Query 006790
Match_columns 631
No_of_seqs 229 out of 1730
Neff 9.3
Searched_HMMs 46136
Date Thu Mar 28 14:32:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006790.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006790hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1131 RNA polymerase II tran 100.0 6E-110 1E-114 827.5 51.6 626 1-628 1-626 (755)
2 TIGR00604 rad3 DNA repair heli 100.0 5.1E-96 1E-100 823.5 55.3 616 7-631 1-621 (705)
3 KOG1132 Helicase of the DEAD s 100.0 2.8E-84 6E-89 684.2 45.4 588 3-631 8-662 (945)
4 KOG1133 Helicase of the DEAD s 100.0 9.4E-82 2E-86 647.4 45.1 575 6-631 6-726 (821)
5 PRK11747 dinG ATP-dependent DN 100.0 8.7E-76 1.9E-80 653.4 46.1 544 13-631 23-622 (697)
6 PRK08074 bifunctional ATP-depe 100.0 9.1E-73 2E-77 648.2 44.9 551 14-631 256-841 (928)
7 TIGR01407 dinG_rel DnaQ family 100.0 6.4E-68 1.4E-72 606.6 43.0 509 12-631 242-762 (850)
8 TIGR03117 cas_csf4 CRISPR-asso 100.0 4.7E-65 1E-69 548.0 45.6 511 20-631 1-566 (636)
9 PRK07246 bifunctional ATP-depe 100.0 7.6E-65 1.7E-69 572.2 43.6 483 13-631 243-731 (820)
10 COG1199 DinG Rad3-related DNA 100.0 8E-63 1.7E-67 555.6 39.8 543 8-631 7-565 (654)
11 smart00489 DEXDc3 DEAD-like he 100.0 1.3E-48 2.9E-53 391.4 23.7 258 9-270 2-279 (289)
12 smart00488 DEXDc2 DEAD-like he 100.0 1.3E-48 2.9E-53 391.4 23.7 258 9-270 2-279 (289)
13 PF06733 DEAD_2: DEAD_2; Inte 100.0 1.6E-32 3.5E-37 256.1 5.5 173 72-256 1-174 (174)
14 PF13307 Helicase_C_2: Helicas 99.9 3.3E-24 7.1E-29 198.0 6.9 98 524-631 1-98 (167)
15 smart00491 HELICc2 helicase su 99.9 1.1E-21 2.4E-26 174.5 9.2 86 542-631 1-86 (142)
16 smart00492 HELICc3 helicase su 99.8 1.2E-19 2.6E-24 161.0 9.3 85 542-631 1-85 (141)
17 PF06777 DUF1227: Protein of u 99.7 1.1E-16 2.3E-21 138.3 12.6 141 273-413 6-146 (146)
18 PRK11776 ATP-dependent RNA hel 99.7 3.7E-15 8E-20 161.5 26.7 75 12-91 22-96 (460)
19 PRK04837 ATP-dependent RNA hel 99.7 5.7E-15 1.2E-19 158.2 27.3 76 11-91 25-107 (423)
20 PRK11192 ATP-dependent RNA hel 99.7 1.1E-14 2.4E-19 156.7 27.9 76 12-91 19-97 (434)
21 PRK10590 ATP-dependent RNA hel 99.7 1.3E-14 2.9E-19 156.5 26.8 76 12-91 19-99 (456)
22 PLN00206 DEAD-box ATP-dependen 99.7 9.5E-15 2.1E-19 159.7 25.1 75 12-91 139-220 (518)
23 PRK04537 ATP-dependent RNA hel 99.7 1.6E-14 3.4E-19 159.0 26.7 76 11-91 26-108 (572)
24 PTZ00110 helicase; Provisional 99.7 2E-14 4.3E-19 157.7 26.4 75 12-91 148-227 (545)
25 PRK11634 ATP-dependent RNA hel 99.6 5.5E-14 1.2E-18 155.7 27.8 76 12-92 24-99 (629)
26 TIGR00614 recQ_fam ATP-depende 99.6 3.7E-14 8E-19 153.5 25.3 69 10-89 5-73 (470)
27 PRK01297 ATP-dependent RNA hel 99.6 7.2E-14 1.6E-18 151.8 27.2 75 12-91 105-186 (475)
28 TIGR03817 DECH_helic helicase/ 99.6 1.2E-13 2.7E-18 155.9 28.0 73 12-90 32-104 (742)
29 PTZ00424 helicase 45; Provisio 99.6 3.8E-13 8.1E-18 143.6 28.6 75 11-90 45-119 (401)
30 TIGR01389 recQ ATP-dependent D 99.6 4.4E-13 9.6E-18 149.5 28.8 68 11-89 8-75 (591)
31 PRK11057 ATP-dependent DNA hel 99.6 7E-13 1.5E-17 147.5 26.0 68 11-89 20-87 (607)
32 PRK13767 ATP-dependent helicas 99.6 7.1E-13 1.5E-17 152.8 26.8 72 14-89 30-106 (876)
33 PRK09401 reverse gyrase; Revie 99.5 1.7E-12 3.8E-17 151.8 27.4 72 11-91 76-147 (1176)
34 TIGR00580 mfd transcription-re 99.5 3.9E-12 8.6E-17 145.4 29.0 77 10-91 446-524 (926)
35 PRK01172 ski2-like helicase; P 99.5 4.8E-12 1E-16 143.4 24.4 70 12-90 19-88 (674)
36 PLN03137 ATP-dependent DNA hel 99.5 6.8E-12 1.5E-16 141.8 24.7 80 532-626 680-760 (1195)
37 PRK02362 ski2-like helicase; P 99.5 1.2E-11 2.5E-16 141.4 25.8 72 12-90 19-90 (737)
38 PRK00254 ski2-like helicase; P 99.4 2.3E-11 4.9E-16 138.7 24.8 73 12-90 19-91 (720)
39 KOG0345 ATP-dependent RNA heli 99.4 4.6E-11 1E-15 120.4 23.0 75 12-90 24-102 (567)
40 cd00268 DEADc DEAD-box helicas 99.4 1.6E-12 3.5E-17 124.9 12.1 75 12-91 17-93 (203)
41 PRK14701 reverse gyrase; Provi 99.4 1.9E-10 4.1E-15 137.9 31.2 72 11-91 75-146 (1638)
42 TIGR01054 rgy reverse gyrase. 99.4 1.4E-10 3E-15 136.3 28.7 86 524-624 318-408 (1171)
43 PRK10689 transcription-repair 99.4 2.5E-10 5.3E-15 133.7 29.5 77 9-90 594-672 (1147)
44 PF04851 ResIII: Type III rest 99.4 5.7E-12 1.2E-16 118.8 11.8 69 14-90 2-73 (184)
45 PF00270 DEAD: DEAD/DEAH box h 99.3 6.2E-12 1.3E-16 116.9 10.7 68 18-91 1-68 (169)
46 TIGR00963 secA preprotein tran 99.3 3.7E-09 8.1E-14 116.1 28.9 152 443-625 332-489 (745)
47 TIGR03714 secA2 accessory Sec 99.3 2.4E-09 5.2E-14 118.3 27.5 67 18-92 70-136 (762)
48 PRK12898 secA preprotein trans 99.3 5.5E-09 1.2E-13 114.1 29.7 153 442-625 399-558 (656)
49 PHA02653 RNA helicase NPH-II; 99.2 3.9E-09 8.4E-14 117.0 28.3 77 13-90 155-245 (675)
50 PRK09200 preprotein translocas 99.2 2.2E-09 4.8E-14 119.7 24.0 66 19-92 79-144 (790)
51 PRK10917 ATP-dependent DNA hel 99.2 1.7E-10 3.7E-15 130.0 15.5 91 8-111 254-346 (681)
52 PRK11664 ATP-dependent RNA hel 99.2 4E-09 8.6E-14 120.0 26.2 62 23-88 8-69 (812)
53 TIGR00643 recG ATP-dependent D 99.2 2.6E-10 5.6E-15 127.7 14.4 89 10-111 230-320 (630)
54 TIGR01970 DEAH_box_HrpB ATP-de 99.2 8.8E-09 1.9E-13 117.0 26.7 96 518-626 195-292 (819)
55 TIGR03158 cas3_cyano CRISPR-as 99.2 1.2E-08 2.7E-13 106.3 25.4 56 29-91 6-63 (357)
56 PRK09751 putative ATP-dependen 99.1 1.2E-08 2.6E-13 120.7 23.9 50 40-89 1-59 (1490)
57 KOG0350 DEAD-box ATP-dependent 99.0 9.8E-10 2.1E-14 111.7 9.8 147 18-244 161-312 (620)
58 smart00487 DEXDc DEAD-like hel 99.0 2.2E-09 4.7E-14 102.1 10.1 74 12-90 4-77 (201)
59 KOG0343 RNA Helicase [RNA proc 99.0 5.3E-08 1.1E-12 100.4 19.1 89 522-624 302-393 (758)
60 PRK13104 secA preprotein trans 98.9 3.8E-07 8.2E-12 102.1 27.3 139 442-611 370-509 (896)
61 PRK09694 helicase Cas3; Provis 98.9 1E-08 2.2E-13 116.6 12.4 71 13-90 284-354 (878)
62 COG0513 SrmB Superfamily II DN 98.9 8.8E-09 1.9E-13 112.2 10.8 76 13-92 48-124 (513)
63 COG1110 Reverse gyrase [DNA re 98.9 3E-06 6.4E-11 94.1 29.6 131 452-624 277-416 (1187)
64 COG1204 Superfamily II helicas 98.8 7.3E-09 1.6E-13 116.4 9.5 69 17-91 32-100 (766)
65 KOG0331 ATP-dependent RNA heli 98.8 9.4E-09 2E-13 108.1 9.3 73 13-90 110-188 (519)
66 KOG0342 ATP-dependent RNA heli 98.8 1E-08 2.2E-13 104.4 8.5 79 12-94 100-181 (543)
67 TIGR02621 cas3_GSU0051 CRISPR- 98.8 1.8E-08 3.9E-13 112.6 10.6 75 13-93 13-88 (844)
68 PRK12904 preprotein translocas 98.8 7.9E-07 1.7E-11 99.4 22.0 139 443-612 357-496 (830)
69 PRK05580 primosome assembly pr 98.7 1.4E-07 3E-12 106.2 14.6 72 12-89 141-212 (679)
70 cd00046 DEXDc DEAD-like helica 98.7 7.2E-08 1.6E-12 86.0 9.8 53 36-90 1-53 (144)
71 KOG0335 ATP-dependent RNA heli 98.7 3.1E-08 6.8E-13 102.5 8.1 73 13-90 93-175 (482)
72 PHA02558 uvsW UvsW helicase; P 98.7 1.5E-07 3.2E-12 102.9 12.9 69 14-90 113-181 (501)
73 COG1205 Distinct helicase fami 98.7 1.5E-07 3.2E-12 107.5 12.2 69 17-91 71-139 (851)
74 PRK13766 Hef nuclease; Provisi 98.6 1.1E-07 2.4E-12 110.1 11.3 69 13-90 13-81 (773)
75 PRK11448 hsdR type I restricti 98.6 1.8E-07 3.9E-12 109.6 13.0 75 12-89 410-485 (1123)
76 TIGR01587 cas3_core CRISPR-ass 98.6 1.6E-07 3.4E-12 98.7 10.4 51 38-90 2-52 (358)
77 COG1201 Lhr Lhr-like helicases 98.6 2.7E-07 5.8E-12 102.9 12.2 73 14-90 20-96 (814)
78 TIGR00603 rad25 DNA repair hel 98.6 2.6E-07 5.7E-12 102.3 12.0 70 10-90 250-321 (732)
79 KOG0354 DEAD-box like helicase 98.6 1.9E-07 4E-12 101.7 10.5 69 13-89 60-128 (746)
80 PRK04914 ATP-dependent helicas 98.6 1.3E-05 2.9E-10 92.2 25.9 92 524-627 484-577 (956)
81 PRK12899 secA preprotein trans 98.6 2.8E-07 6E-12 103.0 10.8 67 18-92 94-160 (970)
82 COG1061 SSL2 DNA or RNA helica 98.5 4.5E-07 9.8E-12 97.2 11.7 72 10-89 31-102 (442)
83 KOG0346 RNA helicase [RNA proc 98.5 2E-07 4.3E-12 93.8 7.7 77 13-94 38-120 (569)
84 PRK11131 ATP-dependent RNA hel 98.5 1.2E-05 2.7E-10 94.1 23.4 97 514-623 268-364 (1294)
85 COG1111 MPH1 ERCC4-like helica 98.5 6.5E-07 1.4E-11 92.3 9.9 67 17-91 16-82 (542)
86 TIGR01967 DEAH_box_HrpA ATP-de 98.4 6.2E-05 1.3E-09 88.7 25.9 98 515-625 262-359 (1283)
87 PRK13107 preprotein translocas 98.4 0.00011 2.5E-09 82.5 26.1 65 18-92 84-148 (908)
88 KOG0338 ATP-dependent RNA heli 98.4 8.3E-07 1.8E-11 91.0 8.1 76 12-91 199-276 (691)
89 KOG0330 ATP-dependent RNA heli 98.3 1.7E-06 3.8E-11 86.0 8.8 85 14-111 81-165 (476)
90 KOG0348 ATP-dependent RNA heli 98.3 8.9E-07 1.9E-11 91.3 6.6 76 11-91 154-235 (708)
91 TIGR00595 priA primosomal prot 98.3 2.3E-06 4.9E-11 93.0 10.2 47 39-89 1-47 (505)
92 PRK12906 secA preprotein trans 98.3 0.00018 3.9E-09 80.6 23.7 152 443-625 367-525 (796)
93 COG0514 RecQ Superfamily II DN 98.2 4.1E-06 8.8E-11 90.2 9.7 69 10-89 11-79 (590)
94 COG4889 Predicted helicase [Ge 98.2 1.2E-05 2.7E-10 87.4 12.9 167 6-241 152-318 (1518)
95 COG1202 Superfamily II helicas 98.1 1.1E-05 2.5E-10 84.1 8.5 71 13-89 213-283 (830)
96 KOG0344 ATP-dependent RNA heli 98.0 9.2E-06 2E-10 85.3 7.0 75 12-90 154-232 (593)
97 PF13245 AAA_19: Part of AAA d 98.0 2.3E-05 5.1E-10 61.5 7.5 59 27-87 2-62 (76)
98 COG4096 HsdR Type I site-speci 98.0 1.7E-05 3.6E-10 86.9 8.5 71 17-90 166-238 (875)
99 KOG0336 ATP-dependent RNA heli 98.0 6.7E-06 1.4E-10 82.2 5.0 74 12-89 238-316 (629)
100 COG1200 RecG RecG-like helicas 98.0 4.8E-05 1E-09 82.1 11.6 89 11-112 258-348 (677)
101 KOG0339 ATP-dependent RNA heli 97.9 1.8E-05 4E-10 81.3 7.2 57 35-92 260-321 (731)
102 KOG0334 RNA helicase [RNA proc 97.9 2.5E-05 5.3E-10 87.5 7.1 77 11-92 382-463 (997)
103 PF00176 SNF2_N: SNF2 family N 97.8 0.00012 2.6E-09 74.6 11.1 70 20-91 1-81 (299)
104 cd00079 HELICc Helicase superf 97.8 0.00028 6E-09 62.0 11.3 94 518-627 15-109 (131)
105 TIGR00348 hsdR type I site-spe 97.7 9.5E-05 2.1E-09 83.5 8.7 72 17-90 239-316 (667)
106 COG1197 Mfd Transcription-repa 97.7 0.00049 1.1E-08 78.9 14.1 88 9-109 588-677 (1139)
107 KOG1803 DNA helicase [Replicat 97.7 0.00012 2.7E-09 77.5 8.4 71 9-87 179-249 (649)
108 KOG0333 U5 snRNP-like RNA heli 97.6 0.00012 2.6E-09 75.9 6.8 75 13-92 264-347 (673)
109 COG4581 Superfamily II RNA hel 97.6 0.00013 2.9E-09 83.2 7.7 73 9-90 113-185 (1041)
110 PRK13103 secA preprotein trans 97.6 0.00033 7.2E-09 78.9 10.6 138 442-611 375-514 (913)
111 KOG1802 RNA helicase nonsense 97.6 0.00062 1.3E-08 72.6 11.7 69 14-89 408-476 (935)
112 PLN03142 Probable chromatin-re 97.5 0.00045 9.7E-09 80.3 9.9 71 17-90 170-241 (1033)
113 PF13086 AAA_11: AAA domain; P 97.4 0.00046 1E-08 67.4 7.6 67 18-89 3-75 (236)
114 PF07652 Flavi_DEAD: Flaviviru 97.2 0.0009 1.9E-08 58.7 6.1 53 33-88 2-54 (148)
115 COG1203 CRISPR-associated heli 97.1 0.0012 2.6E-08 75.5 8.2 72 18-90 197-269 (733)
116 PF02562 PhoH: PhoH-like prote 97.1 0.0011 2.4E-08 62.6 6.6 57 17-79 5-61 (205)
117 KOG4284 DEAD box protein [Tran 97.1 0.00032 6.8E-09 74.5 2.8 73 17-90 25-116 (980)
118 COG1198 PriA Primosomal protei 97.1 0.0047 1E-07 69.1 12.0 70 17-90 199-268 (730)
119 KOG0328 Predicted ATP-dependen 97.1 0.00037 8E-09 66.8 2.8 75 11-90 44-118 (400)
120 KOG0952 DNA/RNA helicase MER3/ 97.0 0.0015 3.2E-08 73.5 7.7 75 11-88 105-185 (1230)
121 PF13604 AAA_30: AAA domain; P 97.0 0.0027 5.9E-08 60.2 8.5 63 18-86 3-65 (196)
122 KOG1805 DNA replication helica 96.9 0.0071 1.5E-07 67.7 11.7 137 19-241 672-810 (1100)
123 KOG0337 ATP-dependent RNA heli 96.8 0.0011 2.4E-08 67.1 4.3 74 13-90 40-113 (529)
124 KOG0340 ATP-dependent RNA heli 96.8 0.0034 7.4E-08 62.4 7.5 70 16-90 29-98 (442)
125 KOG0326 ATP-dependent RNA heli 96.8 0.0006 1.3E-08 66.5 2.2 74 12-90 103-176 (459)
126 TIGR00376 DNA helicase, putati 96.6 0.008 1.7E-07 67.5 9.1 66 17-89 158-223 (637)
127 KOG0385 Chromatin remodeling c 96.4 0.013 2.9E-07 64.0 9.1 72 17-91 168-240 (971)
128 KOG0347 RNA helicase [RNA proc 96.3 0.0042 9.1E-08 65.2 4.7 87 13-111 200-299 (731)
129 PF00580 UvrD-helicase: UvrD/R 96.3 0.011 2.5E-07 60.5 7.8 65 18-90 2-68 (315)
130 COG0556 UvrB Helicase subunit 96.3 0.0093 2E-07 62.6 6.7 76 8-91 5-81 (663)
131 PRK15483 type III restriction- 96.2 0.018 4E-07 66.0 9.4 71 12-85 3-107 (986)
132 KOG0327 Translation initiation 96.1 0.0034 7.3E-08 63.2 2.6 74 11-89 43-116 (397)
133 KOG0352 ATP-dependent DNA heli 96.1 0.014 3E-07 59.5 6.7 70 11-90 14-84 (641)
134 CHL00122 secA preprotein trans 96.1 0.029 6.3E-07 63.4 9.9 137 442-610 350-490 (870)
135 KOG0353 ATP-dependent DNA heli 96.1 0.009 2E-07 59.6 5.3 68 12-90 90-157 (695)
136 KOG0329 ATP-dependent RNA heli 96.1 0.009 1.9E-07 56.7 4.9 80 11-95 59-138 (387)
137 KOG0351 ATP-dependent DNA heli 95.9 0.006 1.3E-07 70.2 3.8 63 10-83 258-320 (941)
138 KOG0926 DEAH-box RNA helicase 95.8 0.03 6.4E-07 61.6 8.2 90 451-555 414-504 (1172)
139 PRK10536 hypothetical protein; 95.8 0.028 6.1E-07 54.8 7.4 38 17-58 60-97 (262)
140 TIGR00631 uvrb excinuclease AB 95.7 0.042 9E-07 61.8 9.5 75 9-91 3-78 (655)
141 KOG0951 RNA helicase BRR2, DEA 95.6 0.046 1E-06 63.0 9.2 77 31-115 321-404 (1674)
142 PRK08181 transposase; Validate 95.6 0.028 6.1E-07 55.9 6.5 53 19-75 90-142 (269)
143 TIGR02640 gas_vesic_GvpN gas v 95.6 0.039 8.4E-07 55.0 7.6 40 18-59 4-43 (262)
144 PRK10917 ATP-dependent DNA hel 95.5 0.2 4.3E-06 57.2 13.8 91 520-624 460-559 (681)
145 PRK12902 secA preprotein trans 95.5 0.12 2.6E-06 58.7 11.5 138 443-610 366-505 (939)
146 PF01695 IstB_IS21: IstB-like 95.4 0.02 4.2E-07 53.4 4.4 59 13-75 23-83 (178)
147 PF12340 DUF3638: Protein of u 95.3 0.044 9.5E-07 52.4 6.6 68 17-89 24-91 (229)
148 PRK12326 preprotein translocas 95.2 0.092 2E-06 58.4 9.5 69 13-92 76-144 (764)
149 COG1484 DnaC DNA replication p 95.2 0.052 1.1E-06 53.7 7.0 54 19-76 89-142 (254)
150 PHA02244 ATPase-like protein 95.2 0.063 1.4E-06 55.2 7.7 48 11-60 95-142 (383)
151 TIGR00643 recG ATP-dependent D 95.0 0.35 7.6E-06 54.7 14.0 81 531-624 447-536 (630)
152 PRK06835 DNA replication prote 95.0 0.058 1.3E-06 55.4 6.8 54 18-75 162-219 (329)
153 smart00490 HELICc helicase sup 95.0 0.073 1.6E-06 41.8 6.1 44 576-627 25-68 (82)
154 COG4098 comFA Superfamily II D 94.9 0.13 2.7E-06 51.5 8.5 59 17-79 98-156 (441)
155 TIGR02621 cas3_GSU0051 CRISPR- 94.9 0.36 7.7E-06 55.3 13.3 88 519-620 259-359 (844)
156 PRK05298 excinuclease ABC subu 94.9 0.12 2.5E-06 58.6 9.5 76 8-91 5-81 (652)
157 KOG0922 DEAH-box RNA helicase 94.7 0.08 1.7E-06 57.5 7.1 28 23-50 54-81 (674)
158 KOG0947 Cytoplasmic exosomal R 94.5 0.084 1.8E-06 59.3 6.9 74 8-90 290-363 (1248)
159 COG0714 MoxR-like ATPases [Gen 94.4 0.079 1.7E-06 54.8 6.4 56 18-78 26-81 (329)
160 cd00009 AAA The AAA+ (ATPases 94.4 0.1 2.2E-06 46.2 6.3 52 20-75 2-55 (151)
161 KOG1123 RNA polymerase II tran 94.3 0.037 8E-07 57.7 3.5 41 13-56 299-341 (776)
162 KOG0387 Transcription-coupled 94.3 0.24 5.3E-06 54.8 9.8 85 14-112 203-289 (923)
163 TIGR01587 cas3_core CRISPR-ass 94.3 0.36 7.9E-06 50.5 11.2 70 531-611 221-295 (358)
164 PRK13531 regulatory ATPase Rav 94.3 0.053 1.2E-06 57.8 4.7 40 19-60 23-62 (498)
165 PF00271 Helicase_C: Helicase 94.2 0.071 1.5E-06 41.9 4.2 43 576-626 21-63 (78)
166 PHA02558 uvsW UvsW helicase; P 94.1 0.52 1.1E-05 51.8 12.3 81 530-624 342-423 (501)
167 PF07517 SecA_DEAD: SecA DEAD- 93.9 0.49 1.1E-05 46.8 10.4 71 12-93 74-144 (266)
168 PRK08939 primosomal protein Dn 93.9 0.18 3.9E-06 51.3 7.5 52 20-75 135-192 (306)
169 TIGR02562 cas3_yersinia CRISPR 93.8 0.26 5.6E-06 57.0 9.1 87 17-113 409-500 (1110)
170 PRK14873 primosome assembly pr 93.7 0.43 9.4E-06 53.8 10.9 48 38-89 163-210 (665)
171 PRK06526 transposase; Provisio 93.5 0.056 1.2E-06 53.4 3.1 43 29-75 92-134 (254)
172 PRK13894 conjugal transfer ATP 93.5 0.19 4E-06 51.5 6.9 50 25-77 138-188 (319)
173 PRK12377 putative replication 93.5 0.23 5E-06 48.8 7.3 54 18-75 80-137 (248)
174 KOG0342 ATP-dependent RNA heli 93.5 0.78 1.7E-05 48.2 11.1 76 533-624 331-408 (543)
175 PRK06921 hypothetical protein; 93.4 0.29 6.3E-06 48.8 8.0 38 35-75 117-154 (266)
176 PRK09183 transposase/IS protei 93.3 0.12 2.6E-06 51.3 5.0 39 32-74 99-137 (259)
177 KOG0347 RNA helicase [RNA proc 93.1 0.19 4.2E-06 53.2 6.2 84 527-624 458-541 (731)
178 PRK07952 DNA replication prote 92.9 0.35 7.5E-06 47.4 7.4 52 19-74 79-134 (244)
179 PF09848 DUF2075: Uncharacteri 92.9 0.2 4.3E-06 52.3 6.1 52 36-89 2-53 (352)
180 PF01078 Mg_chelatase: Magnesi 92.6 0.13 2.7E-06 48.6 3.8 33 19-51 6-38 (206)
181 PF05970 PIF1: PIF1-like helic 92.6 0.28 6E-06 51.5 6.7 55 18-76 3-59 (364)
182 PRK13766 Hef nuclease; Provisi 92.3 0.82 1.8E-05 53.3 10.9 93 518-625 350-452 (773)
183 KOG0948 Nuclear exosomal RNA h 92.1 0.28 6E-06 54.0 5.9 70 11-89 125-194 (1041)
184 KOG0332 ATP-dependent RNA heli 91.9 0.17 3.7E-06 51.1 3.8 75 12-90 108-183 (477)
185 KOG1002 Nucleotide excision re 91.8 0.89 1.9E-05 47.7 8.9 48 38-91 207-254 (791)
186 KOG0989 Replication factor C, 91.7 0.26 5.7E-06 48.7 4.9 37 19-55 39-77 (346)
187 PF00308 Bac_DnaA: Bacterial d 91.6 0.41 8.9E-06 46.2 6.2 62 12-76 5-73 (219)
188 PRK08116 hypothetical protein; 91.3 0.69 1.5E-05 46.2 7.6 34 37-74 116-149 (268)
189 PF02367 UPF0079: Uncharacteri 91.3 0.27 5.8E-06 42.4 4.0 52 22-80 2-53 (123)
190 PRK13407 bchI magnesium chelat 91.3 0.17 3.7E-06 52.0 3.3 39 11-50 4-44 (334)
191 PF06745 KaiC: KaiC; InterPro 91.2 0.51 1.1E-05 45.8 6.5 52 34-89 18-69 (226)
192 KOG0389 SNF2 family DNA-depend 91.2 0.2 4.2E-06 55.4 3.8 66 179-245 466-542 (941)
193 COG1474 CDC6 Cdc6-related prot 91.2 1.1 2.4E-05 46.7 9.3 69 18-87 22-93 (366)
194 PF06309 Torsin: Torsin; Inte 91.0 0.69 1.5E-05 39.9 6.2 30 23-52 36-70 (127)
195 PRK10919 ATP-dependent DNA hel 91.0 0.53 1.1E-05 53.7 7.2 65 18-90 4-70 (672)
196 TIGR00603 rad25 DNA repair hel 90.9 1.4 3E-05 49.9 10.3 79 530-627 494-573 (732)
197 TIGR02768 TraA_Ti Ti-type conj 90.8 0.54 1.2E-05 54.1 7.1 59 17-83 353-412 (744)
198 PRK13900 type IV secretion sys 90.8 0.62 1.3E-05 48.0 6.8 45 23-72 148-192 (332)
199 TIGR00631 uvrb excinuclease AB 90.7 1.4 3E-05 49.9 10.0 88 518-621 429-517 (655)
200 PRK05298 excinuclease ABC subu 90.6 1.9 4.2E-05 48.9 11.3 91 518-624 433-524 (652)
201 PRK12900 secA preprotein trans 90.4 1.8 3.8E-05 50.2 10.5 101 512-627 579-683 (1025)
202 PRK05642 DNA replication initi 90.4 0.61 1.3E-05 45.5 6.2 37 36-76 46-82 (234)
203 TIGR02030 BchI-ChlI magnesium 90.4 0.41 8.8E-06 49.4 5.1 44 12-58 1-46 (337)
204 TIGR01448 recD_rel helicase, p 90.3 0.94 2E-05 51.9 8.4 66 12-84 320-385 (720)
205 PRK11773 uvrD DNA-dependent he 90.2 0.7 1.5E-05 53.2 7.5 67 17-91 10-78 (721)
206 cd01124 KaiC KaiC is a circadi 90.2 0.68 1.5E-05 43.2 6.2 47 38-89 2-48 (187)
207 TIGR02782 TrbB_P P-type conjug 90.2 0.83 1.8E-05 46.4 7.1 50 24-76 121-171 (299)
208 PF00158 Sigma54_activat: Sigm 90.2 0.82 1.8E-05 42.1 6.5 56 20-78 7-62 (168)
209 COG4962 CpaF Flp pilus assembl 90.1 0.58 1.2E-05 47.4 5.7 57 18-82 159-215 (355)
210 smart00382 AAA ATPases associa 90.1 0.37 8E-06 42.0 4.1 40 35-78 2-41 (148)
211 COG0513 SrmB Superfamily II DN 90.1 1.3 2.9E-05 48.7 9.1 88 522-624 262-351 (513)
212 COG3973 Superfamily I DNA and 90.0 0.75 1.6E-05 49.7 6.7 65 19-90 215-283 (747)
213 TIGR00150 HI0065_YjeE ATPase, 89.9 0.35 7.6E-06 42.4 3.6 52 22-80 9-60 (133)
214 KOG0333 U5 snRNP-like RNA heli 89.9 4.4 9.6E-05 43.2 12.0 79 523-613 507-586 (673)
215 PRK13889 conjugal transfer rel 89.9 0.81 1.7E-05 53.8 7.5 61 17-84 347-407 (988)
216 TIGR00764 lon_rel lon-related 89.8 0.93 2E-05 50.8 7.7 61 19-83 21-82 (608)
217 PF02399 Herpes_ori_bp: Origin 89.8 0.58 1.3E-05 52.7 6.0 53 34-89 48-100 (824)
218 PRK12901 secA preprotein trans 89.7 1.4 3.1E-05 51.0 9.0 80 517-611 614-693 (1112)
219 TIGR01650 PD_CobS cobaltochela 89.6 0.58 1.3E-05 47.6 5.4 36 23-60 52-87 (327)
220 TIGR02785 addA_Gpos recombinat 89.6 0.83 1.8E-05 55.8 7.7 62 17-85 2-63 (1232)
221 TIGR03420 DnaA_homol_Hda DnaA 89.5 0.81 1.8E-05 44.2 6.3 31 20-50 21-53 (226)
222 KOG0331 ATP-dependent RNA heli 89.5 2.2 4.7E-05 46.1 9.7 95 516-624 325-419 (519)
223 TIGR01447 recD exodeoxyribonuc 89.5 1.5 3.3E-05 48.8 9.0 63 19-87 148-213 (586)
224 PRK05973 replicative DNA helic 89.5 0.45 9.8E-06 46.3 4.3 57 27-88 56-112 (237)
225 TIGR01075 uvrD DNA helicase II 89.4 0.78 1.7E-05 52.9 7.0 68 17-91 5-73 (715)
226 TIGR00390 hslU ATP-dependent p 89.4 0.49 1.1E-05 49.7 4.7 40 18-59 14-69 (441)
227 PRK08727 hypothetical protein; 89.3 0.82 1.8E-05 44.6 6.1 36 36-75 42-77 (233)
228 PRK10875 recD exonuclease V su 89.3 1.4 3.1E-05 49.3 8.6 72 11-88 146-220 (615)
229 cd00984 DnaB_C DnaB helicase C 89.0 0.47 1E-05 46.6 4.2 45 29-76 7-51 (242)
230 TIGR01074 rep ATP-dependent DN 88.9 1.1 2.4E-05 51.3 7.7 65 18-90 3-69 (664)
231 PRK14952 DNA polymerase III su 88.9 0.38 8.3E-06 53.3 3.8 35 20-54 17-54 (584)
232 PRK11448 hsdR type I restricti 88.8 3.3 7.2E-05 49.8 11.7 83 531-624 697-784 (1123)
233 PRK08533 flagellar accessory p 88.7 1.3 2.9E-05 43.0 7.1 53 32-89 21-73 (230)
234 PRK13833 conjugal transfer pro 88.7 1.2 2.6E-05 45.5 7.0 45 26-73 135-180 (323)
235 COG1219 ClpX ATP-dependent pro 88.6 0.53 1.2E-05 46.9 4.1 34 36-76 98-131 (408)
236 PRK11331 5-methylcytosine-spec 88.5 1.2 2.6E-05 47.3 7.0 30 23-52 182-211 (459)
237 PRK14955 DNA polymerase III su 88.4 0.53 1.1E-05 50.0 4.4 35 20-54 20-57 (397)
238 COG1204 Superfamily II helicas 88.3 3.9 8.5E-05 47.0 11.5 92 453-553 182-274 (766)
239 TIGR03877 thermo_KaiC_1 KaiC d 88.3 0.98 2.1E-05 44.2 5.9 53 32-89 18-70 (237)
240 COG1202 Superfamily II helicas 88.3 2.7 5.9E-05 45.2 9.2 140 446-613 368-509 (830)
241 PRK08903 DnaA regulatory inact 88.1 1 2.2E-05 43.7 5.9 38 35-76 42-79 (227)
242 COG4098 comFA Superfamily II D 88.0 1.5 3.2E-05 44.1 6.8 70 531-612 304-373 (441)
243 COG0606 Predicted ATPase with 87.9 0.5 1.1E-05 49.9 3.7 32 19-50 182-213 (490)
244 PRK13851 type IV secretion sys 87.9 0.97 2.1E-05 46.7 5.7 48 24-76 151-198 (344)
245 TIGR00382 clpX endopeptidase C 87.7 0.74 1.6E-05 48.7 4.9 38 19-58 80-137 (413)
246 PRK12402 replication factor C 87.6 0.67 1.5E-05 48.0 4.6 34 20-53 19-54 (337)
247 COG0610 Type I site-specific r 87.6 2 4.4E-05 50.8 8.9 72 18-91 250-327 (962)
248 COG0556 UvrB Helicase subunit 87.3 6.2 0.00013 42.3 11.1 137 444-615 379-517 (663)
249 TIGR02880 cbbX_cfxQ probable R 87.2 0.81 1.8E-05 46.1 4.7 17 36-52 59-75 (284)
250 PF07728 AAA_5: AAA domain (dy 87.1 1.1 2.4E-05 39.5 5.1 23 37-61 1-23 (139)
251 KOG0991 Replication factor C, 87.1 1 2.2E-05 42.9 4.7 33 23-55 34-68 (333)
252 PRK06067 flagellar accessory p 87.1 1.4 3E-05 43.0 6.2 53 32-89 22-74 (234)
253 PLN03025 replication factor C 87.0 0.83 1.8E-05 47.0 4.7 34 20-53 17-52 (319)
254 PRK08084 DNA replication initi 86.9 1.5 3.2E-05 42.9 6.2 38 36-77 46-83 (235)
255 COG1205 Distinct helicase fami 86.8 2.3 5.1E-05 49.5 8.7 167 439-625 214-393 (851)
256 PRK14962 DNA polymerase III su 86.7 0.68 1.5E-05 50.1 4.0 34 20-53 18-54 (472)
257 KOG0341 DEAD-box protein abstr 86.7 2.2 4.7E-05 43.5 7.1 77 523-612 412-489 (610)
258 PF07726 AAA_3: ATPase family 86.6 0.53 1.1E-05 40.8 2.5 17 37-53 1-17 (131)
259 PRK06893 DNA replication initi 86.6 1.6 3.5E-05 42.4 6.3 52 21-76 23-76 (229)
260 PF02456 Adeno_IVa2: Adenoviru 86.6 1.3 2.9E-05 44.0 5.5 40 37-79 89-129 (369)
261 PF13191 AAA_16: AAA ATPase do 86.4 0.34 7.4E-06 45.1 1.4 33 18-50 5-39 (185)
262 COG1061 SSL2 DNA or RNA helica 86.4 6.1 0.00013 42.6 11.1 76 531-622 282-358 (442)
263 PRK05201 hslU ATP-dependent pr 86.4 1 2.2E-05 47.4 4.9 33 18-50 17-65 (443)
264 cd01130 VirB11-like_ATPase Typ 86.3 1.7 3.8E-05 40.6 6.2 29 19-50 12-40 (186)
265 PRK14087 dnaA chromosomal repl 86.1 3.1 6.8E-05 44.9 8.7 59 23-85 124-188 (450)
266 KOG0745 Putative ATP-dependent 86.1 0.94 2E-05 47.0 4.4 39 36-81 227-265 (564)
267 TIGR01073 pcrA ATP-dependent D 86.0 1.9 4E-05 49.9 7.4 66 17-90 5-72 (726)
268 PHA02533 17 large terminase pr 86.0 3.6 7.9E-05 45.3 9.3 73 12-91 56-128 (534)
269 COG1875 NYN ribonuclease and A 86.0 1.7 3.7E-05 44.3 6.0 62 12-78 224-287 (436)
270 COG3587 Restriction endonuclea 85.9 0.65 1.4E-05 52.1 3.3 44 37-82 76-119 (985)
271 PRK14956 DNA polymerase III su 85.9 0.76 1.6E-05 49.3 3.8 35 20-54 22-59 (484)
272 PRK11054 helD DNA helicase IV; 85.8 2.3 5E-05 48.4 7.8 65 17-89 197-263 (684)
273 PHA02544 44 clamp loader, smal 85.7 3.2 7E-05 42.5 8.3 37 15-51 13-59 (316)
274 PRK05342 clpX ATP-dependent pr 85.4 1.2 2.6E-05 47.3 5.0 39 19-59 74-130 (412)
275 KOG0341 DEAD-box protein abstr 85.3 0.85 1.9E-05 46.3 3.6 53 36-89 208-268 (610)
276 COG2804 PulE Type II secretory 85.2 1.5 3.3E-05 46.8 5.5 34 28-62 250-284 (500)
277 PHA00729 NTP-binding motif con 85.2 1.4 3.1E-05 42.3 4.9 27 24-50 4-32 (226)
278 PRK14961 DNA polymerase III su 85.2 1.2 2.6E-05 46.7 4.9 34 20-53 20-56 (363)
279 PRK11608 pspF phage shock prot 85.2 3.4 7.3E-05 42.6 8.1 58 18-78 12-69 (326)
280 COG0593 DnaA ATPase involved i 85.1 2.8 6.1E-05 44.0 7.4 52 23-77 96-153 (408)
281 COG1643 HrpA HrpA-like helicas 85.0 1.7 3.6E-05 50.1 6.2 34 24-59 54-87 (845)
282 PRK10646 ADP-binding protein; 84.9 1.2 2.5E-05 40.1 3.9 53 22-81 15-67 (153)
283 TIGR02928 orc1/cdc6 family rep 84.9 3.5 7.5E-05 43.2 8.3 36 18-53 20-58 (365)
284 PF05673 DUF815: Protein of un 84.9 6.3 0.00014 38.3 9.1 55 18-76 32-89 (249)
285 PF12775 AAA_7: P-loop contain 84.9 1.2 2.6E-05 44.6 4.5 34 18-51 16-49 (272)
286 PF00437 T2SE: Type II/IV secr 84.8 1.6 3.4E-05 43.7 5.4 28 24-51 116-143 (270)
287 PF02534 T4SS-DNA_transf: Type 84.7 1.4 3E-05 48.1 5.3 70 36-121 45-115 (469)
288 PRK13765 ATP-dependent proteas 84.6 1.8 3.9E-05 48.5 6.1 66 18-86 33-98 (637)
289 TIGR03015 pepcterm_ATPase puta 84.6 4.4 9.6E-05 40.3 8.5 36 18-53 25-61 (269)
290 PRK14960 DNA polymerase III su 84.5 0.99 2.1E-05 50.2 3.9 35 20-54 19-56 (702)
291 PRK13826 Dtr system oriT relax 84.3 2.8 6E-05 49.8 7.7 62 17-85 382-443 (1102)
292 cd01122 GP4d_helicase GP4d_hel 84.2 1.4 2.9E-05 44.1 4.6 43 30-75 25-67 (271)
293 KOG1807 Helicases [Replication 84.2 2.8 6.1E-05 46.6 7.1 52 35-87 393-447 (1025)
294 PRK12422 chromosomal replicati 84.1 3.2 6.9E-05 44.7 7.6 37 36-76 142-178 (445)
295 PF05496 RuvB_N: Holliday junc 84.0 1.6 3.4E-05 41.9 4.5 37 18-54 26-70 (233)
296 TIGR03880 KaiC_arch_3 KaiC dom 83.9 2.5 5.5E-05 40.8 6.2 51 34-89 15-65 (224)
297 PF14532 Sigma54_activ_2: Sigm 83.8 1.7 3.7E-05 38.4 4.6 31 20-50 6-36 (138)
298 PRK00440 rfc replication facto 83.8 1.1 2.4E-05 45.9 3.9 34 20-53 21-56 (319)
299 PF01580 FtsK_SpoIIIE: FtsK/Sp 83.7 1.9 4E-05 41.1 5.1 43 34-76 37-79 (205)
300 CHL00081 chlI Mg-protoporyphyr 83.7 0.82 1.8E-05 47.2 2.8 40 10-50 12-53 (350)
301 KOG0348 ATP-dependent RNA heli 83.2 6.9 0.00015 41.9 9.1 103 517-627 409-528 (708)
302 PRK00411 cdc6 cell division co 83.1 5 0.00011 42.5 8.7 37 18-54 35-74 (394)
303 PRK04328 hypothetical protein; 83.0 2.5 5.5E-05 41.6 5.9 51 34-89 22-72 (249)
304 TIGR02655 circ_KaiC circadian 83.0 2.1 4.6E-05 46.8 5.8 50 35-89 263-312 (484)
305 COG0467 RAD55 RecA-superfamily 83.0 1.6 3.5E-05 43.4 4.5 54 31-89 19-72 (260)
306 KOG0949 Predicted helicase, DE 82.9 2.6 5.7E-05 48.2 6.4 68 14-88 510-577 (1330)
307 KOG0951 RNA helicase BRR2, DEA 82.9 2.8 6.1E-05 49.2 6.7 51 34-89 1158-1208(1674)
308 PF13481 AAA_25: AAA domain; P 82.9 3.3 7.2E-05 38.8 6.5 53 34-88 31-90 (193)
309 PF13401 AAA_22: AAA domain; P 82.5 0.8 1.7E-05 39.8 1.9 19 34-52 3-21 (131)
310 KOG0744 AAA+-type ATPase [Post 82.3 2.1 4.6E-05 42.9 4.8 52 36-89 178-232 (423)
311 PF06862 DUF1253: Protein of u 82.2 6.2 0.00013 42.0 8.6 95 519-625 285-381 (442)
312 KOG0386 Chromatin remodeling c 82.1 3.8 8.3E-05 47.0 7.3 46 17-63 395-440 (1157)
313 cd01120 RecA-like_NTPases RecA 82.1 2.9 6.2E-05 37.6 5.6 38 37-78 1-38 (165)
314 smart00763 AAA_PrkA PrkA AAA d 82.1 3.3 7.1E-05 42.8 6.3 32 19-50 58-93 (361)
315 COG2805 PilT Tfp pilus assembl 81.9 2.7 5.8E-05 41.9 5.3 50 13-63 102-152 (353)
316 TIGR00362 DnaA chromosomal rep 81.8 3.1 6.6E-05 44.4 6.4 51 23-76 119-175 (405)
317 TIGR02974 phageshock_pspF psp 81.5 3.7 8.1E-05 42.3 6.7 52 22-76 9-60 (329)
318 TIGR03878 thermo_KaiC_2 KaiC d 81.4 1.9 4E-05 42.9 4.3 38 33-74 34-71 (259)
319 PRK06645 DNA polymerase III su 81.4 2 4.3E-05 46.9 4.8 35 20-54 25-62 (507)
320 COG1111 MPH1 ERCC4-like helica 81.3 8.6 0.00019 41.0 9.1 87 513-612 347-443 (542)
321 PRK00149 dnaA chromosomal repl 81.2 4.8 0.0001 43.6 7.7 52 22-76 130-187 (450)
322 KOG4439 RNA polymerase II tran 81.2 0.35 7.7E-06 52.8 -1.0 46 197-242 427-478 (901)
323 COG1643 HrpA HrpA-like helicas 81.1 6.4 0.00014 45.5 8.9 84 452-554 196-281 (845)
324 PRK14950 DNA polymerase III su 81.1 1.3 2.9E-05 49.5 3.5 35 20-54 20-57 (585)
325 TIGR01817 nifA Nif-specific re 81.1 4.7 0.0001 44.8 7.7 52 23-77 207-258 (534)
326 PRK09694 helicase Cas3; Provis 80.9 30 0.00065 40.6 14.3 74 532-611 560-638 (878)
327 PRK05896 DNA polymerase III su 80.9 1.4 2.9E-05 48.8 3.3 35 20-54 20-57 (605)
328 cd01126 TraG_VirD4 The TraG/Tr 80.8 1.3 2.7E-05 47.0 3.0 43 37-85 1-43 (384)
329 TIGR00609 recB exodeoxyribonuc 80.7 2.9 6.3E-05 50.5 6.3 52 36-88 10-63 (1087)
330 TIGR00635 ruvB Holliday juncti 80.4 2.5 5.4E-05 43.0 5.0 33 20-52 8-47 (305)
331 COG0802 Predicted ATPase or ki 80.4 2.7 5.9E-05 37.4 4.4 55 19-80 9-63 (149)
332 PF03237 Terminase_6: Terminas 80.3 2.7 5.9E-05 43.8 5.4 45 39-85 1-45 (384)
333 COG2256 MGS1 ATPase related to 80.3 4.5 9.7E-05 41.9 6.5 65 19-90 27-99 (436)
334 TIGR02788 VirB11 P-type DNA tr 80.3 3.3 7.1E-05 42.3 5.7 26 25-50 134-159 (308)
335 COG1126 GlnQ ABC-type polar am 80.0 0.89 1.9E-05 43.0 1.3 62 2-74 2-63 (240)
336 PRK09361 radB DNA repair and r 80.0 2.5 5.3E-05 40.9 4.6 38 33-74 21-58 (225)
337 TIGR03881 KaiC_arch_4 KaiC dom 79.9 2.5 5.5E-05 41.0 4.6 49 32-85 17-65 (229)
338 KOG0922 DEAH-box RNA helicase 79.9 5.2 0.00011 44.0 7.2 49 507-555 232-281 (674)
339 TIGR02524 dot_icm_DotB Dot/Icm 79.9 3.9 8.4E-05 42.7 6.2 32 19-50 117-149 (358)
340 PRK15429 formate hydrogenlyase 79.9 4.1 9E-05 46.7 7.0 39 19-59 383-421 (686)
341 COG1222 RPT1 ATP-dependent 26S 79.8 1.4 3E-05 44.9 2.6 21 36-58 186-206 (406)
342 KOG0344 ATP-dependent RNA heli 79.7 9.1 0.0002 41.5 8.8 81 530-623 385-465 (593)
343 COG0630 VirB11 Type IV secreto 79.6 4.3 9.3E-05 41.5 6.3 50 24-78 132-181 (312)
344 PRK13342 recombination factor 79.6 4.6 0.0001 43.2 6.8 33 20-52 16-53 (413)
345 PF03796 DnaB_C: DnaB-like hel 79.5 2.7 5.9E-05 41.7 4.8 47 27-76 11-57 (259)
346 cd01131 PilT Pilus retraction 79.5 3.2 7E-05 39.3 5.1 16 36-51 2-17 (198)
347 COG0514 RecQ Superfamily II DN 79.4 25 0.00055 38.9 12.3 139 452-624 167-308 (590)
348 PF00004 AAA: ATPase family as 79.2 3.4 7.4E-05 35.7 4.8 20 38-59 1-20 (132)
349 PRK04296 thymidine kinase; Pro 78.8 3.5 7.6E-05 38.8 5.0 35 35-73 2-36 (190)
350 PRK11034 clpA ATP-dependent Cl 78.7 2.2 4.8E-05 49.0 4.3 34 19-52 461-505 (758)
351 TIGR03819 heli_sec_ATPase heli 78.5 4 8.7E-05 42.2 5.8 27 24-50 167-193 (340)
352 PRK08769 DNA polymerase III su 78.5 3.7 8E-05 42.0 5.4 40 15-54 3-45 (319)
353 PRK14958 DNA polymerase III su 78.4 2.6 5.6E-05 46.2 4.5 35 20-54 20-57 (509)
354 PTZ00112 origin recognition co 78.2 2.5 5.5E-05 48.4 4.3 37 18-54 760-800 (1164)
355 PRK00080 ruvB Holliday junctio 78.1 2.8 6.2E-05 43.2 4.6 34 20-53 29-69 (328)
356 PRK14722 flhF flagellar biosyn 78.1 3.5 7.6E-05 43.0 5.1 21 33-53 135-155 (374)
357 PRK13897 type IV secretion sys 78.0 2.8 6.1E-05 46.7 4.7 44 36-85 159-202 (606)
358 TIGR02237 recomb_radB DNA repa 78.0 4.6 9.9E-05 38.5 5.7 39 34-76 11-49 (209)
359 PF13555 AAA_29: P-loop contai 78.0 3.1 6.8E-05 31.0 3.5 26 36-63 24-49 (62)
360 PHA02624 large T antigen; Prov 77.9 3.6 7.7E-05 45.3 5.3 50 25-80 421-470 (647)
361 TIGR02639 ClpA ATP-dependent C 77.9 2.5 5.4E-05 48.8 4.4 38 20-59 458-506 (731)
362 PRK14954 DNA polymerase III su 77.8 2.9 6.2E-05 46.9 4.7 35 20-54 20-57 (620)
363 PF13177 DNA_pol3_delta2: DNA 77.6 4.1 8.9E-05 37.2 5.0 34 20-53 1-37 (162)
364 PRK05563 DNA polymerase III su 77.5 2.1 4.7E-05 47.5 3.6 36 20-55 20-58 (559)
365 TIGR01420 pilT_fam pilus retra 77.4 3.8 8.3E-05 42.5 5.3 17 34-50 121-137 (343)
366 cd01125 repA Hexameric Replica 77.4 3.9 8.4E-05 40.0 5.1 25 36-60 2-26 (239)
367 TIGR03346 chaperone_ClpB ATP-d 77.4 4 8.7E-05 48.0 6.0 41 18-60 567-618 (852)
368 TIGR02688 conserved hypothetic 77.2 3.3 7.1E-05 43.7 4.6 35 19-53 193-227 (449)
369 TIGR02902 spore_lonB ATP-depen 77.2 2.4 5.2E-05 46.8 3.9 33 20-52 69-103 (531)
370 PRK10436 hypothetical protein; 77.2 4.7 0.0001 43.5 6.0 26 34-60 217-242 (462)
371 PF01745 IPT: Isopentenyl tran 77.2 3.3 7.1E-05 39.2 4.1 33 37-76 3-35 (233)
372 PRK13764 ATPase; Provisional 77.2 5.6 0.00012 44.2 6.7 39 12-50 233-272 (602)
373 PRK09302 circadian clock prote 77.2 4.2 9E-05 44.8 5.8 50 35-89 273-322 (509)
374 PRK06871 DNA polymerase III su 76.9 16 0.00035 37.4 9.5 38 17-54 3-43 (325)
375 TIGR02525 plasmid_TraJ plasmid 76.9 5.8 0.00013 41.5 6.4 31 20-50 133-164 (372)
376 COG0210 UvrD Superfamily I DNA 76.6 5.4 0.00012 45.6 6.7 68 17-91 3-71 (655)
377 TIGR02759 TraD_Ftype type IV c 76.6 3.4 7.4E-05 45.9 4.8 38 35-76 176-213 (566)
378 PRK14957 DNA polymerase III su 76.6 3.5 7.5E-05 45.4 4.9 35 20-54 20-57 (546)
379 PRK14088 dnaA chromosomal repl 76.6 5.5 0.00012 42.9 6.3 38 36-76 131-169 (440)
380 PRK05703 flhF flagellar biosyn 76.5 3.9 8.5E-05 43.7 5.1 40 35-76 221-260 (424)
381 COG1223 Predicted ATPase (AAA+ 76.5 5 0.00011 39.0 5.2 15 36-50 152-166 (368)
382 COG1419 FlhF Flagellar GTP-bin 76.5 11 0.00024 39.4 8.1 45 35-83 203-252 (407)
383 PRK14949 DNA polymerase III su 76.5 3.2 6.9E-05 48.0 4.6 35 20-54 20-57 (944)
384 TIGR01241 FtsH_fam ATP-depende 76.5 3.9 8.4E-05 44.9 5.3 33 36-75 89-121 (495)
385 COG4650 RtcR Sigma54-dependent 76.4 3.2 7E-05 40.8 4.0 33 18-50 190-223 (531)
386 cd01129 PulE-GspE PulE/GspE Th 76.4 7 0.00015 38.9 6.6 24 28-51 72-96 (264)
387 TIGR03499 FlhF flagellar biosy 76.3 4 8.6E-05 41.1 4.9 38 36-75 195-232 (282)
388 PRK14969 DNA polymerase III su 76.3 3.4 7.3E-05 45.6 4.7 35 20-54 20-57 (527)
389 PRK12900 secA preprotein trans 76.3 3.4 7.3E-05 48.0 4.7 65 5-80 128-192 (1025)
390 CHL00181 cbbX CbbX; Provisiona 76.2 3.6 7.9E-05 41.5 4.6 19 36-54 60-78 (287)
391 TIGR00665 DnaB replicative DNA 76.1 3.1 6.6E-05 44.9 4.3 47 27-76 187-233 (434)
392 PRK14964 DNA polymerase III su 75.8 3.5 7.5E-05 44.7 4.5 35 20-54 17-54 (491)
393 TIGR02442 Cob-chelat-sub cobal 75.8 3 6.5E-05 47.2 4.3 39 12-51 1-41 (633)
394 PRK12723 flagellar biosynthesi 75.7 11 0.00023 39.8 7.9 18 36-53 175-192 (388)
395 PF00448 SRP54: SRP54-type pro 75.5 3 6.5E-05 39.4 3.5 36 37-76 3-39 (196)
396 PRK14086 dnaA chromosomal repl 75.5 7.2 0.00016 43.4 6.9 38 36-76 315-353 (617)
397 PF12846 AAA_10: AAA-like doma 75.4 3.8 8.2E-05 41.4 4.6 37 36-76 2-38 (304)
398 TIGR03600 phage_DnaB phage rep 75.4 3.7 8.1E-05 44.0 4.7 45 27-74 186-230 (421)
399 COG3598 RepA RecA-family ATPas 75.2 6.5 0.00014 39.5 5.7 48 28-76 82-136 (402)
400 COG1221 PspF Transcriptional r 75.2 5.4 0.00012 41.9 5.5 47 33-82 99-146 (403)
401 PRK03992 proteasome-activating 75.1 4 8.6E-05 43.2 4.7 22 36-59 166-187 (389)
402 TIGR02760 TraI_TIGR conjugativ 75.0 7.6 0.00017 49.7 7.8 63 17-86 430-493 (1960)
403 PRK11388 DNA-binding transcrip 74.9 8.6 0.00019 43.8 7.7 53 23-78 336-388 (638)
404 PRK14963 DNA polymerase III su 74.9 3.8 8.2E-05 44.9 4.6 35 20-54 18-55 (504)
405 PRK05022 anaerobic nitric oxid 74.8 9.2 0.0002 42.1 7.7 53 23-78 198-250 (509)
406 PRK10820 DNA-binding transcrip 74.6 6.4 0.00014 43.5 6.3 54 22-78 214-267 (520)
407 CHL00176 ftsH cell division pr 74.6 5 0.00011 45.2 5.6 40 18-59 188-238 (638)
408 COG1074 RecB ATP-dependent exo 74.6 4.7 0.0001 49.0 5.7 54 31-85 12-67 (1139)
409 TIGR02655 circ_KaiC circadian 74.6 4.3 9.4E-05 44.3 5.0 53 33-89 19-71 (484)
410 KOG0388 SNF2 family DNA-depend 74.6 19 0.00041 40.1 9.4 69 18-89 569-638 (1185)
411 PRK10865 protein disaggregatio 74.6 5 0.00011 47.1 5.7 34 19-52 571-615 (857)
412 cd01394 radB RadB. The archaea 74.5 4.5 9.8E-05 38.8 4.6 38 33-74 17-54 (218)
413 PRK14965 DNA polymerase III su 74.4 3 6.4E-05 46.6 3.7 35 20-54 20-57 (576)
414 PF06068 TIP49: TIP49 C-termin 74.3 5.4 0.00012 41.1 5.2 32 19-50 30-65 (398)
415 PRK09111 DNA polymerase III su 74.1 4.2 9.1E-05 45.5 4.7 35 20-54 28-65 (598)
416 PRK09112 DNA polymerase III su 74.0 4.6 9.9E-05 42.0 4.8 33 20-52 27-62 (351)
417 PF05729 NACHT: NACHT domain 73.8 5.5 0.00012 35.9 4.8 17 37-53 2-18 (166)
418 PRK13822 conjugal transfer cou 73.7 4.5 9.7E-05 45.6 4.9 70 35-121 224-293 (641)
419 KOG0729 26S proteasome regulat 73.7 3.4 7.4E-05 40.1 3.4 34 19-52 183-228 (435)
420 PTZ00361 26 proteosome regulat 73.7 5.2 0.00011 42.8 5.2 22 36-59 218-239 (438)
421 TIGR03743 SXT_TraD conjugative 73.5 15 0.00033 41.5 9.0 74 35-120 176-252 (634)
422 KOG0738 AAA+-type ATPase [Post 73.4 2.6 5.6E-05 43.4 2.6 30 231-262 398-427 (491)
423 CHL00095 clpC Clp protease ATP 73.3 3.6 7.9E-05 48.1 4.2 40 19-60 512-562 (821)
424 KOG0335 ATP-dependent RNA heli 73.2 30 0.00065 37.1 10.4 78 534-625 339-416 (482)
425 PF02702 KdpD: Osmosensitive K 73.2 5.6 0.00012 37.3 4.5 50 37-90 7-59 (211)
426 KOG0731 AAA+-type ATPase conta 73.2 2.4 5.3E-05 47.8 2.6 16 36-51 345-360 (774)
427 PRK12903 secA preprotein trans 73.2 9.4 0.0002 43.9 7.1 65 18-92 80-144 (925)
428 cd01127 TrwB Bacterial conjuga 73.1 4.4 9.5E-05 43.3 4.5 40 36-79 43-82 (410)
429 PRK13850 type IV secretion sys 73.1 1.4 3E-05 49.8 0.7 43 35-83 139-181 (670)
430 COG0542 clpA ATP-binding subun 73.0 3.9 8.5E-05 46.5 4.2 41 19-61 494-545 (786)
431 PRK11823 DNA repair protein Ra 73.0 7.2 0.00016 42.1 6.1 49 32-85 77-125 (446)
432 TIGR02538 type_IV_pilB type IV 72.8 6.7 0.00015 43.7 6.0 31 29-60 309-340 (564)
433 TIGR02784 addA_alphas double-s 72.8 7.7 0.00017 47.4 7.0 54 31-85 6-59 (1141)
434 KOG0327 Translation initiation 72.7 14 0.00029 38.1 7.4 86 522-624 254-341 (397)
435 TIGR02881 spore_V_K stage V sp 72.5 2.9 6.2E-05 41.6 2.8 16 36-51 43-58 (261)
436 KOG0332 ATP-dependent RNA heli 72.5 26 0.00056 36.1 9.2 84 532-631 330-415 (477)
437 PRK12323 DNA polymerase III su 72.4 4.8 0.0001 44.9 4.6 35 20-54 20-57 (700)
438 KOG0328 Predicted ATP-dependen 72.3 17 0.00037 35.8 7.7 76 533-624 267-344 (400)
439 KOG0743 AAA+-type ATPase [Post 72.2 4.9 0.00011 42.3 4.3 36 21-58 210-256 (457)
440 PRK05707 DNA polymerase III su 72.1 19 0.00041 37.1 8.7 36 17-53 4-40 (328)
441 COG1124 DppF ABC-type dipeptid 72.0 2.3 4.9E-05 41.0 1.8 66 1-74 2-68 (252)
442 PRK05986 cob(I)alamin adenolsy 72.0 13 0.00027 34.9 6.6 37 33-73 20-56 (191)
443 PF00931 NB-ARC: NB-ARC domain 71.9 9.9 0.00022 38.1 6.6 64 22-86 2-69 (287)
444 PRK14712 conjugal transfer nic 71.6 9.9 0.00021 47.1 7.4 65 17-85 836-902 (1623)
445 PRK08699 DNA polymerase III su 71.3 21 0.00045 36.7 8.8 37 18-54 3-40 (325)
446 KOG0734 AAA+-type ATPase conta 71.3 5.5 0.00012 42.7 4.5 51 19-76 310-371 (752)
447 PTZ00454 26S protease regulato 71.2 4.8 0.0001 42.6 4.2 22 36-59 180-201 (398)
448 PRK07994 DNA polymerase III su 71.0 5.4 0.00012 44.8 4.7 35 20-54 20-57 (647)
449 PRK07003 DNA polymerase III su 70.7 5.5 0.00012 45.2 4.6 35 20-54 20-57 (830)
450 cd01123 Rad51_DMC1_radA Rad51_ 70.6 5.1 0.00011 38.9 4.1 23 32-54 16-38 (235)
451 KOG0920 ATP-dependent RNA heli 70.6 2.8 6.1E-05 48.4 2.4 104 454-560 322-441 (924)
452 PRK05748 replicative DNA helic 70.5 5 0.00011 43.4 4.3 41 31-74 199-239 (448)
453 PRK06620 hypothetical protein; 70.4 3.9 8.5E-05 39.2 3.1 28 23-50 25-59 (214)
454 PRK08760 replicative DNA helic 70.3 5.4 0.00012 43.4 4.5 42 30-74 224-265 (476)
455 PRK14269 phosphate ABC transpo 70.2 1.1 2.4E-05 44.1 -0.8 49 1-58 1-49 (246)
456 PRK13876 conjugal transfer cou 70.2 1.6 3.5E-05 49.2 0.4 41 35-81 144-184 (663)
457 PRK07133 DNA polymerase III su 70.2 5.8 0.00012 45.0 4.7 35 20-54 22-59 (725)
458 PRK05595 replicative DNA helic 70.2 5.6 0.00012 42.9 4.6 46 27-75 193-238 (444)
459 TIGR03744 traC_PFL_4706 conjug 70.1 18 0.00039 42.9 9.0 73 35-121 475-547 (893)
460 KOG2373 Predicted mitochondria 70.0 2.2 4.7E-05 43.1 1.2 26 25-50 263-288 (514)
461 KOG0390 DNA repair protein, SN 69.9 8.3 0.00018 43.8 5.8 72 17-91 239-321 (776)
462 COG2519 GCD14 tRNA(1-methylade 69.9 12 0.00026 36.4 6.1 23 66-89 188-210 (256)
463 TIGR02397 dnaX_nterm DNA polym 69.8 6.1 0.00013 41.2 4.6 35 19-53 17-54 (355)
464 PRK08691 DNA polymerase III su 69.8 6 0.00013 44.5 4.7 35 20-54 20-57 (709)
465 PRK07940 DNA polymerase III su 69.7 6.6 0.00014 41.5 4.8 35 19-53 8-54 (394)
466 COG1224 TIP49 DNA helicase TIP 69.6 7 0.00015 39.9 4.6 30 22-51 48-81 (450)
467 TIGR03689 pup_AAA proteasome A 69.6 11 0.00024 41.1 6.6 22 36-59 217-238 (512)
468 PRK07471 DNA polymerase III su 69.3 7.1 0.00015 40.8 4.9 34 20-53 23-59 (365)
469 PRK09302 circadian clock prote 69.3 6.6 0.00014 43.3 5.0 54 32-89 28-81 (509)
470 TIGR01242 26Sp45 26S proteasom 69.1 6.3 0.00014 41.3 4.6 21 36-58 157-177 (364)
471 cd03115 SRP The signal recogni 68.9 12 0.00026 34.3 5.9 34 37-74 2-35 (173)
472 PRK14948 DNA polymerase III su 68.9 6.1 0.00013 44.5 4.6 36 19-54 19-57 (620)
473 TIGR03345 VI_ClpV1 type VI sec 68.8 5.4 0.00012 46.7 4.3 41 19-61 569-620 (852)
474 PRK14951 DNA polymerase III su 68.7 6.4 0.00014 44.0 4.7 35 20-54 20-57 (618)
475 PRK13880 conjugal transfer cou 68.7 1.6 3.5E-05 49.2 0.0 39 36-80 176-214 (636)
476 PRK07764 DNA polymerase III su 68.4 6.2 0.00014 45.8 4.6 36 20-55 19-57 (824)
477 PRK14974 cell division protein 68.4 9.1 0.0002 39.5 5.4 36 36-75 141-176 (336)
478 TIGR01547 phage_term_2 phage t 68.3 10 0.00022 40.3 6.0 53 37-90 3-56 (396)
479 PRK06305 DNA polymerase III su 68.2 7.2 0.00016 42.1 4.8 35 20-54 21-58 (451)
480 cd01121 Sms Sms (bacterial rad 68.2 12 0.00025 39.4 6.2 48 32-84 79-126 (372)
481 CHL00195 ycf46 Ycf46; Provisio 67.6 8.7 0.00019 41.8 5.3 22 36-59 260-281 (489)
482 COG0470 HolB ATPase involved i 67.6 7.7 0.00017 39.7 4.8 37 19-55 5-44 (325)
483 cd03296 ABC_CysA_sulfate_impor 67.6 1.5 3.3E-05 42.9 -0.5 62 1-73 1-62 (239)
484 KOG0336 ATP-dependent RNA heli 67.6 21 0.00045 37.1 7.5 69 532-612 465-533 (629)
485 KOG0923 mRNA splicing factor A 67.5 5.3 0.00012 43.8 3.5 24 27-50 272-295 (902)
486 PF07724 AAA_2: AAA domain (Cd 67.4 4.9 0.00011 37.1 2.9 15 36-50 4-18 (171)
487 TIGR00368 Mg chelatase-related 67.4 7.1 0.00015 42.6 4.6 34 18-51 194-227 (499)
488 COG2874 FlaH Predicted ATPases 67.3 9.4 0.0002 36.2 4.7 35 36-74 29-63 (235)
489 KOG0924 mRNA splicing factor A 67.3 34 0.00073 38.1 9.4 85 451-555 500-586 (1042)
490 PRK14953 DNA polymerase III su 67.1 7.4 0.00016 42.4 4.7 35 20-54 20-57 (486)
491 PRK14970 DNA polymerase III su 67.0 7.6 0.00016 40.8 4.7 34 20-53 21-57 (367)
492 PRK12727 flagellar biosynthesi 67.0 8.4 0.00018 42.0 4.9 20 33-52 348-367 (559)
493 PHA00547 hypothetical protein 66.9 13 0.00027 36.3 5.5 34 27-60 67-100 (337)
494 TIGR02533 type_II_gspE general 66.6 5.5 0.00012 43.4 3.6 24 28-51 234-258 (486)
495 PF10236 DAP3: Mitochondrial r 66.4 18 0.00039 36.9 7.1 54 18-76 4-59 (309)
496 cd03213 ABCG_EPDR ABCG transpo 66.4 2.7 5.9E-05 39.6 1.1 68 2-73 3-71 (194)
497 PF12774 AAA_6: Hydrolytic ATP 66.4 23 0.00049 34.4 7.4 51 19-76 16-66 (231)
498 cd01393 recA_like RecA is a b 66.3 11 0.00023 36.4 5.3 27 32-58 16-42 (226)
499 PRK13539 cytochrome c biogenes 66.2 1.6 3.4E-05 41.7 -0.6 62 1-73 1-62 (207)
500 PF13476 AAA_23: AAA domain; P 66.0 5.1 0.00011 37.5 2.9 26 36-63 20-45 (202)
No 1
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=6.1e-110 Score=827.49 Aligned_cols=626 Identities=63% Similarity=1.081 Sum_probs=596.4
Q ss_pred CeEEEcCeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhH
Q 006790 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (631)
Q Consensus 1 ~~~~i~~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~ 80 (631)
|+|.|+|+.|+|||...||+|.++|..+.++|+.++|.++|.|+|||||.+.|.-.++|....|+...|+|||+||...+
T Consensus 1 Mk~~id~l~v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEi 80 (755)
T KOG1131|consen 1 MKFYIDDLLVYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEI 80 (755)
T ss_pred CeeeecCeeEecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHH
Confidence 99999999999999999999999999999999999999999999999999999999999999885444999999999999
Q ss_pred HHHHHHHHhhhhhcccCCCCccceeEEEeCCCCccccChhhhcccCcchHHHHHHHhhhHHHHhhhhcCCCCCCCccccc
Q 006790 81 EKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFEN 160 (631)
Q Consensus 81 ~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~g~~~~~~c~~~~~ 160 (631)
+..++||+++..|..+++|.+.++..+.|.||.|+|+|+.+....++..++..|+.+..+|+++....|++...|.||++
T Consensus 81 eK~l~El~~l~~y~~k~~g~~~~flglglssRKNlCi~~~v~~~r~g~~VD~~Cr~ltas~vr~~~~ed~~~~~C~f~en 160 (755)
T KOG1131|consen 81 EKALEELKRLMDYREKHLGYPEPFLGLGLSSRKNLCIHPEVLKERNGNVVDAACRKLTASYVRAKLAEDPNVELCDFFEN 160 (755)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCceeeeeeccccccccCHHHHHHhcCCchhHHHHHHhHHHHHHHHhcCCCcchhhHHhh
Confidence 99999999999999999888899999999999999999999888888899999999999999998888887788999999
Q ss_pred hHHhhhcCCCCCCCCChHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCCcEEEEeCCcchH
Q 006790 161 YEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNID 240 (631)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAHnl~ 240 (631)
+.. .+..+|.++|+.+++++.|...+.||||.+|.....|+|||-+|+||+||.+.+.+...+.+.++||||||||++
T Consensus 161 ~~~--~~~~lp~gvy~~~dL~~~g~~k~~CPYflaR~~I~~~nvivYsYhYllDPkIa~~VSkels~~svVvFDEAHNID 238 (755)
T KOG1131|consen 161 LED--KESLLPVGVYTLEDLKEYGEKKGWCPYFLARRMIPFANVIVYSYHYLLDPKIAELVSKELSKESVVVFDEAHNID 238 (755)
T ss_pred hhc--ccccCCcccccHHHHHHhhhcCCcChHHHHHHhhhcccEEEEehhhhcChHHHHHHHHhhCcCcEEEeccccccc
Confidence 876 234688999999999999999999999999999999999999999999999988777888899999999999999
Q ss_pred HHHHhhccceecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhccC
Q 006790 241 NVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVP 320 (631)
Q Consensus 241 ~~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 320 (631)
.+|.+.+|..++...++++.+.+..+.+.+.+++..+.++|+.++++++++|+......+.+.+++||.+|++++.+.+|
T Consensus 239 nvCIeslSv~i~r~~l~ra~~~l~~l~~~v~r~k~~d~~kl~~eY~klvegL~~~~~~~~~d~~lanPvLP~dvl~EavP 318 (755)
T KOG1131|consen 239 NVCIESLSVDITRRTLERASRNLNSLEQLVNRVKETDSQKLQDEYEKLVEGLKDASAERDEDQFLANPVLPDDVLKEAVP 318 (755)
T ss_pred chhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhhhcchhHHHHHHHHHHHHhhccccccCccchhcCCCCchhhhhhhCC
Confidence 99999999999999999999999999888888888888999999999999998876666667899999999999999999
Q ss_pred cchhchHHHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhhcCCCccchhHHH
Q 006790 321 GNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTI 400 (631)
Q Consensus 321 ~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~l~~~ 400 (631)
|+|+++++|+.++++++++++.+++..++..++|..|++.+.+...++.++++||.+||++++.+|+....++|.+++.+
T Consensus 319 GniR~aeHFv~fLkR~~ey~ktrl~~~hv~~Esp~sFl~~i~~~~~IerKplrFCaeRL~~L~~tLeitd~~df~~l~~v 398 (755)
T KOG1131|consen 319 GNIRRAEHFVSFLKRLLEYLKTRLKVHHVIQESPASFLKSIKSLTFIERKPLRFCAERLSSLVRTLEITDVEDFGALKTV 398 (755)
T ss_pred cchhhHHHHHHHHHHHHHHHHHhhhheeeeccCcHHHHHHHHHhhhhhccchHHHHHHHHHHHHHhccCchhhhhHHHHH
Confidence 99999999999999999999999999899999999999999999999999999999999999999999988999999999
Q ss_pred HHHHHHhcccCCceEEEEecCCCCCCCCCCCeEEEEecCcccccHHHhhccCEEEEecCCCCCccchhhhcCCCCccccc
Q 006790 401 CDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRS 480 (631)
Q Consensus 401 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~l~~l~~~~~svIltSaTL~p~~~f~~~lG~~~~~~~~ 480 (631)
.+|.++..+|.++|.+++||.+.+.++..+++|+++|+|.|.+++++|++++|||.|||||+|.+.+-++|.+.+....+
T Consensus 399 ~~faTlVstY~kGF~iIiEPfd~~~~tv~npil~~sClDaSiAikPVf~RFqsViITSGTlspldmyPk~lnf~pv~~~s 478 (755)
T KOG1131|consen 399 ADFATLVSTYSKGFSIIIEPFDDRNPTVPNPILRFSCLDASIAIKPVFERFQSVIITSGTLSPLDMYPKILNFGPVVGAS 478 (755)
T ss_pred HHHHHHHHHHhcCcEEEEcccccCCCCCCCCeeEEeecccchhhhHHHHhhheEEEecCcccccccCchhhccCcccchh
Confidence 99999999999999999999998888888999999999999999999999999999999999999999999999988888
Q ss_pred cceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHH
Q 006790 481 FKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKE 560 (631)
Q Consensus 481 ~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~ 560 (631)
+.....++++.|+++++|.++..+++.|+-|+++....++|+.+.+..+.+|||+.+|||||-+|+.+...|...|++++
T Consensus 479 ~~mtLaR~c~~PmiitrG~Dqv~iss~fe~r~d~~VvrnyG~llve~sk~vpdG~v~ff~sylYmesiv~~w~~~gil~e 558 (755)
T KOG1131|consen 479 FTMTLARNCLLPLIITRGNDQVAISSKFEARGDPSVVRNYGNLLVEMSKIVPDGIVCFFPSYLYMESIVSRWYEQGILDE 558 (755)
T ss_pred hheecccccccceeeecCCcchhhhhhhhhccChHHHhhcCcceeeecccCCCceEEEEehHHHHHHHHHHHHHHhHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEEEEEcccCCCC
Q 006790 561 IMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYT 628 (631)
Q Consensus 561 l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPfp~p 628 (631)
++++|.+|+|.++..+++..+++|+++|+.|+|||||.|+||+.+|||||...+.|+||+.|+||...
T Consensus 559 i~k~KL~fIetpD~~ETs~al~ny~~aC~~gRGavl~sVargkVsEgidF~hhyGR~ViM~gIP~qyt 626 (755)
T KOG1131|consen 559 IMKYKLLFIETPDFRETSLALANYRYACDNGRGAVLLSVARGKVSEGIDFDHHYGREVIMEGIPYQYT 626 (755)
T ss_pred HhhCceEEEeCCchhhhHHHHHHHHHHhcCCCCceEEEEecCccccCcccccccCceEEEEeccchhh
Confidence 99999999999999899999999999999999999999999999999999999999999999999754
No 2
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=5.1e-96 Score=823.49 Aligned_cols=616 Identities=45% Similarity=0.802 Sum_probs=450.9
Q ss_pred CeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHH
Q 006790 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 7 ~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
+.+|+|||+++||+|+++|+.|.+++++++++++|||||||||+|.|+|+|+|+...+... ||||+||||+|+.|+++|
T Consensus 1 ~~~v~FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~-kIiy~sRThsQl~q~i~E 79 (705)
T TIGR00604 1 ELLVYFPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVR-KIIYASRTHSQLEQATEE 79 (705)
T ss_pred CCceecCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccc-cEEEEcccchHHHHHHHH
Confidence 4689999998899999999999999999999999999999999999999999998765446 999999999999999999
Q ss_pred HHhhhhhcccCCCCccceeEEEeCCCCccccChhhhcccCcchHHHHHHHhhhHHHHhhhhcCCCCCCCccccchHHh-h
Q 006790 87 LKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKA-A 165 (631)
Q Consensus 87 l~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~g~~~~~~c~~~~~~~~~-~ 165 (631)
|+++..+.....+...++++++|+||+++|+++.+.........++.|..+...|..+....+.+...|+||++.... .
