Query 007505
Match_columns 601
No_of_seqs 218 out of 1796
Neff 9.2
Searched_HMMs 46136
Date Thu Mar 28 11:31:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007505.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007505hhsearch_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 7E-108 1E-112 808.8 50.9 599 1-601 1-599 (755)
2 TIGR00604 rad3 DNA repair heli 100.0 2.5E-87 5.3E-92 747.7 52.3 586 7-601 1-591 (705)
3 KOG1132 Helicase of the DEAD s 100.0 4.3E-80 9.2E-85 648.8 42.3 562 3-601 8-632 (945)
4 KOG1133 Helicase of the DEAD s 100.0 2.7E-77 5.9E-82 611.1 41.5 540 6-600 6-695 (821)
5 PRK11747 dinG ATP-dependent DN 100.0 7.4E-61 1.6E-65 529.9 42.7 517 14-599 24-592 (697)
6 PRK08074 bifunctional ATP-depe 100.0 1.5E-56 3.1E-61 510.7 43.3 522 14-599 256-811 (928)
7 TIGR01407 dinG_rel DnaQ family 100.0 6.4E-53 1.4E-57 479.5 39.4 480 12-599 242-732 (850)
8 TIGR03117 cas_csf4 CRISPR-asso 100.0 8.5E-51 1.8E-55 435.0 42.5 492 20-599 1-529 (636)
9 COG1199 DinG Rad3-related DNA 100.0 5.2E-50 1.1E-54 448.1 37.7 511 7-598 6-534 (654)
10 PRK07246 bifunctional ATP-depe 100.0 4.8E-49 1E-53 441.1 40.7 453 13-599 243-701 (820)
11 smart00489 DEXDc3 DEAD-like he 100.0 1.3E-49 2.7E-54 396.2 24.1 259 9-269 2-278 (289)
12 smart00488 DEXDc2 DEAD-like he 100.0 1.3E-49 2.7E-54 396.2 24.1 259 9-269 2-278 (289)
13 PF06733 DEAD_2: DEAD_2; Inte 100.0 8.2E-34 1.8E-38 263.1 6.2 173 72-256 1-174 (174)
14 PF06777 DUF1227: Protein of u 99.7 2.2E-17 4.8E-22 141.7 12.6 142 272-413 5-146 (146)
15 cd00268 DEADc DEAD-box helicas 99.4 1.8E-12 3.9E-17 123.7 12.0 74 12-90 17-92 (203)
16 PF00270 DEAD: DEAD/DEAH box h 99.3 7.6E-12 1.7E-16 115.5 10.5 67 18-90 1-67 (169)
17 PF04851 ResIII: Type III rest 99.3 1.7E-11 3.7E-16 114.7 12.4 67 17-90 4-73 (184)
18 PRK04837 ATP-dependent RNA hel 99.3 2.1E-11 4.5E-16 129.8 12.4 76 11-91 25-107 (423)
19 PRK11192 ATP-dependent RNA hel 99.3 3.7E-11 8E-16 128.4 13.3 76 12-91 19-97 (434)
20 PRK10590 ATP-dependent RNA hel 99.2 3.7E-11 8.1E-16 128.9 12.1 77 12-92 19-100 (456)
21 PRK04537 ATP-dependent RNA hel 99.2 4.9E-11 1.1E-15 130.6 13.0 75 12-91 27-108 (572)
22 PRK11776 ATP-dependent RNA hel 99.2 4E-11 8.7E-16 129.1 11.8 75 12-91 22-96 (460)
23 PLN00206 DEAD-box ATP-dependen 99.2 4.7E-11 1E-15 129.8 12.2 74 12-90 139-219 (518)
24 PRK11634 ATP-dependent RNA hel 99.2 7.5E-11 1.6E-15 130.0 12.4 76 12-92 24-99 (629)
25 PTZ00110 helicase; Provisional 99.2 7.4E-11 1.6E-15 128.7 11.8 74 12-90 148-226 (545)
26 PTZ00424 helicase 45; Provisio 99.2 1.8E-10 3.9E-15 122.0 13.6 75 11-90 45-119 (401)
27 PRK01297 ATP-dependent RNA hel 99.2 1.5E-10 3.3E-15 124.9 12.0 76 12-91 105-186 (475)
28 PRK10917 ATP-dependent DNA hel 99.1 3.8E-10 8.2E-15 126.3 14.2 92 8-112 254-347 (681)
29 TIGR00643 recG ATP-dependent D 99.1 4.8E-10 1E-14 124.7 12.9 90 10-112 230-321 (630)
30 TIGR00614 recQ_fam ATP-depende 99.1 4.8E-10 1E-14 120.7 12.1 70 9-89 4-73 (470)
31 TIGR03817 DECH_helic helicase/ 99.1 1.5E-09 3.2E-14 122.3 14.2 73 12-90 32-104 (742)
32 TIGR01389 recQ ATP-dependent D 99.1 1.1E-09 2.4E-14 121.4 13.1 69 10-89 7-75 (591)
