 Identities=44% Similarity=0.617 Sum_probs=15.9
Q ss_pred CCceeeeCCCCCcchHHH
Q 002378 37 GGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~ 54 (929)
+++..|-||||.|||-.|
T Consensus 203 ~~vi~LVGPTGVGKTTTl 220 (407)
T COG1419 203 KRVIALVGPTGVGKTTTL 220 (407)
T ss_pred CcEEEEECCCCCcHHHHH
Confidence 889999999999999554
No 308
>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=57.47 E-value=8.4 Score=39.02 Aligned_cols=24 Identities=25% Similarity=0.236 Sum_probs=16.6
Q ss_pred ceeeeCCCCCcchHHHHHHHHHhH
Q 002378 39 VSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 39 ~~~~esptgtgktl~~l~~~l~~~ 62 (929)
+.++.+|+|||||.--+--+...+
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~ 24 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGL 24 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHH
Confidence 358899999999975444444443
No 309
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=57.31 E-value=11 Score=43.29 Aligned_cols=28 Identities=25% Similarity=0.387 Sum_probs=20.4
Q ss_pred cCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 36 NGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 36 ~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
.+...++.+|||+|||-.+ -+.+.++.+
T Consensus 148 ~~GlilI~G~TGSGKTT~l-~al~~~i~~ 175 (372)
T TIGR02525 148 AAGLGLICGETGSGKSTLA-ASIYQHCGE 175 (372)
T ss_pred cCCEEEEECCCCCCHHHHH-HHHHHHHHh
Confidence 4567889999999999654 445566543
No 310
>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=57.15 E-value=4.9 Score=41.40 Aligned_cols=24 Identities=17% Similarity=0.026 Sum_probs=20.7
Q ss_pred ccEEEEecccchhHHHHHHHHHhc
Q 002378 219 VLKVYFCSRTHSQLSQFIKELRKT 242 (929)
Q Consensus 219 ~~kIiy~SRTHSQL~Qvi~ELrkt 242 (929)
.++++|.+.|+..+.|+...+++.
T Consensus 69 ~~~viii~p~~~L~~q~~~~~~~~ 92 (203)
T cd00268 69 GPQALILAPTRELALQIAEVARKL 92 (203)
T ss_pred CceEEEEcCCHHHHHHHHHHHHHH
Confidence 578999999999999998888874
No 311
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=56.88 E-value=13 Score=46.92 Aligned_cols=35 Identities=20% Similarity=0.251 Sum_probs=21.1
Q ss_pred HHHHH-HHHHHHHHHcCC--ce-eeeCCCCCcchHHHHH
Q 002378 22 IQTDF-MKALYCSLENGG--VS-MLESPTGTGKTLSIIC 56 (929)
Q Consensus 22 ~Q~~~-M~~v~~~~~~~~--~~-~~esptgtgktl~~l~ 56 (929)
-|.+- +..|..+|..+. .+ ++-||||||||++..-
T Consensus 762 eEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~ 800 (1164)
T PTZ00112 762 KEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYS 800 (1164)
T ss_pred HHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHH
Confidence 34433 344444555332 23 4899999999977544
No 312
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=56.88 E-value=16 Score=41.75 Aligned_cols=33 Identities=21% Similarity=0.265 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHcCC---ceeeeCCCCCcchHHH
Q 002378 22 IQTDFMKALYCSLENGG---VSMLESPTGTGKTLSI 54 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~---~~~~esptgtgktl~~ 54 (929)
.|.+..+.+..++..|. ..||.||.|+|||...
T Consensus 27 Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA 62 (351)
T PRK09112 27 GHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLA 62 (351)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHH
Confidence 68888899999999996 4888999999999543
No 313
>KOG4284 consensus DEAD box protein [Transcription]
Probab=56.66 E-value=2.8 Score=49.92 Aligned_cols=42 Identities=24% Similarity=0.281 Sum_probs=32.1
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
|.+||...+- .+..|-+.|+.+-.||||||.|-..++.=|.-
T Consensus 48 ptkiQaaAIP----~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~ 89 (980)
T KOG4284|consen 48 PTKIQAAAIP----AIFSKMDLIVQAKSGTGKTLVFSVLAVESLDS 89 (980)
T ss_pred CCchhhhhhh----hhhcccceEEEecCCCCceEEEEeeeehhcCc
Confidence 5666665543 44456789999999999999998888877654
No 314
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=56.50 E-value=9.3 Score=39.00 Aligned_cols=29 Identities=24% Similarity=0.432 Sum_probs=24.9
Q ss_pred HcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 35 ENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 35 ~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
..|...++-+|+|+|||..++-.+++|+.
T Consensus 30 ~~g~l~~i~g~~g~GKT~~~~~l~~~~~~ 58 (193)
T PF13481_consen 30 PRGELTLIAGPPGSGKTTLALQLAAALAT 58 (193)
T ss_dssp -TTSEEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred cCCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 36889999999999999988888888874
No 315
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=56.48 E-value=10 Score=44.52 Aligned_cols=18 Identities=44% Similarity=0.506 Sum_probs=14.9
Q ss_pred cCCceeeeCCCCCcchHH
Q 002378 36 NGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 36 ~~~~~~~esptgtgktl~ 53 (929)
..+.++|.+|+|||||+.
T Consensus 216 ~p~gVLL~GPPGTGKT~L 233 (438)
T PTZ00361 216 PPKGVILYGPPGTGKTLL 233 (438)
T ss_pred CCcEEEEECCCCCCHHHH
Confidence 346789999999999964
No 316
>PRK10865 protein disaggregation chaperone; Provisional
Probab=56.31 E-value=7.2 Score=49.87 Aligned_cols=33 Identities=27% Similarity=0.364 Sum_probs=26.4
Q ss_pred CHHHHHHHHHHHHHHHcC-----------CceeeeCCCCCcchH
Q 002378 20 YSIQTDFMKALYCSLENG-----------GVSMLESPTGTGKTL 52 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~-----------~~~~~esptgtgktl 52 (929)
+-.|...|+.|..+|... ...+|.||||||||.
T Consensus 570 viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~ 613 (857)
T PRK10865 570 VIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTE 613 (857)
T ss_pred EeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHH
Confidence 446888888888888742 257899999999996
No 317
>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=56.16 E-value=41 Score=39.45 Aligned_cols=88 Identities=16% Similarity=0.161 Sum_probs=64.2
Q ss_pred hccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEE
Q 002378 682 SVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLL 761 (929)
Q Consensus 682 ~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~ 761 (929)
....+|+|||.|||--.=.+..++++.++ . --...|--+..++...-..|.. ++..||+
T Consensus 297 ~~~~~~~LIfIPSYfDfVRlRN~lk~~~~----s--F~~i~EYts~~~isRAR~~F~~---------------G~~~iLL 355 (442)
T PF06862_consen 297 DSKMSGTLIFIPSYFDFVRLRNYLKKENI----S--FVQISEYTSNSDISRARSQFFH---------------GRKPILL 355 (442)
T ss_pred ccCCCcEEEEecchhhhHHHHHHHHhcCC----e--EEEecccCCHHHHHHHHHHHHc---------------CCceEEE
Confidence 45668999999999988888888876532 0 1123355445677777777776 5778999
Q ss_pred EEecCccccccccCCCcceEEEEEccCCCCC
Q 002378 762 AVVGGKISEGINFSDGMGRCIVMVGLPYPSP 792 (929)
Q Consensus 762 aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~ 792 (929)
-.=|--|..=..+.| .+-||..|+|--+.
T Consensus 356 ~TER~HFfrRy~irG--i~~viFY~~P~~p~ 384 (442)
T PF06862_consen 356 YTERFHFFRRYRIRG--IRHVIFYGPPENPQ 384 (442)
T ss_pred EEhHHhhhhhceecC--CcEEEEECCCCChh
Confidence 886766666666676 78999999997544
No 318
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=55.51 E-value=20 Score=39.45 Aligned_cols=18 Identities=56% Similarity=0.900 Sum_probs=15.0
Q ss_pred CCceeeeCCCCCcchHHH
Q 002378 37 GGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~ 54 (929)
+.+.+|-+|||+|||-.+
T Consensus 194 ~~vi~~vGptGvGKTTt~ 211 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTL 211 (282)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 457888999999999654
No 319
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=55.50 E-value=14 Score=45.44 Aligned_cols=33 Identities=24% Similarity=0.290 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHcCCc---eeeeCCCCCcchHHH
Q 002378 22 IQTDFMKALYCSLENGGV---SMLESPTGTGKTLSI 54 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~~---~~~esptgtgktl~~ 54 (929)
.|....+.+..++.+|.. .||.||.|||||..-
T Consensus 20 GQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA 55 (620)
T PRK14954 20 AQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAA 55 (620)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHH
Confidence 588999999999998733 679999999999543
No 320
>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=55.20 E-value=13 Score=41.96 Aligned_cols=34 Identities=29% Similarity=0.456 Sum_probs=28.0
Q ss_pred CHHHHHHHHHHHHHHHcCCc---eeeeCCCCCcchHH
Q 002378 20 YSIQTDFMKALYCSLENGGV---SMLESPTGTGKTLS 53 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~~~---~~~esptgtgktl~ 53 (929)
.-.|...++.+...+.+|+. .||.||.|+|||..
T Consensus 16 iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~ 52 (355)
T TIGR02397 16 VIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSI 52 (355)
T ss_pred ccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 34688889999999998853 48999999999943
No 321
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=55.18 E-value=10 Score=43.84 Aligned_cols=21 Identities=43% Similarity=0.629 Sum_probs=16.0
Q ss_pred CceeeeCCCCCcchHHHHHHHHH
Q 002378 38 GVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l~~~l~ 60 (929)
+.++|.+|+|||||+ |+-+++
T Consensus 166 ~gvLL~GppGtGKT~--lAkaia 186 (389)
T PRK03992 166 KGVLLYGPPGTGKTL--LAKAVA 186 (389)
T ss_pred CceEEECCCCCChHH--HHHHHH
Confidence 568999999999995 344443
No 322
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=55.11 E-value=2.2e+02 Score=34.13 Aligned_cols=150 Identities=19% Similarity=0.249 Sum_probs=79.4
Q ss_pred eEEEeccCCCChhhHHHhhCCCCCCCceeee-ecCCccCCCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHH
Q 002378 602 AVILAGGTLQPIEETRERLFPWLSPNKFHFF-SCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNL 680 (929)
Q Consensus 602 svILtSGTLsP~~~f~~~L~~~~~~~~i~~~-~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~ 680 (929)
.++=.|+|+..--...++|+.- . .+..+ .-+++-..+.+.++-.+--|. ..|..+.++.+.+..+.++
T Consensus 453 ~~~~~~~~~K~~~~~~~~~~~~-~--E~~Li~~DGSPs~~K~~V~WNP~~~P~--------~~~~~~~~i~E~s~~~~~~ 521 (1034)
T KOG4150|consen 453 GVYDGDTPYKDRTRLRSELANL-S--ELELVTIDGSPSSEKLFVLWNPSAPPT--------SKSEKSSKVVEVSHLFAEM 521 (1034)
T ss_pred ceEeCCCCcCCHHHHHHHhcCC-c--ceEEEEecCCCCccceEEEeCCCCCCc--------chhhhhhHHHHHHHHHHHH
Confidence 4677778887544445555421 1 12111 123333333332222222221 2344567788888888887
Q ss_pred hhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHH--------HHhccCCCCCCCC
Q 002378 681 VSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQK--------TIDTLSSRPKEDS 752 (929)
Q Consensus 681 ~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~--------~i~~~~~~~~~~~ 752 (929)
+.. .=..+.|.||-..-+.++..-+ .||+|.. .++-..+-.|+- -|...
T Consensus 522 i~~-~~R~IAFC~~R~~CEL~~~~~R------------~I~~ET~--~~LV~~i~SYRGGY~A~DRRKIE~~-------- 578 (1034)
T KOG4150|consen 522 VQH-GLRCIAFCPSRKLCELVLCLTR------------EILAETA--PHLVEAITSYRGGYIAEDRRKIESD-------- 578 (1034)
T ss_pred HHc-CCcEEEeccHHHHHHHHHHHHH------------HHHHHhh--HHHHHHHHhhcCccchhhHHHHHHH--------
Confidence 653 3368999999988777665433 2666652 222222223321 11100
Q ss_pred CCCCCcEEEEEe-cCccccccccCCCcceEEEEEccCC
Q 002378 753 TPLNGAMLLAVV-GGKISEGINFSDGMGRCIVMVGLPY 789 (929)
Q Consensus 753 ~~~~gaiL~aV~-rGk~sEGIDf~d~~~r~ViivGlPf 789 (929)
.-|+=|-||. -..+-=|||.-+ +.+|+++|.||
T Consensus 579 --~F~G~L~giIaTNALELGIDIG~--LDAVl~~GFP~ 612 (1034)
T KOG4150|consen 579 --LFGGKLCGIIATNALELGIDIGH--LDAVLHLGFPG 612 (1034)
T ss_pred --hhCCeeeEEEecchhhhcccccc--ceeEEEccCch
Confidence 1133333332 256677999865 78999999998
No 323
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=55.09 E-value=10 Score=39.44 Aligned_cols=25 Identities=24% Similarity=0.725 Sum_probs=17.9
Q ss_pred CceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 38 GVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
...++-+|||+|||-.+ -+.+.++.
T Consensus 2 GlilI~GptGSGKTTll-~~ll~~~~ 26 (198)
T cd01131 2 GLVLVTGPTGSGKSTTL-AAMIDYIN 26 (198)
T ss_pred cEEEEECCCCCCHHHHH-HHHHHHhh
Confidence 45788999999999765 33445543
No 324
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=55.03 E-value=29 Score=39.63 Aligned_cols=91 Identities=20% Similarity=0.341 Sum_probs=55.7
Q ss_pred cCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcEEEEE
Q 002378 684 VPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAMLLAV 763 (929)
Q Consensus 684 vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gaiL~aV 763 (929)
..+.+++|..+.-+.+.+-..+--.|+..+ -+--.+...+.+..|+.|+. +.=-||+|.
T Consensus 464 ~ndKvIiFv~~K~~AD~LSSd~~l~gi~~q------~lHG~r~Q~DrE~al~~~ks---------------G~vrILvaT 522 (629)
T KOG0336|consen 464 SNDKVIIFVSRKVMADHLSSDFCLKGISSQ------SLHGNREQSDREMALEDFKS---------------GEVRILVAT 522 (629)
T ss_pred CCceEEEEEechhhhhhccchhhhcccchh------hccCChhhhhHHHHHHhhhc---------------CceEEEEEe
Confidence 347899999888776665554433232111 11122334578888888876 455677777
Q ss_pred ecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhcc
Q 002378 764 VGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLG 808 (929)
Q Consensus 764 ~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~ 808 (929)
.-.|.|+|++|- ..| +-|.-|.+.+ +|+-+.+
T Consensus 523 --DlaSRGlDv~Di--THV----~NyDFP~nIe-----eYVHRvG 554 (629)
T KOG0336|consen 523 --DLASRGLDVPDI--THV----YNYDFPRNIE-----EYVHRVG 554 (629)
T ss_pred --chhhcCCCchhc--cee----eccCCCccHH-----HHHHHhc
Confidence 899999999993 222 3444455544 5766553
No 325
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=54.89 E-value=9.4 Score=44.29 Aligned_cols=48 Identities=27% Similarity=0.346 Sum_probs=30.0
Q ss_pred CCCCCCC---CCHHHHHHHHHHHHH-H-----------HcCCceeeeCCCCCcchHHHHHHHHHh
Q 002378 12 FPAFPYK---PYSIQTDFMKALYCS-L-----------ENGGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 12 ~~~FPf~---py~~Q~~~M~~v~~~-~-----------~~~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
.|...|+ -++.|.+-++..+.. + ...+.++|.||+|||||+. .-+++.
T Consensus 139 ~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~L--AkalA~ 201 (398)
T PTZ00454 139 KPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTML--AKAVAH 201 (398)
T ss_pred CCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHH--HHHHHH
Confidence 3445554 445677666665542 1 2347789999999999973 444443
No 326
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=54.89 E-value=15 Score=46.46 Aligned_cols=44 Identities=30% Similarity=0.379 Sum_probs=34.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhH
Q 002378 15 FPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWV 62 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~ 62 (929)
+=|+|+..|+.--++ |-.|++--+-+|||+|||-=.+.++|=.-
T Consensus 79 ~G~~~ws~QR~WakR----~~rg~SFaiiAPTGvGKTTfg~~~sl~~a 122 (1187)
T COG1110 79 TGFRPWSAQRVWAKR----LVRGKSFAIIAPTGVGKTTFGLLMSLYLA 122 (1187)
T ss_pred hCCCchHHHHHHHHH----HHcCCceEEEcCCCCchhHHHHHHHHHHH
Confidence 345899999999775 45688888889999999977766665433
No 327
>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=54.86 E-value=10 Score=36.90 Aligned_cols=27 Identities=41% Similarity=0.549 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHcCCceeeeCCCCCcch
Q 002378 25 DFMKALYCSLENGGVSMLESPTGTGKT 51 (929)
Q Consensus 25 ~~M~~v~~~~~~~~~~~~esptgtgkt 51 (929)
++=+.+-+.|..|.+++|.+|-|+|||
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaGKT 36 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAGKT 36 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCCHH
Confidence 344566777888999999999999998
No 328
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=54.60 E-value=12 Score=44.57 Aligned_cols=33 Identities=27% Similarity=0.490 Sum_probs=22.0
Q ss_pred HHHHHHcC-CceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 30 LYCSLENG-GVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 30 v~~~~~~~-~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
+.+.+... ...++.+|||+|||-.+ -+.|.++.