T Consensus 80 lk~~~~~~~~~~~~~~~i~~v~L~SR~~lCin~~v~~~~~~~~~~~~C~~l~~~~~~~~~~~~~~~~~C~yy~~~~~~~~ 159 (705)
T TIGR00604 80 LRKLMSYRTPRIGEESPVSGLSLASRKNLCLHPEVSKERQGKVVNGKCIKLTVSKIKEQRTEKPNVESCEFYENFDELRE 159 (705)
T ss_pred HHhhhhccccccccCCceeEEEechHhhcccChHHHhhcchhhHHHHHHHHHhhhhcccccccCCCCCCCCCchhhhhhh
Confidence 999753211111123468999999999999999877655555677889987755544322222223579999886542 1
Q ss_pred hcCCCCCCCCChHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCCcEEEEeCCcchHHHHHh
Q 006790 166 SAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIE 245 (631)
Q Consensus 166 ~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAHnl~~~a~~ 245 (631)
....+..+++|+|++.+.|+.++.||||.+|+.+.+|||||+|||||||+.+|+.+...+ ++.+|||||||||+++|++
T Consensus 160 ~~~~~~~~~~diEdL~~~g~~~~~CPY~~sr~~~~~advIi~pYnyl~dp~~r~~~~~~l-~~~ivI~DEAHNL~d~~~~ 238 (705)
T TIGR00604 160 VEDLLLSEIMDIEDLVEYGELLGLCPYFATRKMLPFANIVLLPYQYLLDPKIRSAVSIEL-KDSIVIFDEAHNLDNVCIS 238 (705)
T ss_pred hhhhcccCCCCHHHHHHhcccCCCCccHHHHHhhhcCCEEEechHHhcCHHHHHHhhccc-ccCEEEEECccchHHHHHH
Confidence 112345679999999999999999999999999999999999999999999998765555 7899999999999999999
Q ss_pred hccceecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhccCcchhc
Q 006790 246 ALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRR 325 (631)
Q Consensus 246 ~~s~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 325 (631)
++|.+|+..+|..+.+++.++..........+...+.+.+.+++..+.+.........+..++..+..+....+++.++.
T Consensus 239 ~~S~~ls~~~l~~a~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 318 (705)
T TIGR00604 239 SLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKLLDELQKLVEGLKQEDLLTDEDIFLANPVLPKEVLPEAVPGNIRI 318 (705)
T ss_pred HHhcccCHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcccchhhhcCcCchhhccHHHhcccCCc
Confidence 99999999999999999887644332111112222334444555554331100000001111111111111122222222
Q ss_pred hHHHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhhcCCCccch---hHHHHH
Q 006790 326 AEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLH---IQTICD 402 (631)
Q Consensus 326 ~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~---l~~~~~ 402 (631)
...+...+.+..+......+......+....+...+.+...++. .++++.+++..++..+.......+.. +..+..
T Consensus 319 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 397 (705)
T TIGR00604 319 AEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLEHLKEKTFIDR-PLRFCSERLSNLLRELEITHPEDFSALVLLFTFAT 397 (705)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhcccch-hhhHHHHHHHHHHhhhccccccccccchHHHHHHH
Confidence 33333333333221110000000000111223232333222222 45556667766665554333333332 223333
Q ss_pred HHHHh-cccCCceEEEEecCCCCCCCCCCCeEEEEecCcccccHHHhhccCEEEEecCCCCCccchhhhcCCCCcccccc
Q 006790 403 FATLV-GTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRSF 481 (631)
Q Consensus 403 f~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~l~~l~~~~~svIltSaTL~p~~~f~~~lG~~~~~~~~~ 481 (631)
|.... ..+..++..+. ..+ .....|+++|+||+..|+.++++++|+|||||||+|+++|.++||+++....+.
T Consensus 398 ~~~~~~~~~~~~~~~~~-~~~-----~~~~~l~~~~l~ps~~~~~i~~~~~svil~SgTL~p~~~~~~~Lg~~~~~~~~~ 471 (705)
T TIGR00604 398 LVLTYTNGFLEGIEPYE-NKT-----VPNPILKFMCLDPSIALKPLFERVRSVILASGTLSPLDAFPRNLGFNPVSQDSP 471 (705)
T ss_pred HHHHhccccccceeEee-cCC-----CCCceEEEEecChHHHHHHHHHhcCEEEEecccCCcHHHHHHHhCCCCccceec
Confidence 43332 12223333222 111 135689999999999999999999999999999999999999999976555566
Q ss_pred ceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHH
Q 006790 482 KMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEI 561 (631)
Q Consensus 482 ~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l 561 (631)
++++++++++++++++++++..++++|..|+++++.+++++.|.++++.+|||+|||||||++|+++++.|+..++++++
T Consensus 472 ~~~~~~~~~~~~i~~~~~~~~~l~~~~~~r~~~~~~~~l~~~i~~~~~~~pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i 551 (705)
T TIGR00604 472 THILKRENLLTLIVTRGSDQVPLSSTFEIRNDPSLVRNLGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENI 551 (705)
T ss_pred CcccchHHeEEEEEeeCCCCCeeeeehhccCCHHHHHHHHHHHHHHhhcCCCcEEEEccCHHHHHHHHHHHHhcCHHHHH
Confidence 78888889888999999999999999999999999999999999999999999999999999999999999999988888
Q ss_pred hcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEEEEEcccCCCCCCC
Q 006790 562 MQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSK 631 (631)
Q Consensus 562 ~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPfp~p~dP 631 (631)
...+.||+|+++..++..++++|++.++.++|+||||||||||||||||+|+.||+|||+|||||+|.||
T Consensus 552 ~~~k~i~~E~~~~~~~~~~l~~f~~~~~~~~gavL~av~gGk~sEGIDf~~~~~r~ViivGlPf~~~~~~ 621 (705)
T TIGR00604 552 EKKKLIFVETKDAQETSDALERYKQAVSEGRGAVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESR 621 (705)
T ss_pred hcCCCEEEeCCCcchHHHHHHHHHHHHhcCCceEEEEecCCcccCccccCCCCCcEEEEEccCCCCCCCH
Confidence 7778999999987678899999999888888999999999999999999999999999999999999987
No 3
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=2.8e-84 Score=684.20 Aligned_cols=588 Identities=26% Similarity=0.446 Sum_probs=405.8
Q ss_pred EEEc-CeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC-----------------
Q 006790 3 FKLE-DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----------------- 64 (631)
Q Consensus 3 ~~i~-~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~----------------- 64 (631)
+.|+ |++|+|||+| ||.|..||..|.++|+.+.++++|+||||||||+.||.+++|.+...
T Consensus 8 ~~i~~Gv~V~fP~qp-Y~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~p 86 (945)
T KOG1132|consen 8 IVINIGVPVEFPFQP-YPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFIP 86 (945)
T ss_pred eEeccCceeeccCCc-chHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccccC
Confidence 5677 9999999997 99999999999999999999999999999999999999999977531
Q ss_pred ---------------------CCCceEEEEecchhhHHHHHHHHHhhhhhcccCCCCccceeEEEeCCCCccccChhhhc
Q 006790 65 ---------------------ENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLA 123 (631)
Q Consensus 65 ---------------------~~~~~vi~~t~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~ 123 (631)
.+.++|+|+||||+|+.|+++|+++. .| .+++++|++|+++|+|+.+..
T Consensus 87 ~~~s~~~g~~s~e~~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT-~Y---------~vkmtVLgSReq~Cinpev~k 156 (945)
T KOG1132|consen 87 TQPSDSGGEKSEEAGEPIACYTGIPKIYYASRTHSQLTQVVRELRRT-GY---------RVKMTVLGSREQLCINPEVKK 156 (945)
T ss_pred CCCccCCCCchhhhcCccccccCCceEEEecchHHHHHHHHHHHhhc-CC---------CCceEEeecchhhccCHHHhh
Confidence 12248999999999999999999995 23 367899999999999998887
Q ss_pred ccCcchHHHHHHHhhhHHHHhhhhcCCCCCCCccccchHHhhhcCCCCCCCCChHHHHHhcccCCccchhhHHhhccCce
Q 006790 124 AENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFAN 203 (631)
Q Consensus 124 ~~~~~~~~~~c~~l~~~w~~~~~~g~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~ad 203 (631)
.......+..|++++. ...|.|+...........+..+++|+|++++.|+....||||.+|++.++||
T Consensus 157 ~~~~~~~~~~C~k~~~------------~~~C~f~~~~~~~sl~~~l~~~i~DIEDLVk~Gk~~~~CPYfaSR~l~edAd 224 (945)
T KOG1132|consen 157 LEGNALQNHVCKKLVK------------SRSCHFYKIVEEKSLQPRLHDEIFDIEDLVKIGKKSRGCPYFASRELKEDAD 224 (945)
T ss_pred hhcchhhhhHHHhhcc------------cccccccccccccccccccCCCcccHHHHHHhCccCcCCcchhhhhhcccCc
Confidence 6655556788988763 2579998765444333345567999999999999999999999999999999
Q ss_pred EEEEcCccccCHhhHhHhhhccCCCcEEEEeCCcchHHHHHhhccceecHHHHHHH---HHHHHHHHHHHHHhhhcchhH
Q 006790 204 VVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGA---TRNLSRINQEIERFKATDAGR 280 (631)
Q Consensus 204 ivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAHnl~~~a~~~~s~~ls~~~l~~~---~~~l~~~~~~~~~~~~~~~~~ 280 (631)
||+||||||+|+.+|++...+| +++|||||||||+|+.|++..|++++..+|... .+++...... ....-+.
T Consensus 225 IIF~PYnYLiDp~iR~~~~v~L-knsIVIfDEAHNiEdic~esaS~~lts~~l~~~~~l~~e~~~~~~~----~~~~~~p 299 (945)
T KOG1132|consen 225 IIFCPYNYLIDPKIRRSHKVDL-KNSIVIFDEAHNIEDICRESASFDLTSSDLASGLELINELEQAVTK----AAAIYEP 299 (945)
T ss_pred EEEechhhhcCHhhhccccccc-cccEEEEeccccHHHHHhhcccccccHHHHHHHHHHHHHHHHHHhh----hhhhcCc
Confidence 9999999999999998776666 899999999999999999999999998777643 2222221110 0000000
Q ss_pred HHHHHHHHHHHHhh-cCCC--ccccccccCCCCChhhh-hhccCcchhchHHHHHHHHHHHHHHHhhhhccc-c--cccC
Q 006790 281 LRAEYNRLVEGLAL-RGNL--PIADAWLSNPALPSDIL-KEAVPGNIRRAEHFLHVLRRLVQYLRGRLETEN-V--EKEG 353 (631)
Q Consensus 281 l~~~~~~l~~~l~~-~~~~--~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~-~--~~~~ 353 (631)
+.+....+++.|.- ...+ +....++.... .+.+. .....+ +... .+- .+. +.+...+...+ . ....
T Consensus 300 l~ev~~~l~s~l~~~~e~La~l~~~~~~~~~~-~d~~~~~~~~~g-iT~~-~~~-~l~---e~~~~a~~t~e~~~~i~~~ 372 (945)
T KOG1132|consen 300 LREVSLDLISWLELELEDLAKLKEILLFLEEA-IDKVLLPLDDSG-ITRP-GSP-ILY---EEFAKALITSETAEKIVDS 372 (945)
T ss_pred hhhhhhccchhhhcchHHHHHHHHHHHHhhhh-cchhcccccccc-ccCC-CcH-HHH---HHHHHhccCccccccchhh
Confidence 11110011110000 0000 00000000000 00000 000000 0000 000 011 11111100000 0 0000
Q ss_pred hhHHHHHHHhhh---ccccchhhhhHHHHHHHHHHhhhcCCCccchhHHHHHHHHH----hcccCCc--------eEEEE
Q 006790 354 PVSFVASITAHA---GIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATL----VGTYTRG--------FSIII 418 (631)
Q Consensus 354 ~~~~~~~~~~~~---~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~l~~~~~f~~~----~~~~~~~--------~~~~~ 418 (631)
....++.++... .+....+-.+...+..++-...... ........|... +....+. .-+|.
T Consensus 373 ~~~~v~~le~~~q~~~t~~~s~~~~~~dlld~~fs~~~~~----g~~~~~~~~~~e~s~~~~~~~d~~~~~~~~~~~v~~ 448 (945)
T KOG1132|consen 373 LDIAVQHLEGEKQGTATNTGSLWCIFADLLDISFSVILQN----GSFSSDASFSVEQSYSFGNHLDAPHVINANLGDVWK 448 (945)
T ss_pred HHHHHHHhhcccccchhcccchHHHHHHHHHHHhhccccC----CccccchhhhhhhhhcccccCCcccccccccccccc
Confidence 001111111110 0000000000011111100000000 000000001000 0000000 01121
Q ss_pred ecCCCCCCCCCCCeEEEEecCcccccHHHhhc-cCEEEEecCCCCCccchhhhcCCCCccccccceeecCCceeeEEeee
Q 006790 419 EPFDERMPHIPDPVLQLSCHDASLAVKPVFDR-FQSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTR 497 (631)
Q Consensus 419 ~~~~~~~~~~~~~~l~~~~l~~~~~l~~l~~~-~~svIltSaTL~p~~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~ 497 (631)
..... .....+.+++||++|+..|++++.+ +++||||||||+|++.|+.+||++......-+|.+.+.+++..+++.
T Consensus 449 ~~~s~--~~~~~~vi~~wcf~p~~sf~d~~~k~vrsIiLtSGTLsP~~s~~~El~~~f~~~lEn~hii~~~qv~~~vv~~ 526 (945)
T KOG1132|consen 449 GKSSR--KLGNYPVINFWCFSPGYSFRDLLGKGVRSIILTSGTLSPMDSFASELGLEFKIQLENPHIINKSQVWVGVVPK 526 (945)
T ss_pred ccccc--ccCcccceeeeecCcchhHHHHhcccceeEEEecccccCchhHHHHhCCccceeeecchhccccceEEEeecc
Confidence 11110 0112346899999999999999887 99999999999999999999999887777778888888999999999
Q ss_pred CCCCcceeeeeccCCCHHHHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhh
Q 006790 498 GSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVET 577 (631)
Q Consensus 498 ~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~ 577 (631)
||....+.|+|.+|..++|...+++.|..+++++|.|+|||||||.+|+++.+.|+..++|+++..-|.|++|++...++
T Consensus 527 Gp~~~ql~sty~nr~~~ey~~~lg~~i~~v~rvVp~G~L~FfPSY~vmdk~~tfw~~~~~we~~~~vk~l~vEPr~k~~f 606 (945)
T KOG1132|consen 527 GPDGAQLDSTYGNRFTPEYLSELGEAILNVARVVPYGLLIFFPSYPVMDKLITFWQNRGLWERMEKVKKLVVEPRSKSEF 606 (945)
T ss_pred CCCccccccccccccCHHHHHHHHHHHHHHHhhcccceEEeccchHHHHHHHHHHHcchHHHHhhcccCceeccCCccch
Confidence 99999999999999999999999999999999999999999999999999999999999999998888899999988888
Q ss_pred HHHHHHHHHhhc--CCCCeEEEEEecCcccccccCCCCCceEEEEEcccCCCCCCC
Q 006790 578 TLALDNYRKACD--CGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSK 631 (631)
Q Consensus 578 ~~~l~~fk~~~~--~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPfp~p~dP 631 (631)
..+++.|.+++. ...|+++|+|||||.|||+||.|+..|+||++|||||+-.||
T Consensus 607 ~e~m~~y~~~i~~pes~ga~~~aVcRGKVSEGlDFsD~~~RaVI~tGlPyP~~~D~ 662 (945)
T KOG1132|consen 607 TEVMSRYYNAIADPESSGAVFFAVCRGKVSEGLDFSDDNGRAVIITGLPYPPVMDP 662 (945)
T ss_pred HHHHHHHHHHhhCccccceEEEEEecccccCCCCccccCCceeEEecCCCCCCCCH
Confidence 999999999876 456799999999999999999999999999999999999997
No 4
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=9.4e-82 Score=647.36 Aligned_cols=575 Identities=26% Similarity=0.446 Sum_probs=433.8
Q ss_pred cCeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC----------------------
Q 006790 6 EDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK---------------------- 63 (631)
Q Consensus 6 ~~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~---------------------- 63 (631)
.-++++|||.| |..|.++|+.+++.|++|+++|+|+||||||||+.+|+|+.|...+
T Consensus 6 ~~~~F~fPy~P-YdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~eek~~t~~~~~l~~v~~~~~d~ 84 (821)
T KOG1133|consen 6 GAIEFPFPYTP-YDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDFEEKKRTEEARLLETVTGPLHDE 84 (821)
T ss_pred cccccCCCCCc-hhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHhHHhhhhHHHhhhccCCCccccc
Confidence 44678899996 9999999999999999999999999999999999999999997642
Q ss_pred --------------------------------------------------------------------------------
Q 006790 64 -------------------------------------------------------------------------------- 63 (631)
Q Consensus 64 -------------------------------------------------------------------------------- 63 (631)
T Consensus 85 kde~d~~s~wl~~~~~~~~er~~~~r~l~~~qa~~~~re~r~q~~~~~~e~~k~ak~~~~e~~~reyl~~~e~~~pg~~e 164 (821)
T KOG1133|consen 85 KDESDSSSAWLTQFVQKKEERDLVDRNLKAEQARFKQREERLQQLQHRVQGKKGAKRLRQEEEEREYLLSREMLEPGRLE 164 (821)
T ss_pred cccccchhHHHHHHHHHHHhhccchHHHHHhhchHHHHHHHHHhhhhHHhhhhhhhccccccccchhcchhhccCccchh
Confidence
Q ss_pred -----------------------CCCCceEEEEecchhhHHHHHHHHHhhhhhcccCCCCccceeEEEeCCCCccccChh
Q 006790 64 -----------------------PENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSR 120 (631)
Q Consensus 64 -----------------------~~~~~~vi~~t~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~ 120 (631)
.+++.||+||+|||+|+.|+++||++. . .+.++|++.|++|.++|+|+.
T Consensus 165 q~e~~~~~e~s~D~e~~~~~~~~e~~p~KI~ycSRTHSQL~Qfv~ELrKt-~-------f~~~vr~vsL~SRk~LCiNe~ 236 (821)
T KOG1133|consen 165 QLESGEEAESSSDEEKKVASRVDEDAPVKIYYCSRTHSQLAQFVAELKKT-P-------FGKKVRSVSLGSRKNLCINED 236 (821)
T ss_pred hhhcccccccccchhhccccCccccCCeeEEEecccchHHHHHHHHHhhc-c-------cccCceEEeecchhhcccCHH
Confidence 001259999999999999999999984 2 367899999999999999999
Q ss_pred hhcccCcchHHHHHHHhhhHHHHhhhh------cCCCCCCCccccch--HHhhhcCCCCCCCCChHHHHHhcccCCccch
Q 006790 121 VLAAENRDSVDAACRKRTASWVRALAA------ENPNIETCEFFENY--EKAASAAVLPPGVYTLQDLRAFGKQQGWCPY 192 (631)
Q Consensus 121 ~~~~~~~~~~~~~c~~l~~~w~~~~~~------g~~~~~~c~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy 192 (631)
+...++.+.+++.|..+..+-..+... .......|||++.. ....+. .+ .++.|+|++...|+..+.|||
T Consensus 237 V~Klk~~~~iNE~Cldlq~s~~~~~~~~~~~~~~~~~~~~Cpf~~~~q~~~~rd~-~l-~e~~DiEdLv~lGk~~~~CPY 314 (821)
T KOG1133|consen 237 VKKLKSVDAINERCLDLQKSKHSLKPSKKMRMTRTKATARCPFYNHTQMEDLRDE-AL-SEVLDIEDLVALGKELRGCPY 314 (821)
T ss_pred hccccchhHHHHHHHHHHhccCcccccccchhcccccccCCCccchhHHHHHHHH-Hh-hhhccHHHHHHhhhhcCCCCc
Confidence 998888888999997765321110000 00012469999542 222222 22 378999999999999999999
Q ss_pred hhHHhhccCceEEEEcCccccCHhhHhHhhhccCCCcEEEEeCCcchHHHHHhhccceecHHHHHHHHHHHHHHHHHHH-
Q 006790 193 FLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIE- 271 (631)
Q Consensus 193 ~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAHnl~~~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~- 271 (631)
|.+|+.+..||+|+.||.+||+...|+++++.| +++||||||||||.|...++.|.+||..+|.++...+..+.....
T Consensus 315 Y~SR~avp~aqlV~LPYQ~LL~~stR~slgI~L-kdsIvIiDEAHNlidti~smhsa~Is~~ql~~a~~~i~~Y~~rf~~ 393 (821)
T KOG1133|consen 315 YASRRAVPQAQLVTLPYQLLLHESTRKSLGISL-KDSIVIIDEAHNLIDTICSMHSAEISFSQLCRAHKQIQQYFERFGK 393 (821)
T ss_pred hhhhhccccccEEeccHHHHHhHHHHHhcCccc-cccEEEEechhHHHHHHHHhhhhheeHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999887777 899999999999999999999999999999999988877643322
Q ss_pred HhhhcchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhccCcchhchHHHH-------HHHHHHHHHHHhhh
Q 006790 272 RFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEHFL-------HVLRRLVQYLRGRL 344 (631)
Q Consensus 272 ~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~l~~~~~~l~~~l 344 (631)
++...+.-.+. .+..++..+...... ......++ +.+.. .+|+ -.+.++.+++....
T Consensus 394 rl~~~N~~~l~-ql~~l~~~ll~fl~~--~~~~~~~~--------~~~~~-----~dfl~~~~id~iNL~kl~~Yi~~S~ 457 (821)
T KOG1133|consen 394 RLKAKNLMYLK-QLLSLLRRLLKFLDS--NCELNGNG--------ESLMR-----NDFLFSSGIDNINLFKLLDYIEKSK 457 (821)
T ss_pred hhCccchhHHH-HHHHHHHHHHHHHHh--hhhhCCcc--------cccch-----hhhhhhcCccceeHHHHHHHHHHhh
Confidence 33333322222 122222222211000 00000000 00100 1221 12334444443211
Q ss_pred hcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhhcCCCcc--chhHHHHHHHHHhcccCCceEEEEecCC
Q 006790 345 ETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEF--LHIQTICDFATLVGTYTRGFSIIIEPFD 422 (631)
Q Consensus 345 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~--~~l~~~~~f~~~~~~~~~~~~~~~~~~~ 422 (631)
-... ...|-..+.+. ..+++ +++.. +..+....+.. +++..+..|+..+....++-.+++++..
T Consensus 458 i~rK-----v~G~~~r~~~~---~s~pl----q~l~~--~~~~~~ee~~~~ps~l~~l~~FL~~LTn~~~dGri~~~k~~ 523 (821)
T KOG1133|consen 458 IARK-----VDGFGERLSEV---FSQPL----QSLQK--KRVEAEEESQLKPSPLFELSSFLGALTNNNEDGRIFYSKQG 523 (821)
T ss_pred HHHH-----hcchhhcchhh---ccchh----hHhhh--ccccchhcccCCCchhHHHHHHHHHHhCCCCCCcEEEeccC
Confidence 0000 01111122110 00111 11111 01111111112 3478899998887665555677777644
Q ss_pred CCCCCCCCCeEEEEecCcccccHHHhhccCEEEEecCCCCCccchhhhcCC---CCccccccceeecCCceeeEEeeeCC
Q 006790 423 ERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNF---HPVVSRSFKMSLTRDCICPMVLTRGS 499 (631)
Q Consensus 423 ~~~~~~~~~~l~~~~l~~~~~l~~l~~~~~svIltSaTL~p~~~f~~~lG~---~~~~~~~~~~~~~~~~~~~~vi~~~~ 499 (631)
..+|++..++|+..|..+...+++||+++|||.|.+.|...|.- +.....++.|.+++++++++++..||
T Consensus 524 -------s~~lky~lL~pA~~f~evv~earavvLAGGTMeP~~e~~e~L~~~~~~~i~~fsc~Hvip~e~il~~vv~~gp 596 (821)
T KOG1133|consen 524 -------SGTLKYMLLNPAKHFAEVVLEARAVVLAGGTMEPVDELREQLFPGCPERISPFSCSHVIPPENILPLVVSSGP 596 (821)
T ss_pred -------CceEEEEecCcHHHHHHHHHHhheeeecCCccccHHHHHHHhcccchhhccceecccccChhheeeeeeccCC
Confidence 36799999999999999999999999999999999988888752 22344577899999999999999999
Q ss_pred CCcceeeeeccCCCHHHHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHH
Q 006790 500 DQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTL 579 (631)
Q Consensus 500 ~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~ 579 (631)
++.++..+|..|..++++++++..+.+++.++|||++||||||++|.+|+.+|...|++.+|...|.||.|+++. .+.
T Consensus 597 sg~p~eftf~~R~s~~~l~~l~~~~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~--~~d 674 (821)
T KOG1133|consen 597 SGQPLEFTFETRESPEMIKDLGSSISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT--VED 674 (821)
T ss_pred CCCceEEEeeccCChHHHHHHHHHHHHHHhhCCCcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc--HHH
Confidence 999999999999999999999999999999999999999999999999999999999999999989999999975 578
Q ss_pred HHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEEEEEcccCCCCCCC
Q 006790 580 ALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSK 631 (631)
Q Consensus 580 ~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPfp~p~dP 631 (631)
+++.|+..++.|+|||||+|.||++||||+|.|+.|||||+|||||||+.|+
T Consensus 675 vl~~Ya~a~~~g~GaiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyPN~~s~ 726 (821)
T KOG1133|consen 675 VLEGYAEAAERGRGAILLAVVGGKLSEGINFSDDLGRAVVVVGLPYPNIQSV 726 (821)
T ss_pred HHHHHHHHhhcCCCeEEEEEeccccccccccccccccEEEEeecCCCCCCCH
Confidence 9999999999999999999999999999999999999999999999999874
No 5
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=100.00 E-value=8.7e-76 Score=653.35 Aligned_cols=544 Identities=18% Similarity=0.190 Sum_probs=350.9
Q ss_pred CCCCCChHHHHHHHHHHHHHhc-----CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH-H
Q 006790 13 PYDNIYPEQYSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-E 86 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~-----~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~-e 86 (631)
+|++ |++|.+||..|+++|.+ +++++||||||||||+|||+||+.||..+ ++ ||||||+|++||+|+++ |
T Consensus 23 ~~e~-R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~--~k-~vVIST~T~~LQeQL~~kD 98 (697)
T PRK11747 23 GFIP-RAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAE--KK-KLVISTATVALQEQLVSKD 98 (697)
T ss_pred CCCc-CHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHc--CC-eEEEEcCCHHHHHHHHhhh
Confidence 3886 99999999999999998 47999999999999999999999999876 57 99999999999999997 8
Q ss_pred HHhhhhhcccCCCCccceeEEEeCCCCc-cccChhhhcccC----cch-----------HHHHHHH---hhhHHHHhhhh
Q 006790 87 LKLLHNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAEN----RDS-----------VDAACRK---RTASWVRALAA 147 (631)
Q Consensus 87 l~~l~~~~~~~~~~~~~~~~~~l~gr~~-lC~~~~~~~~~~----~~~-----------~~~~c~~---l~~~w~~~~~~ 147 (631)
||.+.++. +.+++++++|||+| +|++++...+.. .+. ....... +...|.+.|++
T Consensus 99 lP~l~~~l------~~~~~~~llKGr~nYlCl~r~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~t~t 172 (697)
T PRK11747 99 LPLLLKIS------GLDFKFTLAKGRGRYVCPRKLAALASDEGTQQDLLLFLDDELTPPDEEEQKLLARLAKALATGKWD 172 (697)
T ss_pred hhHHHHHc------CCCceEEEEcCccccccHHHHHHHhccccccchhhhhccccccCCCHHHHHHHHHHHHHHhcCCCc
Confidence 99987763 67899999999999 999998754321 110 0111111 22235556889
Q ss_pred cCCCCCCCccccchHHhhhcCCCCCCCCC-hHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccC
Q 006790 148 ENPNIETCEFFENYEKAASAAVLPPGVYT-LQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQ 226 (631)
Q Consensus 148 g~~~~~~c~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~ 226 (631)
||.+ .++... -...|.. ..++ ..|+...|++++.|||+.+|+.+++|||||+||+|||.+...+ ....||
T Consensus 173 GD~d--el~~~~-~~~~w~~-----v~~~~~~C~~~~Cp~~~~Cf~~~ar~~a~~AdivVtNH~LLladl~~~-~~~iLp 243 (697)
T PRK11747 173 GDRD--HWPEPI-DDSLWQR-----ITTDKHSCLGRNCPYFRECPFFKARREIDEADVVVANHDLVLADLELG-GGVVLP 243 (697)
T ss_pred CcHh--hCcCCC-cHHHHHH-----hhcCccccCCCCCCCCccChHHHHHHHHhhCCEEEECcHHHHhhhhcc-CCcccC
Confidence 9865 333211 1111221 1122 2366778999999999999999999999999999999765321 123466
Q ss_pred --CCcEEEEeCCcchHHHHHhhccceecHHHHHHHHHHHHHHHHHHHH-hh---hcchhHH---HHHHHHHHHHHhhcCC
Q 006790 227 --KESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIER-FK---ATDAGRL---RAEYNRLVEGLALRGN 297 (631)
Q Consensus 227 --~~~~~IiDEAHnl~~~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~-~~---~~~~~~l---~~~~~~l~~~l~~~~~ 297 (631)
+++++||||||||+++|.++++.++|...+...++.+......... +. ......+ ...+..+...+.....
T Consensus 244 ~~~~~~lViDEAH~L~d~A~~~~~~~~s~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 323 (697)
T PRK11747 244 DPENLLYVLDEGHHLPDVARDHFAASAELKGTADWLEKLLKLLTKLVALIMEPPLALPERLNAHCEELRELLASLNQILN 323 (697)
T ss_pred CCCCCEEEEECccchHHHHHHHhhhhccHHHHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4789999999999999999999999998888777766442211110 00 0000111 1111112222111000
Q ss_pred Cc--c--ccc--cccCCCCChhhhhhccCcchhchHHHHHHHHHHHHHHHhhhhcccccccChhHHHH-HHHhhhcccc-
Q 006790 298 LP--I--ADA--WLSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVA-SITAHAGIDQ- 369 (631)
Q Consensus 298 ~~--~--~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~- 369 (631)
.. . ... .+.....+..+. .....+...+..+...+.. +. ..+. .+.+ ...+.
T Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~l~~l~~~l~~-l~----------~~l~~~~~~-~~~~~~ 383 (697)
T PRK11747 324 LFLPAGGEEARYRFEMGELPEELL--------ELAERLAKLTEKLLGLLEK-LL----------NDLSEAMKT-GKIDIV 383 (697)
T ss_pred hhcccccccccccccCCCCcHHHH--------HHHHHHHHHHHHHHHHHHH-HH----------HHHHHHHhc-cccchh
Confidence 00 0 000 000000000000 0001122222222111110 00 0000 0000 00000
Q ss_pred ------chhhhhHHHHHHHHHHhhhcCCCccchhHHHHHHHHHhcccCCceEEEEecCCCCCCCCCCCeEEEEecCcccc
Q 006790 370 ------KTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLA 443 (631)
Q Consensus 370 ------~~~~~~~~~l~~l~~~l~~~~~~~~~~l~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~ 443 (631)
..+..+..++..+.+.+. .|..........++.|++..... ......|+..|+|++..
T Consensus 384 ~~~~~~~~l~~~~~~l~~~~~~l~--------------~~~~~~~~~~~~~v~Wie~~~~~--~~~~~~l~~~Pl~~~~~ 447 (697)
T PRK11747 384 RLERLLLELGRALGRLEALSKLWR--------------LAAKEDQESGAPMARWITREERD--GQGDYLFHASPIRVGDQ 447 (697)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH--------------HHhcccccCCCCceEEEEeccCC--CCceEEEEEecCCHHHH
Confidence 011112222222222221 11110001111357787764321 12356799999999999
Q ss_pred c-HHHhhccCEEEEecCCCCCcc---chhhhcCCCC---ccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHH
Q 006790 444 V-KPVFDRFQSVVITSGTLSPID---LYPRLLNFHP---VVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGV 516 (631)
Q Consensus 444 l-~~l~~~~~svIltSaTL~p~~---~f~~~lG~~~---~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~ 516 (631)
| +.+|++++++|||||||+|.+ +|.+.+|++. .....++.+|+.++...+++++. +++.+++++|
T Consensus 448 l~~~l~~~~~~vIltSATL~~~~~f~~~~~~lGL~~~~~~~~~~~~SpF~~~~q~~l~vp~~--------~~~p~~~~~~ 519 (697)
T PRK11747 448 LERLLWSRAPGAVLTSATLRSLNSFDRFQEQSGLPEKDGDRFLALPSPFDYPNQGKLVIPKM--------RAEPDNEEAH 519 (697)
T ss_pred HHHHHHhhCCEEEEEeeeCCCCCchHHHHHHcCCCCCCCceEEEcCCCCCHHHccEEEeCCC--------CCCCCCcHHH
Confidence 9 689999999999999999974 7778999974 33344555554322222334331 1122577889
Q ss_pred HHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEE
Q 006790 517 ARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVF 596 (631)
Q Consensus 517 ~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aIL 596 (631)
.+.+++.|.+++. ++||+|||||||++|+++++.|... ..+.|++|+.+ ++..++++|++.++.++++||
T Consensus 520 ~~~~~~~i~~l~~-~~gg~LVlFtSy~~l~~v~~~l~~~-------~~~~ll~Q~~~--~~~~ll~~f~~~~~~~~~~VL 589 (697)
T PRK11747 520 TAEMAEFLPELLE-KHKGSLVLFASRRQMQKVADLLPRD-------LRLMLLVQGDQ--PRQRLLEKHKKRVDEGEGSVL 589 (697)
T ss_pred HHHHHHHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHh-------cCCcEEEeCCc--hHHHHHHHHHHHhccCCCeEE
Confidence 9999999999999 8999999999999999999999742 13568888754 567899999999988889999
Q ss_pred EEEecCcccccccCCCCCceEEEEEcccCCCCCCC
Q 006790 597 FSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSK 631 (631)
Q Consensus 597 fgv~~Gsf~EGIDf~g~~lr~VII~gLPfp~p~dP 631 (631)
||+ |||||||||||+.|++|||+|||||+|+||
T Consensus 590 ~g~--~sf~EGVD~pGd~l~~vII~kLPF~~p~dp 622 (697)
T PRK11747 590 FGL--QSFAEGLDLPGDYLTQVIITKIPFAVPDSP 622 (697)
T ss_pred EEe--ccccccccCCCCceEEEEEEcCCCCCCCCH
Confidence 999 999999999999999999999999999998
No 6
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=9.1e-73 Score=648.18 Aligned_cols=551 Identities=16% Similarity=0.170 Sum_probs=347.1
Q ss_pred CCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH-HHHhhhh
Q 006790 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-ELKLLHN 92 (631)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~-el~~l~~ 92 (631)
|++ ||+|.+||..|.++|.+++++++|||||||||+|||+|++.||... ++ ||||||+|++||+|+++ |+|.|.+
T Consensus 256 ~e~-R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~--~~-~vvIsT~T~~LQ~Ql~~kDiP~L~~ 331 (928)
T PRK08074 256 YEK-REGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKK--EE-PVVISTYTIQLQQQLLEKDIPLLQK 331 (928)
T ss_pred CcC-CHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhcc--CC-eEEEEcCCHHHHHHHHHhhHHHHHH
Confidence 775 9999999999999999999999999999999999999999988755 57 99999999999999988 8998876
Q ss_pred hcccCCCCccceeEEEeCCCCc-cccChhhhcccCc--chHHHHHHHhhhHHHHhhhhcCCCCCCCccccchHHhhhcCC
Q 006790 93 YQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENR--DSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAV 169 (631)
Q Consensus 93 ~~~~~~~~~~~~~~~~l~gr~~-lC~~~~~~~~~~~--~~~~~~c~~l~~~w~~~~~~g~~~~~~c~~~~~~~~~~~~~~ 169 (631)
. .+.+++++++|||+| +|++++....... .......+..+..|+++|++||.+ .+++-......|..
T Consensus 332 ~------~~~~~~~~~lKGr~nYlcl~k~~~~l~~~~~~~~~~~~~~~ll~Wl~~T~tGD~d--El~~~~~~~~~w~~-- 401 (928)
T PRK08074 332 I------FPFPVEAALLKGRSHYLCLRKFEQALQEEDDNYDVALTKAQLLVWLTETETGDLD--ELNLPSGGKLLWNR-- 401 (928)
T ss_pred H------cCCCceEEEEEcccccccHHHHHHHHhccCCCHHHHHHHHHHHHHHccCCCCCHH--HccCCCCCcchHHH--
Confidence 5 366889999999999 9999977643211 111112233456799999999875 33321111111111
Q ss_pred CCCCCCCh-HHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCCcEEEEeCCcchHHHHHhhcc
Q 006790 170 LPPGVYTL-QDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALS 248 (631)
Q Consensus 170 ~~~~~~~~-~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAHnl~~~a~~~~s 248 (631)
...+. .|+...|++++.|||+++|+.+++|||||+||+||+++...+ ...+|+++++||||||||+++|.++++
T Consensus 402 ---i~~~~~~c~~~~cp~~~~Cf~~~ar~~a~~AdivItNHalLl~dl~~~--~~ilp~~~~lViDEAH~l~d~A~~~~~ 476 (928)
T PRK08074 402 ---IASDGESDGGKQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDLTSE--EPLLPSYEHIIIDEAHHFEEAASRHLG 476 (928)
T ss_pred ---hhccCcccCCCCCCcccccHHHHHHHHHhcCCEEEECHHHHHHHHhhh--cccCCCCCeEEEECCchHHHHHHHHhc
Confidence 11222 256678999999999999999999999999999999765332 235789999999999999999999999
Q ss_pred ceecHHHHHHHHHHHHHHH-----HHHHHhh-hcc------hhHHHHHHHHHHHHHhhcCCCcccccccc-----CC--C
Q 006790 249 VSVRRQTLEGATRNLSRIN-----QEIERFK-ATD------AGRLRAEYNRLVEGLALRGNLPIADAWLS-----NP--A 309 (631)
Q Consensus 249 ~~ls~~~l~~~~~~l~~~~-----~~~~~~~-~~~------~~~l~~~~~~l~~~l~~~~~~~~~~~~~~-----~~--~ 309 (631)
.++|...+..+++.+.... ..+.... ... ...+...+..+...+.+.... ....+. +. .
T Consensus 477 ~~~s~~~~~~~l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--l~~~~~~~~~~~~~~~ 554 (928)
T PRK08074 477 EQFSYMSFQLLLSRLGTLEEDGLLSKLAKLFKKSDQASRSSFRDLDESLKELKFEADELFQM--LRSFVLKRKKQEQNGR 554 (928)
T ss_pred ceecHHHHHHHHHHHhhhccccHHHHHHHHHhhcchhhhhHHHHHHHHHHHHHHHHHHHHHH--HHHHHhhccccccccc
Confidence 9999999888877654211 0000000 000 000001111111111000000 000000 00 0
Q ss_pred CChhhhhhccCcchhchHHHHHHHHHHHHHHH---hhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHh
Q 006790 310 LPSDILKEAVPGNIRRAEHFLHVLRRLVQYLR---GRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTL 386 (631)
Q Consensus 310 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~---~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l 386 (631)
....+....-.+. ........+.++...+. ..+.. ....+.+....... .....+ ..+..+
T Consensus 555 ~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~l~~~l~~----------~~~~l~~~~~~~~~---~~~~~~-~~~~~l 618 (928)
T PRK08074 555 LIYRYNTESEKGK--LWDAITELANRLCYDLRDLLTLLEA----------QKKELQEKMESESA---FLTGEY-AHLIDL 618 (928)
T ss_pred ceeecccccccch--hhHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHhhhhhhhhh---hHHHHH-HHHHHH
Confidence 0000000000000 00001111111111111 00000 00000000000000 000000 111111
Q ss_pred hhcCCCccchhHHHHHHHHHhcccCCceEEEEecCCCCCCCCCCCeEEEEecCccccc-HHHhhccCEEEEecCCCCCc-
Q 006790 387 EITDTDEFLHIQTICDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFDRFQSVVITSGTLSPI- 464 (631)
Q Consensus 387 ~~~~~~~~~~l~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~l-~~l~~~~~svIltSaTL~p~- 464 (631)
.. ....+..++....+.++.|++..... ......|+..|+|++..+ +.+|++++++|||||||++.
T Consensus 619 ~~----------~~~~l~~~~~~~~~~~v~w~e~~~~~--~~~~~~l~~~pld~~~~l~~~l~~~~~~~iltSATL~~~~ 686 (928)
T PRK08074 619 LE----------KMAQLLQLLFEEDPDYVTWIEIDAKG--AINATRLYAQPVEVAERLADEFFAKKKSVILTSATLTVNG 686 (928)
T ss_pred HH----------HHHHHHHHHhcCCCCeEEEEEecCCC--CCceEEEEEeeccHHHHHHHHHHhcCCcEEEEeeecccCC
Confidence 10 00111112222344567788754311 112456999999999999 67889999999999999976
Q ss_pred --cchhhhcCCCCc--cccccc--eeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHHHhhcccCCcEEEE
Q 006790 465 --DLYPRLLNFHPV--VSRSFK--MSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCF 538 (631)
Q Consensus 465 --~~f~~~lG~~~~--~~~~~~--~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVf 538 (631)
+||++.||++.. ....++ +++.++..+ +++++.|. ..++++++|.+.+++.|.+++..++||+|||
T Consensus 687 ~f~~~~~~lGl~~~~~~~~~~~SpF~~~~q~~l-~vp~d~p~-------~~~~~~~~~~~~la~~i~~l~~~~~g~~LVL 758 (928)
T PRK08074 687 SFDYIIERLGLEDFYPRTLQIPSPFSYEEQAKL-MIPTDMPP-------IKDVPIEEYIEEVAAYIAKIAKATKGRMLVL 758 (928)
T ss_pred CcHHHHHhcCCCCCCccEEEeCCCCCHHHhcEE-EeecCCCC-------CCCCChHHHHHHHHHHHHHHHHhCCCCEEEE
Confidence 477889999742 223333 444334332 33332221 2345678899999999999999999999999
Q ss_pred ecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEE
Q 006790 539 FVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLV 618 (631)
Q Consensus 539 F~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~V 618 (631)
||||++|++|++.|++... .....++.|+.+..++..++++|++ ++++||||+ |||||||||||+.|++|
T Consensus 759 FtSy~~l~~v~~~l~~~~~----~~~~~ll~Qg~~~~~r~~l~~~F~~----~~~~iLlG~--~sFwEGVD~pg~~l~~v 828 (928)
T PRK08074 759 FTSYEMLKKTYYNLKNEEE----LEGYVLLAQGVSSGSRARLTKQFQQ----FDKAILLGT--SSFWEGIDIPGDELSCL 828 (928)
T ss_pred ECCHHHHHHHHHHHhhccc----ccCceEEecCCCCCCHHHHHHHHHh----cCCeEEEec--CcccCccccCCCceEEE
Confidence 9999999999999975421 1124577776433456788899987 478999998 99999999999999999
Q ss_pred EEEcccCCCCCCC
Q 006790 619 IMFGVPFQYTLSK 631 (631)
Q Consensus 619 II~gLPfp~p~dP 631 (631)
||+|||||+|+||
T Consensus 829 iI~kLPF~~p~dp 841 (928)
T PRK08074 829 VIVRLPFAPPDQP 841 (928)
T ss_pred EEecCCCCCCCCH
Confidence 9999999999998
No 7
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=100.00 E-value=6.4e-68 Score=606.65 Aligned_cols=509 Identities=17% Similarity=0.210 Sum_probs=341.5
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH-HHHhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-ELKLL 90 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~-el~~l 90 (631)
.+|+. ||+|.+||..|.+++.+++++++|||||||||+|||+|++.++. . ++ +|||+|+|++||+|++. |++.+
T Consensus 242 ~~~~~-r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~--~~-~vvi~t~t~~Lq~Ql~~~~~~~l 316 (850)
T TIGR01407 242 LGLEY-RPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-T--EK-PVVISTNTKVLQSQLLEKDIPLL 316 (850)
T ss_pred cCCcc-CHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-C--CC-eEEEEeCcHHHHHHHHHHHHHHH
Confidence 46885 99999999999999999999999999999999999999999887 3 57 99999999999999987 89988
Q ss_pred hhhcccCCCCccceeEEEeCCCCc-cccChhhhcccCcchHHHHH---HHhhhHHHHhhhhcCCCCCCCccccchHHhhh
Q 006790 91 HNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAAC---RKRTASWVRALAAENPNIETCEFFENYEKAAS 166 (631)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~l~gr~~-lC~~~~~~~~~~~~~~~~~c---~~l~~~w~~~~~~g~~~~~~c~~~~~~~~~~~ 166 (631)
.+. .+.++++++++||+| +|+.++........ .+..| +..+..|+++|++||.+ .++........|.
T Consensus 317 ~~~------~~~~~~~~~~kG~~~ylcl~k~~~~l~~~~-~~~~~~~~~~~~~~wl~~T~tGD~~--el~~~~~~~~~~~ 387 (850)
T TIGR01407 317 NEI------LNFKINAALIKGKSNYLSLGKFSQILKDNT-DNYEFNIFKMQVLVWLTETETGDLD--ELNLKGGNKMFFA 387 (850)
T ss_pred HHH------cCCCceEEEEEcchhhccHHHHHHHHhcCC-CcHHHHHHHHHHHHHhccCCccCHh--hccCCCcchhhHH
Confidence 654 255789999999999 99988765432111 11122 22345799999999864 3322111111111
Q ss_pred cCCCCCCCCChHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCCcEEEEeCCcchHHHHHhh
Q 006790 167 AAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEA 246 (631)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAHnl~~~a~~~ 246 (631)
. ...+. |+.+.|++++.|||+.+|+.+++||||||||+||+++.... ...+|++.++||||||||+++|+++
T Consensus 388 ~-----i~~~~-~l~~~c~~~~~Cf~~~ar~~a~~AdivItNHa~L~~~~~~~--~~ilp~~~~lIiDEAH~L~d~a~~~ 459 (850)
T TIGR01407 388 Q-----VRHDG-NLSKKDLFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDN--PELFPSFRDLIIDEAHHLPDIAENQ 459 (850)
T ss_pred H-----hhcCC-CCCCCCCCccccHHHHHHHHHhcCCEEEecHHHHHHHhhcc--cccCCCCCEEEEECcchHHHHHHHH
Confidence 1 11121 66678999999999999999999999999999999876433 2346888999999999999999999
Q ss_pred ccceecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhccCcchhch
Q 006790 247 LSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRA 326 (631)
Q Consensus 247 ~s~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 326 (631)
+|.+++...+..+++.+..... ..+...+..+........ ...+. .
T Consensus 460 ~~~~ls~~~~~~~l~~l~~~~~----------~~l~~~l~~~~~~~~~~~-----~~~~~---~---------------- 505 (850)
T TIGR01407 460 LQEELDYADIKYQIDLIGKGEN----------EQLLKRIQQLEKQEILEK-----LFDFE---T---------------- 505 (850)
T ss_pred hcceeCHHHHHHHHHHHHhhhh----------HHHHHHHHHHHHHHHHHH-----Hhhhh---h----------------
Confidence 9999999999888776532110 011111111111100000 00000 0
Q ss_pred HHHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhhcCCCccchhHHHHHHHHH
Q 006790 327 EHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATL 406 (631)
Q Consensus 327 ~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~l~~~~~f~~~ 406 (631)
......+....+.+...+. ...+ ..... ...+......+. ..+..+.+|+
T Consensus 506 ~~~~~~l~~~~~~l~~~l~--------------~~~~---~~~~~----~~~l~~~~~~~~-------~~~~~l~~~~-- 555 (850)
T TIGR01407 506 KDILKDLQAILDKLNKLLQ--------------IFSE---LSHKT----VDQLRKFDLALK-------DDFKNIEQSL-- 555 (850)
T ss_pred hhHHHHHHHHHHHHHHHHH--------------HHHh---hhhhh----HHHHHHHHHHHH-------HHHHHHHHHh--
Confidence 0000001111111111000 0000 00000 001111111110 0111122222
Q ss_pred hcccCCceEEEEecCCCCCCCCCCCeEEEEecCccccc-HHHhhccCEEEEecCCCC---CccchhhhcCCCCcccccc-
Q 006790 407 VGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFDRFQSVVITSGTLS---PIDLYPRLLNFHPVVSRSF- 481 (631)
Q Consensus 407 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~l-~~l~~~~~svIltSaTL~---p~~~f~~~lG~~~~~~~~~- 481 (631)
.+....|++..... ......++..|+|++..+ +.+|++.+++|||||||+ +.+||++.||++......+
T Consensus 556 ----~~~~~~wi~~~~~~--~~~~~~l~~~pl~~~~~l~~~~~~~~~~~il~SATL~~~~~~~~~~~~lGl~~~~~~~~~ 629 (850)
T TIGR01407 556 ----KEGHTSWISIENLQ--QKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTSATLKFSHSFESFPQLLGLTDVHFNTIE 629 (850)
T ss_pred ----ccCCeEEEEecCCC--CCceEEEEeeeCcHHHHHHHHHhccCCeEEEEecccccCCChHHHHHhcCCCccccceec
Confidence 12235566544311 112356899999999888 789999999999999999 5579999999975433323
Q ss_pred --ceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHH
Q 006790 482 --KMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILK 559 (631)
Q Consensus 482 --~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~ 559 (631)
|+++.++..+ +++++.+ .+.+++.++|.+++++.|.+++..++|++|||||||++|+++++.|.....
T Consensus 630 ~spf~~~~~~~l-~v~~d~~-------~~~~~~~~~~~~~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~~~-- 699 (850)
T TIGR01407 630 PTPLNYAENQRV-LIPTDAP-------AIQNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHMVYDMLNELPE-- 699 (850)
T ss_pred CCCCCHHHcCEE-EecCCCC-------CCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhhcc--
Confidence 3444344432 3333221 123456778999999999999999999999999999999999999975211
Q ss_pred HHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEEEEEcccCCCCCCC
Q 006790 560 EIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSK 631 (631)
Q Consensus 560 ~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPfp~p~dP 631 (631)
.....++.|+++ .++..++++|++ ++++||||+ |+|||||||+|+.+++|||+|||||+|+||
T Consensus 700 --~~~~~~l~q~~~-~~r~~ll~~F~~----~~~~iLlgt--~sf~EGVD~~g~~l~~viI~~LPf~~p~dp 762 (850)
T TIGR01407 700 --FEGYEVLAQGIN-GSRAKIKKRFNN----GEKAILLGT--SSFWEGVDFPGNGLVCLVIPRLPFANPKHP 762 (850)
T ss_pred --ccCceEEecCCC-ccHHHHHHHHHh----CCCeEEEEc--ceeecccccCCCceEEEEEeCCCCCCCCCH
Confidence 123467887765 456778888887 578999999 999999999999999999999999999998
No 8
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=100.00 E-value=4.7e-65 Score=548.02 Aligned_cols=511 Identities=14% Similarity=0.109 Sum_probs=332.9
Q ss_pred HHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh-hhcccCC
Q 006790 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH-NYQTRHL 98 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~-~~~~~~~ 98 (631)
+|.+||..|++++.+++++++|||||||||+|||+|++.|+.... ++ +|+|+|+|++||+|++++++.+. +.
T Consensus 1 ~Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~-~~-rvlIstpT~~Lq~Ql~~~l~~l~~~~----- 73 (636)
T TIGR03117 1 EQALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERP-DQ-KIAIAVPTLALMGQLWSELERLTAEG----- 73 (636)
T ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhcc-Cc-eEEEECCcHHHHHHHHHHHHHHHHhh-----
Confidence 599999999999999999999999999999999999999987432 46 99999999999999999999886 43
Q ss_pred CCccceeEEEeCCCCc-cccChhhhcccCcchHHHHHHHhhhHHHHhhh----------------------hcCCCCCCC
Q 006790 99 GPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAACRKRTASWVRALA----------------------AENPNIETC 155 (631)
Q Consensus 99 ~~~~~~~~~~l~gr~~-lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~----------------------~g~~~~~~c 155 (631)
.+.++++++++||+| +|++++.......+. +. ...+..|+.+|+ +||.+ ..|
T Consensus 74 -l~~~i~~~~lkGr~nYlCl~rl~~~l~~~~~-~~--~~~i~~W~~~T~~~~~~~~~~~~~~~~~~~~~~~tGD~~-el~ 148 (636)
T TIGR03117 74 -LAGPVQAGFFPGSQEFVSPGALQELLDQSGY-DK--DPAVQLWIGQGGPLIHEAALIRCMSDAPTKMHWMTHDLK-AVA 148 (636)
T ss_pred -cCCCeeEEEEECCcccccHHHHHHHhcccch-hH--HHHHHHHHhcCCccccccchhccccchhhccCCCCCCHh-hcc
Confidence 245789999999999 999987664332211 11 223457999984 33322 112
Q ss_pred ccccchHHhhhcCCCCCCCCChHHHHHhcccCCccchhhHHhh---ccCceEEEEcCccccCHhhHhHhhhccCCCcEEE
Q 006790 156 EFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHM---VQFANVVVYSYQYLLDPKVAGIISKEMQKESVVV 232 (631)
Q Consensus 156 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~---~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~I 232 (631)
..... ....|+...|.. ..|+|+.+|+. ++.|||||+||++|+.. .++.. ..+|+.+++|
T Consensus 149 ~~~~~--------------~~~~~~~~~~~~-~~~~~~~aR~~~~~a~~AdivItNHalL~~~-~~~~~-~iLP~~~~lI 211 (636)
T TIGR03117 149 TLLNR--------------QDDVTLAIREDD-EDKRLVESREYEAEARRCRILFCTHAMLGLA-FRDKW-GLLPQPDILI 211 (636)
T ss_pred CCcCc--------------chhhhccccCCC-cccHHHHHHHHhhccccCCEEEECHHHHHHH-hhhhc-CCCCCCCEEE
Confidence 11100 001122233444 45899999998 99999999999999964 34432 4678999999
Q ss_pred EeCCcchHHHHHhhccceecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHhhcCCCccccccccCCCCCh
Q 006790 233 FDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPS 312 (631)
Q Consensus 233 iDEAHnl~~~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~ 312 (631)
|||||||+++|.++++.++|..++.+.++.+...... . ....+...+...++.++... .+..+.
T Consensus 212 iDEAH~L~d~A~~~~g~~ls~~~l~~~l~~l~~~~~~--~----~~~~~~~~~~~~~~~l~~~~-------~~~~~~--- 275 (636)
T TIGR03117 212 VDEAHLFEQNISRVYSNALSLRRLHLYVEKRHTGAGK--G----IVSAAVAAVSHCIQRLRALD-------VFGDGQ--- 275 (636)
T ss_pred EeCCcchHHHHHHHhccEECHHHHHHHHHHHhhcccc--h----hHHHHHHHHHHHHHHHHhhh-------cccccc---
Confidence 9999999999999999999999988887654211000 0 00011112222333332100 000000
Q ss_pred hhhhhccCcchhchHHHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhhcCCC
Q 006790 313 DILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTD 392 (631)
Q Consensus 313 ~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~ 392 (631)
+.........+.++.+.+...+. .+... . .......+.+++..+.+.+..+.
T Consensus 276 ----------~~~~~~~~~~l~~l~~~L~~l~~--------------~l~~~-~-~~~~~~~~~~rl~~~~~~~~~~~-- 327 (636)
T TIGR03117 276 ----------TLCLDAGNKELETLFADLDAALD--------------ACSVG-R-NRDENKKALSVVKDVKKARFILD-- 327 (636)
T ss_pred ----------cccHHHHHHHHHHHHHHHHHHHH--------------HHhhc-c-cchHHHHHHHHHHHHHHHHHHHh--
Confidence 00001111111111111111000 00000 0 00011223445554443322210
Q ss_pred ccchhHHHHHHHHHhcccCCceEEEEecCCCCCCCCCCCeEEEEecCcccccHH-HhhccCEEEEecCCCCCc-------
Q 006790 393 EFLHIQTICDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKP-VFDRFQSVVITSGTLSPI------- 464 (631)
Q Consensus 393 ~~~~l~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~l~~-l~~~~~svIltSaTL~p~------- 464 (631)
+...+. .....+|+|+++.. ....|+..|++++..|+. ++++.+++|||||||++.
T Consensus 328 ---------~~~~~~-~~~~~~~~~~~~~~------~~~~L~~~Pl~va~~l~~~~~~~~~~~I~TSATL~v~~~~~~~~ 391 (636)
T TIGR03117 328 ---------NAITAI-QGKASAVLQFSPDR------RFPSLIVGREDLGKVMGGLWKDVTHGAIIVSATLYLPDRFGQMS 391 (636)
T ss_pred ---------hhcccc-ccccceEEEEecCC------CceEEEEecccHHHHHHHHHhcCCCeEEEEccccccCCcCCCcC
Confidence 000000 01125788887543 134799999999999954 566778999999999993
Q ss_pred -cchhhhcCCCCcccc--cccee--ecCCceeeEEeeeC-CCCcceee--eeccC----CCHHHHHHHHHHHHHhhcccC
Q 006790 465 -DLYPRLLNFHPVVSR--SFKMS--LTRDCICPMVLTRG-SDQLPVST--KFDMR----SDPGVARNYGKLLVEMVSIVP 532 (631)
Q Consensus 465 -~~f~~~lG~~~~~~~--~~~~~--~~~~~~~~~vi~~~-~~~~~l~s--~f~~r----~~~~~~~~l~~~i~~~~~~~~ 532 (631)
+||++.+|++.. .. ..|++ |.++....++++.. +...+-+. .+... ..+.|.+.+++.|.+++.+.+
T Consensus 392 F~~f~~~lGL~~~-~l~~~SPFd~~y~~qa~~~LyvP~~~~~~lP~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 470 (636)
T TIGR03117 392 CDYLKRVLSLPLS-RLDTPSPIVAPWVRNAIPHLHVPNAKARFLRPVGKDEQGDANLQEAERTWLENVSLSTAAILRKAQ 470 (636)
T ss_pred cHHHHHhcCCCcc-ceeCCCCCCchhHhcCceEEEEcCccccCCCCCCCCcccchhhhcchhhHHHHHHHHHHHHHHHcC
Confidence 589999999643 22 33566 55776322334321 11111111 01111 025688889999999999999
Q ss_pred CcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccC--
Q 006790 533 DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF-- 610 (631)
Q Consensus 533 gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf-- 610 (631)
||+|||||||+.|+++++.++.. + ..+|++|+.+. ....++++|++.++.+.++||||+ +|||||||+
T Consensus 471 G~~lvLfTS~~~~~~~~~~l~~~-----l--~~~~l~qg~~~-~~~~l~~~f~~~~~~~~~~vL~gt--~sfweGvDv~~ 540 (636)
T TIGR03117 471 GGTLVLTTAFSHISAIGQLVELG-----I--PAEIVIQSEKN-RLASAEQQFLALYANGIQPVLIAA--GGAWTGIDLTH 540 (636)
T ss_pred CCEEEEechHHHHHHHHHHHHhh-----c--CCCEEEeCCCc-cHHHHHHHHHHhhcCCCCcEEEeC--CccccccccCC
Confidence 99999999999999999998753 2 25689988652 457799999998877778999999 899999999
Q ss_pred ------CCCCceEEEEEcccCCCCCCC
Q 006790 611 ------DRHYGRLVIMFGVPFQYTLSK 631 (631)
Q Consensus 611 ------~g~~lr~VII~gLPfp~p~dP 631 (631)
||+.|++|||++||||+ +||
T Consensus 541 ~~~~p~~G~~Ls~ViI~kLPF~~-~dp 566 (636)
T TIGR03117 541 KPVSPDKDNLLTDLIITCAPFGL-NRS 566 (636)
T ss_pred ccCCCCCCCcccEEEEEeCCCCc-CCh
Confidence 79999999999999995 666
No 9
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=7.6e-65 Score=572.24 Aligned_cols=483 Identities=16% Similarity=0.167 Sum_probs=321.3
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHH-HHHHhhh
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL-AELKLLH 91 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~-~el~~l~ 91 (631)
+|+. ||+|.+||..|.++|.+++++++|||||||||+|||+|++.++. +. +|||+|+|++||+|++ ++++.+.
T Consensus 243 ~~e~-R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~~----~~-~vvI~t~T~~Lq~Ql~~~~i~~l~ 316 (820)
T PRK07246 243 GLEE-RPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQSD----QR-QIIVSVPTKILQDQIMAEEVKAIQ 316 (820)
T ss_pred CCcc-CHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhcC----CC-cEEEEeCcHHHHHHHHHHHHHHHH
Confidence 4885 99999999999999999999999999999999999999887642 46 9999999999999997 5888876
Q ss_pred hhcccCCCCccceeEEEeCCCCc-cccChhhhccc--CcchHHHHHHHhhhHHHHhhhhcCCCCCCCccccchHHhhhcC
Q 006790 92 NYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAE--NRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAA 168 (631)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~gr~~-lC~~~~~~~~~--~~~~~~~~c~~l~~~w~~~~~~g~~~~~~c~~~~~~~~~~~~~ 168 (631)
++ .+++++.++|+.| +|++++..... ............+..|+++|++||.+ +++........|..
T Consensus 317 ~~--------~~~~~~~~kg~~~ylcl~k~~~~l~~~~~~~~~~~~~~~il~Wl~~T~tGD~~--El~~~~~~~~~w~~- 385 (820)
T PRK07246 317 EV--------FHIDCHSLKGPQNYLKLDAFYDSLQQNDDNRLVNRYKMQLLVWLTETETGDLD--EIKQKQRYAAYFDQ- 385 (820)
T ss_pred Hh--------cCCcEEEEECCcccccHHHHHHHhhccCcchHHHHHHHHHHHHHhcCCCCCHh--hccCCccccHHHHH-
Confidence 54 2355678999988 99999876432 11111222233345699999999864 45432221111221
Q ss_pred CCCCCCCChHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCCcEEEEeCCcchHHHHHhhcc
Q 006790 169 VLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALS 248 (631)
Q Consensus 169 ~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAHnl~~~a~~~~s 248 (631)
+ .++ .|+...|++++.|||+++|+.+++||||||||+||+++...+ ..+|+++++||||||||++++.+..+
T Consensus 386 -i---~~~-~~~~~~cp~~~~cf~~~ar~~a~~AdivItNHall~~~~~~~---~~~p~~~~lIiDEAH~l~~~~~~~~~ 457 (820)
T PRK07246 386 -L---KHD-GNLSQSSLFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDD---KDFARNKVLVFDEAQKLMLQLEQLSR 457 (820)
T ss_pred -h---hcc-CCCCCCCCcchhhHHHHHHHHHHhCCEEEEchHHHHHHHhhc---cCCCCCCEEEEECcchhHHHHHHHhc
Confidence 0 011 124457999999999999999999999999999999765332 23789999999999999999887777
Q ss_pred ceecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhccCcchhchHH
Q 006790 249 VSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEH 328 (631)
Q Consensus 249 ~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 328 (631)
..++...+...+..+.. ... ..+.. ..++.+.
T Consensus 458 ~~~~~~~~~~~l~~~~~---~~~-------~~~~~---~~~~~~~----------------------------------- 489 (820)
T PRK07246 458 HQLNITSFLQTIQKALS---GPL-------PLLQK---RLLESIS----------------------------------- 489 (820)
T ss_pred ceecHHHHHHHHHHHHH---HHH-------HHHhh---hhHHHHH-----------------------------------
Confidence 77887776654332110 000 00000 0000000
Q ss_pred HHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhhcCCCccchhHHHHHHHHHhc
Q 006790 329 FLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVG 408 (631)
Q Consensus 329 ~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~l~~~~~f~~~~~ 408 (631)
..+.++.+.+..... ....... ..++...++.+.. .....+..++ .
T Consensus 490 --~~~~~~~~~~~~~~~--------~~~~~~~---------------l~~l~~~l~~l~~------~~~~~~~~~~---~ 535 (820)
T PRK07246 490 --FELLQLSEQFYQGKE--------RQLIHDS---------------LSRLHQYFSELEV------AGFQELQAFF---A 535 (820)
T ss_pred --HHHHHHHHHHHhhhh--------hHHHHHH---------------HHHHHHHHHHHHH------HHHHHHHHHH---h
Confidence 000000000000000 0000000 0111111111110 0001111111 1
Q ss_pred ccCCceEEEEecCCCCCCCCCCCeEEEEecCcccccHHHhhccCEEEEecCCCCCc--cchhhhcCCCCccccccceeec
Q 006790 409 TYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPI--DLYPRLLNFHPVVSRSFKMSLT 486 (631)
Q Consensus 409 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~l~~l~~~~~svIltSaTL~p~--~~f~~~lG~~~~~~~~~~~~~~ 486 (631)
. .+ .++|++..... ......|+..|++++. ++.+|++.+++|||||||++. .+|.+.+|++.....+.++++.
T Consensus 536 ~-~~-~~~W~e~~~~~--~~~~~~l~~~pl~v~~-~~~~~~~~~~~i~tSATL~v~~~f~~~~~lGl~~~~~~~~~~~~~ 610 (820)
T PRK07246 536 T-AE-GDYWLESEKQS--EKRVTYLNSASKAFTH-FSQLLPETCKTYFVSATLQISPRVSLADLLGFEEYLFHKIEKDKK 610 (820)
T ss_pred C-CC-CeEEEEecCCC--CcceeEEEeeeCcHHH-HHHHHhcCCeEEEEecccccCCCCcHHHHcCCCccceecCCCChH
Confidence 1 11 25677654311 1112469999999985 599999999999999999854 3688999997654445566665
Q ss_pred CCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCe
Q 006790 487 RDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKL 566 (631)
Q Consensus 487 ~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~ 566 (631)
++..+ +++. .++.+ ...++++|.+.+++.|..++ .++||+|||||||++|++|++.+... ...
T Consensus 611 ~~~~~--~i~~-----~~p~~-~~~~~~~~~~~~~~~i~~~~-~~~g~~LVLFtS~~~l~~v~~~l~~~--------~~~ 673 (820)
T PRK07246 611 QDQLV--VVDQ-----DMPLV-TETSDEVYAEEIAKRLEELK-QLQQPILVLFNSKKHLLAVSDLLDQW--------QVS 673 (820)
T ss_pred HccEE--EeCC-----CCCCC-CCCChHHHHHHHHHHHHHHH-hcCCCEEEEECcHHHHHHHHHHHhhc--------CCc
Confidence 44432 3331 12222 12356789999999999988 88999999999999999999988642 246
Q ss_pred EEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEEEEEcccCCCCCCC
Q 006790 567 VFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSK 631 (631)
Q Consensus 567 v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPfp~p~dP 631 (631)
+++|+.+. +...++++|++ ++++||||+ |||||||||||+.+.+|||+|||||+|+||
T Consensus 674 ~l~Qg~~~-~~~~l~~~F~~----~~~~vLlG~--~sFwEGVD~p~~~~~~viI~kLPF~~P~dP 731 (820)
T PRK07246 674 HLAQEKNG-TAYNIKKRFDR----GEQQILLGL--GSFWEGVDFVQADRMIEVITRLPFDNPEDP 731 (820)
T ss_pred EEEeCCCc-cHHHHHHHHHc----CCCeEEEec--chhhCCCCCCCCCeEEEEEecCCCCCCCCH
Confidence 78888654 34567888876 578999999 999999999998888899999999999998
No 10
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=8e-63 Score=555.55 Aligned_cols=543 Identities=23% Similarity=0.278 Sum_probs=332.7
Q ss_pred eEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHH
Q 006790 8 VTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 8 ~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
..+.||+..+|+.|++||..|.+++.+++++++|||||||||++||+||+.|+... ++ +|||+|+|+++|+|++++.
T Consensus 7 ~~~~~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~--~~-~viist~t~~lq~q~~~~~ 83 (654)
T COG1199 7 LAVAFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREE--GK-KVIISTRTKALQEQLLEED 83 (654)
T ss_pred HHhhCCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHc--CC-cEEEECCCHHHHHHHHHhh
Confidence 45678887789999999999999999999999999999999999999999999877 47 9999999999999999976
Q ss_pred HhhhhhcccCCCCccceeEEEeCCCCc-cccChhhhcccCcchHHHHHHH-------hhhHHHHhhhhcCCCCCC-Cccc
Q 006790 88 KLLHNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAACRK-------RTASWVRALAAENPNIET-CEFF 158 (631)
Q Consensus 88 ~~l~~~~~~~~~~~~~~~~~~l~gr~~-lC~~~~~~~~~~~~~~~~~c~~-------l~~~w~~~~~~g~~~~~~-c~~~ 158 (631)
..+..... ....++..++||.| +|+.+.......+......|.. ....|+.++.+++.+... +...
T Consensus 84 ~~~~~~~~-----~~~~~~~~~kgr~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 (654)
T COG1199 84 LPIHKLLK-----KLGGKFALLKGRSNYLCLSRLERLAQLGGDDDDYLQSLALKALADLLVWLTETKTGDLRELTPKALD 158 (654)
T ss_pred cchhhhhh-----hhhhHHHHHhccccccchHHHHHHHHccCcchhHHhhhhHHHHHHHHHHhhcCCCCChhhccccccc
Confidence 65432221 12224578999999 7777665332222222233332 134688888777643211 1111
Q ss_pred cchHHhhhcCCCCCCCC-ChHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCCcEEEEeCCc
Q 006790 159 ENYEKAASAAVLPPGVY-TLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAH 237 (631)
Q Consensus 159 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAH 237 (631)
.... ..... ...|....|+.+..|||+.+|+.++.||+||+||++++.+...+.....+|++.++||||||
T Consensus 159 ~~~~--------~~~~~~~~~~~~~~cp~~~~c~~~~~~~~~~~ad~vv~nh~~~~~~~~~~~~~~~~p~~~v~v~DEAH 230 (654)
T COG1199 159 DPLW--------TLVTDDKDSCLGEDCPYYTECFYFPARKEAENADLVVTNHALLLADVALEESRILLPENDVVVFDEAH 230 (654)
T ss_pred cchh--------hhhhcccccccccCCcchhhhHHHHHHHHHhhCCEEEEccHHHHhHHHhhhhhccCCcccEEEEeccc
Confidence 1110 00001 11233467999999999999999999999999999999876554322116789999999999
Q ss_pred chHHHHHhhccceecHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhh
Q 006790 238 NIDNVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKE 317 (631)
Q Consensus 238 nl~~~a~~~~s~~ls~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 317 (631)
||++.|++++|..++..+|..+.+++......... ...........+...++.+...... . .........
T Consensus 231 ~l~d~a~~~~s~~l~~~~L~~~~~~~~~~~~~~~~-~~~~~~~~~~~L~~~~~~~~~~~~~--~------~~~~~~~~~- 300 (654)
T COG1199 231 NLPDIARSALSIRLSERTLERLLKEIQALGETLEK-DLKRLEDLADRLEKALEDLRELLIF--D------VDELGNLRE- 300 (654)
T ss_pred cchHHHHHHHHHHhhHHHHHHHHHHHHHhhhhhhh-hHHHHHhhHHHHHHHHHHHHHHHhc--c------hhhhhhHHH-
Confidence 99999999999999999999998877665421000 0000001111111111111110000 0 000000000
Q ss_pred ccCcchhchHHHHHHHHHHHHHHHhhhhcccccccChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhhcCCCccchh
Q 006790 318 AVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHI 397 (631)
Q Consensus 318 ~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~l 397 (631)
...... ........+..+.+.+...++. ...+...... ..+ .......++...+..
T Consensus 301 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~--~~d--~~~~~~~~~~~~~~~------------ 356 (654)
T COG1199 301 RLREQL-SSEEAKEALGKLEEALLEKLKN-------LSELLGLSQN--ELD--RPTSILERLKEELDR------------ 356 (654)
T ss_pred hccccc-hhhHHHHHHHHHHHHHHHHHHH-------HHHHHHhhhh--hcc--chhHHHHHHHHHHHH------------
Confidence 000000 0000000001111110000000 0000000000 000 000001111111110
Q ss_pred HHHHHHHH--HhcccCCceEEEEecCCCCCCCCCCCeEEEEecCcccccHHHhhccCEEEEecCCCCCccchhhhcCCCC
Q 006790 398 QTICDFAT--LVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHP 475 (631)
Q Consensus 398 ~~~~~f~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~l~~l~~~~~svIltSaTL~p~~~f~~~lG~~~ 475 (631)
+.. ........+..|++..+.. ....+...|++|+...+.+|++.+++|||||||+|.++|...+|+..
T Consensus 357 -----~~~~~~~~~~~~~~~~w~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~vl~SaTL~~~~~f~~~~~~~~ 427 (654)
T COG1199 357 -----LLSRELLLSDDPDYSYWLEIEERE----GVLLLVLPLLVPSKLLEELFSKVASVVLTSATLSPLDSFSSLLGLLG 427 (654)
T ss_pred -----HHhhcccccCCCCceEEEEecccc----cceeEEeecccHHHHHHHHHhhcCcEEEeeeeccCCCcHHHHHHHcC
Confidence 010 0011234577787765532 11134566666666668999999999999999999999998887654
Q ss_pred ccccc----cceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHH
Q 006790 476 VVSRS----FKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIAT 551 (631)
Q Consensus 476 ~~~~~----~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~ 551 (631)
..... .+.++...... ...+++.|..++++++.++++..|.++++..|||+|||||||++|+.+++.