33 TIGR00580 mfd transcription-re 99.0 1.5E-09 3.2E-14 123.6 13.0 77 10-91 446-524 (926)
34 PRK11057 ATP-dependent DNA hel 99.0 2.5E-09 5.3E-14 118.5 12.6 69 10-89 19-87 (607)
35 PRK13767 ATP-dependent helicas 99.0 2.9E-09 6.3E-14 122.3 12.6 71 14-88 30-105 (876)
36 smart00487 DEXDc DEAD-like hel 99.0 4.9E-09 1.1E-13 98.9 11.6 74 12-90 4-77 (201)
37 PRK02362 ski2-like helicase; P 98.9 6E-09 1.3E-13 118.3 11.8 72 12-90 19-90 (737)
38 KOG0350 DEAD-box ATP-dependent 98.9 6.7E-09 1.5E-13 105.2 9.9 149 17-245 160-313 (620)
39 PRK01172 ski2-like helicase; P 98.9 8.5E-09 1.8E-13 116.2 11.6 70 12-90 19-88 (674)
40 PRK00254 ski2-like helicase; P 98.9 1.5E-08 3.2E-13 114.9 12.4 73 12-90 19-91 (720)
41 PF13307 Helicase_C_2: Helicas 98.8 3.3E-09 7.2E-14 97.3 5.5 68 524-601 1-68 (167)
42 PRK09694 helicase Cas3; Provis 98.8 1.3E-08 2.8E-13 114.9 10.1 69 16-90 286-354 (878)
43 KOG0345 ATP-dependent RNA heli 98.8 3.9E-08 8.4E-13 99.1 11.4 75 12-90 24-102 (567)
44 COG0513 SrmB Superfamily II DN 98.8 5.5E-08 1.2E-12 105.3 12.9 76 13-92 48-124 (513)
45 PRK09401 reverse gyrase; Revie 98.8 5.6E-08 1.2E-12 113.7 13.5 71 12-91 77-147 (1176)
46 PRK10689 transcription-repair 98.8 5.5E-08 1.2E-12 113.4 13.2 77 9-90 594-672 (1147)
47 TIGR02621 cas3_GSU0051 CRISPR- 98.7 3.7E-08 8.1E-13 109.5 10.7 76 12-93 12-88 (844)
48 TIGR03714 secA2 accessory Sec 98.7 9.9E-08 2.1E-12 105.0 13.1 67 18-92 70-136 (762)
49 COG1204 Superfamily II helicas 98.7 3.9E-08 8.5E-13 109.9 9.3 69 17-91 32-100 (766)
50 KOG0331 ATP-dependent RNA heli 98.7 4.7E-08 1E-12 102.3 8.4 73 13-90 110-188 (519)
51 cd00046 DEXDc DEAD-like helica 98.7 1.1E-07 2.3E-12 84.2 9.3 53 36-90 1-53 (144)
52 PRK13766 Hef nuclease; Provisi 98.6 1.2E-07 2.6E-12 108.9 11.4 69 13-90 13-81 (773)
53 KOG0354 DEAD-box like helicase 98.6 1.5E-07 3.2E-12 101.8 10.8 67 16-89 62-128 (746)
54 PRK09200 preprotein translocas 98.6 2.5E-07 5.4E-12 102.9 12.2 65 18-92 80-144 (790)
55 PHA02653 RNA helicase NPH-II; 98.6 2.9E-07 6.3E-12 101.6 12.5 77 13-90 155-245 (675)
56 PHA02558 uvsW UvsW helicase; P 98.6 3.2E-07 6.9E-12 99.5 12.3 68 16-90 114-181 (501)
57 PRK11448 hsdR type I restricti 98.6 3.2E-07 6.9E-12 106.9 13.0 71 17-89 414-485 (1123)
58 PRK14701 reverse gyrase; Provi 98.6 5.3E-07 1.2E-11 108.1 14.3 73 11-92 75-147 (1638)
59 PRK05580 primosome assembly pr 98.6 6.7E-07 1.5E-11 100.1 14.4 71 13-89 142-212 (679)
60 COG1111 MPH1 ERCC4-like helica 98.6 3.5E-07 7.6E-12 93.7 10.5 68 17-92 16-83 (542)
61 COG1205 Distinct helicase fami 98.6 4.4E-07 9.6E-12 103.0 12.3 69 17-91 71-139 (851)
62 KOG0335 ATP-dependent RNA heli 98.5 1.6E-07 3.5E-12 96.7 7.6 74 13-90 93-175 (482)
63 TIGR01587 cas3_core CRISPR-ass 98.5 4.4E-07 9.6E-12 94.5 10.7 51 38-90 2-52 (358)
64 TIGR00603 rad25 DNA repair hel 98.5 6.2E-07 1.3E-11 98.8 11.6 68 12-90 252-321 (732)
65 TIGR00963 secA preprotein tran 98.5 6.9E-07 1.5E-11 97.9 11.7 55 32-92 68-122 (745)
66 COG1201 Lhr Lhr-like helicases 98.5 7.8E-07 1.7E-11 98.6 11.6 73 14-90 20-96 (814)
67 PRK12899 secA preprotein trans 98.5 1.2E-06 2.6E-11 97.4 12.7 67 18-92 94-160 (970)
68 PLN03137 ATP-dependent DNA hel 98.4 6.5E-07 1.4E-11 101.6 9.3 68 10-88 454-521 (1195)