T Consensus 234 l~~~~~~~~GlilitGptGSGKTTtL-~a~L~~l~ 267 (486)
T TIGR02533 234 FERLIRRPHGIILVTGPTGSGKTTTL-YAALSRLN 267 (486)
T ss_pred HHHHHhcCCCEEEEEcCCCCCHHHHH-HHHHhccC
Confidence 33344443 46789999999999766 33466654
No 329
>KOG0243 consensus Kinesin-like protein [Cytoskeleton]
Probab=54.54 E-value=9.7 Score=48.28 Aligned_cols=40 Identities=30% Similarity=0.460 Sum_probs=28.4
Q ss_pred CCCC----CCHHHHHHHHHHHHHHH----cC--CceeeeCCCCCcchHHH
Q 002378 15 FPYK----PYSIQTDFMKALYCSLE----NG--GVSMLESPTGTGKTLSI 54 (929)
Q Consensus 15 FPf~----py~~Q~~~M~~v~~~~~----~~--~~~~~esptgtgktl~~ 54 (929)
|+|+ |=.-|.++-+.++.-+- .| ..++.-|+||||||...
T Consensus 97 ftFDkVFGpes~Q~d~Y~~~v~p~i~eVl~GyNCTIFAYGQTGTGKTyTM 146 (1041)
T KOG0243|consen 97 FTFDKVFGPESQQEDLYDQAVSPIIKEVLEGYNCTIFAYGQTGTGKTYTM 146 (1041)
T ss_pred eecceeeCcchhHHHHHHHHHHHHHHHHhccCCceEEEecCCCCCceeee
Confidence 7776 66778888777665543 34 34556999999999654
No 330
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=54.45 E-value=15 Score=45.24 Aligned_cols=40 Identities=15% Similarity=0.091 Sum_probs=34.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHH
Q 002378 15 FPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~ 54 (929)
..++-...|.+.+..+..++..+.+.+|.+|.|||||...
T Consensus 28 ~~~~~vigq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla 67 (637)
T PRK13765 28 RLIDQVIGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLA 67 (637)
T ss_pred ccHHHcCChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHH
Confidence 3445566899999999999999999999999999999644
No 331
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.29 E-value=15 Score=44.37 Aligned_cols=33 Identities=27% Similarity=0.323 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHcCC--ce-eeeCCCCCcchHHH
Q 002378 22 IQTDFMKALYCSLENGG--VS-MLESPTGTGKTLSI 54 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~--~~-~~esptgtgktl~~ 54 (929)
.|...++.+...+..++ ++ ||.||.|||||...
T Consensus 20 Gq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A 55 (527)
T PRK14969 20 GQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLA 55 (527)
T ss_pred CcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHH
Confidence 68888899999999874 44 89999999999543
No 332
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=54.21 E-value=14 Score=35.87 Aligned_cols=25 Identities=24% Similarity=0.379 Sum_probs=17.8
Q ss_pred HHHHHHHHcCCceeeeCCCCCcchH
Q 002378 28 KALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 28 ~~v~~~~~~~~~~~~esptgtgktl 52 (929)
+.+......+..+++.|+.||||++
T Consensus 12 ~~l~~~a~~~~pvli~GE~GtGK~~ 36 (138)
T PF14532_consen 12 RQLERLAKSSSPVLITGEPGTGKSL 36 (138)
T ss_dssp HHHHHHHCSSS-EEEECCTTSSHHH
T ss_pred HHHHHHhCCCCcEEEEcCCCCCHHH
Confidence 3333444456889999999999996
No 333
>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=54.17 E-value=10 Score=39.39 Aligned_cols=31 Identities=19% Similarity=0.297 Sum_probs=22.1
Q ss_pred HHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 34 LENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 34 ~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
+....+.++-++||+|||..+-+..++.+..
T Consensus 35 l~~~~h~li~G~tgsGKS~~l~~ll~~l~~~ 65 (205)
T PF01580_consen 35 LKKNPHLLIAGATGSGKSTLLRTLLLSLALT 65 (205)
T ss_dssp GGGS-SEEEE--TTSSHHHHHHHHHHHHHTT
T ss_pred cCCCceEEEEcCCCCCccHHHHHHHHHHHHH
Confidence 3445699999999999999988777766654
No 334
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=54.17 E-value=8 Score=32.43 Aligned_cols=25 Identities=36% Similarity=0.735 Sum_probs=18.4
Q ss_pred CCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
|.+.+|-+|+|+|||- |.-|+.|+-
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 4589999999999985 444555543
No 335
>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=54.10 E-value=14 Score=44.16 Aligned_cols=23 Identities=39% Similarity=0.474 Sum_probs=17.8
Q ss_pred CCceeeeCCCCCcchHHHHHHHHHh
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
.+.++|-+|+|||||+ |+-++++
T Consensus 216 p~GILLyGPPGTGKT~--LAKAlA~ 238 (512)
T TIGR03689 216 PKGVLLYGPPGCGKTL--IAKAVAN 238 (512)
T ss_pred CcceEEECCCCCcHHH--HHHHHHH
Confidence 4678999999999997 4555554
No 336
>CHL00181 cbbX CbbX; Provisional
Probab=53.98 E-value=9.5 Score=42.22 Aligned_cols=19 Identities=32% Similarity=0.375 Sum_probs=15.2
Q ss_pred CCceeeeCCCCCcchHHHH
Q 002378 37 GGVSMLESPTGTGKTLSII 55 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l 55 (929)
|-+.+|.+|+|||||...-
T Consensus 59 ~~~ill~G~pGtGKT~lAr 77 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVAL 77 (287)
T ss_pred CceEEEECCCCCCHHHHHH
Confidence 4567999999999996443
No 337
>CHL00176 ftsH cell division protein; Validated
Probab=53.97 E-value=11 Score=46.59 Aligned_cols=44 Identities=23% Similarity=0.378 Sum_probs=30.9
Q ss_pred CCCC---CCHHHHHHHHHHHHHHHcCC-----------ceeeeCCCCCcchHHHHHHHHH
Q 002378 15 FPYK---PYSIQTDFMKALYCSLENGG-----------VSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 15 FPf~---py~~Q~~~M~~v~~~~~~~~-----------~~~~esptgtgktl~~l~~~l~ 60 (929)
+.|+ -++.+.+-++.+.+.+.+.. .++|.+|+|||||+ |.-+|+
T Consensus 180 ~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~--LAralA 237 (638)
T CHL00176 180 ITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTL--LAKAIA 237 (638)
T ss_pred CCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHH--HHHHHH
Confidence 4554 46677777777777776653 48999999999996 344443
No 338
>PHA00547 hypothetical protein
Probab=53.81 E-value=23 Score=38.28 Aligned_cols=37 Identities=22% Similarity=0.172 Sum_probs=29.7
Q ss_pred HHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 27 MKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 27 M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
-.+++..+.+....++++|=||||||-.-.-|.-|.+
T Consensus 65 ~~k~VK~ik~spis~i~G~LGsGKTlLMT~LA~~~K~ 101 (337)
T PHA00547 65 AFRLVNFIWDNPLSVIIGKLGTGKTLLLTYLSQTMKL 101 (337)
T ss_pred HHHHHHHHhcCCceEEeccCCCchhHHHHHHHHHHHh
Confidence 3567889999999999999999999866555555544
No 339
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=53.80 E-value=8.6 Score=43.69 Aligned_cols=20 Identities=30% Similarity=0.709 Sum_probs=17.1
Q ss_pred HcCCceeeeCCCCCcchHHH
Q 002378 35 ENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 35 ~~~~~~~~esptgtgktl~~ 54 (929)
..++..++.||||+|||-.+
T Consensus 120 ~~~g~ili~G~tGSGKTT~l 139 (343)
T TIGR01420 120 RPRGLILVTGPTGSGKSTTL 139 (343)
T ss_pred hcCcEEEEECCCCCCHHHHH
Confidence 35789999999999999665
No 340
>PRK13764 ATPase; Provisional
Probab=53.73 E-value=9.8 Score=46.33 Aligned_cols=28 Identities=14% Similarity=0.229 Sum_probs=21.8
Q ss_pred HcCCceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 35 ENGGVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 35 ~~~~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
..+++.++.+|||+|||-. +.+.+.++.
T Consensus 255 ~~~~~ILIsG~TGSGKTTl-l~AL~~~i~ 282 (602)
T PRK13764 255 ERAEGILIAGAPGAGKSTF-AQALAEFYA 282 (602)
T ss_pred hcCCEEEEECCCCCCHHHH-HHHHHHHHh
Confidence 4578899999999999964 466666664
No 341
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=53.69 E-value=5.8 Score=41.65 Aligned_cols=14 Identities=57% Similarity=0.854 Sum_probs=10.9
Q ss_pred ceeeeCCCCCcchH
Q 002378 39 VSMLESPTGTGKTL 52 (929)
Q Consensus 39 ~~~~esptgtgktl 52 (929)
..++-+|||||||-
T Consensus 3 v~~i~GpT~tGKt~ 16 (233)
T PF01745_consen 3 VYLIVGPTGTGKTA 16 (233)
T ss_dssp EEEEE-STTSSHHH
T ss_pred EEEEECCCCCChhH
Confidence 46788999999993
No 342
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=53.54 E-value=2.7 Score=47.05 Aligned_cols=44 Identities=25% Similarity=0.349 Sum_probs=36.9
Q ss_pred CCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHH
Q 002378 18 KPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQ 65 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~ 65 (929)
.|.|||.+-+- ++..|.+-|--+-||+||||.+..+.+-+--+.
T Consensus 192 ~PTpIQvQGlP----vvLsGRDmIGIAfTGSGKTlvFvLP~imf~Leq 235 (610)
T KOG0341|consen 192 HPTPIQVQGLP----VVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQ 235 (610)
T ss_pred CCCceeecCcc----eEeecCceeeEEeecCCceEEEeHHHHHHHHHH
Confidence 48999988865 667788888889999999999999998876653
No 343
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=53.11 E-value=16 Score=44.08 Aligned_cols=34 Identities=26% Similarity=0.279 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHcCCc---eeeeCCCCCcchHHH
Q 002378 21 SIQTDFMKALYCSLENGGV---SMLESPTGTGKTLSI 54 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~---~~~esptgtgktl~~ 54 (929)
-.|....+.+..++..++. .||.||.|||||...
T Consensus 19 iGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlA 55 (546)
T PRK14957 19 AGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLG 55 (546)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 3788888999999998754 579999999999543
No 344
>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=52.93 E-value=7.5 Score=39.32 Aligned_cols=16 Identities=31% Similarity=0.686 Sum_probs=14.2
Q ss_pred CCceeeeCCCCCcchH
Q 002378 37 GGVSMLESPTGTGKTL 52 (929)
Q Consensus 37 ~~~~~~esptgtgktl 52 (929)
|+..+|.+|+|+|||-
T Consensus 1 g~ii~l~G~~GsGKsT 16 (180)
T TIGR03263 1 GLLIVISGPSGVGKST 16 (180)
T ss_pred CcEEEEECCCCCCHHH
Confidence 5778999999999994
No 345
>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=52.73 E-value=11 Score=45.04 Aligned_cols=41 Identities=27% Similarity=0.287 Sum_probs=27.3
Q ss_pred CCHHHHHHHHHHHHHHHc-----------CCceeeeCCCCCcchHHHHHHHHHh
Q 002378 19 PYSIQTDFMKALYCSLEN-----------GGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~-----------~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
-++.++.-++.+++.+.+ .+.++|.+|+|||||+ |+-+|++
T Consensus 59 g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~--la~alA~ 110 (495)
T TIGR01241 59 GIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTL--LAKAVAG 110 (495)
T ss_pred CHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHH--HHHHHHH
Confidence 445566556666665553 2468999999999996 4445543
No 346
>PRK08116 hypothetical protein; Validated
Probab=52.55 E-value=28 Score=38.15 Aligned_cols=33 Identities=21% Similarity=0.047 Sum_probs=20.6
Q ss_pred CHHHHHHHHHHHHHHH---c--C--CceeeeCCCCCcchH
Q 002378 20 YSIQTDFMKALYCSLE---N--G--GVSMLESPTGTGKTL 52 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~---~--~--~~~~~esptgtgktl 52 (929)
-+.|...+..+.+-++ . . ...+|-||+|||||.
T Consensus 90 ~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKTh 129 (268)
T PRK08116 90 DKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTY 129 (268)
T ss_pred ChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHH
Confidence 3555555554443333 1 2 238899999999985
No 347
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=52.27 E-value=16 Score=44.57 Aligned_cols=37 Identities=24% Similarity=0.163 Sum_probs=29.0
Q ss_pred CHHHHHHHHHHHHHHHcCC--c-eeeeCCCCCcchHHHHH
Q 002378 20 YSIQTDFMKALYCSLENGG--V-SMLESPTGTGKTLSIIC 56 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~~--~-~~~esptgtgktl~~l~ 56 (929)
+-.|...++.+...+..+. + .||.||.|||||....+
T Consensus 18 IIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~ 57 (605)
T PRK05896 18 IIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKI 57 (605)
T ss_pred hcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 3368888999999998873 3 47999999999965444
No 348
>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=52.20 E-value=16 Score=41.56 Aligned_cols=25 Identities=24% Similarity=0.284 Sum_probs=19.7
Q ss_pred HHHHHHcCCceeeeCCCCCcchHHH
Q 002378 30 LYCSLENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 30 v~~~~~~~~~~~~esptgtgktl~~ 54 (929)
+..++..+++.++.+|||+|||-.+
T Consensus 171 L~~~v~~~~~ili~G~tGsGKTTll 195 (340)
T TIGR03819 171 LRAIVAARLAFLISGGTGSGKTTLL 195 (340)
T ss_pred HHHHHhCCCeEEEECCCCCCHHHHH
Confidence 3445667899999999999998533
No 349
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=51.98 E-value=6.5 Score=43.71 Aligned_cols=17 Identities=24% Similarity=0.434 Sum_probs=14.4
Q ss_pred cCCceeeeCCCCCcchH
Q 002378 36 NGGVSMLESPTGTGKTL 52 (929)
Q Consensus 36 ~~~~~~~esptgtgktl 52 (929)
.++..++-+|||+|||-
T Consensus 3 ~~~ii~I~GpTasGKS~ 19 (300)
T PRK14729 3 ENKIVFIFGPTAVGKSN 19 (300)
T ss_pred CCcEEEEECCCccCHHH
Confidence 35678999999999995
No 350
>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=51.93 E-value=16 Score=41.53 Aligned_cols=34 Identities=18% Similarity=0.234 Sum_probs=24.5
Q ss_pred CCHHHHHHHHHHHHHHH----cCCceeeeCCCCCcchH
Q 002378 19 PYSIQTDFMKALYCSLE----NGGVSMLESPTGTGKTL 52 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~----~~~~~~~esptgtgktl 52 (929)
.++...+++..+..... .++..+|.+|+|||||.
T Consensus 56 ~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKSt 93 (361)
T smart00763 56 MEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSS 93 (361)
T ss_pred cHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHH
Confidence 45566666666665554 24778999999999994
No 351
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=51.78 E-value=7.2 Score=48.23 Aligned_cols=15 Identities=53% Similarity=0.733 Sum_probs=13.9
Q ss_pred CceeeeCCCCCcchH
Q 002378 38 GVSMLESPTGTGKTL 52 (929)
Q Consensus 38 ~~~~~esptgtgktl 52 (929)
+-+||.+|.||||||
T Consensus 345 kGvLL~GPPGTGKTL 359 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTL 359 (774)
T ss_pred CceEEECCCCCcHHH
Confidence 678999999999996
No 352
>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=51.77 E-value=1.5e+02 Score=36.92 Aligned_cols=19 Identities=21% Similarity=0.322 Sum_probs=15.4
Q ss_pred CCcEEEEEecCccccccccCC
Q 002378 756 NGAMLLAVVGGKISEGINFSD 776 (929)
Q Consensus 756 ~gaiL~aV~rGk~sEGIDf~d 776 (929)
.--||+.| +++.+|+|-|.
T Consensus 591 ~~~ilIVv--dmllTGFDaP~ 609 (667)
T TIGR00348 591 NPKLLIVV--DMLLTGFDAPI 609 (667)
T ss_pred CceEEEEE--cccccccCCCc
Confidence 34677777 99999999887
No 353
>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=51.72 E-value=7 Score=40.69 Aligned_cols=18 Identities=50% Similarity=0.643 Sum_probs=14.5
Q ss_pred CceeeeCCCCCcchHHHH
Q 002378 38 GVSMLESPTGTGKTLSII 55 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l 55 (929)
++.+|-+|||+|||-++.
T Consensus 2 ~vi~lvGptGvGKTTt~a 19 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIA 19 (196)
T ss_dssp EEEEEEESTTSSHHHHHH
T ss_pred EEEEEECCCCCchHhHHH
Confidence 357889999999997653
No 354
>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=51.67 E-value=11 Score=35.33 Aligned_cols=13 Identities=54% Similarity=0.861 Sum_probs=11.4
Q ss_pred eeeeCCCCCcchH
Q 002378 40 SMLESPTGTGKTL 52 (929)
Q Consensus 40 ~~~esptgtgktl 52 (929)
.+|.+|.|||||.