T Consensus 428 ~~~~~~~~~~~spf~~~~~~---------~~~v~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~lvlF~Sy~~l~~~~~~ 498 (654)
T COG1199 428 LEEKLRFLSLPSPFNYEEQG---------QLYVPTDLPEPREPELLAKLAAYLREILKASPGGVLVLFPSYEYLKRVAER 498 (654)
T ss_pred CccccceeccCCCCChhhcc---------eEeccccCCCCCChHHHHHHHHHHHHHHhhcCCCEEEEeccHHHHHHHHHH
Confidence 32211 11111111100 012344455556568889999999999999999999999999999999999
Q ss_pred HhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEEEEEcccCCCCCCC
Q 006790 552 WNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQYTLSK 631 (631)
Q Consensus 552 ~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPfp~p~dP 631 (631)
|+.... ...++.|+. .+++.++++|++. +++ +++|++|+|||||||+|+.|++|||+|||||+|+||
T Consensus 499 ~~~~~~------~~~v~~q~~--~~~~~~l~~f~~~---~~~--~~lv~~gsf~EGVD~~g~~l~~vvI~~lPfp~p~dp 565 (654)
T COG1199 499 LKDERS------TLPVLTQGE--DEREELLEKFKAS---GEG--LILVGGGSFWEGVDFPGDALRLVVIVGLPFPNPDDP 565 (654)
T ss_pred HhhcCc------cceeeecCC--CcHHHHHHHHHHh---cCC--eEEEeeccccCcccCCCCCeeEEEEEecCCCCCCCH
Confidence 986421 123555444 4567899999986 333 444555999999999999999999999999999998
No 11
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=100.00 E-value=1.3e-48 Score=391.37 Aligned_cols=258 Identities=47% Similarity=0.775 Sum_probs=207.0
Q ss_pred EeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCC--CceEEEEecchhhHHHHHHH
Q 006790 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 9 ~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~--~~~vi~~t~T~~l~~Q~~~e 86 (631)
+|.|||++ ||+|.+||+.|++++.+++++++|||||||||+|||+|++.|+...+.. +.+|+|+|+|+++++|++++
T Consensus 2 ~~~FPy~~-r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~ 80 (289)
T smart00489 2 LFYFPYEP-YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEE 80 (289)
T ss_pred cccCCCCC-CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHH
Confidence 58899997 9999999999999999999999999999999999999999998876431 12799999999999999999
Q ss_pred HHhhhhh---------------cccCCCCccceeEEEeCCCCccccChhhhcccCcc-hHHHHHHHhhhHHHHhh--hhc
Q 006790 87 LKLLHNY---------------QTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRD-SVDAACRKRTASWVRAL--AAE 148 (631)
Q Consensus 87 l~~l~~~---------------~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~-~~~~~c~~l~~~w~~~~--~~g 148 (631)
++++... ..+.-..+.++++++|+||+++|+++.+....... ..++.|..+...|...+ .+|
T Consensus 81 l~~~~~~~~~~~~~t~sq~~q~~~el~~~~~~~~~~~l~sR~~lCin~~v~~~~~~~~~~~~~C~~l~~~~~~~~~~~~~ 160 (289)
T smart00489 81 LRKLMQKVEYESDEESEKQAQLLHELGREKPKVLGLSLTSRKNLCLNPEVRTLKQNGLVVDEVCRSLTASKARKYRYENP 160 (289)
T ss_pred HHhcccccceecccchhHHHHHHHHHhccCCCcceeEeechhhcCCChHHhhcccccchHHHHHHHHHhhcccccccccc
Confidence 9876310 00000014578899999999999999887543222 23467988777666543 234
Q ss_pred CCCCCCCccccchHHhhhcCCCCCCCCChHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCC
Q 006790 149 NPNIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKE 228 (631)
Q Consensus 149 ~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~ 228 (631)
+ ...|+|+.+.........+...++|++++...|..++.|||+.+|+.+++|||||+||+|||++.+++.++..+ ++
T Consensus 161 ~--~~~c~~~~~~~~~~~~~~~~~~~~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l-~~ 237 (289)
T smart00489 161 K--VERCPFYENTEFLLVRDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIEL-KD 237 (289)
T ss_pred C--CCCCCccchhhhhhhhhhcccCCCCHHHHHHhcccCCCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhcccc-cc
Confidence 3 36799998754322111234578999999999999999999999999999999999999999998877554444 68
Q ss_pred cEEEEeCCcchHHHHHhhccceecHHHHHHHHHHHHHHHHHH
Q 006790 229 SVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEI 270 (631)
Q Consensus 229 ~~~IiDEAHnl~~~a~~~~s~~ls~~~l~~~~~~l~~~~~~~ 270 (631)
++|||||||||+++|++++|.+++...|..+.+++..+...+
T Consensus 238 ~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~ 279 (289)
T smart00489 238 SIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERI 279 (289)
T ss_pred cEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999888765433
No 12
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=100.00 E-value=1.3e-48 Score=391.37 Aligned_cols=258 Identities=47% Similarity=0.775 Sum_probs=207.0
Q ss_pred EeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCC--CceEEEEecchhhHHHHHHH
Q 006790 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 9 ~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~--~~~vi~~t~T~~l~~Q~~~e 86 (631)
+|.|||++ ||+|.+||+.|++++.+++++++|||||||||+|||+|++.|+...+.. +.+|+|+|+|+++++|++++
T Consensus 2 ~~~FPy~~-r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~ 80 (289)
T smart00488 2 LFYFPYEP-YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEE 80 (289)
T ss_pred cccCCCCC-CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHH
Confidence 58899997 9999999999999999999999999999999999999999998876431 12799999999999999999
Q ss_pred HHhhhhh---------------cccCCCCccceeEEEeCCCCccccChhhhcccCcc-hHHHHHHHhhhHHHHhh--hhc
Q 006790 87 LKLLHNY---------------QTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRD-SVDAACRKRTASWVRAL--AAE 148 (631)
Q Consensus 87 l~~l~~~---------------~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~-~~~~~c~~l~~~w~~~~--~~g 148 (631)
++++... ..+.-..+.++++++|+||+++|+++.+....... ..++.|..+...|...+ .+|
T Consensus 81 l~~~~~~~~~~~~~t~sq~~q~~~el~~~~~~~~~~~l~sR~~lCin~~v~~~~~~~~~~~~~C~~l~~~~~~~~~~~~~ 160 (289)
T smart00488 81 LRKLMQKVEYESDEESEKQAQLLHELGREKPKVLGLSLTSRKNLCLNPEVRTLKQNGLVVDEVCRSLTASKARKYRYENP 160 (289)
T ss_pred HHhcccccceecccchhHHHHHHHHHhccCCCcceeEeechhhcCCChHHhhcccccchHHHHHHHHHhhcccccccccc
Confidence 9876310 00000014578899999999999999887543222 23467988777666543 234
Q ss_pred CCCCCCCccccchHHhhhcCCCCCCCCChHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCC
Q 006790 149 NPNIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKE 228 (631)
Q Consensus 149 ~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~ 228 (631)
+ ...|+|+.+.........+...++|++++...|..++.|||+.+|+.+++|||||+||+|||++.+++.++..+ ++
T Consensus 161 ~--~~~c~~~~~~~~~~~~~~~~~~~~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l-~~ 237 (289)
T smart00488 161 K--VERCPFYENTEFLLVRDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIEL-KD 237 (289)
T ss_pred C--CCCCCccchhhhhhhhhhcccCCCCHHHHHHhcccCCCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhcccc-cc
Confidence 3 36799998754322111234578999999999999999999999999999999999999999998877554444 68
Q ss_pred cEEEEeCCcchHHHHHhhccceecHHHHHHHHHHHHHHHHHH
Q 006790 229 SVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEI 270 (631)
Q Consensus 229 ~~~IiDEAHnl~~~a~~~~s~~ls~~~l~~~~~~l~~~~~~~ 270 (631)
++|||||||||+++|++++|.+++...|..+.+++..+...+
T Consensus 238 ~~lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~~ 279 (289)
T smart00488 238 SIVIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFERI 279 (289)
T ss_pred cEEEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999888765433
No 13
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=99.97 E-value=1.6e-32 Score=256.14 Aligned_cols=173 Identities=31% Similarity=0.663 Sum_probs=129.1
Q ss_pred EEecchhhHHHHHHHHHhhhhhcccCCCCccceeEEEeCCCCccccChhhhcccCcchHHHHHHHhhhHHHHhhhhcCCC
Q 006790 72 YCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPN 151 (631)
Q Consensus 72 ~~t~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~g~~~ 151 (631)
|+||||+|++|+++||+++.++.+. +.++++++|+||+++|+++.+.....++.+++.|..+...|...
T Consensus 1 y~~RThsQl~q~i~El~~~~~~~~~----~~~~~~~~l~gR~~~C~~~~v~~~~~~~~~~~~C~~l~~~~~~~------- 69 (174)
T PF06733_consen 1 YASRTHSQLSQVIRELKKINKYRPK----GESIKAVILKGRQNLCINSKVKRLANNEDINEFCRELRKSGKRK------- 69 (174)
T ss_dssp EEESSHHHHHHHHHHHCCHCCCS-----------EEEE--CCCC-TTCHHHTT-SHHHHHHHHHHHHHHHHCT-------
T ss_pred CCCcCHHHHHHHHHHHHHHHhhccc----ccceeeeEeccccccccCchhhhhhhhhhHHHHHHHhhcccccc-------
Confidence 7999999999999999998655432 45789999999999999988876655667788898877544321
Q ss_pred CCCCccccchHHhhh-cCCCCCCCCChHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCCcE
Q 006790 152 IETCEFFENYEKAAS-AAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (631)
Q Consensus 152 ~~~c~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~ 230 (631)
..|+|+.+...... .......+|+++++.+.|+..+.||||.+|+.+.+|||||+||+|||++.++..+....+++.+
T Consensus 70 -~~C~~~~~~~~~~~~~~~~~~~~~d~~~l~~~~~~~~~CPY~~~r~~~~~adivi~~y~yl~~~~~~~~~~~~~~~~~i 148 (174)
T PF06733_consen 70 -ESCPYYNNFDEIEELSDLSNEEVWDIEELVEIGKKHGVCPYYLARELAKNADIVICNYNYLFDPSIRKSLFGIDLKDNI 148 (174)
T ss_dssp -CCSTTTTGGGG-HHHHHHHCHCHHHHHHHHHHHHHCT--HHHHHHHCGGG-SEEEEETHHHHSHHHHHHHCT--CCCEE
T ss_pred -cccchhHHHHhHHHhhhhcccccccHHHHHHhcCCCCCChhHHHHHhcccCCEEEeCHHHHhhHHHHhhhccccccCcE
Confidence 37999976522111 1123447899999999999999999999999999999999999999999888765433468899
Q ss_pred EEEeCCcchHHHHHhhccceecHHHH
Q 006790 231 VVFDEAHNIDNVCIEALSVSVRRQTL 256 (631)
Q Consensus 231 ~IiDEAHnl~~~a~~~~s~~ls~~~l 256 (631)
|||||||||+++|++++|.+|+..+|
T Consensus 149 vI~DEAHNL~~~~~~~~s~~is~~~L 174 (174)
T PF06733_consen 149 VIFDEAHNLEDAARDSFSFSISESQL 174 (174)
T ss_dssp EEETTGGGCGGGCHCCC-EEEEHHHH
T ss_pred EEEecccchHHHHHHHhcceechhhC
Confidence 99999999999999999999998775
No 14
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=99.90 E-value=3.3e-24 Score=197.98 Aligned_cols=98 Identities=30% Similarity=0.583 Sum_probs=77.5
Q ss_pred HHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCc
Q 006790 524 LVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGK 603 (631)
Q Consensus 524 i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gs 603 (631)
|.++++.+|||+|||||||+.|+.+++.|+.... .....+|.|.. .+...++++|++ ++++|||||+|||
T Consensus 1 i~~l~~~~~g~~lv~f~Sy~~l~~~~~~~~~~~~----~~~~~v~~q~~--~~~~~~l~~~~~----~~~~il~~v~~g~ 70 (167)
T PF13307_consen 1 ILELISAVPGGVLVFFPSYRRLEKVYERLKERLE----EKGIPVFVQGS--KSRDELLEEFKR----GEGAILLAVAGGS 70 (167)
T ss_dssp HHHHHHCCSSEEEEEESSHHHHHHHHTT-TSS-E-----ETSCEEESTC--CHHHHHHHHHCC----SSSEEEEEETTSC
T ss_pred ChHHHhcCCCCEEEEeCCHHHHHHHHHHHHhhcc----cccceeeecCc--chHHHHHHHHHh----ccCeEEEEEeccc
Confidence 5688999999999999999999999999987632 22457898853 456778888887 5889999999999
Q ss_pred ccccccCCCCCceEEEEEcccCCCCCCC
Q 006790 604 VAEGIDFDRHYGRLVIMFGVPFQYTLSK 631 (631)
Q Consensus 604 f~EGIDf~g~~lr~VII~gLPfp~p~dP 631 (631)
|||||||+|+.||+|||+|||||+|+||
T Consensus 71 ~~EGiD~~~~~~r~vii~glPfp~~~d~ 98 (167)
T PF13307_consen 71 FSEGIDFPGDLLRAVIIVGLPFPPPSDP 98 (167)
T ss_dssp CGSSS--ECESEEEEEEES-----TTCH
T ss_pred EEEeecCCCchhheeeecCCCCCCCCCH
Confidence 9999999999999999999999999987
No 15
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=99.86 E-value=1.1e-21 Score=174.52 Aligned_cols=86 Identities=45% Similarity=0.838 Sum_probs=76.0
Q ss_pred hHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEEEEE
Q 006790 542 YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMF 621 (631)
Q Consensus 542 y~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~ 621 (631)
|++|+++++.|++.+.+ ...+.||+|+++..+.+.++++|++..+.+ |+|||||+||+|||||||+|+.||+|||+
T Consensus 1 y~~m~~v~~~~~~~~~~---~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~-g~iL~~v~~G~~~EGiD~~g~~~r~vii~ 76 (142)
T smart00491 1 YRYLEQVVEYWKENGIL---EINKPVFIEGKDSGETEELLEKYSAACEAR-GALLLAVARGKVSEGIDFPDDLGRAVIIV 76 (142)
T ss_pred ChHHHHHHHHHHhcCcc---ccCceEEEECCCCchHHHHHHHHHHhcCCC-CEEEEEEeCCeeecceecCCCccEEEEEE
Confidence 78999999999976543 234789999998766678999999876655 79999999999999999999999999999
Q ss_pred cccCCCCCCC
Q 006790 622 GVPFQYTLSK 631 (631)
Q Consensus 622 gLPfp~p~dP 631 (631)
|||||+|+||
T Consensus 77 glPfp~~~d~ 86 (142)
T smart00491 77 GIPFPNPDSP 86 (142)
T ss_pred ecCCCCCCCH
Confidence 9999999997
No 16
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=99.80 E-value=1.2e-19 Score=161.01 Aligned_cols=85 Identities=35% Similarity=0.683 Sum_probs=77.3
Q ss_pred hHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEEEEE
Q 006790 542 YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMF 621 (631)
Q Consensus 542 y~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~ 621 (631)
|++|+++++.|++.+.+.+|.+++.||+|+++..+...++++|++. +.++|||||+ +|||||||+|+.||+|||+
T Consensus 1 y~~m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~---~~~~iL~~~~--~~~EGiD~~g~~~r~vii~ 75 (141)
T smart00492 1 YQYMESFVQYWKENGILENINKNLLLLVQGEDGKETGKLLEKYVEA---CENAILLATA--RFSEGVDFPGDYLRAVIID 75 (141)
T ss_pred CHHHHHHHHHHHHcCchhhHhcCCeEEEeCCChhHHHHHHHHHHHc---CCCEEEEEcc--ceecceecCCCCeeEEEEE
Confidence 7899999999999999998988899999998876778899999985 3349999996 4999999999999999999
Q ss_pred cccCCCCCCC
Q 006790 622 GVPFQYTLSK 631 (631)
Q Consensus 622 gLPfp~p~dP 631 (631)
|||||+|+||
T Consensus 76 glPfp~~~d~ 85 (141)
T smart00492 76 GLPFPYPDSP 85 (141)
T ss_pred ecCCCCCCCH
Confidence 9999999998
No 17
>PF06777 DUF1227: Protein of unknown function (DUF1227); InterPro: IPR010643 This domain represents a conserved region within a number of eukaryotic DNA repair helicases.; GO: 0005634 nucleus
Probab=99.71 E-value=1.1e-16 Score=138.26 Aligned_cols=141 Identities=56% Similarity=0.873 Sum_probs=129.5
Q ss_pred hhhcchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhccCcchhchHHHHHHHHHHHHHHHhhhhccccccc
Q 006790 273 FKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKE 352 (631)
Q Consensus 273 ~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~ 352 (631)
++..+.++|+++|.+++++|+..+...+.+.++.+|.+|+++..+.+||+|+++++|+.++++++++++.+++..++..+
T Consensus 6 ~k~~d~~rLq~EY~rLV~GL~~~~~~~~~d~~~~npvLp~dil~eaVPGnIR~AeHFv~flkR~veylk~rlrv~~v~~e 85 (146)
T PF06777_consen 6 IKETDAQRLQDEYDRLVEGLREAEIARETDEILANPVLPDDILKEAVPGNIRRAEHFVAFLKRFVEYLKTRLRVQHVISE 85 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccccchhhcCCCCchhhhhhcCCchHHhHHHHHHHHHHHHHHHHHHhhhcceeec
Confidence 34457788999999999999987766666778999999999999999999999999999999999999999998888899
Q ss_pred ChhHHHHHHHhhhccccchhhhhHHHHHHHHHHhhhcCCCccchhHHHHHHHHHhcccCCc
Q 006790 353 GPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVGTYTRG 413 (631)
Q Consensus 353 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~l~~~~~f~~~~~~~~~~ 413 (631)
+|.+|++.+.+...++.+++++|.+||++++++|+..+.++|.++..+++|.+++.+|.+|
T Consensus 86 ~P~sFL~~~~~~~~id~k~LrFc~eRL~sLl~TLei~d~~df~~L~~Va~FaTLv~tY~~G 146 (146)
T PF06777_consen 86 SPLSFLQHLKDETFIDRKPLRFCSERLSSLLRTLEITDIDDFSALQLVADFATLVSTYSKG 146 (146)
T ss_pred CHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHCCCcHhhhhHHHHHHHHHHHHHHhcCC
Confidence 9999999999999999999999999999999999999889999999999999999887653
No 18
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.70 E-value=3.7e-15 Score=161.47 Aligned_cols=75 Identities=19% Similarity=0.159 Sum_probs=62.7
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
.+|+.++|.|.+.+..+. +++++++.||||||||++|++|.+.......... +++|.+||.+|..|+.++++.+.
T Consensus 22 ~g~~~~t~iQ~~ai~~~l----~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~-~~lil~PtreLa~Q~~~~~~~~~ 96 (460)
T PRK11776 22 LGYTEMTPIQAQSLPAIL----AGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRV-QALVLCPTRELADQVAKEIRRLA 96 (460)
T ss_pred CCCCCCCHHHHHHHHHHh----cCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCc-eEEEEeCCHHHHHHHHHHHHHHH
Confidence 578878999998887654 5788999999999999999999887764432234 79999999999999999988864
No 19
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.70 E-value=5.7e-15 Score=158.19 Aligned_cols=76 Identities=26% Similarity=0.251 Sum_probs=62.2
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC-------CCCceEEEEecchhhHHHH
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-------ENPVKLIYCTRTVHEMEKT 83 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~-------~~~~~vi~~t~T~~l~~Q~ 83 (631)
.++|..|+|.|.+.+..+ -+|+++++.||||||||+||++|++......+ .+. +++|.+||++|..|+
T Consensus 25 ~~g~~~pt~iQ~~aip~i----l~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~-~~lil~PtreLa~Qi 99 (423)
T PRK04837 25 KKGFHNCTPIQALALPLT----LAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQP-RALIMAPTRELAVQI 99 (423)
T ss_pred HCCCCCCCHHHHHHHHHH----hCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCc-eEEEECCcHHHHHHH
Confidence 368888899999877654 46788999999999999999999887654321 124 899999999999999
Q ss_pred HHHHHhhh
Q 006790 84 LAELKLLH 91 (631)
Q Consensus 84 ~~el~~l~ 91 (631)
.+++..+.
T Consensus 100 ~~~~~~l~ 107 (423)
T PRK04837 100 HADAEPLA 107 (423)
T ss_pred HHHHHHHh
Confidence 99888764
No 20
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.69 E-value=1.1e-14 Score=156.68 Aligned_cols=76 Identities=24% Similarity=0.189 Sum_probs=62.2
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC---CCCceEEEEecchhhHHHHHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---ENPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~---~~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
.+|..|++.|.+.+..+. +++.+++.||||+|||++|++|++.+....+ .+..+++|.+||.+|..|+.+.+.
T Consensus 19 ~g~~~p~~iQ~~ai~~~~----~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~ 94 (434)
T PRK11192 19 KGYTRPTAIQAEAIPPAL----DGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQAR 94 (434)
T ss_pred CCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHH
Confidence 678888999999887754 5678999999999999999999987764321 112389999999999999999887
Q ss_pred hhh
Q 006790 89 LLH 91 (631)
Q Consensus 89 ~l~ 91 (631)
.+.
T Consensus 95 ~l~ 97 (434)
T PRK11192 95 ELA 97 (434)
T ss_pred HHH
Confidence 764
No 21
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.68 E-value=1.3e-14 Score=156.51 Aligned_cols=76 Identities=17% Similarity=0.172 Sum_probs=61.9
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCC-----CCceEEEEecchhhHHHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-----NPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~-----~~~~vi~~t~T~~l~~Q~~~e 86 (631)
++|..|+|.|.+.+..+. +++++++.||||+|||++|++|++........ ...+++|.+||.+|..|+.++
T Consensus 19 ~g~~~pt~iQ~~ai~~il----~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~ 94 (456)
T PRK10590 19 QGYREPTPIQQQAIPAVL----EGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGEN 94 (456)
T ss_pred CCCCCCCHHHHHHHHHHh----CCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHH
Confidence 578878999999887654 57789999999999999999998877543211 112799999999999999998
Q ss_pred HHhhh
Q 006790 87 LKLLH 91 (631)
Q Consensus 87 l~~l~ 91 (631)
++.+.
T Consensus 95 ~~~~~ 99 (456)
T PRK10590 95 VRDYS 99 (456)
T ss_pred HHHHh
Confidence 88764
No 22
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.67 E-value=9.5e-15 Score=159.66 Aligned_cols=75 Identities=24% Similarity=0.190 Sum_probs=61.3
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC-------CCCCceEEEEecchhhHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-------PENPVKLIYCTRTVHEMEKTL 84 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~-------~~~~~~vi~~t~T~~l~~Q~~ 84 (631)
.+|..|+|.|.+.+..+. .|+++++.||||+|||++|++|++...... ..+. +++|.+||++|..|+.
T Consensus 139 ~g~~~ptpiQ~~aip~il----~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~-~aLIL~PTreLa~Qi~ 213 (518)
T PLN00206 139 AGYEFPTPIQMQAIPAAL----SGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNP-LAMVLTPTRELCVQVE 213 (518)
T ss_pred cCCCCCCHHHHHHHHHHh----cCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCc-eEEEEeCCHHHHHHHH
Confidence 578878999999877654 678999999999999999999988765321 1245 8999999999999998
Q ss_pred HHHHhhh
Q 006790 85 AELKLLH 91 (631)
Q Consensus 85 ~el~~l~ 91 (631)
++++.+.
T Consensus 214 ~~~~~l~ 220 (518)
T PLN00206 214 DQAKVLG 220 (518)
T ss_pred HHHHHHh
Confidence 8777653
No 23
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.67 E-value=1.6e-14 Score=159.02 Aligned_cols=76 Identities=22% Similarity=0.232 Sum_probs=62.4
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC-------CCCceEEEEecchhhHHHH
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-------ENPVKLIYCTRTVHEMEKT 83 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~-------~~~~~vi~~t~T~~l~~Q~ 83 (631)
.++|+.++|.|.+.+..+ -+++++++.||||||||++|++|++......+ ... +++|.+||++|..|+
T Consensus 26 ~~g~~~ptpiQ~~~ip~~----l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~-raLIl~PTreLa~Qi 100 (572)
T PRK04537 26 SAGFTRCTPIQALTLPVA----LPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDP-RALILAPTRELAIQI 100 (572)
T ss_pred HCCCCCCCHHHHHHHHHH----hCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCc-eEEEEeCcHHHHHHH
Confidence 368888899999988764 36788999999999999999999887653321 124 899999999999999
Q ss_pred HHHHHhhh
Q 006790 84 LAELKLLH 91 (631)
Q Consensus 84 ~~el~~l~ 91 (631)
.+++.++.
T Consensus 101 ~~~~~~l~ 108 (572)
T PRK04537 101 HKDAVKFG 108 (572)
T ss_pred HHHHHHHh
Confidence 99888764
No 24
>PTZ00110 helicase; Provisional
Probab=99.66 E-value=2e-14 Score=157.66 Aligned_cols=75 Identities=17% Similarity=0.122 Sum_probs=61.3
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC-----CCCceEEEEecchhhHHHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~-----~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
.+|+.|+|.|.+.+..+ ..++.+++.||||+|||++|++|++......+ .++ .++|.+||++|..|+.++
T Consensus 148 ~g~~~pt~iQ~~aip~~----l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp-~~LIL~PTreLa~Qi~~~ 222 (545)
T PTZ00110 148 AGFTEPTPIQVQGWPIA----LSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGP-IVLVLAPTRELAEQIREQ 222 (545)
T ss_pred CCCCCCCHHHHHHHHHH----hcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCc-EEEEECChHHHHHHHHHH
Confidence 46887899999877653 35778999999999999999999987755321 234 799999999999999998
Q ss_pred HHhhh
Q 006790 87 LKLLH 91 (631)
Q Consensus 87 l~~l~ 91 (631)
+.++.
T Consensus 223 ~~~~~ 227 (545)
T PTZ00110 223 CNKFG 227 (545)
T ss_pred HHHHh
Confidence 88763
No 25
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.65 E-value=5.5e-14 Score=155.70 Aligned_cols=76 Identities=17% Similarity=0.154 Sum_probs=62.9
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
++|+.|+|.|.+.+..+ .+++.+++.||||||||+||++|++.......... +++|.+||.+|..|+.+++..+.
T Consensus 24 ~G~~~ptpiQ~~ai~~l----l~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~-~~LIL~PTreLa~Qv~~~l~~~~ 98 (629)
T PRK11634 24 LGYEKPSPIQAECIPHL----LNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAP-QILVLAPTRELAVQVAEAMTDFS 98 (629)
T ss_pred CCCCCCCHHHHHHHHHH----HcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCC-eEEEEeCcHHHHHHHHHHHHHHH
Confidence 67888899999877664 35788999999999999999999887654433344 89999999999999999888764
Q ss_pred h
Q 006790 92 N 92 (631)
Q Consensus 92 ~ 92 (631)
+
T Consensus 99 ~ 99 (629)
T PRK11634 99 K 99 (629)
T ss_pred h
Confidence 3
No 26
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.64 E-value=3.7e-14 Score=153.54 Aligned_cols=69 Identities=20% Similarity=0.294 Sum_probs=58.1
Q ss_pred eeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 10 ~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
-.|+|..+||.|.+.+..+. +++.+++.||||+|||++|++|++.. ++ ..+|.+||++|..|.++.+..
T Consensus 5 ~~~g~~~~r~~Q~~ai~~~l----~g~dvlv~apTGsGKTl~y~lp~l~~------~~-~~lVi~P~~~L~~dq~~~l~~ 73 (470)
T TIGR00614 5 TVFGLSSFRPVQLEVINAVL----LGRDCFVVMPTGGGKSLCYQLPALCS------DG-ITLVISPLISLMEDQVLQLKA 73 (470)
T ss_pred hhcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCCcHhHHHHHHHHHc------CC-cEEEEecHHHHHHHHHHHHHH
Confidence 36999999999999887754 46789999999999999999998742 35 788999999999988876654
No 27
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.64 E-value=7.2e-14 Score=151.85 Aligned_cols=75 Identities=23% Similarity=0.219 Sum_probs=62.3
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCC-------CCceEEEEecchhhHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-------NPVKLIYCTRTVHEMEKTL 84 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~-------~~~~vi~~t~T~~l~~Q~~ 84 (631)
++|..+++.|.+.+.. +.+|+++++.||||||||++|++|.+......+. .. +++|.+||++|..|+.
T Consensus 105 ~g~~~~~~iQ~~ai~~----~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~-~aLil~PtreLa~Q~~ 179 (475)
T PRK01297 105 LGFPYCTPIQAQVLGY----TLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEP-RALIIAPTRELVVQIA 179 (475)
T ss_pred CCCCCCCHHHHHHHHH----HhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCc-eEEEEeCcHHHHHHHH
Confidence 6788789999988765 4567899999999999999999998876554321 24 8999999999999999
Q ss_pred HHHHhhh
Q 006790 85 AELKLLH 91 (631)
Q Consensus 85 ~el~~l~ 91 (631)
++++.+.
T Consensus 180 ~~~~~l~ 186 (475)
T PRK01297 180 KDAAALT 186 (475)
T ss_pred HHHHHhh
Confidence 9888764
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=99.62 E-value=1.2e-13 Score=155.93 Aligned_cols=73 Identities=18% Similarity=0.170 Sum_probs=61.9
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.+|+.+|+.|.+.+.. +.+|+++++.||||||||+||++|++......+ +. +++|.+||++|..|..+.++.+
T Consensus 32 ~g~~~p~~~Q~~ai~~----il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~-~~-~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 32 AGIHRPWQHQARAAEL----AHAGRHVVVATGTASGKSLAYQLPVLSALADDP-RA-TALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred cCCCcCCHHHHHHHHH----HHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCC-Cc-EEEEEcChHHHHHHHHHHHHHh
Confidence 4677789999887765 457889999999999999999999998776543 34 8999999999999999988775
No 29
>PTZ00424 helicase 45; Provisional
Probab=99.61 E-value=3.8e-13 Score=143.61 Aligned_cols=75 Identities=11% Similarity=0.038 Sum_probs=61.3
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.|+|+.|+|.|.+.+..+. ++.++++.||||+|||++|++|++........+. +++|.+||.+|..|+.+.++.+
T Consensus 45 ~~~~~~~~~~Q~~ai~~i~----~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~-~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 45 SYGFEKPSAIQQRGIKPIL----DGYDTIGQAQSGTGKTATFVIAALQLIDYDLNAC-QALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred HcCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCc-eEEEECCCHHHHHHHHHHHHHH
Confidence 3678878999998877654 5678999999999999999999888765433345 8999999999999988766654
No 30
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=99.60 E-value=4.4e-13 Score=149.49 Aligned_cols=68 Identities=21% Similarity=0.307 Sum_probs=57.4
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.|+|..+||.|.+.+..+. +|+++++.||||+|||++|++|++.. ++ .++|.+||+++..|.++.++.
T Consensus 8 ~fg~~~fr~~Q~~~i~~il----~g~dvlv~~PTG~GKTl~y~lpal~~------~g-~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 8 TFGYDDFRPGQEEIISHVL----DGRDVLVVMPTGGGKSLCYQVPALLL------KG-LTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred hcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCccHhHHHHHHHHHc------CC-cEEEEcCCHHHHHHHHHHHHH
Confidence 5999999999999887764 56789999999999999999998742 34 677789999999988876665
No 31
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.56 E-value=7e-13 Score=147.55 Aligned_cols=68 Identities=21% Similarity=0.326 Sum_probs=57.8
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.|+|+.+||.|.+.+..+. +++.+++.||||+|||++|++|++.. .+ .++|.+||++|..|.++.++.
T Consensus 20 ~fG~~~~r~~Q~~ai~~il----~g~dvlv~apTGsGKTl~y~lpal~~------~g-~tlVisPl~sL~~dqv~~l~~ 87 (607)
T PRK11057 20 TFGYQQFRPGQQEIIDAVL----SGRDCLVVMPTGGGKSLCYQIPALVL------DG-LTLVVSPLISLMKDQVDQLLA 87 (607)
T ss_pred HcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCchHHHHHHHHHHHc------CC-CEEEEecHHHHHHHHHHHHHH
Confidence 5999989999999887654 57889999999999999999998742 35 688889999999998887664
No 32
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.56 E-value=7.1e-13 Score=152.84 Aligned_cols=72 Identities=21% Similarity=0.265 Sum_probs=56.8
Q ss_pred CCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC-----CCCceEEEEecchhhHHHHHHHHH
Q 006790 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~-----~~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
|..++|.|.+.+..+ .+++++++.||||+|||+||++|++......+ ..+.+++|.+||++|..|+.+.+.
T Consensus 30 ~~~~tpiQ~~Ai~~i----l~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 30 FGTFTPPQRYAIPLI----HEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred cCCCCHHHHHHHHHH----HcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 555799999988764 46789999999999999999999887654321 112379999999999999887554
Q ss_pred h
Q 006790 89 L 89 (631)
Q Consensus 89 ~ 89 (631)
.
T Consensus 106 ~ 106 (876)
T PRK13767 106 E 106 (876)
T ss_pred H
Confidence 3
No 33
>PRK09401 reverse gyrase; Reviewed
Probab=99.54 E-value=1.7e-12 Score=151.79 Aligned_cols=72 Identities=21% Similarity=0.175 Sum_probs=56.0
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.+++++ ++.|.+.+..+ -.|+++++.||||+|||..++ +.+.+.... +. +++|.+||++|..|+.+.++.+
T Consensus 76 ~~G~~p-t~iQ~~~i~~i----l~g~dv~i~ApTGsGKT~f~l-~~~~~l~~~--g~-~alIL~PTreLa~Qi~~~l~~l 146 (1176)
T PRK09401 76 KTGSKP-WSLQRTWAKRL----LLGESFAIIAPTGVGKTTFGL-VMSLYLAKK--GK-KSYIIFPTRLLVEQVVEKLEKF 146 (1176)
T ss_pred hcCCCC-cHHHHHHHHHH----HCCCcEEEEcCCCCCHHHHHH-HHHHHHHhc--CC-eEEEEeccHHHHHHHHHHHHHH
Confidence 367875 99999877654 367889999999999996444 444444332 56 9999999999999999988876
Q ss_pred h
Q 006790 91 H 91 (631)
Q Consensus 91 ~ 91 (631)
.
T Consensus 147 ~ 147 (1176)
T PRK09401 147 G 147 (1176)
T ss_pred h
Confidence 4
No 34
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=99.53 E-value=3.9e-12 Score=145.36 Aligned_cols=77 Identities=19% Similarity=0.232 Sum_probs=66.5
Q ss_pred eeCCCCCCChHHHHHHHHHHHHHhcC--CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHH
Q 006790 10 VYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 10 ~~Fpy~~~r~~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
-.|||++ +|.|.+.+..|.+.+..+ ...++.||||+|||.+|+.|++..+.. ++ +++|.+||..|..|..+.+
T Consensus 446 ~~~~f~~-T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~---g~-qvlvLvPT~~LA~Q~~~~f 520 (926)
T TIGR00580 446 DSFPFEE-TPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD---GK-QVAVLVPTTLLAQQHFETF 520 (926)
T ss_pred HhCCCCC-CHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHh---CC-eEEEEeCcHHHHHHHHHHH
Confidence 3699985 999999999999988765 468999999999999999997765432 46 9999999999999999988
Q ss_pred Hhhh
Q 006790 88 KLLH 91 (631)
Q Consensus 88 ~~l~ 91 (631)
+++.
T Consensus 521 ~~~~ 524 (926)
T TIGR00580 521 KERF 524 (926)
T ss_pred HHHh
Confidence 8753
No 35
>PRK01172 ski2-like helicase; Provisional
Probab=99.48 E-value=4.8e-12 Score=143.43 Aligned_cols=70 Identities=24% Similarity=0.305 Sum_probs=58.4
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.+|+ +||.|.+.+.. +.+++++++.||||+|||++++.+.+..... ++ +++|.+||+++..|..+++.++
T Consensus 19 ~~~~-l~~~Q~~ai~~----l~~~~nvlv~apTGSGKTl~a~lail~~l~~---~~-k~v~i~P~raLa~q~~~~~~~l 88 (674)
T PRK01172 19 NDFE-LYDHQRMAIEQ----LRKGENVIVSVPTAAGKTLIAYSAIYETFLA---GL-KSIYIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred CCCC-CCHHHHHHHHH----HhcCCcEEEECCCCchHHHHHHHHHHHHHHh---CC-cEEEEechHHHHHHHHHHHHHH
Confidence 4788 59999998875 4667899999999999999999887654432 46 8999999999999999988764
No 36
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.47 E-value=6.8e-12 Score=141.80 Aligned_cols=80 Identities=15% Similarity=0.208 Sum_probs=60.2
Q ss_pred CCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeC-CCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccC
Q 006790 532 PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (631)
Q Consensus 532 ~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~-~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf 610 (631)
.+..+||+.|....+.+++.+...++ +..+.-+ -+..++...+++|++ |+-.||+|+ ..|..|||+
T Consensus 680 ~esgIIYC~SRke~E~LAe~L~~~Gi-------ka~~YHAGLs~eeR~~vqe~F~~----Gei~VLVAT--dAFGMGIDk 746 (1195)
T PLN03137 680 DECGIIYCLSRMDCEKVAERLQEFGH-------KAAFYHGSMDPAQRAFVQKQWSK----DEINIICAT--VAFGMGINK 746 (1195)
T ss_pred CCCceeEeCchhHHHHHHHHHHHCCC-------CeeeeeCCCCHHHHHHHHHHHhc----CCCcEEEEe--chhhcCCCc
Confidence 34578999999999999999886542 2333322 233456667777776 577899999 689999999
Q ss_pred CCCCceEEEEEcccCC
Q 006790 611 DRHYGRLVIMFGVPFQ 626 (631)
Q Consensus 611 ~g~~lr~VII~gLPfp 626 (631)
|+ .|.||-.++|..
T Consensus 747 PD--VR~VIHydlPkS 760 (1195)
T PLN03137 747 PD--VRFVIHHSLPKS 760 (1195)
T ss_pred cC--CcEEEEcCCCCC
Confidence 97 678999999863
No 37
>PRK02362 ski2-like helicase; Provisional
Probab=99.46 E-value=1.2e-11 Score=141.37 Aligned_cols=72 Identities=18% Similarity=0.223 Sum_probs=60.3
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.+|+.+||.|.+.+.. .+.+++++++.||||+|||++|++|.+.... .++ +++|.+||++|..|..++++++
T Consensus 19 ~g~~~l~p~Q~~ai~~---~~~~g~nvlv~APTGSGKTlia~lail~~l~---~~~-kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 19 EGIEELYPPQAEAVEA---GLLDGKNLLAAIPTASGKTLIAELAMLKAIA---RGG-KALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred CCCCcCCHHHHHHHHH---HHhCCCcEEEECCCcchHHHHHHHHHHHHHh---cCC-cEEEEeChHHHHHHHHHHHHHh
Confidence 4577789999998764 3567889999999999999999999776553 246 8999999999999999988764
No 38
>PRK00254 ski2-like helicase; Provisional
Probab=99.42 E-value=2.3e-11 Score=138.65 Aligned_cols=73 Identities=21% Similarity=0.281 Sum_probs=61.1
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.+|+.++|.|.+.+.. .+.+++++++.||||+|||++|++|.+...... +. +++|.+||+++..|..++++.+
T Consensus 19 ~g~~~l~~~Q~~ai~~---~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~--~~-~~l~l~P~~aLa~q~~~~~~~~ 91 (720)
T PRK00254 19 RGIEELYPPQAEALKS---GVLEGKNLVLAIPTASGKTLVAEIVMVNKLLRE--GG-KAVYLVPLKALAEEKYREFKDW 91 (720)
T ss_pred CCCCCCCHHHHHHHHH---HHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhc--CC-eEEEEeChHHHHHHHHHHHHHH
Confidence 5777789999987764 356788999999999999999999987765433 46 8999999999999999887754
No 39
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.41 E-value=4.6e-11 Score=120.41 Aligned_cols=75 Identities=17% Similarity=0.211 Sum_probs=57.0
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC-CC---CCceEEEEecchhhHHHHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-PE---NPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~-~~---~~~~vi~~t~T~~l~~Q~~~el 87 (631)
++|+...|.|...+-. |-+++.+++|||||+|||+|||+|.+...... .. +..-.+|.|||..|..|+.+-+
T Consensus 24 ~GF~~mTpVQa~tIPl----ll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~ 99 (567)
T KOG0345|consen 24 SGFEKMTPVQAATIPL----LLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVA 99 (567)
T ss_pred cCCcccCHHHHhhhHH----HhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHH
Confidence 5678789999876654 44567899999999999999999998877222 11 1124689999999999998844
Q ss_pred Hhh
Q 006790 88 KLL 90 (631)
Q Consensus 88 ~~l 90 (631)
..+
T Consensus 100 ~~F 102 (567)
T KOG0345|consen 100 QPF 102 (567)
T ss_pred HHH
Confidence 443
No 40
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=99.41 E-value=1.6e-12 Score=124.93 Aligned_cols=75 Identities=19% Similarity=0.166 Sum_probs=63.6
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC--CCCCceEEEEecchhhHHHHHHHHHh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~--~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
++|..+|+.|.+.+..+.+ +++++++||||+|||++|++|++...... ..+. +++|.+||+++..|..+.++.
T Consensus 17 ~~~~~~~~~Q~~~~~~~~~----~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~-~viii~p~~~L~~q~~~~~~~ 91 (203)
T cd00268 17 LGFEKPTPIQARAIPPLLS----GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGP-QALILAPTRELALQIAEVARK 91 (203)
T ss_pred cCCCCCCHHHHHHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCc-eEEEEcCCHHHHHHHHHHHHH
Confidence 5777779999999987765 78899999999999999999988877654 2345 899999999999999988877
Q ss_pred hh
Q 006790 90 LH 91 (631)
Q Consensus 90 l~ 91 (631)
+.
T Consensus 92 ~~ 93 (203)
T cd00268 92 LG 93 (203)
T ss_pred Hh
Confidence 53
No 41
>PRK14701 reverse gyrase; Provisional
Probab=99.40 E-value=1.9e-10 Score=137.93 Aligned_cols=72 Identities=14% Similarity=0.146 Sum_probs=59.3
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.++|+ |++.|.+.+..+. +|+.+++-||||+|||+.++.+++..+. .+. +++|.+||++|..|+.+.++.+
T Consensus 75 ~~G~~-pt~iQ~~~i~~il----~G~d~li~APTGsGKTl~~~~~al~~~~---~g~-~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 75 ITGFE-FWSIQKTWAKRIL----RGKSFSIVAPTGMGKSTFGAFIALFLAL---KGK-KCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred hhCCC-CCHHHHHHHHHHH----cCCCEEEEEcCCCCHHHHHHHHHHHHHh---cCC-eEEEEECHHHHHHHHHHHHHHH
Confidence 47897 5999999887754 4678999999999999977777765543 256 8999999999999999988886
Q ss_pred h
Q 006790 91 H 91 (631)
Q Consensus 91 ~ 91 (631)
.
T Consensus 146 ~ 146 (1638)
T PRK14701 146 C 146 (1638)
T ss_pred H
Confidence 4
No 42
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=99.39 E-value=1.4e-10 Score=136.25 Aligned_cols=86 Identities=23% Similarity=0.408 Sum_probs=63.7
Q ss_pred HHHhhcccCCcEEEEecch---HHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEe
Q 006790 524 LVEMVSIVPDGIVCFFVSY---SYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 600 (631)
Q Consensus 524 i~~~~~~~~gg~LVfF~Sy---~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~ 600 (631)
+.++++..++|+|||+++- +..+.+++.++..|+ +...+-+.. . ...+++|++ |+--||+|+.
T Consensus 318 L~~ll~~l~~~~IVFv~t~~~~~~a~~l~~~L~~~g~-------~a~~lhg~~-~--~~~l~~Fr~----G~~~vLVata 383 (1171)
T TIGR01054 318 LLEIVKKLGTGGIVYVSIDYGKEKAEEIAEFLENHGV-------KAVAYHATK-P--KEDYEKFAE----GEIDVLIGVA 383 (1171)
T ss_pred HHHHHHHcCCCEEEEEeccccHHHHHHHHHHHHhCCc-------eEEEEeCCC-C--HHHHHHHHc----CCCCEEEEec
Confidence 3444455567899999998 999999999886542 222232322 1 457788887 6778999963
Q ss_pred --cCcccccccCCCCCceEEEEEccc
Q 006790 601 --RGKVAEGIDFDRHYGRLVIMFGVP 624 (631)
Q Consensus 601 --~Gsf~EGIDf~g~~lr~VII~gLP 624 (631)
.|-++.|||+|+ ..|.||-+|+|
T Consensus 384 ~~tdv~aRGIDip~-~V~~vI~~~~P 408 (1171)
T TIGR01054 384 SYYGTLVRGLDLPE-RVRYAVFLGVP 408 (1171)
T ss_pred cccCcccccCCCCc-cccEEEEECCC
Confidence 478999999996 77999999999
No 43
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.37 E-value=2.5e-10 Score=133.68 Aligned_cols=77 Identities=14% Similarity=0.100 Sum_probs=64.8
Q ss_pred EeeCCCCCCChHHHHHHHHHHHHHhcC--CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHH
Q 006790 9 TVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 9 ~~~Fpy~~~r~~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
.-.|||++ ++.|.+.+..|...+... ...++.||||+|||.+|+.++..... .++ +|+|.+||..|..|..+.
T Consensus 594 ~~~~~~~~-T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~---~g~-qvlvLvPT~eLA~Q~~~~ 668 (1147)
T PRK10689 594 CDSFPFET-TPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE---NHK-QVAVLVPTTLLAQQHYDN 668 (1147)
T ss_pred HHhCCCCC-CHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH---cCC-eEEEEeCcHHHHHHHHHH
Confidence 34699985 999999999999988765 47899999999999999987655432 256 999999999999999998
Q ss_pred HHhh
Q 006790 87 LKLL 90 (631)
Q Consensus 87 l~~l 90 (631)
+++.
T Consensus 669 f~~~ 672 (1147)
T PRK10689 669 FRDR 672 (1147)
T ss_pred HHHh
Confidence 8763
No 44
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=99.35 E-value=5.7e-12 Score=118.84 Aligned_cols=69 Identities=29% Similarity=0.454 Sum_probs=57.4
Q ss_pred CCCCChHHHHHHHHHHHHHhcC---CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 14 YDNIYPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~---~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
|+ +||.|.+.+..+.+.+... .++++++|||+|||+.++..+.... + +++|.+||.++.+|+.+++..+
T Consensus 2 ~~-lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~------~-~~l~~~p~~~l~~Q~~~~~~~~ 73 (184)
T PF04851_consen 2 YK-LRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA------R-KVLIVAPNISLLEQWYDEFDDF 73 (184)
T ss_dssp -E-E-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH------C-EEEEEESSHHHHHHHHHHHHHH
T ss_pred CC-CCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc------c-ceeEecCHHHHHHHHHHHHHHh
Confidence 44 4999999999999999876 7999999999999998886443332 4 8999999999999999988654
No 45
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=99.33 E-value=6.2e-12 Score=116.95 Aligned_cols=68 Identities=19% Similarity=0.284 Sum_probs=57.3
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
.|.|.+.+..+. +++++++.||||+|||++|+.|++...... ... +++|.+||.++.+|..++++.+.
T Consensus 1 t~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~~-~~~-~~lii~P~~~l~~q~~~~~~~~~ 68 (169)
T PF00270_consen 1 TPLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQEG-KDA-RVLIIVPTRALAEQQFERLRKFF 68 (169)
T ss_dssp -HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHTT-SSS-EEEEEESSHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhccC-CCc-eEEEEeecccccccccccccccc
Confidence 378988887765 578899999999999999999998776654 245 89999999999999999888753
No 46
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.26 E-value=3.7e-09 Score=116.08 Aligned_cols=152 Identities=13% Similarity=0.102 Sum_probs=92.6
Q ss_pred ccHHHhhccCEEEEecCCCCCc-cchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHH
Q 006790 443 AVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 521 (631)
Q Consensus 443 ~l~~l~~~~~svIltSaTL~p~-~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~ 521 (631)
.++.+|..+..+--++||.... +.|.+.-|++-.. +|.+.- ..-.+-|+ -- +++..+-...+.
T Consensus 332 t~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY~l~vv~-------IPtnkp--~~R~d~~d-----~i--~~t~~~k~~ai~ 395 (745)
T TIGR00963 332 TYQNFFRLYEKLSGMTGTAKTEEEEFEKIYNLEVVV-------VPTNRP--VIRKDLSD-----LV--YKTEEEKWKAVV 395 (745)
T ss_pred eHHHHHhhCchhhccCCCcHHHHHHHHHHhCCCEEE-------eCCCCC--eeeeeCCC-----eE--EcCHHHHHHHHH
Confidence 4477888888888999998654 3555555654221 111100 00001011 01 223333345666
Q ss_pred HHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEec
Q 006790 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (631)
Q Consensus 522 ~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~ 601 (631)
+.+.+.. ..+..+|||+.|-..-+.+...+...++ +....-+. ..+++..+..|.. ++++|+.|+
T Consensus 396 ~~i~~~~-~~grpvLV~t~si~~se~ls~~L~~~gi-------~~~~Lna~-q~~rEa~ii~~ag----~~g~VtIAT-- 460 (745)
T TIGR00963 396 DEIKERH-AKGQPVLVGTTSVEKSELLSNLLKERGI-------PHNVLNAK-NHEREAEIIAQAG----RKGAVTIAT-- 460 (745)
T ss_pred HHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHcCC-------CeEEeeCC-hHHHHHHHHHhcC----CCceEEEEe--
Confidence 6666654 4567899999999999999999987653 11122222 2334444555443 689999999
Q ss_pred CcccccccCCCCCce-----EEEEEcccC
Q 006790 602 GKVAEGIDFDRHYGR-----LVIMFGVPF 625 (631)
Q Consensus 602 Gsf~EGIDf~g~~lr-----~VII~gLPf 625 (631)
.-.+.|+|++.+..+ +||.+-+|-
T Consensus 461 nmAgRGtDI~l~~V~~~GGl~VI~t~~p~ 489 (745)
T TIGR00963 461 NMAGRGTDIKLEEVKELGGLYVIGTERHE 489 (745)
T ss_pred ccccCCcCCCccchhhcCCcEEEecCCCC
Confidence 688999999996655 787776663
No 47
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=99.26 E-value=2.4e-09 Score=118.30 Aligned_cols=67 Identities=18% Similarity=0.203 Sum_probs=53.5
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~ 92 (631)
||.|.+++..+. +.+| .++|++||+|||++|++|++..+.. ++ .|+|.|+|..|..|..+.+..+.+
T Consensus 70 rpydVQlig~l~--l~~G--~Iaem~TGeGKTLta~Lpa~l~aL~---g~-~V~VVTpn~yLA~Rdae~m~~l~~ 136 (762)
T TIGR03714 70 FPYDVQVLGAIV--LHQG--NIAEMKTGEGKTLTATMPLYLNALT---GK-GAMLVTTNDYLAKRDAEEMGPVYE 136 (762)
T ss_pred CccHHHHHHHHH--hcCC--ceeEecCCcchHHHHHHHHHHHhhc---CC-ceEEeCCCHHHHHHHHHHHHHHHh
Confidence 677777776663 3444 5999999999999999997665542 56 899999999999999998877653
No 48
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.26 E-value=5.5e-09 Score=114.11 Aligned_cols=153 Identities=10% Similarity=0.037 Sum_probs=90.1
Q ss_pred cccHHHhhccCEEEEecCCCCCc-cchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHH
Q 006790 442 LAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNY 520 (631)
Q Consensus 442 ~~l~~l~~~~~svIltSaTL~p~-~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l 520 (631)
..++.+|..+..+--+|||+... +.|.+..+++... +|..-+.. . .....+-+.+..+-...+
T Consensus 399 It~q~~Fr~Y~kl~GmTGTa~~~~~El~~~y~l~vv~---IPt~kp~~-r------------~~~~~~v~~t~~~K~~aL 462 (656)
T PRK12898 399 ITYQRFFRRYLRLAGMTGTAREVAGELWSVYGLPVVR---IPTNRPSQ-R------------RHLPDEVFLTAAAKWAAV 462 (656)
T ss_pred ehHHHHHHhhHHHhcccCcChHHHHHHHHHHCCCeEE---eCCCCCcc-c------------eecCCEEEeCHHHHHHHH
Confidence 34477888888999999999864 4667777765421 11111100 0 000011111222223445
Q ss_pred HHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEe
Q 006790 521 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 600 (631)
Q Consensus 521 ~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~ 600 (631)
.+.+.+.. ..+..+|||+.|-+..+.+.+.+...++ +...+-+. ....+..+..++ .+++.|++++
T Consensus 463 ~~~i~~~~-~~~~pvLIft~t~~~se~L~~~L~~~gi-------~~~~Lhg~-~~~rE~~ii~~a----g~~g~VlVAT- 528 (656)
T PRK12898 463 AARVRELH-AQGRPVLVGTRSVAASERLSALLREAGL-------PHQVLNAK-QDAEEAAIVARA----GQRGRITVAT- 528 (656)
T ss_pred HHHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCC-------CEEEeeCC-cHHHHHHHHHHc----CCCCcEEEEc-
Confidence 55554432 2356799999999999999999987643 22223232 223333333333 2467899988
Q ss_pred cCcccccccCC-CCCce-----EEEEEcccC
Q 006790 601 RGKVAEGIDFD-RHYGR-----LVIMFGVPF 625 (631)
Q Consensus 601 ~Gsf~EGIDf~-g~~lr-----~VII~gLPf 625 (631)
.-.+.|+|++ ++..+ +||.+-+|=
T Consensus 529 -dmAgRGtDI~l~~~V~~~GGLhVI~~d~P~ 558 (656)
T PRK12898 529 -NMAGRGTDIKLEPGVAARGGLHVILTERHD 558 (656)
T ss_pred -cchhcccCcCCccchhhcCCCEEEEcCCCC
Confidence 7899999998 55555 788877773
No 49
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.25 E-value=3.9e-09 Score=116.98 Aligned_cols=77 Identities=17% Similarity=0.053 Sum_probs=63.2
Q ss_pred CCC--CCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHH---------HHHHHHHHHhh---CCCCCceEEEEecchh
Q 006790 13 PYD--NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA---------LLSLITSYVLS---KPENPVKLIYCTRTVH 78 (631)
Q Consensus 13 py~--~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla---------~L~~~l~~~~~---~~~~~~~vi~~t~T~~ 78 (631)
||. +.++.|.++-+++..++.+++.+++.|+||+|||.+ ||.|++..... ....+ +|+|++||++
T Consensus 155 ~~~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~-~ilvt~Prre 233 (675)
T PHA02653 155 PFSKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIER-PIVLSLPRVA 233 (675)
T ss_pred ccccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCc-EEEEECcHHH
Confidence 665 469999999999999999999999999999999997 66676665432 11235 8999999999
Q ss_pred hHHHHHHHHHhh
Q 006790 79 EMEKTLAELKLL 90 (631)
Q Consensus 79 l~~Q~~~el~~l 90 (631)
+..|+..++...
T Consensus 234 La~qi~~~i~~~ 245 (675)
T PHA02653 234 LVRLHSITLLKS 245 (675)
T ss_pred HHHHHHHHHHHH
Confidence 999988777654
No 50
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.21 E-value=2.2e-09 Score=119.66 Aligned_cols=66 Identities=20% Similarity=0.188 Sum_probs=50.7
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhh
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~ 92 (631)
|.+.|++..+ ++.+|. ++|+.||+|||+++++|++..+.. ++ +|.|.|+|..|..|..+.+..+.+
T Consensus 79 p~~vQl~~~~--~l~~G~--Iaem~TGeGKTL~a~lp~~l~al~---G~-~v~VvTpt~~LA~qd~e~~~~l~~ 144 (790)
T PRK09200 79 PYDVQLIGAL--VLHEGN--IAEMQTGEGKTLTATMPLYLNALE---GK-GVHLITVNDYLAKRDAEEMGQVYE 144 (790)
T ss_pred CchHHHHhHH--HHcCCc--eeeecCCCcchHHHHHHHHHHHHc---CC-CeEEEeCCHHHHHHHHHHHHHHHh
Confidence 3344444433 334454 999999999999999998766552 56 899999999999999998887754
No 51
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.21 E-value=1.7e-10 Score=130.00 Aligned_cols=91 Identities=19% Similarity=0.133 Sum_probs=73.8
Q ss_pred eEeeCCCCCCChHHHHHHHHHHHHHhcC--CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 8 VTVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 8 ~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
+.-.|||++ ++.|.+.+..|...+..+ .+.++.||||+|||++|++|++.... . +. +++|.+||..|..|..+
T Consensus 254 ~~~~l~f~l-t~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~-~--g~-q~lilaPT~~LA~Q~~~ 328 (681)
T PRK10917 254 FLASLPFEL-TGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE-A--GY-QAALMAPTEILAEQHYE 328 (681)
T ss_pred HHHhCCCCC-CHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH-c--CC-eEEEEeccHHHHHHHHH
Confidence 345699985 999999999999988765 37899999999999999999877653 2 46 99999999999999999
Q ss_pred HHHhhhhhcccCCCCccceeEEEeCC
Q 006790 86 ELKLLHNYQTRHLGPAAKILAIGLSS 111 (631)
Q Consensus 86 el~~l~~~~~~~~~~~~~~~~~~l~g 111 (631)
.++++.+ ..++++.++.|
T Consensus 329 ~l~~l~~--------~~~i~v~ll~G 346 (681)
T PRK10917 329 NLKKLLE--------PLGIRVALLTG 346 (681)
T ss_pred HHHHHHh--------hcCcEEEEEcC
Confidence 9888653 23455565554
No 52
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.20 E-value=4e-09 Score=119.95 Aligned_cols=62 Identities=26% Similarity=0.223 Sum_probs=51.1
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHH
Q 006790 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 23 ~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
+....|.+++.+++.+++.||||+|||.+|..+.+.... . +. +|+|..||+.+..|+.+.+.
T Consensus 8 ~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~--~-~~-~ilvlqPrR~aA~qia~rva 69 (812)
T PRK11664 8 AVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGG--I-NG-KIIMLEPRRLAARNVAQRLA 69 (812)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCC--c-CC-eEEEECChHHHHHHHHHHHH
Confidence 456788899999999999999999999999998775321 1 35 89999999999999877553
No 53
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.17 E-value=2.6e-10 Score=127.68 Aligned_cols=89 Identities=18% Similarity=0.154 Sum_probs=71.4
Q ss_pred eeCCCCCCChHHHHHHHHHHHHHhcCC--cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHH
Q 006790 10 VYFPYDNIYPEQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 10 ~~Fpy~~~r~~Q~~~~~~v~~~l~~~~--~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
-.+||++ ++.|.+.+..|...+.... +.++.||||+|||++|++|++.... . +. +++|.+||..|..|..+.+
T Consensus 230 ~~lpf~l-t~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~-~--g~-qvlilaPT~~LA~Q~~~~~ 304 (630)
T TIGR00643 230 ASLPFKL-TRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIE-A--GY-QVALMAPTEILAEQHYNSL 304 (630)
T ss_pred HhCCCCC-CHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH-c--CC-cEEEECCHHHHHHHHHHHH
Confidence 3689985 9999999999999886543 6899999999999999998776543 2 46 8999999999999999998
Q ss_pred HhhhhhcccCCCCccceeEEEeCC
Q 006790 88 KLLHNYQTRHLGPAAKILAIGLSS 111 (631)
Q Consensus 88 ~~l~~~~~~~~~~~~~~~~~~l~g 111 (631)
+++.+ +.++++.++.|
T Consensus 305 ~~l~~--------~~gi~v~lltg 320 (630)
T TIGR00643 305 RNLLA--------PLGIEVALLTG 320 (630)
T ss_pred HHHhc--------ccCcEEEEEec
Confidence 88642 23455555554
No 54
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=99.17 E-value=8.8e-09 Score=116.96 Aligned_cols=96 Identities=11% Similarity=0.158 Sum_probs=65.6
Q ss_pred HHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCC--chhhHHHHHHHHHhhcCCCCeE
Q 006790 518 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD--VVETTLALDNYRKACDCGRGAV 595 (631)
Q Consensus 518 ~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~--~~~~~~~l~~fk~~~~~~~~aI 595 (631)
..+...+..+++..+|.+|||+|+....+.+++.++.. +..+..++.=..+ ..+....++.|++ |+..|
T Consensus 195 ~~v~~~l~~~l~~~~g~iLVFlpg~~eI~~l~~~L~~~-----~~~~~~v~pLHg~L~~~eq~~~~~~~~~----G~rkV 265 (819)
T TIGR01970 195 DAVSRAVEHALASETGSILVFLPGQAEIRRVQEQLAER-----LDSDVLICPLYGELSLAAQDRAIKPDPQ----GRRKV 265 (819)
T ss_pred HHHHHHHHHHHHhcCCcEEEEECCHHHHHHHHHHHHhh-----cCCCcEEEEecCCCCHHHHHHHHhhccc----CCeEE
Confidence 34556666666666899999999999999999998752 1011222221222 1233445555543 66789
Q ss_pred EEEEecCcccccccCCCCCceEEEEEcccCC
Q 006790 596 FFSVARGKVAEGIDFDRHYGRLVIMFGVPFQ 626 (631)
Q Consensus 596 Lfgv~~Gsf~EGIDf~g~~lr~VII~gLPfp 626 (631)
++++ .-..-|||++| .+.||=.|+|=.
T Consensus 266 lVAT--nIAErgItIp~--V~~VID~Gl~r~ 292 (819)
T TIGR01970 266 VLAT--NIAETSLTIEG--IRVVIDSGLARV 292 (819)
T ss_pred EEec--chHhhcccccC--ceEEEEcCcccc
Confidence 9999 78999999997 679999999843
No 55
>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=99.16 E-value=1.2e-08 Score=106.31 Aligned_cols=56 Identities=27% Similarity=0.258 Sum_probs=44.1
Q ss_pred HHHHhcCC--cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 29 KRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 29 ~~~l~~~~--~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
.+++.+++ ++++.||||+|||.++++|++. . +. +.+|.+||+++.+|..+.++...
T Consensus 6 ~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~----~--~~-~~~~~~P~~aL~~~~~~~~~~~~ 63 (357)
T TIGR03158 6 FEALQSKDADIIFNTAPTGAGKTLAWLTPLLH----G--EN-DTIALYPTNALIEDQTEAIKEFV 63 (357)
T ss_pred HHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH----c--CC-CEEEEeChHHHHHHHHHHHHHHH
Confidence 34444454 5899999999999999998763 1 34 78999999999999988777653
No 56
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.09 E-value=1.2e-08 Score=120.67 Aligned_cols=50 Identities=18% Similarity=0.311 Sum_probs=40.4
Q ss_pred EecCCCChhHHHHHHHHHHHHhhCC---------CCCceEEEEecchhhHHHHHHHHHh
Q 006790 40 LEMPTGTGKTIALLSLITSYVLSKP---------ENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 40 iEapTGtGKTla~L~~~l~~~~~~~---------~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
|.||||||||+||++|+|......+ .++.+++|.|||++|..|+.+.|+.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 4699999999999999987654321 1124899999999999999988775
No 57
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.03 E-value=9.8e-10 Score=111.71 Aligned_cols=147 Identities=20% Similarity=0.292 Sum_probs=102.7
Q ss_pred ChHHHHHHHHHHHHHhc-----CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhh
Q 006790 18 YPEQYSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~-----~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~ 92 (631)
.|.|...+-.+.+.++. .+.+.|.||||+|||+||.+|.+......+-...|.+|..||..|..|+...+.++..
T Consensus 161 FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~~ 240 (620)
T KOG0350|consen 161 FPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLNS 240 (620)
T ss_pred cchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhcc
Confidence 57788888888888873 3568999999999999999998776655544456899999999999999999998752
Q ss_pred hcccCCCCccceeEEEeCCCCccccChhhhcccCcchHHHHHHHhhhHHHHhhhhcCCCCCCCccccchHHhhhcCCCCC
Q 006790 93 YQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPP 172 (631)
Q Consensus 93 ~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~g~~~~~~c~~~~~~~~~~~~~~~~~ 172 (631)
+..+.++.+.|... + .....+|.
T Consensus 241 --------~tgL~V~~~sgq~s-----l----------~~E~~qL~---------------------------------- 263 (620)
T KOG0350|consen 241 --------GTGLAVCSLSGQNS-----L----------EDEARQLA---------------------------------- 263 (620)
T ss_pred --------CCceEEEecccccc-----h----------HHHHHHHh----------------------------------
Confidence 44555444443221 0 11111111
Q ss_pred CCCChHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCCcEEEEeCCcchHHHHH
Q 006790 173 GVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCI 244 (631)
Q Consensus 173 ~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAHnl~~~a~ 244 (631)
.....| .+||+|++-.-|.|+... .-+..|..-..+|||||..|.+.+.
T Consensus 264 ------------~~~~~~----------~~DIlVaTPGRLVDHl~~-~k~f~Lk~LrfLVIDEADRll~qsf 312 (620)
T KOG0350|consen 264 ------------SDPPEC----------RIDILVATPGRLVDHLNN-TKSFDLKHLRFLVIDEADRLLDQSF 312 (620)
T ss_pred ------------cCCCcc----------ccceEEcCchHHHHhccC-CCCcchhhceEEEechHHHHHHHHH
Confidence 111223 689999999999987532 1123344556799999999988764
No 58
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.98 E-value=2.2e-09 Score=102.12 Aligned_cols=74 Identities=27% Similarity=0.317 Sum_probs=58.2
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
+++.++++.|.+++..+.... +++++.+|||+|||.+++.+++......+ .+ +++|.++|.++..|+.+++...
T Consensus 4 ~~~~~~~~~Q~~~~~~~~~~~---~~~~i~~~~GsGKT~~~~~~~~~~~~~~~-~~-~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 4 FGFEPLRPYQKEAIEALLSGL---RDVILAAPTGSGKTLAALLPALEALKRGK-GK-RVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred cCCCCCCHHHHHHHHHHHcCC---CcEEEECCCCCchhHHHHHHHHHHhcccC-CC-cEEEEeCCHHHHHHHHHHHHHH
Confidence 344456999999887765332 78999999999999999888766554332 35 8999999999999998877764
No 59
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=98.95 E-value=5.3e-08 Score=100.42 Aligned_cols=89 Identities=15% Similarity=0.230 Sum_probs=61.2
Q ss_pred HHHHHhhcccC-CcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCch--hhHHHHHHHHHhhcCCCCeEEEE
Q 006790 522 KLLVEMVSIVP-DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVV--ETTLALDNYRKACDCGRGAVFFS 598 (631)
Q Consensus 522 ~~i~~~~~~~~-gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~--~~~~~l~~fk~~~~~~~~aILfg 598 (631)
+.+..+++... -.++|||+|-...+-+|+.+.. +..+-+|+.-...+. .+..+..+|-+. +.+||||
T Consensus 302 ~~L~sFI~shlk~K~iVF~SscKqvkf~~e~F~r------lrpg~~l~~L~G~~~Q~~R~ev~~~F~~~----~~~vLF~ 371 (758)
T KOG0343|consen 302 DMLWSFIKSHLKKKSIVFLSSCKQVKFLYEAFCR------LRPGIPLLALHGTMSQKKRIEVYKKFVRK----RAVVLFC 371 (758)
T ss_pred HHHHHHHHhccccceEEEEehhhHHHHHHHHHHh------cCCCCceeeeccchhHHHHHHHHHHHHHh----cceEEEe
Confidence 34555555554 5899999999999999988764 233344554443332 344566666663 7899999
Q ss_pred EecCcccccccCCCCCceEEEEEccc
Q 006790 599 VARGKVAEGIDFDRHYGRLVIMFGVP 624 (631)
Q Consensus 599 v~~Gsf~EGIDf~g~~lr~VII~gLP 624 (631)
+ .-.+.|+||| +.-.||=+--|
T Consensus 372 T--Dv~aRGLDFp--aVdwViQ~DCP 393 (758)
T KOG0343|consen 372 T--DVAARGLDFP--AVDWVIQVDCP 393 (758)
T ss_pred e--hhhhccCCCc--ccceEEEecCc
Confidence 9 7899999999 67777755444
No 60
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.95 E-value=3.8e-07 Score=102.06 Aligned_cols=139 Identities=14% Similarity=0.131 Sum_probs=80.4
Q ss_pred cccHHHhhccCEEEEecCCCCCc-cchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHH
Q 006790 442 LAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNY 520 (631)
Q Consensus 442 ~~l~~l~~~~~svIltSaTL~p~-~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l 520 (631)
..++.+|..++.+--|+||.... +.|...-+++-+ .+|.+. |..-.+.|+ .=|+...+-..++
T Consensus 370 IT~Qn~Fr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv-------~IPtnk--p~~R~d~~d-------~v~~t~~~k~~av 433 (896)
T PRK13104 370 ITFQNFFRMYNKLSGMTGTADTEAYEFQQIYNLEVV-------VIPTNR--SMIRKDEAD-------LVYLTQADKFQAI 433 (896)
T ss_pred ehHHHHHHhcchhccCCCCChhHHHHHHHHhCCCEE-------ECCCCC--CcceecCCC-------eEEcCHHHHHHHH
Confidence 34577788788888888888654 355555555321 111110 000001111 1122333444566
Q ss_pred HHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEe
Q 006790 521 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 600 (631)
Q Consensus 521 ~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~ 600 (631)
.+.+.++. ..+.-+|||.+|-+.-+.+...+...++- -.++--.....+...+.+.++ +|+|+.|+
T Consensus 434 ~~~i~~~~-~~g~PVLVgt~Sie~sE~ls~~L~~~gi~------h~vLnak~~q~Ea~iia~Ag~------~G~VtIAT- 499 (896)
T PRK13104 434 IEDVRECG-VRKQPVLVGTVSIEASEFLSQLLKKENIK------HQVLNAKFHEKEAQIIAEAGR------PGAVTIAT- 499 (896)
T ss_pred HHHHHHHH-hCCCCEEEEeCcHHHHHHHHHHHHHcCCC------eEeecCCCChHHHHHHHhCCC------CCcEEEec-
Confidence 67666643 46778999999999999999999876531 122221122223333444433 35899999
Q ss_pred cCcccccccCC
Q 006790 601 RGKVAEGIDFD 611 (631)
Q Consensus 601 ~Gsf~EGIDf~ 611 (631)
.-.+.|+|+.
T Consensus 500 -NmAGRGtDI~ 509 (896)
T PRK13104 500 -NMAGRGTDIV 509 (896)
T ss_pred -cCccCCccee
Confidence 7899999995
No 61
>PRK09694 helicase Cas3; Provisional
Probab=98.89 E-value=1e-08 Score=116.57 Aligned_cols=71 Identities=24% Similarity=0.204 Sum_probs=55.1
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.|+ |||.|..+... ..+.+.++||||||+|||.|+|..|...+... ... +|+|+.||.+..+|+.+.++..
T Consensus 284 ~~~-p~p~Q~~~~~~----~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~-~~~-gi~~aLPT~Atan~m~~Rl~~~ 354 (878)
T PRK09694 284 GYQ-PRQLQTLVDAL----PLQPGLTIIEAPTGSGKTEAALAYAWRLIDQG-LAD-SIIFALPTQATANAMLSRLEAL 354 (878)
T ss_pred CCC-ChHHHHHHHhh----ccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhC-CCC-eEEEECcHHHHHHHHHHHHHHH
Confidence 455 59999977432 12467899999999999999998876544332 235 8999999999999999987764
No 62
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=98.87 E-value=8.8e-09 Score=112.24 Aligned_cols=76 Identities=24% Similarity=0.208 Sum_probs=61.5
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCce-EEEEecchhhHHHHHHHHHhhh
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVK-LIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~-vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
+|+.|.|.|.+.+-.+. .|+.+++.|+||||||+||++|.+............ ++|.+||+.|..|+.++++.+.
T Consensus 48 gf~~pt~IQ~~~IP~~l----~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~ 123 (513)
T COG0513 48 GFEEPTPIQLAAIPLIL----AGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLG 123 (513)
T ss_pred CCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHH
Confidence 67778999998887654 457899999999999999999999886521112212 8999999999999999999875
Q ss_pred h
Q 006790 92 N 92 (631)
Q Consensus 92 ~ 92 (631)
+
T Consensus 124 ~ 124 (513)
T COG0513 124 K 124 (513)
T ss_pred h
Confidence 4
No 63
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.86 E-value=3e-06 Score=94.09 Aligned_cols=131 Identities=26% Similarity=0.382 Sum_probs=90.5
Q ss_pred CEEEEecCCCCCcc----chhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHHHh
Q 006790 452 QSVVITSGTLSPID----LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEM 527 (631)
Q Consensus 452 ~svIltSaTL~p~~----~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~ 527 (631)
..+|++|||..|-+ .|...|||+.-... ..-+ |+ .-.|... ...+.+.++
T Consensus 277 g~LvvsSATg~~rg~R~~LfReLlgFevG~~~----~~LR-NI--------------vD~y~~~-------~~~e~~~el 330 (1187)
T COG1110 277 GILVVSSATGKPRGSRLKLFRELLGFEVGSGG----EGLR-NI--------------VDIYVES-------ESLEKVVEL 330 (1187)
T ss_pred ceEEEeeccCCCCCchHHHHHHHhCCccCccc----hhhh-he--------------eeeeccC-------ccHHHHHHH
Confidence 46799999999986 68888998642110 0001 11 0112111 233455667
Q ss_pred hcccCCcEEEEecc---hHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEe--cC
Q 006790 528 VSIVPDGIVCFFVS---YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA--RG 602 (631)
Q Consensus 528 ~~~~~gg~LVfF~S---y~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~--~G 602 (631)
++..+.|.|||.|. -+..+.++++++.+|+-. ..++ .. ....++.|.+ |+=.||.||+ -|
T Consensus 331 vk~lG~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a-----~~~~--a~----~~~~le~F~~----GeidvLVGvAsyYG 395 (1187)
T COG1110 331 VKKLGDGGLIFVPIDYGREKAEELAEYLRSHGINA-----ELIH--AE----KEEALEDFEE----GEVDVLVGVASYYG 395 (1187)
T ss_pred HHHhCCCeEEEEEcHHhHHHHHHHHHHHHhcCceE-----EEee--cc----chhhhhhhcc----CceeEEEEeccccc
Confidence 77788899999999 999999999999876411 1222 11 1445677776 7888999875 47
Q ss_pred cccccccCCCCCceEEEEEccc
Q 006790 603 KVAEGIDFDRHYGRLVIMFGVP 624 (631)
Q Consensus 603 sf~EGIDf~g~~lr~VII~gLP 624 (631)
.+-.|||+| +..|.+|-.|+|
T Consensus 396 ~lVRGlDLP-~rirYaIF~GvP 416 (1187)
T COG1110 396 VLVRGLDLP-HRIRYAVFYGVP 416 (1187)
T ss_pred ceeecCCch-hheeEEEEecCC
Confidence 799999999 899999999999
No 64
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.85 E-value=7.3e-09 Score=116.40 Aligned_cols=69 Identities=25% Similarity=0.307 Sum_probs=57.4
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
.++.|.+.....+. +++|++|.||||+|||+..+++.+.-.... +. |+||.+|+++|.++.++++.++.
T Consensus 32 l~~~qq~av~~~~~---~~~N~li~aPTgsGKTlIA~lai~~~l~~~--~~-k~vYivPlkALa~Ek~~~~~~~~ 100 (766)
T COG1204 32 LFNPQQEAVEKGLL---SDENVLISAPTGSGKTLIALLAILSTLLEG--GG-KVVYIVPLKALAEEKYEEFSRLE 100 (766)
T ss_pred hhHHHHHHhhcccc---CCCcEEEEcCCCCchHHHHHHHHHHHHHhc--CC-cEEEEeChHHHHHHHHHHhhhHH
Confidence 47888887666543 378999999999999999999877776654 45 89999999999999999988653
No 65
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.84 E-value=9.4e-09 Score=108.10 Aligned_cols=73 Identities=18% Similarity=0.103 Sum_probs=60.6
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhh------CCCCCceEEEEecchhhHHHHHHH
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS------KPENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~------~~~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
.|+.|.|.|.+....+. .|+.++.-|-||+||||||++|++.+... .++++ +|+|.+||..|..|+-.+
T Consensus 110 g~~~PtpIQaq~wp~~l----~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P-~vLVL~PTRELA~QV~~~ 184 (519)
T KOG0331|consen 110 GFEKPTPIQAQGWPIAL----SGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGP-IVLVLAPTRELAVQVQAE 184 (519)
T ss_pred CCCCCchhhhcccceec----cCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCC-eEEEEcCcHHHHHHHHHH
Confidence 46667899987765543 46789999999999999999999999886 23345 899999999999999998
Q ss_pred HHhh
Q 006790 87 LKLL 90 (631)
Q Consensus 87 l~~l 90 (631)
...+
T Consensus 185 ~~~~ 188 (519)
T KOG0331|consen 185 AREF 188 (519)
T ss_pred HHHH
Confidence 8875
No 66
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=98.82 E-value=1e-08 Score=104.45 Aligned_cols=79 Identities=24% Similarity=0.246 Sum_probs=63.8
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC---CCCceEEEEecchhhHHHHHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---ENPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~---~~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
-+|+...+.|...+..+ -.|+.+++-|-||||||+|+|+||+.+....+ ..++.++|++||..|.-|+..|++
T Consensus 100 ~GF~~MT~VQ~~ti~pl----l~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak 175 (543)
T KOG0342|consen 100 MGFETMTPVQQKTIPPL----LEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAK 175 (543)
T ss_pred cCccchhHHHHhhcCcc----CCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHH
Confidence 35666678887665543 34668999999999999999999999876542 234589999999999999999999
Q ss_pred hhhhhc
Q 006790 89 LLHNYQ 94 (631)
Q Consensus 89 ~l~~~~ 94 (631)
.|+++.
T Consensus 176 ~Ll~~h 181 (543)
T KOG0342|consen 176 ELLKYH 181 (543)
T ss_pred HHHhhC
Confidence 998764
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=98.80 E-value=1.8e-08 Score=112.62 Aligned_cols=75 Identities=19% Similarity=0.233 Sum_probs=56.5
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCC-cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~-~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
+|+ |+|.|.+.+..+. +|+ ..++.||||||||.++.++.+.........+ ++||+++|..+..|+.++++++.
T Consensus 13 G~~-PtpiQ~~~i~~il----~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~-rLv~~vPtReLa~Qi~~~~~~~~ 86 (844)
T TIGR02621 13 GYS-PFPWQLSLAERFV----AGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPR-RLVYVVNRRTVVDQVTEEAEKIG 86 (844)
T ss_pred CCC-CCHHHHHHHHHHH----cCCCcceEecCCCCcccHHHHHhhccccccccccc-eEEEeCchHHHHHHHHHHHHHHH
Confidence 677 5999999998754 444 7888999999999976554443322222234 88889999999999999998876
Q ss_pred hh
Q 006790 92 NY 93 (631)
Q Consensus 92 ~~ 93 (631)
+.
T Consensus 87 k~ 88 (844)
T TIGR02621 87 ER 88 (844)
T ss_pred HH
Confidence 43
No 68
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.77 E-value=7.9e-07 Score=99.37 Aligned_cols=139 Identities=14% Similarity=0.147 Sum_probs=81.1
Q ss_pred ccHHHhhccCEEEEecCCCCCc-cchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHH
Q 006790 443 AVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 521 (631)
Q Consensus 443 ~l~~l~~~~~svIltSaTL~p~-~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~ 521 (631)
.++.+|..+..+--|+||.... +.|.+.-|++-. .+|.+. |..-.+-|+ .=+.+..+-...+.
T Consensus 357 t~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY~l~vv-------~IPtnk--p~~r~d~~d-------~i~~t~~~K~~aI~ 420 (830)
T PRK12904 357 TFQNYFRMYEKLAGMTGTADTEAEEFREIYNLDVV-------VIPTNR--PMIRIDHPD-------LIYKTEKEKFDAVV 420 (830)
T ss_pred eHHHHHHhcchhcccCCCcHHHHHHHHHHhCCCEE-------EcCCCC--CeeeeeCCC-------eEEECHHHHHHHHH
Confidence 3477788778888888888653 345555554321 111110 000001111 01223333345666
Q ss_pred HHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEec
Q 006790 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (631)
Q Consensus 522 ~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~ 601 (631)
+.+.+.. ..+..+|||+.|-..-+.+...+...++ +....-++ ..+++..+..|.. ++++|++|+
T Consensus 421 ~~I~~~~-~~grpVLIft~Si~~se~Ls~~L~~~gi-------~~~vLnak-q~eREa~Iia~Ag----~~g~VtIAT-- 485 (830)
T PRK12904 421 EDIKERH-KKGQPVLVGTVSIEKSELLSKLLKKAGI-------PHNVLNAK-NHEREAEIIAQAG----RPGAVTIAT-- 485 (830)
T ss_pred HHHHHHH-hcCCCEEEEeCcHHHHHHHHHHHHHCCC-------ceEeccCc-hHHHHHHHHHhcC----CCceEEEec--
Confidence 6665544 3456799999999999999999987643 11112122 2334445555544 689999999
Q ss_pred CcccccccCCC
Q 006790 602 GKVAEGIDFDR 612 (631)
Q Consensus 602 Gsf~EGIDf~g 612 (631)
.-.+.|+|++=
T Consensus 486 NmAGRGtDI~L 496 (830)
T PRK12904 486 NMAGRGTDIKL 496 (830)
T ss_pred ccccCCcCccC
Confidence 78999999953
No 69
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.72 E-value=1.4e-07 Score=106.22 Aligned_cols=72 Identities=22% Similarity=0.264 Sum_probs=58.7
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
-|++ +++.|.+.++.+.+.+ .++..++.||||+|||.+|+.++..... . ++ +++|.+||+++..|+.+.++.