69 COG1061 SSL2 DNA or RNA helica 98.4 1.4E-06 3.1E-11 92.7 11.4 72 10-89 31-102 (442)
70 TIGR01054 rgy reverse gyrase. 98.4 2.1E-06 4.6E-11 100.8 12.4 71 12-91 75-145 (1171)
71 KOG0338 ATP-dependent RNA heli 98.3 1.8E-06 3.8E-11 88.2 8.2 77 12-92 199-277 (691)
72 PRK12898 secA preprotein trans 98.3 5.8E-06 1.3E-10 90.2 12.8 66 17-92 104-169 (656)
73 KOG0342 ATP-dependent RNA heli 98.3 9.2E-07 2E-11 90.0 5.5 79 12-94 100-181 (543)
74 smart00492 HELICc3 helicase su 98.2 2.7E-06 5.8E-11 75.3 6.8 57 542-601 1-57 (141)
75 smart00491 HELICc2 helicase su 98.2 2.6E-06 5.6E-11 75.5 6.7 56 542-601 1-56 (142)
76 COG4889 Predicted helicase [Ge 98.2 1.1E-05 2.3E-10 87.4 12.0 167 6-241 152-318 (1518)
77 COG0514 RecQ Superfamily II DN 98.2 4.7E-06 1E-10 89.2 9.4 70 9-89 10-79 (590)
78 PRK09751 putative ATP-dependen 98.2 6E-06 1.3E-10 97.7 10.1 50 40-89 1-59 (1490)
79 PRK13104 secA preprotein trans 98.2 5.2E-06 1.1E-10 92.6 9.0 51 38-92 98-148 (896)
80 KOG0330 ATP-dependent RNA heli 98.2 7.3E-06 1.6E-10 81.2 8.9 87 14-113 81-167 (476)
81 TIGR00595 priA primosomal prot 98.1 9.9E-06 2.1E-10 87.5 10.1 47 39-89 1-47 (505)
82 PRK11664 ATP-dependent RNA hel 98.1 1.4E-05 3E-10 90.9 11.6 62 23-88 8-69 (812)
83 KOG0348 ATP-dependent RNA heli 98.1 4.9E-06 1.1E-10 85.5 6.3 77 11-92 154-236 (708)
84 COG1202 Superfamily II helicas 98.1 1.2E-05 2.5E-10 83.5 8.8 71 13-89 213-283 (830)
85 TIGR01970 DEAH_box_HrpB ATP-de 98.0 4.1E-05 8.9E-10 86.9 12.4 62 23-88 5-66 (819)
86 KOG0343 RNA Helicase [RNA proc 98.0 9.5E-06 2.1E-10 83.7 6.1 75 14-92 89-166 (758)
87 KOG0344 ATP-dependent RNA heli 98.0 1.5E-05 3.3E-10 83.2 6.9 75 12-90 154-232 (593)
88 KOG0346 RNA helicase [RNA proc 97.9 1.3E-05 2.9E-10 80.6 6.0 77 13-94 38-120 (569)
89 PF13245 AAA_19: Part of AAA d 97.9 4.9E-05 1.1E-09 59.4 7.4 59 27-87 2-62 (76)
90 PRK04914 ATP-dependent helicas 97.8 0.00014 3.1E-09 83.3 12.3 68 17-89 153-220 (956)
91 PF00176 SNF2_N: SNF2 family N 97.8 0.00011 2.3E-09 74.4 10.3 70 20-91 1-81 (299)
92 PRK12904 preprotein translocas 97.8 0.00012 2.5E-09 81.9 10.5 65 18-92 83-147 (830)
93 COG1200 RecG RecG-like helicas 97.8 0.00012 2.6E-09 78.7 10.1 89 11-112 258-348 (677)
94 PRK13107 preprotein translocas 97.7 0.00014 3.1E-09 81.2 10.4 53 37-93 97-149 (908)
95 COG4581 Superfamily II RNA hel 97.7 8.6E-05 1.9E-09 84.2 7.8 71 10-89 114-184 (1041)
96 TIGR03158 cas3_cyano CRISPR-as 97.6 0.00017 3.7E-09 74.8 8.9 57 28-91 5-63 (357)
97 KOG0334 RNA helicase [RNA proc 97.6 0.0001 2.2E-09 82.1 7.2 91 10-113 381-476 (997)
98 KOG0339 ATP-dependent RNA heli 97.6 0.00016 3.5E-09 74.2 7.3 57 35-92 260-321 (731)
99 TIGR00348 hsdR type I site-spe 97.6 0.00019 4.1E-09 80.6 8.7 72 17-90 239-316 (667)
100 PLN03142 Probable chromatin-re 97.6 0.00031 6.7E-09 81.0 10.1 72 16-90 169-241 (1033)
101 KOG1802 RNA helicase nonsense 97.5 0.00062 1.3E-08 72.2 11.1 81 14-113 408-488 (935)
102 PRK13103 secA preprotein trans 97.5 0.00042 9.2E-09 77.6 9.8 51 38-92 98-148 (913)
103 KOG1803 DNA helicase [Replicat 97.5 0.00078 1.7E-08 71.1 10.6 71 10-88 180-250 (649)