T Consensus 1 ill~G~~G~GKT~ 13 (132)
T PF00004_consen 1 ILLHGPPGTGKTT 13 (132)
T ss_dssp EEEESSTTSSHHH
T ss_pred CEEECcCCCCeeH
Confidence 4789999999995
No 355
>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=51.65 E-value=7.3 Score=37.67 Aligned_cols=17 Identities=35% Similarity=0.368 Sum_probs=10.7
Q ss_pred ceeeeCCCCCcchHHHH
Q 002378 39 VSMLESPTGTGKTLSII 55 (929)
Q Consensus 39 ~~~~esptgtgktl~~l 55 (929)
++++|++.|+|||...-
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 57999999999997543
No 356
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=51.65 E-value=12 Score=47.03 Aligned_cols=36 Identities=22% Similarity=0.203 Sum_probs=29.9
Q ss_pred CCCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchHH
Q 002378 18 KPYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTLS 53 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl~ 53 (929)
+|.-.|...++.+++.|..+ .+.||-+|+|||||.-
T Consensus 182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l 219 (731)
T TIGR02639 182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAI 219 (731)
T ss_pred CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHH
Confidence 35667888889999888764 7899999999999964
No 357
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=51.64 E-value=22 Score=41.03 Aligned_cols=22 Identities=45% Similarity=0.507 Sum_probs=17.2
Q ss_pred CCceeeeCCCCCcchHHHHHHH
Q 002378 37 GGVSMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~ 58 (929)
+.+.+|-+|||+|||-...--+
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA 195 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLA 195 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHH
Confidence 4678899999999997664443
No 358
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.62 E-value=16 Score=46.25 Aligned_cols=35 Identities=23% Similarity=0.227 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHcC--Cce-eeeCCCCCcchHHHHH
Q 002378 22 IQTDFMKALYCSLENG--GVS-MLESPTGTGKTLSIIC 56 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~--~~~-~~esptgtgktl~~l~ 56 (929)
.|....+.+...+..+ .++ ||.||.|||||....+
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARi 57 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARL 57 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHH
Confidence 6888888888899887 445 8999999999965433
No 359
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.44 E-value=14 Score=45.39 Aligned_cols=37 Identities=27% Similarity=0.312 Sum_probs=30.0
Q ss_pred CHHHHHHHHHHHHHHHcCCce---eeeCCCCCcchHHHHH
Q 002378 20 YSIQTDFMKALYCSLENGGVS---MLESPTGTGKTLSIIC 56 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~~~~---~~esptgtgktl~~l~ 56 (929)
.-.|....+.+...+..++.. ||.||.|||||....+
T Consensus 18 liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~ 57 (620)
T PRK14948 18 LVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARI 57 (620)
T ss_pred ccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHH
Confidence 447888899999999998654 8999999999965443
No 360
>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=51.38 E-value=3.6e+02 Score=34.14 Aligned_cols=29 Identities=31% Similarity=0.453 Sum_probs=23.3
Q ss_pred HHHHHHhhcccccCCCCeEEEEEEeccccc
Q 002378 851 MKAVNQSIGRAIRHINDHAAILLVDLRYAS 880 (929)
Q Consensus 851 ~ravnQaiGR~IRh~~D~g~iiLlD~R~~~ 880 (929)
|..+-|.+|| ||+-.+--.++-+|..-..
T Consensus 363 ~~s~~Q~lgR-vR~l~~~ei~v~~d~~~~~ 391 (824)
T PF02399_consen 363 MVSVYQMLGR-VRSLLDNEIYVYIDASGAR 391 (824)
T ss_pred HHHHHHHHHH-HHhhccCeEEEEEeccccc
Confidence 5678999999 5788888889999987544
No 361
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=51.01 E-value=13 Score=44.39 Aligned_cols=47 Identities=26% Similarity=0.326 Sum_probs=33.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 15 FPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
||..-=+.|++.... ++..+...++.+|.|||||-.+.--..+-++.
T Consensus 182 ~~~~ln~SQk~Av~~---~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~ 228 (649)
T KOG1803|consen 182 FNKNLNSSQKAAVSF---AINNKDLLIIHGPPGTGKTRTLVEIISQLVKQ 228 (649)
T ss_pred CCccccHHHHHHHHH---HhccCCceEeeCCCCCCceeeHHHHHHHHHHc
Confidence 677777888877553 34455888999999999997776555555544
No 362
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=50.84 E-value=17 Score=44.62 Aligned_cols=33 Identities=30% Similarity=0.393 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHcCC--ce-eeeCCCCCcchHHH
Q 002378 22 IQTDFMKALYCSLENGG--VS-MLESPTGTGKTLSI 54 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~--~~-~~esptgtgktl~~ 54 (929)
.|....+.+...+.+|+ ++ ||.||.|||||-..
T Consensus 19 GQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlA 54 (702)
T PRK14960 19 GQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIA 54 (702)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 57888889999999884 44 99999999999543
No 363
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=50.75 E-value=21 Score=44.27 Aligned_cols=43 Identities=33% Similarity=0.454 Sum_probs=37.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHcCC-ceeeeCCCCCcchHHHH
Q 002378 13 PAFPYKPYSIQTDFMKALYCSLENGG-VSMLESPTGTGKTLSII 55 (929)
Q Consensus 13 ~~FPf~py~~Q~~~M~~v~~~~~~~~-~~~~esptgtgktl~~l 55 (929)
.+=||.|.+.|......+.+.+.+|. ..++.+.||+|||+.+.
T Consensus 7 ~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia 50 (652)
T PRK05298 7 LVSPYKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMA 50 (652)
T ss_pred cccCCCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHH
Confidence 34589999999999999999998773 66799999999998753
No 364
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=50.32 E-value=18 Score=44.16 Aligned_cols=35 Identities=29% Similarity=0.345 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHcCC---ceeeeCCCCCcchHHHHH
Q 002378 22 IQTDFMKALYCSLENGG---VSMLESPTGTGKTLSIIC 56 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~---~~~~esptgtgktl~~l~ 56 (929)
.|...++.+...+..|+ ..||.+|.|||||..-.+
T Consensus 28 Gq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~ 65 (598)
T PRK09111 28 GQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARI 65 (598)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 68999999999999985 478999999999965433
No 365
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=50.27 E-value=18 Score=44.31 Aligned_cols=33 Identities=27% Similarity=0.318 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHcCC--ce-eeeCCCCCcchHHH
Q 002378 22 IQTDFMKALYCSLENGG--VS-MLESPTGTGKTLSI 54 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~--~~-~~esptgtgktl~~ 54 (929)
.|...++.+...|.+++ ++ ||.+|.|||||..-
T Consensus 20 GQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLA 55 (700)
T PRK12323 20 GQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLS 55 (700)
T ss_pred CcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHH
Confidence 68899999999999995 44 89999999999543
No 366
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=50.18 E-value=17 Score=38.86 Aligned_cols=34 Identities=26% Similarity=0.272 Sum_probs=25.9
Q ss_pred CHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 20 YSIQTDFMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
.|.=...+..+..+|.....+.+.+|+|||||-+
T Consensus 15 Tplt~r~~~~l~~al~~~~~~~~~GpagtGKtet 48 (231)
T PF12774_consen 15 TPLTDRCFLTLTQALSLNLGGALSGPAGTGKTET 48 (231)
T ss_dssp -HHHHHHHHHHHHHHCTTTEEEEESSTTSSHHHH
T ss_pred chHHHHHHHHHHHHhccCCCCCCcCCCCCCchhH
Confidence 3434455666777888889999999999999954
No 367
>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=49.92 E-value=26 Score=35.19 Aligned_cols=33 Identities=21% Similarity=0.444 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHcC--Cc-eeeeCCCCCcchHHHH
Q 002378 23 QTDFMKALYCSLENG--GV-SMLESPTGTGKTLSII 55 (929)
Q Consensus 23 Q~~~M~~v~~~~~~~--~~-~~~esptgtgktl~~l 55 (929)
|.+..+.+...+.++ .+ .||+||.|+||+...+
T Consensus 2 q~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~ 37 (162)
T PF13177_consen 2 QEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLAL 37 (162)
T ss_dssp -HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHH
T ss_pred cHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHH
Confidence 788889999999998 33 5999999999885433
No 368
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=49.85 E-value=19 Score=44.44 Aligned_cols=35 Identities=31% Similarity=0.338 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHcCC--c-eeeeCCCCCcchHHHH
Q 002378 21 SIQTDFMKALYCSLENGG--V-SMLESPTGTGKTLSII 55 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~--~-~~~esptgtgktl~~l 55 (929)
-.|...++.+...|..+. + .||.||.|||||....
T Consensus 19 IGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAr 56 (709)
T PRK08691 19 VGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIAR 56 (709)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHH
Confidence 368899999999999885 3 4999999999995443
No 369
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=49.81 E-value=10 Score=43.11 Aligned_cols=48 Identities=23% Similarity=0.255 Sum_probs=30.4
Q ss_pred ccCHHHHHH-hCCCCCCCEEEEeCCcChHHHHHhhcccccCHHHHHHHHHHHH
Q 002378 369 LLSKSARES-LGLNLKNNIVIIDEAHNLADSLINMYNAKITLSQLENVHSHLE 420 (929)
Q Consensus 369 Ll~~~~R~~-l~i~l~~~ivI~DEAHNL~d~~~~~~S~~ls~~~l~~a~~~l~ 420 (929)
|=++..|+. +.+.+.. ++.|+--|+++.+...-.+ |-.+|..+.++..
T Consensus 381 LP~~~~R~~Li~~~l~~--~~~~~~~~~~~lae~~eGy--SGaDI~nvCreAs 429 (491)
T KOG0738|consen 381 LPDAEARSALIKILLRS--VELDDPVNLEDLAERSEGY--SGADITNVCREAS 429 (491)
T ss_pred CCCHHHHHHHHHHhhcc--ccCCCCccHHHHHHHhcCC--ChHHHHHHHHHHH
Confidence 345566654 4555554 3578888999988875444 5666766665553
No 370
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=49.80 E-value=13 Score=43.65 Aligned_cols=26 Identities=42% Similarity=0.657 Sum_probs=19.2
Q ss_pred cCCceeeeCCCCCcchHHHHHHHHHh
Q 002378 36 NGGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 36 ~~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
.+++.+|-+|||+|||-.+..-+..+
T Consensus 220 ~~~~i~~vGptGvGKTTt~~kLA~~~ 245 (424)
T PRK05703 220 QGGVVALVGPTGVGKTTTLAKLAARY 245 (424)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 36788899999999997665444433
No 371
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=49.66 E-value=25 Score=39.65 Aligned_cols=36 Identities=14% Similarity=0.243 Sum_probs=30.7
Q ss_pred CCHHHHHHHHHHHHHHHcCC--cee-eeCCCCCcchHHH
Q 002378 19 PYSIQTDFMKALYCSLENGG--VSM-LESPTGTGKTLSI 54 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~--~~~-~esptgtgktl~~ 54 (929)
.||-|....+.+...+..|. +++ |.||.|+||+...
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA 41 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLI 41 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHH
Confidence 59999999999999999984 455 8999999998543
No 372
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=49.48 E-value=22 Score=47.55 Aligned_cols=36 Identities=19% Similarity=0.332 Sum_probs=32.0
Q ss_pred CCH-HHHHHHHHHHHHHHcCCceeeeCCCCCcchHHH
Q 002378 19 PYS-IQTDFMKALYCSLENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 19 py~-~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~ 54 (929)
..| +|+.||+.+..|.-..-..++.+||-||||-.+
T Consensus 869 iTPfVqkn~ln~~Ra~s~~~fP~LiQGpTSSGKTSMI 905 (4600)
T COG5271 869 ITPFVQKNYLNTMRAASLSNFPLLIQGPTSSGKTSMI 905 (4600)
T ss_pred ecHHHHHHHHHHHHHHhhcCCcEEEecCCCCCcchHH
Confidence 445 899999999999999999999999999999543
No 373
>PRK08084 DNA replication initiation factor; Provisional
Probab=49.29 E-value=17 Score=38.94 Aligned_cols=31 Identities=26% Similarity=0.343 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHc--CCceeeeCCCCCcchH
Q 002378 22 IQTDFMKALYCSLEN--GGVSMLESPTGTGKTL 52 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~--~~~~~~esptgtgktl 52 (929)
.+......+.+.... +.+.+|-||+|||||-
T Consensus 28 ~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKTh 60 (235)
T PRK08084 28 DNDSLLAALQNALRQEHSGYIYLWSREGAGRSH 60 (235)
T ss_pred ccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHH
Confidence 455555555555443 3578999999999993
No 374
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=49.08 E-value=19 Score=44.78 Aligned_cols=32 Identities=28% Similarity=0.413 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHcCC--ce-eeeCCCCCcchHH
Q 002378 22 IQTDFMKALYCSLENGG--VS-MLESPTGTGKTLS 53 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~--~~-~~esptgtgktl~ 53 (929)
.|...++.|...|..|. ++ ||.+|.|||||..
T Consensus 20 GQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTl 54 (830)
T PRK07003 20 GQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTL 54 (830)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHH
Confidence 58889999999999874 44 8999999999954
No 375
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=49.04 E-value=10 Score=44.57 Aligned_cols=36 Identities=31% Similarity=0.416 Sum_probs=28.9
Q ss_pred CCCCHHHHHHHHHHHH---HHHcCCceeeeCCCCCcchH
Q 002378 17 YKPYSIQTDFMKALYC---SLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~---~~~~~~~~~~esptgtgktl 52 (929)
|--.+||.++++.|-. .+..|+.+.+.||.|+|||-
T Consensus 9 hi~r~Ie~~l~~vL~~Vsl~i~~GEiv~L~G~SGsGKST 47 (504)
T TIGR03238 9 YVKRKIQTDLERILVKFNKELPSSSLLFLCGSSGDGKSE 47 (504)
T ss_pred eechHHHHHHHHHHhCCceeecCCCEEEEECCCCCCHHH
Confidence 3356899998776644 37789999999999999994
No 376
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=48.89 E-value=21 Score=42.66 Aligned_cols=34 Identities=26% Similarity=0.289 Sum_probs=28.2
Q ss_pred CHHHHHHHHHHHHHHHcCCc--e-eeeCCCCCcchHH
Q 002378 20 YSIQTDFMKALYCSLENGGV--S-MLESPTGTGKTLS 53 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~~~--~-~~esptgtgktl~ 53 (929)
.-.|...++.+...+..+.. + ||.||.|||||..
T Consensus 18 iiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtl 54 (486)
T PRK14953 18 VIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTI 54 (486)
T ss_pred ccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 34899999999999998853 3 7899999999743
No 377
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=48.78 E-value=26 Score=39.34 Aligned_cols=35 Identities=20% Similarity=0.292 Sum_probs=30.9
Q ss_pred CCCHHHHHHHHHHHHHHHcCC---ceeeeCCCCCcchH
Q 002378 18 KPYSIQTDFMKALYCSLENGG---VSMLESPTGTGKTL 52 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~~---~~~~esptgtgktl 52 (929)
..||-|....+.+...+..|+ -.+|.||.|+||+.
T Consensus 3 ~~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~ 40 (319)
T PRK06090 3 NDYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVES 40 (319)
T ss_pred cCcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHH
Confidence 479999999999999999885 46789999999984
No 378
>PRK04296 thymidine kinase; Provisional
Probab=48.28 E-value=13 Score=38.25 Aligned_cols=25 Identities=12% Similarity=0.341 Sum_probs=18.6
Q ss_pred CCceeeeCCCCCcchHHHHHHHHHh
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
|...++.+|.|+|||..++--+...
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~ 26 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNY 26 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHH
Confidence 5678899999999997665444433
No 379
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=48.24 E-value=13 Score=42.92 Aligned_cols=28 Identities=29% Similarity=0.364 Sum_probs=21.7
Q ss_pred HHHHHHHHHH----cCCceeeeCCCCCcchHH
Q 002378 26 FMKALYCSLE----NGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 26 ~M~~v~~~~~----~~~~~~~esptgtgktl~ 53 (929)
.|+++.+-+. .|.++++.++|||||+|-
T Consensus 86 ~~~~~~eqik~~ap~~~~vLi~GetGtGKel~ 117 (403)
T COG1221 86 SLQELREQIKAYAPSGLPVLIIGETGTGKELF 117 (403)
T ss_pred HHHHHHHHHHhhCCCCCcEEEecCCCccHHHH
Confidence 4566666655 479999999999999953
No 380
>CHL00195 ycf46 Ycf46; Provisional
Probab=47.61 E-value=12 Score=44.70 Aligned_cols=23 Identities=30% Similarity=0.299 Sum_probs=18.1
Q ss_pred CCceeeeCCCCCcchHHHHHHHHHh
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
.+..+|.||.|||||+ ++-+++.
T Consensus 259 pkGILL~GPpGTGKTl--lAkaiA~ 281 (489)
T CHL00195 259 PRGLLLVGIQGTGKSL--TAKAIAN 281 (489)
T ss_pred CceEEEECCCCCcHHH--HHHHHHH
Confidence 3668999999999995 5666655
No 381
>PRK08727 hypothetical protein; Validated
Probab=47.47 E-value=14 Score=39.38 Aligned_cols=15 Identities=47% Similarity=0.612 Sum_probs=12.9
Q ss_pred CceeeeCCCCCcchH
Q 002378 38 GVSMLESPTGTGKTL 52 (929)
Q Consensus 38 ~~~~~esptgtgktl 52 (929)
...+|-||+|||||-
T Consensus 42 ~~l~l~G~~G~GKTh 56 (233)
T PRK08727 42 DWLYLSGPAGTGKTH 56 (233)
T ss_pred CeEEEECCCCCCHHH
Confidence 348999999999994
No 382
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=47.26 E-value=22 Score=45.07 Aligned_cols=104 Identities=17% Similarity=0.086 Sum_probs=0.0
Q ss_pred EEEeccCCCChhhHHHhhCCCCCCCceeeeecCCccC---CCCceEEEeecCCCCCce------------eeeecccCCh
Q 002378 603 VILAGGTLQPIEETRERLFPWLSPNKFHFFSCSHIVP---PESILPVALSCGPTGKSF------------DFSYGSRSSS 667 (929)
Q Consensus 603 vILtSGTLsP~~~f~~~L~~~~~~~~i~~~~~~hvi~---~~~~~~~iv~~gp~g~~l------------~~~y~~R~~~ 667 (929)
|||||||+. .+.|....+..-. +.......++. -+.++..+.-...+..+. ...+..--+.
T Consensus 322 vILMSAT~d-ae~fs~YF~~~pv---i~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~id~ 397 (924)
T KOG0920|consen 322 VILMSATLD-AELFSDYFGGCPV---ITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRLARLKLWEPEIDY 397 (924)
T ss_pred EEEeeeecc-hHHHHHHhCCCce---EeecCCCcchHHHHHHHHHHHhcccccccccccccccCccccccchhccccccH
Q ss_pred HHHHHHHHHHHHHhhccCCCeEEEccCHHHHHHHHHHHHhcChhH
Q 002378 668 AMIEELGLLLCNLVSVVPEGIIVFFPSFEYVERVYGAWKSLGILD 712 (929)
Q Consensus 668 ~~~~~l~~~i~~~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~ 712 (929)
..+..+...|..- ..+|.+|||.|.|.-+.++++.+.....+.