T Consensus 141 ~~~~-Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~-~--g~-~vLvLvPt~~L~~Q~~~~l~~ 212 (679)
T PRK05580 141 EPPT-LNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLA-Q--GK-QALVLVPEIALTPQMLARFRA 212 (679)
T ss_pred CCCC-CCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHH-c--CC-eEEEEeCcHHHHHHHHHHHHH
Confidence 3555 5999999998887765 4567999999999999999987554433 2 57 999999999999999988775
No 70
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=98.71 E-value=7.2e-08 Score=85.97 Aligned_cols=53 Identities=30% Similarity=0.330 Sum_probs=42.6
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
+++++.+|||+|||..++..+....... ..+ +++|++++..+.+|..+.+...
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~-~~~-~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSL-KGG-QVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcc-cCC-CEEEEcCcHHHHHHHHHHHHHH
Confidence 3689999999999999998766554432 246 8999999999999998876654
No 71
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.71 E-value=3.1e-08 Score=102.48 Aligned_cols=73 Identities=23% Similarity=0.285 Sum_probs=59.7
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCC----------CCceEEEEecchhhHHH
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE----------NPVKLIYCTRTVHEMEK 82 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~----------~~~~vi~~t~T~~l~~Q 82 (631)
.|..+.|.|+.-+.. +.+|+.++++|+||+|||.|+|+|++.++..... .+ +++|.++|++|..|
T Consensus 93 ~~~~ptpvQk~sip~----i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P-~~lIlapTReL~~Q 167 (482)
T KOG0335|consen 93 GYTKPTPVQKYSIPI----ISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYP-RALILAPTRELVDQ 167 (482)
T ss_pred cccCCCcceeeccce----eecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCC-ceEEEeCcHHHhhH
Confidence 355557777665544 4567789999999999999999999999987621 24 89999999999999
Q ss_pred HHHHHHhh
Q 006790 83 TLAELKLL 90 (631)
Q Consensus 83 ~~~el~~l 90 (631)
+.+|-+++
T Consensus 168 i~nea~k~ 175 (482)
T KOG0335|consen 168 IYNEARKF 175 (482)
T ss_pred HHHHHHhh
Confidence 99998886
No 72
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.68 E-value=1.5e-07 Score=102.87 Aligned_cols=69 Identities=22% Similarity=0.262 Sum_probs=50.3
Q ss_pred CCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
++ +|+.|.+.+..+ +. +..+++.||||+|||+.+...+ .+..... .. +++|.++|.+|..|+.+++.++
T Consensus 113 ~~-~r~~Q~~av~~~---l~-~~~~il~apTGsGKT~i~~~l~-~~~~~~~-~~-~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 113 IE-PHWYQYDAVYEG---LK-NNRRLLNLPTSAGKSLIQYLLS-RYYLENY-EG-KVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred CC-CCHHHHHHHHHH---Hh-cCceEEEeCCCCCHHHHHHHHH-HHHHhcC-CC-eEEEEECcHHHHHHHHHHHHHh
Confidence 45 599999976544 33 4568999999999999654432 2222221 34 8999999999999999988764
No 73
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=98.65 E-value=1.5e-07 Score=107.54 Aligned_cols=69 Identities=20% Similarity=0.258 Sum_probs=58.0
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
+|+.|.+.++. +.+|+++||-+|||+|||.+|++|.+..+...+ .. +.+|.-||++|.+--.+.|+++.
T Consensus 71 lY~HQ~~A~~~----~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~-~a-~AL~lYPtnALa~DQ~~rl~~~~ 139 (851)
T COG1205 71 LYSHQVDALRL----IREGRNVVVTTGTGSGKTESFLLPILDHLLRDP-SA-RALLLYPTNALANDQAERLRELI 139 (851)
T ss_pred ccHHHHHHHHH----HHCCCCEEEECCCCCchhHHHHHHHHHHHhhCc-Cc-cEEEEechhhhHhhHHHHHHHHH
Confidence 68999888765 567799999999999999999999998887765 34 78999999999876667677654
No 74
>PRK13766 Hef nuclease; Provisional
Probab=98.65 E-value=1.1e-07 Score=110.06 Aligned_cols=69 Identities=22% Similarity=0.219 Sum_probs=54.8
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
++++ |+.|.++...+ +.+ ++++-+|||+|||+.+++++..... . .++ +++|.+||.++..|..+.+++.
T Consensus 13 ~~~~-r~yQ~~~~~~~---l~~--n~lv~~ptG~GKT~~a~~~i~~~l~-~-~~~-~vLvl~Pt~~L~~Q~~~~~~~~ 81 (773)
T PRK13766 13 TIEA-RLYQQLLAATA---LKK--NTLVVLPTGLGKTAIALLVIAERLH-K-KGG-KVLILAPTKPLVEQHAEFFRKF 81 (773)
T ss_pred cCCc-cHHHHHHHHHH---hcC--CeEEEcCCCccHHHHHHHHHHHHHH-h-CCC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 4554 99999987654 333 7899999999999998887665543 2 256 8999999999999999888775
No 75
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.65 E-value=1.8e-07 Score=109.59 Aligned_cols=75 Identities=20% Similarity=0.235 Sum_probs=58.4
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcC-CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~-~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+.+. +|+.|.+.+.++.+++.++ +.+++.+|||||||+..+..+..+.+.. ..+ +|++.+.+.+|.+|+.+++..
T Consensus 410 ~~~~-lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~-~~~-rVLfLvDR~~L~~Qa~~~F~~ 485 (1123)
T PRK11448 410 YGLG-LRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAK-RFR-RILFLVDRSALGEQAEDAFKD 485 (1123)
T ss_pred cCCC-CCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcC-ccC-eEEEEecHHHHHHHHHHHHHh
Confidence 3344 5999999999999999765 5689999999999987554332222222 246 999999999999999998775
No 76
>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=98.62 E-value=1.6e-07 Score=98.65 Aligned_cols=51 Identities=27% Similarity=0.293 Sum_probs=43.6
Q ss_pred EEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 38 ~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
+++.||||+|||++++.|++...... .+. +++|..||+++..|+.+.+..+
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~-~~~-~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQ-KAD-RVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhC-CCC-eEEEEeehHHHHHHHHHHHHHH
Confidence 68999999999999999988765433 246 9999999999999999987774
No 77
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=98.61 E-value=2.7e-07 Score=102.89 Aligned_cols=73 Identities=22% Similarity=0.263 Sum_probs=59.9
Q ss_pred CCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC----CCCceEEEEecchhhHHHHHHHHHh
Q 006790 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~----~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
|..++|.|++++..|. +|++++|-||||+|||+|.++|++.-..... .++..++|.||=++|-.-+..-|+.
T Consensus 20 ~~~~t~~Q~~a~~~i~----~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~ 95 (814)
T COG1201 20 FTSLTPPQRYAIPEIH----SGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEE 95 (814)
T ss_pred cCCCCHHHHHHHHHHh----CCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 6667999999988764 7899999999999999999999998776652 2235899999999988887765555
Q ss_pred h
Q 006790 90 L 90 (631)
Q Consensus 90 l 90 (631)
.
T Consensus 96 ~ 96 (814)
T COG1201 96 P 96 (814)
T ss_pred H
Confidence 4
No 78
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.60 E-value=2.6e-07 Score=102.34 Aligned_cols=70 Identities=13% Similarity=0.203 Sum_probs=53.5
Q ss_pred eeCCCCCCChHHHHHHHHHHHHHhcC--CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHH
Q 006790 10 VYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 10 ~~Fpy~~~r~~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
..+.++ +||.|.+.+..+ +.++ +.+++..|||+|||+..+..+... ++ +++|.++|..+.+|+.+++
T Consensus 250 L~~~~~-LRpYQ~eAl~~~---~~~gr~r~GIIvLPtGaGKTlvai~aa~~l------~k-~tLILvps~~Lv~QW~~ef 318 (732)
T TIGR00603 250 LKPTTQ-IRPYQEKSLSKM---FGNGRARSGIIVLPCGAGKSLVGVTAACTV------KK-SCLVLCTSAVSVEQWKQQF 318 (732)
T ss_pred cccCCC-cCHHHHHHHHHH---HhcCCCCCcEEEeCCCCChHHHHHHHHHHh------CC-CEEEEeCcHHHHHHHHHHH
Confidence 344566 599999977655 4444 478999999999999888653221 35 7888889999999999988
Q ss_pred Hhh
Q 006790 88 KLL 90 (631)
Q Consensus 88 ~~l 90 (631)
.+.
T Consensus 319 ~~~ 321 (732)
T TIGR00603 319 KMW 321 (732)
T ss_pred HHh
Confidence 874
No 79
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=98.60 E-value=1.9e-07 Score=101.71 Aligned_cols=69 Identities=19% Similarity=0.323 Sum_probs=57.0
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+++ +|..|.++... || +++.+|-+|||.|||+.+...++.|.+..+. . |||+.+||+.+..|-+..+..
T Consensus 60 ~~~-lR~YQ~eivq~---AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-~-KiVF~aP~~pLv~QQ~a~~~~ 128 (746)
T KOG0354|consen 60 NLE-LRNYQEELVQP---AL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK-G-KVVFLAPTRPLVNQQIACFSI 128 (746)
T ss_pred ccc-ccHHHHHHhHH---hh--cCCeEEEeecCCCccchHHHHHHHHHhcCCc-c-eEEEeeCCchHHHHHHHHHhh
Confidence 344 59999987654 66 7899999999999999998888999888874 4 899999999999988754443
No 80
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=98.60 E-value=1.3e-05 Score=92.17 Aligned_cols=92 Identities=16% Similarity=0.310 Sum_probs=63.6
Q ss_pred HHHhhccc-CCcEEEEecchHHHHHHHHHHhh-cchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEec
Q 006790 524 LVEMVSIV-PDGIVCFFVSYSYMDEIIATWND-SGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (631)
Q Consensus 524 i~~~~~~~-~gg~LVfF~Sy~~l~~v~~~~~~-~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~ 601 (631)
+.++++.. +..+|||+.+......+.+.++. .|+ ...+|-.+....++...++.|+.. .+...||+++
T Consensus 484 L~~~L~~~~~~KvLVF~~~~~t~~~L~~~L~~~~Gi------~~~~ihG~~s~~eR~~~~~~F~~~--~~~~~VLIsT-- 553 (956)
T PRK04914 484 LIDFLKSHRSEKVLVICAKAATALQLEQALREREGI------RAAVFHEGMSIIERDRAAAYFADE--EDGAQVLLCS-- 553 (956)
T ss_pred HHHHHHhcCCCeEEEEeCcHHHHHHHHHHHhhccCe------eEEEEECCCCHHHHHHHHHHHhcC--CCCccEEEec--
Confidence 33344333 56899999999999999999853 221 112454444555677788888862 1234588777
Q ss_pred CcccccccCCCCCceEEEEEcccCCC
Q 006790 602 GKVAEGIDFDRHYGRLVIMFGVPFQY 627 (631)
Q Consensus 602 Gsf~EGIDf~g~~lr~VII~gLPfp~ 627 (631)
...+||+||+. +..||..-+|..+
T Consensus 554 dvgseGlNlq~--a~~VInfDlP~nP 577 (956)
T PRK04914 554 EIGSEGRNFQF--ASHLVLFDLPFNP 577 (956)
T ss_pred hhhccCCCccc--ccEEEEecCCCCH
Confidence 68999999965 5689999999754
No 81
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.56 E-value=2.8e-07 Score=103.01 Aligned_cols=67 Identities=15% Similarity=0.116 Sum_probs=55.4
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~ 92 (631)
+|.|.+.+-.+. .+...++||+||+|||+||++|++..+.. ++ .+.|.|+|..|..|..+.+..+.+
T Consensus 94 tp~qvQ~I~~i~----l~~gvIAeaqTGeGKTLAf~LP~l~~aL~---g~-~v~IVTpTrELA~Qdae~m~~L~k 160 (970)
T PRK12899 94 VPYDVQILGAIA----MHKGFITEMQTGEGKTLTAVMPLYLNALT---GK-PVHLVTVNDYLAQRDCEWVGSVLR 160 (970)
T ss_pred ChHHHHHhhhhh----cCCCeEEEeCCCCChHHHHHHHHHHHHhh---cC-CeEEEeCCHHHHHHHHHHHHHHHh
Confidence 899999887654 34569999999999999999998876642 34 688889999999999998887753
No 82
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.55 E-value=4.5e-07 Score=97.15 Aligned_cols=72 Identities=21% Similarity=0.274 Sum_probs=58.1
Q ss_pred eeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 10 ~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+.|.++ +|+.|.+.++++.+.+++++.+++-+|||+|||+..+-.+ .. . .. +++|.++|..++.|+.+.+.+
T Consensus 31 ~~~~~~-lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~-~~---~--~~-~~Lvlv~~~~L~~Qw~~~~~~ 102 (442)
T COG1061 31 VAFEFE-LRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAI-AE---L--KR-STLVLVPTKELLDQWAEALKK 102 (442)
T ss_pred cccCCC-CcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHH-HH---h--cC-CEEEEECcHHHHHHHHHHHHH
Confidence 556676 4999999999999988877789999999999999666532 21 1 34 699999999999999876554
No 83
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=98.53 E-value=2e-07 Score=93.83 Aligned_cols=77 Identities=21% Similarity=0.222 Sum_probs=57.6
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC------CCCceEEEEecchhhHHHHHHH
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP------ENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~------~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
+|+.|.-.|...+- -+|+ |+.++..|-||+|||.|||+|.+.-..... .+. ..+|..||+.|.+|+...
T Consensus 38 G~ekpTlIQs~aIp---laLE-gKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~-sa~iLvPTkEL~qQvy~v 112 (569)
T KOG0346|consen 38 GWEKPTLIQSSAIP---LALE-GKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGP-SAVILVPTKELAQQVYKV 112 (569)
T ss_pred CcCCcchhhhcccc---hhhc-CcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccc-eeEEEechHHHHHHHHHH
Confidence 56655566655443 3444 568999999999999999999876544321 133 789999999999999998
Q ss_pred HHhhhhhc
Q 006790 87 LKLLHNYQ 94 (631)
Q Consensus 87 l~~l~~~~ 94 (631)
+.+|..+.
T Consensus 113 iekL~~~c 120 (569)
T KOG0346|consen 113 IEKLVEYC 120 (569)
T ss_pred HHHHHHHH
Confidence 88886554
No 84
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.53 E-value=1.2e-05 Score=94.06 Aligned_cols=97 Identities=9% Similarity=0.078 Sum_probs=62.1
Q ss_pred HHHHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCC
Q 006790 514 PGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRG 593 (631)
Q Consensus 514 ~~~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~ 593 (631)
.++...+.+.+..+....+|.+|||+|+....+.+++.++..++ ....|+.=..+.. ...-..-|+. .+..
T Consensus 268 ~d~l~~ll~~V~~l~~~~~GdILVFLpg~~EIe~lae~L~~~~~-----~~~~VlpLhg~Ls-~~eQ~~Vf~~---~g~r 338 (1294)
T PRK11131 268 RDQLQAIFDAVDELGREGPGDILIFMSGEREIRDTADALNKLNL-----RHTEILPLYARLS-NSEQNRVFQS---HSGR 338 (1294)
T ss_pred HHHHHHHHHHHHHHhcCCCCCEEEEcCCHHHHHHHHHHHHhcCC-----CcceEeecccCCC-HHHHHHHhcc---cCCe
Confidence 34556666666666666678999999999999999999986532 0111211112111 1111122332 2455
Q ss_pred eEEEEEecCcccccccCCCCCceEEEEEcc
Q 006790 594 AVFFSVARGKVAEGIDFDRHYGRLVIMFGV 623 (631)
Q Consensus 594 aILfgv~~Gsf~EGIDf~g~~lr~VII~gL 623 (631)
-|++++ .-..-|||+|| .+.||=.|+
T Consensus 339 kIIVAT--NIAEtSITIpg--I~yVID~Gl 364 (1294)
T PRK11131 339 RIVLAT--NVAETSLTVPG--IKYVIDPGT 364 (1294)
T ss_pred eEEEec--cHHhhccccCc--ceEEEECCC
Confidence 799999 78999999997 678887764
No 85
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.47 E-value=6.5e-07 Score=92.29 Aligned_cols=67 Identities=19% Similarity=0.134 Sum_probs=52.8
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
+|..|..++.. ++.+ |.++-.|||-|||+...+-...+.... ++ ++++..||+.|..|=.+-++++.
T Consensus 16 ~R~YQ~~i~a~---al~~--NtLvvlPTGLGKT~IA~~V~~~~l~~~--~~-kvlfLAPTKPLV~Qh~~~~~~v~ 82 (542)
T COG1111 16 PRLYQLNIAAK---ALFK--NTLVVLPTGLGKTFIAAMVIANRLRWF--GG-KVLFLAPTKPLVLQHAEFCRKVT 82 (542)
T ss_pred HHHHHHHHHHH---Hhhc--CeEEEecCCccHHHHHHHHHHHHHHhc--CC-eEEEecCCchHHHHHHHHHHHHh
Confidence 48889887765 4443 789999999999997777655566655 46 89999999999999888777764
No 86
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=98.43 E-value=6.2e-05 Score=88.67 Aligned_cols=98 Identities=8% Similarity=0.072 Sum_probs=64.0
Q ss_pred HHHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCe
Q 006790 515 GVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGA 594 (631)
Q Consensus 515 ~~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~a 594 (631)
++.+.+.+.+..++...+|.+|||+|+....+.+.+.++..+. ....|+.=..+.. ...-.+-|+.. +...
T Consensus 262 ~~~~~i~~~I~~l~~~~~GdILVFLpg~~EI~~l~~~L~~~~~-----~~~~VlpLhg~Ls-~~eQ~~vf~~~---~~rk 332 (1283)
T TIGR01967 262 DQLEAILDAVDELFAEGPGDILIFLPGEREIRDAAEILRKRNL-----RHTEILPLYARLS-NKEQQRVFQPH---SGRR 332 (1283)
T ss_pred hHHHHHHHHHHHHHhhCCCCEEEeCCCHHHHHHHHHHHHhcCC-----CCcEEEeccCCCC-HHHHHHHhCCC---CCce
Confidence 4556777777777777789999999999999999999975421 1111221112211 11111223321 2247
Q ss_pred EEEEEecCcccccccCCCCCceEEEEEcccC
Q 006790 595 VFFSVARGKVAEGIDFDRHYGRLVIMFGVPF 625 (631)
Q Consensus 595 ILfgv~~Gsf~EGIDf~g~~lr~VII~gLPf 625 (631)
|++++ .-..-|||++| .+.||=.|+|=
T Consensus 333 IVLAT--NIAEtSLTIpg--V~yVIDsGl~r 359 (1283)
T TIGR01967 333 IVLAT--NVAETSLTVPG--IHYVIDTGTAR 359 (1283)
T ss_pred EEEec--cHHHhccccCC--eeEEEeCCCcc
Confidence 99998 68889999997 67888888763
No 87
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.41 E-value=0.00011 Score=82.47 Aligned_cols=65 Identities=20% Similarity=0.179 Sum_probs=49.3
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~ 92 (631)
|+.|. |-.+ +|.+|+ +.|++||+|||+++.+|++..+.. ++ .|.|.|+|.-|..|..+.+..+.+
T Consensus 84 ydVQl--iGgl--~L~~G~--IaEm~TGEGKTL~a~lp~~l~al~---g~-~VhIvT~ndyLA~RD~e~m~~l~~ 148 (908)
T PRK13107 84 FDVQL--LGGM--VLDSNR--IAEMRTGEGKTLTATLPAYLNALT---GK-GVHVITVNDYLARRDAENNRPLFE 148 (908)
T ss_pred CchHH--hcch--HhcCCc--cccccCCCCchHHHHHHHHHHHhc---CC-CEEEEeCCHHHHHHHHHHHHHHHH
Confidence 66665 3332 234444 889999999999999998766652 56 799999999999998887777653
No 88
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.39 E-value=8.3e-07 Score=91.00 Aligned_cols=76 Identities=22% Similarity=0.185 Sum_probs=61.0
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCC--CceEEEEecchhhHHHHHHHHHh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~--~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.+|..|.|.|...+-- ||. |+.++..|.||||||-||.+|.|.-..+.|.+ -+||+|.+||..|.-|+..-.++
T Consensus 199 lGy~~PTpIQ~a~IPv---all-gkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~q 274 (691)
T KOG0338|consen 199 LGYKKPTPIQVATIPV---ALL-GKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQ 274 (691)
T ss_pred cCCCCCCchhhhcccH---Hhh-cchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHH
Confidence 4788788888876642 343 56678889999999999999999988887643 14899999999999999886666
Q ss_pred hh
Q 006790 90 LH 91 (631)
Q Consensus 90 l~ 91 (631)
|.
T Consensus 275 la 276 (691)
T KOG0338|consen 275 LA 276 (691)
T ss_pred HH
Confidence 54
No 89
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.34 E-value=1.7e-06 Score=85.99 Aligned_cols=85 Identities=16% Similarity=0.055 Sum_probs=69.0
Q ss_pred CCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhhh
Q 006790 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (631)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~~ 93 (631)
|..|.+.|.+.|-.+. +|++++.-|-||+|||.||++|.+......|... .++|.|||+.|..|+-+.+..|-
T Consensus 81 ~~~PT~IQ~~aiP~~L----~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~-~~lVLtPtRELA~QI~e~fe~Lg-- 153 (476)
T KOG0330|consen 81 WKKPTKIQSEAIPVAL----GGRDVIGLAETGSGKTGAFALPILQRLLQEPKLF-FALVLTPTRELAQQIAEQFEALG-- 153 (476)
T ss_pred cCCCchhhhhhcchhh----CCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCc-eEEEecCcHHHHHHHHHHHHHhc--
Confidence 5667899998876643 5788999999999999999999998888776544 99999999999999988777753
Q ss_pred cccCCCCccceeEEEeCC
Q 006790 94 QTRHLGPAAKILAIGLSS 111 (631)
Q Consensus 94 ~~~~~~~~~~~~~~~l~g 111 (631)
.+..++++++-|
T Consensus 154 ------~~iglr~~~lvG 165 (476)
T KOG0330|consen 154 ------SGIGLRVAVLVG 165 (476)
T ss_pred ------cccCeEEEEEec
Confidence 356677766554
No 90
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.32 E-value=8.9e-07 Score=91.31 Aligned_cols=76 Identities=18% Similarity=0.138 Sum_probs=61.7
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC------CCCceEEEEecchhhHHHHH
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP------ENPVKLIYCTRTVHEMEKTL 84 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~------~~~~~vi~~t~T~~l~~Q~~ 84 (631)
...+..+.-.|.+.+-.+++ |+.++|+|+||+|||||||+|.+......+ +|. =.+|..||+.|..|+.
T Consensus 154 ~m~i~~pTsVQkq~IP~lL~----grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~-~ALVivPTREL~~Q~y 228 (708)
T KOG0348|consen 154 KMKISAPTSVQKQAIPVLLE----GRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGP-YALVIVPTRELALQIY 228 (708)
T ss_pred HhccCccchHhhcchhhhhc----CcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCc-eEEEEechHHHHHHHH
Confidence 34455668889988877654 788999999999999999999888766542 233 5788889999999999
Q ss_pred HHHHhhh
Q 006790 85 AELKLLH 91 (631)
Q Consensus 85 ~el~~l~ 91 (631)
+-+.+|.
T Consensus 229 ~~~qKLl 235 (708)
T KOG0348|consen 229 ETVQKLL 235 (708)
T ss_pred HHHHHHh
Confidence 9888875
No 91
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.32 E-value=2.3e-06 Score=93.03 Aligned_cols=47 Identities=23% Similarity=0.246 Sum_probs=38.5
Q ss_pred EEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 39 LLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 39 ~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
++.||||+|||.+|+.. +..+... ++ +++|.+||+++..|+.+.++.
T Consensus 1 LL~g~TGsGKT~v~l~~-i~~~l~~--g~-~vLvlvP~i~L~~Q~~~~l~~ 47 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQA-IEKVLAL--GK-SVLVLVPEIALTPQMIQRFKY 47 (505)
T ss_pred CccCCCCCCHHHHHHHH-HHHHHHc--CC-eEEEEeCcHHHHHHHHHHHHH
Confidence 47899999999999865 4444433 57 999999999999999988775
No 92
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=98.27 E-value=0.00018 Score=80.57 Aligned_cols=152 Identities=14% Similarity=0.134 Sum_probs=86.1
Q ss_pred ccHHHhhccCEEEEecCCCCCc-cchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHH
Q 006790 443 AVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 521 (631)
Q Consensus 443 ~l~~l~~~~~svIltSaTL~p~-~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~ 521 (631)
.++.+|..+..+--++||.... +.|.+.-|++-.. +|.+. |..-.+.|+ .=++...+-...+.
T Consensus 367 t~qnfFr~Y~kl~GmTGTa~~e~~Ef~~iY~l~vv~-------IPtnk--p~~r~d~~d-------~i~~t~~~K~~al~ 430 (796)
T PRK12906 367 TYQNFFRMYKKLSGMTGTAKTEEEEFREIYNMEVIT-------IPTNR--PVIRKDSPD-------LLYPTLDSKFNAVV 430 (796)
T ss_pred hHHHHHHhcchhhccCCCCHHHHHHHHHHhCCCEEE-------cCCCC--CeeeeeCCC-------eEEcCHHHHHHHHH
Confidence 3466777777888888888543 3455555543211 11110 000001111 01223333345566
Q ss_pred HHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEec
Q 006790 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (631)
Q Consensus 522 ~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~ 601 (631)
+.+.+.. ..+..+|||+.|-..-+.+...+...++- ..++ -++. .+.+.. ...++ ..+|+|++++
T Consensus 431 ~~i~~~~-~~g~pvLI~t~si~~se~ls~~L~~~gi~------~~~L-na~~-~~~Ea~--ii~~a--g~~g~VtIAT-- 495 (796)
T PRK12906 431 KEIKERH-AKGQPVLVGTVAIESSERLSHLLDEAGIP------HAVL-NAKN-HAKEAE--IIMNA--GQRGAVTIAT-- 495 (796)
T ss_pred HHHHHHH-hCCCCEEEEeCcHHHHHHHHHHHHHCCCC------eeEe-cCCc-HHHHHH--HHHhc--CCCceEEEEe--
Confidence 6555543 35678999999999999999999876531 1122 2222 122211 11112 2367899999
Q ss_pred CcccccccCC-CCCce-----EEEEEcccC
Q 006790 602 GKVAEGIDFD-RHYGR-----LVIMFGVPF 625 (631)
Q Consensus 602 Gsf~EGIDf~-g~~lr-----~VII~gLPf 625 (631)
.-...|.|++ |+..+ +||.+-+|-
T Consensus 496 nmAGRGtDI~l~~~V~~~GGLhVI~te~pe 525 (796)
T PRK12906 496 NMAGRGTDIKLGPGVKELGGLAVIGTERHE 525 (796)
T ss_pred ccccCCCCCCCCcchhhhCCcEEEeeecCC
Confidence 6889999995 66777 888887774
No 93
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.24 E-value=4.1e-06 Score=90.24 Aligned_cols=69 Identities=20% Similarity=0.261 Sum_probs=55.3
Q ss_pred eeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 10 ~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
-.|+|+.+||+|.+.++. +-+++++++--|||.|||++|-+||+.. .+ -.+|.+|=++|.+--+..|+.
T Consensus 11 ~~fGy~~FR~gQ~evI~~----~l~g~d~lvvmPTGgGKSlCyQiPAll~------~G-~TLVVSPLiSLM~DQV~~l~~ 79 (590)
T COG0514 11 QVFGYASFRPGQQEIIDA----LLSGKDTLVVMPTGGGKSLCYQIPALLL------EG-LTLVVSPLISLMKDQVDQLEA 79 (590)
T ss_pred HHhCccccCCCHHHHHHH----HHcCCcEEEEccCCCCcchHhhhHHHhc------CC-CEEEECchHHHHHHHHHHHHH
Confidence 469999999999976655 4466889999999999999999998864 24 577778999988766665554
No 94
>COG4889 Predicted helicase [General function prediction only]
Probab=98.23 E-value=1.2e-05 Score=87.42 Aligned_cols=167 Identities=19% Similarity=0.265 Sum_probs=104.7
Q ss_pred cCeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 6 EDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 6 ~~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
.++++.=|+++ ||.|.+.+.++.+.|..+.-.=+-..+|||||+..|=-+-+.+. . +|++..|+++|+.|.++
T Consensus 152 ~nl~l~~~kk~-R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala~-----~-~iL~LvPSIsLLsQTlr 224 (1518)
T COG4889 152 DNLPLKKPKKP-RPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALAA-----A-RILFLVPSISLLSQTLR 224 (1518)
T ss_pred cccccCCCCCC-ChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHhh-----h-heEeecchHHHHHHHHH
Confidence 46778889986 99999999999999987654444467899999988864333332 4 89999999999999988
Q ss_pred HHHhhhhhcccCCCCccceeEEEeCCCCccccChhhhcccCcchHHHHHHHhhhHHHHhhhhcCCCCCCCccccchHHhh
Q 006790 86 ELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAA 165 (631)
Q Consensus 86 el~~l~~~~~~~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~g~~~~~~c~~~~~~~~~~ 165 (631)
|...= ...+++... +|-...+... .+ |......
T Consensus 225 ew~~~---------~~l~~~a~a------VcSD~kvsrs--~e--------------------Dik~sdl---------- 257 (1518)
T COG4889 225 EWTAQ---------KELDFRASA------VCSDDKVSRS--AE--------------------DIKASDL---------- 257 (1518)
T ss_pred HHhhc---------cCccceeEE------EecCcccccc--cc--------------------ccccccC----------
Confidence 76541 134454443 3433332211 00 0000000
Q ss_pred hcCCCCCCCCChHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCCcEEEEeCCcchHH
Q 006790 166 SAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDN 241 (631)
Q Consensus 166 ~~~~~~~~~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAHnl~~ 241 (631)
.+| ..-+.+.+.+.- .-|+++..--||+++|.-+.. +.+.....+++.+++|.||||.--.
T Consensus 258 ---~~p-~sT~~~~il~~~---------~~~~k~~~~~vvFsTYQSl~~--i~eAQe~G~~~fDliicDEAHRTtG 318 (1518)
T COG4889 258 ---PIP-VSTDLEDILSEM---------EHRQKANGLTVVFSTYQSLPR--IKEAQEAGLDEFDLIICDEAHRTTG 318 (1518)
T ss_pred ---CCC-CcccHHHHHHHH---------HHhhccCCcEEEEEcccchHH--HHHHHHcCCCCccEEEecchhcccc
Confidence 111 122334443221 124466677899999997653 2222223467899999999998654
No 95
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.07 E-value=1.1e-05 Score=84.07 Aligned_cols=71 Identities=18% Similarity=0.181 Sum_probs=59.1
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+++...|.|.- +|...|-+|.++++-++|+|||||.-=++.+.-+... ++ |.+|.+|-.+|..|=.+|++.
T Consensus 213 G~~eLlPVQ~l---aVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~--g~-KmlfLvPLVALANQKy~dF~~ 283 (830)
T COG1202 213 GIEELLPVQVL---AVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSG--GK-KMLFLVPLVALANQKYEDFKE 283 (830)
T ss_pred Ccceecchhhh---hhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhC--CC-eEEEEehhHHhhcchHHHHHH
Confidence 45556777754 6667888899999999999999998888877766643 67 999999999999999998876
No 96
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.03 E-value=9.2e-06 Score=85.27 Aligned_cols=75 Identities=20% Similarity=0.207 Sum_probs=60.7
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC----CCCceEEEEecchhhHHHHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~----~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
-+|..|.|.|.+.+- .+.++..++..||||+|||+||++|.+..++... ..+.+++|+.+|+.|..|+..|.
T Consensus 154 ~~F~~Pt~iq~~aip----vfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~ 229 (593)
T KOG0344|consen 154 LGFDEPTPIQKQAIP----VFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREM 229 (593)
T ss_pred CCCCCCCcccchhhh----hhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHH
Confidence 356667899985543 3556788999999999999999999888877653 23358999999999999999988
Q ss_pred Hhh
Q 006790 88 KLL 90 (631)
Q Consensus 88 ~~l 90 (631)
+.+
T Consensus 230 ~k~ 232 (593)
T KOG0344|consen 230 RKY 232 (593)
T ss_pred Hhc
Confidence 875
No 97
>PF13245 AAA_19: Part of AAA domain
Probab=98.02 E-value=2.3e-05 Score=61.54 Aligned_cols=59 Identities=24% Similarity=0.379 Sum_probs=41.8
Q ss_pred HHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHh--hCCCCCceEEEEecchhhHHHHHHHH
Q 006790 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVL--SKPENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 27 ~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~--~~~~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
.|..++.++..++|+||+|||||...+-.+..+.. ..+ ++ +|+|.|+|+...+.+.+.+
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~-~~-~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADP-GK-RVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCC-CC-eEEEECCCHHHHHHHHHHH
Confidence 45567774556777999999999655544333332 223 56 8999999999998887755
No 98
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.00 E-value=1.7e-05 Score=86.86 Aligned_cols=71 Identities=15% Similarity=0.134 Sum_probs=58.0
Q ss_pred CChHHHHHHHHHHHHHhcCC-cEEEecCCCChhHHHHHHHHHHHH-hhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 17 IYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYV-LSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~-~~~iEapTGtGKTla~L~~~l~~~-~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
+|..|...++.|.+|+.+|+ -+++-..||||||..++. +.|. ...+..+ ||++.+-+++|.+|........
T Consensus 166 ~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAia--ii~rL~r~~~~K-RVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 166 PRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIA--IIDRLIKSGWVK-RVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred chHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHH--HHHHHHhcchhh-eeeEEechHHHHHHHHHHHHHh
Confidence 59999999999999999984 499999999999997764 3332 2333357 9999999999999999876654
No 99
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.00 E-value=6.7e-06 Score=82.21 Aligned_cols=74 Identities=23% Similarity=0.083 Sum_probs=54.8
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCC-----CCceEEEEecchhhHHHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-----NPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~-----~~~~vi~~t~T~~l~~Q~~~e 86 (631)
-+|++|.|.|-++=--+ -+|..++--|-||||||++||.|++....+.+. +.+.+++.|+|..|..|+--|
T Consensus 238 ~GFqKPtPIqSQaWPI~----LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e 313 (629)
T KOG0336|consen 238 TGFQKPTPIQSQAWPIL----LQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGE 313 (629)
T ss_pred ccCCCCCcchhccccee----ecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhH
Confidence 46777778887765443 356678888999999999999998876554421 123899999999998887666
Q ss_pred HHh
Q 006790 87 LKL 89 (631)
Q Consensus 87 l~~ 89 (631)
..+
T Consensus 314 ~~k 316 (629)
T KOG0336|consen 314 VKK 316 (629)
T ss_pred HhH
Confidence 554
No 100
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.98 E-value=4.8e-05 Score=82.12 Aligned_cols=89 Identities=18% Similarity=0.143 Sum_probs=73.0
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCC--cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHH
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~--~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
.-||+. ...|++.+..|..-+.... +=++++-.|+|||+..+++++.... . |. ++....||--|.+|-.+.+.
T Consensus 258 ~LPF~L-T~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~-~--G~-Q~ALMAPTEILA~QH~~~~~ 332 (677)
T COG1200 258 ALPFKL-TNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE-A--GY-QAALMAPTEILAEQHYESLR 332 (677)
T ss_pred hCCCCc-cHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHH-c--CC-eeEEeccHHHHHHHHHHHHH
Confidence 469995 9999999999999998875 4589999999999999988665443 2 56 99999999999999999888
Q ss_pred hhhhhcccCCCCccceeEEEeCCC
Q 006790 89 LLHNYQTRHLGPAAKILAIGLSSR 112 (631)
Q Consensus 89 ~l~~~~~~~~~~~~~~~~~~l~gr 112 (631)
++.+ +.++++..|.|+
T Consensus 333 ~~l~--------~~~i~V~lLtG~ 348 (677)
T COG1200 333 KWLE--------PLGIRVALLTGS 348 (677)
T ss_pred HHhh--------hcCCeEEEeecc
Confidence 8753 345777777664
No 101
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.95 E-value=1.8e-05 Score=81.27 Aligned_cols=57 Identities=21% Similarity=0.248 Sum_probs=45.9
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCC-----CCCceEEEEecchhhHHHHHHHHHhhhh
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~-----~~~~~vi~~t~T~~l~~Q~~~el~~l~~ 92 (631)
+..++=-|-||+|||-||+.|.+......+ +++ =.+|++||.++..|+..|.+++-+
T Consensus 260 grdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gP-i~vilvPTrela~Qi~~eaKkf~K 321 (731)
T KOG0339|consen 260 GRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGP-IGVILVPTRELASQIFSEAKKFGK 321 (731)
T ss_pred cccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCC-eEEEEeccHHHHHHHHHHHHHhhh
Confidence 344555689999999999999998876543 234 579999999999999999998743
No 102
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=97.87 E-value=2.5e-05 Score=87.48 Aligned_cols=77 Identities=17% Similarity=0.194 Sum_probs=65.6
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC-----CCCceEEEEecchhhHHHHHH
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~-----~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
.++|++++|.|.+++-+|. .|+.+|--|-||+|||+|||+|-+......+ +|+ -.+|.+||..|..|+-+
T Consensus 382 kl~y~k~~~IQ~qAiP~Im----sGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGP-i~li~aPtrela~QI~r 456 (997)
T KOG0334|consen 382 KLGYEKPTPIQAQAIPAIM----SGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGP-IALILAPTRELAMQIHR 456 (997)
T ss_pred HhcCCCCcchhhhhcchhc----cCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCc-eEEEEcCCHHHHHHHHH
Confidence 5789999999999998764 5778999999999999999999886655442 344 67999999999999999
Q ss_pred HHHhhhh
Q 006790 86 ELKLLHN 92 (631)
Q Consensus 86 el~~l~~ 92 (631)
+++++.+
T Consensus 457 ~~~kf~k 463 (997)
T KOG0334|consen 457 EVRKFLK 463 (997)
T ss_pred HHHHHHh
Confidence 9999865
No 103
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=97.83 E-value=0.00012 Score=74.64 Aligned_cols=70 Identities=19% Similarity=0.156 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHH---------hcCCcEEEecCCCChhHHHHHHHHHHHHhhCCC--CCceEEEEecchhhHHHHHHHHH
Q 006790 20 EQYSYMLELKRAL---------DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE--NPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 20 ~Q~~~~~~v~~~l---------~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~--~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
.|.+.+.-+.+.. ...+.+++--.+|+|||+..+..+.......+. .+ +++|.+|+ +++.|+.+|+.
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~-~~LIv~P~-~l~~~W~~E~~ 78 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEK-KTLIVVPS-SLLSQWKEEIE 78 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S--EEEEE-T-TTHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhcccccccc-ceeEeecc-chhhhhhhhhc
Confidence 3777777777776 445678888899999999888754433222211 12 48888898 88899999999
Q ss_pred hhh
Q 006790 89 LLH 91 (631)
Q Consensus 89 ~l~ 91 (631)
+..
T Consensus 79 ~~~ 81 (299)
T PF00176_consen 79 KWF 81 (299)
T ss_dssp HHS
T ss_pred ccc
Confidence 863
No 104
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=97.78 E-value=0.00028 Score=61.96 Aligned_cols=94 Identities=22% Similarity=0.349 Sum_probs=67.1
Q ss_pred HHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCC-chhhHHHHHHHHHhhcCCCCeEE
Q 006790 518 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVF 596 (631)
Q Consensus 518 ~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~-~~~~~~~l~~fk~~~~~~~~aIL 596 (631)
..+.+.+.+..+ .++.+|||+++...++.+++.+...+ ....++.+.. ..++...+++|++ +...||
T Consensus 15 ~~i~~~i~~~~~-~~~~~lvf~~~~~~~~~~~~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~f~~----~~~~il 82 (131)
T cd00079 15 EALLELLKEHLK-KGGKVLIFCPSKKMLDELAELLRKPG-------IKVAALHGDGSQEEREEVLKDFRE----GEIVVL 82 (131)
T ss_pred HHHHHHHHhccc-CCCcEEEEeCcHHHHHHHHHHHHhcC-------CcEEEEECCCCHHHHHHHHHHHHc----CCCcEE
Confidence 455565555443 56789999999999999999987521 2333443332 2334555666665 566899
Q ss_pred EEEecCcccccccCCCCCceEEEEEcccCCC
Q 006790 597 FSVARGKVAEGIDFDRHYGRLVIMFGVPFQY 627 (631)
Q Consensus 597 fgv~~Gsf~EGIDf~g~~lr~VII~gLPfp~ 627 (631)
+++ ..++||+|+++ +..||+.+.|+..
T Consensus 83 i~t--~~~~~G~d~~~--~~~vi~~~~~~~~ 109 (131)
T cd00079 83 VAT--DVIARGIDLPN--VSVVINYDLPWSP 109 (131)
T ss_pred EEc--ChhhcCcChhh--CCEEEEeCCCCCH
Confidence 988 79999999986 8889999998764
No 105
>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=97.70 E-value=9.5e-05 Score=83.48 Aligned_cols=72 Identities=18% Similarity=0.214 Sum_probs=58.7
Q ss_pred CChHHHHHHHHHHHHHhc------CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 17 IYPEQYSYMLELKRALDA------KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~------~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
+|+.|.+.++++.+++.+ ++.+++..|||||||+..+..+....... ..+ +|++.|.+..|.+|+.+++..+
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~-~~~-~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELL-KNP-KVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhc-CCC-eEEEEECcHHHHHHHHHHHHhh
Confidence 489999999999999976 25799999999999997776554433322 245 9999999999999999988764
No 106
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.70 E-value=0.00049 Score=78.90 Aligned_cols=88 Identities=19% Similarity=0.251 Sum_probs=71.3
Q ss_pred EeeCCCCCCChHHHHHHHHHHHHHhcCCcE--EEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHH
Q 006790 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHC--LLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 9 ~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~--~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
.-.|||+. .|-|...+++|.+-+..++.+ +|.+-.|-|||-.++=+|..... +|+ +|.|.+||.-|.+|=.+.
T Consensus 588 ~~~FPyeE-T~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~---~GK-QVAvLVPTTlLA~QHy~t 662 (1139)
T COG1197 588 EASFPYEE-TPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVM---DGK-QVAVLVPTTLLAQQHYET 662 (1139)
T ss_pred HhcCCCcC-CHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhc---CCC-eEEEEcccHHhHHHHHHH
Confidence 34799997 999999999999999998754 89999999999999988765443 468 999999999999998886
Q ss_pred HHhhhhhcccCCCCccceeEEEe
Q 006790 87 LKLLHNYQTRHLGPAAKILAIGL 109 (631)
Q Consensus 87 l~~l~~~~~~~~~~~~~~~~~~l 109 (631)
++.= . .+.++++.+|
T Consensus 663 FkeR--F------~~fPV~I~~L 677 (1139)
T COG1197 663 FKER--F------AGFPVRIEVL 677 (1139)
T ss_pred HHHH--h------cCCCeeEEEe
Confidence 6541 1 2667766554
No 107
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.68 E-value=0.00012 Score=77.47 Aligned_cols=71 Identities=20% Similarity=0.383 Sum_probs=50.3
Q ss_pred EeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHH
Q 006790 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 9 ~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
...||..- -++|++. |.-++..+...+|.+|+|||||....-- +.-+... ++ +|+||.||+.-.+-+++.|
T Consensus 179 ~~~~~~~l-n~SQk~A---v~~~~~~k~l~~I~GPPGTGKT~TlvEi-I~qlvk~--~k-~VLVcaPSn~AVdNiverl 249 (649)
T KOG1803|consen 179 ITFFNKNL-NSSQKAA---VSFAINNKDLLIIHGPPGTGKTRTLVEI-ISQLVKQ--KK-RVLVCAPSNVAVDNIVERL 249 (649)
T ss_pred cccCCccc-cHHHHHH---HHHHhccCCceEeeCCCCCCceeeHHHH-HHHHHHc--CC-eEEEEcCchHHHHHHHHHh
Confidence 34566663 6777764 4445666688999999999998754332 2333322 57 9999999999999998843
No 108
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=97.61 E-value=0.00012 Score=75.92 Aligned_cols=75 Identities=23% Similarity=0.164 Sum_probs=59.8
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC---------CCCceEEEEecchhhHHHH
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---------ENPVKLIYCTRTVHEMEKT 83 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~---------~~~~~vi~~t~T~~l~~Q~ 83 (631)
+|..|.|.|++.+-- ..+.+..|.-|-||+|||+|+++|.+.|....| .++ ..++..+|..+.+|+
T Consensus 264 ~y~eptpIqR~aipl----~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gp-yaiilaptReLaqqI 338 (673)
T KOG0333|consen 264 GYKEPTPIQRQAIPL----GLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGP-YAIILAPTRELAQQI 338 (673)
T ss_pred CCCCCchHHHhhccc----hhccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCc-eeeeechHHHHHHHH
Confidence 466667888776652 234456788899999999999999999987765 255 899999999999999
Q ss_pred HHHHHhhhh
Q 006790 84 LAELKLLHN 92 (631)
Q Consensus 84 ~~el~~l~~ 92 (631)
.+|-.++.+
T Consensus 339 eeEt~kf~~ 347 (673)
T KOG0333|consen 339 EEETNKFGK 347 (673)
T ss_pred HHHHHHhcc
Confidence 998887653
No 109
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=97.60 E-value=0.00013 Score=83.21 Aligned_cols=73 Identities=19% Similarity=0.265 Sum_probs=60.4
Q ss_pred EeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHH
Q 006790 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 9 ~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
.-.|||+. .+-|++.+. +|+.+..++++||||+|||+..-.+ ++++... +. +++|.||.++|-.|...||.
T Consensus 113 ~~~~~F~L-D~fQ~~a~~----~Ler~esVlV~ApTssGKTvVaeyA-i~~al~~--~q-rviYTsPIKALsNQKyrdl~ 183 (1041)
T COG4581 113 AREYPFEL-DPFQQEAIA----ILERGESVLVCAPTSSGKTVVAEYA-IALALRD--GQ-RVIYTSPIKALSNQKYRDLL 183 (1041)
T ss_pred HHhCCCCc-CHHHHHHHH----HHhCCCcEEEEccCCCCcchHHHHH-HHHHHHc--CC-ceEeccchhhhhhhHHHHHH
Confidence 34589996 899988765 4678899999999999999977764 6777665 56 89999999999999999876
Q ss_pred hh
Q 006790 89 LL 90 (631)
Q Consensus 89 ~l 90 (631)
..
T Consensus 184 ~~ 185 (1041)
T COG4581 184 AK 185 (1041)
T ss_pred HH
Confidence 53
No 110
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=97.59 E-value=0.00033 Score=78.86 Aligned_cols=138 Identities=12% Similarity=0.137 Sum_probs=78.8
Q ss_pred cccHHHhhccCEEEEecCCCCCc-cchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHH
Q 006790 442 LAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNY 520 (631)
Q Consensus 442 ~~l~~l~~~~~svIltSaTL~p~-~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l 520 (631)
..++.+|..++.+--|+||.... +.|.+.-|++-+. +|.+. |..-.+-++ .- |+...+-..++
T Consensus 375 IT~QnfFr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~-------IPTnk--P~~R~D~~d-----~v--y~t~~eK~~Ai 438 (913)
T PRK13103 375 TTFQNYFRLYNKLSGMTGTADTEAFEFRQIYGLDVVV-------IPPNK--PLARKDFND-----LV--YLTAEEKYAAI 438 (913)
T ss_pred ehHHHHHHhcchhccCCCCCHHHHHHHHHHhCCCEEE-------CCCCC--CcccccCCC-----eE--EcCHHHHHHHH
Confidence 34577788788888888888654 3555555554211 11110 000001011 01 22333444667
Q ss_pred HHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCC-CCeEEEEE
Q 006790 521 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCG-RGAVFFSV 599 (631)
Q Consensus 521 ~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~-~~aILfgv 599 (631)
.+.+.++. ..+..+||-.+|-+.=+.+...++..++-....+.| ....+ ..++. + .| .|+|-+++
T Consensus 439 ~~ei~~~~-~~GrPVLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk------~~~~E-A~IIa---~---AG~~GaVTIAT 504 (913)
T PRK13103 439 ITDIKECM-ALGRPVLVGTATIETSEHMSNLLKKEGIEHKVLNAK------YHEKE-AEIIA---Q---AGRPGALTIAT 504 (913)
T ss_pred HHHHHHHH-hCCCCEEEEeCCHHHHHHHHHHHHHcCCcHHHhccc------cchhH-HHHHH---c---CCCCCcEEEec
Confidence 77776654 456789999999999999999998876644332222 11111 11222 1 23 68999998
Q ss_pred ecCcccccccCC
Q 006790 600 ARGKVAEGIDFD 611 (631)
Q Consensus 600 ~~Gsf~EGIDf~ 611 (631)
.=...|-|+.
T Consensus 505 --NMAGRGTDIk 514 (913)
T PRK13103 505 --NMAGRGTDIL 514 (913)
T ss_pred --cCCCCCCCEe
Confidence 6788999984
No 111
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=97.58 E-value=0.00062 Score=72.61 Aligned_cols=69 Identities=19% Similarity=0.348 Sum_probs=47.3
Q ss_pred CCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
....-..|....+.| | ++..-+|++|+|||||.. +++|.|-....... +|++|.++..-.+|+.+-+.+
T Consensus 408 lpkLN~SQ~~AV~~V---L-~rplsLIQGPPGTGKTvt--sa~IVyhl~~~~~~-~VLvcApSNiAVDqLaeKIh~ 476 (935)
T KOG1802|consen 408 LPKLNASQSNAVKHV---L-QRPLSLIQGPPGTGKTVT--SATIVYHLARQHAG-PVLVCAPSNIAVDQLAEKIHK 476 (935)
T ss_pred chhhchHHHHHHHHH---H-cCCceeeecCCCCCceeh--hHHHHHHHHHhcCC-ceEEEcccchhHHHHHHHHHh
Confidence 333456776654443 3 456889999999999984 33444433322245 899999999999999885554
No 112
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=97.47 E-value=0.00045 Score=80.26 Aligned_cols=71 Identities=17% Similarity=0.158 Sum_probs=54.2
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC-CCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~-~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.||.|.+-+.-+.....++.++|+--..|.|||+-.+.. +.+.... +..+ +++|.+|. +++.|+.+|+.+.
T Consensus 170 Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIal-L~~L~~~~~~~g-p~LIVvP~-SlL~nW~~Ei~kw 241 (1033)
T PLN03142 170 MRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISL-LGYLHEYRGITG-PHMVVAPK-STLGNWMNEIRRF 241 (1033)
T ss_pred hHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHH-HHHHHHhcCCCC-CEEEEeCh-HHHHHHHHHHHHH
Confidence 599999999988888888888999889999999966543 3444322 2234 67777775 6678999999886
No 113
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.38 E-value=0.00046 Score=67.41 Aligned_cols=67 Identities=27% Similarity=0.364 Sum_probs=43.2
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHH------hhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV------LSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~------~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
-+.|.+.+ ..++......+|.+|+|||||-... .++... .....++ +|+++++|+.-.+++++.+..
T Consensus 3 n~~Q~~Ai---~~~~~~~~~~~i~GpPGTGKT~~l~-~~i~~~~~~~~~~~~~~~~-~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 3 NESQREAI---QSALSSNGITLIQGPPGTGKTTTLA-SIIAQLLQRFKSRSADRGK-KILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp -HHHHHHH---HHHCTSSE-EEEE-STTSSHHHHHH-HHHHHH-------HCCCSS--EEEEESSHHHHHHHHHHHHC
T ss_pred CHHHHHHH---HHHHcCCCCEEEECCCCCChHHHHH-HHHHHhccchhhhhhhccc-cceeecCCchhHHHHHHHHHh
Confidence 36777655 3455554459999999999994322 223333 1123356 999999999999999997766
No 114
>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=97.17 E-value=0.0009 Score=58.65 Aligned_cols=53 Identities=21% Similarity=0.264 Sum_probs=35.9
Q ss_pred hcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHH
Q 006790 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 33 ~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
.+|+.-+|...||+|||--+|--.+.-+... +. |++|..||+...+-+.+.|+
T Consensus 2 ~kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~--~~-rvLvL~PTRvva~em~~aL~ 54 (148)
T PF07652_consen 2 RKGELTVLDLHPGAGKTRRVLPEIVREAIKR--RL-RVLVLAPTRVVAEEMYEALK 54 (148)
T ss_dssp STTEEEEEE--TTSSTTTTHHHHHHHHHHHT--T---EEEEESSHHHHHHHHHHTT
T ss_pred CCCceeEEecCCCCCCcccccHHHHHHHHHc--cC-eEEEecccHHHHHHHHHHHh
Confidence 4567788999999999998776544433333 45 99999999888777765444
No 115
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=97.11 E-value=0.0012 Score=75.51 Aligned_cols=72 Identities=25% Similarity=0.195 Sum_probs=57.4
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhh-CCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS-KPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~-~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
++.|....+.+.+.-..+..++++||||.|||.+.+.+|..-... ..... |+|+..|+++..+++.+.++..
T Consensus 197 ~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~-r~i~vlP~~t~ie~~~~r~~~~ 269 (733)
T COG1203 197 YELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKS-RVIYVLPFRTIIEDMYRRAKEI 269 (733)
T ss_pred hHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccc-eEEEEccHHHHHHHHHHHHHhh
Confidence 788888887776655544489999999999999999988766554 12245 9999999999999999877664
No 116
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=97.10 E-value=0.0011 Score=62.57 Aligned_cols=57 Identities=26% Similarity=0.235 Sum_probs=40.1
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l 79 (631)
..+.|..+++.+. +...+++.+|.|||||+..+..|+..... +.-+ ||||+-++...
T Consensus 5 ~~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~-g~~~-kiii~Rp~v~~ 61 (205)
T PF02562_consen 5 KNEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKE-GEYD-KIIITRPPVEA 61 (205)
T ss_dssp -SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHT-TS-S-EEEEEE-S--T
T ss_pred CCHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHh-CCCc-EEEEEecCCCC
Confidence 4689999988766 66789999999999999999988877665 3345 88888777643
No 117
>KOG4284 consensus DEAD box protein [Transcription]
Probab=97.08 E-value=0.00032 Score=74.53 Aligned_cols=73 Identities=19% Similarity=0.149 Sum_probs=53.4
Q ss_pred CChHHHHHHHHHHHHHhc-------------------CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecch
Q 006790 17 IYPEQYSYMLELKRALDA-------------------KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~-------------------~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~ 77 (631)
+-..|..+-+.|...|+. +-.+||+|-.|||||+.|-+.|+.-...+.... +++|.|||+
T Consensus 25 ~~fe~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~-q~~Iv~PTR 103 (980)
T KOG4284|consen 25 PGFEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHI-QKVIVTPTR 103 (980)
T ss_pred CCHHHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcc-eeEEEecch
Confidence 355666666666665552 235899999999999999988776544443334 899999999
Q ss_pred hhHHHHHHHHHhh
Q 006790 78 HEMEKTLAELKLL 90 (631)
Q Consensus 78 ~l~~Q~~~el~~l 90 (631)
...-|+-+-++.+
T Consensus 104 EiaVQI~~tv~~v 116 (980)
T KOG4284|consen 104 EIAVQIKETVRKV 116 (980)
T ss_pred hhhhHHHHHHHHh
Confidence 9999987766664
No 118
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.06 E-value=0.0047 Score=69.06 Aligned_cols=70 Identities=24% Similarity=0.269 Sum_probs=57.0
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.-+.|......|...+..-+..++.+-||+|||-.||-.. +-.... |+ .+++..|-+++..|+++.++..
T Consensus 199 Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i-~~~L~~--Gk-qvLvLVPEI~Ltpq~~~rf~~r 268 (730)
T COG1198 199 LNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAI-AKVLAQ--GK-QVLVLVPEIALTPQLLARFKAR 268 (730)
T ss_pred cCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHH-HHHHHc--CC-EEEEEeccccchHHHHHHHHHH
Confidence 3578999888888887334689999999999999999864 433433 68 9999999999999999977763
No 119
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=97.06 E-value=0.00037 Score=66.81 Aligned_cols=75 Identities=11% Similarity=0.069 Sum_probs=58.1
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.++||+|...|...+-.|. +|+.++++|-.|||||.+|-+..+....... ..++++|.|||+.|..|+-+-+..|
T Consensus 44 ~yGfekPS~IQqrAi~~Il----kGrdViaQaqSGTGKTa~~si~vlq~~d~~~-r~tQ~lilsPTRELa~Qi~~vi~al 118 (400)
T KOG0328|consen 44 AYGFEKPSAIQQRAIPQIL----KGRDVIAQAQSGTGKTATFSISVLQSLDISV-RETQALILSPTRELAVQIQKVILAL 118 (400)
T ss_pred HhccCCchHHHhhhhhhhh----cccceEEEecCCCCceEEEEeeeeeeccccc-ceeeEEEecChHHHHHHHHHHHHHh
Confidence 3789988888988776654 5788999999999999998887654332221 2358999999999999987766554
No 120
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.04 E-value=0.0015 Score=73.45 Aligned_cols=75 Identities=17% Similarity=0.297 Sum_probs=52.6
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC------CCCCceEEEEecchhhHHHHH
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK------PENPVKLIYCTRTVHEMEKTL 84 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~------~~~~~~vi~~t~T~~l~~Q~~ 84 (631)
.|+|+.+-.-|-+.-.. |...+.|++|.||||+|||-.+++..|.-.+.. ..+..||||..|+++|...++
T Consensus 105 ~f~f~~fN~iQS~vFp~---aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~ 181 (1230)
T KOG0952|consen 105 FFSFEEFNRIQSEVFPV---AYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMV 181 (1230)
T ss_pred cccHHHHHHHHHHhhhh---hhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHH
Confidence 35555444444433332 345578999999999999998888767666531 112359999999999999988
Q ss_pred HHHH
Q 006790 85 AELK 88 (631)
Q Consensus 85 ~el~ 88 (631)
+...
T Consensus 182 ~~~~ 185 (1230)
T KOG0952|consen 182 DKFS 185 (1230)
T ss_pred HHHh
Confidence 8644
No 121
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.02 E-value=0.0027 Score=60.23 Aligned_cols=63 Identities=19% Similarity=0.201 Sum_probs=42.8
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHH
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
-++|++++..+.. ..++..++.+|.|||||... .......... +. +|+++++|+.....+-+.
T Consensus 3 ~~~Q~~a~~~~l~--~~~~~~~l~G~aGtGKT~~l-~~~~~~~~~~--g~-~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 3 NEEQREAVRAILT--SGDRVSVLQGPAGTGKTTLL-KALAEALEAA--GK-RVIGLAPTNKAAKELREK 65 (196)
T ss_dssp -HHHHHHHHHHHH--CTCSEEEEEESTTSTHHHHH-HHHHHHHHHT--T---EEEEESSHHHHHHHHHH
T ss_pred CHHHHHHHHHHHh--cCCeEEEEEECCCCCHHHHH-HHHHHHHHhC--CC-eEEEECCcHHHHHHHHHh
Confidence 4789998888743 12357999999999999743 3333333333 46 999999999888776553
No 122
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=96.93 E-value=0.0071 Score=67.71 Aligned_cols=137 Identities=21% Similarity=0.205 Sum_probs=86.0
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHH--HHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhhhccc
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTI--ALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTR 96 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTl--a~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~~~~~ 96 (631)
..|++.+ .+++..+..++|.+=+|||||- +.|+-.|.+ . ++ +|..++-||+-.+-++--|+.
T Consensus 672 ~dQr~A~---~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~---~--gk-kVLLtsyThsAVDNILiKL~~------- 735 (1100)
T KOG1805|consen 672 NDQRQAL---LKALAAEDYALILGMPGTGKTTTISLLIKILVA---L--GK-KVLLTSYTHSAVDNILIKLKG------- 735 (1100)
T ss_pred HHHHHHH---HHHHhccchheeecCCCCCchhhHHHHHHHHHH---c--CC-eEEEEehhhHHHHHHHHHHhc-------
Confidence 5687754 5567778899999999999964 445444332 2 68 999999999988887653332
Q ss_pred CCCCccceeEEEeCCCCccccChhhhcccCcchHHHHHHHhhhHHHHhhhhcCCCCCCCccccchHHhhhcCCCCCCCCC
Q 006790 97 HLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPPGVYT 176 (631)
Q Consensus 97 ~~~~~~~~~~~~l~gr~~lC~~~~~~~~~~~~~~~~~c~~l~~~w~~~~~~g~~~~~~c~~~~~~~~~~~~~~~~~~~~~ 176 (631)
..+-++-|++.+. +++.++ +.|.
T Consensus 736 -----~~i~~lRLG~~~k--ih~~v~---------e~~~----------------------------------------- 758 (1100)
T KOG1805|consen 736 -----FGIYILRLGSEEK--IHPDVE---------EFTL----------------------------------------- 758 (1100)
T ss_pred -----cCcceeecCCccc--cchHHH---------HHhc-----------------------------------------
Confidence 2233344444333 222211 1110
Q ss_pred hHHHHHhcccCCccchhhHHhhccCceEEEEcCccccCHhhHhHhhhccCCCcEEEEeCCcchHH
Q 006790 177 LQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDN 241 (631)
Q Consensus 177 ~~~~~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAHnl~~ 241 (631)
|.....|-|...++...+-.||.|+=--+-++.... ...+++|||||-.+..
T Consensus 759 -------~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~plf~~------R~FD~cIiDEASQI~l 810 (1100)
T KOG1805|consen 759 -------TNETSEKSYADLKKFLDQTSIVACTCLGINHPLFVN------RQFDYCIIDEASQILL 810 (1100)
T ss_pred -------ccccchhhHHHHHHHhCCCcEEEEEccCCCchhhhc------cccCEEEEcccccccc
Confidence 223344666666777778888888855555664322 2578999999987754
No 123
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.84 E-value=0.0011 Score=67.12 Aligned_cols=74 Identities=20% Similarity=0.162 Sum_probs=58.7
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
+|..|.|.|+..+.-|. +++.++--|-||+|||.|+++|++..++.......|..+.++|+.|..|.++-++.+
T Consensus 40 g~~~ptpiqRKTipliL----e~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~qtlkvvkdl 113 (529)
T KOG0337|consen 40 GFNTPTPIQRKTIPLIL----EGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQTLKVVKDL 113 (529)
T ss_pred hcCCCCchhccccccee----eccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHHHHHHHHHh
Confidence 46667899988877654 456677779999999999999999887765433348999999999999998866554
No 124
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.84 E-value=0.0034 Score=62.41 Aligned_cols=70 Identities=20% Similarity=0.148 Sum_probs=56.6
Q ss_pred CCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.|.|.|..-+-+|+ +|+.++=-|-||+|||.|+-+|-+.-....|.+- =.+|.|||+.+.-|+-+.+.-+
T Consensus 29 ~pTpiQ~~cIpkIL----eGrdcig~AkTGsGKT~AFaLPil~rLsedP~gi-FalvlTPTrELA~QiaEQF~al 98 (442)
T KOG0340|consen 29 KPTPIQQACIPKIL----EGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGI-FALVLTPTRELALQIAEQFIAL 98 (442)
T ss_pred CCCchHhhhhHHHh----cccccccccccCCCcchhhhHHHHHhhccCCCcc-eEEEecchHHHHHHHHHHHHHh
Confidence 35899987776654 5777888899999999999999887666665444 6789999999999999977765
No 125
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.84 E-value=0.0006 Score=66.52 Aligned_cols=74 Identities=24% Similarity=0.132 Sum_probs=53.7
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
-+|+.|.|.|.+-+-- ||. |+.+++-|-.|||||-||.+|.|.-..... ...+.+|..||..+.-|.-.-.+.+
T Consensus 103 ~G~ekPSPiQeesIPi---aLt-GrdiLaRaKNGTGKT~a~~IP~Lekid~~~-~~IQ~~ilVPtrelALQtSqvc~~l 176 (459)
T KOG0326|consen 103 KGFEKPSPIQEESIPI---ALT-GRDILARAKNGTGKTAAYCIPVLEKIDPKK-NVIQAIILVPTRELALQTSQVCKEL 176 (459)
T ss_pred hccCCCCCccccccce---eec-chhhhhhccCCCCCccceechhhhhcCccc-cceeEEEEeecchhhHHHHHHHHHH
Confidence 4688788999886543 443 667899999999999999999987655433 2347788888888766654433443
No 126
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=96.57 E-value=0.008 Score=67.48 Aligned_cols=66 Identities=24% Similarity=0.345 Sum_probs=48.0
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.-+.|++.+ ..++..+...+|.+|+|||||-..... +..+... ++ +|+++++|+.-.+++++.|..
T Consensus 158 ln~~Q~~Av---~~~l~~~~~~lI~GpPGTGKT~t~~~i-i~~~~~~--g~-~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 158 LNESQKEAV---SFALSSKDLFLIHGPPGTGKTRTLVEL-IRQLVKR--GL-RVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCHHHHHHH---HHHhcCCCeEEEEcCCCCCHHHHHHHH-HHHHHHc--CC-CEEEEcCcHHHHHHHHHHHHh
Confidence 467888755 446666678999999999999643322 2222222 56 999999999999999886654
No 127
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=96.43 E-value=0.013 Score=63.98 Aligned_cols=72 Identities=15% Similarity=0.160 Sum_probs=53.8
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC-CCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~-~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
.|+.|.+=++=...-..+|-++|+----|-|||+-.+. .++|.+.. +..+ +-+|++| .+-+..+++|++++.
T Consensus 168 lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs-~l~yl~~~~~~~G-PfLVi~P-~StL~NW~~Ef~rf~ 240 (971)
T KOG0385|consen 168 LRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTIS-LLGYLKGRKGIPG-PFLVIAP-KSTLDNWMNEFKRFT 240 (971)
T ss_pred cchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHH-HHHHHHHhcCCCC-CeEEEee-HhhHHHHHHHHHHhC
Confidence 59999999999998889988888888899999996554 35565552 2124 5666655 455678899999874
No 128
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=96.34 E-value=0.0042 Score=65.19 Aligned_cols=87 Identities=22% Similarity=0.186 Sum_probs=59.0
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC-----------CCCce--EEEEecchhh
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----------ENPVK--LIYCTRTVHE 79 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~-----------~~~~~--vi~~t~T~~l 79 (631)
+|..|.|.|.-. +-.|+..+..++=-|-||+||||||=+|.++-..... ... + .+|.|||+.|
T Consensus 200 gFs~Pt~IQsl~---lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~-k~~~LV~tPTREL 275 (731)
T KOG0347|consen 200 GFSRPTEIQSLV---LPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYV-KPIALVVTPTREL 275 (731)
T ss_pred CCCCCccchhhc---ccHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccC-cceeEEecChHHH
Confidence 566556666443 3345555556777789999999999999887222110 122 4 7999999999
Q ss_pred HHHHHHHHHhhhhhcccCCCCccceeEEEeCC
Q 006790 80 MEKTLAELKLLHNYQTRHLGPAAKILAIGLSS 111 (631)
Q Consensus 80 ~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~g 111 (631)
.-|+..-|..+.+ ...++++.+.|
T Consensus 276 a~QV~~Hl~ai~~--------~t~i~v~si~G 299 (731)
T KOG0347|consen 276 AHQVKQHLKAIAE--------KTQIRVASITG 299 (731)
T ss_pred HHHHHHHHHHhcc--------ccCeEEEEeec
Confidence 9999988877653 34566665543
No 129
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=96.29 E-value=0.011 Score=60.46 Aligned_cols=65 Identities=25% Similarity=0.331 Sum_probs=44.7
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC--CCCceEEEEecchhhHHHHHHHHHhh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~--~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.++|.++++. .+++++|.|+.|||||.+.+.-+ .|..... ... +|++.|-|++....+.+-++..
T Consensus 2 ~~eQ~~~i~~------~~~~~lV~a~AGSGKT~~l~~ri-~~ll~~~~~~~~-~Il~lTft~~aa~e~~~ri~~~ 68 (315)
T PF00580_consen 2 TDEQRRIIRS------TEGPLLVNAGAGSGKTTTLLERI-AYLLYEGGVPPE-RILVLTFTNAAAQEMRERIREL 68 (315)
T ss_dssp -HHHHHHHHS-------SSEEEEEE-TTSSHHHHHHHHH-HHHHHTSSSTGG-GEEEEESSHHHHHHHHHHHHHH
T ss_pred CHHHHHHHhC------CCCCEEEEeCCCCCchHHHHHHH-HHhhccccCChH-HheecccCHHHHHHHHHHHHHh
Confidence 3678777653 46789999999999999777653 3433332 234 8999999999877776655553
No 130
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=96.27 E-value=0.0093 Score=62.64 Aligned_cols=76 Identities=17% Similarity=0.204 Sum_probs=60.0
Q ss_pred eEeeCCCCCCChHHHHHHHHHHHHHhcC-CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHH
Q 006790 8 VTVYFPYDNIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 8 ~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~-~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
..+.=||+| ---|-+.+..+.+.+.+| ++-++-+-||||||+..-- +++ +. ++ +.+|..+.+.|..|+..|
T Consensus 5 F~l~s~f~P-aGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~An-VI~--~~---~r-PtLV~AhNKTLAaQLy~E 76 (663)
T COG0556 5 FKLHSPFKP-AGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMAN-VIA--KV---QR-PTLVLAHNKTLAAQLYSE 76 (663)
T ss_pred eEeccCCCC-CCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHH-HHH--Hh---CC-CeEEEecchhHHHHHHHH
Confidence 455668986 899999999999999998 4677889999999984322 121 21 36 778888999999999999
Q ss_pred HHhhh
Q 006790 87 LKLLH 91 (631)
Q Consensus 87 l~~l~ 91 (631)
++.+.
T Consensus 77 fk~fF 81 (663)
T COG0556 77 FKEFF 81 (663)
T ss_pred HHHhC
Confidence 99863
No 131
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.22 E-value=0.018 Score=66.02 Aligned_cols=71 Identities=23% Similarity=0.200 Sum_probs=56.3
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcC----------------------------------CcEEEecCCCChhHHHHHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAK----------------------------------GHCLLEMPTGTGKTIALLSLIT 57 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~----------------------------------~~~~iEapTGtGKTla~L~~~l 57 (631)
|-|+. =|.|.+.+.+|..+|..= .++.++.+||||||+.||-..+
T Consensus 3 ~~~e~-l~hQ~~av~ai~~~F~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~n~~~~M~TGtGKT~~~~~~i~ 81 (986)
T PRK15483 3 ILLEE-LPHQEQALAAILAAFTGIDIASADPNHYANPLIKLRYENGIPGRSRTRIDDKANIDIKMETGTGKTYVYTRLMY 81 (986)
T ss_pred ccccc-ChhHHHHHHHHHHHhcCCCccCCccccccCcccccchhhccccccccccCccceEEEEeCCCCCHHHHHHHHHH
Confidence 56777 699999999999998531 3789999999999999998766
Q ss_pred HHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 58 SYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 58 ~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
...+.. +-.++||.+|+.+-.+.+.+
T Consensus 82 ~l~~~~--~~~~fii~vp~~aI~egv~~ 107 (986)
T PRK15483 82 ELHQKY--GLFKFIIVVPTPAIKEGTRN 107 (986)
T ss_pred HHHHHc--CCcEEEEEeCCHHHHHHHHH
Confidence 655544 23389999999887777655
No 132
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=96.12 E-value=0.0034 Score=63.19 Aligned_cols=74 Identities=15% Similarity=0.121 Sum_probs=56.6
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.|+||+|...|...+-.+ -+|.++.+.|.+|||||.|++++++.... .+.....+++..||+.|..|+.+-...
T Consensus 43 ~yGFekPSaIQqraI~p~----i~G~dv~~qaqsgTgKt~af~i~iLq~iD-~~~ke~qalilaPtreLa~qi~~v~~~ 116 (397)
T KOG0327|consen 43 AYGFEKPSAIQQRAILPC----IKGHDVIAQAQSGTGKTAAFLISILQQID-MSVKETQALILAPTRELAQQIQKVVRA 116 (397)
T ss_pred hhccCCchHHHhcccccc----ccCCceeEeeeccccchhhhHHHHHhhcC-cchHHHHHHHhcchHHHHHHHHHHHHh
Confidence 489998888888766543 35788999999999999999999876532 222334789999999999998853333
No 133
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=96.09 E-value=0.014 Score=59.54 Aligned_cols=70 Identities=19% Similarity=0.221 Sum_probs=50.5
Q ss_pred eCCCCCC-ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 11 YFPYDNI-YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 11 ~Fpy~~~-r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.|+|.++ .+-|.+.+..| ...+..+.+..|||.||||+|-+|+|.. +... ||.+|-++|+..-++-|.+
T Consensus 14 ~FGh~kFKs~LQE~A~~c~---VK~k~DVyVsMPTGaGKSLCyQLPaL~~------~gIT-IV~SPLiALIkDQiDHL~~ 83 (641)
T KOG0352|consen 14 LFGHKKFKSRLQEQAINCI---VKRKCDVYVSMPTGAGKSLCYQLPALVH------GGIT-IVISPLIALIKDQIDHLKR 83 (641)
T ss_pred HhCchhhcChHHHHHHHHH---HhccCcEEEeccCCCchhhhhhchHHHh------CCeE-EEehHHHHHHHHHHHHHHh
Confidence 4776642 57787765554 4556789999999999999999999863 2324 4556888888766676666
Q ss_pred h
Q 006790 90 L 90 (631)
Q Consensus 90 l 90 (631)
|
T Consensus 84 L 84 (641)
T KOG0352|consen 84 L 84 (641)
T ss_pred c
Confidence 4
No 134
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=96.08 E-value=0.029 Score=63.41 Aligned_cols=137 Identities=10% Similarity=0.076 Sum_probs=78.5
Q ss_pred cccHHHhhccCEEEEecCCCCCc-cchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHH
Q 006790 442 LAVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNY 520 (631)
Q Consensus 442 ~~l~~l~~~~~svIltSaTL~p~-~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l 520 (631)
..++.+|..++.+.-|+||+... +.|.+.-|++-.. .|-.-|... .+-|+ .=+.+..+-..++
T Consensus 350 IT~QnfFr~Y~kL~GMTGTa~te~~Ef~~iY~l~vv~---IPtnkp~~R------~d~~d-------~v~~t~~~K~~AI 413 (870)
T CHL00122 350 ITYQNFFLLYPKLSGMTGTAKTEELEFEKIYNLEVVC---IPTHRPMLR------KDLPD-------LIYKDELSKWRAI 413 (870)
T ss_pred eeHHHHHHhCchhcccCCCCHHHHHHHHHHhCCCEEE---CCCCCCccc------eeCCC-------eEEeCHHHHHHHH
Confidence 34578888888999999999764 3555555654221 111111000 00010 1122333334567
Q ss_pred HHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCC---chhhHHHHHHHHHhhcCCCCeEEE
Q 006790 521 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD---VVETTLALDNYRKACDCGRGAVFF 597 (631)
Q Consensus 521 ~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~---~~~~~~~l~~fk~~~~~~~~aILf 597 (631)
.+.+.+.. ..+..+||-.+|-+.=+.+...+...++-. .|+- .++ ..+ ..++.+ + ..+|+|-+
T Consensus 414 ~~ei~~~~-~~grPVLIgT~SIe~SE~ls~~L~~~gi~h------~vLN-Ak~~~~~~E-A~IIA~---A--G~~G~VTI 479 (870)
T CHL00122 414 ADECLQMH-QTGRPILIGTTTIEKSELLSQLLKEYRLPH------QLLN-AKPENVRRE-SEIVAQ---A--GRKGSITI 479 (870)
T ss_pred HHHHHHHH-hcCCCEEEeeCCHHHHHHHHHHHHHcCCcc------ceee-CCCccchhH-HHHHHh---c--CCCCcEEE
Confidence 77776643 456789999999999999999998776422 2222 221 111 112221 1 12589999
Q ss_pred EEecCcccccccC
Q 006790 598 SVARGKVAEGIDF 610 (631)
Q Consensus 598 gv~~Gsf~EGIDf 610 (631)
++ .-...|.|+
T Consensus 480 AT--NMAGRGTDI 490 (870)
T CHL00122 480 AT--NMAGRGTDI 490 (870)
T ss_pred ec--cccCCCcCe
Confidence 98 678899887
No 135
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=96.08 E-value=0.009 Score=59.63 Aligned_cols=68 Identities=22% Similarity=0.270 Sum_probs=49.7
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
|..|++||-|.+.++.+. .++.+++--|||-||+|+|-+|||.. +. =.+|.+|-+++.+.-+-.|+.|
T Consensus 90 f~lekfrplq~~ain~~m----a~ed~~lil~tgggkslcyqlpal~a------dg-~alvi~plislmedqil~lkql 157 (695)
T KOG0353|consen 90 FHLEKFRPLQLAAINATM----AGEDAFLILPTGGGKSLCYQLPALCA------DG-FALVICPLISLMEDQILQLKQL 157 (695)
T ss_pred hhHHhcChhHHHHhhhhh----ccCceEEEEeCCCccchhhhhhHHhc------CC-ceEeechhHHHHHHHHHHHHHh
Confidence 566788999998887653 45678888999999999999998863 24 3555568888775444445553
No 136
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.05 E-value=0.009 Score=56.65 Aligned_cols=80 Identities=14% Similarity=0.115 Sum_probs=62.2
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.-+||.|.+.|.+-+-. |+- |-.++.+|-.|.|||..+.++.|.-..-. ++...|++.+.|+.+.-|+-+|..+.