104 KOG0333 U5 snRNP-like RNA heli 97.4 0.00038 8.3E-09 71.9 6.9 75 13-92 264-347 (673)
105 COG1197 Mfd Transcription-repa 97.2 0.003 6.6E-08 72.2 12.5 76 9-89 588-665 (1139)
106 PF02562 PhoH: PhoH-like prote 97.2 0.00083 1.8E-08 63.1 6.8 56 17-78 5-60 (205)
107 PF13086 AAA_11: AAA domain; P 97.2 0.00075 1.6E-08 65.4 6.9 67 18-89 3-75 (236)
108 KOG0336 ATP-dependent RNA heli 97.2 0.00029 6.4E-09 70.4 3.5 73 12-89 238-316 (629)
109 PRK11131 ATP-dependent RNA hel 97.0 0.0017 3.6E-08 76.2 8.7 32 26-59 80-111 (1294)
110 COG1203 CRISPR-associated heli 97.0 0.0015 3.3E-08 74.1 8.2 72 18-90 197-269 (733)
111 PF13604 AAA_30: AAA domain; P 96.9 0.0034 7.3E-08 59.2 8.4 62 18-85 3-64 (196)
112 KOG0952 DNA/RNA helicase MER3/ 96.9 0.0029 6.3E-08 70.8 8.1 75 11-88 105-185 (1230)
113 KOG0328 Predicted ATP-dependen 96.9 0.00068 1.5E-08 64.7 2.8 74 12-90 45-118 (400)
114 KOG0340 ATP-dependent RNA heli 96.9 0.0031 6.6E-08 62.4 7.2 70 16-90 29-98 (442)
115 COG4096 HsdR Type I site-speci 96.8 0.004 8.8E-08 68.4 8.4 72 16-90 165-238 (875)
116 KOG0337 ATP-dependent RNA heli 96.8 0.0014 3E-08 66.2 4.2 74 13-90 40-113 (529)
117 PF07652 Flavi_DEAD: Flaviviru 96.7 0.0037 8E-08 54.6 6.2 53 33-88 2-54 (148)
118 KOG0326 ATP-dependent RNA heli 96.7 0.00074 1.6E-08 65.5 2.1 73 12-89 103-178 (459)
119 TIGR00376 DNA helicase, putati 96.7 0.0074 1.6E-07 67.3 9.9 67 16-89 157-223 (637)
120 KOG4284 DEAD box protein [Tran 96.6 0.00084 1.8E-08 71.0 1.7 73 17-90 25-116 (980)
121 KOG0385 Chromatin remodeling c 96.6 0.0074 1.6E-07 65.5 8.4 72 16-90 167-239 (971)
122 KOG1805 DNA replication helica 96.5 0.027 5.9E-07 62.9 12.1 65 18-89 671-735 (1100)
123 TIGR01967 DEAH_box_HrpA ATP-de 96.4 0.0082 1.8E-07 70.8 8.5 32 26-59 73-104 (1283)
124 PRK15483 type III restriction- 96.4 0.013 2.8E-07 66.8 9.3 73 12-87 3-109 (986)
125 PRK10536 hypothetical protein; 96.2 0.011 2.4E-07 57.3 6.4 56 16-78 59-114 (262)
126 PF00580 UvrD-helicase: UvrD/R 96.2 0.014 3E-07 59.3 7.6 64 18-89 2-67 (315)
127 COG1110 Reverse gyrase [DNA re 96.1 0.02 4.4E-07 64.3 8.9 71 12-91 79-149 (1187)
128 PRK12902 secA preprotein trans 96.0 0.048 1E-06 61.4 11.3 53 37-93 100-152 (939)
129 KOG0351 ATP-dependent DNA heli 96.0 0.0054 1.2E-07 70.1 3.6 66 9-85 257-322 (941)
130 CHL00122 secA preprotein trans 95.9 0.049 1.1E-06 61.2 10.5 53 36-92 90-142 (870)
131 KOG0353 ATP-dependent DNA heli 95.9 0.013 2.9E-07 58.1 5.3 68 12-90 90-157 (695)
132 COG0556 UvrB Helicase subunit 95.7 0.021 4.7E-07 59.7 6.5 75 8-90 5-80 (663)
133 KOG0926 DEAH-box RNA helicase 95.6 0.033 7.1E-07 60.9 7.6 88 451-555 414-504 (1172)
134 KOG0329 ATP-dependent RNA heli 95.6 0.019 4.2E-07 54.2 5.1 89 12-112 60-148 (387)
135 PRK12326 preprotein translocas 95.5 0.052 1.1E-06 59.9 8.9 66 18-93 80-145 (764)
136 KOG0951 RNA helicase BRR2, DEA 95.5 0.052 1.1E-06 62.3 8.7 91 12-114 305-403 (1674)
137 KOG0327 Translation initiation 95.4 0.0093 2E-07 59.8 2.5 69 12-85 44-112 (397)
138 PRK12906 secA preprotein trans 95.4 0.046 9.9E-07 61.4 8.1 66 18-93 82-147 (796)
139 KOG0352 ATP-dependent DNA heli 95.4 0.03 6.4E-07 56.9 5.9 70 11-90 14-84 (641)