T Consensus 398 ~Li~~li~~I~~~--~~~GaILVFLPG~~eI~~~~~~L~~~~~f~ 440 (924)
T KOG0920|consen 398 DLIEDLIEYIDER--EFEGAILVFLPGWEEILQLKELLEVNLPFA 440 (924)
T ss_pred HHHHHHHHhcccC--CCCceEEEEcCCHHHHHHHHHHhhhccccc
No 383
>PF12846 AAA_10: AAA-like domain
Probab=47.17 E-value=17 Score=39.67 Aligned_cols=24 Identities=25% Similarity=0.207 Sum_probs=18.3
Q ss_pred CceeeeCCCCCcchHHHHHHHHHh
Q 002378 38 GVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l~~~l~~ 61 (929)
.|.++-++||+|||-.+.+.....
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~ 25 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQL 25 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHH
Confidence 578899999999997777444333
No 384
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=47.07 E-value=24 Score=39.18 Aligned_cols=37 Identities=24% Similarity=0.284 Sum_probs=24.0
Q ss_pred CHHHHHHHHHHHHHHHc--CCc-eeeeCCCCCcchHHHHH
Q 002378 20 YSIQTDFMKALYCSLEN--GGV-SMLESPTGTGKTLSIIC 56 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~--~~~-~~~esptgtgktl~~l~ 56 (929)
|+-|....+........ ..+ .+|.+|.|||||.+.++
T Consensus 4 ~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~ 43 (325)
T COG0470 4 VPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALA 43 (325)
T ss_pred ccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHH
Confidence 44444444444444433 466 88999999999977544
No 385
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=47.06 E-value=24 Score=41.75 Aligned_cols=36 Identities=22% Similarity=0.132 Sum_probs=29.0
Q ss_pred CHHHHHHHHHHHHHHHcCC---ceeeeCCCCCcchHHHH
Q 002378 20 YSIQTDFMKALYCSLENGG---VSMLESPTGTGKTLSII 55 (929)
Q Consensus 20 y~~Q~~~M~~v~~~~~~~~---~~~~esptgtgktl~~l 55 (929)
+-.|...++.+...+..|. ..||.||.|||||....
T Consensus 19 iiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~ 57 (451)
T PRK06305 19 ILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLAR 57 (451)
T ss_pred hcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHH
Confidence 3468899999999999884 35799999999996543
No 386
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=46.85 E-value=21 Score=43.45 Aligned_cols=35 Identities=29% Similarity=0.378 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHcCCce---eeeCCCCCcchHHHHH
Q 002378 22 IQTDFMKALYCSLENGGVS---MLESPTGTGKTLSIIC 56 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~~~---~~esptgtgktl~~l~ 56 (929)
.|...++.+...+.+|+.. ||.||.|||||.+..+
T Consensus 20 Gqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~ 57 (563)
T PRK06647 20 GQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARA 57 (563)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 6888999999999998554 8999999999976554
No 387
>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=46.80 E-value=18 Score=38.17 Aligned_cols=18 Identities=39% Similarity=0.791 Sum_probs=15.6
Q ss_pred HcCCceeeeCCCCCcchH
Q 002378 35 ENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 35 ~~~~~~~~esptgtgktl 52 (929)
-.|...++++|+|||||+
T Consensus 17 p~gs~~li~G~~GsGKT~ 34 (226)
T PF06745_consen 17 PKGSVVLISGPPGSGKTT 34 (226)
T ss_dssp ETTSEEEEEESTTSSHHH
T ss_pred CCCcEEEEEeCCCCCcHH
Confidence 356889999999999995
No 388
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=46.73 E-value=20 Score=39.89 Aligned_cols=29 Identities=14% Similarity=0.210 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHcCCceeeeCCCCCcchH
Q 002378 24 TDFMKALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 24 ~~~M~~v~~~~~~~~~~~~esptgtgktl 52 (929)
..+++.+......+....+.+|+|+|||-
T Consensus 21 ~~~~~~~~~~~~~~~~i~i~G~~G~GKtt 49 (300)
T TIGR00750 21 KQLLDRIMPYTGNAHRVGITGTPGAGKST 49 (300)
T ss_pred HHHHHhCCcccCCceEEEEECCCCCCHHH
Confidence 45788888777888999999999999994
No 389
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=46.64 E-value=12 Score=46.56 Aligned_cols=95 Identities=9% Similarity=0.078 Sum_probs=66.9
Q ss_pred eEEEEecChhHHHHHHHHhhceEEEeccCCCChhhHHHhhCCCCCCCceeeeecCCccCCC--CceEEEeecCCCCCcee
Q 002378 581 YLKYVMLTGEKVFSEIVEQAHAVILAGGTLQPIEETRERLFPWLSPNKFHFFSCSHIVPPE--SILPVALSCGPTGKSFD 658 (929)
Q Consensus 581 ~L~~~cl~ps~~f~~l~~~~~svILtSGTLsP~~~f~~~L~~~~~~~~i~~~~~~hvi~~~--~~~~~iv~~gp~g~~l~ 658 (929)
+-..||| |.++++-.-++|+++||++|..+|..++...+- .....+|++.+. ++|....+..+++.++.
T Consensus 391 ~~s~~~~-----~~dlld~~fs~~~~~g~~~~~~~~~~e~s~~~~----~~~d~~~~~~~~~~~v~~~~~s~~~~~~~vi 461 (945)
T KOG1132|consen 391 TGSLWCI-----FADLLDISFSVILQNGSFSSDASFSVEQSYSFG----NHLDAPHVINANLGDVWKGKSSRKLGNYPVI 461 (945)
T ss_pred ccchHHH-----HHHHHHHHhhccccCCccccchhhhhhhhhccc----ccCCcccccccccccccccccccccCcccce
Confidence 4556776 788888888999999999999999877743221 013467888766 77777777777767776
Q ss_pred eeecccCChHHHHHHHHHHHHHhhcc
Q 002378 659 FSYGSRSSSAMIEELGLLLCNLVSVV 684 (929)
Q Consensus 659 ~~y~~R~~~~~~~~l~~~i~~~~~~v 684 (929)
.-|---..-.|.+.++.-+..|+-.+
T Consensus 462 ~~wcf~p~~sf~d~~~k~vrsIiLtS 487 (945)
T KOG1132|consen 462 NFWCFSPGYSFRDLLGKGVRSIILTS 487 (945)
T ss_pred eeeecCcchhHHHHhcccceeEEEec
Confidence 66655445667777777676666544
No 390
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=46.62 E-value=22 Score=43.72 Aligned_cols=34 Identities=26% Similarity=0.316 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHcCCc---eeeeCCCCCcchHHHH
Q 002378 22 IQTDFMKALYCSLENGGV---SMLESPTGTGKTLSII 55 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~~---~~~esptgtgktl~~l 55 (929)
.|...++.+..++..|.. .||.||.|+|||....
T Consensus 20 GQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr 56 (647)
T PRK07994 20 GQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIAR 56 (647)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 688999999999999865 5899999999996433
No 391
>PRK00300 gmk guanylate kinase; Provisional
Probab=46.52 E-value=11 Score=39.13 Aligned_cols=17 Identities=35% Similarity=0.720 Sum_probs=15.3
Q ss_pred HcCCceeeeCCCCCcch
Q 002378 35 ENGGVSMLESPTGTGKT 51 (929)
Q Consensus 35 ~~~~~~~~esptgtgkt 51 (929)
..|+..++.||+|+|||
T Consensus 3 ~~g~~i~i~G~sGsGKs 19 (205)
T PRK00300 3 RRGLLIVLSGPSGAGKS 19 (205)
T ss_pred CCCCEEEEECCCCCCHH
Confidence 36789999999999999
No 392
>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=46.12 E-value=16 Score=38.59 Aligned_cols=24 Identities=25% Similarity=0.367 Sum_probs=18.9
Q ss_pred HHHcCCceeeeCCCCCcchHHHHH
Q 002378 33 SLENGGVSMLESPTGTGKTLSIIC 56 (929)
Q Consensus 33 ~~~~~~~~~~esptgtgktl~~l~ 56 (929)
-+..|...++.+|+|||||.-.+.
T Consensus 16 Gi~~G~~~~i~G~~G~GKT~l~~~ 39 (229)
T TIGR03881 16 GIPRGFFVAVTGEPGTGKTIFCLH 39 (229)
T ss_pred CCcCCeEEEEECCCCCChHHHHHH
Confidence 455678999999999999864443
No 393
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=46.10 E-value=22 Score=44.22 Aligned_cols=35 Identities=23% Similarity=0.307 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHcCC--ce-eeeCCCCCcchHHHH
Q 002378 21 SIQTDFMKALYCSLENGG--VS-MLESPTGTGKTLSII 55 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~--~~-~~esptgtgktl~~l 55 (929)
-.|....+.+..++..|+ ++ ||.||.|||||....
T Consensus 21 iGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~Ar 58 (725)
T PRK07133 21 VGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAK 58 (725)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHH
Confidence 368888899999999884 33 899999999996543
No 394
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=46.09 E-value=11 Score=43.14 Aligned_cols=16 Identities=38% Similarity=0.555 Sum_probs=14.3
Q ss_pred CceeeeCCCCCcchHH
Q 002378 38 GVSMLESPTGTGKTLS 53 (929)
Q Consensus 38 ~~~~~esptgtgktl~ 53 (929)
.|++|-+|.||||||.
T Consensus 385 RNilfyGPPGTGKTm~ 400 (630)
T KOG0742|consen 385 RNILFYGPPGTGKTMF 400 (630)
T ss_pred hheeeeCCCCCCchHH
Confidence 5789999999999975
No 395
>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=46.04 E-value=16 Score=39.75 Aligned_cols=32 Identities=34% Similarity=0.376 Sum_probs=23.6
Q ss_pred HHHHHHcCCceeeeCCCCCcchHHHHHHHHHh
Q 002378 30 LYCSLENGGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 30 v~~~~~~~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
+...+..|...++.+|||+|||.-.+--+..+
T Consensus 23 ~~gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~ 54 (271)
T cd01122 23 LTKGLRKGELIILTAGTGVGKTTFLREYALDL 54 (271)
T ss_pred eeEEEcCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence 33477889999999999999996444434443
No 396
>PF13173 AAA_14: AAA domain
Probab=45.82 E-value=15 Score=35.07 Aligned_cols=19 Identities=37% Similarity=0.623 Sum_probs=16.2
Q ss_pred cCCceeeeCCCCCcchHHH
Q 002378 36 NGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 36 ~~~~~~~esptgtgktl~~ 54 (929)
+++..++.||.|+|||-.+
T Consensus 1 n~~~~~l~G~R~vGKTtll 19 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLL 19 (128)
T ss_pred CCCeEEEECCCCCCHHHHH
Confidence 5788999999999999544
No 397
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=45.51 E-value=13 Score=37.69 Aligned_cols=25 Identities=28% Similarity=0.708 Sum_probs=19.0
Q ss_pred CceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 38 GVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
..-++-||+|||||- |+-+|.|+--
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 567888999999995 3377777653
No 398
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=45.35 E-value=2.6e+02 Score=32.78 Aligned_cols=77 Identities=13% Similarity=0.287 Sum_probs=40.9
Q ss_pred eEEEeccCCCC-hhhHHHhhCCCCCCCceeeeecCCccCCCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHHH
Q 002378 602 AVILAGGTLQP-IEETRERLFPWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCNL 680 (929)
Q Consensus 602 svILtSGTLsP-~~~f~~~L~~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~~ 680 (929)
-.+||||||+- +..+. .|+..-| -+-.+.-+..-+++|+.-+.+..+ ..+.++--+ +|..+
T Consensus 203 Q~~LmSATl~dDv~~LK-kL~l~nP--viLkl~e~el~~~dqL~Qy~v~cs-------------e~DKfllly--allKL 264 (569)
T KOG0346|consen 203 QCFLMSATLSDDVQALK-KLFLHNP--VILKLTEGELPNPDQLTQYQVKCS-------------EEDKFLLLY--ALLKL 264 (569)
T ss_pred hheeehhhhhhHHHHHH-HHhccCC--eEEEeccccCCCcccceEEEEEec-------------cchhHHHHH--HHHHH
Confidence 34799999983 33332 3443323 111222233335677666655432 123333322 33333
Q ss_pred hhccCCCeEEEccCHHH
Q 002378 681 VSVVPEGIIVFFPSFEY 697 (929)
Q Consensus 681 ~~~vpgg~LVfFpSy~~ 697 (929)
+.+.|.+|+|.++-+.
T Consensus 265 -~LI~gKsliFVNtIdr 280 (569)
T KOG0346|consen 265 -RLIRGKSLIFVNTIDR 280 (569)
T ss_pred -HHhcCceEEEEechhh
Confidence 5678999999998654
No 399
>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=45.27 E-value=21 Score=44.97 Aligned_cols=23 Identities=39% Similarity=0.499 Sum_probs=17.1
Q ss_pred CCceeeeCCCCCcchHHHHHHHHHh
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
++..+|.+|+|||||+ |+-+++.
T Consensus 212 ~~giLL~GppGtGKT~--laraia~ 234 (733)
T TIGR01243 212 PKGVLLYGPPGTGKTL--LAKAVAN 234 (733)
T ss_pred CceEEEECCCCCChHH--HHHHHHH
Confidence 4778999999999994 3444443
No 400
>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=45.17 E-value=15 Score=45.27 Aligned_cols=32 Identities=31% Similarity=0.345 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHcC--CceeeeCCCCCcchH
Q 002378 21 SIQTDFMKALYCSLENG--GVSMLESPTGTGKTL 52 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl 52 (929)
-.|-..|+.+.+.+... .+.+|-+|+|||||.
T Consensus 157 iGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTT 190 (615)
T TIGR02903 157 VGQERAIKALLAKVASPFPQHIILYGPPGVGKTT 190 (615)
T ss_pred eeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHH
Confidence 36788888888888655 569999999999994
No 401
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=45.17 E-value=27 Score=41.67 Aligned_cols=33 Identities=21% Similarity=0.221 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHcCC---ceeeeCCCCCcchHHH
Q 002378 22 IQTDFMKALYCSLENGG---VSMLESPTGTGKTLSI 54 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~---~~~~esptgtgktl~~ 54 (929)
.|....+.+-.++..|+ ..||.||.|||||-+-
T Consensus 17 GQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~A 52 (491)
T PRK14964 17 GQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCA 52 (491)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHH
Confidence 57788888888888884 5789999999999543
No 402
>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=44.76 E-value=19 Score=43.58 Aligned_cols=31 Identities=23% Similarity=0.338 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHH----cCCceeeeCCCCCcchH
Q 002378 22 IQTDFMKALYCSLE----NGGVSMLESPTGTGKTL 52 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~----~~~~~~~esptgtgktl 52 (929)
.+-..|+.+++.+. ....+++.+||||||++
T Consensus 200 G~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~ 234 (534)
T TIGR01817 200 GKSPAMRQVVDQARVVARSNSTVLLRGESGTGKEL 234 (534)
T ss_pred ECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHH
Confidence 34445666665554 56789999999999994
No 403
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=44.47 E-value=28 Score=41.41 Aligned_cols=26 Identities=42% Similarity=0.519 Sum_probs=19.6
Q ss_pred cCCceeeeCCCCCcchHHHHHHHHHh
Q 002378 36 NGGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 36 ~~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
.|.+..|-+|||+|||-.+..-+-.+
T Consensus 255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~ 280 (484)
T PRK06995 255 RGGVFALMGPTGVGKTTTTAKLAARC 280 (484)
T ss_pred CCcEEEEECCCCccHHHHHHHHHHHH
Confidence 46788899999999997765555333
No 404
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=44.47 E-value=20 Score=41.07 Aligned_cols=16 Identities=50% Similarity=0.628 Sum_probs=13.5
Q ss_pred CceeeeCCCCCcchHH
Q 002378 38 GVSMLESPTGTGKTLS 53 (929)
Q Consensus 38 ~~~~~esptgtgktl~ 53 (929)
+.++|.+|+|||||+.