T Consensus 59 dcgfehpsevqhecipq---ail-gmdvlcqaksgmgktavfvl~tlqqiepv-~g~vsvlvmchtrelafqi~~ey~rf 133 (387)
T KOG0329|consen 59 DCGFEHPSEVQHECIPQ---AIL-GMDVLCQAKSGMGKTAVFVLATLQQIEPV-DGQVSVLVMCHTRELAFQISKEYERF 133 (387)
T ss_pred hccCCCchHhhhhhhhH---Hhh-cchhheecccCCCceeeeehhhhhhcCCC-CCeEEEEEEeccHHHHHHHHHHHHHH
Confidence 34788778888876554 333 45689999999999999998877543322 34558899999999999999999999
Q ss_pred hhhcc
Q 006790 91 HNYQT 95 (631)
Q Consensus 91 ~~~~~ 95 (631)
.+|.|
T Consensus 134 skymP 138 (387)
T KOG0329|consen 134 SKYMP 138 (387)
T ss_pred HhhCC
Confidence 88865
No 137
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=95.91 E-value=0.006 Score=70.23 Aligned_cols=63 Identities=19% Similarity=0.239 Sum_probs=49.7
Q ss_pred eeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHH
Q 006790 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (631)
Q Consensus 10 ~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~ 83 (631)
..|++..+||.|.+++. +...|+..++..|||-||+++|-+||+.+ ++ -.+|.+|-.+|.+-.
T Consensus 258 ~~Fg~~~FR~~Q~eaI~----~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~------~g-itvVISPL~SLm~DQ 320 (941)
T KOG0351|consen 258 EVFGHKGFRPNQLEAIN----ATLSGKDCFVLMPTGGGKSLCYQLPALLL------GG-VTVVISPLISLMQDQ 320 (941)
T ss_pred HHhccccCChhHHHHHH----HHHcCCceEEEeecCCceeeEeecccccc------CC-ceEEeccHHHHHHHH
Confidence 46899999999999887 45567889999999999999999998865 34 345555888876433
No 138
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=95.83 E-value=0.03 Score=61.58 Aligned_cols=90 Identities=20% Similarity=0.276 Sum_probs=64.4
Q ss_pred cCEEEEecCCCCCccchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHHHhhcc
Q 006790 451 FQSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSI 530 (631)
Q Consensus 451 ~~svIltSaTL~p~~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~ 530 (631)
.-..|+|||||.+.++-.+-.-|+.. | | ++.-...+.+++--|+.|...+|+.+.-+-...|.+.
T Consensus 414 pLKLIIMSATLRVsDFtenk~LFpi~---------p-----P-likVdARQfPVsIHF~krT~~DYi~eAfrKtc~IH~k 478 (1172)
T KOG0926|consen 414 PLKLIIMSATLRVSDFTENKRLFPIP---------P-----P-LIKVDARQFPVSIHFNKRTPDDYIAEAFRKTCKIHKK 478 (1172)
T ss_pred ceeEEEEeeeEEecccccCceecCCC---------C-----c-eeeeecccCceEEEeccCCCchHHHHHHHHHHHHhhc
Confidence 45789999999998754332222110 0 0 1222245567777888888888887777777777777
Q ss_pred cC-CcEEEEecchHHHHHHHHHHhhc
Q 006790 531 VP-DGIVCFFVSYSYMDEIIATWNDS 555 (631)
Q Consensus 531 ~~-gg~LVfF~Sy~~l~~v~~~~~~~ 555 (631)
.| ||+|||.|--...+++.+.+++.
T Consensus 479 LP~G~ILVFvTGQqEV~qL~~kLRK~ 504 (1172)
T KOG0926|consen 479 LPPGGILVFVTGQQEVDQLCEKLRKR 504 (1172)
T ss_pred CCCCcEEEEEeChHHHHHHHHHHHhh
Confidence 76 89999999999999999999864
No 139
>PRK10536 hypothetical protein; Provisional
Probab=95.82 E-value=0.028 Score=54.80 Aligned_cols=38 Identities=18% Similarity=0.170 Sum_probs=29.0
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHH
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITS 58 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~ 58 (631)
....|..++.. +.+...+++.+|+|||||+..+..++.
T Consensus 60 ~n~~Q~~~l~a----l~~~~lV~i~G~aGTGKT~La~a~a~~ 97 (262)
T PRK10536 60 RNEAQAHYLKA----IESKQLIFATGEAGCGKTWISAAKAAE 97 (262)
T ss_pred CCHHHHHHHHH----HhcCCeEEEECCCCCCHHHHHHHHHHH
Confidence 46778777764 455679999999999999977766554
No 140
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=95.74 E-value=0.042 Score=61.84 Aligned_cols=75 Identities=19% Similarity=0.133 Sum_probs=60.3
Q ss_pred EeeCCCCCCChHHHHHHHHHHHHHhcCC-cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHH
Q 006790 9 TVYFPYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 9 ~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~-~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
.+.=||+| .-.|-+.+..+.+++.++. ..++-+-||+|||+ +++.+. +. . ++ +++|.|++..+..|+.+||
T Consensus 3 ~~~~~~~~-~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~--~~a~~~-~~-~--~~-p~Lvi~~n~~~A~ql~~el 74 (655)
T TIGR00631 3 KLHSPFQP-AGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTF--TMANVI-AQ-V--NR-PTLVIAHNKTLAAQLYNEF 74 (655)
T ss_pred eeccCCCC-ChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHH--HHHHHH-HH-h--CC-CEEEEECCHHHHHHHHHHH
Confidence 45568986 8999999999999998763 66789999999999 444332 22 2 46 8999999999999999999
Q ss_pred Hhhh
Q 006790 88 KLLH 91 (631)
Q Consensus 88 ~~l~ 91 (631)
+.+.
T Consensus 75 ~~f~ 78 (655)
T TIGR00631 75 KEFF 78 (655)
T ss_pred HHhC
Confidence 8864
No 141
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=95.65 E-value=0.046 Score=63.04 Aligned_cols=77 Identities=22% Similarity=0.283 Sum_probs=57.4
Q ss_pred HHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCC-------CCceEEEEecchhhHHHHHHHHHhhhhhcccCCCCccc
Q 006790 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-------NPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAK 103 (631)
Q Consensus 31 ~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~-------~~~~vi~~t~T~~l~~Q~~~el~~l~~~~~~~~~~~~~ 103 (631)
|+....++++.||||.|||-..+.-+|.-+..+.. ...||+|..+.++|.+-++..+-+-. .+.+
T Consensus 321 Al~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkRl--------a~~G 392 (1674)
T KOG0951|consen 321 ALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRL--------APLG 392 (1674)
T ss_pred HhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhhc--------cccC
Confidence 45556799999999999999888877765543311 12489999999999999998765422 2566
Q ss_pred eeEEEeCCCCcc
Q 006790 104 ILAIGLSSRKNL 115 (631)
Q Consensus 104 ~~~~~l~gr~~l 115 (631)
++++-+.|-.++
T Consensus 393 I~V~ElTgD~~l 404 (1674)
T KOG0951|consen 393 ITVLELTGDSQL 404 (1674)
T ss_pred cEEEEecccccc
Confidence 788888887663
No 142
>PRK08181 transposase; Validated
Probab=95.56 E-value=0.028 Score=55.89 Aligned_cols=53 Identities=19% Similarity=0.194 Sum_probs=35.3
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
+.|........+.+.++.++++-+|+|||||. |+-|++..... .+. +|+|.+.
T Consensus 90 ~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTH--La~Aia~~a~~-~g~-~v~f~~~ 142 (269)
T PRK08181 90 KAQVMAIAAGDSWLAKGANLLLFGPPGGGKSH--LAAAIGLALIE-NGW-RVLFTRT 142 (269)
T ss_pred HHHHHHHHHHHHHHhcCceEEEEecCCCcHHH--HHHHHHHHHHH-cCC-ceeeeeH
Confidence 55655554444567778899999999999997 44444443222 245 7877764
No 143
>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=95.56 E-value=0.039 Score=55.01 Aligned_cols=40 Identities=23% Similarity=0.121 Sum_probs=34.1
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHH
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
.+..+++.+.+..++..+.++++++|+|||||...- +++.
T Consensus 4 t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~--~la~ 43 (262)
T TIGR02640 4 TDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAM--HVAR 43 (262)
T ss_pred CHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHH--HHHH
Confidence 588899999999999999999999999999998443 4443
No 144
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=95.48 E-value=0.2 Score=57.18 Aligned_cols=91 Identities=7% Similarity=0.135 Sum_probs=58.6
Q ss_pred HHHHHHHhhcccCCcEEEEecc--------hHHHHHHHHHHhhcchHHHHhcCCeEEEeCC-CchhhHHHHHHHHHhhcC
Q 006790 520 YGKLLVEMVSIVPDGIVCFFVS--------YSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDC 590 (631)
Q Consensus 520 l~~~i~~~~~~~~gg~LVfF~S--------y~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~-~~~~~~~~l~~fk~~~~~ 590 (631)
+.+.+.+.+ ..++.++||+|. ....+.+++.|+.. +...+..++-++ ...++...+++|++
T Consensus 460 ~~~~i~~~~-~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~-----~~~~~v~~lHG~m~~~eR~~i~~~F~~---- 529 (681)
T PRK10917 460 VYERIREEI-AKGRQAYVVCPLIEESEKLDLQSAEETYEELQEA-----FPELRVGLLHGRMKPAEKDAVMAAFKA---- 529 (681)
T ss_pred HHHHHHHHH-HcCCcEEEEEcccccccchhHHHHHHHHHHHHHH-----CCCCcEEEEeCCCCHHHHHHHHHHHHc----
Confidence 334444443 345689999984 44556666666542 111123334333 23456778888886
Q ss_pred CCCeEEEEEecCcccccccCCCCCceEEEEEccc
Q 006790 591 GRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVP 624 (631)
Q Consensus 591 ~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLP 624 (631)
|+-.||+|+ .-+.+|||+|+ +++||+...|
T Consensus 530 g~~~ILVaT--~vie~GiDip~--v~~VIi~~~~ 559 (681)
T PRK10917 530 GEIDILVAT--TVIEVGVDVPN--ATVMVIENAE 559 (681)
T ss_pred CCCCEEEEC--cceeeCcccCC--CcEEEEeCCC
Confidence 677899999 68999999996 5678888776
No 145
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=95.46 E-value=0.12 Score=58.70 Aligned_cols=138 Identities=15% Similarity=0.146 Sum_probs=75.8
Q ss_pred ccHHHhhccCEEEEecCCCCCc-cchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHH
Q 006790 443 AVKPVFDRFQSVVITSGTLSPI-DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 521 (631)
Q Consensus 443 ~l~~l~~~~~svIltSaTL~p~-~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~ 521 (631)
.++.+|..++.+--|+||.... +.|.+.-|++-+. +|.+. |..-.+.|+ .- ++...+-..++.
T Consensus 366 T~QnfFr~Y~kLsGMTGTa~te~~Ef~~iY~l~Vv~-------IPTnk--P~~R~d~~d-----~v--y~t~~~K~~Ai~ 429 (939)
T PRK12902 366 TYQNFFLLYPKLAGMTGTAKTEEVEFEKTYKLEVTV-------IPTNR--PRRRQDWPD-----QV--YKTEIAKWRAVA 429 (939)
T ss_pred eHHHHHhhCchhcccCCCCHHHHHHHHHHhCCcEEE-------cCCCC--CeeeecCCC-----eE--EcCHHHHHHHHH
Confidence 3477788888888888887654 2455555553211 11110 000001111 11 223334445677
Q ss_pred HHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhH-HHHHHHHHhhcCCCCeEEEEEe
Q 006790 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETT-LALDNYRKACDCGRGAVFFSVA 600 (631)
Q Consensus 522 ~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~-~~l~~fk~~~~~~~~aILfgv~ 600 (631)
+.+.++. ..+..+||-.+|-+.=+.+...+...++-.. |+--.+.....+ .++.+ + ...|+|-.++
T Consensus 430 ~ei~~~~-~~GrPVLIgT~SVe~SE~ls~~L~~~gi~h~------vLNAk~~~~~~EA~IIa~---A--G~~GaVTIAT- 496 (939)
T PRK12902 430 NETAEMH-KQGRPVLVGTTSVEKSELLSALLQEQGIPHN------LLNAKPENVEREAEIVAQ---A--GRKGAVTIAT- 496 (939)
T ss_pred HHHHHHH-hCCCCEEEeeCCHHHHHHHHHHHHHcCCchh------eeeCCCcchHhHHHHHHh---c--CCCCcEEEec-
Confidence 7777654 3567899999999999999999987765332 222111111111 12221 1 1257899888
Q ss_pred cCcccccccC
Q 006790 601 RGKVAEGIDF 610 (631)
Q Consensus 601 ~Gsf~EGIDf 610 (631)
.-...|-|+
T Consensus 497 -NMAGRGTDI 505 (939)
T PRK12902 497 -NMAGRGTDI 505 (939)
T ss_pred -cCCCCCcCE
Confidence 567888887
No 146
>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=95.37 E-value=0.02 Score=53.39 Aligned_cols=59 Identities=19% Similarity=0.249 Sum_probs=26.6
Q ss_pred CCCCCChHHHHHHHHH--HHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 13 PYDNIYPEQYSYMLEL--KRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v--~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
.|...++.+...+..+ .+.++++.++++-+|||||||. |+.|++..... .+. +|.|.+-
T Consensus 23 d~~~~~~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKTh--La~ai~~~~~~-~g~-~v~f~~~ 83 (178)
T PF01695_consen 23 DFSNERGIDKAQIAQLAALEFIENGENLILYGPPGTGKTH--LAVAIANEAIR-KGY-SVLFITA 83 (178)
T ss_dssp -----------HHHHHHHH-S-SC--EEEEEESTTSSHHH--HHHHHHHHHHH-TT---EEEEEH
T ss_pred cccchhhHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHH--HHHHHHHHhcc-CCc-ceeEeec
Confidence 3433334444444443 2234556789999999999999 44445433222 245 7877653
No 147
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=95.33 E-value=0.044 Score=52.43 Aligned_cols=68 Identities=18% Similarity=0.250 Sum_probs=55.5
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+||.|.+++.++.+. ..+.+.+.+.-.|-|||-. ++|.++++.+. ++ +++...=-++|.+|..+.|+.
T Consensus 24 iR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKTsV-I~Pmla~~LAd--g~-~LvrviVpk~Ll~q~~~~L~~ 91 (229)
T PF12340_consen 24 IRPVQVEIAREMISP-PSGKNSVMQLNMGEGKTSV-IVPMLALALAD--GS-RLVRVIVPKALLEQMRQMLRS 91 (229)
T ss_pred eeHHHHHHHHHHhCC-CCCCCeEeeecccCCccch-HHHHHHHHHcC--CC-cEEEEEcCHHHHHHHHHHHHH
Confidence 599999999998864 5567899999999999974 66878887765 56 777777778899998887664
No 148
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=95.21 E-value=0.092 Score=58.36 Aligned_cols=69 Identities=23% Similarity=0.176 Sum_probs=53.5
Q ss_pred CCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhh
Q 006790 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~ 92 (631)
+..| |+.|.--+..+ -+|. ++|..||.|||+...+|+...+.. |+ +|-+.|+|--|..|-.+.+..+.+
T Consensus 76 g~r~-ydvQlig~l~L----l~G~--VaEM~TGEGKTLvA~l~a~l~AL~---G~-~VhvvT~NdyLA~RDae~m~~ly~ 144 (764)
T PRK12326 76 GLRP-FDVQLLGALRL----LAGD--VIEMATGEGKTLAGAIAAAGYALQ---GR-RVHVITVNDYLARRDAEWMGPLYE 144 (764)
T ss_pred CCCc-chHHHHHHHHH----hCCC--cccccCCCCHHHHHHHHHHHHHHc---CC-CeEEEcCCHHHHHHHHHHHHHHHH
Confidence 4444 77886655443 3454 779999999999999998777652 57 899999999999998888887754
No 149
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=95.20 E-value=0.052 Score=53.68 Aligned_cols=54 Identities=19% Similarity=0.244 Sum_probs=37.7
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
..+.+-+....+.+.+++++++-+|+|||||. |+.|++.... ..+. +|+|.|-+
T Consensus 89 ~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKTh--La~Ai~~~l~-~~g~-sv~f~~~~ 142 (254)
T COG1484 89 KKALEDLASLVEFFERGENLVLLGPPGVGKTH--LAIAIGNELL-KAGI-SVLFITAP 142 (254)
T ss_pred HHHHHHHHHHHHHhccCCcEEEECCCCCcHHH--HHHHHHHHHH-HcCC-eEEEEEHH
Confidence 34444444555667778899999999999999 6666766555 3355 78777644
No 150
>PHA02244 ATPase-like protein
Probab=95.19 E-value=0.063 Score=55.18 Aligned_cols=48 Identities=13% Similarity=0.048 Sum_probs=36.3
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHH
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV 60 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~ 60 (631)
.|||-..-|.+......+.+.+..+.++++.+|||||||. |+-++++.
T Consensus 95 d~~~ig~sp~~~~~~~ri~r~l~~~~PVLL~GppGtGKTt--LA~aLA~~ 142 (383)
T PHA02244 95 DTTKIASNPTFHYETADIAKIVNANIPVFLKGGAGSGKNH--IAEQIAEA 142 (383)
T ss_pred CCcccCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHH--HHHHHHHH
Confidence 4555443466666667888999999999999999999998 55556554
No 151
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=95.04 E-value=0.35 Score=54.70 Aligned_cols=81 Identities=6% Similarity=0.184 Sum_probs=53.3
Q ss_pred cCCcEEEEecchH--------HHHHHHHHHhhcchHHHHhcCCeEEEeCC-CchhhHHHHHHHHHhhcCCCCeEEEEEec
Q 006790 531 VPDGIVCFFVSYS--------YMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSVAR 601 (631)
Q Consensus 531 ~~gg~LVfF~Sy~--------~l~~v~~~~~~~~~~~~l~~~~~v~~e~~-~~~~~~~~l~~fk~~~~~~~~aILfgv~~ 601 (631)
.++.++||+|..+ ..+.+++.|+.. +...+..++-++ ...++...+++|++ |+..||+|+
T Consensus 447 ~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~-----~~~~~v~~lHG~m~~~eR~~i~~~F~~----g~~~ILVaT-- 515 (630)
T TIGR00643 447 KGRQAYVVYPLIEESEKLDLKAAEALYERLKKA-----FPKYNVGLLHGRMKSDEKEAVMEEFRE----GEVDILVAT-- 515 (630)
T ss_pred hCCcEEEEEccccccccchHHHHHHHHHHHHhh-----CCCCcEEEEeCCCCHHHHHHHHHHHHc----CCCCEEEEC--
Confidence 3567899998753 334455555431 111223334333 23456678888886 678999999
Q ss_pred CcccccccCCCCCceEEEEEccc
Q 006790 602 GKVAEGIDFDRHYGRLVIMFGVP 624 (631)
Q Consensus 602 Gsf~EGIDf~g~~lr~VII~gLP 624 (631)
..+.+|||+|+ +++||+...|
T Consensus 516 ~vie~GvDiP~--v~~VIi~~~~ 536 (630)
T TIGR00643 516 TVIEVGVDVPN--ATVMVIEDAE 536 (630)
T ss_pred ceeecCcccCC--CcEEEEeCCC
Confidence 68999999997 6778888766
No 152
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.98 E-value=0.058 Score=55.36 Aligned_cols=54 Identities=26% Similarity=0.231 Sum_probs=33.4
Q ss_pred ChHHHHHHHHHHHHHh----cCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 18 YPEQYSYMLELKRALD----AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~----~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
|+.+.++.....+.++ .+.++++-+|||||||. |+-|++...... +. +|+|.|.
T Consensus 162 ~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKTh--La~aIa~~l~~~-g~-~V~y~t~ 219 (329)
T PRK06835 162 RKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTF--LSNCIAKELLDR-GK-SVIYRTA 219 (329)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHH--HHHHHHHHHHHC-CC-eEEEEEH
Confidence 4444444443333333 34789999999999998 554555433332 45 8888775
No 153
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=94.95 E-value=0.073 Score=41.85 Aligned_cols=44 Identities=23% Similarity=0.480 Sum_probs=35.1
Q ss_pred hhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEEEEEcccCCC
Q 006790 576 ETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQY 627 (631)
Q Consensus 576 ~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPfp~ 627 (631)
+....++.|.+ +...||+++ ..++||||+++ ++.||+.+.|+..
T Consensus 25 ~r~~~~~~f~~----~~~~vli~t--~~~~~Gi~~~~--~~~vi~~~~~~~~ 68 (82)
T smart00490 25 EREEILEKFNN----GKIKVLVAT--DVAERGLDLPG--VDLVIIYDLPWSP 68 (82)
T ss_pred HHHHHHHHHHc----CCCeEEEEC--ChhhCCcChhc--CCEEEEeCCCCCH
Confidence 44556666665 566899888 79999999987 8999999998764
No 154
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=94.90 E-value=0.13 Score=51.49 Aligned_cols=59 Identities=20% Similarity=0.195 Sum_probs=51.1
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l 79 (631)
..|+|+..+..+...+.+++..++.|=||.|||- .+.+++.++... |. +|-++||-.--
T Consensus 98 Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTE-Mif~~i~~al~~--G~-~vciASPRvDV 156 (441)
T COG4098 98 LSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTE-MIFQGIEQALNQ--GG-RVCIASPRVDV 156 (441)
T ss_pred cChhHHHHHHHHHHHHHhcCcEEEEEecCCCchh-hhHHHHHHHHhc--CC-eEEEecCcccc
Confidence 4689999999999999999999999999999997 355678888766 67 99999998653
No 155
>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=94.88 E-value=0.36 Score=55.30 Aligned_cols=88 Identities=9% Similarity=0.102 Sum_probs=55.7
Q ss_pred HHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCC-CchhhH-----HHHHHHHHhhcCC-
Q 006790 519 NYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETT-----LALDNYRKACDCG- 591 (631)
Q Consensus 519 ~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~-~~~~~~-----~~l~~fk~~~~~~- 591 (631)
.+...+..+....++.+|||+++-+..+.+++.++..++ +++-++ ...++. .++++|+..-.++
T Consensus 259 ~lv~~L~~ll~e~g~~vLVF~NTv~~Aq~L~~~L~~~g~---------~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~ 329 (844)
T TIGR02621 259 TMVKELNLLMKDSGGAILVFCRTVKHVRKVFAKLPKEKF---------ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGS 329 (844)
T ss_pred HHHHHHHHHHhhCCCcEEEEECCHHHHHHHHHHHHhcCC---------eEeeCCCCHHHHhhHHHHHHHHHHhccccccc
Confidence 333444444445567799999999999999999976532 222222 223344 5577787511111
Q ss_pred ------CCeEEEEEecCcccccccCCCCCceEEEE
Q 006790 592 ------RGAVFFSVARGKVAEGIDFDRHYGRLVIM 620 (631)
Q Consensus 592 ------~~aILfgv~~Gsf~EGIDf~g~~lr~VII 620 (631)
...||+|+ .-...|||++. ..||.
T Consensus 330 ~~~~~~g~~ILVAT--dVaerGLDId~---d~VI~ 359 (844)
T TIGR02621 330 RARPQQGTVYLVCT--SAGEVGVNISA---DHLVC 359 (844)
T ss_pred cccccccceEEecc--chhhhcccCCc---ceEEE
Confidence 13588888 68999999986 35554
No 156
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=94.85 E-value=0.12 Score=58.61 Aligned_cols=76 Identities=20% Similarity=0.185 Sum_probs=60.9
Q ss_pred eEeeCCCCCCChHHHHHHHHHHHHHhcCC-cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHH
Q 006790 8 VTVYFPYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 8 ~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~-~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
..+.=||++ ++.|......+.+++.++. ..++.+.||+|||+.+ +++. ... ++ +++|.|++..+..|+.++
T Consensus 5 ~~~~~~~~~-~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~li--a~l~--~~~--~r-~vLIVt~~~~~A~~l~~d 76 (652)
T PRK05298 5 FKLVSPYKP-AGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTM--ANVI--ARL--QR-PTLVLAHNKTLAAQLYSE 76 (652)
T ss_pred cccccCCCC-ChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHH--HHHH--HHh--CC-CEEEEECCHHHHHHHHHH
Confidence 346678986 9999999999999997663 5679999999999953 3322 222 46 899999999999999999
Q ss_pred HHhhh
Q 006790 87 LKLLH 91 (631)
Q Consensus 87 l~~l~ 91 (631)
|+.+.
T Consensus 77 L~~~~ 81 (652)
T PRK05298 77 FKEFF 81 (652)
T ss_pred HHHhc
Confidence 98763
No 157
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=94.69 E-value=0.08 Score=57.45 Aligned_cols=28 Identities=21% Similarity=0.298 Sum_probs=25.6
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCChhHH
Q 006790 23 SYMLELKRALDAKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 23 ~~~~~v~~~l~~~~~~~iEapTGtGKTl 50 (631)
++...|..++++++.++|-+.||+|||-
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKST 81 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKST 81 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCccc
Confidence 5678899999999999999999999987
No 158
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=94.49 E-value=0.084 Score=59.34 Aligned_cols=74 Identities=14% Similarity=0.203 Sum_probs=60.4
Q ss_pred eEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHH
Q 006790 8 VTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 8 ~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
--..|||+. =+-|++.+. +|..|..+++-|+|-.|||+.+=.+ ++.+..+ +. |.||.||-+++-.|=++|+
T Consensus 290 ~a~~~pFel-D~FQk~Ai~----~lerg~SVFVAAHTSAGKTvVAEYA-ialaq~h--~T-R~iYTSPIKALSNQKfRDF 360 (1248)
T KOG0947|consen 290 MALIYPFEL-DTFQKEAIY----HLERGDSVFVAAHTSAGKTVVAEYA-IALAQKH--MT-RTIYTSPIKALSNQKFRDF 360 (1248)
T ss_pred HHhhCCCCc-cHHHHHHHH----HHHcCCeEEEEecCCCCcchHHHHH-HHHHHhh--cc-ceEecchhhhhccchHHHH
Confidence 345799996 799988765 5788899999999999999977664 4445544 34 9999999999999999998
Q ss_pred Hhh
Q 006790 88 KLL 90 (631)
Q Consensus 88 ~~l 90 (631)
+..
T Consensus 361 k~t 363 (1248)
T KOG0947|consen 361 KET 363 (1248)
T ss_pred HHh
Confidence 874
No 159
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=94.45 E-value=0.079 Score=54.80 Aligned_cols=56 Identities=34% Similarity=0.361 Sum_probs=42.9
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~ 78 (631)
+-++.+.+..+..++..++++++|+|+|+|||. |.-+++..... +...|-+|+...
T Consensus 26 ~~g~~~~~~~~l~a~~~~~~vll~G~PG~gKT~--la~~lA~~l~~---~~~~i~~t~~l~ 81 (329)
T COG0714 26 VVGDEEVIELALLALLAGGHVLLEGPPGVGKTL--LARALARALGL---PFVRIQCTPDLL 81 (329)
T ss_pred eeccHHHHHHHHHHHHcCCCEEEECCCCccHHH--HHHHHHHHhCC---CeEEEecCCCCC
Confidence 345888999999999999999999999999999 77666655432 335566666544
No 160
>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=94.38 E-value=0.1 Score=46.16 Aligned_cols=52 Identities=31% Similarity=0.399 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHhc--CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 20 EQYSYMLELKRALDA--KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~--~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
+|.+....+...+.. +.++++-+|+|+|||. |+-.+....... +. ++++...
T Consensus 2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~--l~~~i~~~~~~~-~~-~v~~~~~ 55 (151)
T cd00009 2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTT--LARAIANELFRP-GA-PFLYLNA 55 (151)
T ss_pred chHHHHHHHHHHHhCCCCCeEEEECCCCCCHHH--HHHHHHHHhhcC-CC-CeEEEeh
Confidence 466777788888877 6789999999999996 443343322221 23 5665544
No 161
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=94.34 E-value=0.037 Score=57.67 Aligned_cols=41 Identities=22% Similarity=0.353 Sum_probs=30.5
Q ss_pred CCCCCChHHHHHHHHHHHHHhcC--CcEEEecCCCChhHHHHHHHH
Q 006790 13 PYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLI 56 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla~L~~~ 56 (631)
|-..+||.|..-+.+ .|.+| +..+|--|+|.||||.=+.++
T Consensus 299 Pst~iRpYQEksL~K---MFGNgRARSGiIVLPCGAGKtLVGvTAa 341 (776)
T KOG1123|consen 299 PSTQIRPYQEKSLSK---MFGNGRARSGIIVLPCGAGKTLVGVTAA 341 (776)
T ss_pred cccccCchHHHHHHH---HhCCCcccCceEEEecCCCCceeeeeee
Confidence 555579999876554 46666 368888999999999666543
No 162
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=94.34 E-value=0.24 Score=54.76 Aligned_cols=85 Identities=13% Similarity=0.082 Sum_probs=59.5
Q ss_pred CCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHH--HHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL--LSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~--L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
|...+|.|++=.+=+.+--.++.-+|+-=--|-|||+-. .+++|.+.... .+ +++|.+|+ +++.|+++|+.+.
T Consensus 203 ~~~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~--~~-paLIVCP~-Tii~qW~~E~~~w- 277 (923)
T KOG0387|consen 203 WSKLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSGKL--TK-PALIVCPA-TIIHQWMKEFQTW- 277 (923)
T ss_pred HHHhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcccc--cC-ceEEEccH-HHHHHHHHHHHHh-
Confidence 344578888888888888888877888889999999833 33455554222 24 45555553 4679999999996
Q ss_pred hhcccCCCCccceeEEEeCCC
Q 006790 92 NYQTRHLGPAAKILAIGLSSR 112 (631)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~gr 112 (631)
..++++.++.|-
T Consensus 278 ---------~p~~rv~ilh~t 289 (923)
T KOG0387|consen 278 ---------WPPFRVFILHGT 289 (923)
T ss_pred ---------CcceEEEEEecC
Confidence 456788887653
No 163
>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=94.30 E-value=0.36 Score=50.49 Aligned_cols=70 Identities=9% Similarity=0.173 Sum_probs=46.8
Q ss_pred cCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCC-chhhHH----HHHHHHHhhcCCCCeEEEEEecCccc
Q 006790 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTL----ALDNYRKACDCGRGAVFFSVARGKVA 605 (631)
Q Consensus 531 ~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~-~~~~~~----~l~~fk~~~~~~~~aILfgv~~Gsf~ 605 (631)
.++.+|||+++.+..+.+++.+++.+. ......+-++- ..++.. ++++|++ ++..||+++ ..+.
T Consensus 221 ~~~~~lVf~~t~~~~~~~~~~L~~~~~-----~~~~~~~h~~~~~~~r~~~~~~~~~~f~~----~~~~ilvaT--~~~~ 289 (358)
T TIGR01587 221 KGGKIAIIVNTVDRAQEFYQQLKENAP-----EEEIMLLHSRFTEKDRAKKEAELLEEMKK----NEKFVIVAT--QVIE 289 (358)
T ss_pred CCCeEEEEECCHHHHHHHHHHHHhhcC-----CCeEEEEECCCCHHHHHHHHHHHHHHhcC----CCCeEEEEC--cchh
Confidence 467999999999999999999976421 11222332321 122222 3455554 677899988 7999
Q ss_pred ccccCC
Q 006790 606 EGIDFD 611 (631)
Q Consensus 606 EGIDf~ 611 (631)
.|||++
T Consensus 290 ~GiDi~ 295 (358)
T TIGR01587 290 ASLDIS 295 (358)
T ss_pred ceeccC
Confidence 999996
No 164
>PRK13531 regulatory ATPase RavA; Provisional
Probab=94.30 E-value=0.053 Score=57.80 Aligned_cols=40 Identities=15% Similarity=0.088 Sum_probs=33.2
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHH
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV 60 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~ 60 (631)
.+|.+.++.+..++..++++++++|+|||||. |+-+++.+
T Consensus 23 ~gre~vI~lll~aalag~hVLL~GpPGTGKT~--LAraLa~~ 62 (498)
T PRK13531 23 YERSHAIRLCLLAALSGESVFLLGPPGIAKSL--IARRLKFA 62 (498)
T ss_pred cCcHHHHHHHHHHHccCCCEEEECCCChhHHH--HHHHHHHH
Confidence 57888999999999999999999999999998 44344443
No 165
>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=94.16 E-value=0.071 Score=41.88 Aligned_cols=43 Identities=26% Similarity=0.485 Sum_probs=35.4
Q ss_pred hhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEEEEEcccCC
Q 006790 576 ETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQ 626 (631)
Q Consensus 576 ~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPfp 626 (631)
.+...+++|+. ++..||+++ ..++||||+|+ ++.||..+.|+.
T Consensus 21 ~r~~~~~~f~~----~~~~vli~t--~~~~~Gid~~~--~~~vi~~~~~~~ 63 (78)
T PF00271_consen 21 ERQEILKKFNS----GEIRVLIAT--DILGEGIDLPD--ASHVIFYDPPWS 63 (78)
T ss_dssp HHHHHHHHHHT----TSSSEEEES--CGGTTSSTSTT--ESEEEESSSESS
T ss_pred HHHHHHHHhhc----cCceEEEee--ccccccccccc--cccccccccCCC
Confidence 45567777776 577999998 79999999994 999999999875
No 166
>PHA02558 uvsW UvsW helicase; Provisional
Probab=94.11 E-value=0.52 Score=51.76 Aligned_cols=81 Identities=11% Similarity=0.087 Sum_probs=55.7
Q ss_pred ccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCc-hhhHHHHHHHHHhhcCCCCeEEEEEecCcccccc
Q 006790 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (631)
Q Consensus 530 ~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~-~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGI 608 (631)
..++++||||.+-+..+.+++.++..+. +..++.+... .++..+++.|++ ++..||+++. +-++|||
T Consensus 342 ~~~~~~lV~~~~~~h~~~L~~~L~~~g~-------~v~~i~G~~~~~eR~~i~~~~~~----~~~~vLvaT~-~~l~eG~ 409 (501)
T PHA02558 342 KKGENTFVMFKYVEHGKPLYEMLKKVYD-------KVYYVSGEVDTEDRNEMKKIAEG----GKGIIIVASY-GVFSTGI 409 (501)
T ss_pred hcCCCEEEEEEEHHHHHHHHHHHHHcCC-------CEEEEeCCCCHHHHHHHHHHHhC----CCCeEEEEEc-ceecccc
Confidence 4567899999999999999998876431 3344544432 234445555543 5667888874 5899999
Q ss_pred cCCCCCceEEEEEccc
Q 006790 609 DFDRHYGRLVIMFGVP 624 (631)
Q Consensus 609 Df~g~~lr~VII~gLP 624 (631)
|+|+ +.+||+...|
T Consensus 410 Dip~--ld~vIl~~p~ 423 (501)
T PHA02558 410 SIKN--LHHVIFAHPS 423 (501)
T ss_pred cccc--ccEEEEecCC
Confidence 9995 6777765443
No 167
>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=93.92 E-value=0.49 Score=46.84 Aligned_cols=71 Identities=21% Similarity=0.190 Sum_probs=49.8
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
.++.| |+.|.--+-. |.+|. ++|..||=|||+..-+||...+.. |+ +|-|.|.+--|.++=.+++..+-
T Consensus 74 ~g~~p-~~vQll~~l~----L~~G~--laEm~TGEGKTli~~l~a~~~AL~---G~-~V~vvT~NdyLA~RD~~~~~~~y 142 (266)
T PF07517_consen 74 LGLRP-YDVQLLGALA----LHKGR--LAEMKTGEGKTLIAALPAALNALQ---GK-GVHVVTSNDYLAKRDAEEMRPFY 142 (266)
T ss_dssp TS-----HHHHHHHHH----HHTTS--EEEESTTSHHHHHHHHHHHHHHTT---SS--EEEEESSHHHHHHHHHHHHHHH
T ss_pred cCCcc-cHHHHhhhhh----cccce--eEEecCCCCcHHHHHHHHHHHHHh---cC-CcEEEeccHHHhhccHHHHHHHH
Confidence 45554 7777654432 34444 999999999999998887776653 57 89999999999888888777765
Q ss_pred hh
Q 006790 92 NY 93 (631)
Q Consensus 92 ~~ 93 (631)
++
T Consensus 143 ~~ 144 (266)
T PF07517_consen 143 EF 144 (266)
T ss_dssp HH
T ss_pred HH
Confidence 44
No 168
>PRK08939 primosomal protein DnaI; Reviewed
Probab=93.87 E-value=0.18 Score=51.31 Aligned_cols=52 Identities=15% Similarity=0.071 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHh------cCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 20 EQYSYMLELKRALD------AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~------~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
.+.+++..+.+.+. .++.+++-+|+|+|||. |+.|++...... +. +|.|.+-
T Consensus 135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKTh--La~Aia~~l~~~-g~-~v~~~~~ 192 (306)
T PRK08939 135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSY--LLAAIANELAKK-GV-SSTLLHF 192 (306)
T ss_pred HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHH--HHHHHHHHHHHc-CC-CEEEEEH
Confidence 55566655555555 24579999999999998 665665544332 44 6665543
No 169
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=93.76 E-value=0.26 Score=57.05 Aligned_cols=87 Identities=17% Similarity=0.085 Sum_probs=49.8
Q ss_pred CChHHHHHHHHHHHHHhc-----CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 17 IYPEQYSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~-----~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
.+.-|-.....+.. +++ |-.+|==|.||+|||+|=.= +.|+...+....|..|+-.=++|.-|.=.+++.-+
T Consensus 409 rF~WQdkA~d~a~~-~r~~~~~~GfF~vNMASTGcGKT~aNAR--ImyaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL 485 (1110)
T TIGR02562 409 RFRWQNKAFNLAQK-LRQKSPEQGAFGVNMASTGCGKTLANAR--AMYALRDDKQGARFAIALGLRSLTLQTGHALKTRL 485 (1110)
T ss_pred CcchHHHHHHHHHH-HHhhcccCCeEEEEecCCCcchHHHHHH--HHHHhCCCCCCceEEEEccccceeccchHHHHHhc
Confidence 35667666644443 333 22455559999999997654 45565554333478888655555555545565432
Q ss_pred hhcccCCCCccceeEEEeCCCC
Q 006790 92 NYQTRHLGPAAKILAIGLSSRK 113 (631)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~gr~ 113 (631)
+++.+=-+|+++|..
T Consensus 486 -------~L~~ddLAVlIGs~A 500 (1110)
T TIGR02562 486 -------NLSDDDLAVLIGGTA 500 (1110)
T ss_pred -------CCCccceEEEECHHH
Confidence 223333366666654
No 170
>PRK14873 primosome assembly protein PriA; Provisional
Probab=93.74 E-value=0.43 Score=53.76 Aligned_cols=48 Identities=10% Similarity=0.119 Sum_probs=37.9
Q ss_pred EEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 38 ~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.+..+.+|+|||-.||-.+-.. ... |+ +++|..|.+++..|+++.|+.
T Consensus 163 ~i~~~~~GSGKTevyl~~i~~~-l~~--Gk-~vLvLvPEi~lt~q~~~rl~~ 210 (665)
T PRK14873 163 AVWQALPGEDWARRLAAAAAAT-LRA--GR-GALVVVPDQRDVDRLEAALRA 210 (665)
T ss_pred HHhhcCCCCcHHHHHHHHHHHH-HHc--CC-eEEEEecchhhHHHHHHHHHH
Confidence 4555657999999999864333 322 68 999999999999999998775
No 171
>PRK06526 transposase; Provisional
Probab=93.53 E-value=0.056 Score=53.38 Aligned_cols=43 Identities=21% Similarity=0.311 Sum_probs=28.3
Q ss_pred HHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 29 KRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 29 ~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
.+.+.++.++++-+|+|||||. |+-++...... .+. +|+|.|.
T Consensus 92 ~~fi~~~~nlll~Gp~GtGKTh--La~al~~~a~~-~g~-~v~f~t~ 134 (254)
T PRK06526 92 LDFVTGKENVVFLGPPGTGKTH--LAIGLGIRACQ-AGH-RVLFATA 134 (254)
T ss_pred CchhhcCceEEEEeCCCCchHH--HHHHHHHHHHH-CCC-chhhhhH
Confidence 3456667899999999999998 44444443322 245 7777544
No 172
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=93.52 E-value=0.19 Score=51.47 Aligned_cols=50 Identities=20% Similarity=0.123 Sum_probs=30.3
Q ss_pred HHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHH-hhCCCCCceEEEEecch
Q 006790 25 MLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV-LSKPENPVKLIYCTRTV 77 (631)
Q Consensus 25 ~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~-~~~~~~~~~vi~~t~T~ 77 (631)
+..+..++..+++++|-+|||+|||- |+-++... ...+... ++++.-.+.
T Consensus 138 ~~~L~~~v~~~~~ilI~G~tGSGKTT--ll~aL~~~~~~~~~~~-rivtIEd~~ 188 (319)
T PRK13894 138 REAIIAAVRAHRNILVIGGTGSGKTT--LVNAIINEMVIQDPTE-RVFIIEDTG 188 (319)
T ss_pred HHHHHHHHHcCCeEEEECCCCCCHHH--HHHHHHHhhhhcCCCc-eEEEEcCCC
Confidence 34455567788899999999999993 33334322 1122234 676544443
No 173
>PRK12377 putative replication protein; Provisional
Probab=93.51 E-value=0.23 Score=48.75 Aligned_cols=54 Identities=19% Similarity=0.129 Sum_probs=32.2
Q ss_pred ChHHHHHHHH---HHHHHhcC-CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 18 YPEQYSYMLE---LKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 18 r~~Q~~~~~~---v~~~l~~~-~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
.++|..++.. ..+.+..+ .++++-+|+|||||. |+.|++...... +. +|+|.|-
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKTh--La~AIa~~l~~~-g~-~v~~i~~ 137 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNH--LAAAIGNRLLAK-GR-SVIVVTV 137 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHH--HHHHHHHHHHHc-CC-CeEEEEH
Confidence 3577655443 33333333 578999999999997 444454433322 45 6766644
No 174
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=93.45 E-value=0.78 Score=48.18 Aligned_cols=76 Identities=18% Similarity=0.228 Sum_probs=54.3
Q ss_pred CcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEE--eCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccC
Q 006790 533 DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFI--ETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (631)
Q Consensus 533 gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~--e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf 610 (631)
-.++|||||-.+-.-+++.++...+ +|+. -.+....++....+|+++ +..||+|+ .--+.|+||
T Consensus 331 ~KiiVF~sT~~~vk~~~~lL~~~dl--------pv~eiHgk~~Q~kRT~~~~~F~ka----esgIL~cT--DVaARGlD~ 396 (543)
T KOG0342|consen 331 YKIIVFFSTCMSVKFHAELLNYIDL--------PVLEIHGKQKQNKRTSTFFEFCKA----ESGILVCT--DVAARGLDI 396 (543)
T ss_pred ceEEEEechhhHHHHHHHHHhhcCC--------chhhhhcCCcccccchHHHHHhhc----ccceEEec--chhhccCCC
Confidence 6899999999999888888874321 1111 112223456778999996 77899988 789999999
Q ss_pred CCCCceEEEEEccc
Q 006790 611 DRHYGRLVIMFGVP 624 (631)
Q Consensus 611 ~g~~lr~VII~gLP 624 (631)
|+ ...||=+|+|
T Consensus 397 P~--V~~VvQ~~~P 408 (543)
T KOG0342|consen 397 PD--VDWVVQYDPP 408 (543)
T ss_pred CC--ceEEEEeCCC
Confidence 97 4566666654
No 175
>PRK06921 hypothetical protein; Provisional
Probab=93.40 E-value=0.29 Score=48.75 Aligned_cols=38 Identities=24% Similarity=0.243 Sum_probs=25.5
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
+..+++-+|||+|||. |+-|++.......+. +|+|.+.
T Consensus 117 ~~~l~l~G~~G~GKTh--La~aia~~l~~~~g~-~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTH--LLTAAANELMRKKGV-PVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHH--HHHHHHHHHhhhcCc-eEEEEEH
Confidence 5679999999999998 444444433221145 7888774
No 176
>PRK09183 transposase/IS protein; Provisional
Probab=93.27 E-value=0.12 Score=51.30 Aligned_cols=39 Identities=26% Similarity=0.432 Sum_probs=26.9
Q ss_pred HhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 32 l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
+.++.++++-+|+|+|||. |..++...... .+. +|.|.+
T Consensus 99 i~~~~~v~l~Gp~GtGKTh--La~al~~~a~~-~G~-~v~~~~ 137 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTH--LAIALGYEAVR-AGI-KVRFTT 137 (259)
T ss_pred hhcCCeEEEEeCCCCCHHH--HHHHHHHHHHH-cCC-eEEEEe
Confidence 6778899999999999997 44444433222 255 787765
No 177
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=93.11 E-value=0.19 Score=53.20 Aligned_cols=84 Identities=17% Similarity=0.273 Sum_probs=58.1
Q ss_pred hhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccc
Q 006790 527 MVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAE 606 (631)
Q Consensus 527 ~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~E 606 (631)
++-.-||.+|||++|-+-..+++..+...++- . -++.. ....+.+=..|++|++. ..+||+|+ .-.+.
T Consensus 458 fl~ryPGrTlVF~NsId~vKRLt~~L~~L~i~----p-~~LHA-~M~QKqRLknLEkF~~~----~~~VLiaT--DVAAR 525 (731)
T KOG0347|consen 458 FLTRYPGRTLVFCNSIDCVKRLTVLLNNLDIP----P-LPLHA-SMIQKQRLKNLEKFKQS----PSGVLIAT--DVAAR 525 (731)
T ss_pred EEeecCCceEEEechHHHHHHHHHHHhhcCCC----C-chhhH-HHHHHHHHHhHHHHhcC----CCeEEEee--hhhhc
Confidence 55567999999999999999999998754320 0 01110 01112233457889885 78999999 78999
Q ss_pred cccCCCCCceEEEEEccc
Q 006790 607 GIDFDRHYGRLVIMFGVP 624 (631)
Q Consensus 607 GIDf~g~~lr~VII~gLP 624 (631)
|+|+|| ...||=.-+|
T Consensus 526 GLDIp~--V~HVIHYqVP 541 (731)
T KOG0347|consen 526 GLDIPG--VQHVIHYQVP 541 (731)
T ss_pred cCCCCC--cceEEEeecC
Confidence 999998 4566655554
No 178
>PRK07952 DNA replication protein DnaC; Validated
Probab=92.89 E-value=0.35 Score=47.40 Aligned_cols=52 Identities=15% Similarity=0.199 Sum_probs=32.3
Q ss_pred hHHHHHHHHHHHHHh---cC-CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 19 PEQYSYMLELKRALD---AK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~---~~-~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
+.|......+.+..+ ++ ..+++-+|+|||||. |+.|++..... .+. +|+|.|
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKTh--La~aia~~l~~-~g~-~v~~it 134 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNH--LAAAICNELLL-RGK-SVLIIT 134 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHH--HHHHHHHHHHh-cCC-eEEEEE
Confidence 567655555544443 22 478999999999998 44444443322 245 787775
No 179
>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=92.85 E-value=0.2 Score=52.33 Aligned_cols=52 Identities=27% Similarity=0.248 Sum_probs=37.0
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
..++|++++|||||+..+--+-..... ..+. ++++.+.++++...+-+.+..
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~-~~~~-~~~~l~~n~~l~~~l~~~l~~ 53 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNS-EEGK-KVLYLCGNHPLRNKLREQLAK 53 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhcc-ccCC-ceEEEEecchHHHHHHHHHhh
Confidence 468999999999999666543332112 2246 899999999998877665543
No 180
>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=92.63 E-value=0.13 Score=48.59 Aligned_cols=33 Identities=36% Similarity=0.307 Sum_probs=26.6
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHH
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla 51 (631)
.+|.+.-+++.-|...+.++++.+|+|||||+.
T Consensus 6 ~GQe~aKrAL~iAAaG~h~lLl~GppGtGKTml 38 (206)
T PF01078_consen 6 VGQEEAKRALEIAAAGGHHLLLIGPPGTGKTML 38 (206)
T ss_dssp SSTHHHHHHHHHHHHCC--EEEES-CCCTHHHH
T ss_pred cCcHHHHHHHHHHHcCCCCeEEECCCCCCHHHH
Confidence 578888888888888888999999999999993
No 181
>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=92.56 E-value=0.28 Score=51.48 Aligned_cols=55 Identities=22% Similarity=0.321 Sum_probs=38.0
Q ss_pred ChHHHHHHHHHHHHHhc--CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 18 YPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~--~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
-+.|++....|.+++.. +.++.|.+|-|||||+.+=.- ..+.+. .++ .|+++.+|
T Consensus 3 n~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i-~~~~~~--~~~-~~~~~a~t 59 (364)
T PF05970_consen 3 NEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAI-IDYLRS--RGK-KVLVTAPT 59 (364)
T ss_pred CHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHH-HHHhcc--ccc-eEEEecch
Confidence 47899999999998854 468999999999999944321 223322 234 56655555
No 182
>PRK13766 Hef nuclease; Provisional
Probab=92.29 E-value=0.82 Score=53.34 Aligned_cols=93 Identities=24% Similarity=0.290 Sum_probs=64.9
Q ss_pred HHHHHHHHHhhc-ccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCC-------Cc--hhhHHHHHHHHHh
Q 006790 518 RNYGKLLVEMVS-IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-------DV--VETTLALDNYRKA 587 (631)
Q Consensus 518 ~~l~~~i~~~~~-~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~-------~~--~~~~~~l~~fk~~ 587 (631)
+.+.+.|.++.. ..++.+|||+.+.+..+.+++.+...++ +...+.++ +. .++...+++|++
T Consensus 350 ~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~~~-------~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~- 421 (773)
T PRK13766 350 EKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGI-------KAVRFVGQASKDGDKGMSQKEQIEILDKFRA- 421 (773)
T ss_pred HHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhCCC-------ceEEEEccccccccCCCCHHHHHHHHHHHHc-
Confidence 556666666554 3456899999999999999999865432 22222232 11 234457777776
Q ss_pred hcCCCCeEEEEEecCcccccccCCCCCceEEEEEcccC
Q 006790 588 CDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPF 625 (631)
Q Consensus 588 ~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPf 625 (631)
|+..||+++ .-.+||+|++ .++.||+...|.
T Consensus 422 ---g~~~vLvaT--~~~~eGldi~--~~~~VI~yd~~~ 452 (773)
T PRK13766 422 ---GEFNVLVST--SVAEEGLDIP--SVDLVIFYEPVP 452 (773)
T ss_pred ---CCCCEEEEC--ChhhcCCCcc--cCCEEEEeCCCC
Confidence 577899998 5789999997 689999887653
No 183
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=92.05 E-value=0.28 Score=53.96 Aligned_cols=70 Identities=20% Similarity=0.283 Sum_probs=54.7
Q ss_pred eCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.|||+- =|-|.+.+ .+++++..+++-|-|-.|||..+=.+ ++.+... +. ||||.+|-++|-.|=.+||..
T Consensus 125 ~YPF~L-DpFQ~~aI----~Cidr~eSVLVSAHTSAGKTVVAeYA-IA~sLr~--kQ-RVIYTSPIKALSNQKYREl~~ 194 (1041)
T KOG0948|consen 125 TYPFTL-DPFQSTAI----KCIDRGESVLVSAHTSAGKTVVAEYA-IAMSLRE--KQ-RVIYTSPIKALSNQKYRELLE 194 (1041)
T ss_pred CCCccc-CchHhhhh----hhhcCCceEEEEeecCCCcchHHHHH-HHHHHHh--cC-eEEeeChhhhhcchhHHHHHH
Confidence 477874 67787655 46788999999999999999976664 5544444 46 999999999999998876543
No 184
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.90 E-value=0.17 Score=51.10 Aligned_cols=75 Identities=20% Similarity=0.146 Sum_probs=53.2
Q ss_pred CCCCCCChHHHHHHHHHHHHHhc-CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~-~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
..|+.|.+.|....--+ |.+ .+|++.+|-.|||||-|+.+.-|+-....-..+ +.+...||..+..|..+-+...
T Consensus 108 M~F~kPskIQe~aLPll---l~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~P-Q~iCLaPtrELA~Q~~eVv~eM 183 (477)
T KOG0332|consen 108 MKFQKPSKIQETALPLL---LAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVP-QCICLAPTRELAPQTGEVVEEM 183 (477)
T ss_pred hccCCcchHHHhhcchh---hcCCchhhhhhhcCCCchhHHHHHHHHHhcCccccCC-CceeeCchHHHHHHHHHHHHHh
Confidence 56776677786654433 233 368999999999999999988766433221123 6777799999999998855554
No 185
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=91.76 E-value=0.89 Score=47.70 Aligned_cols=48 Identities=21% Similarity=0.233 Sum_probs=33.8
Q ss_pred EEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 38 ~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
+++--.-|.|||+-.+.-.++ ..++. +-+|..||.++ .|+.+|+.+..
T Consensus 207 GiLADEMGMGKTIQtIaLlla----e~~ra-~tLVvaP~VAl-mQW~nEI~~~T 254 (791)
T KOG1002|consen 207 GILADEMGMGKTIQTIALLLA----EVDRA-PTLVVAPTVAL-MQWKNEIERHT 254 (791)
T ss_pred ceehhhhccchHHHHHHHHHh----ccccC-CeeEEccHHHH-HHHHHHHHHhc
Confidence 455667899999966654333 23355 77788899886 58889988864
No 186
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=91.72 E-value=0.26 Score=48.74 Aligned_cols=37 Identities=38% Similarity=0.414 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHHHHhcC--CcEEEecCCCChhHHHHHHH
Q 006790 19 PEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSL 55 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla~L~~ 55 (631)
-+|......+..++..+ -++++-+|+|||||-+.++.
T Consensus 39 ~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalaf 77 (346)
T KOG0989|consen 39 AGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAF 77 (346)
T ss_pred cchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHH
Confidence 37888888888888764 48999999999999988864
No 187
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=91.65 E-value=0.41 Score=46.24 Aligned_cols=62 Identities=18% Similarity=0.294 Sum_probs=35.2
Q ss_pred CCCCCCChHH-HHHHHHHHHHHhcC-----CcEEEecCCCChhHHHHHHHHHHHH-hhCCCCCceEEEEecc
Q 006790 12 FPYDNIYPEQ-YSYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSYV-LSKPENPVKLIYCTRT 76 (631)
Q Consensus 12 Fpy~~~r~~Q-~~~~~~v~~~l~~~-----~~~~iEapTGtGKTla~L~~~l~~~-~~~~~~~~~vi~~t~T 76 (631)
|-|+.+-++. .+.+..+.+++.++ +.++|-+|+|+|||- |+-|+... .....+. +|+|.+..
T Consensus 5 ~tFdnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTH--LL~Ai~~~~~~~~~~~-~v~y~~~~ 73 (219)
T PF00308_consen 5 YTFDNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTH--LLQAIANEAQKQHPGK-RVVYLSAE 73 (219)
T ss_dssp -SCCCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHH--HHHHHHHHHHHHCTTS--EEEEEHH
T ss_pred CccccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHH--HHHHHHHHHHhccccc-cceeecHH
Confidence 4455433333 44455555556443 358999999999999 55445432 2222245 89998765
No 188
>PRK08116 hypothetical protein; Validated
Probab=91.30 E-value=0.69 Score=46.19 Aligned_cols=34 Identities=29% Similarity=0.302 Sum_probs=23.8
Q ss_pred cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
.+++-+|+|||||. |+.|++...... +. +|+|.+
T Consensus 116 gl~l~G~~GtGKTh--La~aia~~l~~~-~~-~v~~~~ 149 (268)
T PRK08116 116 GLLLWGSVGTGKTY--LAACIANELIEK-GV-PVIFVN 149 (268)
T ss_pred eEEEECCCCCCHHH--HHHHHHHHHHHc-CC-eEEEEE
Confidence 49999999999998 555555443322 45 777765
No 189
>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=91.29 E-value=0.27 Score=42.45 Aligned_cols=52 Identities=19% Similarity=0.089 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhH
Q 006790 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (631)
Q Consensus 22 ~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~ 80 (631)
+++++.+.+.+..+..++++++-|+|||- |+-+++-+. +. +-.|.+||-++.
T Consensus 2 ~~la~~l~~~l~~g~vi~L~GdLGaGKTt--f~r~l~~~l----g~-~~~V~SPTF~l~ 53 (123)
T PF02367_consen 2 IRLAKKLAQILKPGDVILLSGDLGAGKTT--FVRGLARAL----GI-DEEVTSPTFSLV 53 (123)
T ss_dssp HHHHHHHHHHHSS-EEEEEEESTTSSHHH--HHHHHHHHT----T---S----TTTTSE
T ss_pred HHHHHHHHHhCCCCCEEEEECCCCCCHHH--HHHHHHHHc----CC-CCCcCCCCeEEE
Confidence 46788899999999999999999999998 666555443 22 347888997654
No 190
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=91.28 E-value=0.17 Score=51.96 Aligned_cols=39 Identities=26% Similarity=0.302 Sum_probs=31.0
Q ss_pred eCCCCCCChHHHHHHHHHHHHH-hcC-CcEEEecCCCChhHH
Q 006790 11 YFPYDNIYPEQYSYMLELKRAL-DAK-GHCLLEMPTGTGKTI 50 (631)
Q Consensus 11 ~Fpy~~~r~~Q~~~~~~v~~~l-~~~-~~~~iEapTGtGKTl 50 (631)
.|||.. -.+|.++...+.-++ ..+ .++++++|+|||||.
T Consensus 4 ~~~f~~-i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~ 44 (334)
T PRK13407 4 PFPFSA-IVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKST 44 (334)
T ss_pred CCCHHH-hCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHH
Confidence 467765 578999998877544 344 789999999999996
No 191
>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=91.23 E-value=0.51 Score=45.79 Aligned_cols=52 Identities=21% Similarity=0.298 Sum_probs=31.2
Q ss_pred cCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 34 ~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.+...+|++|+|||||.-.+--+...+... +. +++|.|-... -+++++.++.
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~--ge-~vlyvs~ee~-~~~l~~~~~s 69 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNF--GE-KVLYVSFEEP-PEELIENMKS 69 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHH--T---EEEEESSS--HHHHHHHHHT
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhc--CC-cEEEEEecCC-HHHHHHHHHH
Confidence 346899999999999985444344444431 35 6766664333 3666666554
No 192
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=91.21 E-value=0.2 Score=55.43 Aligned_cols=66 Identities=21% Similarity=0.279 Sum_probs=45.7
Q ss_pred HHHHhcccCCccchhhHH-------hh----ccCceEEEEcCccccCHhhHhHhhhccCCCcEEEEeCCcchHHHHHh
Q 006790 179 DLRAFGKQQGWCPYFLAR-------HM----VQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIE 245 (631)
Q Consensus 179 ~~~~~~~~~~~Cpy~~~r-------~~----~~~adivv~n~~~l~~~~~~~~~~~~l~~~~~~IiDEAHnl~~~a~~ 245 (631)
++.++||...+-+||-+. .. ..+-||+||+|++.....-...+... .+.+++|+||||-|-+...+
T Consensus 466 Ef~kwCPsl~Ve~YyGSq~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~-~~~n~viyDEgHmLKN~~Se 542 (941)
T KOG0389|consen 466 EFAKWCPSLKVEPYYGSQDERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKN-QKFNYVIYDEGHMLKNRTSE 542 (941)
T ss_pred HHHHhCCceEEEeccCcHHHHHHHHHHHhccCCCccEEEEEeecccCChHHHHHHHh-ccccEEEecchhhhhccchH
Confidence 567899999988887432 11 22569999999988743222223232 37899999999999876544
No 193
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=91.19 E-value=1.1 Score=46.73 Aligned_cols=69 Identities=16% Similarity=0.139 Sum_probs=42.7
Q ss_pred ChHHHHHHHHHHHHHhcC---CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHH
Q 006790 18 YPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~---~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
|..|.+-+..+....-.+ .++++-+|||||||...-.-+=......+ +..-+.|=+..+....|++..+
T Consensus 22 Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~-~~~~~yINc~~~~t~~~i~~~i 93 (366)
T COG1474 22 REEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSA-NVEVVYINCLELRTPYQVLSKI 93 (366)
T ss_pred cHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhc-cCceEEEeeeeCCCHHHHHHHH
Confidence 889987666655544443 36999999999999976653222211111 1113555567777777777753
No 194
>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=90.99 E-value=0.69 Score=39.89 Aligned_cols=30 Identities=23% Similarity=0.184 Sum_probs=18.8
Q ss_pred HHHHHHHHHHhcC---CcEE--EecCCCChhHHHH
Q 006790 23 SYMLELKRALDAK---GHCL--LEMPTGTGKTIAL 52 (631)
Q Consensus 23 ~~~~~v~~~l~~~---~~~~--iEapTGtGKTla~ 52 (631)
.++.+|...+.+. +.++ +.+|||||||...
T Consensus 36 ~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~ 70 (127)
T PF06309_consen 36 VVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVS 70 (127)
T ss_pred HHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHH
Confidence 4444444444432 4444 7899999999843
No 195
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=90.96 E-value=0.53 Score=53.65 Aligned_cols=65 Identities=17% Similarity=0.178 Sum_probs=45.9
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC-C-CCCceEEEEecchhhHHHHHHHHHhh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~-~-~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
-|.|++.+.. ..++++|-|+.|||||.....- ++|.... + ... +|++.|-|+...+.+-+-+..+
T Consensus 4 n~~Q~~av~~------~~g~~lV~AgpGSGKT~vL~~R-ia~Li~~~~v~p~-~IL~lTFT~kAA~em~~Rl~~~ 70 (672)
T PRK10919 4 NPGQQQAVEF------VTGPCLVLAGAGSGKTRVITNK-IAHLIRGCGYQAR-HIAAVTFTNKAAREMKERVAQT 70 (672)
T ss_pred CHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHH-HHHHHHhcCCCHH-HeeeEechHHHHHHHHHHHHHH
Confidence 5778775542 3468899999999999875554 5555432 2 124 8999999999888876655554
No 196
>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=90.94 E-value=1.4 Score=49.93 Aligned_cols=79 Identities=18% Similarity=0.180 Sum_probs=54.3
Q ss_pred ccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCC-chhhHHHHHHHHHhhcCCCCeEEEEEecCcccccc
Q 006790 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-VVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (631)
Q Consensus 530 ~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~-~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGI 608 (631)
..+..+|||+.+-..++.+...+. .+ ++-+.. ..++..++++|+.. +.-.+|+.+ .-..|||
T Consensus 494 ~~g~kiLVF~~~~~~l~~~a~~L~-----------~~-~I~G~ts~~ER~~il~~Fr~~---~~i~vLv~S--kVgdeGI 556 (732)
T TIGR00603 494 QRGDKIIVFSDNVFALKEYAIKLG-----------KP-FIYGPTSQQERMQILQNFQHN---PKVNTIFLS--KVGDTSI 556 (732)
T ss_pred hcCCeEEEEeCCHHHHHHHHHHcC-----------Cc-eEECCCCHHHHHHHHHHHHhC---CCccEEEEe--ccccccc
Confidence 345689999988777777766552 12 333433 34678899999852 233567766 4678999
Q ss_pred cCCCCCceEEEEEcccCCC
Q 006790 609 DFDRHYGRLVIMFGVPFQY 627 (631)
Q Consensus 609 Df~g~~lr~VII~gLPfp~ 627 (631)
|+|+ +.+||++..|+-+
T Consensus 557 DlP~--a~vvI~~s~~~gS 573 (732)
T TIGR00603 557 DLPE--ANVLIQISSHYGS 573 (732)
T ss_pred CCCC--CCEEEEeCCCCCC
Confidence 9996 7889998888744
No 197
>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=90.79 E-value=0.54 Score=54.09 Aligned_cols=59 Identities=15% Similarity=0.125 Sum_probs=41.6
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHH-HHhhCCCCCceEEEEecchhhHHHH
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITS-YVLSKPENPVKLIYCTRTVHEMEKT 83 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~-~~~~~~~~~~~vi~~t~T~~l~~Q~ 83 (631)
..+.|++.+..+. ..++..+|.+|+|||||. ++-++. .+... +. +|+++++|......+
T Consensus 353 Ls~~Q~~Av~~i~---~s~~~~il~G~aGTGKTt--ll~~i~~~~~~~--g~-~V~~~ApTg~Aa~~L 412 (744)
T TIGR02768 353 LSEEQYEAVRHVT---GSGDIAVVVGRAGTGKST--MLKAAREAWEAA--GY-RVIGAALSGKAAEGL 412 (744)
T ss_pred CCHHHHHHHHHHh---cCCCEEEEEecCCCCHHH--HHHHHHHHHHhC--CC-eEEEEeCcHHHHHHH
Confidence 3689999877654 335689999999999987 333333 23322 56 899999997765554
No 198
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=90.75 E-value=0.62 Score=47.99 Aligned_cols=45 Identities=24% Similarity=0.196 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEE
Q 006790 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIY 72 (631)
Q Consensus 23 ~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~ 72 (631)
+++.-+..++..+.+++|-+|||+|||- |+-|+.- ..+... +|+.
T Consensus 148 ~~~~~L~~~v~~~~nili~G~tgSGKTT--ll~aL~~--~ip~~~-ri~t 192 (332)
T PRK13900 148 KIKEFLEHAVISKKNIIISGGTSTGKTT--FTNAALR--EIPAIE-RLIT 192 (332)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHH--HHHHHHh--hCCCCC-eEEE
Confidence 4555666677788999999999999987 4444432 223345 6655
No 199
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=90.70 E-value=1.4 Score=49.89 Aligned_cols=88 Identities=16% Similarity=0.290 Sum_probs=59.8
Q ss_pred HHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeC-CCchhhHHHHHHHHHhhcCCCCeEE
Q 006790 518 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVF 596 (631)
Q Consensus 518 ~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~-~~~~~~~~~l~~fk~~~~~~~~aIL 596 (631)
+.+.+.|.+.. ..+..+|||+++-+..+.+.+.+...++ +..++-+ .+..++...+++|++ |+-.||
T Consensus 429 ~~Ll~eI~~~~-~~g~~vLIf~~tk~~ae~L~~~L~~~gi-------~~~~lh~~~~~~eR~~~l~~fr~----G~i~VL 496 (655)
T TIGR00631 429 DDLLSEIRQRV-ARNERVLVTTLTKKMAEDLTDYLKELGI-------KVRYLHSEIDTLERVEIIRDLRL----GEFDVL 496 (655)
T ss_pred HHHHHHHHHHH-cCCCEEEEEECCHHHHHHHHHHHhhhcc-------ceeeeeCCCCHHHHHHHHHHHhc----CCceEE
Confidence 34445554433 2356799999999999999999986542 2223322 233456667777765 566788
Q ss_pred EEEecCcccccccCCCCCceEEEEE
Q 006790 597 FSVARGKVAEGIDFDRHYGRLVIMF 621 (631)
Q Consensus 597 fgv~~Gsf~EGIDf~g~~lr~VII~ 621 (631)
+|+ |.+++|+|+|+ +++||+.
T Consensus 497 V~t--~~L~rGfDiP~--v~lVvi~ 517 (655)
T TIGR00631 497 VGI--NLLREGLDLPE--VSLVAIL 517 (655)
T ss_pred EEc--ChhcCCeeeCC--CcEEEEe
Confidence 777 89999999996 4556654
No 200
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=90.65 E-value=1.9 Score=48.86 Aligned_cols=91 Identities=15% Similarity=0.275 Sum_probs=62.7
Q ss_pred HHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeC-CCchhhHHHHHHHHHhhcCCCCeEE
Q 006790 518 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVF 596 (631)
Q Consensus 518 ~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~-~~~~~~~~~l~~fk~~~~~~~~aIL 596 (631)
+.+.+.|.+.. ..+..++||+.+....+.+.+.+...++ +..++-+ .+..++...+++|+. |+-.|+
T Consensus 433 ~~L~~~L~~~~-~~g~~viIf~~t~~~ae~L~~~L~~~gi-------~~~~~h~~~~~~~R~~~l~~f~~----g~i~vl 500 (652)
T PRK05298 433 DDLLSEIRKRV-AKGERVLVTTLTKRMAEDLTDYLKELGI-------KVRYLHSDIDTLERVEIIRDLRL----GEFDVL 500 (652)
T ss_pred HHHHHHHHHHH-hCCCEEEEEeCCHHHHHHHHHHHhhcce-------eEEEEECCCCHHHHHHHHHHHHc----CCceEE
Confidence 34545555443 2345799999999999999999986542 2233322 333456667788765 566788
Q ss_pred EEEecCcccccccCCCCCceEEEEEccc
Q 006790 597 FSVARGKVAEGIDFDRHYGRLVIMFGVP 624 (631)
Q Consensus 597 fgv~~Gsf~EGIDf~g~~lr~VII~gLP 624 (631)
+|+ |.+++|+|+|+- +.||+...+
T Consensus 501 V~t--~~L~rGfdlp~v--~lVii~d~e 524 (652)
T PRK05298 501 VGI--NLLREGLDIPEV--SLVAILDAD 524 (652)
T ss_pred EEe--CHHhCCccccCC--cEEEEeCCc
Confidence 777 899999999974 678887765
No 201
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=90.43 E-value=1.8 Score=50.18 Aligned_cols=101 Identities=11% Similarity=0.033 Sum_probs=65.1
Q ss_pred CCHHHHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCC
Q 006790 512 SDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCG 591 (631)
Q Consensus 512 ~~~~~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~ 591 (631)
...+-...+.+.|.... ..+..+|||++|-+..+.+...++..++-. .++- .+ ...++..+-.|.. +
T Consensus 579 t~~eK~~Ali~~I~~~~-~~grpVLIft~Sve~sE~Ls~~L~~~gI~h------~vLn-ak-q~~REa~Iia~AG----~ 645 (1025)
T PRK12900 579 TRREKYNAIVLKVEELQ-KKGQPVLVGTASVEVSETLSRMLRAKRIAH------NVLN-AK-QHDREAEIVAEAG----Q 645 (1025)
T ss_pred CHHHHHHHHHHHHHHHh-hCCCCEEEEeCcHHHHHHHHHHHHHcCCCc------eeec-CC-HHHhHHHHHHhcC----C
Confidence 33333455666665543 356789999999999999999998765411 1222 21 1234444555444 5
Q ss_pred CCeEEEEEecCcccccccCC-CCCceE---EEEEcccCCC
Q 006790 592 RGAVFFSVARGKVAEGIDFD-RHYGRL---VIMFGVPFQY 627 (631)
Q Consensus 592 ~~aILfgv~~Gsf~EGIDf~-g~~lr~---VII~gLPfp~ 627 (631)
+++|++|+ .-...|+|++ |+..+. ++++|.+.|.
T Consensus 646 ~g~VtIAT--NMAGRGtDIkl~~~V~~vGGL~VIgterhe 683 (1025)
T PRK12900 646 KGAVTIAT--NMAGRGTDIKLGEGVRELGGLFILGSERHE 683 (1025)
T ss_pred CCeEEEec--cCcCCCCCcCCccchhhhCCceeeCCCCCc
Confidence 88999999 6789999998 443433 3777776653
No 202
>PRK05642 DNA replication initiation factor; Validated
Probab=90.41 E-value=0.61 Score=45.54 Aligned_cols=37 Identities=14% Similarity=0.139 Sum_probs=25.0
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
..+++-+|+|+|||- |+-|+....... +. +|+|.+..
T Consensus 46 ~~l~l~G~~G~GKTH--Ll~a~~~~~~~~-~~-~v~y~~~~ 82 (234)
T PRK05642 46 SLIYLWGKDGVGRSH--LLQAACLRFEQR-GE-PAVYLPLA 82 (234)
T ss_pred CeEEEECCCCCCHHH--HHHHHHHHHHhC-CC-cEEEeeHH
Confidence 468999999999998 544444332222 45 78887754
No 203
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=90.39 E-value=0.41 Score=49.35 Aligned_cols=44 Identities=23% Similarity=0.240 Sum_probs=34.8
Q ss_pred CCCCCCChHHHHHHHHHHHHHhc--CCcEEEecCCCChhHHHHHHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIALLSLITS 58 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~--~~~~~iEapTGtGKTla~L~~~l~ 58 (631)
|||.. =-+|.++..++.-++-. .++++|++|+|+|||. |+-+++
T Consensus 1 ~pf~~-ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKtt--l~r~~~ 46 (337)
T TIGR02030 1 FPFTA-IVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKST--AVRALA 46 (337)
T ss_pred CCccc-cccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHH--HHHHHH
Confidence 89987 58999999888666655 4689999999999998 444443
No 204
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=90.28 E-value=0.94 Score=51.94 Aligned_cols=66 Identities=15% Similarity=-0.001 Sum_probs=43.7
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~ 84 (631)
+++. ..+.|++.+..+. .++..+|.+|+|||||...-. .+..+....... +|+++.+|.....++-
T Consensus 320 ~~~~-l~~~Q~~Ai~~~~----~~~~~iitGgpGTGKTt~l~~-i~~~~~~~~~~~-~v~l~ApTg~AA~~L~ 385 (720)
T TIGR01448 320 LRKG-LSEEQKQALDTAI----QHKVVILTGGPGTGKTTITRA-IIELAEELGGLL-PVGLAAPTGRAAKRLG 385 (720)
T ss_pred cCCC-CCHHHHHHHHHHH----hCCeEEEECCCCCCHHHHHHH-HHHHHHHcCCCc-eEEEEeCchHHHHHHH
Confidence 4555 4789999877652 456899999999999973322 222222221114 8999999988776543
No 205
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=90.24 E-value=0.7 Score=53.25 Aligned_cols=67 Identities=16% Similarity=0.187 Sum_probs=48.0
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC-C-CCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~-~-~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
.-|.|++.+.. ..++++|-|+.|||||.....- ++|.... . ... +|++.|-|+.....+-+.+.++.
T Consensus 10 Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~vl~~R-ia~Li~~~~v~p~-~IL~lTFT~kAA~Em~~Rl~~~~ 78 (721)
T PRK11773 10 LNDKQREAVAA------PLGNMLVLAGAGSGKTRVLVHR-IAWLMQVENASPY-SIMAVTFTNKAAAEMRHRIEQLL 78 (721)
T ss_pred cCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHH-HHHHHHcCCCChh-HeEeeeccHHHHHHHHHHHHHHh
Confidence 46888876542 3478999999999999876554 4554432 1 124 89999999998888777666543
No 206
>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=90.23 E-value=0.68 Score=43.24 Aligned_cols=47 Identities=23% Similarity=0.244 Sum_probs=29.4
Q ss_pred EEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 38 ~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.+|.+|+|||||.-.+--+...++ .++ +++|.|-. .-.+++++.+..
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~---~g~-~v~~~s~e-~~~~~~~~~~~~ 48 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLA---RGE-PGLYVTLE-ESPEELIENAES 48 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHH---CCC-cEEEEECC-CCHHHHHHHHHH
Confidence 689999999999955544444443 256 77776543 345566554443
No 207
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=90.21 E-value=0.83 Score=46.36 Aligned_cols=50 Identities=22% Similarity=0.187 Sum_probs=30.8
Q ss_pred HHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHH-HHhhCCCCCceEEEEecc
Q 006790 24 YMLELKRALDAKGHCLLEMPTGTGKTIALLSLITS-YVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 24 ~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~-~~~~~~~~~~~vi~~t~T 76 (631)
++..+..++..+++++|-+|||+|||- ++-++. +....+... +|++.-.+
T Consensus 121 ~~~~L~~~v~~~~~ilI~G~tGSGKTT--ll~al~~~i~~~~~~~-ri~tiEd~ 171 (299)
T TIGR02782 121 QRDVLREAVLARKNILVVGGTGSGKTT--LANALLAEIAKNDPTD-RVVIIEDT 171 (299)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHH--HHHHHHHHhhccCCCc-eEEEECCc
Confidence 345566677778899999999999987 333332 222212235 67665444
No 208
>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=90.18 E-value=0.82 Score=42.06 Aligned_cols=56 Identities=20% Similarity=0.164 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchh
Q 006790 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~ 78 (631)
.=.++.+.+.++.....+++|++++||||++ +.-++......+.++ =|.|-+++.+
T Consensus 7 ~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~--lA~~IH~~s~r~~~p-fi~vnc~~~~ 62 (168)
T PF00158_consen 7 AMKRLREQAKRAASSDLPVLITGETGTGKEL--LARAIHNNSPRKNGP-FISVNCAALP 62 (168)
T ss_dssp HHHHHHHHHHHHTTSTS-EEEECSTTSSHHH--HHHHHHHCSTTTTS--EEEEETTTS-
T ss_pred HHHHHHHHHHHHhCCCCCEEEEcCCCCcHHH--HHHHHHHhhhcccCC-eEEEehhhhh
Confidence 3455666666666667899999999999998 444444322222223 4555555553
No 209
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=90.14 E-value=0.58 Score=47.40 Aligned_cols=57 Identities=21% Similarity=0.239 Sum_probs=36.8
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHH
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q 82 (631)
.+.|..++ ..+...+.+.++-++||+|||- |+-|++... +... |||..=-|-.||-+
T Consensus 159 ~~~~a~~L---~~av~~r~NILisGGTGSGKTT--lLNal~~~i--~~~e-RvItiEDtaELql~ 215 (355)
T COG4962 159 IRRAAKFL---RRAVGIRCNILISGGTGSGKTT--LLNALSGFI--DSDE-RVITIEDTAELQLA 215 (355)
T ss_pred CHHHHHHH---HHHHhhceeEEEeCCCCCCHHH--HHHHHHhcC--CCcc-cEEEEeehhhhccC
Confidence 34444444 4455556789999999999986 444443322 3356 89988777666643
No 210
>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=90.13 E-value=0.37 Score=42.00 Aligned_cols=40 Identities=25% Similarity=0.252 Sum_probs=24.6
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchh
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~ 78 (631)
+.++++.+|+|||||.... .++...... .. .+++.+.+..