140 KOG0947 Cytoplasmic exosomal R 95.3 0.038 8.3E-07 61.6 6.9 74 8-90 290-363 (1248)
141 PF01695 IstB_IS21: IstB-like 95.3 0.027 5.8E-07 52.1 4.9 59 12-74 22-82 (178)
142 KOG0347 RNA helicase [RNA proc 95.2 0.021 4.6E-07 59.8 4.3 87 13-111 200-299 (731)
143 PF07517 SecA_DEAD: SecA DEAD- 95.2 0.12 2.7E-06 50.7 9.4 71 12-93 74-144 (266)
144 KOG0922 DEAH-box RNA helicase 95.2 0.035 7.6E-07 59.7 5.9 28 23-50 54-81 (674)
145 TIGR02640 gas_vesic_GvpN gas v 95.1 0.061 1.3E-06 53.2 7.4 36 18-53 4-39 (262)
146 COG1198 PriA Primosomal protei 95.1 0.077 1.7E-06 59.2 8.6 70 17-90 199-268 (730)
147 PHA02244 ATPase-like protein 95.1 0.069 1.5E-06 54.6 7.5 49 10-60 94-142 (383)
148 PF12340 DUF3638: Protein of u 94.9 0.071 1.5E-06 50.7 6.6 68 17-89 24-91 (229)
149 TIGR00631 uvrb excinuclease AB 94.8 0.11 2.5E-06 58.0 9.2 74 9-90 3-77 (655)
150 PRK08181 transposase; Validate 94.8 0.07 1.5E-06 52.7 6.6 53 19-75 90-142 (269)
151 COG1484 DnaC DNA replication p 94.7 0.084 1.8E-06 51.8 6.9 51 22-76 92-142 (254)
152 PRK06835 DNA replication prote 94.5 0.09 2E-06 53.6 6.8 37 35-75 183-219 (329)
153 KOG0387 Transcription-coupled 94.4 0.24 5.1E-06 54.5 9.9 85 14-112 203-289 (923)
154 COG4098 comFA Superfamily II D 94.2 0.19 4.2E-06 49.9 8.0 59 17-79 98-156 (441)
155 COG0714 MoxR-like ATPases [Gen 94.1 0.1 2.2E-06 53.6 6.4 56 18-78 26-81 (329)
156 KOG0948 Nuclear exosomal RNA h 93.9 0.11 2.3E-06 56.7 6.0 70 11-89 125-194 (1041)
157 PRK13531 regulatory ATPase Rav 93.7 0.057 1.2E-06 57.2 3.6 34 19-52 23-56 (498)
158 TIGR02562 cas3_yersinia CRISPR 93.6 0.29 6.4E-06 56.2 9.2 86 17-113 409-500 (1110)
159 PRK05298 excinuclease ABC subu 93.5 0.3 6.5E-06 54.9 9.2 75 8-90 5-80 (652)
160 cd00009 AAA The AAA+ (ATPases 93.3 0.19 4.2E-06 44.0 6.0 31 20-50 2-34 (151)
161 PF06309 Torsin: Torsin; Inte 93.2 0.56 1.2E-05 40.2 8.2 55 20-74 29-93 (127)
162 PF01078 Mg_chelatase: Magnesi 92.9 0.1 2.2E-06 48.9 3.6 34 19-52 6-39 (206)
163 KOG0389 SNF2 family DNA-depend 92.8 0.072 1.6E-06 58.3 2.7 68 179-247 466-544 (941)
164 PRK06526 transposase; Provisio 92.7 0.12 2.6E-06 50.8 4.0 41 30-74 93-133 (254)
165 PF00308 Bac_DnaA: Bacterial d 92.7 0.24 5.3E-06 47.5 6.0 62 12-76 5-73 (219)
166 KOG1123 RNA polymerase II tran 92.7 0.13 2.9E-06 53.4 4.3 42 12-56 298-341 (776)
167 PRK06921 hypothetical protein; 92.7 0.41 8.9E-06 47.4 7.8 38 35-75 117-154 (266)
168 PRK12377 putative replication 92.6 0.36 7.9E-06 47.1 7.2 54 18-75 80-137 (248)
169 PRK13894 conjugal transfer ATP 92.6 0.3 6.5E-06 49.6 6.8 26 25-50 138-163 (319)
170 PRK08939 primosomal protein Dn 92.4 0.38 8.3E-06 48.6 7.3 51 20-74 135-191 (306)
171 PF09848 DUF2075: Uncharacteri 92.3 0.25 5.4E-06 51.3 6.0 51 36-88 2-52 (352)
172 COG1474 CDC6 Cdc6-related prot 92.3 0.6 1.3E-05 48.4 8.7 70 18-88 22-94 (366)
173 TIGR01970 DEAH_box_HrpB ATP-de 92.1 1.1 2.4E-05 51.5 11.3 73 518-599 195-269 (819)
174 PRK07952 DNA replication prote 92.0 0.5 1.1E-05 46.0 7.3 52 19-74 79-134 (244)
175 PRK12901 secA preprotein trans 92.0 0.79 1.7E-05 52.7 9.6 63 4-77 158-220 (1112)
176 PRK13407 bchI magnesium chelat 92.0 0.12 2.7E-06 52.7 3.1 40 10-50 3-44 (334)