T Consensus 157 ~gvLL~GppGtGKT~l 172 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLL 172 (364)
T ss_pred ceEEEECCCCCCHHHH
Confidence 5589999999999953
No 405
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=44.33 E-value=16 Score=41.31 Aligned_cols=38 Identities=21% Similarity=0.290 Sum_probs=26.8
Q ss_pred CCCCHHHHHHHHHH----HHHHHcCCc--eeeeCCCCCcchHHHH
Q 002378 17 YKPYSIQTDFMKAL----YCSLENGGV--SMLESPTGTGKTLSII 55 (929)
Q Consensus 17 f~py~~Q~~~M~~v----~~~~~~~~~--~~~esptgtgktl~~l 55 (929)
|+| .-|.++-+.+ ++.+-+|.+ ++.-++||||||.+++
T Consensus 56 f~~-~~q~~vy~~~~~p~v~~~~~G~n~~i~ayG~tgSGKTyTm~ 99 (334)
T cd01375 56 FHN-ASQEEVYETVAKPVVDSALDGYNGTIFAYGQTGAGKTFTMT 99 (334)
T ss_pred cCC-CCHHHHHHHHHHHHHHHHhCCCccceeeecCCCCCCeEEcc
Confidence 446 7888876665 444556644 5568999999998875
No 406
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=44.32 E-value=24 Score=44.91 Aligned_cols=37 Identities=30% Similarity=0.363 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHcC--Cc-eeeeCCCCCcchHHHHHHH
Q 002378 22 IQTDFMKALYCSLENG--GV-SMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~--~~-~~~esptgtgktl~~l~~~ 58 (929)
.|...++.|...|..+ .+ .||.+|.|||||.+-++-+
T Consensus 19 Gqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lA 58 (824)
T PRK07764 19 GQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILA 58 (824)
T ss_pred CcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHH
Confidence 5888899999999987 34 4899999999997766554
No 407
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=44.08 E-value=24 Score=39.71 Aligned_cols=30 Identities=17% Similarity=0.171 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHcCCceeeeCCCCCcchH
Q 002378 23 QTDFMKALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 23 Q~~~M~~v~~~~~~~~~~~~esptgtgktl 52 (929)
-..+.+.+-++...+..+++.+++||||++
T Consensus 15 ~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~ 44 (326)
T PRK11608 15 FLEVLEQVSRLAPLDKPVLIIGERGTGKEL 44 (326)
T ss_pred HHHHHHHHHHHhCCCCCEEEECCCCCcHHH
Confidence 344555556666678999999999999994
No 408
>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=44.06 E-value=11 Score=35.39 Aligned_cols=13 Identities=31% Similarity=0.378 Sum_probs=11.1
Q ss_pred eeeeCCCCCcchH
Q 002378 40 SMLESPTGTGKTL 52 (929)
Q Consensus 40 ~~~esptgtgktl 52 (929)
+++.|++|||||-
T Consensus 1 I~i~G~~GsGKtT 13 (129)
T PF13238_consen 1 IGISGIPGSGKTT 13 (129)
T ss_dssp EEEEESTTSSHHH
T ss_pred CEEECCCCCCHHH
Confidence 4689999999993
No 409
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=43.85 E-value=24 Score=44.46 Aligned_cols=39 Identities=23% Similarity=0.382 Sum_probs=34.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHH
Q 002378 12 FPAFPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 12 ~~~FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~ 54 (929)
-..|||+|=.-|++. +-+|+.|..+++-+||-.|||+.-
T Consensus 291 a~~~pFelD~FQk~A----i~~lerg~SVFVAAHTSAGKTvVA 329 (1248)
T KOG0947|consen 291 ALIYPFELDTFQKEA----IYHLERGDSVFVAAHTSAGKTVVA 329 (1248)
T ss_pred HhhCCCCccHHHHHH----HHHHHcCCeEEEEecCCCCcchHH
Confidence 356999999999887 459999999999999999999754
No 410
>PF14516 AAA_35: AAA-like domain
Probab=43.83 E-value=29 Score=39.19 Aligned_cols=45 Identities=22% Similarity=0.403 Sum_probs=33.6
Q ss_pred CCHHHHH-HHHHHHHHHHc-CCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 19 PYSIQTD-FMKALYCSLEN-GGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 19 py~~Q~~-~M~~v~~~~~~-~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
||=+-+. ..+.+|+.|.+ |..+.+-+|-.+||| |+|..+++.++.
T Consensus 11 ~~Yi~R~~~e~~~~~~i~~~G~~~~I~apRq~GKT-Sll~~l~~~l~~ 57 (331)
T PF14516_consen 11 PFYIERPPAEQECYQEIVQPGSYIRIKAPRQMGKT-SLLLRLLERLQQ 57 (331)
T ss_pred CcccCchHHHHHHHHHHhcCCCEEEEECcccCCHH-HHHHHHHHHHHH
Confidence 4444444 77788889998 999999999999999 555555555544
No 411
>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=43.65 E-value=9.1 Score=45.32 Aligned_cols=22 Identities=36% Similarity=0.557 Sum_probs=20.0
Q ss_pred CceeeeCCCCCcchHHHHHHHH
Q 002378 38 GVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l~~~l 59 (929)
.++++-+|||+|||-+++.+.|
T Consensus 45 ~h~lvig~tgSGKt~~~viP~l 66 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNL 66 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHH
Confidence 4799999999999999998876
No 412
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=43.62 E-value=16 Score=41.74 Aligned_cols=32 Identities=38% Similarity=0.474 Sum_probs=25.1
Q ss_pred CHHHHHHH---HHHHHHHHcC--CceeeeCCCCCcch
Q 002378 20 YSIQTDFM---KALYCSLENG--GVSMLESPTGTGKT 51 (929)
Q Consensus 20 y~~Q~~~M---~~v~~~~~~~--~~~~~esptgtgkt 51 (929)
|=-|..+. .-+.+.++.| .+.||-+|.|||||
T Consensus 26 ~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKT 62 (436)
T COG2256 26 VVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKT 62 (436)
T ss_pred hcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHH
Confidence 44677776 4567788877 57899999999998
No 413
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=43.60 E-value=22 Score=44.67 Aligned_cols=35 Identities=34% Similarity=0.530 Sum_probs=25.2
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHH
Q 002378 17 YKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICS 57 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~ 57 (929)
..||++|+-- -+ +|..|. |.|..||=||||.-..+
T Consensus 77 ~r~ydVQliG--gl--vLh~G~--IAEMkTGEGKTLvAtLp 111 (925)
T PRK12903 77 KRPYDVQIIG--GI--ILDLGS--VAEMKTGEGKTITSIAP 111 (925)
T ss_pred CCcCchHHHH--HH--HHhcCC--eeeecCCCCccHHHHHH
Confidence 4589999754 33 456665 69999999999765443
No 414
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=43.50 E-value=27 Score=42.83 Aligned_cols=35 Identities=23% Similarity=0.262 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHcCCc--e-eeeCCCCCcchHHHHH
Q 002378 22 IQTDFMKALYCSLENGGV--S-MLESPTGTGKTLSIIC 56 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~~--~-~~esptgtgktl~~l~ 56 (929)
.|...++.+...+..+.. + ||.||.|||||-...+
T Consensus 20 GQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~ 57 (618)
T PRK14951 20 GQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRI 57 (618)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 599999999999999844 4 8999999999965443
No 415
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=43.33 E-value=21 Score=46.09 Aligned_cols=40 Identities=28% Similarity=0.346 Sum_probs=0.0
Q ss_pred HHHHHHHHcC-CceeeeCCCCCcchHHHHHHHHHhHHHHHH
Q 002378 28 KALYCSLENG-GVSMLESPTGTGKTLSIICSALQWVVDQKQ 67 (929)
Q Consensus 28 ~~v~~~~~~~-~~~~~esptgtgktl~~l~~~l~~~~~~~~ 67 (929)
.+|+++-..+ .+.++++|||.|||-.-+..+|.-+..+.+
T Consensus 315 S~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r 355 (1674)
T KOG0951|consen 315 SKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLR 355 (1674)
T ss_pred HHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccc
No 416
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=43.31 E-value=22 Score=40.55 Aligned_cols=36 Identities=25% Similarity=0.348 Sum_probs=29.6
Q ss_pred CCCHHHHHHHHHHHHHHHcCC---ceeeeCCCCCcchHH
Q 002378 18 KPYSIQTDFMKALYCSLENGG---VSMLESPTGTGKTLS 53 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~~---~~~~esptgtgktl~ 53 (929)
+..-.|....+.+...+.+|. +.+|.||.|+|||..
T Consensus 17 ~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~ 55 (367)
T PRK14970 17 DDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTC 55 (367)
T ss_pred HhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 344578889999999999884 577999999999943
No 417
>PRK05973 replicative DNA helicase; Provisional
Probab=43.30 E-value=10 Score=40.80 Aligned_cols=25 Identities=36% Similarity=0.640 Sum_probs=20.8
Q ss_pred HHHHHHHcCCceeeeCCCCCcchHH
Q 002378 29 ALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 29 ~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
++...+..|...++.+++|+|||.-
T Consensus 56 ~l~GGl~~Gsl~LIaG~PG~GKT~l 80 (237)
T PRK05973 56 ELFSQLKPGDLVLLGARPGHGKTLL 80 (237)
T ss_pred HhcCCCCCCCEEEEEeCCCCCHHHH
Confidence 3555778889999999999999953
No 418
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=43.27 E-value=2.7e+02 Score=35.34 Aligned_cols=38 Identities=29% Similarity=0.383 Sum_probs=27.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHH
Q 002378 16 PYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 16 Pf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l 59 (929)
=..||++|+--.= +|..|. |.|..||.||||...++++
T Consensus 78 g~~~~dvQlig~l----~l~~G~--iaEm~TGEGKTLvA~l~a~ 115 (796)
T PRK12906 78 GLRPFDVQIIGGI----VLHEGN--IAEMKTGEGKTLTATLPVY 115 (796)
T ss_pred CCCCchhHHHHHH----HHhcCC--cccccCCCCCcHHHHHHHH
Confidence 3558999976543 456666 8899999999987655443
No 419
>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=43.15 E-value=11 Score=35.14 Aligned_cols=13 Identities=38% Similarity=0.887 Sum_probs=11.4
Q ss_pred ceeeeCCCCCcch
Q 002378 39 VSMLESPTGTGKT 51 (929)
Q Consensus 39 ~~~~esptgtgkt 51 (929)
+.++.||+|+|||
T Consensus 1 vI~I~G~~gsGKS 13 (121)
T PF13207_consen 1 VIIISGPPGSGKS 13 (121)
T ss_dssp EEEEEESTTSSHH
T ss_pred CEEEECCCCCCHH
Confidence 3678999999998
No 420
>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=43.10 E-value=21 Score=34.56 Aligned_cols=16 Identities=38% Similarity=0.592 Sum_probs=12.9
Q ss_pred eeeeCCCCCcchHHHH
Q 002378 40 SMLESPTGTGKTLSII 55 (929)
Q Consensus 40 ~~~esptgtgktl~~l 55 (929)
.++.+|+|+|||.-+.
T Consensus 2 ~~i~G~~G~GKT~l~~ 17 (165)
T cd01120 2 ILVFGPTGSGKTTLAL 17 (165)
T ss_pred eeEeCCCCCCHHHHHH
Confidence 5789999999996443
No 421
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=42.87 E-value=27 Score=39.58 Aligned_cols=39 Identities=21% Similarity=0.236 Sum_probs=32.0
Q ss_pred CCCHHHHHHHHHHHHHHHcCC--ce-eeeCCCCCcchHHHHH
Q 002378 18 KPYSIQTDFMKALYCSLENGG--VS-MLESPTGTGKTLSIIC 56 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~~--~~-~~esptgtgktl~~l~ 56 (929)
..||-|...-+.+...+..|+ ++ +|.||.|+||+...+.
T Consensus 2 ~~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~ 43 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYA 43 (334)
T ss_pred CCCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHH
Confidence 469999999999999999883 44 5899999999865443
No 422
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=42.84 E-value=26 Score=42.38 Aligned_cols=15 Identities=33% Similarity=0.550 Sum_probs=13.4
Q ss_pred CCceeeeCCCCCcch
Q 002378 37 GGVSMLESPTGTGKT 51 (929)
Q Consensus 37 ~~~~~~esptgtgkt 51 (929)
+.+.+|-||+|+|||
T Consensus 103 ~~IL~LvGPpG~GKS 117 (644)
T PRK15455 103 KQILYLLGPVGGGKS 117 (644)
T ss_pred CceEEEecCCCCCch
Confidence 477889999999998
No 423
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=42.46 E-value=27 Score=42.62 Aligned_cols=35 Identities=20% Similarity=0.306 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHcCC--ce-eeeCCCCCcchHHHHH
Q 002378 22 IQTDFMKALYCSLENGG--VS-MLESPTGTGKTLSIIC 56 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~--~~-~~esptgtgktl~~l~ 56 (929)
.|....+.+...+..|+ ++ ||.||.|||||....+
T Consensus 20 Gq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~ 57 (576)
T PRK14965 20 GQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARI 57 (576)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 68889999999999984 44 8999999999966544
No 424
>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=42.46 E-value=23 Score=39.99 Aligned_cols=25 Identities=20% Similarity=0.183 Sum_probs=18.8
Q ss_pred HHHHHHHHcCCceeeeCCCCCcchH
Q 002378 28 KALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 28 ~~v~~~~~~~~~~~~esptgtgktl 52 (929)
+.+-++......+++.+++||||++
T Consensus 13 ~~~~~~a~~~~pVLI~GE~GtGK~~ 37 (329)
T TIGR02974 13 EQVSRLAPLDRPVLIIGERGTGKEL 37 (329)
T ss_pred HHHHHHhCCCCCEEEECCCCChHHH
Confidence 3344444557889999999999995
No 425
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=42.37 E-value=15 Score=44.01 Aligned_cols=39 Identities=28% Similarity=0.291 Sum_probs=31.7
Q ss_pred CCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHH
Q 002378 16 PYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 16 Pf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~ 54 (929)
+|.-.--|...++.+--++..|.+.+|-+|+|||||..+
T Consensus 190 d~~dv~Gq~~~~~al~~aa~~g~~vlliG~pGsGKTtla 228 (499)
T TIGR00368 190 DLKDIKGQQHAKRALEIAAAGGHNLLLFGPPGSGKTMLA 228 (499)
T ss_pred CHHHhcCcHHHHhhhhhhccCCCEEEEEecCCCCHHHHH
Confidence 344444588888888889999999999999999999644
No 426
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=42.35 E-value=7.8 Score=43.70 Aligned_cols=59 Identities=31% Similarity=0.406 Sum_probs=0.0
Q ss_pred HHHhcccCCCCchhhhhcccCCCcEEEeccccccCHH-----HHHHh---------------CCCCCCCEEEEeCCcCh
Q 002378 337 LVHLGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKS-----ARESL---------------GLNLKNNIVIIDEAHNL 395 (929)
Q Consensus 337 L~~~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~-----~R~~l---------------~i~l~~~ivI~DEAHNL 395 (929)
++-+|+..++=|=.-.-++.+|++=|+=|--+|+++. +-+.. |-.+.+++||||||.||
T Consensus 285 ~vpvG~dIGfLPG~eEeKm~PWmq~i~DnLE~L~~~~~~~~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNL 363 (436)
T COG1875 285 TVPVGEDIGFLPGTEEEKMGPWMQAIFDNLEVLFSPNEPGDRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNL 363 (436)
T ss_pred CcCcccccCcCCCchhhhccchHHHHHhHHHHHhcccccchHHHHHHHhccceeeeeeeeecccccccceEEEehhhcc
No 427
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=42.32 E-value=13 Score=43.86 Aligned_cols=16 Identities=50% Similarity=0.617 Sum_probs=13.8
Q ss_pred CceeeeCCCCCcchHH
Q 002378 38 GVSMLESPTGTGKTLS 53 (929)
Q Consensus 38 ~~~~~esptgtgktl~ 53 (929)
+-.||-+|.||||||.
T Consensus 257 KGiLLyGPPGTGKTLi 272 (744)
T KOG0741|consen 257 KGILLYGPPGTGKTLI 272 (744)
T ss_pred eeEEEECCCCCChhHH
Confidence 6678999999999973
No 428
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=42.08 E-value=24 Score=39.77 Aligned_cols=35 Identities=17% Similarity=0.229 Sum_probs=25.1
Q ss_pred HHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 29 ALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 29 ~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
-|..++....+.|+.+-|||||| .+|-+.+.++-.
T Consensus 165 ~L~~av~~r~NILisGGTGSGKT-TlLNal~~~i~~ 199 (355)
T COG4962 165 FLRRAVGIRCNILISGGTGSGKT-TLLNALSGFIDS 199 (355)
T ss_pred HHHHHHhhceeEEEeCCCCCCHH-HHHHHHHhcCCC
Confidence 35566666789999999999999 445555555443
No 429
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=41.73 E-value=28 Score=43.55 Aligned_cols=34 Identities=26% Similarity=0.393 Sum_probs=24.8
Q ss_pred CHHHHHHHH---HHHHHHHcC--CceeeeCCCCCcchHH
Q 002378 20 YSIQTDFMK---ALYCSLENG--GVSMLESPTGTGKTLS 53 (929)
Q Consensus 20 y~~Q~~~M~---~v~~~~~~~--~~~~~esptgtgktl~ 53 (929)
+-.|...+. .+.+.+..+ .+.||.||+|||||..
T Consensus 30 ~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTL 68 (725)
T PRK13341 30 FVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTL 68 (725)
T ss_pred hcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHH
Confidence 446777663 455666666 4799999999999943
No 430
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=41.51 E-value=14 Score=39.65 Aligned_cols=16 Identities=44% Similarity=0.617 Sum_probs=14.0
Q ss_pred CceeeeCCCCCcchHH
Q 002378 38 GVSMLESPTGTGKTLS 53 (929)
Q Consensus 38 ~~~~~esptgtgktl~ 53 (929)
+-+++-+|.||||||.
T Consensus 206 KGvLmYGPPGTGKTlm 221 (424)
T KOG0652|consen 206 KGVLMYGPPGTGKTLM 221 (424)
T ss_pred CceEeeCCCCCcHHHH
Confidence 6788999999999973
No 431
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=41.42 E-value=14 Score=43.60 Aligned_cols=32 Identities=31% Similarity=0.434 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHc--------C---CceeeeCCCCCcchH
Q 002378 21 SIQTDFMKALYCSLEN--------G---GVSMLESPTGTGKTL 52 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~--------~---~~~~~esptgtgktl 52 (929)
+.-++=.+.|.+-|.+ | +-++|-+|.||||||
T Consensus 310 DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTl 352 (752)
T KOG0734|consen 310 DEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTL 352 (752)
T ss_pred HHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhH
Confidence 3344455666666655 2 678999999999996
No 432
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=41.41 E-value=23 Score=39.94 Aligned_cols=35 Identities=23% Similarity=0.276 Sum_probs=27.1
Q ss_pred CCHHHHHHHHHHHHHHHcCCc-eeeeCCCCCcchHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGV-SMLESPTGTGKTLSI 54 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~-~~~esptgtgktl~~ 54 (929)
.||-|..+.+.+++. ..-.+ .+|.||.|+|||...