T Consensus 2 ~~~~~l~G~~G~GKTtl~~--~l~~~~~~~-~~-~~~~~~~~~~ 41 (148)
T smart00382 2 GEVILIVGPPGSGKTTLAR--ALARELGPP-GG-GVIYIDGEDI 41 (148)
T ss_pred CCEEEEECCCCCcHHHHHH--HHHhccCCC-CC-CEEEECCEEc
Confidence 4678999999999999444 344333221 12 3666655544
No 211
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=90.12 E-value=1.3 Score=48.69 Aligned_cols=88 Identities=19% Similarity=0.374 Sum_probs=62.8
Q ss_pred HHHHHhhcccC-CcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCC-CchhhHHHHHHHHHhhcCCCCeEEEEE
Q 006790 522 KLLVEMVSIVP-DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSV 599 (631)
Q Consensus 522 ~~i~~~~~~~~-gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~-~~~~~~~~l~~fk~~~~~~~~aILfgv 599 (631)
+.+..+++... +.++||+.+-...+.++..|...|+ +..-+-+. ....+...+++|++ |+-.||+|+
T Consensus 262 ~~L~~ll~~~~~~~~IVF~~tk~~~~~l~~~l~~~g~-------~~~~lhG~l~q~~R~~~l~~F~~----g~~~vLVaT 330 (513)
T COG0513 262 ELLLKLLKDEDEGRVIVFVRTKRLVEELAESLRKRGF-------KVAALHGDLPQEERDRALEKFKD----GELRVLVAT 330 (513)
T ss_pred HHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHHCCC-------eEEEecCCCCHHHHHHHHHHHHc----CCCCEEEEe
Confidence 44555555544 4599999999999999999987642 22222222 33456778888885 688999999
Q ss_pred ecCcccccccCCCCCceEEEEEccc
Q 006790 600 ARGKVAEGIDFDRHYGRLVIMFGVP 624 (631)
Q Consensus 600 ~~Gsf~EGIDf~g~~lr~VII~gLP 624 (631)
+-.++|||+++ .+.||=.-+|
T Consensus 331 --DvaaRGiDi~~--v~~VinyD~p 351 (513)
T COG0513 331 --DVAARGLDIPD--VSHVINYDLP 351 (513)
T ss_pred --chhhccCCccc--cceeEEccCC
Confidence 78999999996 5666655555
No 212
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=89.98 E-value=0.75 Score=49.73 Aligned_cols=65 Identities=18% Similarity=0.134 Sum_probs=45.6
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC----CCCceEEEEecchhhHHHHHHHHHhh
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~----~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
++|-++|+. .+++.++|++..|||||-+.|-- ++|..+.- .++ +|+|..|.....+=+-+=||.|
T Consensus 215 kEQneIIR~-----ek~~ilVVQGaAGSGKTtiALHR-vAyLlY~~R~~l~~k-~vlvl~PN~vFleYis~VLPeL 283 (747)
T COG3973 215 KEQNEIIRF-----EKNKILVVQGAAGSGKTTIALHR-VAYLLYGYRGPLQAK-PVLVLGPNRVFLEYISRVLPEL 283 (747)
T ss_pred HhHHHHHhc-----cCCCeEEEecCCCCCchhHHHHH-HHHHHhccccccccC-ceEEEcCcHHHHHHHHHhchhh
Confidence 455555542 44678999999999999988875 56655542 134 6999999988776665555554
No 213
>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=89.93 E-value=0.35 Score=42.40 Aligned_cols=52 Identities=21% Similarity=0.072 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhH
Q 006790 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (631)
Q Consensus 22 ~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~ 80 (631)
.++++.+.+.+..+..+++.++.|+|||- |+-+++-.. +. .--|.+||-++.
T Consensus 9 ~~l~~~l~~~l~~~~~i~l~G~lGaGKTt--l~~~l~~~l----g~-~~~v~SPTf~lv 60 (133)
T TIGR00150 9 DKFGKAFAKPLDFGTVVLLKGDLGAGKTT--LVQGLLQGL----GI-QGNVTSPTFTLV 60 (133)
T ss_pred HHHHHHHHHhCCCCCEEEEEcCCCCCHHH--HHHHHHHHc----CC-CCcccCCCeeee
Confidence 35677778888888899999999999988 555454332 22 345778886544
No 214
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=89.89 E-value=4.4 Score=43.20 Aligned_cols=79 Identities=18% Similarity=0.294 Sum_probs=55.8
Q ss_pred HHHHhhccc-CCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEec
Q 006790 523 LLVEMVSIV-PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (631)
Q Consensus 523 ~i~~~~~~~-~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~ 601 (631)
.|.++++.. .-.++||.+--+..+.+++.+.+.++ +-..+--+++..++...|+.|+. +.+.||.|+
T Consensus 507 kL~eil~~~~~ppiIIFvN~kk~~d~lAk~LeK~g~------~~~tlHg~k~qeQRe~aL~~fr~----~t~dIlVaT-- 574 (673)
T KOG0333|consen 507 KLIEILESNFDPPIIIFVNTKKGADALAKILEKAGY------KVTTLHGGKSQEQRENALADFRE----GTGDILVAT-- 574 (673)
T ss_pred HHHHHHHhCCCCCEEEEEechhhHHHHHHHHhhccc------eEEEeeCCccHHHHHHHHHHHHh----cCCCEEEEe--
Confidence 334444443 45789999988999999988876542 11233333444567778999998 588999998
Q ss_pred CcccccccCCCC
Q 006790 602 GKVAEGIDFDRH 613 (631)
Q Consensus 602 Gsf~EGIDf~g~ 613 (631)
.-...|||+|+=
T Consensus 575 DvAgRGIDIpnV 586 (673)
T KOG0333|consen 575 DVAGRGIDIPNV 586 (673)
T ss_pred cccccCCCCCcc
Confidence 789999999974
No 215
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=89.87 E-value=0.81 Score=53.77 Aligned_cols=61 Identities=15% Similarity=0.056 Sum_probs=43.5
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHH
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~ 84 (631)
..++|++.+..+ +..++..+|.++.|||||.. |-++....... +. +|+.+.+|......+-
T Consensus 347 Ls~eQr~Av~~i---l~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~~--G~-~V~~~ApTGkAA~~L~ 407 (988)
T PRK13889 347 LSGEQADALAHV---TDGRDLGVVVGYAGTGKSAM-LGVAREAWEAA--GY-EVRGAALSGIAAENLE 407 (988)
T ss_pred CCHHHHHHHHHH---hcCCCeEEEEeCCCCCHHHH-HHHHHHHHHHc--CC-eEEEecCcHHHHHHHh
Confidence 478999876655 44456889999999999984 33444433333 55 8999999988766553
No 216
>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=89.79 E-value=0.93 Score=50.80 Aligned_cols=61 Identities=20% Similarity=0.213 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCC-ceEEEEecchhhHHHH
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENP-VKLIYCTRTVHEMEKT 83 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~-~~vi~~t~T~~l~~Q~ 83 (631)
-+|.++...+..++..+.++++-+|+|+|||. |+-+++... +... .+++|..++...-..+
T Consensus 21 iG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~--la~~la~~l--~~~~~~~~~~~~n~~~~~~~~ 82 (608)
T TIGR00764 21 IGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSM--LAKAMAELL--PDEELEDILVYPNPEDPNMPR 82 (608)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEECCCCCCHHH--HHHHHHHHc--CchhheeEEEEeCCCCCchHH
Confidence 58999999999999999999999999999998 433343322 2221 2566666654333333
No 217
>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=89.77 E-value=0.58 Score=52.71 Aligned_cols=53 Identities=23% Similarity=0.357 Sum_probs=39.6
Q ss_pred cCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 34 ~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.++..+|.||.|||||-+.+-. +..+...+ +. +|++.|...++..++.+-++.
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi~w-Lk~~l~~~-~~-~VLvVShRrSL~~sL~~rf~~ 100 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALIRW-LKDALKNP-DK-SVLVVSHRRSLTKSLAERFKK 100 (824)
T ss_pred CCCeEEEECCCCCCcHHHHHHH-HHHhccCC-CC-eEEEEEhHHHHHHHHHHHHhh
Confidence 4568899999999999887643 22222122 46 899999999999999886653
No 218
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=89.71 E-value=1.4 Score=51.05 Aligned_cols=80 Identities=13% Similarity=0.074 Sum_probs=51.8
Q ss_pred HHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEE
Q 006790 517 ARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVF 596 (631)
Q Consensus 517 ~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aIL 596 (631)
+.++.+.+.++. ..+..+||-.+|-+.=+.+...++..++-....+-| ....+ ..++. ++ ..+|+|-
T Consensus 614 ~~Aii~ei~~~~-~~GrPVLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK------~h~~E-AeIVA---~A--G~~GaVT 680 (1112)
T PRK12901 614 YNAVIEEITELS-EAGRPVLVGTTSVEISELLSRMLKMRKIPHNVLNAK------LHQKE-AEIVA---EA--GQPGTVT 680 (1112)
T ss_pred HHHHHHHHHHHH-HCCCCEEEEeCcHHHHHHHHHHHHHcCCcHHHhhcc------chhhH-HHHHH---hc--CCCCcEE
Confidence 467777777765 356789999999999999999988776543332212 11111 11111 11 1268999
Q ss_pred EEEecCcccccccCC
Q 006790 597 FSVARGKVAEGIDFD 611 (631)
Q Consensus 597 fgv~~Gsf~EGIDf~ 611 (631)
.|+ .=...|-|+.
T Consensus 681 IAT--NMAGRGTDIk 693 (1112)
T PRK12901 681 IAT--NMAGRGTDIK 693 (1112)
T ss_pred Eec--cCcCCCcCcc
Confidence 998 5678999986
No 219
>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=89.64 E-value=0.58 Score=47.58 Aligned_cols=36 Identities=11% Similarity=0.031 Sum_probs=27.5
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHH
Q 006790 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV 60 (631)
Q Consensus 23 ~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~ 60 (631)
+....|..++..++++++++|+|||||. |+-.++..
T Consensus 52 ~~~~~vl~~l~~~~~ilL~G~pGtGKTt--la~~lA~~ 87 (327)
T TIGR01650 52 ATTKAICAGFAYDRRVMVQGYHGTGKST--HIEQIAAR 87 (327)
T ss_pred HHHHHHHHHHhcCCcEEEEeCCCChHHH--HHHHHHHH
Confidence 3455688888888999999999999998 44444443
No 220
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=89.59 E-value=0.83 Score=55.80 Aligned_cols=62 Identities=21% Similarity=0.237 Sum_probs=45.4
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
+.+.|.+.+. ..+.+++|.|+-|||||....--++.......+.. +|++.|=|..-...+-+
T Consensus 2 ~t~~Q~~ai~------~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~-~il~~tFt~~aa~e~~~ 63 (1232)
T TIGR02785 2 WTDEQWQAIY------TRGQNILVSASAGSGKTAVLVERIIKKILRGVDID-RLLVVTFTNAAAREMKE 63 (1232)
T ss_pred CCHHHHHHHh------CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHh-hEEEEeccHHHHHHHHH
Confidence 3688988775 35778999999999999987776555443221124 79999999887766544
No 221
>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=89.50 E-value=0.81 Score=44.25 Aligned_cols=31 Identities=16% Similarity=0.193 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHhc--CCcEEEecCCCChhHH
Q 006790 20 EQYSYMLELKRALDA--KGHCLLEMPTGTGKTI 50 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~--~~~~~iEapTGtGKTl 50 (631)
.+.+.+..+.+.+.. +.++++.+|+|||||.
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~ 53 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSH 53 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHH
Confidence 456666666665433 3579999999999997
No 222
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.48 E-value=2.2 Score=46.06 Aligned_cols=95 Identities=23% Similarity=0.369 Sum_probs=67.0
Q ss_pred HHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeE
Q 006790 516 VARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAV 595 (631)
Q Consensus 516 ~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aI 595 (631)
-...+.+.|..+....+|.++||+-.-+.-+.+...++..++ .--.|. =.....++...|+.|++ |+-.|
T Consensus 325 K~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~~-----~a~~iH-Gd~sQ~eR~~~L~~Fre----G~~~v 394 (519)
T KOG0331|consen 325 KLRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKGW-----PAVAIH-GDKSQSERDWVLKGFRE----GKSPV 394 (519)
T ss_pred HHHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcCc-----ceeeec-ccccHHHHHHHHHhccc----CCcce
Confidence 345677777777667788999999999999888888775321 001121 11223467778888887 78899
Q ss_pred EEEEecCcccccccCCCCCceEEEEEccc
Q 006790 596 FFSVARGKVAEGIDFDRHYGRLVIMFGVP 624 (631)
Q Consensus 596 Lfgv~~Gsf~EGIDf~g~~lr~VII~gLP 624 (631)
|.|+ +-.+.|+|+|| .+.||-.-.|
T Consensus 395 LVAT--dVAaRGLDi~d--V~lVInydfP 419 (519)
T KOG0331|consen 395 LVAT--DVAARGLDVPD--VDLVINYDFP 419 (519)
T ss_pred EEEc--ccccccCCCcc--ccEEEeCCCC
Confidence 9999 78999999997 5667655444
No 223
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=89.47 E-value=1.5 Score=48.81 Aligned_cols=63 Identities=24% Similarity=0.255 Sum_probs=40.1
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHH--HHHHHHHHhhCCC-CCceEEEEecchhhHHHHHHHH
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL--LSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~--L~~~l~~~~~~~~-~~~~vi~~t~T~~l~~Q~~~el 87 (631)
+.|++. +..++. +...+|.+|+|||||... ++.++ ....+. ++.+|.++++|+.-...+-+-+
T Consensus 148 ~~Qk~A---~~~al~-~~~~vitGgpGTGKTt~v~~ll~~l--~~~~~~~~~~~I~l~APTGkAA~rL~e~~ 213 (586)
T TIGR01447 148 NWQKVA---VALALK-SNFSLITGGPGTGKTTTVARLLLAL--VKQSPKQGKLRIALAAPTGKAAARLAESL 213 (586)
T ss_pred HHHHHH---HHHHhh-CCeEEEEcCCCCCHHHHHHHHHHHH--HHhccccCCCcEEEECCcHHHHHHHHHHH
Confidence 566653 444555 578999999999999743 33322 222211 1137999999998777766533
No 224
>PRK05973 replicative DNA helicase; Provisional
Probab=89.47 E-value=0.45 Score=46.27 Aligned_cols=57 Identities=23% Similarity=0.227 Sum_probs=36.4
Q ss_pred HHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHH
Q 006790 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 27 ~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
.+...+..|...+|-|++|+|||.-.+--+...++ + ++ +++|-|--.+ -+|+++.+.
T Consensus 56 ~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~-~--Ge-~vlyfSlEes-~~~i~~R~~ 112 (237)
T PRK05973 56 ELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMK-S--GR-TGVFFTLEYT-EQDVRDRLR 112 (237)
T ss_pred HhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh-c--CC-eEEEEEEeCC-HHHHHHHHH
Confidence 34445666778999999999999966654444333 2 56 7777754433 356655433
No 225
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=89.41 E-value=0.78 Score=52.86 Aligned_cols=68 Identities=21% Similarity=0.231 Sum_probs=47.6
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC-CCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~-~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
.-|.|++.+.. ..++++|-|+.|||||-....- ++|.... +-.+.+|++.|-|+.....+-+-+..+.
T Consensus 5 Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~~L~~R-ia~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~ 73 (715)
T TIGR01075 5 LNDKQREAVAA------PPGNLLVLAGAGSGKTRVLTHR-IAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALL 73 (715)
T ss_pred cCHHHHHHHcC------CCCCEEEEecCCCCHHHHHHHH-HHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHh
Confidence 46888876542 3468999999999999875544 4555432 1112389999999988888766666543
No 226
>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=89.37 E-value=0.49 Score=49.66 Aligned_cols=40 Identities=25% Similarity=0.182 Sum_probs=31.2
Q ss_pred ChHHHHHHHHHHHHHhcC----------------CcEEEecCCCChhHHHHHHHHHHH
Q 006790 18 YPEQYSYMLELKRALDAK----------------GHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~----------------~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
--+|.+....+.-|+.++ +++++.+|||+|||. |.-+++-
T Consensus 14 IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~--lAraLA~ 69 (441)
T TIGR00390 14 IIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTE--IARRLAK 69 (441)
T ss_pred ccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHH--HHHHHHH
Confidence 357888888888888763 689999999999998 4444443
No 227
>PRK08727 hypothetical protein; Validated
Probab=89.30 E-value=0.82 Score=44.61 Aligned_cols=36 Identities=28% Similarity=0.303 Sum_probs=24.1
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
..+++-+|+|||||- |+-|+....... +. +++|.+-
T Consensus 42 ~~l~l~G~~G~GKTh--L~~a~~~~~~~~-~~-~~~y~~~ 77 (233)
T PRK08727 42 DWLYLSGPAGTGKTH--LALALCAAAEQA-GR-SSAYLPL 77 (233)
T ss_pred CeEEEECCCCCCHHH--HHHHHHHHHHHc-CC-cEEEEeH
Confidence 358999999999997 444444433322 45 7888763
No 228
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=89.26 E-value=1.4 Score=49.26 Aligned_cols=72 Identities=17% Similarity=0.077 Sum_probs=44.7
Q ss_pred eCCCCC-CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHH--HHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHH
Q 006790 11 YFPYDN-IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL--LSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 11 ~Fpy~~-~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~--L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
.||... .-+.|++.+ ..++. ++..+|-+|+|||||... ++..+ ....+....+|.++++|..-...+-+.+
T Consensus 146 lf~~~~~~~d~Qk~Av---~~a~~-~~~~vItGgpGTGKTt~v~~ll~~l--~~~~~~~~~~i~l~APTgkAA~rL~e~~ 219 (615)
T PRK10875 146 LFGPVTDEVDWQKVAA---AVALT-RRISVISGGPGTGKTTTVAKLLAAL--IQLADGERCRIRLAAPTGKAAARLTESL 219 (615)
T ss_pred hcCcCCCCCHHHHHHH---HHHhc-CCeEEEEeCCCCCHHHHHHHHHHHH--HHhcCCCCcEEEEECCcHHHHHHHHHHH
Confidence 455431 136788744 34444 468999999999999743 22222 1111111238999999998888777644
Q ss_pred H
Q 006790 88 K 88 (631)
Q Consensus 88 ~ 88 (631)
.
T Consensus 220 ~ 220 (615)
T PRK10875 220 G 220 (615)
T ss_pred H
Confidence 4
No 229
>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=88.99 E-value=0.47 Score=46.55 Aligned_cols=45 Identities=11% Similarity=0.199 Sum_probs=31.3
Q ss_pred HHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 29 KRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 29 ~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
...+..|...+|-||||+|||.-.+--+..++... +. +|+|.|--
T Consensus 7 ~~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~--g~-~vly~s~E 51 (242)
T cd00984 7 TGGLQPGDLIIIAARPSMGKTAFALNIAENIAKKQ--GK-PVLFFSLE 51 (242)
T ss_pred hcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhC--CC-ceEEEeCC
Confidence 34566678899999999999986555455555442 45 77777643
No 230
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=88.94 E-value=1.1 Score=51.26 Aligned_cols=65 Identities=20% Similarity=0.280 Sum_probs=45.4
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC-C-CCCceEEEEecchhhHHHHHHHHHhh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~-~-~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.|.|++.+.. ..++++|-|+.|||||-..+.-+ .|.... + ..+ +|++.|-|+.-...+-+.+.+.
T Consensus 3 n~~Q~~av~~------~~~~~~V~Ag~GSGKT~~L~~ri-~~ll~~~~~~p~-~IL~vTFt~~Aa~em~~Rl~~~ 69 (664)
T TIGR01074 3 NPQQQEAVEY------VTGPCLVLAGAGSGKTRVITNKI-AYLIQNCGYKAR-NIAAVTFTNKAAREMKERVAKT 69 (664)
T ss_pred CHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHH-HHHHHhcCCCHH-HeEEEeccHHHHHHHHHHHHHH
Confidence 5778765432 35689999999999998777654 444432 1 234 8999999988887776655543
No 231
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.91 E-value=0.38 Score=53.29 Aligned_cols=35 Identities=37% Similarity=0.358 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|......+..++..++ | +++.+|.|||||....+
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 89999999999998874 5 58999999999876554
No 232
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=88.79 E-value=3.3 Score=49.80 Aligned_cols=83 Identities=11% Similarity=0.166 Sum_probs=55.2
Q ss_pred cCCcEEEEecchHHHHHHHHHHhhcchHHHHh---cCCe-EEEeCCCchhhHHHHHHHHHhhcCCCC-eEEEEEecCccc
Q 006790 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIM---QHKL-VFIETQDVVETTLALDNYRKACDCGRG-AVFFSVARGKVA 605 (631)
Q Consensus 531 ~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~---~~~~-v~~e~~~~~~~~~~l~~fk~~~~~~~~-aILfgv~~Gsf~ 605 (631)
.+|.+|||+.|-+..+.+.+.++.. +.... .... ..+-+. ......++++|++ ++. .|++.| +-+.
T Consensus 697 ~~~KtiIF~~s~~HA~~i~~~L~~~--f~~~~~~~~~~~v~~itg~-~~~~~~li~~Fk~----~~~p~IlVsv--dmL~ 767 (1123)
T PRK11448 697 GEGKTLIFAATDAHADMVVRLLKEA--FKKKYGQVEDDAVIKITGS-IDKPDQLIRRFKN----ERLPNIVVTV--DLLT 767 (1123)
T ss_pred CCCcEEEEEcCHHHHHHHHHHHHHH--HHhhcCCcCccceEEEeCC-ccchHHHHHHHhC----CCCCeEEEEe--cccc
Confidence 3578999999999888888776642 11110 0111 112222 2345678899986 333 588888 8999
Q ss_pred ccccCCCCCceEEEEEccc
Q 006790 606 EGIDFDRHYGRLVIMFGVP 624 (631)
Q Consensus 606 EGIDf~g~~lr~VII~gLP 624 (631)
+|||+| .+.+||+.+-|
T Consensus 768 TG~DvP--~v~~vVf~rpv 784 (1123)
T PRK11448 768 TGIDVP--SICNLVFLRRV 784 (1123)
T ss_pred cCCCcc--cccEEEEecCC
Confidence 999999 57888888766
No 233
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=88.74 E-value=1.3 Score=43.03 Aligned_cols=53 Identities=19% Similarity=0.224 Sum_probs=33.7
Q ss_pred HhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 32 l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+..+...++.+|+|+|||.-.+-.+...+. .+. +++|.+ +..-.+++++.+..
T Consensus 21 i~~g~~~~i~G~~G~GKTtl~~~~~~~~~~---~g~-~~~yi~-~e~~~~~~~~~~~~ 73 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSILSQRLAYGFLQ---NGY-SVSYVS-TQLTTTEFIKQMMS 73 (230)
T ss_pred CCCCcEEEEECCCCCCHHHHHHHHHHHHHh---CCC-cEEEEe-CCCCHHHHHHHHHH
Confidence 455778999999999999853332222222 246 788877 44445677665543
No 234
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=88.68 E-value=1.2 Score=45.51 Aligned_cols=45 Identities=20% Similarity=0.296 Sum_probs=28.2
Q ss_pred HHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHh-hCCCCCceEEEE
Q 006790 26 LELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVL-SKPENPVKLIYC 73 (631)
Q Consensus 26 ~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~-~~~~~~~~vi~~ 73 (631)
..+..++..+.+++|-+|||+|||- |+-||.... ..+.+. +++..
T Consensus 135 ~~L~~~v~~~~nilI~G~tGSGKTT--ll~aL~~~i~~~~~~~-rivti 180 (323)
T PRK13833 135 SVIRSAIDSRLNIVISGGTGSGKTT--LANAVIAEIVASAPED-RLVIL 180 (323)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHHH--HHHHHHHHHhcCCCCc-eEEEe
Confidence 3445667778899999999999986 333333222 222245 66654
No 235
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=88.62 E-value=0.53 Score=46.88 Aligned_cols=34 Identities=35% Similarity=0.468 Sum_probs=24.4
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
.|.++-+|||+|||+ |.-.|+-.. +- +.-++-.|
T Consensus 98 SNILLiGPTGsGKTl--LAqTLAk~L----nV-PFaiADAT 131 (408)
T COG1219 98 SNILLIGPTGSGKTL--LAQTLAKIL----NV-PFAIADAT 131 (408)
T ss_pred ccEEEECCCCCcHHH--HHHHHHHHh----CC-Ceeecccc
Confidence 478889999999999 655555433 23 67777666
No 236
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=88.54 E-value=1.2 Score=47.33 Aligned_cols=30 Identities=27% Similarity=0.433 Sum_probs=24.6
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCChhHHHH
Q 006790 23 SYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (631)
Q Consensus 23 ~~~~~v~~~l~~~~~~~iEapTGtGKTla~ 52 (631)
+..+.+..++..++++++.+|+|||||...
T Consensus 182 ~~le~l~~~L~~~~~iil~GppGtGKT~lA 211 (459)
T PRK11331 182 TTIETILKRLTIKKNIILQGPPGVGKTFVA 211 (459)
T ss_pred HHHHHHHHHHhcCCCEEEECCCCCCHHHHH
Confidence 345567788888999999999999999744
No 237
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.41 E-value=0.53 Score=50.03 Aligned_cols=35 Identities=23% Similarity=0.227 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|......+..++.+++ | +++.+|.|+|||..+.+
T Consensus 20 Gq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~ 57 (397)
T PRK14955 20 AQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARV 57 (397)
T ss_pred ChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHH
Confidence 89999999999998874 4 78999999999876554
No 238
>COG1204 Superfamily II helicase [General function prediction only]
Probab=88.31 E-value=3.9 Score=47.03 Aligned_cols=92 Identities=18% Similarity=0.053 Sum_probs=48.7
Q ss_pred EEEEecCCCCCccchhhhcCCCCccccccceeecCCcee-eEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHHHhhccc
Q 006790 453 SVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCIC-PMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIV 531 (631)
Q Consensus 453 svIltSaTL~p~~~f~~~lG~~~~~~~~~~~~~~~~~~~-~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~ 531 (631)
.+|-.||||...+.++.-|+-+.....-.|.+.-+.... ..+... ..+.+..+.-.......+..-+-+-
T Consensus 182 rivgLSATlpN~~evA~wL~a~~~~~~~rp~~l~~~v~~~~~~~~~---------~~~~k~~~~~~~~~~~~~v~~~~~~ 252 (766)
T COG1204 182 RIVGLSATLPNAEEVADWLNAKLVESDWRPVPLRRGVPYVGAFLGA---------DGKKKTWPLLIDNLALELVLESLAE 252 (766)
T ss_pred EEEEEeeecCCHHHHHHHhCCcccccCCCCcccccCCccceEEEEe---------cCccccccccchHHHHHHHHHHHhc
Confidence 568899999999999998886644211112111111000 000100 0011111111122222222233355
Q ss_pred CCcEEEEecchHHHHHHHHHHh
Q 006790 532 PDGIVCFFVSYSYMDEIIATWN 553 (631)
Q Consensus 532 ~gg~LVfF~Sy~~l~~v~~~~~ 553 (631)
.|.+|||.+|.+.=..++..++
T Consensus 253 ~~qvLvFv~sR~~a~~~A~~l~ 274 (766)
T COG1204 253 GGQVLVFVHSRKEAEKTAKKLR 274 (766)
T ss_pred CCeEEEEEecCchHHHHHHHHH
Confidence 7899999999999988888887
No 239
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=88.30 E-value=0.98 Score=44.21 Aligned_cols=53 Identities=17% Similarity=0.147 Sum_probs=32.7
Q ss_pred HhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 32 l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+..+...+|.+|+|+|||.-.+--+...++ . +. +++|.| +-.-.+|+++.+..
T Consensus 18 ~~~gs~~lI~G~pGsGKT~la~~~l~~~~~-~--ge-~~lyvs-~ee~~~~i~~~~~~ 70 (237)
T TIGR03877 18 IPERNVVLLSGGPGTGKSIFSQQFLWNGLQ-M--GE-PGIYVA-LEEHPVQVRRNMAQ 70 (237)
T ss_pred CcCCeEEEEEcCCCCCHHHHHHHHHHHHHH-c--CC-cEEEEE-eeCCHHHHHHHHHH
Confidence 344568999999999999844432222222 2 56 677766 33455677765543
No 240
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=88.28 E-value=2.7 Score=45.23 Aligned_cols=140 Identities=15% Similarity=0.113 Sum_probs=79.8
Q ss_pred HHhhccCEEEEecCCCCCccchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHH
Q 006790 446 PVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLV 525 (631)
Q Consensus 446 ~l~~~~~svIltSaTL~p~~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~ 525 (631)
.++. .--+|..|||......++..||...+....-|.++.+. ++++++ .....+.+..+++.=.
T Consensus 368 ~l~~-~AQ~i~LSATVgNp~elA~~l~a~lV~y~~RPVplErH----lvf~~~-----------e~eK~~ii~~L~k~E~ 431 (830)
T COG1202 368 YLFP-GAQFIYLSATVGNPEELAKKLGAKLVLYDERPVPLERH----LVFARN-----------ESEKWDIIARLVKREF 431 (830)
T ss_pred HhCC-CCeEEEEEeecCChHHHHHHhCCeeEeecCCCCChhHe----eeeecC-----------chHHHHHHHHHHHHHH
Confidence 3444 35789999999999999999998765444334333321 122210 0112233334433222
Q ss_pred --HhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCc
Q 006790 526 --EMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGK 603 (631)
Q Consensus 526 --~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gs 603 (631)
+-.+.-.|.++||-.|.+--+.+++.+...|+-. .+ |--+-.-.++..+=.. |..+.=++...+ ..
T Consensus 432 ~~~sskg~rGQtIVFT~SRrr~h~lA~~L~~kG~~a-----~p-YHaGL~y~eRk~vE~~----F~~q~l~~VVTT--AA 499 (830)
T COG1202 432 STESSKGYRGQTIVFTYSRRRCHELADALTGKGLKA-----AP-YHAGLPYKERKSVERA----FAAQELAAVVTT--AA 499 (830)
T ss_pred hhhhccCcCCceEEEecchhhHHHHHHHhhcCCccc-----cc-ccCCCcHHHHHHHHHH----HhcCCcceEeeh--hh
Confidence 2233345899999999999999999998665311 11 1111111112222223 333555677666 58
Q ss_pred ccccccCCCC
Q 006790 604 VAEGIDFDRH 613 (631)
Q Consensus 604 f~EGIDf~g~ 613 (631)
++-|||||-.
T Consensus 500 L~AGVDFPAS 509 (830)
T COG1202 500 LAAGVDFPAS 509 (830)
T ss_pred hhcCCCCchH
Confidence 9999999953
No 241
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=88.14 E-value=1 Score=43.73 Aligned_cols=38 Identities=16% Similarity=0.038 Sum_probs=24.3
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
+.++++-+|+|||||- |+-+++.....+ +. +++|.+..
T Consensus 42 ~~~~~l~G~~G~GKT~--La~ai~~~~~~~-~~-~~~~i~~~ 79 (227)
T PRK08903 42 DRFFYLWGEAGSGRSH--LLQALVADASYG-GR-NARYLDAA 79 (227)
T ss_pred CCeEEEECCCCCCHHH--HHHHHHHHHHhC-CC-cEEEEehH
Confidence 4589999999999997 444444333222 44 66666653
No 242
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=88.01 E-value=1.5 Score=44.12 Aligned_cols=70 Identities=13% Similarity=0.363 Sum_probs=51.4
Q ss_pred cCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccC
Q 006790 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (631)
Q Consensus 531 ~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf 610 (631)
.+--+|+|||+-+.|+++.+.++.. +...+..++-..+ ..+.+-++.|+. |+-.||+.+ --+-.||-|
T Consensus 304 ~~~P~liF~p~I~~~eq~a~~lk~~-----~~~~~i~~Vhs~d-~~R~EkV~~fR~----G~~~lLiTT--TILERGVTf 371 (441)
T COG4098 304 TGRPVLIFFPEIETMEQVAAALKKK-----LPKETIASVHSED-QHRKEKVEAFRD----GKITLLITT--TILERGVTF 371 (441)
T ss_pred cCCcEEEEecchHHHHHHHHHHHhh-----CCccceeeeeccC-ccHHHHHHHHHc----CceEEEEEe--ehhhccccc
Confidence 4457999999999999999999643 2222334444444 245666788887 788999998 578899999
Q ss_pred CC
Q 006790 611 DR 612 (631)
Q Consensus 611 ~g 612 (631)
|.
T Consensus 372 p~ 373 (441)
T COG4098 372 PN 373 (441)
T ss_pred cc
Confidence 86
No 243
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=87.94 E-value=0.5 Score=49.87 Aligned_cols=32 Identities=34% Similarity=0.299 Sum_probs=28.1
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHH
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTl 50 (631)
.+|.+.=+++.-|...+.++++.+|+|||||+
T Consensus 182 ~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTm 213 (490)
T COG0606 182 KGQEQAKRALEIAAAGGHNLLLVGPPGTGKTM 213 (490)
T ss_pred cCcHHHHHHHHHHHhcCCcEEEecCCCCchHH
Confidence 57877777777788888999999999999999
No 244
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=87.87 E-value=0.97 Score=46.72 Aligned_cols=48 Identities=29% Similarity=0.270 Sum_probs=31.3
Q ss_pred HHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 24 YMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 24 ~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
++.-+..++..+.+++|-+|||+|||- |+-|+.- ..+... +++..=.+
T Consensus 151 ~~~~l~~~v~~~~nilI~G~tGSGKTT--ll~aLl~--~i~~~~-rivtiEd~ 198 (344)
T PRK13851 151 LEAFLHACVVGRLTMLLCGPTGSGKTT--MSKTLIS--AIPPQE-RLITIEDT 198 (344)
T ss_pred HHHHHHHHHHcCCeEEEECCCCccHHH--HHHHHHc--ccCCCC-CEEEECCC
Confidence 455566677788999999999999987 4444432 223345 66553333
No 245
>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=87.68 E-value=0.74 Score=48.68 Aligned_cols=38 Identities=34% Similarity=0.299 Sum_probs=27.8
Q ss_pred hHHHHHHHHHHHHHhc--------------------CCcEEEecCCCChhHHHHHHHHHH
Q 006790 19 PEQYSYMLELKRALDA--------------------KGHCLLEMPTGTGKTIALLSLITS 58 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~--------------------~~~~~iEapTGtGKTla~L~~~l~ 58 (631)
-+|.+....+..|+.+ +.++++.+|||+|||. |+-+++
T Consensus 80 iGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~--lAraLA 137 (413)
T TIGR00382 80 IGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTL--LAQTLA 137 (413)
T ss_pred cCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHH--HHHHHH
Confidence 4677888877776621 2479999999999998 544554
No 246
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=87.60 E-value=0.67 Score=47.95 Aligned_cols=34 Identities=38% Similarity=0.528 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHhcCC--cEEEecCCCChhHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALL 53 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~~iEapTGtGKTla~L 53 (631)
+|.+..+.+..++..+. ++++.+|+|||||....
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~ 54 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVR 54 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHH
Confidence 56777888888888876 89999999999998444
No 247
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=87.59 E-value=2 Score=50.78 Aligned_cols=72 Identities=22% Similarity=0.333 Sum_probs=52.7
Q ss_pred ChHHHHHHHHHHH-HHhcC-----CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 18 YPEQYSYMLELKR-ALDAK-----GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 18 r~~Q~~~~~~v~~-~l~~~-----~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
|..|...+....+ ..... +.++|-=-||||||+..+..|-- +...+..+ +|++.|-.+.|-.|+.+++..+.
T Consensus 250 ~~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~~-l~~~~~~~-~v~fvvDR~dLd~Q~~~~f~~~~ 327 (962)
T COG0610 250 RYAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARL-LLELPKNP-KVLFVVDRKDLDDQTSDEFQSFG 327 (962)
T ss_pred HHHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHHH-HHhccCCC-eEEEEechHHHHHHHHHHHHHHH
Confidence 5666666663333 33322 35999999999999988886533 33445556 99999999999999999887753
No 248
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=87.31 E-value=6.2 Score=42.33 Aligned_cols=137 Identities=13% Similarity=0.227 Sum_probs=82.5
Q ss_pred cHHHhhccCEEEEecCCCCCccchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHH
Q 006790 444 VKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKL 523 (631)
Q Consensus 444 l~~l~~~~~svIltSaTL~p~~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~ 523 (631)
|..+......+|+.|||=.+.+. - .+-+.... + +|- |.+ -++..-.-|.....++.+...
T Consensus 379 feEf~~~~~q~i~VSATPg~~E~-----e------~s~~~vve-Q-----iIR--PTG-LlDP~ievRp~~~QvdDL~~E 438 (663)
T COG0556 379 FEEFEAKIPQTIYVSATPGDYEL-----E------QSGGNVVE-Q-----IIR--PTG-LLDPEIEVRPTKGQVDDLLSE 438 (663)
T ss_pred HHHHHHhcCCEEEEECCCChHHH-----H------hccCceeE-E-----eec--CCC-CCCCceeeecCCCcHHHHHHH
Confidence 46677788999999999766431 0 00000000 0 000 111 011111222233345667666
Q ss_pred HHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCC--chhhHHHHHHHHHhhcCCCCeEEEEEec
Q 006790 524 LVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD--VVETTLALDNYRKACDCGRGAVFFSVAR 601 (631)
Q Consensus 524 i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~--~~~~~~~l~~fk~~~~~~~~aILfgv~~ 601 (631)
|..-++ ...++||---.-+|-+.+.+++...|+ |.-|. ..+ ..++.+++...+. |.=-||.|+
T Consensus 439 I~~r~~-~~eRvLVTtLTKkmAEdLT~Yl~e~gi-------kv~Yl-HSdidTlER~eIirdLR~----G~~DvLVGI-- 503 (663)
T COG0556 439 IRKRVA-KNERVLVTTLTKKMAEDLTEYLKELGI-------KVRYL-HSDIDTLERVEIIRDLRL----GEFDVLVGI-- 503 (663)
T ss_pred HHHHHh-cCCeEEEEeehHHHHHHHHHHHHhcCc-------eEEee-eccchHHHHHHHHHHHhc----CCccEEEee--
Confidence 766553 348999999999999999999987653 22222 222 2355566666665 777899999
Q ss_pred CcccccccCCCCCc
Q 006790 602 GKVAEGIDFDRHYG 615 (631)
Q Consensus 602 Gsf~EGIDf~g~~l 615 (631)
.=+-||+|+|--.|
T Consensus 504 NLLREGLDiPEVsL 517 (663)
T COG0556 504 NLLREGLDLPEVSL 517 (663)
T ss_pred hhhhccCCCcceeE
Confidence 68999999996443
No 249
>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=87.20 E-value=0.81 Score=46.12 Aligned_cols=17 Identities=35% Similarity=0.313 Sum_probs=14.5
Q ss_pred CcEEEecCCCChhHHHH
Q 006790 36 GHCLLEMPTGTGKTIAL 52 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~ 52 (631)
.++++.+|+|||||...
T Consensus 59 ~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVA 75 (284)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 37999999999999744
No 250
>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=87.14 E-value=1.1 Score=39.52 Aligned_cols=23 Identities=43% Similarity=0.488 Sum_probs=16.6
Q ss_pred cEEEecCCCChhHHHHHHHHHHHHh
Q 006790 37 HCLLEMPTGTGKTIALLSLITSYVL 61 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L~~~l~~~~ 61 (631)
++++.+|+|+|||. |+-.++...
T Consensus 1 ~vlL~G~~G~GKt~--l~~~la~~~ 23 (139)
T PF07728_consen 1 PVLLVGPPGTGKTT--LARELAALL 23 (139)
T ss_dssp EEEEEESSSSSHHH--HHHHHHHHH
T ss_pred CEEEECCCCCCHHH--HHHHHHHHh
Confidence 47999999999998 433344444
No 251
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=87.10 E-value=1 Score=42.93 Aligned_cols=33 Identities=27% Similarity=0.407 Sum_probs=24.0
Q ss_pred HHHHHHHHHHhcCC--cEEEecCCCChhHHHHHHH
Q 006790 23 SYMLELKRALDAKG--HCLLEMPTGTGKTIALLSL 55 (631)
Q Consensus 23 ~~~~~v~~~l~~~~--~~~iEapTGtGKTla~L~~ 55 (631)
+.++.+.-...+|+ |+++.+|+|||||-+.++-
T Consensus 34 ~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~L 68 (333)
T KOG0991|consen 34 DTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCL 68 (333)
T ss_pred HHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHH
Confidence 34444444445553 8999999999999998874
No 252
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=87.06 E-value=1.4 Score=43.01 Aligned_cols=53 Identities=17% Similarity=0.196 Sum_probs=32.6
Q ss_pred HhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 32 l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+-.+...++.+|+|+|||.-.+.-+...+. .++ +++|.|--.+ .+++++.+..
T Consensus 22 ~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~---~g~-~~~y~~~e~~-~~~~~~~~~~ 74 (234)
T PRK06067 22 IPFPSLILIEGDHGTGKSVLSQQFVYGALK---QGK-KVYVITTENT-SKSYLKQMES 74 (234)
T ss_pred CcCCcEEEEECCCCCChHHHHHHHHHHHHh---CCC-EEEEEEcCCC-HHHHHHHHHH
Confidence 344568999999999998843332222222 256 7888776544 3456655544
No 253
>PLN03025 replication factor C subunit; Provisional
Probab=86.99 E-value=0.83 Score=46.97 Aligned_cols=34 Identities=26% Similarity=0.327 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHhcC--CcEEEecCCCChhHHHHH
Q 006790 20 EQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALL 53 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla~L 53 (631)
+|.+.+..+...+.++ .++++.+|+|||||-...
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~ 52 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSIL 52 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHH
Confidence 6777777777777665 479999999999996444
No 254
>PRK08084 DNA replication initiation factor; Provisional
Probab=86.86 E-value=1.5 Score=42.92 Aligned_cols=38 Identities=21% Similarity=0.184 Sum_probs=24.5
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecch
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~ 77 (631)
.++++-+|+|+|||- |+-+++..... .+. +++|.+-..
T Consensus 46 ~~l~l~Gp~G~GKTh--Ll~a~~~~~~~-~~~-~v~y~~~~~ 83 (235)
T PRK08084 46 GYIYLWSREGAGRSH--LLHAACAELSQ-RGR-AVGYVPLDK 83 (235)
T ss_pred CeEEEECCCCCCHHH--HHHHHHHHHHh-CCC-eEEEEEHHH
Confidence 579999999999996 33333332222 245 788876643
No 255
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=86.84 E-value=2.3 Score=49.53 Aligned_cols=167 Identities=15% Similarity=0.173 Sum_probs=85.2
Q ss_pred CcccccHHHhhccC------EEEEecCCCCCccchhhhc-CCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccC
Q 006790 439 DASLAVKPVFDRFQ------SVVITSGTLSPIDLYPRLL-NFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMR 511 (631)
Q Consensus 439 ~~~~~l~~l~~~~~------svIltSaTL~p~~~f~~~l-G~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r 511 (631)
+++..++.+...++ .+|+||||++....|...+ |.+... . ..-+..+.....++.-.-+.. .... .-|
T Consensus 214 ~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np~e~~~~l~~~~f~~-~-v~~~g~~~~~~~~~~~~p~~~-~~~~--~~r 288 (851)
T COG1205 214 EVALLLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFGRDFEV-P-VDEDGSPRGLRYFVRREPPIR-ELAE--SIR 288 (851)
T ss_pred HHHHHHHHHHHHHhccCCCceEEEEeccccChHHHHHHhcCCccee-e-ccCCCCCCCceEEEEeCCcch-hhhh--hcc
Confidence 45666666655444 8999999999987777665 332211 0 000000111111111110000 0000 011
Q ss_pred CCHHHHHHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHh----hcchHHHHhcCCeEEEeCCCc--hhhHHHHHHHH
Q 006790 512 SDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWN----DSGILKEIMQHKLVFIETQDV--VETTLALDNYR 585 (631)
Q Consensus 512 ~~~~~~~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~----~~~~~~~l~~~~~v~~e~~~~--~~~~~~l~~fk 585 (631)
.+ ..... ..+...+-...-.+||||-|.+..+.++...+ ..+ .++. ..|-.-..+. .++..+.++++
T Consensus 289 ~s--~~~~~-~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~--~~l~--~~v~~~~~~~~~~er~~ie~~~~ 361 (851)
T COG1205 289 RS--ALAEL-ATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREG--GKLL--DAVSTYRAGLHREERRRIEAEFK 361 (851)
T ss_pred cc--hHHHH-HHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcc--hhhh--hheeeccccCCHHHHHHHHHHHh
Confidence 22 12233 33333333445579999999999999974333 221 0010 1111111121 22333445555
Q ss_pred HhhcCCCCeEEEEEecCcccccccCCCCCceEEEEEcccC
Q 006790 586 KACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPF 625 (631)
Q Consensus 586 ~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPf 625 (631)
. |+..+++++ ..+-=|||+-+ +-+||+.|+|-
T Consensus 362 ~----g~~~~~~st--~AlelgidiG~--ldavi~~g~P~ 393 (851)
T COG1205 362 E----GELLGVIAT--NALELGIDIGS--LDAVIAYGYPG 393 (851)
T ss_pred c----CCccEEecc--hhhhhceeehh--hhhHhhcCCCC
Confidence 4 777888888 67999999964 67788999886
No 256
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.71 E-value=0.68 Score=50.15 Aligned_cols=34 Identities=26% Similarity=0.234 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHhcCCc---EEEecCCCChhHHHHH
Q 006790 20 EQYSYMLELKRALDAKGH---CLLEMPTGTGKTIALL 53 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~---~~iEapTGtGKTla~L 53 (631)
+|......+..++.+++. +++.+|+|||||....
T Consensus 18 Gq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~ 54 (472)
T PRK14962 18 GQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVAR 54 (472)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 788888888888888753 6999999999986444
No 257
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=86.68 E-value=2.2 Score=43.54 Aligned_cols=77 Identities=21% Similarity=0.357 Sum_probs=59.3
Q ss_pred HHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEe-CCCchhhHHHHHHHHHhhcCCCCeEEEEEec
Q 006790 523 LLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIE-TQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (631)
Q Consensus 523 ~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e-~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~ 601 (631)
++++.+..++--+|+|.-.-.....+++++--.|. ..+=+- +++..+++..++.|+. |+.-||.++
T Consensus 412 ylLeCLQKT~PpVLIFaEkK~DVD~IhEYLLlKGV-------EavaIHGGKDQedR~~ai~afr~----gkKDVLVAT-- 478 (610)
T KOG0341|consen 412 YLLECLQKTSPPVLIFAEKKADVDDIHEYLLLKGV-------EAVAIHGGKDQEDRHYAIEAFRA----GKKDVLVAT-- 478 (610)
T ss_pred hHHHHhccCCCceEEEeccccChHHHHHHHHHccc-------eeEEeecCcchhHHHHHHHHHhc----CCCceEEEe--
Confidence 45667788889999999999999999998853321 122222 3455567778899887 688999999
Q ss_pred CcccccccCCC
Q 006790 602 GKVAEGIDFDR 612 (631)
Q Consensus 602 Gsf~EGIDf~g 612 (631)
.-.|.|+||||
T Consensus 479 DVASKGLDFp~ 489 (610)
T KOG0341|consen 479 DVASKGLDFPD 489 (610)
T ss_pred cchhccCCCcc
Confidence 78999999998
No 258
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=86.61 E-value=0.53 Score=40.75 Aligned_cols=17 Identities=47% Similarity=0.515 Sum_probs=11.0
Q ss_pred cEEEecCCCChhHHHHH
Q 006790 37 HCLLEMPTGTGKTIALL 53 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L 53 (631)
|+++|+++|+|||...-
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 68999999999999444
No 259
>PRK06893 DNA replication initiation factor; Validated
Probab=86.58 E-value=1.6 Score=42.39 Aligned_cols=52 Identities=13% Similarity=0.041 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHhcC--CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 21 QYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 21 Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
...++..+.+.+... ..+++-+|+|+|||- |+-|++...... +. +++|.+.+
T Consensus 23 ~~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTh--L~~ai~~~~~~~-~~-~~~y~~~~ 76 (229)
T PRK06893 23 NLLLLDSLRKNFIDLQQPFFYIWGGKSSGKSH--LLKAVSNHYLLN-QR-TAIYIPLS 76 (229)
T ss_pred hHHHHHHHHHHhhccCCCeEEEECCCCCCHHH--HHHHHHHHHHHc-CC-CeEEeeHH
Confidence 344555555555433 246899999999997 443343322211 35 67777654
No 260
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=86.58 E-value=1.3 Score=43.95 Aligned_cols=40 Identities=25% Similarity=0.262 Sum_probs=28.4
Q ss_pred cEEEecCCCChhHHHHHHHHH-HHHhhCCCCCceEEEEecchhh
Q 006790 37 HCLLEMPTGTGKTIALLSLIT-SYVLSKPENPVKLIYCTRTVHE 79 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L~~~l-~~~~~~~~~~~~vi~~t~T~~l 79 (631)
+++|-+|||+|||- |+-.| +...-.|..+ .|++.||++..
T Consensus 89 I~~VYGPTG~GKSq--LlRNLis~~lI~P~PE-TVfFItP~~~m 129 (369)
T PF02456_consen 89 IGVVYGPTGSGKSQ--LLRNLISCQLIQPPPE-TVFFITPQKDM 129 (369)
T ss_pred EEEEECCCCCCHHH--HHHHhhhcCcccCCCC-ceEEECCCCCC
Confidence 47899999999997 55433 3333344456 99999998653
No 261
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=86.44 E-value=0.34 Score=45.06 Aligned_cols=33 Identities=27% Similarity=0.314 Sum_probs=21.0
Q ss_pred ChHHHHHHHHHHHHHhc--CCcEEEecCCCChhHH
Q 006790 18 YPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTI 50 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~--~~~~~iEapTGtGKTl 50 (631)
|..|.+.+....++... +.+++|.+|+|+|||.
T Consensus 5 R~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ 39 (185)
T PF13191_consen 5 REEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTS 39 (185)
T ss_dssp -HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHH
Confidence 78888877776653332 3579999999999998
No 262
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=86.41 E-value=6.1 Score=42.64 Aligned_cols=76 Identities=22% Similarity=0.305 Sum_probs=53.7
Q ss_pred cCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCC-CchhhHHHHHHHHHhhcCCCCeEEEEEecCccccccc
Q 006790 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 609 (631)
Q Consensus 531 ~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~-~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGID 609 (631)
-..+++||..+-...+.+...+...++ .-++.+. ...++..++++|+. |.--+|+++ .-+.||||
T Consensus 282 ~~~~~lif~~~~~~a~~i~~~~~~~~~--------~~~it~~t~~~eR~~il~~fr~----g~~~~lv~~--~vl~EGvD 347 (442)
T COG1061 282 RGDKTLIFASDVEHAYEIAKLFLAPGI--------VEAITGETPKEEREAILERFRT----GGIKVLVTV--KVLDEGVD 347 (442)
T ss_pred CCCcEEEEeccHHHHHHHHHHhcCCCc--------eEEEECCCCHHHHHHHHHHHHc----CCCCEEEEe--eeccceec
Confidence 356899999999998888888764432 1123232 33567888999988 345678777 68999999
Q ss_pred CCCCCceEEEEEc
Q 006790 610 FDRHYGRLVIMFG 622 (631)
Q Consensus 610 f~g~~lr~VII~g 622 (631)
+|+ +.++|+++
T Consensus 348 iP~--~~~~i~~~ 358 (442)
T COG1061 348 IPD--ADVLIILR 358 (442)
T ss_pred CCC--CcEEEEeC
Confidence 996 55666654
No 263
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=86.39 E-value=1 Score=47.36 Aligned_cols=33 Identities=30% Similarity=0.210 Sum_probs=27.9
Q ss_pred ChHHHHHHHHHHHHHhc----------------CCcEEEecCCCChhHH
Q 006790 18 YPEQYSYMLELKRALDA----------------KGHCLLEMPTGTGKTI 50 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~----------------~~~~~iEapTGtGKTl 50 (631)
-.+|.+....+..++.+ ..++++.+|||+|||.
T Consensus 17 IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~ 65 (443)
T PRK05201 17 IIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTE 65 (443)
T ss_pred cCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHH
Confidence 36899999999888865 3689999999999995
No 264
>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=86.29 E-value=1.7 Score=40.63 Aligned_cols=29 Identities=38% Similarity=0.567 Sum_probs=22.7
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHH
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTl 50 (631)
+.|.+++. .++..+.++++-+|||+|||-
T Consensus 12 ~~~~~~l~---~~v~~g~~i~I~G~tGSGKTT 40 (186)
T cd01130 12 PLQAAYLW---LAVEARKNILISGGTGSGKTT 40 (186)
T ss_pred HHHHHHHH---HHHhCCCEEEEECCCCCCHHH
Confidence 55555554 456778999999999999986
No 265
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=86.13 E-value=3.1 Score=44.88 Aligned_cols=59 Identities=15% Similarity=0.106 Sum_probs=34.5
Q ss_pred HHHHHHHHHHhcC-----CcEEEecCCCChhHHHHHHHHHHHH-hhCCCCCceEEEEecchhhHHHHHH
Q 006790 23 SYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSYV-LSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 23 ~~~~~v~~~l~~~-----~~~~iEapTGtGKTla~L~~~l~~~-~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
+++...+.++.++ +.+++-+|+|+|||- |+-|+... .....+. +|+|.|.. .....+..
T Consensus 124 ~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTH--Ll~Ai~~~l~~~~~~~-~v~yv~~~-~f~~~~~~ 188 (450)
T PRK14087 124 EQAFIAVQTVSKNPGISYNPLFIYGESGMGKTH--LLKAAKNYIESNFSDL-KVSYMSGD-EFARKAVD 188 (450)
T ss_pred HHHHHHHHHHHhCcCcccCceEEECCCCCcHHH--HHHHHHHHHHHhCCCC-eEEEEEHH-HHHHHHHH
Confidence 3444555555332 468999999999995 55555442 2222245 88888774 34444443
No 266
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=86.08 E-value=0.94 Score=47.03 Aligned_cols=39 Identities=33% Similarity=0.462 Sum_probs=28.3
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEME 81 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~ 81 (631)
.|+++-+|||+|||| |.-.|+-.. +- +++||-.|.--|.
T Consensus 227 SNvLllGPtGsGKTl--laqTLAr~l----dV-PfaIcDcTtLTQA 265 (564)
T KOG0745|consen 227 SNVLLLGPTGSGKTL--LAQTLARVL----DV-PFAICDCTTLTQA 265 (564)
T ss_pred ccEEEECCCCCchhH--HHHHHHHHh----CC-CeEEecccchhhc
Confidence 578999999999999 655555443 33 7999977754443
No 267
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=86.04 E-value=1.9 Score=49.91 Aligned_cols=66 Identities=20% Similarity=0.221 Sum_probs=46.1
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC-C-CCCceEEEEecchhhHHHHHHHHHhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~-~-~~~~~vi~~t~T~~l~~Q~~~el~~l 90 (631)
.-|.|++.+.. ..++++|-|+.|||||.....- ++|.... + ... +|++.|=|+.....+.+-+.++
T Consensus 5 Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~~l~~r-ia~Li~~~~i~P~-~IL~lTFT~kAA~em~~Rl~~~ 72 (726)
T TIGR01073 5 LNPEQREAVKT------TEGPLLIMAGAGSGKTRVLTHR-IAHLIAEKNVAPW-NILAITFTNKAAREMKERVEKL 72 (726)
T ss_pred cCHHHHHHHhC------CCCCEEEEeCCCCCHHHHHHHH-HHHHHHcCCCCHH-HeeeeeccHHHHHHHHHHHHHH
Confidence 46888876642 3578999999999999876664 3444432 1 124 8999999988777766655554
No 268
>PHA02533 17 large terminase protein; Provisional
Probab=86.03 E-value=3.6 Score=45.27 Aligned_cols=73 Identities=11% Similarity=0.051 Sum_probs=55.3
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
-||.. +|.|++++..+. .++..++..|=..|||.....-++.++...+ +. +|+++.+|..|...+++.++.+.
T Consensus 56 ~Pf~L-~p~Q~~i~~~~~----~~R~~ii~~aRq~GKStl~a~~al~~a~~~~-~~-~v~i~A~~~~QA~~vF~~ik~~i 128 (534)
T PHA02533 56 IKVQM-RDYQKDMLKIMH----KNRFNACNLSRQLGKTTVVAIFLLHYVCFNK-DK-NVGILAHKASMAAEVLDRTKQAI 128 (534)
T ss_pred eecCC-cHHHHHHHHHHh----cCeEEEEEEcCcCChHHHHHHHHHHHHHhCC-CC-EEEEEeCCHHHHHHHHHHHHHHH
Confidence 47774 899999988763 3566789999999999976655555555443 45 89999999999888888777653
No 269
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=85.97 E-value=1.7 Score=44.27 Aligned_cols=62 Identities=24% Similarity=0.191 Sum_probs=42.2
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcC--CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchh
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~ 78 (631)
|+-.| |-.+..|+-. +|-.. ..+.+-++-|||||+-.|++++.--...+.-+ ||||+-+|..
T Consensus 224 wGi~p-rn~eQ~~ALd---lLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~-KiiVtRp~vp 287 (436)
T COG1875 224 WGIRP-RNAEQRVALD---LLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYR-KIIVTRPTVP 287 (436)
T ss_pred hccCc-ccHHHHHHHH---HhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhc-eEEEecCCcC
Confidence 45554 6666666643 34333 45777899999999999999887655554345 7887766644
No 270
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=85.93 E-value=0.65 Score=52.09 Aligned_cols=44 Identities=25% Similarity=0.209 Sum_probs=32.0
Q ss_pred cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHH
Q 006790 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q 82 (631)
++=|+.-||||||++||--..+.-+.. |-.|.||.+||.+--+-
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLhk~Y--G~~KFIivVPs~AIkeG 119 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELHKKY--GLFKFIIVVPSLAIKEG 119 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHHHHh--CceeEEEEeccHHHHhh
Confidence 577899999999999997533333333 33489999999885544
No 271
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.87 E-value=0.76 Score=49.33 Aligned_cols=35 Identities=29% Similarity=0.271 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|......+..++.+++ + +++.+|.|||||-...+
T Consensus 22 GQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAri 59 (484)
T PRK14956 22 HQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARI 59 (484)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998886 3 69999999999875544
No 272
>PRK11054 helD DNA helicase IV; Provisional
Probab=85.76 E-value=2.3 Score=48.38 Aligned_cols=65 Identities=15% Similarity=0.283 Sum_probs=44.8
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC--CCCceEEEEecchhhHHHHHHHHHh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~--~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
..+.|++.+. ...++++|-|+.|||||.....- ++|..... ... +|++.|-|+...+-+-+-|..
T Consensus 197 L~~~Q~~av~------~~~~~~lV~agaGSGKT~vl~~r-~ayLl~~~~~~~~-~IL~ltft~~AA~em~eRL~~ 263 (684)
T PRK11054 197 LNPSQARAVV------NGEDSLLVLAGAGSGKTSVLVAR-AGWLLARGQAQPE-QILLLAFGRQAAEEMDERIRE 263 (684)
T ss_pred CCHHHHHHHh------CCCCCeEEEEeCCCCHHHHHHHH-HHHHHHhCCCCHH-HeEEEeccHHHHHHHHHHHHH
Confidence 4788877653 23457899999999999976654 34444321 234 899999998887766654443
No 273
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=85.69 E-value=3.2 Score=42.47 Aligned_cols=37 Identities=22% Similarity=0.187 Sum_probs=28.6
Q ss_pred CCCCh-------HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHH
Q 006790 15 DNIYP-------EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIA 51 (631)
Q Consensus 15 ~~~r~-------~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla 51 (631)
+++|| +|.+....+...+.++. + +++.+|+|+|||..
T Consensus 13 ~kyrP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~l 59 (316)
T PHA02544 13 QKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTV 59 (316)
T ss_pred eccCCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHH
Confidence 45677 78888888888887774 3 44599999999974
No 274
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=85.37 E-value=1.2 Score=47.30 Aligned_cols=39 Identities=33% Similarity=0.273 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHHHHh------------------cCCcEEEecCCCChhHHHHHHHHHHH
Q 006790 19 PEQYSYMLELKRALD------------------AKGHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~------------------~~~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
-+|.+....+..++. .+.++++.+|||||||. |.-+++.
T Consensus 74 iGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~--lAr~lA~ 130 (412)
T PRK05342 74 IGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTL--LAQTLAR 130 (412)
T ss_pred eChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHH--HHHHHHH
Confidence 356666666655542 13579999999999998 4444443
No 275
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=85.32 E-value=0.85 Score=46.32 Aligned_cols=53 Identities=17% Similarity=0.180 Sum_probs=39.8
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhC--------CCCCceEEEEecchhhHHHHHHHHHh
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSK--------PENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~--------~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+.++=-|-||+|||+.+.+|.+.++... .+++ =-+|.+|++.+.+|..+-+..
T Consensus 208 RDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP-~gLiicPSRELArQt~~iie~ 268 (610)
T KOG0341|consen 208 RDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGP-YGLIICPSRELARQTHDIIEQ 268 (610)
T ss_pred CceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCC-eeEEEcCcHHHHHHHHHHHHH
Confidence 3455568899999999999999988753 2455 446667999999998774444
No 276
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=85.23 E-value=1.5 Score=46.82 Aligned_cols=34 Identities=38% Similarity=0.445 Sum_probs=23.4
Q ss_pred HHHHHhcC-CcEEEecCCCChhHHHHHHHHHHHHhh
Q 006790 28 LKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLS 62 (631)
Q Consensus 28 v~~~l~~~-~~~~iEapTGtGKTla~L~~~l~~~~~ 62 (631)
+.+.+.+. +.+++-+|||+|||-. |.+++.+...
T Consensus 250 ~~~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~ 284 (500)
T COG2804 250 LLRLLNRPQGLILVTGPTGSGKTTT-LYAALSELNT 284 (500)
T ss_pred HHHHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcC
Confidence 33444443 6789999999999975 4456776543
No 277
>PHA00729 NTP-binding motif containing protein
Probab=85.19 E-value=1.4 Score=42.33 Aligned_cols=27 Identities=22% Similarity=0.343 Sum_probs=22.0
Q ss_pred HHHHHHHHHhcCC--cEEEecCCCChhHH
Q 006790 24 YMLELKRALDAKG--HCLLEMPTGTGKTI 50 (631)
Q Consensus 24 ~~~~v~~~l~~~~--~~~iEapTGtGKTl 50 (631)
++..+.+.+.+++ +++|-+++|||||-
T Consensus 4 ~~k~~~~~l~~~~f~nIlItG~pGvGKT~ 32 (226)
T PHA00729 4 LAKKIVSAYNNNGFVSAVIFGKQGSGKTT 32 (226)
T ss_pred HHHHHHHHHhcCCeEEEEEECCCCCCHHH
Confidence 5667777777664 79999999999996
No 278
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.18 E-value=1.2 Score=46.72 Aligned_cols=34 Identities=26% Similarity=0.274 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L 53 (631)
+|......+..++..++ | +++.+|+|+|||....
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~ 56 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIAR 56 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHH
Confidence 89999999999998874 4 4899999999997444
No 279
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=85.17 E-value=3.4 Score=42.59 Aligned_cols=58 Identities=16% Similarity=0.179 Sum_probs=38.2
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~ 78 (631)
-+.-.++.+.+.++...+.+++|.+.+||||+. +.-++........++ =|.+-+.+..
T Consensus 12 S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~--lA~~iH~~s~r~~~p-fv~v~c~~~~ 69 (326)
T PRK11608 12 ANSFLEVLEQVSRLAPLDKPVLIIGERGTGKEL--IASRLHYLSSRWQGP-FISLNCAALN 69 (326)
T ss_pred CHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHH--HHHHHHHhCCccCCC-eEEEeCCCCC
Confidence 356667777787887778899999999999988 444444333222233 4555555543
No 280
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=85.07 E-value=2.8 Score=44.02 Aligned_cols=52 Identities=19% Similarity=0.202 Sum_probs=34.9
Q ss_pred HHHHHHHHHHhc-----CCcEEEecCCCChhHHHHHHHHHHH-HhhCCCCCceEEEEecch
Q 006790 23 SYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSY-VLSKPENPVKLIYCTRTV 77 (631)
Q Consensus 23 ~~~~~v~~~l~~-----~~~~~iEapTGtGKTla~L~~~l~~-~~~~~~~~~~vi~~t~T~ 77 (631)
+++.++..++.+ .+.+++-+|+|.|||- |+-|+.. +.....+. +|+|.|.-.
T Consensus 96 ~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTH--Ll~Aign~~~~~~~~a-~v~y~~se~ 153 (408)
T COG0593 96 RLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTH--LLQAIGNEALANGPNA-RVVYLTSED 153 (408)
T ss_pred HHHHHHHHHHHhccCCcCCcEEEECCCCCCHHH--HHHHHHHHHHhhCCCc-eEEeccHHH
Confidence 455666666666 4689999999999998 5544433 33333234 788887653
No 281
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=84.96 E-value=1.7 Score=50.09 Aligned_cols=34 Identities=21% Similarity=0.154 Sum_probs=27.0
Q ss_pred HHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHH
Q 006790 24 YMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 24 ~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
....+.+++.+...++|.||||+|||- -+|-..+
T Consensus 54 ~~~~i~~ai~~~~vvii~getGsGKTT--qlP~~ll 87 (845)
T COG1643 54 VRDEILKAIEQNQVVIIVGETGSGKTT--QLPQFLL 87 (845)
T ss_pred HHHHHHHHHHhCCEEEEeCCCCCChHH--HHHHHHH
Confidence 345788889999999999999999998 4553333
No 282
>PRK10646 ADP-binding protein; Provisional
Probab=84.90 E-value=1.2 Score=40.15 Aligned_cols=53 Identities=21% Similarity=0.039 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHH
Q 006790 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEME 81 (631)
Q Consensus 22 ~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~ 81 (631)
.++++.+.+.+..+..+++++.-|+|||- ++-+++-+. +- +-.|.+||-++.+
T Consensus 15 ~~l~~~la~~l~~g~vi~L~GdLGaGKTt--f~rgl~~~L----g~-~~~V~SPTFtlv~ 67 (153)
T PRK10646 15 LDLGARVAKACDGATVIYLYGDLGAGKTT--FSRGFLQAL----GH-QGNVKSPTYTLVE 67 (153)
T ss_pred HHHHHHHHHhCCCCcEEEEECCCCCCHHH--HHHHHHHHc----CC-CCCCCCCCEeeEE
Confidence 46677888888888899999999999998 776665544 22 3347889877543
No 283
>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=84.89 E-value=3.5 Score=43.21 Aligned_cols=36 Identities=28% Similarity=0.268 Sum_probs=23.8
Q ss_pred ChHHHHHHHHHHHH-HhcC--CcEEEecCCCChhHHHHH
Q 006790 18 YPEQYSYMLELKRA-LDAK--GHCLLEMPTGTGKTIALL 53 (631)
Q Consensus 18 r~~Q~~~~~~v~~~-l~~~--~~~~iEapTGtGKTla~L 53 (631)
|..|.+-+....+. +..+ .+++|-+|+|||||...-
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~ 58 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTK 58 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHH
Confidence 66666554444443 3322 579999999999997543
No 284
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=84.87 E-value=6.3 Score=38.29 Aligned_cols=55 Identities=22% Similarity=0.296 Sum_probs=37.6
Q ss_pred ChHHHHHHHHHHHHHhcC---CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 18 YPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~---~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
++.|++.+.+-.++|-+| .|+++-++-|||||-..-...-.|+. .+ .|+|-..+.
T Consensus 32 ie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~---~G-LRlIev~k~ 89 (249)
T PF05673_consen 32 IERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYAD---QG-LRLIEVSKE 89 (249)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhh---cC-ceEEEECHH
Confidence 567888777777777776 58999999999998844432223322 23 487776654
No 285
>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=84.86 E-value=1.2 Score=44.56 Aligned_cols=34 Identities=32% Similarity=0.330 Sum_probs=25.5
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHH
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla 51 (631)
...-.++..-+...+..+.++++-+|||||||..
T Consensus 16 T~dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~l 49 (272)
T PF12775_consen 16 TVDTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSL 49 (272)
T ss_dssp -HHHHHHHHHHHHHHHCTEEEEEESSTTSSHHHH
T ss_pred cHHHHHHHHHHHHHHHcCCcEEEECCCCCchhHH
Confidence 4444555555556677788999999999999993
No 286
>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=84.85 E-value=1.6 Score=43.72 Aligned_cols=28 Identities=36% Similarity=0.529 Sum_probs=20.8
Q ss_pred HHHHHHHHHhcCCcEEEecCCCChhHHH
Q 006790 24 YMLELKRALDAKGHCLLEMPTGTGKTIA 51 (631)
Q Consensus 24 ~~~~v~~~l~~~~~~~iEapTGtGKTla 51 (631)
+.+.+..+++.++++++-+|||+|||-.
T Consensus 116 ~~~~l~~~v~~~~~ili~G~tGSGKTT~ 143 (270)
T PF00437_consen 116 IAEFLRSAVRGRGNILISGPTGSGKTTL 143 (270)
T ss_dssp HHHHHHHCHHTTEEEEEEESTTSSHHHH
T ss_pred HHHHHhhccccceEEEEECCCccccchH
Confidence 3334444556678999999999999873
No 287
>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=84.71 E-value=1.4 Score=48.06 Aligned_cols=70 Identities=21% Similarity=0.105 Sum_probs=43.1
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhhhcccCCCCccceeEEEeCCCCc-
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN- 114 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~- 114 (631)
.|+++-||||+|||.++++|.+.- . .. .+||.-+.-.+......-+++ .+.++.+.-..+...
T Consensus 45 ~h~lvig~tgSGKt~~~viP~ll~---~--~~-s~iV~D~KgEl~~~t~~~r~~----------~G~~V~vldp~~~~~s 108 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNLLN---Y--PG-SMIVTDPKGELYEKTAGYRKK----------RGYKVYVLDPFDPEGS 108 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHHHh---c--cC-CEEEEECCCcHHHHHHHHHHH----------CCCEEEEeeccccccc
Confidence 479999999999999999997642 2 23 566666665554443333332 133555554555544
Q ss_pred cccChhh
Q 006790 115 LCVNSRV 121 (631)
Q Consensus 115 lC~~~~~ 121 (631)
.|.|++.
T Consensus 109 ~~~NPL~ 115 (469)
T PF02534_consen 109 HRWNPLD 115 (469)
T ss_pred cccCCcc
Confidence 4666543
No 288
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=84.59 E-value=1.8 Score=48.55 Aligned_cols=66 Identities=17% Similarity=0.192 Sum_probs=44.2
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHH
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
-.+|.+.+..+..++.++.++++.+|+|+|||...-. ++-......-. .+++...+......+++.
T Consensus 33 vigq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla~~--l~~~l~~~~~~-~~~~~~np~~~~~~~~~~ 98 (637)
T PRK13765 33 VIGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLAKA--MAELLPKEELQ-DILVYPNPEDPNNPKIRT 98 (637)
T ss_pred cCChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHH--HHHHcChHhHH-HheEeeCCCcchHHHHHH
Confidence 3589999999999999999999999999999974332 22211110013 566666665555555553
No 289
>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=84.55 E-value=4.4 Score=40.27 Aligned_cols=36 Identities=22% Similarity=0.221 Sum_probs=27.8
Q ss_pred ChHHHHHHHHHHHHHhcCC-cEEEecCCCChhHHHHH
Q 006790 18 YPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALL 53 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~-~~~iEapTGtGKTla~L 53 (631)
.+.+.+....+...+..+. .+++-+|+|+|||...-
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~ 61 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIR 61 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 4667777777777777654 68999999999997433
No 290
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.45 E-value=0.99 Score=50.20 Aligned_cols=35 Identities=29% Similarity=0.249 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|..+.+.+..++.+++ + +++.+|.|+|||....+
T Consensus 19 GQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAri 56 (702)
T PRK14960 19 GQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARI 56 (702)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998875 3 49999999999875554
No 291
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=84.26 E-value=2.8 Score=49.84 Aligned_cols=62 Identities=11% Similarity=0.012 Sum_probs=45.7
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
..++|++.+..|. ..++..+|.++.|||||...=.. ...+... +. +|+-+.+|......+-+
T Consensus 382 Ls~eQ~~Av~~i~---~~~r~~~v~G~AGTGKTt~l~~~-~~~~e~~--G~-~V~g~ApTgkAA~~L~e 443 (1102)
T PRK13826 382 LSDEQKTAIEHVA---GPARIAAVVGRAGAGKTTMMKAA-REAWEAA--GY-RVVGGALAGKAAEGLEK 443 (1102)
T ss_pred CCHHHHHHHHHHh---ccCCeEEEEeCCCCCHHHHHHHH-HHHHHHc--CC-eEEEEcCcHHHHHHHHH
Confidence 4799999888763 44678999999999999854433 3323332 55 89999999888777644
No 292
>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=84.23 E-value=1.4 Score=44.13 Aligned_cols=43 Identities=19% Similarity=0.176 Sum_probs=28.6
Q ss_pred HHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 30 ~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
..+..+...+|-||||+|||.-.+.-+..++... +. +|+|.|-
T Consensus 25 gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~--g~-~vl~iS~ 67 (271)
T cd01122 25 KGLRKGELIILTAGTGVGKTTFLREYALDLITQH--GV-RVGTISL 67 (271)
T ss_pred EEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhc--Cc-eEEEEEc
Confidence 4566678899999999999985554444444432 45 6766653
No 293
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=84.17 E-value=2.8 Score=46.61 Aligned_cols=52 Identities=25% Similarity=0.413 Sum_probs=37.8
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhC---CCCCceEEEEecchhhHHHHHHHH
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSK---PENPVKLIYCTRTVHEMEKTLAEL 87 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~---~~~~~~vi~~t~T~~l~~Q~~~el 87 (631)
.+..++.+|+|||||+.-|-+.=...... .... +|.+.+-|..-.+|++.-+
T Consensus 393 yelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~e-pIlvvC~Tnhavdq~ligi 447 (1025)
T KOG1807|consen 393 YELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPE-PILVVCLTNHAVDQYLIGI 447 (1025)
T ss_pred hhhheeecCCCCCceeehHHHHHHHHhccccccccc-ceeeeehhhHHHHHHHHHH
Confidence 46789999999999998877633322211 1124 8999999999999987633
No 294
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=84.09 E-value=3.2 Score=44.70 Aligned_cols=37 Identities=27% Similarity=0.348 Sum_probs=26.0
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
+.+++-+|+|+|||- |+-|++...... +. +|+|.+..
T Consensus 142 npl~L~G~~G~GKTH--Ll~Ai~~~l~~~-~~-~v~yi~~~ 178 (445)
T PRK12422 142 NPIYLFGPEGSGKTH--LMQAAVHALRES-GG-KILYVRSE 178 (445)
T ss_pred ceEEEEcCCCCCHHH--HHHHHHHHHHHc-CC-CEEEeeHH
Confidence 468999999999998 555555443322 45 88888753
No 295
>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=84.01 E-value=1.6 Score=41.87 Aligned_cols=37 Identities=30% Similarity=0.298 Sum_probs=23.5
Q ss_pred ChHHHHHHHHHHHHH---hc-C---CcEEEecCCCChhHH-HHHH
Q 006790 18 YPEQYSYMLELKRAL---DA-K---GHCLLEMPTGTGKTI-ALLS 54 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l---~~-~---~~~~iEapTGtGKTl-a~L~ 54 (631)
+-+|.++.....-.+ .. + .++++-+|+|+|||- |.++
T Consensus 26 fiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~II 70 (233)
T PF05496_consen 26 FIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARII 70 (233)
T ss_dssp S-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHH
T ss_pred ccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHH
Confidence 568888887644333 22 2 379999999999965 4443
No 296
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=83.88 E-value=2.5 Score=40.84 Aligned_cols=51 Identities=22% Similarity=0.158 Sum_probs=31.6
Q ss_pred cCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 34 ~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.+...++.+++|+|||.-.+--+...+. . ++ +++|.|-.. -.+|+++.+..