177 TIGR02030 BchI-ChlI magnesium 91.8 0.19 4E-06 51.5 4.3 39 12-51 1-41 (337)
178 PRK09183 transposase/IS protei 91.8 0.24 5.1E-06 48.9 4.9 39 32-74 99-137 (259)
179 PF05970 PIF1: PIF1-like helic 91.7 0.39 8.4E-06 50.0 6.6 55 18-76 3-59 (364)
180 PRK14873 primosome assembly pr 91.7 1.2 2.6E-05 49.9 10.7 48 38-89 163-210 (665)
181 KOG0989 Replication factor C, 91.5 0.28 6.1E-06 48.3 4.8 37 19-55 39-77 (346)
182 PRK11664 ATP-dependent RNA hel 91.5 1.3 2.8E-05 51.1 10.9 72 519-599 199-272 (812)
183 PF06745 KaiC: KaiC; InterPro 91.3 0.39 8.5E-06 46.3 5.8 52 34-89 18-69 (226)
184 KOG1000 Chromatin remodeling p 90.7 1.5 3.3E-05 45.9 9.3 34 26-59 205-238 (689)
185 KOG1002 Nucleotide excision re 90.7 1.5 3.3E-05 45.9 9.2 68 18-91 186-254 (791)
186 PRK13900 type IV secretion sys 90.1 0.76 1.6E-05 47.0 6.7 45 23-72 148-192 (332)
187 cd01124 KaiC KaiC is a circadi 90.0 0.75 1.6E-05 42.6 6.2 46 38-88 2-47 (187)
188 COG1110 Reverse gyrase [DNA re 89.7 1.4 3.1E-05 50.3 8.8 109 451-600 276-391 (1187)
189 TIGR02768 TraA_Ti Ti-type conj 89.7 0.75 1.6E-05 52.6 7.0 60 17-83 353-412 (744)
190 PRK08116 hypothetical protein; 89.7 1.1 2.4E-05 44.4 7.4 34 37-74 116-149 (268)
191 PRK05973 replicative DNA helic 89.6 0.42 9.1E-06 46.2 4.2 56 27-87 56-111 (237)
192 COG1643 HrpA HrpA-like helicas 89.6 1.3 2.8E-05 50.6 8.6 83 453-554 197-281 (845)
193 PRK05642 DNA replication initi 89.5 0.76 1.7E-05 44.6 6.1 37 36-76 46-82 (234)
194 PF02399 Herpes_ori_bp: Origin 89.5 0.57 1.2E-05 52.4 5.6 51 34-89 48-100 (824)
195 PF02367 UPF0079: Uncharacteri 89.5 0.47 1E-05 40.7 4.0 52 22-80 2-53 (123)
196 PRK13889 conjugal transfer rel 89.4 0.92 2E-05 53.0 7.4 60 17-83 347-406 (988)
197 PRK10919 ATP-dependent DNA hel 89.4 0.83 1.8E-05 51.7 7.0 65 18-90 4-70 (672)
198 TIGR01967 DEAH_box_HrpA ATP-de 89.3 1.2 2.6E-05 53.2 8.4 41 515-555 262-302 (1283)
199 PRK14952 DNA polymerase III su 89.1 0.34 7.4E-06 53.3 3.6 35 20-54 17-54 (584)
200 PRK11131 ATP-dependent RNA hel 88.9 1.5 3.2E-05 52.5 8.7 41 515-555 269-309 (1294)
201 PF00158 Sigma54_activat: Sigm 88.8 1.4 3.1E-05 40.2 7.0 57 19-78 6-62 (168)
202 TIGR00764 lon_rel lon-related 88.8 1.2 2.5E-05 49.7 7.5 55 19-77 21-76 (608)
203 PRK14955 DNA polymerase III su 88.7 0.47 1E-05 50.1 4.2 35 20-54 20-57 (397)
204 PRK05201 hslU ATP-dependent pr 88.7 0.63 1.4E-05 48.6 5.0 33 18-50 17-65 (443)
205 KOG0391 SNF2 family DNA-depend 88.7 0.92 2E-05 52.2 6.4 46 9-54 603-653 (1958)
206 PRK13833 conjugal transfer pro 88.6 1.1 2.5E-05 45.4 6.7 25 26-50 135-159 (323)
207 TIGR01447 recD exodeoxyribonuc 88.6 1.9 4.2E-05 47.7 9.0 65 19-87 148-213 (586)
208 cd00984 DnaB_C DnaB helicase C 88.6 0.49 1.1E-05 46.1 4.0 45 29-76 7-51 (242)
209 PHA00729 NTP-binding motif con 88.6 0.58 1.3E-05 44.7 4.3 27 24-50 4-32 (226)
210 smart00382 AAA ATPases associa 88.5 0.56 1.2E-05 40.5 4.0 19 35-53 2-20 (148)
211 COG0606 Predicted ATPase with 88.5 0.43 9.4E-06 50.0 3.6 32 19-50 182-213 (490)
212 PRK08533 flagellar accessory p 88.4 1.4 3.1E-05 42.5 7.0 53 32-89 21-73 (230)
213 TIGR03420 DnaA_homol_Hda DnaA 88.3 0.87 1.9E-05 43.7 5.5 33 20-52 21-55 (226)