T Consensus 4 ~yPWl~~~~~~~~~~-~r~~ha~Lf~G~~G~GK~~~A 39 (328)
T PRK05707 4 IYPWQQSLWQQLAGR-GRHPHAYLLHGPAGIGKRALA 39 (328)
T ss_pred CCCCcHHHHHHHHHC-CCcceeeeeECCCCCCHHHHH
Confidence 599999999998876 32244 568999999999543
No 433
>PLN02165 adenylate isopentenyltransferase
Probab=41.39 E-value=14 Score=41.71 Aligned_cols=29 Identities=21% Similarity=0.243 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHc-CCceeeeCCCCCcchH
Q 002378 24 TDFMKALYCSLEN-GGVSMLESPTGTGKTL 52 (929)
Q Consensus 24 ~~~M~~v~~~~~~-~~~~~~esptgtgktl 52 (929)
..-|..+--+... |++.++-+|||+|||-
T Consensus 29 ~~~~~~~~~~~~~~g~iivIiGPTGSGKSt 58 (334)
T PLN02165 29 VVTMTSVAMEQNCKDKVVVIMGATGSGKSR 58 (334)
T ss_pred cccccccccccCCCCCEEEEECCCCCcHHH
Confidence 3344444333333 3578899999999994
No 434
>PRK05541 adenylylsulfate kinase; Provisional
Probab=41.24 E-value=10 Score=38.28 Aligned_cols=19 Identities=37% Similarity=0.436 Sum_probs=16.2
Q ss_pred HHHcCCceeeeCCCCCcch
Q 002378 33 SLENGGVSMLESPTGTGKT 51 (929)
Q Consensus 33 ~~~~~~~~~~esptgtgkt 51 (929)
.+..+...+|++|.|+|||
T Consensus 3 ~~~~~~~I~i~G~~GsGKs 21 (176)
T PRK05541 3 MKPNGYVIWITGLAGSGKT 21 (176)
T ss_pred CCCCCCEEEEEcCCCCCHH
Confidence 3456789999999999997
No 435
>PF08283 Gemini_AL1_M: Geminivirus rep protein central domain; InterPro: IPR022692 Geminiviruses are characterised by a genome of circular single-stranded DNA encapsidated in twinned (geminate) quasi-isometric particles, from which the group derives its name []. Most geminiviruses can be divided into two subgroups on the basis of host range and/or insect vector: i.e. those that infect dicotyledenous plants and are transmitted by the same whitefly species, and those that infect monocotyledenous plants and are transmitted by different leafhopper vectors. The genomes of the whitefly-transmitted African cassava mosaic virus, Tomato golden mosaic virus (TGMV) and Bean golden mosaic virus (BGMV) possess a bipartite genome. By contrast, only a single DNA component has been identified for the leafhopper-transmitted Maize streak virus (MSV) and Wheat dwarf virus (WDV) [, ]. Beet curly top virus (BCTV), and Tobacco yellow dwarf virus belong to a third possible subgroup. Like MSV and WDV, BCTV is transmitted by a specific leafhopper species, yet like the whitefly-transmitted geminiviruses it has a host range confined to dicotyledenous plants. Sequence comparison of the whitefly-transmitted Squash leaf curl virus (SqLCV) and Tomato yellow leaf curl virus (TYLCV) with the genomic components of TGMV and BGMV reveals a close evolutionary relationship [, , ]. Amino acid sequence alignments of Potato yellow mosaic virus (PYMV) proteins with those encoded by other geminiviruses show that PYMV is closely related to geminiviruses isolated from the New World, especially in the putative coat protein gene regions []. Comparison of MSV DNA-encoded proteins with those of other geminiviruses infecting monocotyledonous plants, including Panicum streak virus [] and Miscanthus streak virus (MiSV) [], reveal high levels of similarity. This is the central region of the geminivirus rep proteins []. It is found C-terminal to PF00799 from PFAM and is thought to be responsible for oligomerisation.; GO: 0016888 endodeoxyribonuclease activity, producing 5'-phosphomonoesters
Probab=41.23 E-value=17 Score=33.87 Aligned_cols=34 Identities=24% Similarity=0.255 Sum_probs=22.4
Q ss_pred CCHHHHHHHHHHHHHHH----cCCceeeeCCCCCcchH
Q 002378 19 PYSIQTDFMKALYCSLE----NGGVSMLESPTGTGKTL 52 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~----~~~~~~~esptgtgktl 52 (929)
|=.+|.=.=..|+++-. .-..+++|+|+-||||+
T Consensus 68 pe~i~~W~~~nv~~~aa~rp~rp~SivieG~sRTGKT~ 105 (106)
T PF08283_consen 68 PEEIEEWADENVYSVAAARPLRPISIVIEGDSRTGKTM 105 (106)
T ss_pred ChHHHHHHHhccCcccccCCCCCCceeEecCCccCcCC
Confidence 44445444455555433 23679999999999995
No 436
>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=41.07 E-value=7.4 Score=44.84 Aligned_cols=22 Identities=23% Similarity=0.392 Sum_probs=18.3
Q ss_pred ceeeeCCCCCcchHHHHHHHHH
Q 002378 39 VSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 39 ~~~~esptgtgktl~~l~~~l~ 60 (929)
|.++-+|||+|||-+++.+.|-
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll 22 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLL 22 (384)
T ss_pred CeeEecCCCCCCccEEEccchh
Confidence 4688999999999998877653
No 437
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=40.99 E-value=31 Score=41.92 Aligned_cols=37 Identities=30% Similarity=0.366 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHcC--Cc-eeeeCCCCCcchHHHHHHH
Q 002378 22 IQTDFMKALYCSLENG--GV-SMLESPTGTGKTLSIICSA 58 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~--~~-~~~esptgtgktl~~l~~~ 58 (929)
.|....+.+...+..+ .+ .||.||.|||||-..-+-+
T Consensus 20 Gq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lA 59 (559)
T PRK05563 20 GQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFA 59 (559)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 5888888899999877 44 5789999999996655444
No 438
>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=40.81 E-value=32 Score=43.66 Aligned_cols=37 Identities=22% Similarity=0.310 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHH--------cCCceeeeCCCCCcchHHHHHHHHHh
Q 002378 23 QTDFMKALYCSLE--------NGGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 23 Q~~~M~~v~~~~~--------~~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
|....+.|.+-+. .+.+.+|-+|+|||||. |+-+|++
T Consensus 325 ~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~--lAk~iA~ 369 (775)
T TIGR00763 325 LKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTS--LGKSIAK 369 (775)
T ss_pred hHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHH--HHHHHHH
Confidence 4455555555332 35678999999999994 4444443
No 439
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=40.51 E-value=25 Score=42.54 Aligned_cols=41 Identities=24% Similarity=0.383 Sum_probs=0.0
Q ss_pred ccCCCCCCCC-CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 9 EAEFPAFPYK-PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 9 ~~~~~~FPf~-py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
|.+|-.|-++ .-..|....+ +..+...-|+.+|.|||||..
T Consensus 400 P~~~s~~~lpkLN~SQ~~AV~----~VL~rplsLIQGPPGTGKTvt 441 (935)
T KOG1802|consen 400 PRRFSVPNLPKLNASQSNAVK----HVLQRPLSLIQGPPGTGKTVT 441 (935)
T ss_pred chhhcCCCchhhchHHHHHHH----HHHcCCceeeecCCCCCceeh
No 440
>KOG0060 consensus Long-chain acyl-CoA transporter, ABC superfamily (involved in peroxisome organization and biogenesis) [Lipid transport and metabolism; General function prediction only]
Probab=40.39 E-value=14 Score=44.10 Aligned_cols=19 Identities=32% Similarity=0.651 Sum_probs=17.4
Q ss_pred HHHcCCceeeeCCCCCcch
Q 002378 33 SLENGGVSMLESPTGTGKT 51 (929)
Q Consensus 33 ~~~~~~~~~~esptgtgkt 51 (929)
-+.+|++.++.+|+|||||
T Consensus 457 ~V~~g~~LLItG~sG~GKt 475 (659)
T KOG0060|consen 457 EVPSGQNLLITGPSGCGKT 475 (659)
T ss_pred EecCCCeEEEECCCCCchh
Confidence 4668999999999999999
No 441
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=40.27 E-value=16 Score=40.91 Aligned_cols=16 Identities=50% Similarity=0.802 Sum_probs=0.0
Q ss_pred CCCCCCCEEEEeCCcC
Q 002378 379 GLNLKNNIVIIDEAHN 394 (929)
Q Consensus 379 ~i~l~~~ivI~DEAHN 394 (929)
|-.+.|.+||+|||||
T Consensus 239 GRTL~dAfVIlDEaQN 254 (348)
T COG1702 239 GRTLNDAFVILDEAQN 254 (348)
T ss_pred cCCCCCeEEEEecccc
No 442
>PRK14974 cell division protein FtsY; Provisional
Probab=39.76 E-value=47 Score=37.68 Aligned_cols=26 Identities=31% Similarity=0.314 Sum_probs=18.8
Q ss_pred CceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 38 GVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
..++|.+|+|+|||-.+---+ .|+.+
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA-~~l~~ 166 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLA-YYLKK 166 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHH-HHHHH
Confidence 468899999999997655444 34543
No 443
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=39.75 E-value=20 Score=44.71 Aligned_cols=31 Identities=29% Similarity=0.399 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHcC-----------CceeeeCCCCCcchH
Q 002378 22 IQTDFMKALYCSLENG-----------GVSMLESPTGTGKTL 52 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~-----------~~~~~esptgtgktl 52 (929)
.|...+..|-++|... .+.+|-+|||.|||-
T Consensus 495 GQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTE 536 (786)
T COG0542 495 GQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTE 536 (786)
T ss_pred ChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHH
Confidence 3677777777777653 467889999999994
No 444
>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=39.74 E-value=21 Score=45.57 Aligned_cols=30 Identities=33% Similarity=0.517 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHcC-----------CceeeeCCCCCcchH
Q 002378 23 QTDFMKALYCSLENG-----------GVSMLESPTGTGKTL 52 (929)
Q Consensus 23 Q~~~M~~v~~~~~~~-----------~~~~~esptgtgktl 52 (929)
|...++.|.++|... .+.+|-+|||||||.
T Consensus 571 Q~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~ 611 (852)
T TIGR03345 571 QDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTE 611 (852)
T ss_pred hHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHH
No 445
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=39.56 E-value=15 Score=43.70 Aligned_cols=40 Identities=23% Similarity=0.219 Sum_probs=29.2
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
..|+|... |-..|.+|.+.++-|+|+|||| |++-|+-+..
T Consensus 217 LlPVQ~la---Ve~GLLeG~nllVVSaTasGKT---LIgElAGi~~ 256 (830)
T COG1202 217 LLPVQVLA---VEAGLLEGENLLVVSATASGKT---LIGELAGIPR 256 (830)
T ss_pred ecchhhhh---hhhccccCCceEEEeccCCCcc---hHHHhhCcHH
Confidence 44566543 3356788999999999999999 5666666554
No 446
>PHA02624 large T antigen; Provisional
Probab=39.53 E-value=24 Score=42.81 Aligned_cols=34 Identities=21% Similarity=0.315 Sum_probs=24.3
Q ss_pred HHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHh
Q 002378 26 FMKALYCSLENGGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 26 ~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
.++.+.+.+-.+...+|.||-|||||. +|.+|.-
T Consensus 420 ~lk~~l~giPKk~~il~~GPpnTGKTt--f~~sLl~ 453 (647)
T PHA02624 420 ILKLIVENVPKRRYWLFKGPVNSGKTT--LAAALLD 453 (647)
T ss_pred HHHHHHhcCCCCeEEEEECCCCCCHHH--HHHHHHH
Confidence 344455555666789999999999994 6666643
No 447
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=39.46 E-value=17 Score=40.89 Aligned_cols=42 Identities=24% Similarity=0.462 Sum_probs=29.3
Q ss_pred CCCCC----CCHHHHHHHHH----HHHHHHcCCc--eeeeCCCCCcchHHHH
Q 002378 14 AFPYK----PYSIQTDFMKA----LYCSLENGGV--SMLESPTGTGKTLSII 55 (929)
Q Consensus 14 ~FPf~----py~~Q~~~M~~----v~~~~~~~~~--~~~esptgtgktl~~l 55 (929)
.|.|+ |..-|.++-+. +++.+-+|.+ ++.-++||||||-++.
T Consensus 52 ~f~FD~vf~~~~~q~~vf~~~~~plv~~~~~G~n~~i~ayGqtGSGKTyTm~ 103 (322)
T cd01367 52 TFRFDYVFDEAVTNEEVYRSTVKPLIPHVFEGGVATCFAYGQTGSGKTYTML 103 (322)
T ss_pred eEecceEECCCCCHHHHHHHHHHHHHHHHhCCCceEEEeccCCCCCCceEec
Confidence 35554 55567776655 5666667754 4458999999998876
No 448
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=39.35 E-value=1.2e+02 Score=36.88 Aligned_cols=150 Identities=18% Similarity=0.223 Sum_probs=94.0
Q ss_pred eEEEeccCCCCh--hhHHHhhCCCCCCCceeeeecCCccCCCCceEEEeecCCCCCceeeeecccCChHHHHHHHHHHHH
Q 002378 602 AVILAGGTLQPI--EETRERLFPWLSPNKFHFFSCSHIVPPESILPVALSCGPTGKSFDFSYGSRSSSAMIEELGLLLCN 679 (929)
Q Consensus 602 svILtSGTLsP~--~~f~~~L~~~~~~~~i~~~~~~hvi~~~~~~~~iv~~gp~g~~l~~~y~~R~~~~~~~~l~~~i~~ 679 (929)
.++...||=+|- .+....|+...+ .+ + -.-|+..|+..-++.. .+..+.+. .|.+
T Consensus 168 p~~AlTATA~~~v~~DI~~~L~l~~~--~~--~--~~sfdRpNi~~~v~~~----------------~~~~~q~~-fi~~ 224 (590)
T COG0514 168 PVLALTATATPRVRDDIREQLGLQDA--NI--F--RGSFDRPNLALKVVEK----------------GEPSDQLA-FLAT 224 (590)
T ss_pred CEEEEeCCCChHHHHHHHHHhcCCCc--ce--E--EecCCCchhhhhhhhc----------------ccHHHHHH-HHHh
Confidence 466777888873 556666654322 01 1 1124555655444421 12223344 5554
Q ss_pred HhhccCCCeEEEccCHHHHHHHHHHHHhcChhHHhhcCccEEEcCCCCchHHHHHHHHHHHHhccCCCCCCCCCCCCCcE
Q 002378 680 LVSVVPEGIIVFFPSFEYVERVYGAWKSLGILDRIMKKKHVFREPRGNTHVESVLKEYQKTIDTLSSRPKEDSTPLNGAM 759 (929)
Q Consensus 680 ~~~~vpgg~LVfFpSy~~l~~~~~~w~~~~~~~~l~~~K~if~E~~~~~~~~~~l~~y~~~i~~~~~~~~~~~~~~~gai 759 (929)
....-.+..+|++.|-...+.+.+.+...|+- -..|--+-...+++.+-+.|.. ....|
T Consensus 225 ~~~~~~~~GIIYc~sRk~~E~ia~~L~~~g~~------a~~YHaGl~~~eR~~~q~~f~~---------------~~~~i 283 (590)
T COG0514 225 VLPQLSKSGIIYCLTRKKVEELAEWLRKNGIS------AGAYHAGLSNEERERVQQAFLN---------------DEIKV 283 (590)
T ss_pred hccccCCCeEEEEeeHHhHHHHHHHHHHCCCc------eEEecCCCCHHHHHHHHHHHhc---------------CCCcE
Confidence 33444556899999999999999998877531 1233333344567777777765 46788
Q ss_pred EEEEecCccccccccCCCcceEEEEEccCCCCCCCHHHHHHHHHHhhcc
Q 002378 760 LLAVVGGKISEGINFSDGMGRCIVMVGLPYPSPSNIELLERIKHIEGLG 808 (929)
Q Consensus 760 L~aV~rGk~sEGIDf~d~~~r~ViivGlPfp~~~d~~v~~k~~yl~~~~ 808 (929)
++|. --|-=|||=|| .|.||=..+|- +.+ .|+.+.+
T Consensus 284 iVAT--~AFGMGIdKpd--VRfViH~~lP~----s~E-----sYyQE~G 319 (590)
T COG0514 284 MVAT--NAFGMGIDKPD--VRFVIHYDLPG----SIE-----SYYQETG 319 (590)
T ss_pred EEEe--ccccCccCCCC--ceEEEEecCCC----CHH-----HHHHHHh
Confidence 8888 58999999998 78999988875 433 5776654
No 449
>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=39.31 E-value=14 Score=42.12 Aligned_cols=26 Identities=27% Similarity=0.464 Sum_probs=17.2
Q ss_pred HHHHHHHHHHc----CCceeeeCCCCCcch
Q 002378 26 FMKALYCSLEN----GGVSMLESPTGTGKT 51 (929)
Q Consensus 26 ~M~~v~~~~~~----~~~~~~esptgtgkt 51 (929)
..--|.+-+.+ |+..+|-+|+|||||
T Consensus 35 Aagiiv~mIk~~K~aGr~iLiaGppGtGKT 64 (398)
T PF06068_consen 35 AAGIIVDMIKEGKIAGRAILIAGPPGTGKT 64 (398)
T ss_dssp HHHHHHHHHHTT--TT-EEEEEE-TTSSHH
T ss_pred HHHHHHHHHhcccccCcEEEEeCCCCCCch
Confidence 33345555555 467789999999999
No 450
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=39.26 E-value=24 Score=44.97 Aligned_cols=42 Identities=29% Similarity=0.349 Sum_probs=28.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 15 FPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
+...||++|+--=- +|..|+ |.|..||=||||+--.|+ ||..