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~-~--g~-~~~y~s~e~-~~~~l~~~~~~ 65 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLK-N--GE-KAMYISLEE-REERILGYAKS 65 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHh-C--CC-eEEEEECCC-CHHHHHHHHHH
Confidence 3567899999999998743332222222 2 56 787775544 35666665543
No 297
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=83.79 E-value=1.7 Score=38.38 Aligned_cols=31 Identities=23% Similarity=0.317 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHhcCCcEEEecCCCChhHH
Q 006790 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTl 50 (631)
.=+++.+.+.++-..+.+++|.+++||||+.
T Consensus 6 ~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~ 36 (138)
T PF14532_consen 6 AMRRLRRQLERLAKSSSPVLITGEPGTGKSL 36 (138)
T ss_dssp HHHHHHHHHHHHHCSSS-EEEECCTTSSHHH
T ss_pred HHHHHHHHHHHHhCCCCcEEEEcCCCCCHHH
Confidence 3345556666666667899999999999998
No 298
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=83.76 E-value=1.1 Score=45.87 Aligned_cols=34 Identities=41% Similarity=0.484 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHhcCC--cEEEecCCCChhHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALL 53 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~~iEapTGtGKTla~L 53 (631)
+|.+.++.+...+.++. ++++.+|+|+|||...-
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~ 56 (319)
T PRK00440 21 GQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAAL 56 (319)
T ss_pred CcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHH
Confidence 67788888888888764 69999999999997554
No 299
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=83.67 E-value=1.9 Score=41.09 Aligned_cols=43 Identities=28% Similarity=0.377 Sum_probs=25.1
Q ss_pred cCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 34 ~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
+..|++|-++||+|||...-.-+...+........+++++-..
T Consensus 37 ~~~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k 79 (205)
T PF01580_consen 37 KNPHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPK 79 (205)
T ss_dssp GS-SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TT
T ss_pred CCceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCC
Confidence 3458999999999999976665555554321123477777655
No 300
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=83.66 E-value=0.82 Score=47.21 Aligned_cols=40 Identities=25% Similarity=0.306 Sum_probs=33.8
Q ss_pred eeCCCCCCChHHHHHHHHHHHHHhcC--CcEEEecCCCChhHH
Q 006790 10 VYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTI 50 (631)
Q Consensus 10 ~~Fpy~~~r~~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTl 50 (631)
..|||.- =-+|.++..++..++-+. +.+++.+|+|||||.
T Consensus 12 ~~~pf~~-ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~ 53 (350)
T CHL00081 12 PVFPFTA-IVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKST 53 (350)
T ss_pred CCCCHHH-HhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHH
Confidence 4699986 589999999998887664 368899999999997
No 301
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=83.19 E-value=6.9 Score=41.91 Aligned_cols=103 Identities=17% Similarity=0.309 Sum_probs=67.4
Q ss_pred HHHHHHHHHHhhcccCC-cEEEEecchHHHHHHHHHHhhcch--------------HHHHhcCCeEEEeCCCc--hhhHH
Q 006790 517 ARNYGKLLVEMVSIVPD-GIVCFFVSYSYMDEIIATWNDSGI--------------LKEIMQHKLVFIETQDV--VETTL 579 (631)
Q Consensus 517 ~~~l~~~i~~~~~~~~g-g~LVfF~Sy~~l~~v~~~~~~~~~--------------~~~l~~~~~v~~e~~~~--~~~~~ 579 (631)
+-.++..|.+.++.-+. .++|||++-++.+-=|+.+...-. ...+...-.+|.-..++ .++..
T Consensus 409 LV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts 488 (708)
T KOG0348|consen 409 LVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTS 488 (708)
T ss_pred HHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHHHH
Confidence 35678888887777664 799999998888877776653210 00000011233333332 24556
Q ss_pred HHHHHHHhhcCCCCeEEEEEecCcccccccCCCCCceEEEEEcccCCC
Q 006790 580 ALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRHYGRLVIMFGVPFQY 627 (631)
Q Consensus 580 ~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~~lr~VII~gLPfp~ 627 (631)
.+..|+.. +.+||||+ .-.+.|+|||. .++||=.--||.+
T Consensus 489 ~f~~Fs~~----~~~VLLcT--DVAaRGLDlP~--V~~vVQYd~P~s~ 528 (708)
T KOG0348|consen 489 VFQEFSHS----RRAVLLCT--DVAARGLDLPH--VGLVVQYDPPFST 528 (708)
T ss_pred HHHhhccc----cceEEEeh--hhhhccCCCCC--cCeEEEeCCCCCH
Confidence 77777764 77899999 78999999996 5777776666653
No 302
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=83.08 E-value=5 Score=42.51 Aligned_cols=37 Identities=32% Similarity=0.370 Sum_probs=24.5
Q ss_pred ChHHHHH-HHHHHHHHhcC--CcEEEecCCCChhHHHHHH
Q 006790 18 YPEQYSY-MLELKRALDAK--GHCLLEMPTGTGKTIALLS 54 (631)
Q Consensus 18 r~~Q~~~-~~~v~~~l~~~--~~~~iEapTGtGKTla~L~ 54 (631)
|..|.+- ...+..++..+ .+++|-+|+|||||...-.
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~ 74 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKK 74 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHH
Confidence 5555444 44444555432 5799999999999996554
No 303
>PRK04328 hypothetical protein; Provisional
Probab=83.00 E-value=2.5 Score=41.63 Aligned_cols=51 Identities=16% Similarity=0.153 Sum_probs=28.9
Q ss_pred cCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 34 ~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.+...+|.+|+|+|||.-.+--+...+. . +. +++|.| |-.--+++++.+..
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~-~--ge-~~lyis-~ee~~~~i~~~~~~ 72 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ-M--GE-PGVYVA-LEEHPVQVRRNMRQ 72 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHh-c--CC-cEEEEE-eeCCHHHHHHHHHH
Confidence 4567899999999998733332222222 2 45 666555 22233456655444
No 304
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=82.98 E-value=2.1 Score=46.77 Aligned_cols=50 Identities=18% Similarity=0.171 Sum_probs=32.8
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+...+|.+|+|+|||.-.+--+...++ .+. +++|.+ +-.-.+|++.....
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~---~ge-~~~y~s-~eEs~~~i~~~~~~ 312 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACA---NKE-RAILFA-YEESRAQLLRNAYS 312 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHH---CCC-eEEEEE-eeCCHHHHHHHHHH
Confidence 457999999999999844443333222 256 888876 44555677765544
No 305
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=82.96 E-value=1.6 Score=43.36 Aligned_cols=54 Identities=24% Similarity=0.332 Sum_probs=33.3
Q ss_pred HHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 31 ~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.+..+...+|.+++|||||.-.+--+...+.. +. +++|.|-. ...+.+.+..+.
T Consensus 19 G~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~---ge-~vlyvs~~-e~~~~l~~~~~~ 72 (260)
T COG0467 19 GLPRGSVVLITGPPGTGKTIFALQFLYEGARE---GE-PVLYVSTE-ESPEELLENARS 72 (260)
T ss_pred CCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhc---CC-cEEEEEec-CCHHHHHHHHHH
Confidence 35567889999999999999555544444432 45 66666433 333455554443
No 306
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=82.93 E-value=2.6 Score=48.18 Aligned_cols=68 Identities=19% Similarity=0.222 Sum_probs=49.9
Q ss_pred CCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHH
Q 006790 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 14 y~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
|.| =..|+++... .+.++.++|-|||-.|||++-..+ +.--.+..+.+ -|||+.||+++..|+-.++.
T Consensus 510 F~P-d~WQ~elLDs----vDr~eSavIVAPTSaGKTfisfY~-iEKVLResD~~-VVIyvaPtKaLVnQvsa~Vy 577 (1330)
T KOG0949|consen 510 FCP-DEWQRELLDS----VDRNESAVIVAPTSAGKTFISFYA-IEKVLRESDSD-VVIYVAPTKALVNQVSANVY 577 (1330)
T ss_pred cCC-cHHHHHHhhh----hhcccceEEEeeccCCceeccHHH-HHHHHhhcCCC-EEEEecchHHHhhhhhHHHH
Confidence 665 5788887754 577888999999999999954443 22222333456 89999999999999977544
No 307
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=82.90 E-value=2.8 Score=49.24 Aligned_cols=51 Identities=16% Similarity=0.285 Sum_probs=38.4
Q ss_pred cCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 34 ~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.+.++++-||+|||||.+.=.+.+. ++...+++|.++.+.-..-..++..+
T Consensus 1158 ~nd~v~vga~~gsgkt~~ae~a~l~-----~~~~~~~vyi~p~~~i~~~~~~~w~~ 1208 (1674)
T KOG0951|consen 1158 TNDNVLVGAPNGSGKTACAELALLR-----PDTIGRAVYIAPLEEIADEQYRDWEK 1208 (1674)
T ss_pred ccceEEEecCCCCchhHHHHHHhcC-----CccceEEEEecchHHHHHHHHHHHHH
Confidence 3568999999999999976655332 33334999999998888777776554
No 308
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=82.88 E-value=3.3 Score=38.79 Aligned_cols=53 Identities=21% Similarity=0.344 Sum_probs=31.9
Q ss_pred cCCcEEEecCCCChhHHHHHHHHHHHHhhC-------CCCCceEEEEecchhhHHHHHHHHH
Q 006790 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK-------PENPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 34 ~~~~~~iEapTGtGKTla~L~~~l~~~~~~-------~~~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
.|...++-||+|+|||...+--+.+++... ..+. +|+|.+.-.. -.++.+-+.
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~-~Vl~i~~E~~-~~~~~~rl~ 90 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPG-RVLYISLEDS-ESQIARRLR 90 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT----------EEEEESSS--HHHHHHHHH
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCc-eEEEEeccCC-HHHHHHHHH
Confidence 466799999999999998777666666421 1234 7877765544 334444333
No 309
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=82.52 E-value=0.8 Score=39.83 Aligned_cols=19 Identities=26% Similarity=0.497 Sum_probs=12.5
Q ss_pred cCCcEEEecCCCChhHHHH
Q 006790 34 AKGHCLLEMPTGTGKTIAL 52 (631)
Q Consensus 34 ~~~~~~iEapTGtGKTla~ 52 (631)
+++.++|.||+|+|||...
T Consensus 3 ~~~~~~i~G~~G~GKT~~~ 21 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLI 21 (131)
T ss_dssp ----EEEEE-TTSSHHHHH
T ss_pred CCcccEEEcCCCCCHHHHH
Confidence 4678999999999999843
No 310
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=82.25 E-value=2.1 Score=42.86 Aligned_cols=52 Identities=25% Similarity=0.123 Sum_probs=36.1
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhC---CCCCceEEEEecchhhHHHHHHHHHh
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSK---PENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~---~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+.+++.+|+|||||- ||-||+--..- .....-+++=-+.|++-..++.|--+
T Consensus 178 RliLlhGPPGTGKTS--LCKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFsESgK 232 (423)
T KOG0744|consen 178 RLILLHGPPGTGKTS--LCKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFSESGK 232 (423)
T ss_pred eEEEEeCCCCCChhH--HHHHHHHhheeeecCccccceEEEEehhHHHHHHHhhhhh
Confidence 458999999999998 88877632211 01111578888889998888776444
No 311
>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=82.21 E-value=6.2 Score=42.01 Aligned_cols=95 Identities=17% Similarity=0.179 Sum_probs=65.2
Q ss_pred HHHHHHHHhh--cccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEE
Q 006790 519 NYGKLLVEMV--SIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVF 596 (631)
Q Consensus 519 ~l~~~i~~~~--~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aIL 596 (631)
...+.|+.-+ ....+|+|||.|||-..=++.+.+++.++ . -....|-...+ -+.+-+..+..|+..||
T Consensus 285 yF~~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~-----s-F~~i~EYts~~----~isRAR~~F~~G~~~iL 354 (442)
T PF06862_consen 285 YFTKKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKKENI-----S-FVQISEYTSNS----DISRARSQFFHGRKPIL 354 (442)
T ss_pred HHHHHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHhcCC-----e-EEEecccCCHH----HHHHHHHHHHcCCceEE
Confidence 3444444433 45568999999999999999998875421 0 11122333222 23444555556899999
Q ss_pred EEEecCcccccccCCCCCceEEEEEcccC
Q 006790 597 FSVARGKVAEGIDFDRHYGRLVIMFGVPF 625 (631)
Q Consensus 597 fgv~~Gsf~EGIDf~g~~lr~VII~gLPf 625 (631)
+=+-|--|..=..+.| .+.||..|+|=
T Consensus 355 L~TER~HFfrRy~irG--i~~viFY~~P~ 381 (442)
T PF06862_consen 355 LYTERFHFFRRYRIRG--IRHVIFYGPPE 381 (442)
T ss_pred EEEhHHhhhhhceecC--CcEEEEECCCC
Confidence 9998888888888888 89999999984
No 312
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=82.09 E-value=3.8 Score=47.00 Aligned_cols=46 Identities=22% Similarity=0.263 Sum_probs=34.1
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK 63 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~ 63 (631)
.++.|..-.+=+..-..++=+.++-=-+|-|||...+.- +.|....
T Consensus 395 Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIsL-itYLmE~ 440 (1157)
T KOG0386|consen 395 LKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTISL-ITYLMEH 440 (1157)
T ss_pred CchhhhhhhHHHhhccCCCcccccchhcccchHHHHHHH-HHHHHHH
Confidence 478888888777766666667888888999999976653 5555544
No 313
>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=82.07 E-value=2.9 Score=37.58 Aligned_cols=38 Identities=29% Similarity=0.351 Sum_probs=23.4
Q ss_pred cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchh
Q 006790 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~ 78 (631)
+.+|-+|+|+|||.-...-+...+. .+. +|+|.+....
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~---~~~-~v~~~~~e~~ 38 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIAT---KGG-KVVYVDIEEE 38 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHh---cCC-EEEEEECCcc
Confidence 3678999999999844433222222 245 6777665544
No 314
>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=82.06 E-value=3.3 Score=42.80 Aligned_cols=32 Identities=25% Similarity=0.221 Sum_probs=21.4
Q ss_pred hHHHHHHHHHHHHHh----cCCcEEEecCCCChhHH
Q 006790 19 PEQYSYMLELKRALD----AKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~----~~~~~~iEapTGtGKTl 50 (631)
+...+++..+..+.. .++.+++.+|+|+|||.
T Consensus 58 ~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKSt 93 (361)
T smart00763 58 EAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSS 93 (361)
T ss_pred HHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHH
Confidence 344455554444443 23678999999999987
No 315
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=81.89 E-value=2.7 Score=41.86 Aligned_cols=50 Identities=22% Similarity=0.362 Sum_probs=30.8
Q ss_pred CCCCCChHHHHHHHHHHHHHhc-CCcEEEecCCCChhHHHHHHHHHHHHhhC
Q 006790 13 PYDNIYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSK 63 (631)
Q Consensus 13 py~~~r~~Q~~~~~~v~~~l~~-~~~~~iEapTGtGKTla~L~~~l~~~~~~ 63 (631)
|...+.-.|..+=..+.+.+.. .+.++|-+|||+|||-. |.+-+.|...+
T Consensus 102 p~~i~~~e~LglP~i~~~~~~~~~GLILVTGpTGSGKSTT-lAamId~iN~~ 152 (353)
T COG2805 102 PSKIPTLEELGLPPIVRELAESPRGLILVTGPTGSGKSTT-LAAMIDYINKH 152 (353)
T ss_pred CccCCCHHHcCCCHHHHHHHhCCCceEEEeCCCCCcHHHH-HHHHHHHHhcc
Confidence 4444455565555555554433 35789999999999653 33446676554
No 316
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=81.83 E-value=3.1 Score=44.40 Aligned_cols=51 Identities=18% Similarity=0.182 Sum_probs=29.9
Q ss_pred HHHHHHHHHHhcC-----CcEEEecCCCChhHHHHHHHHHHHHh-hCCCCCceEEEEecc
Q 006790 23 SYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSYVL-SKPENPVKLIYCTRT 76 (631)
Q Consensus 23 ~~~~~v~~~l~~~-----~~~~iEapTGtGKTla~L~~~l~~~~-~~~~~~~~vi~~t~T 76 (631)
+++..+...+.++ ..+++-+|+|+|||. |+-+++... ....+. +|+|.+..
T Consensus 119 ~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTh--L~~ai~~~l~~~~~~~-~v~yi~~~ 175 (405)
T TIGR00362 119 RLAHAAALAVAENPGKAYNPLFIYGGVGLGKTH--LLHAIGNEILENNPNA-KVVYVSSE 175 (405)
T ss_pred HHHHHHHHHHHhCcCccCCeEEEECCCCCcHHH--HHHHHHHHHHHhCCCC-cEEEEEHH
Confidence 4455555555432 368999999999998 443343322 211134 78887653
No 317
>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=81.52 E-value=3.7 Score=42.31 Aligned_cols=52 Identities=15% Similarity=0.208 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 22 ~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
+++.+.+.++...+.+++|.+++||||++ +.-++........++ =|.|-+.+
T Consensus 9 ~~~~~~~~~~a~~~~pVLI~GE~GtGK~~--lAr~iH~~s~r~~~p-fv~vnc~~ 60 (329)
T TIGR02974 9 LEVLEQVSRLAPLDRPVLIIGERGTGKEL--IAARLHYLSKRWQGP-LVKLNCAA 60 (329)
T ss_pred HHHHHHHHHHhCCCCCEEEECCCCChHHH--HHHHHHHhcCccCCC-eEEEeCCC
Confidence 34555566666667899999999999998 444444333222233 34444444
No 318
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=81.44 E-value=1.9 Score=42.89 Aligned_cols=38 Identities=13% Similarity=0.184 Sum_probs=24.8
Q ss_pred hcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 33 ~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
-.+...+|.+|+|+|||.-.+--+...++ . +. +++|.|
T Consensus 34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a~-~--Ge-~vlyis 71 (259)
T TIGR03878 34 PAYSVINITGVSDTGKSLMVEQFAVTQAS-R--GN-PVLFVT 71 (259)
T ss_pred ECCcEEEEEcCCCCCHHHHHHHHHHHHHh-C--CC-cEEEEE
Confidence 34567899999999999955543333333 2 45 666554
No 319
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=81.36 E-value=2 Score=46.90 Aligned_cols=35 Identities=23% Similarity=0.103 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHhcCC---cEEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~iEapTGtGKTla~L~ 54 (631)
+|..+...+..++.+++ .+++.+|.|+|||....+
T Consensus 25 Gq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~Ari 62 (507)
T PRK06645 25 GQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARI 62 (507)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 89999999988888875 589999999999875554
No 320
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=81.34 E-value=8.6 Score=41.00 Aligned_cols=87 Identities=24% Similarity=0.377 Sum_probs=58.4
Q ss_pred CHHHHHHHHHHHHHhhcccCC-cEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCC-------ch--hhHHHHH
Q 006790 513 DPGVARNYGKLLVEMVSIVPD-GIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD-------VV--ETTLALD 582 (631)
Q Consensus 513 ~~~~~~~l~~~i~~~~~~~~g-g~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~-------~~--~~~~~l~ 582 (631)
.|.+ +.+-+.+.+..+..++ +++||-......+.+.+.+...+.. -+..|+ +|. ++ +-.+.++
T Consensus 347 HPKl-~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~-----~~~rFi-GQa~r~~~~GMsQkeQ~eiI~ 419 (542)
T COG1111 347 HPKL-EKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIK-----ARVRFI-GQASREGDKGMSQKEQKEIID 419 (542)
T ss_pred CccH-HHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCc-----ceeEEe-eccccccccccCHHHHHHHHH
Confidence 3443 5566677777766665 7787777778889999998876431 112566 322 11 1234677
Q ss_pred HHHHhhcCCCCeEEEEEecCcccccccCCC
Q 006790 583 NYRKACDCGRGAVFFSVARGKVAEGIDFDR 612 (631)
Q Consensus 583 ~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g 612 (631)
+|++ |...||.++ .---||+|+|.
T Consensus 420 ~Fr~----Ge~nVLVaT--SVgEEGLDIp~ 443 (542)
T COG1111 420 QFRK----GEYNVLVAT--SVGEEGLDIPE 443 (542)
T ss_pred HHhc----CCceEEEEc--ccccccCCCCc
Confidence 7777 788999999 45678999997
No 321
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=81.22 E-value=4.8 Score=43.62 Aligned_cols=52 Identities=21% Similarity=0.182 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhcC-----CcEEEecCCCChhHHHHHHHHHHHHhh-CCCCCceEEEEecc
Q 006790 22 YSYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSYVLS-KPENPVKLIYCTRT 76 (631)
Q Consensus 22 ~~~~~~v~~~l~~~-----~~~~iEapTGtGKTla~L~~~l~~~~~-~~~~~~~vi~~t~T 76 (631)
.+++...+..+.++ +.+++-+|+|+|||. |+-+++.... ...+. +|+|.+..
T Consensus 130 n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKTh--L~~ai~~~~~~~~~~~-~v~yi~~~ 187 (450)
T PRK00149 130 NRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTH--LLHAIGNYILEKNPNA-KVVYVTSE 187 (450)
T ss_pred cHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHH--HHHHHHHHHHHhCCCC-eEEEEEHH
Confidence 34455555555432 468999999999998 4433433222 11134 78887664
No 322
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=81.19 E-value=0.35 Score=52.80 Aligned_cols=46 Identities=30% Similarity=0.409 Sum_probs=29.2
Q ss_pred hhccCceEEEEcCccccC-H--hhHhHh-hhcc--CCCcEEEEeCCcchHHH
Q 006790 197 HMVQFANVVVYSYQYLLD-P--KVAGII-SKEM--QKESVVVFDEAHNIDNV 242 (631)
Q Consensus 197 ~~~~~adivv~n~~~l~~-~--~~~~~~-~~~l--~~~~~~IiDEAHnl~~~ 242 (631)
+.++.-||||++|+++.. + ...... ...| -..+-||+|||||+-+.
T Consensus 427 ~~L~~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W~RVILDEAH~IrN~ 478 (901)
T KOG4439|consen 427 KELRKYDVVITTYNLVANKPDDELEEGKNSSPLARIAWSRVILDEAHNIRNS 478 (901)
T ss_pred HHHhhcceEEEeeeccccCCchhhhcccCccHHHHhhHHHhhhhhhhhhccc
Confidence 456678999999999885 1 111100 0011 14567999999999653
No 323
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=81.15 E-value=6.4 Score=45.47 Aligned_cols=84 Identities=13% Similarity=0.207 Sum_probs=54.2
Q ss_pred CEEEEecCCCCCccchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHH--HHHHHHHHHHHhhc
Q 006790 452 QSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPG--VARNYGKLLVEMVS 529 (631)
Q Consensus 452 ~svIltSaTL~p~~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~--~~~~l~~~i~~~~~ 529 (631)
=.+|.|||||.+. -|+..+|--+... + .| ...++.-.|......+ ....+...+.....
T Consensus 196 LKiIimSATld~~-rfs~~f~~apvi~----------------i-~G-R~fPVei~Y~~~~~~d~~l~~ai~~~v~~~~~ 256 (845)
T COG1643 196 LKLIIMSATLDAE-RFSAYFGNAPVIE----------------I-EG-RTYPVEIRYLPEAEADYILLDAIVAAVDIHLR 256 (845)
T ss_pred ceEEEEecccCHH-HHHHHcCCCCEEE----------------e-cC-CccceEEEecCCCCcchhHHHHHHHHHHHhcc
Confidence 5899999999874 4555555222110 0 00 1123333442222122 45667777777777
Q ss_pred ccCCcEEEEecchHHHHHHHHHHhh
Q 006790 530 IVPDGIVCFFVSYSYMDEIIATWND 554 (631)
Q Consensus 530 ~~~gg~LVfF~Sy~~l~~v~~~~~~ 554 (631)
.-+|.+|||+|--+..+++.+.+.+
T Consensus 257 ~~~GdILvFLpG~~EI~~~~~~L~~ 281 (845)
T COG1643 257 EGSGSILVFLPGQREIERTAEWLEK 281 (845)
T ss_pred CCCCCEEEECCcHHHHHHHHHHHHh
Confidence 7789999999999999999999886
No 324
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.08 E-value=1.3 Score=49.50 Aligned_cols=35 Identities=29% Similarity=0.339 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|......+..++.+++ + +|+.+|.|+|||....+
T Consensus 20 Gq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~ 57 (585)
T PRK14950 20 GQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARI 57 (585)
T ss_pred CCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHH
Confidence 88999999988998874 3 48999999999875554
No 325
>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=81.07 E-value=4.7 Score=44.76 Aligned_cols=52 Identities=15% Similarity=0.264 Sum_probs=30.2
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecch
Q 006790 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (631)
Q Consensus 23 ~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~ 77 (631)
++.+.+..+...+.+++|.++||||||. +.-++........++ =|.+-+...
T Consensus 207 ~~~~~~~~~a~~~~pvli~Ge~GtGK~~--lA~~ih~~s~r~~~p-fv~i~c~~~ 258 (534)
T TIGR01817 207 QVVDQARVVARSNSTVLLRGESGTGKEL--IAKAIHYLSPRAKRP-FVKVNCAAL 258 (534)
T ss_pred HHHHHHHHHhCcCCCEEEECCCCccHHH--HHHHHHHhCCCCCCC-eEEeecCCC
Confidence 3444444444556789999999999998 443444433222223 444555444
No 326
>PRK09694 helicase Cas3; Provisional
Probab=80.94 E-value=30 Score=40.60 Aligned_cols=74 Identities=9% Similarity=0.165 Sum_probs=46.2
Q ss_pred CCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCc-hhh----HHHHHHHHHhhcCCCCeEEEEEecCcccc
Q 006790 532 PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV-VET----TLALDNYRKACDCGRGAVFFSVARGKVAE 606 (631)
Q Consensus 532 ~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~-~~~----~~~l~~fk~~~~~~~~aILfgv~~Gsf~E 606 (631)
++.+|||+++-+..+.+++.+++... ...+..++-++-. .++ ..+++.|.+.-+..++.||+++ --+..
T Consensus 560 g~~vLVf~NTV~~Aq~ly~~L~~~~~----~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaT--QViE~ 633 (878)
T PRK09694 560 GAQVCLICNLVDDAQKLYQRLKELNN----TQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVAT--QVVEQ 633 (878)
T ss_pred CCEEEEEECCHHHHHHHHHHHHhhCC----CCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEEC--cchhh
Confidence 45689999999999999999975310 0112333434321 222 2356667443111125799998 58999
Q ss_pred cccCC
Q 006790 607 GIDFD 611 (631)
Q Consensus 607 GIDf~ 611 (631)
|||+.
T Consensus 634 GLDId 638 (878)
T PRK09694 634 SLDLD 638 (878)
T ss_pred eeecC
Confidence 99995
No 327
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=80.93 E-value=1.4 Score=48.83 Aligned_cols=35 Identities=26% Similarity=0.177 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|......+..++.+++ + .++.+|.|+|||..+..
T Consensus 20 GQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~ 57 (605)
T PRK05896 20 GQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKI 57 (605)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 89999999999997763 3 78999999999875554
No 328
>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=80.79 E-value=1.3 Score=46.96 Aligned_cols=43 Identities=19% Similarity=0.148 Sum_probs=32.0
Q ss_pred cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
|+++-||||+|||.++++|.+.. . .. .+||.-+.-.+.+....
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~---~--~~-s~vv~D~Kge~~~~t~~ 43 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLT---W--PG-SVVVLDPKGENFELTSE 43 (384)
T ss_pred CeeEecCCCCCCccEEEccchhc---C--CC-CEEEEccchhHHHHHHH
Confidence 57899999999999999997652 2 24 68888777666655443
No 329
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=80.74 E-value=2.9 Score=50.50 Aligned_cols=52 Identities=27% Similarity=0.413 Sum_probs=36.8
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhC-C-CCCceEEEEecchhhHHHHHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELK 88 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~-~-~~~~~vi~~t~T~~l~~Q~~~el~ 88 (631)
+..+|||.-|||||.+.-.-++...... + ..+ +|++.|=|++-.+.+-+-++
T Consensus 10 G~~lieAsAGtGKT~ti~~~~lrll~~~~~~~~~-~iLvvTFT~aAt~el~~RIr 63 (1087)
T TIGR00609 10 GTFLIEASAGTGKTFTIAQLYLRLLLEGGPLTVE-EILVVTFTNAATEELKTRIR 63 (1087)
T ss_pred CCEEEEECCCCCHHHHHHHHHHHHHhcCCCCChh-hEEEEehhHHHHHHHHHHHH
Confidence 5789999999999996555444444322 1 125 89999999988777766444
No 330
>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=80.37 E-value=2.5 Score=43.04 Aligned_cols=33 Identities=33% Similarity=0.350 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHhc-----C--CcEEEecCCCChhHHHH
Q 006790 20 EQYSYMLELKRALDA-----K--GHCLLEMPTGTGKTIAL 52 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~-----~--~~~~iEapTGtGKTla~ 52 (631)
+|.+....+...+.. + .++++.+|+|+|||...
T Consensus 8 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 8 GQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLA 47 (305)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 566666666655542 2 46999999999999733
No 331
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=80.36 E-value=2.7 Score=37.36 Aligned_cols=55 Identities=24% Similarity=0.073 Sum_probs=43.1
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhH
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~ 80 (631)
....++...+.+++..+..++++++-|.|||- |+=+++-+. +- +--|.+||-++.
T Consensus 9 ~~t~~lg~~l~~~l~~g~Vv~L~GdLGAGKTt--f~rgi~~~L----g~-~~~V~SPTFtlv 63 (149)
T COG0802 9 EATLALGERLAEALKAGDVVLLSGDLGAGKTT--LVRGIAKGL----GV-DGNVKSPTFTLV 63 (149)
T ss_pred HHHHHHHHHHHhhCCCCCEEEEEcCCcCChHH--HHHHHHHHc----CC-CCcccCCCeeee
Confidence 45677888899999999999999999999998 776665443 33 567788887755
No 332
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=80.31 E-value=2.7 Score=43.83 Aligned_cols=45 Identities=20% Similarity=0.367 Sum_probs=30.4
Q ss_pred EEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 39 LLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 39 ~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
++.+|.|.|||.....-++.++...+... .|+++ +|..+....+.
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~-~vi~~-~~~~~~~~~~~ 45 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGR-RVIIA-STYRQARDIFG 45 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS---EEEEE-ESSHHHHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCc-EEEEe-cCHHHHHHHHH
Confidence 57899999999988887888887765324 56666 88887777543
No 333
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=80.30 E-value=4.5 Score=41.94 Aligned_cols=65 Identities=26% Similarity=0.307 Sum_probs=40.1
Q ss_pred hHHHHHH---HHHHHHHhcCC--cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEE---ecchhhHHHHHHHHHhh
Q 006790 19 PEQYSYM---LELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC---TRTVHEMEKTLAELKLL 90 (631)
Q Consensus 19 ~~Q~~~~---~~v~~~l~~~~--~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~---t~T~~l~~Q~~~el~~l 90 (631)
-+|..+. ..+.++++.+. ++|+-+|+|||||- |.-+|+. .. +. .+.-. |.++..+++++++-++.
T Consensus 27 vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTT--lA~liA~--~~--~~-~f~~~sAv~~gvkdlr~i~e~a~~~ 99 (436)
T COG2256 27 VGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTT--LARLIAG--TT--NA-AFEALSAVTSGVKDLREIIEEARKN 99 (436)
T ss_pred cChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHH--HHHHHHH--hh--CC-ceEEeccccccHHHHHHHHHHHHHH
Confidence 3677776 34666777764 79999999999976 3222332 11 22 34443 45566777777766553
No 334
>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=80.26 E-value=3.3 Score=42.33 Aligned_cols=26 Identities=27% Similarity=0.349 Sum_probs=21.0
Q ss_pred HHHHHHHHhcCCcEEEecCCCChhHH
Q 006790 25 MLELKRALDAKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 25 ~~~v~~~l~~~~~~~iEapTGtGKTl 50 (631)
..-+.-++..+.++++-+|||+|||-
T Consensus 134 ~~~l~~~v~~~~~ili~G~tGsGKTT 159 (308)
T TIGR02788 134 KEFLRLAIASRKNIIISGGTGSGKTT 159 (308)
T ss_pred HHHHHHHhhCCCEEEEECCCCCCHHH
Confidence 33445567788999999999999987
No 335
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=80.03 E-value=0.89 Score=42.95 Aligned_cols=62 Identities=11% Similarity=0.228 Sum_probs=43.9
Q ss_pred eEEEcCeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 2 IFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 2 ~~~i~~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
.+.|.|+.-+|+ +.+....|--.+.+|..++|-+|.|+|||- |+-++..... ++.. .|.|--
T Consensus 2 mi~i~~l~K~fg-------~~~VLkgi~l~v~~Gevv~iiGpSGSGKST--lLRclN~LE~-~~~G-~I~i~g 63 (240)
T COG1126 2 MIEIKNLSKSFG-------DKEVLKGISLSVEKGEVVVIIGPSGSGKST--LLRCLNGLEE-PDSG-SITVDG 63 (240)
T ss_pred eEEEEeeeEEeC-------CeEEecCcceeEcCCCEEEEECCCCCCHHH--HHHHHHCCcC-CCCc-eEEECC
Confidence 467788888877 334455666677888999999999999998 6665655433 3445 677754
No 336
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=80.01 E-value=2.5 Score=40.93 Aligned_cols=38 Identities=26% Similarity=0.309 Sum_probs=25.1
Q ss_pred hcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 33 ~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
..|...++.+|+|+|||.-.+.-+...+.. +. +++|.+
T Consensus 21 ~~g~i~~i~G~~GsGKT~l~~~la~~~~~~---~~-~v~yi~ 58 (225)
T PRK09361 21 ERGTITQIYGPPGSGKTNICLQLAVEAAKN---GK-KVIYID 58 (225)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHHC---CC-eEEEEE
Confidence 345678999999999998655544444432 35 565554
No 337
>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=79.94 E-value=2.5 Score=40.97 Aligned_cols=49 Identities=22% Similarity=0.202 Sum_probs=28.8
Q ss_pred HhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 32 l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
+..+..+++.+|+|+|||.-.+.-+...+. . ++ +++|.+--. ..+++.+
T Consensus 17 i~~G~~~~i~G~~G~GKT~l~~~~~~~~~~-~--g~-~~~~is~e~-~~~~i~~ 65 (229)
T TIGR03881 17 IPRGFFVAVTGEPGTGKTIFCLHFAYKGLR-D--GD-PVIYVTTEE-SRESIIR 65 (229)
T ss_pred CcCCeEEEEECCCCCChHHHHHHHHHHHHh-c--CC-eEEEEEccC-CHHHHHH
Confidence 445678999999999998744433333332 2 45 666665422 2244444
No 338
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=79.90 E-value=5.2 Score=43.97 Aligned_cols=49 Identities=6% Similarity=0.088 Sum_probs=38.4
Q ss_pred eeccCCCHHHHHHHHHHHHHhhccc-CCcEEEEecchHHHHHHHHHHhhc
Q 006790 507 KFDMRSDPGVARNYGKLLVEMVSIV-PDGIVCFFVSYSYMDEIIATWNDS 555 (631)
Q Consensus 507 ~f~~r~~~~~~~~l~~~i~~~~~~~-~gg~LVfF~Sy~~l~~v~~~~~~~ 555 (631)
-|......+|.++....+.++...- +|.+|||.|.-+..+.+.+.+.+.
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 3444556788888878888876543 589999999999999999998753
No 339
>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=79.89 E-value=3.9 Score=42.66 Aligned_cols=32 Identities=19% Similarity=0.312 Sum_probs=21.7
Q ss_pred hHHHHHHHHHHHHHh-cCCcEEEecCCCChhHH
Q 006790 19 PEQYSYMLELKRALD-AKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~-~~~~~~iEapTGtGKTl 50 (631)
-.|.-+-..+.+.+. .++.++|-+|||+|||-
T Consensus 117 l~~l~~~~~~~~~~~~~~glilI~GpTGSGKTT 149 (358)
T TIGR02524 117 LSKLDLPAAIIDAIAPQEGIVFITGATGSGKST 149 (358)
T ss_pred HHHcCCCHHHHHHHhccCCEEEEECCCCCCHHH
Confidence 333333334555555 56789999999999976
No 340
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=79.85 E-value=4.1 Score=46.71 Aligned_cols=39 Identities=21% Similarity=0.304 Sum_probs=26.0
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHH
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
+.-..+.+.+..+...+.+++|.++||||||+ +.-++..
T Consensus 383 ~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~--lA~~ih~ 421 (686)
T PRK15429 383 EAMYSVLKQVEMVAQSDSTVLILGETGTGKEL--IARAIHN 421 (686)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECCCCcCHHH--HHHHHHH
Confidence 33444444555555556799999999999998 4444444
No 341
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=79.82 E-value=1.4 Score=44.87 Aligned_cols=21 Identities=43% Similarity=0.548 Sum_probs=16.6
Q ss_pred CcEEEecCCCChhHHHHHHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITS 58 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~ 58 (631)
+-+++-+|+|||||| |.=|++
T Consensus 186 KGVLLYGPPGTGKTL--LAkAVA 206 (406)
T COG1222 186 KGVLLYGPPGTGKTL--LAKAVA 206 (406)
T ss_pred CceEeeCCCCCcHHH--HHHHHH
Confidence 458999999999999 554444
No 342
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=79.73 E-value=9.1 Score=41.46 Aligned_cols=81 Identities=20% Similarity=0.295 Sum_probs=57.6
Q ss_pred ccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCccccccc
Q 006790 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 609 (631)
Q Consensus 530 ~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGID 609 (631)
..+--+|||.-|++.-.+++..+. .++++.- ..|.-| +....+...+++|+. |+==||+|+ +.+..|||
T Consensus 385 g~~PP~lIfVQs~eRak~L~~~L~---~~~~i~v-~vIh~e-~~~~qrde~~~~FR~----g~IwvLicT--dll~RGiD 453 (593)
T KOG0344|consen 385 GFKPPVLIFVQSKERAKQLFEELE---IYDNINV-DVIHGE-RSQKQRDETMERFRI----GKIWVLICT--DLLARGID 453 (593)
T ss_pred cCCCCeEEEEecHHHHHHHHHHhh---hccCcce-eeEecc-cchhHHHHHHHHHhc----cCeeEEEeh--hhhhcccc
Confidence 356789999999999999998884 2233311 123332 334567788999998 677788888 89999999
Q ss_pred CCCCCceEEEEEcc
Q 006790 610 FDRHYGRLVIMFGV 623 (631)
Q Consensus 610 f~g~~lr~VII~gL 623 (631)
|.| .++||..-+
T Consensus 454 f~g--vn~VInyD~ 465 (593)
T KOG0344|consen 454 FKG--VNLVINYDF 465 (593)
T ss_pred ccC--cceEEecCC
Confidence 998 456666333
No 343
>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=79.64 E-value=4.3 Score=41.47 Aligned_cols=50 Identities=20% Similarity=0.174 Sum_probs=34.8
Q ss_pred HHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchh
Q 006790 24 YMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (631)
Q Consensus 24 ~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~ 78 (631)
++..+..+++++++.++-+|||+|||-... |+.... +... |++..--|..
T Consensus 132 ~~ayL~~~ie~~~siii~G~t~sGKTt~ln--all~~I--p~~~-rivtIEdt~E 181 (312)
T COG0630 132 QAAYLWLAIEARKSIIICGGTASGKTTLLN--ALLDFI--PPEE-RIVTIEDTPE 181 (312)
T ss_pred HHHHHHHHHHcCCcEEEECCCCCCHHHHHH--HHHHhC--Cchh-cEEEEecccc
Confidence 334477889999999999999999998333 333322 3235 8888877743
No 344
>PRK13342 recombination factor protein RarA; Reviewed
Probab=79.58 E-value=4.6 Score=43.16 Aligned_cols=33 Identities=33% Similarity=0.379 Sum_probs=25.5
Q ss_pred HHHHHHHH---HHHHHhcCC--cEEEecCCCChhHHHH
Q 006790 20 EQYSYMLE---LKRALDAKG--HCLLEMPTGTGKTIAL 52 (631)
Q Consensus 20 ~Q~~~~~~---v~~~l~~~~--~~~iEapTGtGKTla~ 52 (631)
+|...+.. +.+.+.++. ++++.+|+|||||...
T Consensus 16 Gq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA 53 (413)
T PRK13342 16 GQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLA 53 (413)
T ss_pred CcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHH
Confidence 67777655 777777664 7999999999998733
No 345
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=79.49 E-value=2.7 Score=41.66 Aligned_cols=47 Identities=19% Similarity=0.244 Sum_probs=33.5
Q ss_pred HHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 27 ~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
.+...+..+...+|-|+||.|||.-.+--|..++... +. +|+|.|-=
T Consensus 11 ~~lgG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~--~~-~vly~SlE 57 (259)
T PF03796_consen 11 RLLGGLRPGELTVIAARPGVGKTAFALQIALNAALNG--GY-PVLYFSLE 57 (259)
T ss_dssp HHHSSB-TT-EEEEEESTTSSHHHHHHHHHHHHHHTT--SS-EEEEEESS
T ss_pred HHhcCCCcCcEEEEEecccCCchHHHHHHHHHHHHhc--CC-eEEEEcCC
Confidence 3434556677899999999999998888777777643 34 77777653
No 346
>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=79.47 E-value=3.2 Score=39.27 Aligned_cols=16 Identities=44% Similarity=0.758 Sum_probs=13.6
Q ss_pred CcEEEecCCCChhHHH
Q 006790 36 GHCLLEMPTGTGKTIA 51 (631)
Q Consensus 36 ~~~~iEapTGtGKTla 51 (631)
+.++|-+|||+|||-.
T Consensus 2 GlilI~GptGSGKTTl 17 (198)
T cd01131 2 GLVLVTGPTGSGKSTT 17 (198)
T ss_pred cEEEEECCCCCCHHHH
Confidence 4678999999999874
No 347
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=79.42 E-value=25 Score=38.88 Aligned_cols=139 Identities=16% Similarity=0.209 Sum_probs=83.1
Q ss_pred CEEEEecCCCCCc--cchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHHHhhc
Q 006790 452 QSVVITSGTLSPI--DLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVS 529 (631)
Q Consensus 452 ~svIltSaTL~p~--~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~ 529 (631)
-.++...||=+|. ......|++.... .+...+.+.|+..-++ ...+-..++. .|.+...
T Consensus 167 ~p~~AlTATA~~~v~~DI~~~L~l~~~~--~~~~sfdRpNi~~~v~----------------~~~~~~~q~~-fi~~~~~ 227 (590)
T COG0514 167 PPVLALTATATPRVRDDIREQLGLQDAN--IFRGSFDRPNLALKVV----------------EKGEPSDQLA-FLATVLP 227 (590)
T ss_pred CCEEEEeCCCChHHHHHHHHHhcCCCcc--eEEecCCCchhhhhhh----------------hcccHHHHHH-HHHhhcc
Confidence 4667777887775 5777788876531 1222233333321111 1111123343 4444444
Q ss_pred ccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCC-CchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccc
Q 006790 530 IVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGI 608 (631)
Q Consensus 530 ~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~-~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGI 608 (631)
...++.+|++.|.+.-+.+++++...|+ ...+.-+. +..++...-++|. .++..|+.|+ -.|.=||
T Consensus 228 ~~~~~GIIYc~sRk~~E~ia~~L~~~g~-------~a~~YHaGl~~~eR~~~q~~f~----~~~~~iiVAT--~AFGMGI 294 (590)
T COG0514 228 QLSKSGIIYCLTRKKVEELAEWLRKNGI-------SAGAYHAGLSNEERERVQQAFL----NDEIKVMVAT--NAFGMGI 294 (590)
T ss_pred ccCCCeEEEEeeHHhHHHHHHHHHHCCC-------ceEEecCCCCHHHHHHHHHHHh----cCCCcEEEEe--ccccCcc
Confidence 5556679999999999999999987642 22333222 2222333334444 4678999998 4799999
Q ss_pred cCCCCCceEEEEEccc
Q 006790 609 DFDRHYGRLVIMFGVP 624 (631)
Q Consensus 609 Df~g~~lr~VII~gLP 624 (631)
|=|| .|-||=..+|
T Consensus 295 dKpd--VRfViH~~lP 308 (590)
T COG0514 295 DKPD--VRFVIHYDLP 308 (590)
T ss_pred CCCC--ceEEEEecCC
Confidence 9996 6788877776
No 348
>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=79.17 E-value=3.4 Score=35.66 Aligned_cols=20 Identities=45% Similarity=0.542 Sum_probs=14.9
Q ss_pred EEEecCCCChhHHHHHHHHHHH
Q 006790 38 CLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 38 ~~iEapTGtGKTla~L~~~l~~ 59 (631)
+++.+|+|+|||. ++-.++.
T Consensus 1 ill~G~~G~GKT~--l~~~la~ 20 (132)
T PF00004_consen 1 ILLHGPPGTGKTT--LARALAQ 20 (132)
T ss_dssp EEEESSTTSSHHH--HHHHHHH
T ss_pred CEEECcCCCCeeH--HHHHHHh
Confidence 5789999999998 4434443
No 349
>PRK04296 thymidine kinase; Provisional
Probab=78.81 E-value=3.5 Score=38.77 Aligned_cols=35 Identities=17% Similarity=0.150 Sum_probs=24.1
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEE
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~ 73 (631)
|...++-+|+|+|||...+--+..++.+ ++ +|+|.
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~~~---g~-~v~i~ 36 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYEER---GM-KVLVF 36 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHc---CC-eEEEE
Confidence 3467889999999998776654444332 46 77766
No 350
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=78.71 E-value=2.2 Score=48.96 Aligned_cols=34 Identities=32% Similarity=0.356 Sum_probs=26.9
Q ss_pred hHHHHHHHHHHHHHhc--------C---CcEEEecCCCChhHHHH
Q 006790 19 PEQYSYMLELKRALDA--------K---GHCLLEMPTGTGKTIAL 52 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~--------~---~~~~iEapTGtGKTla~ 52 (631)
-+|.+.+..|.+++.. + ..+++.+|||+|||...
T Consensus 461 iGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lA 505 (758)
T PRK11034 461 FGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVT 505 (758)
T ss_pred eCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHH
Confidence 3788888888888873 1 35899999999999733
No 351
>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=78.53 E-value=4 Score=42.21 Aligned_cols=27 Identities=30% Similarity=0.289 Sum_probs=20.7
Q ss_pred HHHHHHHHHhcCCcEEEecCCCChhHH
Q 006790 24 YMLELKRALDAKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 24 ~~~~v~~~l~~~~~~~iEapTGtGKTl 50 (631)
++.-+..++..+.++++-+|||+|||-
T Consensus 167 ~~~~L~~~v~~~~~ili~G~tGsGKTT 193 (340)
T TIGR03819 167 VARLLRAIVAARLAFLISGGTGSGKTT 193 (340)
T ss_pred HHHHHHHHHhCCCeEEEECCCCCCHHH
Confidence 334444556677899999999999977
No 352
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=78.45 E-value=3.7 Score=41.99 Aligned_cols=40 Identities=33% Similarity=0.309 Sum_probs=33.1
Q ss_pred CCCChHHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 15 DNIYPEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 15 ~~~r~~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
..+||.|......+..++.+++ | +++.+|.|+||+...+.
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~ 45 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALA 45 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHH
Confidence 3468999999999999999875 3 78999999999774443
No 353
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.45 E-value=2.6 Score=46.25 Aligned_cols=35 Identities=31% Similarity=0.291 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|......+..++.+++ | .++.+|.|+|||-...+
T Consensus 20 Gq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~ 57 (509)
T PRK14958 20 GQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRI 57 (509)
T ss_pred CCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHH
Confidence 89999999999998874 4 58999999999865443
No 354
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=78.18 E-value=2.5 Score=48.43 Aligned_cols=37 Identities=19% Similarity=0.286 Sum_probs=24.7
Q ss_pred ChHHHHHHHHH-HHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 18 YPEQYSYMLEL-KRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 18 r~~Q~~~~~~v-~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
|+.|.+-+... ..++.... . +.|-++||||||.....
T Consensus 760 REeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~ 800 (1164)
T PTZ00112 760 REKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYS 800 (1164)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHH
Confidence 66666555444 44565332 3 46999999999997655
No 355
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=78.13 E-value=2.8 Score=43.21 Aligned_cols=34 Identities=35% Similarity=0.309 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHhc----C---CcEEEecCCCChhHHHHH
Q 006790 20 EQYSYMLELKRALDA----K---GHCLLEMPTGTGKTIALL 53 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~----~---~~~~iEapTGtGKTla~L 53 (631)
+|.+.+..+...+.. + .++++.+|+|+|||....
T Consensus 29 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 29 GQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred CcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence 677776666655542 2 479999999999998444
No 356
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=78.07 E-value=3.5 Score=43.03 Aligned_cols=21 Identities=38% Similarity=0.455 Sum_probs=16.5
Q ss_pred hcCCcEEEecCCCChhHHHHH
Q 006790 33 DAKGHCLLEMPTGTGKTIALL 53 (631)
Q Consensus 33 ~~~~~~~iEapTGtGKTla~L 53 (631)
.+++++++-+|||+|||....
T Consensus 135 ~~g~ii~lvGptGvGKTTtia 155 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTA 155 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHH
Confidence 345689999999999988433
No 357
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=78.05 E-value=2.8 Score=46.74 Aligned_cols=44 Identities=23% Similarity=0.314 Sum_probs=33.3
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
.|+++-||||+|||.++.+|.+... +. -+||.-+.-.+.+..-.
T Consensus 159 ~hvLviapTgSGKg~g~VIPnLL~~-----~~-S~VV~DpKGEl~~~Ta~ 202 (606)
T PRK13897 159 QHALLFAPTGSGKGVGFVIPNLLFW-----ED-SVVVHDIKLENYELTSG 202 (606)
T ss_pred ceEEEEcCCCCCcceEEehhhHHhC-----CC-CEEEEeCcHHHHHHHHH
Confidence 5899999999999999999977542 24 57777777666654443
No 358
>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=78.02 E-value=4.6 Score=38.49 Aligned_cols=39 Identities=21% Similarity=0.250 Sum_probs=25.4
Q ss_pred cCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 34 ~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
.+....|.+|+|+|||.-.+-.+...+. . +. +++|.+-.
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~-~--g~-~v~yi~~e 49 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAVNAAR-Q--GK-KVVYIDTE 49 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHh-C--CC-eEEEEECC
Confidence 3467899999999999966654443332 2 45 56655543
No 359
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=77.99 E-value=3.1 Score=30.98 Aligned_cols=26 Identities=31% Similarity=0.346 Sum_probs=20.7
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhC
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSK 63 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~ 63 (631)
...+|-+|+|+|||- |+=|+.|+...
T Consensus 24 ~~tli~G~nGsGKST--llDAi~~~L~~ 49 (62)
T PF13555_consen 24 DVTLITGPNGSGKST--LLDAIQTVLYG 49 (62)
T ss_pred cEEEEECCCCCCHHH--HHHHHHHHHcC
Confidence 478999999999998 66677776643
No 360
>PHA02624 large T antigen; Provisional
Probab=77.92 E-value=3.6 Score=45.32 Aligned_cols=50 Identities=14% Similarity=0.058 Sum_probs=30.2
Q ss_pred HHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhH
Q 006790 25 MLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (631)
Q Consensus 25 ~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~ 80 (631)
++.+.+.+-+++.+++.+|.|||||. |+.+|.-.. + |+ .+-|.+||..++
T Consensus 421 lk~~l~giPKk~~il~~GPpnTGKTt--f~~sLl~~L--~-G~-vlsVNsPt~ks~ 470 (647)
T PHA02624 421 LKLIVENVPKRRYWLFKGPVNSGKTT--LAAALLDLC--G-GK-SLNVNCPPDKLN 470 (647)
T ss_pred HHHHHhcCCCCeEEEEECCCCCCHHH--HHHHHHHHc--C-Ce-EEEeeCCcchhH
Confidence 33333444455789999999999998 776665433 1 33 344444554433
No 361
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=77.90 E-value=2.5 Score=48.83 Aligned_cols=38 Identities=29% Similarity=0.302 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHhcC-----------CcEEEecCCCChhHHHHHHHHHHH
Q 006790 20 EQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~-----------~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
+|.+.++.+.+++... .++++.+|||+|||. |.-+++-
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~--lA~~la~ 506 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTE--LAKQLAE 506 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHH--HHHHHHH
Confidence 6888888888888741 247999999999996 4434443
No 362
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.83 E-value=2.9 Score=46.87 Aligned_cols=35 Identities=23% Similarity=0.245 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|..+...+.+++.+++ | .|+.+|.|+|||....+
T Consensus 20 GQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~ 57 (620)
T PRK14954 20 AQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARV 57 (620)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHH
Confidence 89999999999998874 4 78999999999875543
No 363
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=77.61 E-value=4.1 Score=37.16 Aligned_cols=34 Identities=29% Similarity=0.390 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L 53 (631)
+|.+..+.+.+++.+++ + +++++|.|+||+-..+
T Consensus 1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~ 37 (162)
T PF13177_consen 1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLAL 37 (162)
T ss_dssp S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHH
T ss_pred CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHH
Confidence 58889999999998884 4 6999999999976444
No 364
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=77.54 E-value=2.1 Score=47.50 Aligned_cols=36 Identities=36% Similarity=0.379 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~~ 55 (631)
+|......+..++..++ | .++.+|.|||||...-+-
T Consensus 20 Gq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~l 58 (559)
T PRK05563 20 GQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIF 58 (559)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 89999999999998763 4 678999999999866653
No 365
>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=77.44 E-value=3.8 Score=42.52 Aligned_cols=17 Identities=41% Similarity=0.739 Sum_probs=15.0
Q ss_pred cCCcEEEecCCCChhHH
Q 006790 34 AKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 34 ~~~~~~iEapTGtGKTl 50 (631)
.++.+++-+|||+|||-
T Consensus 121 ~~g~ili~G~tGSGKTT 137 (343)
T TIGR01420 121 PRGLILVTGPTGSGKST 137 (343)
T ss_pred cCcEEEEECCCCCCHHH
Confidence 35789999999999987
No 366
>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=77.42 E-value=3.9 Score=40.00 Aligned_cols=25 Identities=36% Similarity=0.376 Sum_probs=19.6
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYV 60 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~ 60 (631)
...++-||.|+|||.-.+.-|++.+
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va 26 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMA 26 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHh
Confidence 4578999999999997777666544
No 367
>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=77.39 E-value=4 Score=47.98 Aligned_cols=41 Identities=27% Similarity=0.246 Sum_probs=30.9
Q ss_pred ChHHHHHHHHHHHHHhcC-----------CcEEEecCCCChhHHHHHHHHHHHH
Q 006790 18 YPEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSYV 60 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~-----------~~~~iEapTGtGKTla~L~~~l~~~ 60 (631)
--+|.+.+..|.+++... ..+++.+|||||||. |.-+++..
T Consensus 567 v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~--lA~~La~~ 618 (852)
T TIGR03346 567 VVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTE--LAKALAEF 618 (852)
T ss_pred cCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHH--HHHHHHHH
Confidence 368889999999998752 358899999999997 44345443
No 368
>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=77.25 E-value=3.3 Score=43.67 Aligned_cols=35 Identities=17% Similarity=0.198 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHH
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL 53 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L 53 (631)
..+...+......++++.|+++=+|+|||||..|-
T Consensus 193 r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~ 227 (449)
T TIGR02688 193 RQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYN 227 (449)
T ss_pred HHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHH
Confidence 33444444444667888999999999999996444
No 369
>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=77.25 E-value=2.4 Score=46.83 Aligned_cols=33 Identities=36% Similarity=0.374 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHhcC--CcEEEecCCCChhHHHH
Q 006790 20 EQYSYMLELKRALDAK--GHCLLEMPTGTGKTIAL 52 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla~ 52 (631)
+|...|..+..++... .++++.+|+|||||.+.
T Consensus 69 Gqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lA 103 (531)
T TIGR02902 69 GQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAA 103 (531)
T ss_pred CcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHH
Confidence 7888888888777554 68999999999998733
No 370
>PRK10436 hypothetical protein; Provisional
Probab=77.22 E-value=4.7 Score=43.52 Aligned_cols=26 Identities=35% Similarity=0.511 Sum_probs=19.0
Q ss_pred cCCcEEEecCCCChhHHHHHHHHHHHH
Q 006790 34 AKGHCLLEMPTGTGKTIALLSLITSYV 60 (631)
Q Consensus 34 ~~~~~~iEapTGtGKTla~L~~~l~~~ 60 (631)
.++.+++-+|||+|||-.. .+++.+.
T Consensus 217 ~~GliLvtGpTGSGKTTtL-~a~l~~~ 242 (462)
T PRK10436 217 PQGLILVTGPTGSGKTVTL-YSALQTL 242 (462)
T ss_pred cCCeEEEECCCCCChHHHH-HHHHHhh
Confidence 3568999999999998743 3445554
No 371
>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=77.17 E-value=3.3 Score=39.24 Aligned_cols=33 Identities=30% Similarity=0.369 Sum_probs=20.3
Q ss_pred cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
..+|-+|||||||--.+ ..|+.. +. +||+.-+-
T Consensus 3 v~~i~GpT~tGKt~~ai----~lA~~~--g~-pvI~~Dri 35 (233)
T PF01745_consen 3 VYLIVGPTGTGKTALAI----ALAQKT--GA-PVISLDRI 35 (233)
T ss_dssp EEEEE-STTSSHHHHHH----HHHHHH-----EEEEE-SG
T ss_pred EEEEECCCCCChhHHHH----HHHHHh--CC-CEEEecce
Confidence 46788999999998443 344544 45 78877553
No 372
>PRK13764 ATPase; Provisional
Probab=77.16 E-value=5.6 Score=44.22 Aligned_cols=39 Identities=26% Similarity=0.352 Sum_probs=24.2
Q ss_pred CCCCCCChHHHHHHHHHHHHH-hcCCcEEEecCCCChhHH
Q 006790 12 FPYDNIYPEQYSYMLELKRAL-DAKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l-~~~~~~~iEapTGtGKTl 50 (631)
-|...+.-.+..+...+.+.+ ..++++++-+|||+|||-
T Consensus 233 rp~~~~~Le~l~l~~~l~~~l~~~~~~ILIsG~TGSGKTT 272 (602)
T PRK13764 233 RPVVKLSLEDYNLSEKLKERLEERAEGILIAGAPGAGKST 272 (602)
T ss_pred ccCCCCCHHHhCCCHHHHHHHHhcCCEEEEECCCCCCHHH
Confidence 344433334444333444444 445789999999999986
No 373
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=77.15 E-value=4.2 Score=44.85 Aligned_cols=50 Identities=14% Similarity=0.126 Sum_probs=31.0
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+...+|.+|+|+|||.-.+.-+...+. .+. +++|.|-..+ .+|+++.+..
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~---~g~-~~~yis~e~~-~~~i~~~~~~ 322 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACR---RGE-RCLLFAFEES-RAQLIRNARS 322 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHh---CCC-cEEEEEecCC-HHHHHHHHHH
Confidence 457889999999999844433222222 256 7877765543 5566654443
No 374
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=76.94 E-value=16 Score=37.41 Aligned_cols=38 Identities=18% Similarity=0.311 Sum_probs=30.1
Q ss_pred CChHHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 17 IYPEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
.||.|...-..+.+++.+++ | .++++|.|+||+.....
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~ 43 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRA 43 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHH
Confidence 37888888889999998875 4 56899999999764443
No 375
>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=76.94 E-value=5.8 Score=41.52 Aligned_cols=31 Identities=32% Similarity=0.356 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHH-hcCCcEEEecCCCChhHH
Q 006790 20 EQYSYMLELKRAL-DAKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 20 ~Q~~~~~~v~~~l-~~~~~~~iEapTGtGKTl 50 (631)
.|.-+...+.+.+ ..++.++|-+|||+|||-
T Consensus 133 ~~lgl~~~~~~~l~~~~GlilI~G~TGSGKTT 164 (372)
T TIGR02525 133 KQMGIEPDLFNSLLPAAGLGLICGETGSGKST 164 (372)
T ss_pred HHcCCCHHHHHHHHhcCCEEEEECCCCCCHHH
Confidence 3333333444433 345678999999999987
No 376
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=76.62 E-value=5.4 Score=45.57 Aligned_cols=68 Identities=25% Similarity=0.304 Sum_probs=48.9
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCC-CCCceEEEEecchhhHHHHHHHHHhhh
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~-~~~~~vi~~t~T~~l~~Q~~~el~~l~ 91 (631)
..+.|+++.... .+.++|.|+.|||||-+...- ++|..... -.+.+|+..|=|+.-...+.+.+..+.
T Consensus 3 Ln~~Q~~av~~~------~gp~lV~AGaGsGKT~vlt~R-ia~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~ 71 (655)
T COG0210 3 LNPEQREAVLHP------DGPLLVLAGAGSGKTRVLTER-IAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLL 71 (655)
T ss_pred CCHHHHHHHhcC------CCCeEEEECCCCCchhhHHHH-HHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHh
Confidence 367888877654 678999999999999865543 44444331 112279999999998888877777764
No 377
>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=76.59 E-value=3.4 Score=45.93 Aligned_cols=38 Identities=21% Similarity=0.444 Sum_probs=26.4
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
..|+++-||||+|||.+ +-..+.+.... +. ++||-=++
T Consensus 176 ~~h~li~G~tGsGKs~~-i~~ll~~~~~~--g~-~~ii~D~~ 213 (566)
T TIGR02759 176 TQHILIHGTTGSGKSVA-IRKLLRWIRQR--GD-RAIIYDKG 213 (566)
T ss_pred ccceEEEcCCCCCHHHH-HHHHHHHHHhc--CC-eEEEEECC
Confidence 46899999999999963 33355665544 45 67776554
No 378
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=76.58 E-value=3.5 Score=45.42 Aligned_cols=35 Identities=29% Similarity=0.259 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|......+..++..++ + +++.+|.|+|||.....
T Consensus 20 Gq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~ 57 (546)
T PRK14957 20 GQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRL 57 (546)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998875 3 68999999999874443
No 379
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=76.57 E-value=5.5 Score=42.91 Aligned_cols=38 Identities=18% Similarity=0.209 Sum_probs=25.0
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHh-hCCCCCceEEEEecc
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVL-SKPENPVKLIYCTRT 76 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~-~~~~~~~~vi~~t~T 76 (631)
+++++-+|+|+|||. |+-|++... ....+. +|+|.|..
T Consensus 131 n~l~lyG~~G~GKTH--Ll~ai~~~l~~~~~~~-~v~yi~~~ 169 (440)
T PRK14088 131 NPLFIYGGVGLGKTH--LLQSIGNYVVQNEPDL-RVMYITSE 169 (440)
T ss_pred CeEEEEcCCCCcHHH--HHHHHHHHHHHhCCCC-eEEEEEHH
Confidence 469999999999998 444444322 211134 78888753
No 380
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=76.55 E-value=3.9 Score=43.72 Aligned_cols=40 Identities=35% Similarity=0.392 Sum_probs=23.4
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
++.+++-+|||+|||-...--|..++... .+. +|.+.|-.
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~-~g~-~V~li~~D 260 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLY-GKK-KVALITLD 260 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhc-CCC-eEEEEECC
Confidence 45677889999999874443333333112 135 67666543
No 381
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=76.54 E-value=5 Score=39.03 Aligned_cols=15 Identities=47% Similarity=0.700 Sum_probs=14.2
Q ss_pred CcEEEecCCCChhHH
Q 006790 36 GHCLLEMPTGTGKTI 50 (631)
Q Consensus 36 ~~~~iEapTGtGKTl 50 (631)
++++.-+|||||||+
T Consensus 152 knVLFyGppGTGKTm 166 (368)
T COG1223 152 KNVLFYGPPGTGKTM 166 (368)
T ss_pred ceeEEECCCCccHHH
Confidence 689999999999999
No 382
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=76.53 E-value=11 Score=39.39 Aligned_cols=45 Identities=40% Similarity=0.469 Sum_probs=27.4
Q ss_pred CCcEEEecCCCChhHH--HHHHHHHHHHhhCCCCCceE-EEEecc--hhhHHHH
Q 006790 35 KGHCLLEMPTGTGKTI--ALLSLITSYVLSKPENPVKL-IYCTRT--VHEMEKT 83 (631)
Q Consensus 35 ~~~~~iEapTGtGKTl--a~L~~~l~~~~~~~~~~~~v-i~~t~T--~~l~~Q~ 83 (631)
++++.+-+|||.|||- |=|.+ .|....+ .+ +| +|+|-| +.-.+|+
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAa--r~~~~~~-~~-kVaiITtDtYRIGA~EQL 252 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAA--RYVMLKK-KK-KVAIITTDTYRIGAVEQL 252 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHH--HHHhhcc-Cc-ceEEEEeccchhhHHHHH
Confidence 6789999999999964 44443 3332222 23 45 777776 4444454
No 383
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=76.46 E-value=3.2 Score=47.95 Aligned_cols=35 Identities=29% Similarity=0.286 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHhcCC--cE-EEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-~iEapTGtGKTla~L~ 54 (631)
+|......+.+++.+++ |+ |+.+|.|+|||....+
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARi 57 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARL 57 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHH
Confidence 88899988999998874 55 8999999999875554
No 384
>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=76.46 E-value=3.9 Score=44.89 Aligned_cols=33 Identities=27% Similarity=0.279 Sum_probs=22.4
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
+.+++.+|+|||||. |+-+++.. . +. +++..+.
T Consensus 89 ~giLL~GppGtGKT~--la~alA~~--~--~~-~~~~i~~ 121 (495)
T TIGR01241 89 KGVLLVGPPGTGKTL--LAKAVAGE--A--GV-PFFSISG 121 (495)
T ss_pred CcEEEECCCCCCHHH--HHHHHHHH--c--CC-CeeeccH
Confidence 369999999999999 66666532 2 23 5555543
No 385
>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=76.41 E-value=3.2 Score=40.80 Aligned_cols=33 Identities=30% Similarity=0.549 Sum_probs=27.1
Q ss_pred ChHHHHHHHHHHH-HHhcCCcEEEecCCCChhHH
Q 006790 18 YPEQYSYMLELKR-ALDAKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 18 r~~Q~~~~~~v~~-~l~~~~~~~iEapTGtGKTl 50 (631)
-|.=..|+++|.+ +++....+++.+|||.|||+
T Consensus 190 np~fnrmieqierva~rsr~p~ll~gptgagksf 223 (531)
T COG4650 190 NPHFNRMIEQIERVAIRSRAPILLNGPTGAGKSF 223 (531)
T ss_pred ChHHHHHHHHHHHHHhhccCCeEeecCCCcchhH
Confidence 4566778888877 55666799999999999998
No 386
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=76.36 E-value=7 Score=38.90 Aligned_cols=24 Identities=38% Similarity=0.682 Sum_probs=17.6
Q ss_pred HHHHHhc-CCcEEEecCCCChhHHH
Q 006790 28 LKRALDA-KGHCLLEMPTGTGKTIA 51 (631)
Q Consensus 28 v~~~l~~-~~~~~iEapTGtGKTla 51 (631)
+.+++.. ++.++|-+|||+|||-.
T Consensus 72 l~~~~~~~~GlilisG~tGSGKTT~ 96 (264)
T cd01129 72 FRKLLEKPHGIILVTGPTGSGKTTT 96 (264)
T ss_pred HHHHHhcCCCEEEEECCCCCcHHHH
Confidence 3444543 46789999999999873
No 387
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=76.33 E-value=4 Score=41.09 Aligned_cols=38 Identities=39% Similarity=0.498 Sum_probs=21.4
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
+.+++-+|||+|||-...--|..++.... +. +|.+.|-
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g-~~-~V~li~~ 232 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAARFVLEHG-NK-KVALITT 232 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHHcC-CC-eEEEEEC
Confidence 46778899999998733322222222211 24 6665553
No 388
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=76.31 E-value=3.4 Score=45.61 Aligned_cols=35 Identities=29% Similarity=0.295 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|......+..++..++ | .++.+|+|+|||....+
T Consensus 20 Gq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~ 57 (527)
T PRK14969 20 GQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARI 57 (527)
T ss_pred CcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHH
Confidence 78888988889998874 4 48999999999875443
No 389
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=76.26 E-value=3.4 Score=47.99 Aligned_cols=65 Identities=18% Similarity=0.091 Sum_probs=44.6
Q ss_pred EcCeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhH
Q 006790 5 LEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (631)
Q Consensus 5 i~~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~ 80 (631)
..|-++.....+ |+.|.- -.+ +|.+|+ |.|..||=||||+.-+|+...|.. |+ .|-|.|-.-=|.
T Consensus 128 ~~g~~~~wdm~~-ydVQLi--Ggi--vLh~G~--IAEM~TGEGKTLvatlp~yLnAL~---G~-gVHvVTvNDYLA 192 (1025)
T PRK12900 128 VMGREMTWDMVP-YDVQLI--GGI--VLHSGK--ISEMATGEGKTLVSTLPTFLNALT---GR-GVHVVTVNDYLA 192 (1025)
T ss_pred ccccccccCccc-cchHHh--hhH--HhhcCC--ccccCCCCCcchHhHHHHHHHHHc---CC-CcEEEeechHhh
Confidence 457777777875 888853 333 245555 789999999999999997766653 45 676666553333
No 390
>CHL00181 cbbX CbbX; Provisional
Probab=76.22 E-value=3.6 Score=41.48 Aligned_cols=19 Identities=37% Similarity=0.375 Sum_probs=15.3
Q ss_pred CcEEEecCCCChhHHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALLS 54 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~ 54 (631)
-++++.+|+|||||...-+
T Consensus 60 ~~ill~G~pGtGKT~lAr~ 78 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALK 78 (287)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3689999999999885443
No 391
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=76.06 E-value=3.1 Score=44.88 Aligned_cols=47 Identities=15% Similarity=0.246 Sum_probs=31.2
Q ss_pred HHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 27 ~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
.+...+..|...+|-|+||+|||.-.+--+...+... +. +|+|.|--
T Consensus 187 ~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~--g~-~vl~~SlE 233 (434)
T TIGR00665 187 KLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKE--GK-PVAFFSLE 233 (434)
T ss_pred hhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhC--CC-eEEEEeCc
Confidence 3334566667889999999999986665544444433 45 67666543
No 392
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=75.83 E-value=3.5 Score=44.74 Aligned_cols=35 Identities=26% Similarity=0.206 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHhcCC---cEEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~iEapTGtGKTla~L~ 54 (631)
+|..+.+.+..++..++ .+++.+|.|+|||-...+
T Consensus 17 GQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~Ari 54 (491)
T PRK14964 17 GQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARI 54 (491)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHH
Confidence 89999999989998874 589999999999864443
No 393
>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=75.77 E-value=3 Score=47.20 Aligned_cols=39 Identities=28% Similarity=0.328 Sum_probs=32.1
Q ss_pred CCCCCCChHHHHHHHHHHHHHhcC--CcEEEecCCCChhHHH
Q 006790 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIA 51 (631)
Q Consensus 12 Fpy~~~r~~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla 51 (631)
|||.. --+|..+...+.-+.-+. +.++|++|+|||||..
T Consensus 1 ~pf~~-ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~l 41 (633)
T TIGR02442 1 FPFTA-IVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTA 41 (633)
T ss_pred CCcch-hcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHH
Confidence 89986 588999888887777653 4699999999999883
No 394
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=75.70 E-value=11 Score=39.84 Aligned_cols=18 Identities=39% Similarity=0.523 Sum_probs=14.8
Q ss_pred CcEEEecCCCChhHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALL 53 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L 53 (631)
.++++-+|||+|||-...
T Consensus 175 ~vi~lvGptGvGKTTT~a 192 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIA 192 (388)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 478899999999987543
No 395
>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=75.52 E-value=3 Score=39.44 Aligned_cols=36 Identities=31% Similarity=0.379 Sum_probs=20.3
Q ss_pred cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceE-EEEecc
Q 006790 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKL-IYCTRT 76 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~v-i~~t~T 76 (631)
.+++-+|||+|||-...=-|..+... ++ +| ++++-|
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~---~~-~v~lis~D~ 39 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLK---GK-KVALISADT 39 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT---T---EEEEEEST
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhc---cc-cceeecCCC
Confidence 56788999999987443323233322 34 45 555544
No 396
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=75.50 E-value=7.2 Score=43.37 Aligned_cols=38 Identities=16% Similarity=0.116 Sum_probs=25.3
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhh-CCCCCceEEEEecc
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLS-KPENPVKLIYCTRT 76 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~-~~~~~~~vi~~t~T 76 (631)
+.++|-+|+|+|||. |+-|++.... ...+. +|+|.+..
T Consensus 315 NpL~LyG~sGsGKTH--LL~AIa~~a~~~~~g~-~V~Yitae 353 (617)
T PRK14086 315 NPLFIYGESGLGKTH--LLHAIGHYARRLYPGT-RVRYVSSE 353 (617)
T ss_pred CcEEEECCCCCCHHH--HHHHHHHHHHHhCCCC-eEEEeeHH
Confidence 358999999999998 5544544322 11245 88888763
No 397
>PF12846 AAA_10: AAA-like domain
Probab=75.40 E-value=3.8 Score=41.35 Aligned_cols=37 Identities=27% Similarity=0.445 Sum_probs=24.4
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
.|.+|-|+||+|||.....- +...... +. ++++.=++
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l-~~~~~~~--g~-~~~i~D~~ 38 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNL-LEQLIRR--GP-RVVIFDPK 38 (304)
T ss_pred CeEEEECCCCCcHHHHHHHH-HHHHHHc--CC-CEEEEcCC
Confidence 58899999999999876643 3333322 34 66666444
No 398
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=75.39 E-value=3.7 Score=44.00 Aligned_cols=45 Identities=16% Similarity=0.259 Sum_probs=30.7
Q ss_pred HHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 27 ~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
.+...+..|...+|-|+||+|||.-.|--|...+... +. +|+|.+
T Consensus 186 ~~~~G~~~g~liviag~pg~GKT~~al~ia~~~a~~~--g~-~v~~fS 230 (421)
T TIGR03600 186 RLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALRE--GK-PVLFFS 230 (421)
T ss_pred HHhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhC--CC-cEEEEE
Confidence 3334556677889999999999997776555555333 45 676665
No 399
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=75.21 E-value=6.5 Score=39.54 Aligned_cols=48 Identities=23% Similarity=0.256 Sum_probs=32.1
Q ss_pred HHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhh-------CCCCCceEEEEecc
Q 006790 28 LKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS-------KPENPVKLIYCTRT 76 (631)
Q Consensus 28 v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~-------~~~~~~~vi~~t~T 76 (631)
|-+.+.++-..++-++.|+|||+..|.-.|+.+.- .++.+ +|+|.|--
T Consensus 82 Id~~fr~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epG-kvlyvslE 136 (402)
T COG3598 82 IDEFFRKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPG-KVLYVSLE 136 (402)
T ss_pred hhHHhhcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCC-eEEEEEec
Confidence 33456666667888999999999877665554431 12335 78888754
No 400
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=75.15 E-value=5.4 Score=41.87 Aligned_cols=47 Identities=19% Similarity=0.159 Sum_probs=27.5
Q ss_pred hcCCcEEEecCCCChhHHHHHHHHHHHHhhC-CCCCceEEEEecchhhHHH
Q 006790 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVHEMEK 82 (631)
Q Consensus 33 ~~~~~~~iEapTGtGKTla~L~~~l~~~~~~-~~~~~~vi~~t~T~~l~~Q 82 (631)
..+.++++.++|||||++..-. +.+.... .+++ -|-|-+...+.--|
T Consensus 99 p~~~~vLi~GetGtGKel~A~~--iH~~s~r~~~~P-FI~~NCa~~~en~~ 146 (403)
T COG1221 99 PSGLPVLIIGETGTGKELFARL--IHALSARRAEAP-FIAFNCAAYSENLQ 146 (403)
T ss_pred CCCCcEEEecCCCccHHHHHHH--HHHhhhcccCCC-EEEEEHHHhCcCHH
Confidence 3367999999999999984443 2222111 2233 55555555553333
No 401
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=75.10 E-value=4 Score=43.23 Aligned_cols=22 Identities=41% Similarity=0.490 Sum_probs=17.0
Q ss_pred CcEEEecCCCChhHHHHHHHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
..+++.+|+|||||+ |+-+++.
T Consensus 166 ~gvLL~GppGtGKT~--lAkaia~ 187 (389)
T PRK03992 166 KGVLLYGPPGTGKTL--LAKAVAH 187 (389)
T ss_pred CceEEECCCCCChHH--HHHHHHH
Confidence 458999999999998 5545543
No 402
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=75.00 E-value=7.6 Score=49.74 Aligned_cols=63 Identities=13% Similarity=0.095 Sum_probs=44.6
Q ss_pred CChHHHHHHHHHHHHHhc-CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHH
Q 006790 17 IYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~-~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
.-++|++.+..+ +.. ++..+|.++.|||||-..=. ++..+... +. +|+.+++|.....++-++
T Consensus 430 Ls~~Q~~Av~~i---l~s~~~v~ii~G~aGTGKTt~l~~-l~~~~~~~--G~-~V~~lAPTgrAA~~L~e~ 493 (1960)
T TIGR02760 430 LSPSNKDAVSTL---FTSTKRFIIINGFGGTGSTEIAQL-LLHLASEQ--GY-EIQIITAGSLSAQELRQK 493 (1960)
T ss_pred CCHHHHHHHHHH---HhCCCCeEEEEECCCCCHHHHHHH-HHHHHHhc--CC-eEEEEeCCHHHHHHHHHH
Confidence 368898877654 443 47899999999999974332 23333333 56 999999998877777654
No 403
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=74.93 E-value=8.6 Score=43.75 Aligned_cols=53 Identities=15% Similarity=0.102 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchh
Q 006790 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (631)
Q Consensus 23 ~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~ 78 (631)
++.+.+.++...+.+++|.++|||||++ +.-++........++ =|.|-+....