214 PRK11773 uvrD DNA-dependent he 88.3 1.2 2.6E-05 51.0 7.4 67 16-90 9-77 (721)
215 TIGR01650 PD_CobS cobaltochela 88.3 0.83 1.8E-05 46.2 5.4 31 23-53 52-82 (327)
216 PRK10875 recD exonuclease V su 88.2 1.9 4.1E-05 47.9 8.7 74 11-88 146-220 (615)
217 PRK08727 hypothetical protein; 88.2 1.1 2.3E-05 43.5 6.0 36 36-75 42-77 (233)
218 TIGR02782 TrbB_P P-type conjug 88.1 1.3 2.8E-05 44.7 6.7 28 24-51 121-148 (299)
219 TIGR00150 HI0065_YjeE ATPase, 88.0 0.74 1.6E-05 40.1 4.3 53 22-81 9-61 (133)
220 PRK12402 replication factor C 88.0 0.59 1.3E-05 48.0 4.4 34 20-53 19-54 (337)
221 TIGR03877 thermo_KaiC_1 KaiC d 88.0 1 2.2E-05 43.8 5.8 53 32-89 18-70 (237)
222 TIGR01448 recD_rel helicase, p 87.9 1.9 4.2E-05 49.1 8.7 65 12-83 320-384 (720)
223 CHL00081 chlI Mg-protoporyphyr 87.8 0.37 8E-06 49.4 2.6 40 10-50 12-53 (350)
224 PRK11331 5-methylcytosine-spec 87.5 0.67 1.4E-05 48.9 4.3 31 23-53 182-212 (459)
225 TIGR00390 hslU ATP-dependent p 87.5 0.61 1.3E-05 48.7 4.0 35 18-52 14-64 (441)
226 TIGR01074 rep ATP-dependent DN 87.4 1.5 3.3E-05 49.7 7.6 64 18-89 3-68 (664)
227 TIGR01075 uvrD DNA helicase II 87.4 1.2 2.7E-05 50.9 6.8 66 17-90 5-72 (715)
228 PLN03025 replication factor C 87.4 0.73 1.6E-05 47.0 4.5 34 20-53 17-52 (319)
229 PRK14962 DNA polymerase III su 87.3 0.56 1.2E-05 50.4 3.8 34 20-53 18-54 (472)
230 COG1219 ClpX ATP-dependent pro 87.3 0.7 1.5E-05 45.8 4.0 35 35-76 97-131 (408)
231 COG3973 Superfamily I DNA and 87.3 1.4 3.1E-05 47.4 6.6 50 513-562 636-685 (747)
232 COG4962 CpaF Flp pilus assembl 87.1 1.2 2.5E-05 45.0 5.5 51 25-80 163-213 (355)
233 TIGR02880 cbbX_cfxQ probable R 87.1 0.8 1.7E-05 45.8 4.5 17 36-52 59-75 (284)
234 TIGR02785 addA_Gpos recombinat 87.0 1.5 3.3E-05 53.2 7.6 62 17-85 2-63 (1232)
235 KOG0991 Replication factor C, 86.8 1 2.2E-05 42.6 4.7 33 23-55 34-68 (333)
236 KOG0920 ATP-dependent RNA heli 86.6 0.65 1.4E-05 53.0 3.9 36 520-555 400-436 (924)
237 COG3587 Restriction endonuclea 86.6 0.51 1.1E-05 52.6 3.0 44 37-82 76-119 (985)
238 PRK13851 type IV secretion sys 86.5 1.2 2.6E-05 45.7 5.5 27 24-50 151-177 (344)
239 PRK14956 DNA polymerase III su 86.4 0.65 1.4E-05 49.5 3.6 35 20-54 22-59 (484)
240 KOG0386 Chromatin remodeling c 86.4 1.7 3.7E-05 49.4 6.9 47 16-63 394-440 (1157)
241 TIGR00382 clpX endopeptidase C 86.1 0.8 1.7E-05 48.1 4.0 34 19-52 80-133 (413)
242 PRK14087 dnaA chromosomal repl 85.9 3.1 6.7E-05 44.6 8.5 59 23-85 124-188 (450)
243 PRK14961 DNA polymerase III su 85.9 0.99 2.1E-05 47.0 4.7 34 20-53 20-56 (363)
244 PF05673 DUF815: Protein of un 85.8 5.1 0.00011 38.7 8.9 67 18-88 32-102 (249)
245 PF07728 AAA_5: AAA domain (dy 85.7 1.5 3.3E-05 38.4 5.1 17 37-53 1-17 (139)
246 PF13191 AAA_16: AAA ATPase do 85.6 0.4 8.7E-06 44.3 1.4 34 18-51 5-40 (185)
247 PHA02653 RNA helicase NPH-II; 85.5 12 0.00026 42.3 13.0 60 531-599 394-453 (675)
248 PRK00411 cdc6 cell division co 85.4 2.8 6E-05 44.1 7.9 37 18-54 35-74 (394)
249 COG1875 NYN ribonuclease and A 85.3 1.7 3.8E-05 44.0 5.7 63 12-79 224-288 (436)
250 PRK08084 DNA replication initi 85.3 1.9 4.1E-05 41.8 6.0 37 36-76 46-82 (235)
251 PRK00440 rfc replication facto 85.0 0.86 1.9E-05 46.4 3.7 34 20-53 21-56 (319)