T Consensus 135 wdm~~ydVQLiGgi----vLh~G~--IAEM~TGEGKTLvatlp~--yLnA 176 (1025)
T PRK12900 135 WDMVPYDVQLIGGI----VLHSGK--ISEMATGEGKTLVSTLPT--FLNA 176 (1025)
T ss_pred cCccccchHHhhhH----HhhcCC--ccccCCCCCcchHhHHHH--HHHH
Confidence 55669999976421 445555 579999999998755443 4443
No 451
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=39.05 E-value=26 Score=35.35 Aligned_cols=25 Identities=28% Similarity=0.327 Sum_probs=20.2
Q ss_pred HHHHHHHHHHcCCceeeeCCCCCcch
Q 002378 26 FMKALYCSLENGGVSMLESPTGTGKT 51 (929)
Q Consensus 26 ~M~~v~~~~~~~~~~~~esptgtgkt 51 (929)
-+..+.+.|.. +..+|-+|+|.|||
T Consensus 25 g~~~l~~~l~~-k~~vl~G~SGvGKS 49 (161)
T PF03193_consen 25 GIEELKELLKG-KTSVLLGQSGVGKS 49 (161)
T ss_dssp THHHHHHHHTT-SEEEEECSTTSSHH
T ss_pred CHHHHHHHhcC-CEEEEECCCCCCHH
Confidence 35556666666 99999999999998
No 452
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=38.97 E-value=24 Score=37.70 Aligned_cols=25 Identities=44% Similarity=0.562 Sum_probs=20.8
Q ss_pred CCceeeeCCCCCcchHHHHHHHHHh
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQW 61 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~~ 61 (929)
|..+++-+|.|+|||.-.+.-+++.
T Consensus 1 g~~~ll~g~~G~GKS~lal~la~~v 25 (239)
T cd01125 1 GYVSALVAPGGTGKSSLLLVLALAM 25 (239)
T ss_pred CceeEEEcCCCCCHHHHHHHHHHHH
Confidence 5678999999999998777777664
No 453
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=38.78 E-value=36 Score=37.85 Aligned_cols=32 Identities=22% Similarity=0.312 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHcCC--ceee-eCCCCCcchHH
Q 002378 22 IQTDFMKALYCSLENGG--VSML-ESPTGTGKTLS 53 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~--~~~~-esptgtgktl~ 53 (929)
.|.+.-+.+...+.+|. +.+| .||+|||||-.
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~l 59 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTV 59 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHH
Confidence 35555556666777773 4555 99999999954
No 454
>PRK04195 replication factor C large subunit; Provisional
Probab=38.72 E-value=42 Score=40.06 Aligned_cols=33 Identities=21% Similarity=0.208 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHc---CCceeeeCCCCCcchHHH
Q 002378 22 IQTDFMKALYCSLEN---GGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~---~~~~~~esptgtgktl~~ 54 (929)
-+...++..+..... ...+||-||+|||||...
T Consensus 21 ~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 21 KAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLA 56 (482)
T ss_pred HHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 344445555555555 468999999999999543
No 455
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=38.62 E-value=22 Score=38.48 Aligned_cols=22 Identities=27% Similarity=0.622 Sum_probs=17.9
Q ss_pred HHHcCCceeeeCCCCCcchHHH
Q 002378 33 SLENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 33 ~~~~~~~~~~esptgtgktl~~ 54 (929)
++.....+|+-+|||+||+-++
T Consensus 123 a~~kRGLviiVGaTGSGKSTtm 144 (375)
T COG5008 123 ALAKRGLVIIVGATGSGKSTTM 144 (375)
T ss_pred hcccCceEEEECCCCCCchhhH
Confidence 4555688899999999999664
No 456
>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=38.55 E-value=45 Score=36.29 Aligned_cols=37 Identities=19% Similarity=0.179 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHH---------HcCCceeeeCCCCCcchHHHHHHHH
Q 002378 23 QTDFMKALYCSL---------ENGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 23 Q~~~M~~v~~~~---------~~~~~~~~esptgtgktl~~l~~~l 59 (929)
|++.++-+++-. .....+||--..|+|||+.-|....
T Consensus 2 Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~ 47 (299)
T PF00176_consen 2 QLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALIS 47 (299)
T ss_dssp HHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhh
Confidence 777778788777 6678899999999999977654444
No 457
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=38.47 E-value=1e+02 Score=36.48 Aligned_cols=60 Identities=27% Similarity=0.434 Sum_probs=41.6
Q ss_pred CCCCCHHH-HHHhcccCCCCchhhhhcccCCCcEEEeccccccCHHHHHHhCCCCCC-CEEEEeCCcChHHHH
Q 002378 329 QGALDIED-LVHLGRHMRTCPYYGSRSMVPTADLVVLPYQSLLSKSARESLGLNLKN-NIVIIDEAHNLADSL 399 (929)
Q Consensus 329 ~~v~DIEd-L~~~g~~~~~CPYy~sR~~~~~AdII~~pYnyLl~~~~R~~l~i~l~~-~ivI~DEAHNL~d~~ 399 (929)
.+..++|| -.++......| .+||+|..=-=|+|+. +..-+++|++ .++|||||..|.+..
T Consensus 250 sgq~sl~~E~~qL~~~~~~~----------~~DIlVaTPGRLVDHl-~~~k~f~Lk~LrfLVIDEADRll~qs 311 (620)
T KOG0350|consen 250 SGQNSLEDEARQLASDPPEC----------RIDILVATPGRLVDHL-NNTKSFDLKHLRFLVIDEADRLLDQS 311 (620)
T ss_pred ccccchHHHHHHHhcCCCcc----------ccceEEcCchHHHHhc-cCCCCcchhhceEEEechHHHHHHHH
Confidence 34455553 55566666667 7899999888888874 2345677776 589999998876643
No 458
>KOG1808 consensus AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=38.15 E-value=31 Score=46.96 Aligned_cols=46 Identities=24% Similarity=0.263 Sum_probs=36.3
Q ss_pred CCCCHHHHHHHHHHHHHHHcC-CceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 17 YKPYSIQTDFMKALYCSLENG-GVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~-~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
|.+.+-++..|..+..++..| ...+|.+|||+|||- +..-|+|..-
T Consensus 419 ~i~T~~vq~~la~~~~a~~~~~~pillqG~tssGKts--ii~~la~~~g 465 (1856)
T KOG1808|consen 419 YIITPRVQKNLADLARAISSGKFPILLQGPTSSGKTS--IIKELARATG 465 (1856)
T ss_pred eeccHHHHHHHHHHHHHHhcCCCCeEEecCcCcCchh--HHHHHHHHhc
Confidence 667888888999999999888 789999999999993 3344555543
No 459
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=38.13 E-value=16 Score=40.82 Aligned_cols=16 Identities=38% Similarity=0.522 Sum_probs=13.7
Q ss_pred CCceeeeCCCCCcchH
Q 002378 37 GGVSMLESPTGTGKTL 52 (929)
Q Consensus 37 ~~~~~~esptgtgktl 52 (929)
.+..++-+|||+|||-
T Consensus 4 ~~~i~i~GptgsGKt~ 19 (307)
T PRK00091 4 PKVIVIVGPTASGKTA 19 (307)
T ss_pred ceEEEEECCCCcCHHH
Confidence 4678899999999994
No 460
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=38.13 E-value=16 Score=44.95 Aligned_cols=15 Identities=53% Similarity=0.731 Sum_probs=12.8
Q ss_pred CceeeeCCCCCcchH
Q 002378 38 GVSMLESPTGTGKTL 52 (929)
Q Consensus 38 ~~~~~esptgtgktl 52 (929)
.-+||-+|.||||||
T Consensus 706 SGILLYGPPGTGKTL 720 (953)
T KOG0736|consen 706 SGILLYGPPGTGKTL 720 (953)
T ss_pred ceeEEECCCCCchHH
Confidence 446789999999997
No 461
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=38.06 E-value=22 Score=40.39 Aligned_cols=35 Identities=26% Similarity=0.127 Sum_probs=24.8
Q ss_pred CCHHHHHHHHHHHHHHHcCCc-eeeeCCCCCcchHH
Q 002378 19 PYSIQTDFMKALYCSLENGGV-SMLESPTGTGKTLS 53 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~-~~~esptgtgktl~ 53 (929)
.||-|...=+++...-..-.+ .+|.||.|+||+..
T Consensus 2 ~yPW~~~~~~~l~~~~~rl~ha~Lf~Gp~G~GK~~l 37 (342)
T PRK06964 2 LYPWQTDDWNRLQALRARLPHALLLHGQAGIGKLDF 37 (342)
T ss_pred CCcccHHHHHHHHHhcCCcceEEEEECCCCCCHHHH
Confidence 378888887877775222234 45899999999854
No 462
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=37.90 E-value=31 Score=43.12 Aligned_cols=38 Identities=18% Similarity=0.274 Sum_probs=24.7
Q ss_pred CCCCCCHHHHHHHHHHHHHH----HcCCceeeeCCCCCcchH
Q 002378 15 FPYKPYSIQTDFMKALYCSL----ENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 15 FPf~py~~Q~~~M~~v~~~~----~~~~~~~~esptgtgktl 52 (929)
..|..--.+-..|+.+++.+ ..+.++++.|+||||||+
T Consensus 373 ~~~~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~ 414 (686)
T PRK15429 373 SEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKEL 414 (686)
T ss_pred ccccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHH
Confidence 34443334444555554433 345689999999999995
No 463
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=37.86 E-value=30 Score=34.48 Aligned_cols=24 Identities=21% Similarity=0.328 Sum_probs=16.5
Q ss_pred eeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 40 SMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 40 ~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
..+-+|+|+||| +++...+.+++.
T Consensus 2 i~i~G~~gsGKT-tl~~~l~~~l~~ 25 (155)
T TIGR00176 2 LQIVGPKNSGKT-TLIERLVKALKA 25 (155)
T ss_pred EEEECCCCCCHH-HHHHHHHHHHHh
Confidence 456799999999 445555555543
No 464
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=37.54 E-value=13 Score=43.52 Aligned_cols=43 Identities=28% Similarity=0.375 Sum_probs=33.9
Q ss_pred CCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHHhHHHH
Q 002378 19 PYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQWVVDQ 65 (929)
Q Consensus 19 py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~~~~~~ 65 (929)
|||||-+.+- +-..|..+|--+-||+|||-+++-+.+-.+-|.
T Consensus 246 ptpiq~qalp----talsgrdvigIAktgSgktaAfi~pm~~himdq 288 (731)
T KOG0339|consen 246 PTPIQCQALP----TALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQ 288 (731)
T ss_pred CCcccccccc----cccccccchheeeccCcchhHHHHHHHHHhcch
Confidence 7777776544 445677888889999999999999888877764
No 465
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=37.33 E-value=52 Score=38.90 Aligned_cols=25 Identities=20% Similarity=0.375 Sum_probs=18.5
Q ss_pred ceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 39 VSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 39 ~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
..++-||+||||| -|+.+...++..
T Consensus 143 pl~i~G~~G~GKT-HLl~Ai~~~l~~ 167 (450)
T PRK14087 143 PLFIYGESGMGKT-HLLKAAKNYIES 167 (450)
T ss_pred ceEEECCCCCcHH-HHHHHHHHHHHH
Confidence 4778999999999 555666655543
No 466
>PRK00698 tmk thymidylate kinase; Validated
Probab=37.22 E-value=18 Score=37.30 Aligned_cols=17 Identities=29% Similarity=0.442 Sum_probs=14.7
Q ss_pred cCCceeeeCCCCCcchH
Q 002378 36 NGGVSMLESPTGTGKTL 52 (929)
Q Consensus 36 ~~~~~~~esptgtgktl 52 (929)
.|..+++|||.|+|||-
T Consensus 2 ~~~~I~ieG~~gsGKsT 18 (205)
T PRK00698 2 RGMFITIEGIDGAGKST 18 (205)
T ss_pred CceEEEEECCCCCCHHH
Confidence 36789999999999983
No 467
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=37.21 E-value=17 Score=35.28 Aligned_cols=13 Identities=38% Similarity=0.772 Sum_probs=11.2
Q ss_pred eeeeCCCCCcchH
Q 002378 40 SMLESPTGTGKTL 52 (929)
Q Consensus 40 ~~~esptgtgktl 52 (929)
.++.+|||+|||-
T Consensus 2 i~i~GpsGsGKst 14 (137)
T cd00071 2 IVLSGPSGVGKST 14 (137)
T ss_pred EEEECCCCCCHHH
Confidence 5788999999993
No 468
>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=37.21 E-value=26 Score=43.71 Aligned_cols=26 Identities=46% Similarity=0.884 Sum_probs=20.9
Q ss_pred cCCceeeeCCCCCcchHHHHHHHHHhHHHH
Q 002378 36 NGGVSMLESPTGTGKTLSIICSALQWVVDQ 65 (929)
Q Consensus 36 ~~~~~~~esptgtgktl~~l~~~l~~~~~~ 65 (929)
.+.+.++-||.|||||-+++ .||++.
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi----~wLk~~ 73 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALI----RWLKDA 73 (824)
T ss_pred CCCeEEEECCCCCCcHHHHH----HHHHHh
Confidence 46788999999999998875 466664
No 469
>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=37.11 E-value=28 Score=42.40 Aligned_cols=27 Identities=26% Similarity=0.567 Sum_probs=21.4
Q ss_pred CCceeeeCCCCCcchHHHHHHHHHhHHH
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQWVVD 64 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~~~~~ 64 (929)
..+.++-+|||||||- +|-..|.|+..
T Consensus 176 ~~h~li~G~tGsGKs~-~i~~ll~~~~~ 202 (566)
T TIGR02759 176 TQHILIHGTTGSGKSV-AIRKLLRWIRQ 202 (566)
T ss_pred ccceEEEcCCCCCHHH-HHHHHHHHHHh
Confidence 5789999999999995 45666777654
No 470
>PLN02199 shikimate kinase
Probab=37.08 E-value=31 Score=38.28 Aligned_cols=34 Identities=24% Similarity=0.189 Sum_probs=24.9
Q ss_pred CCHH-HHHHHHHHHHHHHcCCceeeeCCCCCcchH
Q 002378 19 PYSI-QTDFMKALYCSLENGGVSMLESPTGTGKTL 52 (929)
Q Consensus 19 py~~-Q~~~M~~v~~~~~~~~~~~~esptgtgktl 52 (929)
||+. |+.-|..-+.....+.+++|-+++|+|||.
T Consensus 83 ~~de~~Lk~~a~~i~~~l~~~~I~LIG~~GSGKST 117 (303)
T PLN02199 83 PFDEDILKRKAEEVKPYLNGRSMYLVGMMGSGKTT 117 (303)
T ss_pred CCCHHHHHHHHHHHHHHcCCCEEEEECCCCCCHHH
Confidence 4443 455555556666669999999999999994
No 471
>CHL00206 ycf2 Ycf2; Provisional
Probab=37.07 E-value=25 Score=47.96 Aligned_cols=41 Identities=17% Similarity=0.241 Sum_probs=26.8
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHH
Q 002378 12 FPAFPYKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 12 ~~~FPf~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~ 60 (929)
-++||..--|+.+.+ .+.-.+-++|-||.|||||+ |+-+||
T Consensus 1611 ~~~~~s~~kP~slrL------Gl~pPKGILLiGPPGTGKTl--LAKALA 1651 (2281)
T CHL00206 1611 SFHFPSHGKPFSLRL------ALSPSRGILVIGSIGTGRSY--LVKYLA 1651 (2281)
T ss_pred cccCcccCcCHHHHc------CCCCCCceEEECCCCCCHHH--HHHHHH
Confidence 356777533444433 44556788999999999995 555554
No 472
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=36.94 E-value=20 Score=35.49 Aligned_cols=36 Identities=14% Similarity=0.048 Sum_probs=21.2
Q ss_pred CCCcEEEeccccccCHHHHHHhCCC-CCCCEEEEeCCcCh
Q 002378 357 PTADLVVLPYQSLLSKSARESLGLN-LKNNIVIIDEAHNL 395 (929)
Q Consensus 357 ~~AdII~~pYnyLl~~~~R~~l~i~-l~~~ivI~DEAHNL 395 (929)
..+-|-++.|..+..-.. .+.. .+..++|+||+|=.
T Consensus 71 g~~~i~vMc~at~~~~~~---~p~~~~~yd~II~DEcH~~ 107 (148)
T PF07652_consen 71 GSSIIDVMCHATYGHFLL---NPCRLKNYDVIIMDECHFT 107 (148)
T ss_dssp SSSSEEEEEHHHHHHHHH---TSSCTTS-SEEEECTTT--
T ss_pred CCCcccccccHHHHHHhc---CcccccCccEEEEeccccC
Confidence 345567788876544332 1332 45689999999974
No 473
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=36.90 E-value=28 Score=40.06 Aligned_cols=24 Identities=29% Similarity=0.351 Sum_probs=19.0
Q ss_pred cCCceeeeCCCCCcchHHHHHHHH
Q 002378 36 NGGVSMLESPTGTGKTLSIICSAL 59 (929)
Q Consensus 36 ~~~~~~~esptgtgktl~~l~~~l 59 (929)
.+++.+|-+|||+|||-.+..-+.
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~ 228 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGW 228 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 467888999999999976655553
No 474
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=36.77 E-value=29 Score=41.63 Aligned_cols=21 Identities=62% Similarity=0.925 Sum_probs=17.6
Q ss_pred HHcCCceeeeCCCCCcchHHH
Q 002378 34 LENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 34 ~~~~~~~~~esptgtgktl~~ 54 (929)
+..|++.+|-||||+|||-.+
T Consensus 347 l~~G~vIaLVGPtGvGKTTta 367 (559)
T PRK12727 347 LERGGVIALVGPTGAGKTTTI 367 (559)
T ss_pred ccCCCEEEEECCCCCCHHHHH
Confidence 466889999999999999654
No 475
>PRK06620 hypothetical protein; Validated
Probab=36.73 E-value=19 Score=38.06 Aligned_cols=15 Identities=27% Similarity=0.585 Sum_probs=12.9
Q ss_pred ceeeeCCCCCcchHH
Q 002378 39 VSMLESPTGTGKTLS 53 (929)
Q Consensus 39 ~~~~esptgtgktl~ 53 (929)
..+|-||+|+|||--
T Consensus 46 ~l~l~Gp~G~GKThL 60 (214)
T PRK06620 46 TLLIKGPSSSGKTYL 60 (214)
T ss_pred eEEEECCCCCCHHHH
Confidence 479999999999953
No 476
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=36.66 E-value=28 Score=37.11 Aligned_cols=21 Identities=24% Similarity=0.526 Sum_probs=17.9
Q ss_pred HHHcCCceeeeCCCCCcchHH
Q 002378 33 SLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 33 ~~~~~~~~~~esptgtgktl~ 53 (929)
.+..|...++.+|+|||||.-
T Consensus 20 gi~~g~~~~i~G~~G~GKTtl 40 (230)
T PRK08533 20 GIPAGSLILIEGDESTGKSIL 40 (230)
T ss_pred CCCCCcEEEEECCCCCCHHHH
Confidence 356688999999999999965
No 477
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=36.64 E-value=27 Score=36.76 Aligned_cols=22 Identities=32% Similarity=0.578 Sum_probs=17.7
Q ss_pred HHHcCCceeeeCCCCCcchHHH
Q 002378 33 SLENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 33 ~~~~~~~~~~esptgtgktl~~ 54 (929)
.+..|...++.+|+|||||.-.