T Consensus 336 ~~~~~~~~~a~~~~pvli~Ge~GtGK~~--~A~~ih~~s~r~~~p-fv~vnc~~~~ 388 (638)
T PRK11388 336 RLIHFGRQAAKSSFPVLLCGEEGVGKAL--LAQAIHNESERAAGP-YIAVNCQLYP 388 (638)
T ss_pred HHHHHHHHHhCcCCCEEEECCCCcCHHH--HHHHHHHhCCccCCC-eEEEECCCCC
Confidence 3444455555556789999999999998 444444332222233 4555555554
No 404
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.87 E-value=3.8 Score=44.87 Aligned_cols=35 Identities=31% Similarity=0.258 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHhcCC--cE-EEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-~iEapTGtGKTla~L~ 54 (631)
+|......+..++..++ |+ ++.+|+|||||....+
T Consensus 18 Gq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~ 55 (504)
T PRK14963 18 GQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARL 55 (504)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 78888888888888875 44 9999999999886554
No 405
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=74.84 E-value=9.2 Score=42.12 Aligned_cols=53 Identities=13% Similarity=0.176 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchh
Q 006790 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (631)
Q Consensus 23 ~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~ 78 (631)
++.+.+..+-..+.+++|.+++||||+. +.-++........++ =|.|-+....
T Consensus 198 ~~~~~i~~~a~~~~pVlI~Ge~GtGK~~--~A~~ih~~s~r~~~p-~v~v~c~~~~ 250 (509)
T PRK05022 198 QLKKEIEVVAASDLNVLILGETGVGKEL--VARAIHAASPRADKP-LVYLNCAALP 250 (509)
T ss_pred HHHHHHHHHhCCCCcEEEECCCCccHHH--HHHHHHHhCCcCCCC-eEEEEcccCC
Confidence 3444444444556799999999999998 444454433222223 3444455443
No 406
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=74.63 E-value=6.4 Score=43.47 Aligned_cols=54 Identities=17% Similarity=0.197 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchh
Q 006790 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (631)
Q Consensus 22 ~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~ 78 (631)
.++.+.+.++...+.+++|.++|||||++ |.-++..+.....++ =+.+-+.+..
T Consensus 214 ~~~~~~~~~~A~~~~pvlI~GE~GtGK~~--lA~aiH~~s~r~~~p-fv~inca~~~ 267 (520)
T PRK10820 214 RQVVEQARKLAMLDAPLLITGDTGTGKDL--LAYACHLRSPRGKKP-FLALNCASIP 267 (520)
T ss_pred HHHHHHHHHHhCCCCCEEEECCCCccHHH--HHHHHHHhCCCCCCC-eEEeccccCC
Confidence 33444444555556789999999999998 444444333222122 3555555544
No 407
>CHL00176 ftsH cell division protein; Validated
Probab=74.60 E-value=5 Score=45.21 Aligned_cols=40 Identities=30% Similarity=0.267 Sum_probs=27.4
Q ss_pred ChHHHHHHHHHHHHHhcC-----------CcEEEecCCCChhHHHHHHHHHHH
Q 006790 18 YPEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~-----------~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
.+.+++-+..+.+.+.+. +.+++.+|+|||||+ |+-+++.
T Consensus 188 ~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~--LAralA~ 238 (638)
T CHL00176 188 IEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTL--LAKAIAG 238 (638)
T ss_pred hHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHH--HHHHHHH
Confidence 355555566666666543 358999999999999 6555643
No 408
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=74.60 E-value=4.7 Score=48.97 Aligned_cols=54 Identities=24% Similarity=0.294 Sum_probs=37.6
Q ss_pred HHhcCCcEEEecCCCChhHHHHHHHHHHHHhhC-C-CCCceEEEEecchhhHHHHHH
Q 006790 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 31 ~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~-~-~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
+...+++++|||..|||||.+.-.-.|...... + +-. +|++.|-|++-..-+-+
T Consensus 12 ~~~~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~-~ILvvTFT~aAa~Emk~ 67 (1139)
T COG1074 12 ASPPGQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVD-EILVVTFTKAAAAEMKE 67 (1139)
T ss_pred hcCCCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChh-HeeeeeccHHHHHHHHH
Confidence 344567899999999999997655555554442 1 224 89999999876555433
No 409
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=74.58 E-value=4.3 Score=44.34 Aligned_cols=53 Identities=13% Similarity=0.199 Sum_probs=31.8
Q ss_pred hcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 33 ~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
-.+...+|.+|+|+|||.-.+--+..-+... ++ +++|.|-- .-.+++++....
T Consensus 19 p~g~~~Li~G~pGsGKT~la~qfl~~g~~~~--ge-~~lyvs~e-E~~~~l~~~~~~ 71 (484)
T TIGR02655 19 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIHF--DE-PGVFVTFE-ESPQDIIKNARS 71 (484)
T ss_pred CCCeEEEEEcCCCCCHHHHHHHHHHHHHHhC--CC-CEEEEEEe-cCHHHHHHHHHH
Confidence 3456899999999999985544333333322 45 66666643 344566554443
No 410
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=74.57 E-value=19 Score=40.06 Aligned_cols=69 Identities=16% Similarity=0.063 Sum_probs=43.7
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCC-CCceEEEEecchhhHHHHHHHHHh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~-~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
.+.|..=..=.....++|-++|+--.-|-|||.-.+. .+++...+.. -+ +.+|.|+.-.| .-+..|+.+
T Consensus 569 KEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsis-vlAhLaE~~nIwG-PFLVVtpaStL-~NWaqEisr 638 (1185)
T KOG0388|consen 569 KEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSIS-VLAHLAETHNIWG-PFLVVTPASTL-HNWAQEISR 638 (1185)
T ss_pred HHHhhccHHHHHHHHHccccceehhhhccchhHHHHH-HHHHHHHhccCCC-ceEEeehHHHH-hHHHHHHHH
Confidence 3567777777777788888999999999999986554 3455443321 13 56666665332 234444444
No 411
>PRK10865 protein disaggregation chaperone; Provisional
Probab=74.56 E-value=5 Score=47.14 Aligned_cols=34 Identities=29% Similarity=0.298 Sum_probs=27.1
Q ss_pred hHHHHHHHHHHHHHhcC-----------CcEEEecCCCChhHHHH
Q 006790 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIAL 52 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~~iEapTGtGKTla~ 52 (631)
-+|...+..|.+++... ..+++.+|||||||...
T Consensus 571 iGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA 615 (857)
T PRK10865 571 IGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELC 615 (857)
T ss_pred eCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHH
Confidence 58888888888888642 25899999999999843
No 412
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=74.49 E-value=4.5 Score=38.83 Aligned_cols=38 Identities=24% Similarity=0.250 Sum_probs=25.2
Q ss_pred hcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 33 ~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
..+...+|.+|+|+|||.-.+.-+...+. .+. +++|.+
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~~a~~~~~---~g~-~v~yi~ 54 (218)
T cd01394 17 ERGTVTQVYGPPGTGKTNIAIQLAVETAG---QGK-KVAYID 54 (218)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHh---cCC-eEEEEE
Confidence 34567899999999999865554333332 245 776664
No 413
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.36 E-value=3 Score=46.61 Aligned_cols=35 Identities=29% Similarity=0.274 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|......+..++.+++ | .|+.+|.|+|||....+
T Consensus 20 Gq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~ 57 (576)
T PRK14965 20 GQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARI 57 (576)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998874 4 48999999999876554
No 414
>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=74.29 E-value=5.4 Score=41.12 Aligned_cols=32 Identities=22% Similarity=0.209 Sum_probs=24.6
Q ss_pred hHHHHHHHHHHHHHhcC----CcEEEecCCCChhHH
Q 006790 19 PEQYSYMLELKRALDAK----GHCLLEMPTGTGKTI 50 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~----~~~~iEapTGtGKTl 50 (631)
...++.+--|.+.+.++ +.+++-+|+|||||-
T Consensus 30 ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTA 65 (398)
T PF06068_consen 30 EKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTA 65 (398)
T ss_dssp HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHH
T ss_pred HHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchH
Confidence 34577788888888775 468999999999998
No 415
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=74.05 E-value=4.2 Score=45.46 Aligned_cols=35 Identities=23% Similarity=0.218 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHhcCC---cEEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~iEapTGtGKTla~L~ 54 (631)
+|..+.+.+..++..++ .+++.+|.|+|||-...+
T Consensus 28 Gq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~ 65 (598)
T PRK09111 28 GQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARI 65 (598)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 89999999999999885 489999999999875544
No 416
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=74.01 E-value=4.6 Score=42.01 Aligned_cols=33 Identities=24% Similarity=0.187 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHhcCC---cEEEecCCCChhHHHH
Q 006790 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIAL 52 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~iEapTGtGKTla~ 52 (631)
+|.+....+..++..++ .+++.+|+|+|||...
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 78888899999999886 4899999999997633
No 417
>PF05729 NACHT: NACHT domain
Probab=73.84 E-value=5.5 Score=35.90 Aligned_cols=17 Identities=24% Similarity=0.282 Sum_probs=14.3
Q ss_pred cEEEecCCCChhHHHHH
Q 006790 37 HCLLEMPTGTGKTIALL 53 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L 53 (631)
.++|.|++|+|||...-
T Consensus 2 ~l~I~G~~G~GKStll~ 18 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLR 18 (166)
T ss_pred EEEEECCCCCChHHHHH
Confidence 58999999999998443
No 418
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=73.75 E-value=4.5 Score=45.59 Aligned_cols=70 Identities=11% Similarity=0.055 Sum_probs=43.2
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhhhcccCCCCccceeEEEeCCCCc
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN 114 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~ 114 (631)
..|+++-||||+|||.++.+|.+. .. +. .+||.-+.-.+. .+....++- .+.++.+.-..+...
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnLL---~~--~g-S~VV~DpKgEl~-~~Ta~~R~~---------~G~~V~vfdP~~~~~ 287 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTAL---KW--GG-PLVVLDPSTEVA-PMVSEHRRD---------AGREVIVLDPTNPGT 287 (641)
T ss_pred CceEEEEeCCCCCccceEehhhhh---cC--CC-CEEEEeCcHHHH-HHHHHHHHH---------CCCeEEEEeCCCCcc
Confidence 368999999999999999999763 11 24 577776654443 334434431 144454444445444
Q ss_pred cccChhh
Q 006790 115 LCVNSRV 121 (631)
Q Consensus 115 lC~~~~~ 121 (631)
|-|++.
T Consensus 288 -~~NPLd 293 (641)
T PRK13822 288 -GFNVLD 293 (641)
T ss_pred -CCCchh
Confidence 666553
No 419
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=73.72 E-value=3.4 Score=40.11 Aligned_cols=34 Identities=35% Similarity=0.386 Sum_probs=25.1
Q ss_pred hHHHHHHHHHHHHH------------hcCCcEEEecCCCChhHHHH
Q 006790 19 PEQYSYMLELKRAL------------DAKGHCLLEMPTGTGKTIAL 52 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l------------~~~~~~~iEapTGtGKTla~ 52 (631)
+.|++-++.|.+.= +-.+-+++-+|+||||||+.
T Consensus 183 keqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~a 228 (435)
T KOG0729|consen 183 KEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCA 228 (435)
T ss_pred HHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHH
Confidence 67888888887642 11245889999999999843
No 420
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=73.71 E-value=5.2 Score=42.84 Aligned_cols=22 Identities=36% Similarity=0.484 Sum_probs=16.9
Q ss_pred CcEEEecCCCChhHHHHHHHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
..+++.+|+|||||+ |+-+++.
T Consensus 218 ~gVLL~GPPGTGKT~--LAraIA~ 239 (438)
T PTZ00361 218 KGVILYGPPGTGKTL--LAKAVAN 239 (438)
T ss_pred cEEEEECCCCCCHHH--HHHHHHH
Confidence 468999999999999 4444543
No 421
>TIGR03743 SXT_TraD conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains.
Probab=73.51 E-value=15 Score=41.48 Aligned_cols=74 Identities=20% Similarity=0.144 Sum_probs=40.1
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchh--hHHHHHHHHHhhhhhcccCCCCccceeEEEeCCC
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH--EMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSR 112 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~--l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr 112 (631)
.+|.+|-|+||+|||..+. ..+..+... +. .||+.=+.-. +...+....++. |...++.+.-++..
T Consensus 176 ~~H~lv~G~TGsGKT~l~~-~l~~q~i~~--g~-~viv~DpKgD~~l~~~~~~~~~~~--------G~~dd~~~f~~~~p 243 (634)
T TIGR03743 176 VGHTLVLGTTGVGKTRLAE-LLITQDIRR--GD-VVIVIDPKGDADLKRRMRAEAKRA--------GRPDRFYYFHPAFP 243 (634)
T ss_pred CCcEEEECCCCCCHHHHHH-HHHHHHHHc--CC-eEEEEeCCCchHHHHHHHHHHHHh--------CCCceEEEEecCCC
Confidence 3689999999999997652 233333333 34 5666655432 333333344432 12233655555555
Q ss_pred Cc-cccChh
Q 006790 113 KN-LCVNSR 120 (631)
Q Consensus 113 ~~-lC~~~~ 120 (631)
+. .|.|+.
T Consensus 244 ~~S~~~NPl 252 (634)
T TIGR03743 244 EISVRYNPL 252 (634)
T ss_pred CcCcCcChh
Confidence 54 555554
No 422
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=73.38 E-value=2.6 Score=43.36 Aligned_cols=30 Identities=13% Similarity=0.282 Sum_probs=19.7
Q ss_pred EEEeCCcchHHHHHhhccceecHHHHHHHHHH
Q 006790 231 VVFDEAHNIDNVCIEALSVSVRRQTLEGATRN 262 (631)
Q Consensus 231 ~IiDEAHnl~~~a~~~~s~~ls~~~l~~~~~~ 262 (631)
+..|+--|+++.+...-+ .|-.++..+.++
T Consensus 398 ~~~~~~~~~~~lae~~eG--ySGaDI~nvCre 427 (491)
T KOG0738|consen 398 VELDDPVNLEDLAERSEG--YSGADITNVCRE 427 (491)
T ss_pred ccCCCCccHHHHHHHhcC--CChHHHHHHHHH
Confidence 567788888888887544 345566655543
No 423
>CHL00095 clpC Clp protease ATP binding subunit
Probab=73.27 E-value=3.6 Score=48.14 Aligned_cols=40 Identities=25% Similarity=0.287 Sum_probs=30.2
Q ss_pred hHHHHHHHHHHHHHhcC-----------CcEEEecCCCChhHHHHHHHHHHHH
Q 006790 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSYV 60 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~~iEapTGtGKTla~L~~~l~~~ 60 (631)
.+|.+.+..|.+++... ..+++-+|||+|||. |+-+|+..
T Consensus 512 ~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~--lA~~LA~~ 562 (821)
T CHL00095 512 IGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTE--LTKALASY 562 (821)
T ss_pred cChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHH--HHHHHHHH
Confidence 58999999999998632 136899999999997 44444433
No 424
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=73.25 E-value=30 Score=37.08 Aligned_cols=78 Identities=23% Similarity=0.392 Sum_probs=58.2
Q ss_pred cEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCCCC
Q 006790 534 GIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFDRH 613 (631)
Q Consensus 534 g~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~g~ 613 (631)
.+|||.-.-+....+...+...+. ..+.|..+. ...++...+..|+. |+-.||.++ .-.+.|+|+|+
T Consensus 339 ~tlvFvEt~~~~d~l~~~l~~~~~-----~~~sIhg~~-tq~er~~al~~Fr~----g~~pvlVaT--~VaaRGlDi~~- 405 (482)
T KOG0335|consen 339 KTLVFVETKRGADELAAFLSSNGY-----PAKSIHGDR-TQIEREQALNDFRN----GKAPVLVAT--NVAARGLDIPN- 405 (482)
T ss_pred eEEEEeeccchhhHHHHHHhcCCC-----Cceeecchh-hhhHHHHHHHHhhc----CCcceEEEe--hhhhcCCCCCC-
Confidence 599999999999999998876542 123443322 22455667777776 677899888 68999999996
Q ss_pred CceEEEEEcccC
Q 006790 614 YGRLVIMFGVPF 625 (631)
Q Consensus 614 ~lr~VII~gLPf 625 (631)
.+.||..-+|=
T Consensus 406 -V~hVInyDmP~ 416 (482)
T KOG0335|consen 406 -VKHVINYDMPA 416 (482)
T ss_pred -CceeEEeecCc
Confidence 78898888773
No 425
>PF02702 KdpD: Osmosensitive K+ channel His kinase sensor domain; InterPro: IPR003852 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the N-terminal domain found in KdpD sensor kinase proteins, which regulate the kdpFABC operon responsible for potassium transport []. The N-terminal domain forms part of the cytoplasmic region of the protein, which may be the sensor domain responsible for sensing turgor pressure [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0016020 membrane; PDB: 2R8R_B.
Probab=73.25 E-value=5.6 Score=37.29 Aligned_cols=50 Identities=24% Similarity=0.288 Sum_probs=32.0
Q ss_pred cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEE---ecchhhHHHHHHHHHhh
Q 006790 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC---TRTVHEMEKTLAELKLL 90 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~---t~T~~l~~Q~~~el~~l 90 (631)
.+.+-+.+|+|||++.|..|-.... . |. .|||. |.......++++.|+.+
T Consensus 7 kIflG~apGVGKTy~ML~ea~~l~~-~--G~-DVViG~vethgR~et~~l~~gLe~i 59 (211)
T PF02702_consen 7 KIFLGAAPGVGKTYAMLQEAHRLKE-Q--GV-DVVIGYVETHGRPETEALLEGLEVI 59 (211)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHH-T--T---EEEEE---TT-HHHHHHHCTS-B-
T ss_pred EEEEecCCCCCHHHHHHHHHHHHHH-C--CC-CEEEEEecCCCcHHHHHHHcCCCcC
Confidence 3678899999999999998755443 2 44 66654 44457777777766654
No 426
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=73.17 E-value=2.4 Score=47.77 Aligned_cols=16 Identities=50% Similarity=0.642 Sum_probs=13.9
Q ss_pred CcEEEecCCCChhHHH
Q 006790 36 GHCLLEMPTGTGKTIA 51 (631)
Q Consensus 36 ~~~~iEapTGtGKTla 51 (631)
+-+++.+|+||||||-
T Consensus 345 kGvLL~GPPGTGKTLL 360 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTLL 360 (774)
T ss_pred CceEEECCCCCcHHHH
Confidence 3489999999999993
No 427
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=73.16 E-value=9.4 Score=43.86 Aligned_cols=65 Identities=28% Similarity=0.304 Sum_probs=44.5
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhh
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~ 92 (631)
|+.|. +-.+ +|.+|. +.|..||=||||+..+||...|. .|+ .|-|.|..--|...=.+....+..
T Consensus 80 ydVQl--iGgl--vLh~G~--IAEMkTGEGKTLvAtLpayLnAL---~Gk-gVhVVTvNdYLA~RDae~mg~vy~ 144 (925)
T PRK12903 80 YDVQI--IGGI--ILDLGS--VAEMKTGEGKTITSIAPVYLNAL---TGK-GVIVSTVNEYLAERDAEEMGKVFN 144 (925)
T ss_pred CchHH--HHHH--HHhcCC--eeeecCCCCccHHHHHHHHHHHh---cCC-ceEEEecchhhhhhhHHHHHHHHH
Confidence 56664 4444 355554 78999999999999988765554 257 888888887776665555555543
No 428
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=73.10 E-value=4.4 Score=43.28 Aligned_cols=40 Identities=20% Similarity=0.242 Sum_probs=27.4
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhh
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l 79 (631)
.|++|-||||+|||... -..+.++... +. ++||.=++-..
T Consensus 43 ~h~~i~g~tGsGKt~~i-~~l~~~~~~~--~~-~~vi~D~kg~~ 82 (410)
T cd01127 43 AHTMIIGTTGTGKTTQI-RELLASIRAR--GD-RAIIYDPNGGF 82 (410)
T ss_pred ccEEEEcCCCCCHHHHH-HHHHHHHHhc--CC-CEEEEeCCcch
Confidence 58999999999999853 2334444443 45 78887776543
No 429
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=73.07 E-value=1.4 Score=49.81 Aligned_cols=43 Identities=21% Similarity=0.164 Sum_probs=32.3
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHH
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~ 83 (631)
..|+++-||||+|||.++++|.+.- . .. .+||.-+.-...+..
T Consensus 139 ~~hvlviApTgSGKgvg~VIPnLL~---~--~g-S~VV~DpKGE~~~~T 181 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPTLLT---F--KG-SVIALDVKGELFELT 181 (670)
T ss_pred CceEEEEecCCCCceeeehHhHHhc---C--CC-CEEEEeCCchHHHHH
Confidence 3589999999999999999997642 2 24 688887776555443
No 430
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=73.02 E-value=3.9 Score=46.46 Aligned_cols=41 Identities=29% Similarity=0.276 Sum_probs=31.6
Q ss_pred hHHHHHHHHHHHHHhcC-----------CcEEEecCCCChhHHHHHHHHHHHHh
Q 006790 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSYVL 61 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~~iEapTGtGKTla~L~~~l~~~~ 61 (631)
-+|.+.+..|.+++... +..++-+|||+|||- |+=+|+-..
T Consensus 494 iGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTE--LAkaLA~~L 545 (786)
T COG0542 494 IGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTE--LAKALAEAL 545 (786)
T ss_pred eChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHH--HHHHHHHHh
Confidence 47999999999999762 357889999999999 544555444
No 431
>PRK11823 DNA repair protein RadA; Provisional
Probab=73.00 E-value=7.2 Score=42.05 Aligned_cols=49 Identities=18% Similarity=0.236 Sum_probs=31.5
Q ss_pred HhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 32 l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
+..+...++.+|+|+|||.-.+.-+...+. .+. +|+|.+--.+ .+|+..
T Consensus 77 i~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~---~g~-~vlYvs~Ees-~~qi~~ 125 (446)
T PRK11823 77 LVPGSVVLIGGDPGIGKSTLLLQVAARLAA---AGG-KVLYVSGEES-ASQIKL 125 (446)
T ss_pred ccCCEEEEEECCCCCCHHHHHHHHHHHHHh---cCC-eEEEEEcccc-HHHHHH
Confidence 333567899999999999966655444442 146 8888775433 345543
No 432
>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=72.82 E-value=6.7 Score=43.73 Aligned_cols=31 Identities=32% Similarity=0.516 Sum_probs=20.7
Q ss_pred HHHHhc-CCcEEEecCCCChhHHHHHHHHHHHH
Q 006790 29 KRALDA-KGHCLLEMPTGTGKTIALLSLITSYV 60 (631)
Q Consensus 29 ~~~l~~-~~~~~iEapTGtGKTla~L~~~l~~~ 60 (631)
.+++.. ++.+++-+|||+|||-.. .+++.+.
T Consensus 309 ~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~ 340 (564)
T TIGR02538 309 LEAIHKPQGMVLVTGPTGSGKTVSL-YTALNIL 340 (564)
T ss_pred HHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhh
Confidence 344443 467899999999998753 3445544
No 433
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=72.75 E-value=7.7 Score=47.39 Aligned_cols=54 Identities=22% Similarity=0.234 Sum_probs=38.3
Q ss_pred HHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 31 ~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
|.+-...++|+|+-|||||....--.+.......... +|++.|-|+.-...+-+
T Consensus 6 A~dp~~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~-~i~~~t~t~~aa~em~~ 59 (1141)
T TIGR02784 6 ASDPKTSAWVSANAGSGKTHVLTQRVIRLLLNGVPPS-KILCLTYTKAAAAEMQN 59 (1141)
T ss_pred hcCCCCCEEEEEECCCCHHHHHHHHHHHHHHcCCCCC-eEEEEecCHHHHHHHHH
Confidence 5566678999999999999876665544443322235 89999999876655433
No 434
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=72.66 E-value=14 Score=38.07 Aligned_cols=86 Identities=20% Similarity=0.311 Sum_probs=61.5
Q ss_pred HHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCC--CchhhHHHHHHHHHhhcCCCCeEEEEE
Q 006790 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ--DVVETTLALDNYRKACDCGRGAVFFSV 599 (631)
Q Consensus 522 ~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~--~~~~~~~~l~~fk~~~~~~~~aILfgv 599 (631)
..+..+.. .-.+.++|+.+.+.+..+.+.+...+. .+..=.. +..++..++.+|+. |...||+.+
T Consensus 254 ~~l~dl~~-~~~q~~if~nt~r~v~~l~~~L~~~~~--------~~s~~~~d~~q~~R~~~~~ef~~----gssrvlItt 320 (397)
T KOG0327|consen 254 DTLCDLYR-RVTQAVIFCNTRRKVDNLTDKLRAHGF--------TVSAIHGDMEQNERDTLMREFRS----GSSRVLITT 320 (397)
T ss_pred cHHHHHHH-hhhcceEEecchhhHHHHHHHHhhCCc--------eEEEeecccchhhhhHHHHHhhc----CCceEEeec
Confidence 44555555 567889999999999999999865431 1111111 12345667888887 688899988
Q ss_pred ecCcccccccCCCCCceEEEEEccc
Q 006790 600 ARGKVAEGIDFDRHYGRLVIMFGVP 624 (631)
Q Consensus 600 ~~Gsf~EGIDf~g~~lr~VII~gLP 624 (631)
+-.+.|||+. .+..||..-+|
T Consensus 321 --dl~argidv~--~~slvinydlP 341 (397)
T KOG0327|consen 321 --DLLARGIDVQ--QVSLVVNYDLP 341 (397)
T ss_pred --cccccccchh--hcceeeeeccc
Confidence 7899999997 46778887777
No 435
>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=72.54 E-value=2.9 Score=41.59 Aligned_cols=16 Identities=38% Similarity=0.486 Sum_probs=13.9
Q ss_pred CcEEEecCCCChhHHH
Q 006790 36 GHCLLEMPTGTGKTIA 51 (631)
Q Consensus 36 ~~~~iEapTGtGKTla 51 (631)
.++++.+|+|||||..
T Consensus 43 ~~vll~GppGtGKTtl 58 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTV 58 (261)
T ss_pred ceEEEEcCCCCCHHHH
Confidence 4789999999999873
No 436
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=72.51 E-value=26 Score=36.05 Aligned_cols=84 Identities=19% Similarity=0.293 Sum_probs=61.6
Q ss_pred CCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCc--hhhHHHHHHHHHhhcCCCCeEEEEEecCccccccc
Q 006790 532 PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV--VETTLALDNYRKACDCGRGAVFFSVARGKVAEGID 609 (631)
Q Consensus 532 ~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~--~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGID 609 (631)
=|..++|+...+.-+.++..++..|- .|=+-..+. .++..++++||+ |+.-||..+ .-++.|||
T Consensus 330 igqsiIFc~tk~ta~~l~~~m~~~Gh--------~V~~l~G~l~~~~R~~ii~~Fr~----g~~kVLitT--nV~ARGiD 395 (477)
T KOG0332|consen 330 IGQSIIFCHTKATAMWLYEEMRAEGH--------QVSLLHGDLTVEQRAAIIDRFRE----GKEKVLITT--NVCARGID 395 (477)
T ss_pred hhheEEEEeehhhHHHHHHHHHhcCc--------eeEEeeccchhHHHHHHHHHHhc----CcceEEEEe--chhhcccc
Confidence 47889999999999999999986541 221112221 345668888887 688999999 78999999
Q ss_pred CCCCCceEEEEEcccCCCCCCC
Q 006790 610 FDRHYGRLVIMFGVPFQYTLSK 631 (631)
Q Consensus 610 f~g~~lr~VII~gLPfp~p~dP 631 (631)
++ ....||=.-||--.-+.|
T Consensus 396 v~--qVs~VvNydlP~~~~~~p 415 (477)
T KOG0332|consen 396 VA--QVSVVVNYDLPVKYTGEP 415 (477)
T ss_pred cc--eEEEEEecCCccccCCCC
Confidence 97 466777778886555444
No 437
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=72.41 E-value=4.8 Score=44.91 Aligned_cols=35 Identities=29% Similarity=0.289 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|..+...+.+++.+++ | +|+.+|.|+|||....+
T Consensus 20 GQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAri 57 (700)
T PRK12323 20 GQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRI 57 (700)
T ss_pred CcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHH
Confidence 89999999999999885 4 49999999999864443
No 438
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=72.28 E-value=17 Score=35.76 Aligned_cols=76 Identities=22% Similarity=0.354 Sum_probs=54.9
Q ss_pred CcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCc--hhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccC
Q 006790 533 DGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV--VETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDF 610 (631)
Q Consensus 533 gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~--~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf 610 (631)
-.+++|+++.+-.+.+.+.++..++ .|-.-..+. +++..++.+|+. |+.-||+++ .-++.|||+
T Consensus 267 tQavIFcnTk~kVdwLtekm~~~nf--------tVssmHGDm~qkERd~im~dFRs----g~SrvLitT--DVwaRGiDv 332 (400)
T KOG0328|consen 267 TQAVIFCNTKRKVDWLTEKMREANF--------TVSSMHGDMEQKERDKIMNDFRS----GKSRVLITT--DVWARGIDV 332 (400)
T ss_pred heEEEEecccchhhHHHHHHHhhCc--------eeeeccCCcchhHHHHHHHHhhc----CCceEEEEe--chhhccCCc
Confidence 4678999999999999988876532 222222222 456777888887 688999999 789999999
Q ss_pred CCCCceEEEEEccc
Q 006790 611 DRHYGRLVIMFGVP 624 (631)
Q Consensus 611 ~g~~lr~VII~gLP 624 (631)
+- .+.||=.-||
T Consensus 333 ~q--VslviNYDLP 344 (400)
T KOG0328|consen 333 QQ--VSLVINYDLP 344 (400)
T ss_pred ce--eEEEEecCCC
Confidence 84 5566666665
No 439
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=72.16 E-value=4.9 Score=42.32 Aligned_cols=36 Identities=25% Similarity=0.297 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHhcC-----------CcEEEecCCCChhHHHHHHHHHH
Q 006790 21 QYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITS 58 (631)
Q Consensus 21 Q~~~~~~v~~~l~~~-----------~~~~iEapTGtGKTla~L~~~l~ 58 (631)
=.++++++.+.+..+ +-.++-+|+|||||- +++|++
T Consensus 210 K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS--~IaAmA 256 (457)
T KOG0743|consen 210 KERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSS--FIAAMA 256 (457)
T ss_pred HHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHH--HHHHHH
Confidence 456777777777653 247899999999998 777765
No 440
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=72.10 E-value=19 Score=37.07 Aligned_cols=36 Identities=36% Similarity=0.428 Sum_probs=25.3
Q ss_pred CChHHHHHHHHHHHHHhcCCc-EEEecCCCChhHHHHH
Q 006790 17 IYPEQYSYMLELKRALDAKGH-CLLEMPTGTGKTIALL 53 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~-~~iEapTGtGKTla~L 53 (631)
.||.|...-+.+.+. .+-.| .++.+|.|+|||....
T Consensus 4 ~yPWl~~~~~~~~~~-~r~~ha~Lf~G~~G~GK~~~A~ 40 (328)
T PRK05707 4 IYPWQQSLWQQLAGR-GRHPHAYLLHGPAGIGKRALAE 40 (328)
T ss_pred CCCCcHHHHHHHHHC-CCcceeeeeECCCCCCHHHHHH
Confidence 478888888877654 21134 7799999999975443
No 441
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=72.02 E-value=2.3 Score=41.01 Aligned_cols=66 Identities=11% Similarity=0.165 Sum_probs=44.1
Q ss_pred CeEEEcCeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHH-HHHHHHHHHHhhCCCCCceEEEEe
Q 006790 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTI-ALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 1 ~~~~i~~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTl-a~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
|-+.++|+++.|+-.. ....+.+.|.=.+..|..+=|-++.|+|||- +-+++.+ . .+..+ .|.+.-
T Consensus 2 ~~l~v~nl~~~y~~~~---~~~~~l~~VS~~i~~Ge~lgivGeSGsGKSTL~r~l~Gl--~--~p~~G-~I~~~G 68 (252)
T COG1124 2 TLLSVRNLSIVYGGGK---FAFHALNNVSLEIERGETLGIVGESGSGKSTLARLLAGL--E--KPSSG-SILLDG 68 (252)
T ss_pred ceEEEeceEEEecCCc---chhhhhcceeEEecCCCEEEEEcCCCCCHHHHHHHHhcc--c--CCCCc-eEEECC
Confidence 5688999999998753 3335566666566778899999999999965 4443322 2 22334 566654
No 442
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=71.99 E-value=13 Score=34.88 Aligned_cols=37 Identities=22% Similarity=0.269 Sum_probs=27.6
Q ss_pred hcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEE
Q 006790 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (631)
Q Consensus 33 ~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~ 73 (631)
.+++.+.+-.|+|.|||-+.+--++..+.. +. +|.+.
T Consensus 20 ~~~g~v~v~~g~GkGKtt~a~g~a~ra~g~---G~-~V~iv 56 (191)
T PRK05986 20 EEKGLLIVHTGNGKGKSTAAFGMALRAVGH---GK-KVGVV 56 (191)
T ss_pred ccCCeEEEECCCCCChHHHHHHHHHHHHHC---CC-eEEEE
Confidence 456789999999999999998776665432 44 66654
No 443
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=71.92 E-value=9.9 Score=38.09 Aligned_cols=64 Identities=14% Similarity=0.008 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHhc----CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHH
Q 006790 22 YSYMLELKRALDA----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (631)
Q Consensus 22 ~~~~~~v~~~l~~----~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~e 86 (631)
...+++|.+.|.. .+.+.|-++.|+|||-.+.-.+-....... -...+++...+.....++.+.
T Consensus 2 e~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~-f~~v~wv~~~~~~~~~~~~~~ 69 (287)
T PF00931_consen 2 EKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNR-FDGVIWVSLSKNPSLEQLLEQ 69 (287)
T ss_dssp HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCC-CTEEEEEEEES-SCCHHHHHH
T ss_pred HHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccc-ccccccccccccccccccccc
Confidence 3456677788877 247899999999999844432211111111 121455555544444555554
No 444
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=71.62 E-value=9.9 Score=47.10 Aligned_cols=65 Identities=12% Similarity=0.144 Sum_probs=43.6
Q ss_pred CChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHH--HHHHHHHHhhCCCCCceEEEEecchhhHHHHHH
Q 006790 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL--LSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~--L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~ 85 (631)
..++|++.+..+..+ .++..+|.++.|||||... ++.++...... .+. +|+.+.||+.....+-+
T Consensus 836 Lt~~Qr~Av~~iLts--~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~-~g~-~V~glAPTgkAa~~L~e 902 (1623)
T PRK14712 836 LTSGQRAATRMILET--SDRFTVVQGYAGVGKTTQFRAVMSAVNMLPES-ERP-RVVGLGPTHRAVGEMRS 902 (1623)
T ss_pred cCHHHHHHHHHHHhC--CCceEEEEeCCCCCHHHHHHHHHHHHHHHhhc-cCc-eEEEEechHHHHHHHHH
Confidence 478999987776433 3468999999999999853 22222211111 234 89999999988777643
No 445
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=71.32 E-value=21 Score=36.72 Aligned_cols=37 Identities=19% Similarity=0.212 Sum_probs=24.7
Q ss_pred ChHHHHHHHHHHHHHhcCCc-EEEecCCCChhHHHHHH
Q 006790 18 YPEQYSYMLELKRALDAKGH-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~-~~iEapTGtGKTla~L~ 54 (631)
||.|...-..+.....+-.| +++.+|.|+|||.....
T Consensus 3 yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~ 40 (325)
T PRK08699 3 YPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARF 40 (325)
T ss_pred CCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHH
Confidence 56666666666666332234 77999999999764443
No 446
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=71.32 E-value=5.5 Score=42.72 Aligned_cols=51 Identities=29% Similarity=0.351 Sum_probs=33.7
Q ss_pred hHHHHHHHHHHHHHhcC-----------CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
.+=++=.+.|.+.|.+- +-+++-+|+|||||+ |.-|++- +.+.+.++++..
T Consensus 310 DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTl--LARAvAG-----EA~VPFF~~sGS 371 (752)
T KOG0734|consen 310 DEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTL--LARAVAG-----EAGVPFFYASGS 371 (752)
T ss_pred HHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhH--HHHHhhc-----ccCCCeEecccc
Confidence 34445567788888662 348999999999999 6555541 123367777654
No 447
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=71.20 E-value=4.8 Score=42.64 Aligned_cols=22 Identities=41% Similarity=0.487 Sum_probs=17.1
Q ss_pred CcEEEecCCCChhHHHHHHHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
+.+++.+|+|||||+ |+-+++.
T Consensus 180 kgvLL~GppGTGKT~--LAkalA~ 201 (398)
T PTZ00454 180 RGVLLYGPPGTGKTM--LAKAVAH 201 (398)
T ss_pred ceEEEECCCCCCHHH--HHHHHHH
Confidence 568999999999999 5444543
No 448
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=71.01 E-value=5.4 Score=44.80 Aligned_cols=35 Identities=29% Similarity=0.224 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhcCCc---EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKGH---CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~---~~iEapTGtGKTla~L~ 54 (631)
+|......+..++.+++. .|+.+|.|+|||....+
T Consensus 20 GQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~ 57 (647)
T PRK07994 20 GQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARL 57 (647)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 899999999999998863 58999999999874443
No 449
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=70.70 E-value=5.5 Score=45.23 Aligned_cols=35 Identities=31% Similarity=0.290 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|..+.+.+.+++.+++ | +|+.+|.|+|||....+
T Consensus 20 GQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAri 57 (830)
T PRK07003 20 GQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRI 57 (830)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998874 4 48999999999875443
No 450
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=70.58 E-value=5.1 Score=38.90 Aligned_cols=23 Identities=17% Similarity=0.099 Sum_probs=17.8
Q ss_pred HhcCCcEEEecCCCChhHHHHHH
Q 006790 32 LDAKGHCLLEMPTGTGKTIALLS 54 (631)
Q Consensus 32 l~~~~~~~iEapTGtGKTla~L~ 54 (631)
+..+....|.+|+|+|||.-.+.
T Consensus 16 i~~g~i~~i~G~~GsGKT~l~~~ 38 (235)
T cd01123 16 IETGSITEIFGEFGSGKTQLCHQ 38 (235)
T ss_pred CCCCeEEEEECCCCCCHHHHHHH
Confidence 33467889999999999985544
No 451
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=70.58 E-value=2.8 Score=48.38 Aligned_cols=104 Identities=12% Similarity=0.134 Sum_probs=0.0
Q ss_pred EEEecCCCCCccchhhhcCCCCccccccceeecCCceeeEEeeeCCCCcceeeee----------------ccCCCHHHH
Q 006790 454 VVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKF----------------DMRSDPGVA 517 (631)
Q Consensus 454 vIltSaTL~p~~~f~~~lG~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f----------------~~r~~~~~~ 517 (631)
+||||||+- .+.|.+-+|-.++.........-....+-=++..-.....-.+++ .+.-+.+.+
T Consensus 322 vILMSAT~d-ae~fs~YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~id~~Li 400 (924)
T KOG0920|consen 322 VILMSATLD-AELFSDYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRLARLKLWEPEIDYDLI 400 (924)
T ss_pred EEEeeeecc-hHHHHHHhCCCceEeecCCCcchHHHHHHHHHHHhcccccccccccccccCccccccchhccccccHHHH
Q ss_pred HHHHHHHHHhhcccCCcEEEEecchHHHHHHHHHHhhcchHHH
Q 006790 518 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKE 560 (631)
Q Consensus 518 ~~l~~~i~~~~~~~~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~ 560 (631)
..+...|.+- .-+|.+|||.|.|..+.++++.+........
T Consensus 401 ~~li~~I~~~--~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~ 441 (924)
T KOG0920|consen 401 EDLIEYIDER--EFEGAILVFLPGWEEILQLKELLEVNLPFAD 441 (924)
T ss_pred HHHHHhcccC--CCCceEEEEcCCHHHHHHHHHHhhhcccccc
No 452
>PRK05748 replicative DNA helicase; Provisional
Probab=70.47 E-value=5 Score=43.42 Aligned_cols=41 Identities=12% Similarity=0.199 Sum_probs=28.0
Q ss_pred HHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 31 ~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
.+..|...+|-|+||+|||.-.|--+...+... +. +|+|.|
T Consensus 199 G~~~G~livIaarpg~GKT~~al~ia~~~a~~~--g~-~v~~fS 239 (448)
T PRK05748 199 GLQPNDLIIVAARPSVGKTAFALNIAQNVATKT--DK-NVAIFS 239 (448)
T ss_pred CCCCCceEEEEeCCCCCchHHHHHHHHHHHHhC--CC-eEEEEe
Confidence 455567789999999999996665544444332 45 776664
No 453
>PRK06620 hypothetical protein; Validated
Probab=70.42 E-value=3.9 Score=39.24 Aligned_cols=28 Identities=18% Similarity=0.261 Sum_probs=19.3
Q ss_pred HHHHHHHHHHhcC-------CcEEEecCCCChhHH
Q 006790 23 SYMLELKRALDAK-------GHCLLEMPTGTGKTI 50 (631)
Q Consensus 23 ~~~~~v~~~l~~~-------~~~~iEapTGtGKTl 50 (631)
+.+....+.+.++ ..+++-+|+|+|||-
T Consensus 25 ~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKTh 59 (214)
T PRK06620 25 DQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTY 59 (214)
T ss_pred HHHHHHHHHHHHccccCCCcceEEEECCCCCCHHH
Confidence 3344555555431 348999999999998
No 454
>PRK08760 replicative DNA helicase; Provisional
Probab=70.33 E-value=5.4 Score=43.38 Aligned_cols=42 Identities=14% Similarity=0.170 Sum_probs=29.0
Q ss_pred HHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 30 ~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
..+..|...+|-|.||+|||.-.|--|...+... +. +|+|.+
T Consensus 224 ~G~~~G~LivIaarPg~GKTafal~iA~~~a~~~--g~-~V~~fS 265 (476)
T PRK08760 224 AGLQPTDLIILAARPAMGKTTFALNIAEYAAIKS--KK-GVAVFS 265 (476)
T ss_pred cCCCCCceEEEEeCCCCChhHHHHHHHHHHHHhc--CC-ceEEEe
Confidence 3455567789999999999997776655555433 45 665554
No 455
>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional
Probab=70.25 E-value=1.1 Score=44.10 Aligned_cols=49 Identities=14% Similarity=0.281 Sum_probs=35.0
Q ss_pred CeEEEcCeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHH
Q 006790 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITS 58 (631)
Q Consensus 1 ~~~~i~~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~ 58 (631)
|.++++++...|| . + .....+-=.+..|.++.|-+|.|+|||. |+-+++
T Consensus 1 ~~~~~~~l~~~~~-~--~----~~l~~isl~i~~Ge~~~i~G~nGsGKST--Ll~~l~ 49 (246)
T PRK14269 1 MIAKTTNLNLFYG-K--K----QALFDINMQIEQNKITALIGASGCGKST--FLRCFN 49 (246)
T ss_pred CceeeeeeEEEEC-C--E----eeeeeeEEEEcCCCEEEEECCCCCCHHH--HHHHHh
Confidence 7899999999886 2 1 1334444445678899999999999986 444443
No 456
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=70.21 E-value=1.6 Score=49.22 Aligned_cols=41 Identities=20% Similarity=0.114 Sum_probs=30.7
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHH
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEME 81 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~ 81 (631)
..|+++-||||+|||.++.+|.|.-. .. .+||.=+.-.+-+
T Consensus 144 ~~hvLviApTrSGKgvg~VIPnLL~~-----~~-S~VV~D~KGEl~~ 184 (663)
T PRK13876 144 PEHVLCFAPTRSGKGVGLVVPTLLTW-----PG-SAIVHDIKGENWQ 184 (663)
T ss_pred CceEEEEecCCCCcceeEehhhHHhC-----CC-CEEEEeCcchHHH
Confidence 46899999999999999999976532 24 5777666655443
No 457
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=70.18 E-value=5.8 Score=45.04 Aligned_cols=35 Identities=31% Similarity=0.374 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|....+.+..++..++ | .|+.||.|+|||..+..
T Consensus 22 GQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~Ari 59 (725)
T PRK07133 22 GQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKI 59 (725)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHH
Confidence 89999999999998874 4 48999999999876554
No 458
>PRK05595 replicative DNA helicase; Provisional
Probab=70.17 E-value=5.6 Score=42.94 Aligned_cols=46 Identities=13% Similarity=0.127 Sum_probs=30.5
Q ss_pred HHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 27 ~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
.+...+..|...+|-|+||.|||.-.+--|..++... +. +|+|.+-
T Consensus 193 ~~~~G~~~g~liviaarpg~GKT~~al~ia~~~a~~~--g~-~vl~fSl 238 (444)
T PRK05595 193 AKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALRE--GK-SVAIFSL 238 (444)
T ss_pred HhcCCCCCCcEEEEEecCCCChHHHHHHHHHHHHHHc--CC-cEEEEec
Confidence 3334566677789999999999996665544444333 45 6766643
No 459
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=70.06 E-value=18 Score=42.91 Aligned_cols=73 Identities=18% Similarity=0.249 Sum_probs=40.9
Q ss_pred CCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHhhhhhcccCCCCccceeEEEeCCCCc
Q 006790 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN 114 (631)
Q Consensus 35 ~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~l~~~~~~~~~~~~~~~~~~l~gr~~ 114 (631)
..|.+|-||||+|||...-.-+..+.... +. +|+|.=+-.+ -.-+.+-.+.+ +..+..+.++..+.
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q~~~~~--~~-~v~IiD~g~s-y~~l~~~~~al----------GG~~~~I~l~~gs~ 540 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQVMAVH--RP-RLFIVEAGNS-FGLLADYAARL----------GLSVNRVSLKPGSG 540 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHHHHHhc--CC-EEEEEcCCCC-HHHHHHHHHhc----------CCceeEEEecCCCC
Confidence 46899999999999984433222222222 35 8999877665 22222112221 33333455555555
Q ss_pred cccChhh
Q 006790 115 LCVNSRV 121 (631)
Q Consensus 115 lC~~~~~ 121 (631)
.|+|++.
T Consensus 541 ~~lNPf~ 547 (893)
T TIGR03744 541 VSLPPFA 547 (893)
T ss_pred cccCchh
Confidence 7777663
No 460
>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]
Probab=70.05 E-value=2.2 Score=43.08 Aligned_cols=26 Identities=27% Similarity=0.360 Sum_probs=21.1
Q ss_pred HHHHHHHHhcCCcEEEecCCCChhHH
Q 006790 25 MLELKRALDAKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 25 ~~~v~~~l~~~~~~~iEapTGtGKTl 50 (631)
.+++.+..+.|..-++.+|||+|||-
T Consensus 263 LNk~LkGhR~GElTvlTGpTGsGKTT 288 (514)
T KOG2373|consen 263 LNKYLKGHRPGELTVLTGPTGSGKTT 288 (514)
T ss_pred HHHHhccCCCCceEEEecCCCCCcee
Confidence 45666666777889999999999986
No 461
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=69.92 E-value=8.3 Score=43.81 Aligned_cols=72 Identities=19% Similarity=0.179 Sum_probs=47.6
Q ss_pred CChHHHHHHHHHHHHHhcC-----CcEEEecC-CCChhHHHHHHHHHHHHhhCCC-----CCceEEEEecchhhHHHHHH
Q 006790 17 IYPEQYSYMLELKRALDAK-----GHCLLEMP-TGTGKTIALLSLITSYVLSKPE-----NPVKLIYCTRTVHEMEKTLA 85 (631)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~-----~~~~iEap-TGtGKTla~L~~~l~~~~~~~~-----~~~~vi~~t~T~~l~~Q~~~ 85 (631)
.||.|++-.+-+++.+... .++.|.|. .|+|||+-.+.-.=.|.+..|. .+ .+||+- .++..-+-+
T Consensus 239 LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k-~lVV~P--~sLv~nWkk 315 (776)
T KOG0390|consen 239 LRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINK-PLVVAP--SSLVNNWKK 315 (776)
T ss_pred cCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccc-cEEEcc--HHHHHHHHH
Confidence 5999999999999998653 24445554 7999999333322233455565 44 555553 346677777
Q ss_pred HHHhhh
Q 006790 86 ELKLLH 91 (631)
Q Consensus 86 el~~l~ 91 (631)
|+.++.
T Consensus 316 EF~KWl 321 (776)
T KOG0390|consen 316 EFGKWL 321 (776)
T ss_pred HHHHhc
Confidence 888864
No 462
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=69.90 E-value=12 Score=36.44 Aligned_cols=23 Identities=26% Similarity=0.372 Sum_probs=18.3
Q ss_pred CCceEEEEecchhhHHHHHHHHHh
Q 006790 66 NPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 66 ~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+. .+++-+||.+|.+.+++.|+.
T Consensus 188 gg-~~~~y~P~veQv~kt~~~l~~ 210 (256)
T COG2519 188 GG-VVVVYSPTVEQVEKTVEALRE 210 (256)
T ss_pred Cc-EEEEEcCCHHHHHHHHHHHHh
Confidence 45 788888999888888877665
No 463
>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=69.76 E-value=6.1 Score=41.17 Aligned_cols=35 Identities=31% Similarity=0.293 Sum_probs=28.8
Q ss_pred hHHHHHHHHHHHHHhcCC---cEEEecCCCChhHHHHH
Q 006790 19 PEQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALL 53 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~---~~~iEapTGtGKTla~L 53 (631)
-+|.+..+.+.+++.+++ .+++.+|+|+|||....
T Consensus 17 ig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~ 54 (355)
T TIGR02397 17 IGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIAR 54 (355)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 478888889999998874 36899999999987544
No 464
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=69.75 E-value=6 Score=44.54 Aligned_cols=35 Identities=34% Similarity=0.328 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|..+...+..++..++ + +|+.+|.|+|||....+
T Consensus 20 GQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAri 57 (709)
T PRK08691 20 GQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARI 57 (709)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHH
Confidence 89999999999999875 3 69999999999875543
No 465
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=69.70 E-value=6.6 Score=41.50 Aligned_cols=35 Identities=29% Similarity=0.370 Sum_probs=27.9
Q ss_pred hHHHHHHHHHHHHHhcCC------------cEEEecCCCChhHHHHH
Q 006790 19 PEQYSYMLELKRALDAKG------------HCLLEMPTGTGKTIALL 53 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~------------~~~iEapTGtGKTla~L 53 (631)
-+|......+.+++..+. .+++.+|.|+|||....
T Consensus 8 iGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~ 54 (394)
T PRK07940 8 VGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAAR 54 (394)
T ss_pred cChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHH
Confidence 378888888888887753 27899999999987444
No 466
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=69.57 E-value=7 Score=39.90 Aligned_cols=30 Identities=23% Similarity=0.216 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHhcC----CcEEEecCCCChhHHH
Q 006790 22 YSYMLELKRALDAK----GHCLLEMPTGTGKTIA 51 (631)
Q Consensus 22 ~~~~~~v~~~l~~~----~~~~iEapTGtGKTla 51 (631)
++.+--|.+.+.++ +-+++-+|+|||||--
T Consensus 48 ReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAl 81 (450)
T COG1224 48 REAAGVIVKMIKQGKMAGRGILIVGPPGTGKTAL 81 (450)
T ss_pred HHhhhHHHHHHHhCcccccEEEEECCCCCcHHHH
Confidence 34555566777765 4689999999999983
No 467
>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=69.56 E-value=11 Score=41.14 Aligned_cols=22 Identities=32% Similarity=0.439 Sum_probs=16.9
Q ss_pred CcEEEecCCCChhHHHHHHHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
+.+++-+|+|||||+ ++-+++.
T Consensus 217 ~GILLyGPPGTGKT~--LAKAlA~ 238 (512)
T TIGR03689 217 KGVLLYGPPGCGKTL--IAKAVAN 238 (512)
T ss_pred cceEEECCCCCcHHH--HHHHHHH
Confidence 468999999999999 4444443
No 468
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=69.33 E-value=7.1 Score=40.84 Aligned_cols=34 Identities=24% Similarity=0.248 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L 53 (631)
+|.+....+.+++.+++ | .++.+|.|+||+...+
T Consensus 23 Gq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~ 59 (365)
T PRK07471 23 GHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAY 59 (365)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHH
Confidence 89999999999999885 4 7899999999976443
No 469
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=69.26 E-value=6.6 Score=43.28 Aligned_cols=54 Identities=19% Similarity=0.202 Sum_probs=32.7
Q ss_pred HhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHHHHHHh
Q 006790 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (631)
Q Consensus 32 l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~~el~~ 89 (631)
+-.|...+|.+++|+|||.-.+--+...+... +. +++|.|-.. --+|+++.+..
T Consensus 28 ~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~--ge-~~lyis~ee-~~~~i~~~~~~ 81 (509)
T PRK09302 28 LPKGRPTLVSGTAGTGKTLFALQFLVNGIKRF--DE-PGVFVTFEE-SPEDIIRNVAS 81 (509)
T ss_pred CCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhc--CC-CEEEEEccC-CHHHHHHHHHH
Confidence 44567899999999999985444333444332 45 676664433 33455554443
No 470
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=69.12 E-value=6.3 Score=41.34 Aligned_cols=21 Identities=43% Similarity=0.548 Sum_probs=16.3
Q ss_pred CcEEEecCCCChhHHHHHHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITS 58 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~ 58 (631)
..+++.+|+|||||. |+-+++
T Consensus 157 ~gvLL~GppGtGKT~--lakaia 177 (364)
T TIGR01242 157 KGVLLYGPPGTGKTL--LAKAVA 177 (364)
T ss_pred ceEEEECCCCCCHHH--HHHHHH
Confidence 348999999999998 554454
No 471
>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=68.93 E-value=12 Score=34.34 Aligned_cols=34 Identities=26% Similarity=0.212 Sum_probs=21.4
Q ss_pred cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
..++.+|+|+|||-....-+..++. . +. +|++..
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~-~--g~-~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKK-K--GK-KVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH-C--CC-cEEEEE
Confidence 3678999999999865544333332 2 45 665543
No 472
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.92 E-value=6.1 Score=44.48 Aligned_cols=36 Identities=33% Similarity=0.286 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHHHhcCC---cEEEecCCCChhHHHHHH
Q 006790 19 PEQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~---~~~iEapTGtGKTla~L~ 54 (631)
.+|.++...+.+++..++ .+|+.+|.|+|||.....
T Consensus 19 iGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~ 57 (620)
T PRK14948 19 VGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARI 57 (620)
T ss_pred cChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHH
Confidence 388999999999998874 468999999999875554
No 473
>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=68.84 E-value=5.4 Score=46.73 Aligned_cols=41 Identities=27% Similarity=0.299 Sum_probs=30.2
Q ss_pred hHHHHHHHHHHHHHhcC-----------CcEEEecCCCChhHHHHHHHHHHHHh
Q 006790 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSYVL 61 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~~iEapTGtGKTla~L~~~l~~~~ 61 (631)
-+|.+.+..|.+++... ..+++-+|||+|||. |+-+|+-..
T Consensus 569 ~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~--lA~~La~~l 620 (852)
T TIGR03345 569 IGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTE--TALALAELL 620 (852)
T ss_pred cChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHH--HHHHHHHHH
Confidence 47888999998888531 147999999999998 444455443
No 474
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.70 E-value=6.4 Score=44.05 Aligned_cols=35 Identities=29% Similarity=0.279 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|..+...+..++..++ | +++.+|.|+|||-...+
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 89999999999998875 4 49999999999875554
No 475
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=68.65 E-value=1.6 Score=49.18 Aligned_cols=39 Identities=18% Similarity=0.095 Sum_probs=29.6
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~ 80 (631)
.|+++-||||+|||.++.+|.|.- . +. .+||.=+.-.+.
T Consensus 176 ~HvlviapTgSGKgvg~ViPnLL~---~--~~-S~VV~D~KGE~~ 214 (636)
T PRK13880 176 EHVLTYAPTRSGKGVGLVVPTLLS---W--GH-SSVITDLKGELW 214 (636)
T ss_pred ceEEEEecCCCCCceEEEccchhh---C--CC-CEEEEeCcHHHH
Confidence 689999999999999999997752 1 34 577766665443
No 476
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=68.40 E-value=6.2 Score=45.83 Aligned_cols=36 Identities=36% Similarity=0.373 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~~ 55 (631)
+|......+..++.+++ | +|+.+|.|+|||...++-
T Consensus 19 Gqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~l 57 (824)
T PRK07764 19 GQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARIL 57 (824)
T ss_pred CcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHH
Confidence 78889999999998874 5 689999999998866654
No 477
>PRK14974 cell division protein FtsY; Provisional
Probab=68.38 E-value=9.1 Score=39.46 Aligned_cols=36 Identities=19% Similarity=0.229 Sum_probs=21.7
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEec
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~ 75 (631)
..+++.+|+|+|||-..---|- +.... +. +|++.+.
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~-~l~~~--g~-~V~li~~ 176 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAY-YLKKN--GF-SVVIAAG 176 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHH-HHHHc--CC-eEEEecC
Confidence 3688999999999873333222 22222 45 6766544
No 478
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=68.35 E-value=10 Score=40.26 Aligned_cols=53 Identities=9% Similarity=0.202 Sum_probs=39.5
Q ss_pred cEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHH-HHHHHHhh
Q 006790 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK-TLAELKLL 90 (631)
Q Consensus 37 ~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q-~~~el~~l 90 (631)
..++.++.|+|||.+...-.+.++...+.+. +++++-+|...+++ ++.++..+
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~-~~~~~r~~~~sl~~sv~~~l~~~ 56 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQ-NILAARKVQNSIRDSVFKDIENL 56 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhcCCCc-EEEEEehhhhHHHHHHHHHHHHH
Confidence 5688999999999988888777777642245 88988888886655 44466544
No 479
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=68.21 E-value=7.2 Score=42.14 Aligned_cols=35 Identities=34% Similarity=0.273 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|..+...+..++..++ + +++.+|+|+|||....+
T Consensus 21 Gq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~ 58 (451)
T PRK06305 21 GQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARI 58 (451)
T ss_pred CcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHH
Confidence 89999999999998874 3 78999999999876554
No 480
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=68.19 E-value=12 Score=39.36 Aligned_cols=48 Identities=21% Similarity=0.250 Sum_probs=30.6
Q ss_pred HhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecchhhHHHHH
Q 006790 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (631)
Q Consensus 32 l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T~~l~~Q~~ 84 (631)
+..+...++-+++|+|||.-.+.-+...+. .+. +|+|.+...+ .+|+.
T Consensus 79 i~~GslvLI~G~pG~GKStLllq~a~~~a~---~g~-~VlYvs~EEs-~~qi~ 126 (372)
T cd01121 79 LVPGSVILIGGDPGIGKSTLLLQVAARLAK---RGG-KVLYVSGEES-PEQIK 126 (372)
T ss_pred ccCCeEEEEEeCCCCCHHHHHHHHHHHHHh---cCC-eEEEEECCcC-HHHHH
Confidence 344567899999999999866554433332 245 7888765433 34443
No 481
>CHL00195 ycf46 Ycf46; Provisional
Probab=67.63 E-value=8.7 Score=41.85 Aligned_cols=22 Identities=27% Similarity=0.234 Sum_probs=17.5
Q ss_pred CcEEEecCCCChhHHHHHHHHHHH
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSY 59 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~ 59 (631)
+.+++-+|+|||||+ ++-+++.
T Consensus 260 kGILL~GPpGTGKTl--lAkaiA~ 281 (489)
T CHL00195 260 RGLLLVGIQGTGKSL--TAKAIAN 281 (489)
T ss_pred ceEEEECCCCCcHHH--HHHHHHH
Confidence 458999999999998 5555654
No 482
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=67.63 E-value=7.7 Score=39.70 Aligned_cols=37 Identities=41% Similarity=0.432 Sum_probs=23.4
Q ss_pred hHHHHHHHHHHHHHhc--CCc-EEEecCCCChhHHHHHHH
Q 006790 19 PEQYSYMLELKRALDA--KGH-CLLEMPTGTGKTIALLSL 55 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~--~~~-~~iEapTGtGKTla~L~~ 55 (631)
+.|............. ..| +++.+|+|+|||-+.+.-
T Consensus 5 ~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~l 44 (325)
T COG0470 5 PWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALAL 44 (325)
T ss_pred cchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHH
Confidence 3343333333334433 356 999999999999877654
No 483
>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=67.61 E-value=1.5 Score=42.91 Aligned_cols=62 Identities=18% Similarity=0.288 Sum_probs=41.0
Q ss_pred CeEEEcCeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEE
Q 006790 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (631)
Q Consensus 1 ~~~~i~~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~ 73 (631)
|.+.+.++++.|+-. .....|-=.+..|+...|-+|.|+|||. |+-+++-. ..+... +|.+-
T Consensus 1 ~~l~~~~l~~~~~~~-------~il~~vs~~i~~Ge~~~i~G~nGsGKST--Ll~~l~Gl-~~~~~G-~i~~~ 62 (239)
T cd03296 1 MSIEVRNVSKRFGDF-------VALDDVSLDIPSGELVALLGPSGSGKTT--LLRLIAGL-ERPDSG-TILFG 62 (239)
T ss_pred CEEEEEeEEEEECCE-------EeeeeeeEEEcCCCEEEEECCCCCCHHH--HHHHHhCC-CCCCce-EEEEC
Confidence 788899999988631 1344444456778899999999999986 55444422 223334 56653
No 484
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=67.60 E-value=21 Score=37.07 Aligned_cols=69 Identities=14% Similarity=0.343 Sum_probs=41.3
Q ss_pred CCcEEEEecchHHHHHHHHHHhhcchHHHHhcCCeEEEeCCCchhhHHHHHHHHHhhcCCCCeEEEEEecCcccccccCC
Q 006790 532 PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVARGKVAEGIDFD 611 (631)
Q Consensus 532 ~gg~LVfF~Sy~~l~~v~~~~~~~~~~~~l~~~~~v~~e~~~~~~~~~~l~~fk~~~~~~~~aILfgv~~Gsf~EGIDf~ 611 (631)
...+++|..+--+-..+.+-+--.|+..+ .+ --.+...+++..++.||. |+=-||.++ .-.|.|+|++
T Consensus 465 ndKvIiFv~~K~~AD~LSSd~~l~gi~~q-----~l-HG~r~Q~DrE~al~~~ks----G~vrILvaT--DlaSRGlDv~ 532 (629)
T KOG0336|consen 465 NDKVIIFVSRKVMADHLSSDFCLKGISSQ-----SL-HGNREQSDREMALEDFKS----GEVRILVAT--DLASRGLDVP 532 (629)
T ss_pred CceEEEEEechhhhhhccchhhhcccchh-----hc-cCChhhhhHHHHHHhhhc----CceEEEEEe--chhhcCCCch
Confidence 35677777665554444443322222110 11 112333456777888876 677899988 7899999998
Q ss_pred C
Q 006790 612 R 612 (631)
Q Consensus 612 g 612 (631)
|
T Consensus 533 D 533 (629)
T KOG0336|consen 533 D 533 (629)
T ss_pred h
Confidence 7
No 485
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=67.49 E-value=5.3 Score=43.84 Aligned_cols=24 Identities=33% Similarity=0.432 Sum_probs=21.0
Q ss_pred HHHHHHhcCCcEEEecCCCChhHH
Q 006790 27 ELKRALDAKGHCLLEMPTGTGKTI 50 (631)
Q Consensus 27 ~v~~~l~~~~~~~iEapTGtGKTl 50 (631)
.+..|+.+.+.++|++.||+|||-
T Consensus 272 ell~av~e~QVLiI~GeTGSGKTT 295 (902)
T KOG0923|consen 272 ELLKAVKEHQVLIIVGETGSGKTT 295 (902)
T ss_pred HHHHHHHhCcEEEEEcCCCCCccc
Confidence 456677888999999999999997
No 486
>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=67.44 E-value=4.9 Score=37.07 Aligned_cols=15 Identities=47% Similarity=0.680 Sum_probs=13.3
Q ss_pred CcEEEecCCCChhHH
Q 006790 36 GHCLLEMPTGTGKTI 50 (631)
Q Consensus 36 ~~~~iEapTGtGKTl 50 (631)
.++++-+|||+|||.
T Consensus 4 ~~~ll~GpsGvGKT~ 18 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTE 18 (171)
T ss_dssp EEEEEESSTTSSHHH
T ss_pred EEEEEECCCCCCHHH
Confidence 468899999999996
No 487
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=67.39 E-value=7.1 Score=42.63 Aligned_cols=34 Identities=29% Similarity=0.240 Sum_probs=29.4
Q ss_pred ChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHH
Q 006790 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla 51 (631)
-.+|....+.+.-++..+.++++-+|+|+|||..
T Consensus 194 v~Gq~~~~~al~~aa~~g~~vlliG~pGsGKTtl 227 (499)
T TIGR00368 194 IKGQQHAKRALEIAAAGGHNLLLFGPPGSGKTML 227 (499)
T ss_pred hcCcHHHHhhhhhhccCCCEEEEEecCCCCHHHH
Confidence 3568888888888888889999999999999883
No 488
>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=67.33 E-value=9.4 Score=36.19 Aligned_cols=35 Identities=29% Similarity=0.394 Sum_probs=25.6
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEe
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t 74 (631)
..++||++-|||||. |+--++|-.-.+ +. +|.|.|
T Consensus 29 sL~lIEGd~~tGKSv--Lsqr~~YG~L~~-g~-~v~yvs 63 (235)
T COG2874 29 SLILIEGDNGTGKSV--LSQRFAYGFLMN-GY-RVTYVS 63 (235)
T ss_pred eEEEEECCCCccHHH--HHHHHHHHHHhC-Cc-eEEEEE
Confidence 468999999999998 777677765553 34 565443
No 489
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=67.26 E-value=34 Score=38.08 Aligned_cols=85 Identities=12% Similarity=0.175 Sum_probs=54.7
Q ss_pred cCEEEEecCCCCCccchhhhcC-CCCccccccceeecCCceeeEEeeeCCCCcceeeeeccCCCHHHHHHHHHHHHHhhc
Q 006790 451 FQSVVITSGTLSPIDLYPRLLN-FHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVS 529 (631)
Q Consensus 451 ~~svIltSaTL~p~~~f~~~lG-~~~~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~ 529 (631)
.-.+|.|||||-. +-|.+.+| .+.+ .++- ...++..-|....-.+|.+......+.+..
T Consensus 500 dlKliVtSATm~a-~kf~nfFgn~p~f-------~IpG------------RTyPV~~~~~k~p~eDYVeaavkq~v~Ihl 559 (1042)
T KOG0924|consen 500 DLKLIVTSATMDA-QKFSNFFGNCPQF-------TIPG------------RTYPVEIMYTKTPVEDYVEAAVKQAVQIHL 559 (1042)
T ss_pred cceEEEeeccccH-HHHHHHhCCCcee-------eecC------------CccceEEEeccCchHHHHHHHHhhheEeec
Confidence 4589999999966 45666666 2211 1110 112333344444556787777776666665
Q ss_pred ccC-CcEEEEecchHHHHHHHHHHhhc
Q 006790 530 IVP-DGIVCFFVSYSYMDEIIATWNDS 555 (631)
Q Consensus 530 ~~~-gg~LVfF~Sy~~l~~v~~~~~~~ 555 (631)
..+ |.+|||.|--+..+.+...+...
T Consensus 560 ~~~~GdilIfmtGqediE~t~~~i~~~ 586 (1042)
T KOG0924|consen 560 SGPPGDILIFMTGQEDIECTCDIIKEK 586 (1042)
T ss_pred cCCCCCEEEecCCCcchhHHHHHHHHH
Confidence 555 89999999999888888777643
No 490
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=67.14 E-value=7.4 Score=42.41 Aligned_cols=35 Identities=31% Similarity=0.320 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHhcCC--c-EEEecCCCChhHHHHHH
Q 006790 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~iEapTGtGKTla~L~ 54 (631)
+|...+..+..++.+++ | .++.+|.|+|||....+
T Consensus 20 Gq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~ 57 (486)
T PRK14953 20 GQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARI 57 (486)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998874 4 47899999999875554
No 491
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=67.01 E-value=7.6 Score=40.75 Aligned_cols=34 Identities=26% Similarity=0.243 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHhcCC---cEEEecCCCChhHHHHH
Q 006790 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALL 53 (631)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~iEapTGtGKTla~L 53 (631)
+|....+.+...+.++. ++++.+|+|+|||....
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~ 57 (367)
T PRK14970 21 GQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCAR 57 (367)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 88899999999998874 68899999999987444
No 492
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=67.00 E-value=8.4 Score=42.01 Aligned_cols=20 Identities=40% Similarity=0.572 Sum_probs=15.8
Q ss_pred hcCCcEEEecCCCChhHHHH
Q 006790 33 DAKGHCLLEMPTGTGKTIAL 52 (631)
Q Consensus 33 ~~~~~~~iEapTGtGKTla~ 52 (631)
..++++++-+|||+|||-..
T Consensus 348 ~~G~vIaLVGPtGvGKTTta 367 (559)
T PRK12727 348 ERGGVIALVGPTGAGKTTTI 367 (559)
T ss_pred cCCCEEEEECCCCCCHHHHH
Confidence 45677888899999998743
No 493
>PHA00547 hypothetical protein
Probab=66.91 E-value=13 Score=36.33 Aligned_cols=34 Identities=24% Similarity=0.174 Sum_probs=25.6
Q ss_pred HHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHH
Q 006790 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV 60 (631)
Q Consensus 27 ~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~ 60 (631)
+..+.+.+...-+++||-|+|||+..-.-|..|.
T Consensus 67 k~VK~ik~spis~i~G~LGsGKTlLMT~LA~~~K 100 (337)
T PHA00547 67 RLVNFIWDNPLSVIIGKLGTGKTLLLTYLSQTMK 100 (337)
T ss_pred HHHHHHhcCCceEEeccCCCchhHHHHHHHHHHH
Confidence 4556677778899999999999996655555553
No 494
>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=66.61 E-value=5.5 Score=43.39 Aligned_cols=24 Identities=38% Similarity=0.612 Sum_probs=17.0
Q ss_pred HHHHHhcC-CcEEEecCCCChhHHH
Q 006790 28 LKRALDAK-GHCLLEMPTGTGKTIA 51 (631)
Q Consensus 28 v~~~l~~~-~~~~iEapTGtGKTla 51 (631)
+.+++... +.+++-+|||+|||-.
T Consensus 234 l~~~~~~~~GlilitGptGSGKTTt 258 (486)
T TIGR02533 234 FERLIRRPHGIILVTGPTGSGKTTT 258 (486)
T ss_pred HHHHHhcCCCEEEEEcCCCCCHHHH
Confidence 33344443 5689999999999873
No 495
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=66.44 E-value=18 Score=36.91 Aligned_cols=54 Identities=17% Similarity=0.240 Sum_probs=36.9
Q ss_pred ChHHHHHHHHHHHHHhcC--CcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 18 YPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~--~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
|+.=.+++..+.++-..+ .-.++-++.|+|||.+.+- +++||..+ + =||+-.|.
T Consensus 4 R~~t~el~~~l~~~~~~~~~~r~vL~G~~GsGKS~~L~q-~~~~A~~~---~-wiVl~vp~ 59 (309)
T PF10236_consen 4 RKPTLELINKLKEADKSSKNNRYVLTGERGSGKSVLLAQ-AVHYAREN---G-WIVLYVPS 59 (309)
T ss_pred chHHHHHHHHHHHhcccCCceEEEEECCCCCCHHHHHHH-HHHHHHhC---C-EEEEEcCC
Confidence 555567777777763333 3589999999999997666 57888865 3 45554443
No 496
>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR). DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.
Probab=66.43 E-value=2.7 Score=39.63 Aligned_cols=68 Identities=10% Similarity=0.059 Sum_probs=41.4
Q ss_pred eEEEcCeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHh-hCCCCCceEEEE
Q 006790 2 IFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVL-SKPENPVKLIYC 73 (631)
Q Consensus 2 ~~~i~~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~-~~~~~~~~vi~~ 73 (631)
.+.+++++..|+-.. +..+......+-=.+..|+.+.+-+|.|+|||. |+-+++-.. ..+... .|.+-
T Consensus 3 ~l~~~~ls~~~~~~~-~~~~~~~l~~~~~~i~~Ge~~~l~G~nGsGKSt--Ll~~i~Gl~~~~~~~G-~i~~~ 71 (194)
T cd03213 3 TLSFRNLTVTVKSSP-SKSGKQLLKNVSGKAKPGELTAIMGPSGAGKST--LLNALAGRRTGLGVSG-EVLIN 71 (194)
T ss_pred EEEEEeeEEEEecCC-CcccccceecceEEEcCCcEEEEECCCCCCHHH--HHHHHhCCCCCCCCce-EEEEC
Confidence 466788888876321 122233455555566778899999999999986 554444322 023334 56654
No 497
>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=66.41 E-value=23 Score=34.44 Aligned_cols=51 Identities=25% Similarity=0.208 Sum_probs=32.8
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEEecc
Q 006790 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (631)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~t~T 76 (631)
|.=.+....+..|+.......+.+|+|||||-. +-.++.+. |+ .+++---+
T Consensus 16 plt~r~~~~l~~al~~~~~~~~~GpagtGKtet--ik~La~~l----G~-~~~vfnc~ 66 (231)
T PF12774_consen 16 PLTDRCFLTLTQALSLNLGGALSGPAGTGKTET--IKDLARAL----GR-FVVVFNCS 66 (231)
T ss_dssp HHHHHHHHHHHHHHCTTTEEEEESSTTSSHHHH--HHHHHHCT----T---EEEEETT
T ss_pred hHHHHHHHHHHHHhccCCCCCCcCCCCCCchhH--HHHHHHHh----CC-eEEEeccc
Confidence 434555667777888777889999999999984 44455443 55 45444333
No 498
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=66.26 E-value=11 Score=36.38 Aligned_cols=27 Identities=22% Similarity=0.140 Sum_probs=19.8
Q ss_pred HhcCCcEEEecCCCChhHHHHHHHHHH
Q 006790 32 LDAKGHCLLEMPTGTGKTIALLSLITS 58 (631)
Q Consensus 32 l~~~~~~~iEapTGtGKTla~L~~~l~ 58 (631)
+..+....|.+|+|+|||.-.+.-+..
T Consensus 16 ~~~g~v~~I~G~~GsGKT~l~~~ia~~ 42 (226)
T cd01393 16 IPTGRITEIFGEFGSGKTQLCLQLAVE 42 (226)
T ss_pred CcCCcEEEEeCCCCCChhHHHHHHHHH
Confidence 344578999999999999855554333
No 499
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=66.22 E-value=1.6 Score=41.71 Aligned_cols=62 Identities=23% Similarity=0.197 Sum_probs=39.6
Q ss_pred CeEEEcCeEeeCCCCCCChHHHHHHHHHHHHHhcCCcEEEecCCCChhHHHHHHHHHHHHhhCCCCCceEEEE
Q 006790 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (631)
Q Consensus 1 ~~~~i~~~~~~Fpy~~~r~~Q~~~~~~v~~~l~~~~~~~iEapTGtGKTla~L~~~l~~~~~~~~~~~~vi~~ 73 (631)
|.+.++++++.|+= +. ....+.=.+..|+.+.|-+|.|+|||- |+-++.-. ..+..+ +|.|-
T Consensus 1 m~l~~~~l~~~~~~---~~----~l~~is~~i~~Ge~~~i~G~nGsGKST--Ll~~l~G~-~~~~~G-~i~~~ 62 (207)
T PRK13539 1 MMLEGEDLACVRGG---RV----LFSGLSFTLAAGEALVLTGPNGSGKTT--LLRLIAGL-LPPAAG-TIKLD 62 (207)
T ss_pred CEEEEEeEEEEECC---eE----EEeceEEEEcCCCEEEEECCCCCCHHH--HHHHHhCC-CCCCCc-eEEEC
Confidence 77889999988752 11 334444455678899999999999986 44434322 123334 66664
No 500
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=66.04 E-value=5.1 Score=37.53 Aligned_cols=26 Identities=27% Similarity=0.459 Sum_probs=21.1
Q ss_pred CcEEEecCCCChhHHHHHHHHHHHHhhC
Q 006790 36 GHCLLEMPTGTGKTIALLSLITSYVLSK 63 (631)
Q Consensus 36 ~~~~iEapTGtGKTla~L~~~l~~~~~~ 63 (631)
+.-+|-||+|+|||- ++-|+.|+...
T Consensus 20 g~~vi~G~Ng~GKSt--il~ai~~~L~~ 45 (202)
T PF13476_consen 20 GLNVIYGPNGSGKST--ILEAIRYALGG 45 (202)
T ss_dssp EEEEEEESTTSSHHH--HHHHHHHHHHS
T ss_pred CcEEEECCCCCCHHH--HHHHHHHHHcC
Confidence 467889999999998 66778887754
Done!