T Consensus 19 Gi~~g~i~~i~G~~GsGKT~l~ 40 (225)
T PRK09361 19 GFERGTITQIYGPPGSGKTNIC 40 (225)
T ss_pred CCCCCeEEEEECCCCCCHHHHH
Confidence 4555788999999999998643
No 478
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=36.62 E-value=23 Score=39.96 Aligned_cols=40 Identities=35% Similarity=0.402 Sum_probs=27.0
Q ss_pred CCCCCHHHHHHHH----HHHHHHHcCCc--eeeeCCCCCcchHHHH
Q 002378 16 PYKPYSIQTDFMK----ALYCSLENGGV--SMLESPTGTGKTLSII 55 (929)
Q Consensus 16 Pf~py~~Q~~~M~----~v~~~~~~~~~--~~~esptgtgktl~~l 55 (929)
-|++-..|.++-+ .+++.+-+|.+ ++.-++||||||.+++
T Consensus 55 vf~~~~~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgSGKTyTm~ 100 (333)
T cd01371 55 VYDPNSTQEDVYNETARPLVDSVLEGYNGTIFAYGQTGTGKTFTME 100 (333)
T ss_pred ccCCCccHHHHHHHHHHHHHHHHhCCCceeEEecCCCCCCCcEeec
Confidence 3456656776644 45556666744 4558999999998764
No 479
>PRK10869 recombination and repair protein; Provisional
Probab=36.53 E-value=28 Score=42.34 Aligned_cols=24 Identities=33% Similarity=0.612 Sum_probs=19.7
Q ss_pred CceeeeCCCCCcchHHHHHHHHHhHH
Q 002378 38 GVSMLESPTGTGKTLSIICSALQWVV 63 (929)
Q Consensus 38 ~~~~~esptgtgktl~~l~~~l~~~~ 63 (929)
..-+|.||||+||| .|..||.|+-
T Consensus 23 glnvitGetGaGKS--~ildAi~~ll 46 (553)
T PRK10869 23 GMTVITGETGAGKS--IAIDALGLCL 46 (553)
T ss_pred CcEEEECCCCCChH--HHHHHHHHHh
Confidence 56788999999996 4778888875
No 480
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=36.44 E-value=19 Score=40.68 Aligned_cols=22 Identities=32% Similarity=0.653 Sum_probs=18.8
Q ss_pred HHHcCCceeeeCCCCCcchHHH
Q 002378 33 SLENGGVSMLESPTGTGKTLSI 54 (929)
Q Consensus 33 ~~~~~~~~~~esptgtgktl~~ 54 (929)
.++.|...+|=+|+|+|||--|
T Consensus 25 ~i~~Gef~vllGPSGcGKSTlL 46 (338)
T COG3839 25 DIEDGEFVVLLGPSGCGKSTLL 46 (338)
T ss_pred EEcCCCEEEEECCCCCCHHHHH
Confidence 5678999999999999999533
No 481
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=36.41 E-value=32 Score=34.52 Aligned_cols=22 Identities=36% Similarity=0.333 Sum_probs=16.1
Q ss_pred ceeeeCCCCCcchHHHHHHHHH
Q 002378 39 VSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 39 ~~~~esptgtgktl~~l~~~l~ 60 (929)
..++.+|+|+|||-....-+..
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~ 23 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALY 23 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4688999999999765444433
No 482
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=36.35 E-value=44 Score=38.79 Aligned_cols=33 Identities=15% Similarity=0.302 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHcCC-----------c-eeeeCCCCCcchHHH
Q 002378 22 IQTDFMKALYCSLENGG-----------V-SMLESPTGTGKTLSI 54 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~-----------~-~~~esptgtgktl~~ 54 (929)
.|....+.+..++..+. + .||.+|.|+|||..-
T Consensus 9 Gq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA 53 (394)
T PRK07940 9 GQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAA 53 (394)
T ss_pred ChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHH
Confidence 58888888888888864 3 679999999998543
No 483
>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=36.33 E-value=40 Score=42.50 Aligned_cols=40 Identities=20% Similarity=0.349 Sum_probs=28.4
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCceeeeCCCCCcchHHHHHHHHH
Q 002378 17 YKPYSIQTDFMKALYCSLENGGVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 17 f~py~~Q~~~M~~v~~~~~~~~~~~~esptgtgktl~~l~~~l~ 60 (929)
+..-+.|++.++.+. ..+...++.+|.|||||-. |.+.+.
T Consensus 351 ~~Ls~~Q~~Av~~i~---~s~~~~il~G~aGTGKTtl-l~~i~~ 390 (744)
T TIGR02768 351 YRLSEEQYEAVRHVT---GSGDIAVVVGRAGTGKSTM-LKAARE 390 (744)
T ss_pred CCCCHHHHHHHHHHh---cCCCEEEEEecCCCCHHHH-HHHHHH
Confidence 445688999877654 3357899999999999854 333333
No 484
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=36.28 E-value=41 Score=41.25 Aligned_cols=34 Identities=18% Similarity=0.134 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHcCC---ceeeeCCCCCcchHHHH
Q 002378 22 IQTDFMKALYCSLENGG---VSMLESPTGTGKTLSII 55 (929)
Q Consensus 22 ~Q~~~M~~v~~~~~~~~---~~~~esptgtgktl~~l 55 (929)
.|...++.+...+.+++ ..||.+|.|||||..-.
T Consensus 20 GQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiAr 56 (624)
T PRK14959 20 GQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIAR 56 (624)
T ss_pred CCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHH
Confidence 57788888888998874 36689999999996544
No 485
>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=36.27 E-value=31 Score=44.22 Aligned_cols=37 Identities=19% Similarity=0.220 Sum_probs=29.9
Q ss_pred CCCHHHHHHHHHHHHHHHcC--CceeeeCCCCCcchHHH
Q 002378 18 KPYSIQTDFMKALYCSLENG--GVSMLESPTGTGKTLSI 54 (929)
Q Consensus 18 ~py~~Q~~~M~~v~~~~~~~--~~~~~esptgtgktl~~ 54 (929)
+|.=.|..-++.+++.|..+ .+.||-||+|||||...
T Consensus 173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~ 211 (852)
T TIGR03346 173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIV 211 (852)
T ss_pred CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHH
Confidence 45556777899999988765 68999999999999643
No 486
>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=36.19 E-value=25 Score=36.53 Aligned_cols=21 Identities=33% Similarity=0.607 Sum_probs=16.8
Q ss_pred HcCCceeeeCCCCCcchHHHH
Q 002378 35 ENGGVSMLESPTGTGKTLSII 55 (929)
Q Consensus 35 ~~~~~~~~esptgtgktl~~l 55 (929)
-.|....+.+|+|||||.-.+
T Consensus 10 ~~g~i~~i~G~~GsGKT~l~~ 30 (209)
T TIGR02237 10 ERGTITQIYGPPGSGKTNICM 30 (209)
T ss_pred CCCeEEEEECCCCCCHHHHHH
Confidence 346788899999999997544
No 487
>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=36.16 E-value=26 Score=39.91 Aligned_cols=49 Identities=22% Similarity=0.296 Sum_probs=0.0
Q ss_pred hhhhhcc---cCCCcEEEeccccccCHHHHHHhCCCC---------------------------CCCEEEEeCCcChHH
Q 002378 349 YYGSRSM---VPTADLVVLPYQSLLSKSARESLGLNL---------------------------KNNIVIIDEAHNLAD 397 (929)
Q Consensus 349 Yy~sR~~---~~~AdII~~pYnyLl~~~~R~~l~i~l---------------------------~~~ivI~DEAHNL~d 397 (929)
+..++++ ...-.++++-+|--+-..+++.+.-.. ...||||||||.|-+
T Consensus 19 ~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~DviivDEAqrl~~ 97 (352)
T PF09848_consen 19 LNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDKEKNKYDVIIVDEAQRLRT 97 (352)
T ss_pred HHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhcccchhhhhhhhhHHHHhhcccccccCCcCCEEEEehhHhhhh
No 488
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=36.14 E-value=19 Score=40.47 Aligned_cols=37 Identities=24% Similarity=0.313 Sum_probs=26.6
Q ss_pred CCHHHHHHHHH----HHHHHHcCCc--eeeeCCCCCcchHHHH
Q 002378 19 PYSIQTDFMKA----LYCSLENGGV--SMLESPTGTGKTLSII 55 (929)
Q Consensus 19 py~~Q~~~M~~----v~~~~~~~~~--~~~esptgtgktl~~l 55 (929)
|-..|.++.+. +++.+-+|.+ ++.-++||||||.+++
T Consensus 57 ~~~~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgSGKTyTm~ 99 (319)
T cd01376 57 TECTQEDIFSREVKPIVPHLLSGQNATVFAYGSTGAGKTHTML 99 (319)
T ss_pred CCCCHHHHHHHHHHHHHHHHhCCCceEEEEECCCCCCCcEEEe
Confidence 55678777665 4556666754 4457999999998874
No 489
>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]
Probab=36.01 E-value=15 Score=37.95 Aligned_cols=19 Identities=37% Similarity=0.695 Sum_probs=17.3
Q ss_pred HHHcCCceeeeCCCCCcch
Q 002378 33 SLENGGVSMLESPTGTGKT 51 (929)
Q Consensus 33 ~~~~~~~~~~esptgtgkt 51 (929)
+|..|....+++|.|+|||
T Consensus 24 ~l~~Ge~~~i~G~NG~GKT 42 (209)
T COG4133 24 TLNAGEALQITGPNGAGKT 42 (209)
T ss_pred EEcCCCEEEEECCCCCcHH
Confidence 5778999999999999999
No 490
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=35.98 E-value=39 Score=40.72 Aligned_cols=34 Identities=29% Similarity=0.358 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHcCCce---eeeCCCCCcchHHH
Q 002378 21 SIQTDFMKALYCSLENGGVS---MLESPTGTGKTLSI 54 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~~~~~---~~esptgtgktl~~ 54 (929)
-.|....+.+...+..|... ||.||.|||||-+.
T Consensus 17 iGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~A 53 (535)
T PRK08451 17 IGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSA 53 (535)
T ss_pred cCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHH
Confidence 35888888999999999654 89999999999543
No 491
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=35.82 E-value=29 Score=42.01 Aligned_cols=26 Identities=27% Similarity=0.395 Sum_probs=22.3
Q ss_pred HHHHHHHHcCCceeeeCCCCCcchHH
Q 002378 28 KALYCSLENGGVSMLESPTGTGKTLS 53 (929)
Q Consensus 28 ~~v~~~~~~~~~~~~esptgtgktl~ 53 (929)
..++.++.+.++.|+++-||+|||--
T Consensus 271 dell~av~e~QVLiI~GeTGSGKTTQ 296 (902)
T KOG0923|consen 271 DELLKAVKEHQVLIIVGETGSGKTTQ 296 (902)
T ss_pred HHHHHHHHhCcEEEEEcCCCCCcccc
Confidence 34566999999999999999999953
No 492
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=35.72 E-value=19 Score=36.89 Aligned_cols=16 Identities=38% Similarity=0.563 Sum_probs=14.5
Q ss_pred cCCceeeeCCCCCcch
Q 002378 36 NGGVSMLESPTGTGKT 51 (929)
Q Consensus 36 ~~~~~~~esptgtgkt 51 (929)
.|..++||||.|+|||
T Consensus 2 ~g~~IvieG~~GsGKs 17 (195)
T TIGR00041 2 RGMFIVIEGIDGAGKT 17 (195)
T ss_pred CceEEEEECCCCCCHH
Confidence 3788999999999998
No 493
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=35.70 E-value=19 Score=40.62 Aligned_cols=23 Identities=30% Similarity=0.523 Sum_probs=17.2
Q ss_pred HHHHHHHc----CCceeeeCCCCCcch
Q 002378 29 ALYCSLEN----GGVSMLESPTGTGKT 51 (929)
Q Consensus 29 ~v~~~~~~----~~~~~~esptgtgkt 51 (929)
-+.+-+.+ |+-+++-+|+|||||
T Consensus 53 vIv~mik~gk~aGrgiLi~GppgTGKT 79 (450)
T COG1224 53 VIVKMIKQGKMAGRGILIVGPPGTGKT 79 (450)
T ss_pred HHHHHHHhCcccccEEEEECCCCCcHH
Confidence 34445544 467889999999999
No 494
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=35.70 E-value=15 Score=45.53 Aligned_cols=24 Identities=25% Similarity=0.425 Sum_probs=21.1
Q ss_pred CCceeeeCCCCCcchHHHHHHHHH
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~ 60 (929)
..++++-+|||+|||-+++.+.|-
T Consensus 139 ~~hvlviApTgSGKgvg~VIPnLL 162 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPTLL 162 (670)
T ss_pred CceEEEEecCCCCceeeehHhHHh
Confidence 368999999999999999988754
No 495
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=35.56 E-value=29 Score=43.66 Aligned_cols=29 Identities=21% Similarity=0.182 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHc--CCceeeeCCCCCcchHH
Q 002378 25 DFMKALYCSLEN--GGVSMLESPTGTGKTLS 53 (929)
Q Consensus 25 ~~M~~v~~~~~~--~~~~~~esptgtgktl~ 53 (929)
.-|+.+++.|.. +.+.||-+|+|||||.-
T Consensus 193 ~ei~~~i~iL~r~~~~n~LLvGppGvGKT~l 223 (758)
T PRK11034 193 KELERAIQVLCRRRKNNPLLVGESGVGKTAI 223 (758)
T ss_pred HHHHHHHHHHhccCCCCeEEECCCCCCHHHH
Confidence 345556666655 47899999999999964
No 496
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=35.34 E-value=13 Score=45.46 Aligned_cols=24 Identities=29% Similarity=0.439 Sum_probs=21.2
Q ss_pred CCceeeeCCCCCcchHHHHHHHHH
Q 002378 37 GGVSMLESPTGTGKTLSIICSALQ 60 (929)
Q Consensus 37 ~~~~~~esptgtgktl~~l~~~l~ 60 (929)
..++++-+|||+|||.+++.+.|-
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnLL 181 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNLL 181 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhHH
Confidence 468999999999999999988864
No 497
>PRK00131 aroK shikimate kinase; Reviewed
Probab=35.27 E-value=18 Score=36.01 Aligned_cols=17 Identities=29% Similarity=0.352 Sum_probs=14.9
Q ss_pred cCCceeeeCCCCCcchH
Q 002378 36 NGGVSMLESPTGTGKTL 52 (929)
Q Consensus 36 ~~~~~~~esptgtgktl 52 (929)
.+..++|-+|+|||||-
T Consensus 3 ~~~~i~l~G~~GsGKst 19 (175)
T PRK00131 3 KGPNIVLIGFMGAGKST 19 (175)
T ss_pred CCCeEEEEcCCCCCHHH
Confidence 56789999999999984
No 498
>PRK10646 ADP-binding protein; Provisional
Probab=35.17 E-value=32 Score=34.39 Aligned_cols=27 Identities=26% Similarity=0.270 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHcCCceeeeCCCCCcch
Q 002378 25 DFMKALYCSLENGGVSMLESPTGTGKT 51 (929)
Q Consensus 25 ~~M~~v~~~~~~~~~~~~esptgtgkt 51 (929)
++-+.+-++|..|.+++|.++=|+|||
T Consensus 16 ~l~~~la~~l~~g~vi~L~GdLGaGKT 42 (153)
T PRK10646 16 DLGARVAKACDGATVIYLYGDLGAGKT 42 (153)
T ss_pred HHHHHHHHhCCCCcEEEEECCCCCCHH
Confidence 566777788888999999999999999
No 499
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=35.14 E-value=41 Score=41.49 Aligned_cols=36 Identities=17% Similarity=0.361 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHc-------CCceeeeCCCCCcchHHHHH
Q 002378 21 SIQTDFMKALYCSLEN-------GGVSMLESPTGTGKTLSIIC 56 (929)
Q Consensus 21 ~~Q~~~M~~v~~~~~~-------~~~~~~esptgtgktl~~l~ 56 (929)
-+|...++.|...|.. ++..+|-+|+|||||-.+-+
T Consensus 87 ~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~ 129 (637)
T TIGR00602 87 AVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKI 129 (637)
T ss_pred cCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHH
Confidence 3567777777766654 34588999999999975433
No 500
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=35.13 E-value=44 Score=34.07 Aligned_cols=25 Identities=36% Similarity=0.583 Sum_probs=18.5
Q ss_pred HHHHHHHcCC---ceeeeCCCCCcchHH
Q 002378 29 ALYCSLENGG---VSMLESPTGTGKTLS 53 (929)
Q Consensus 29 ~v~~~~~~~~---~~~~esptgtgktl~ 53 (929)
.+.+.+..++ ..||.||.|+|||-.
T Consensus 3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~ 30 (188)
T TIGR00678 3 QLKRALEKGRLAHAYLFAGPEGVGKELL 30 (188)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 3455677763 478999999999843
Done!