252 KOG0745 Putative ATP-dependent 84.8 0.8 1.7E-05 47.3 3.2 39 35-80 226-264 (564)
253 TIGR02928 orc1/cdc6 family rep 84.7 3.6 7.9E-05 42.7 8.3 36 18-53 20-58 (365)
254 PRK08903 DnaA regulatory inact 84.7 1.8 3.8E-05 41.7 5.5 38 35-76 42-79 (227)
255 PF14532 Sigma54_activ_2: Sigm 84.7 1.5 3.2E-05 38.5 4.6 32 20-51 6-37 (138)
256 PRK05342 clpX ATP-dependent pr 84.7 0.93 2E-05 47.8 3.8 34 19-52 74-125 (412)
257 PF07726 AAA_3: ATPase family 84.7 0.65 1.4E-05 40.0 2.1 17 37-53 1-17 (131)
258 PF12775 AAA_7: P-loop contain 84.6 1.2 2.6E-05 44.3 4.3 35 18-52 16-50 (272)
259 cd01130 VirB11-like_ATPase Typ 84.6 1 2.2E-05 41.9 3.7 29 19-50 12-40 (186)
260 PRK14960 DNA polymerase III su 84.5 0.93 2E-05 50.1 3.7 35 20-54 19-56 (702)
261 KOG0922 DEAH-box RNA helicase 84.3 4.2 9E-05 44.4 8.3 83 453-554 197-280 (674)
262 TIGR03015 pepcterm_ATPase puta 84.3 4.8 0.0001 39.7 8.6 36 18-53 25-61 (269)
263 PRK11608 pspF phage shock prot 83.9 4.2 9.1E-05 41.6 8.1 58 18-78 12-69 (326)
264 KOG1807 Helicases [Replication 83.6 3.1 6.6E-05 46.1 7.0 53 35-87 393-447 (1025)
265 COG1643 HrpA HrpA-like helicas 83.6 2.1 4.5E-05 49.0 6.1 28 24-51 54-81 (845)
266 cd01122 GP4d_helicase GP4d_hel 83.4 1.4 3.1E-05 43.6 4.4 42 30-74 25-66 (271)
267 KOG0744 AAA+-type ATPase [Post 83.4 1.7 3.7E-05 43.2 4.7 50 36-88 178-231 (423)
268 COG2804 PulE Type II secretory 83.4 1.8 4E-05 45.9 5.2 32 30-62 252-284 (500)
269 PF01580 FtsK_SpoIIIE: FtsK/Sp 83.4 1.9 4.2E-05 40.7 5.1 43 34-76 37-79 (205)
270 PF13401 AAA_22: AAA domain; P 83.2 0.74 1.6E-05 39.7 2.0 21 33-53 2-22 (131)
271 COG0593 DnaA ATPase involved i 83.1 3.8 8.2E-05 42.8 7.3 52 22-76 95-152 (408)
272 TIGR03880 KaiC_arch_3 KaiC dom 82.9 2.9 6.2E-05 40.2 6.1 50 34-88 15-64 (224)
273 PTZ00112 origin recognition co 82.9 1.4 3.1E-05 50.0 4.4 46 6-54 751-800 (1164)
274 PRK06067 flagellar accessory p 82.8 3 6.5E-05 40.4 6.3 53 32-89 22-74 (234)
275 PRK11054 helD DNA helicase IV; 82.8 3.4 7.3E-05 46.7 7.4 65 16-88 196-262 (684)
276 PRK04328 hypothetical protein; 82.7 2.5 5.5E-05 41.3 5.7 52 33-89 21-72 (249)
277 PRK06645 DNA polymerase III su 82.5 1.6 3.5E-05 47.3 4.6 35 20-54 25-62 (507)
278 KOG4439 RNA polymerase II tran 82.5 0.33 7.2E-06 52.7 -0.6 45 198-242 428-478 (901)
279 PRK12903 secA preprotein trans 82.3 3.4 7.4E-05 47.0 7.0 66 18-93 80-145 (925)
280 PF00437 T2SE: Type II/IV secr 82.3 1.9 4E-05 42.8 4.7 29 24-52 116-144 (270)
281 PHA02544 44 clamp loader, smal 82.3 1.2 2.7E-05 45.2 3.5 42 12-53 9-61 (316)
282 TIGR01073 pcrA ATP-dependent D 82.3 3.1 6.7E-05 47.7 7.0 66 17-90 5-72 (726)
283 PRK13765 ATP-dependent proteas 82.1 2.4 5.2E-05 47.3 5.8 65 19-86 34-98 (637)
284 PRK13826 Dtr system oriT relax 82.1 4.3 9.2E-05 48.0 8.0 62 17-85 382-443 (1102)
285 TIGR03878 thermo_KaiC_2 KaiC d 82.1 1.6 3.6E-05 43.0 4.1 39 32-74 33-71 (259)
286 PRK10646 ADP-binding protein; 82.1 1.7 3.7E-05 38.8 3.8 53 22-81 15-67 (153)
287 PF02456 Adeno_IVa2: Adenoviru 82.0 2.9 6.2E-05 41.4 5.5 39 37-78 89-128 (369)
288 TIGR00635 ruvB Holliday juncti 81.9 2 4.4E-05 43.4 4.9 34 20-53 8-48 (305)
289 PF05496 RuvB_N: Holliday junc 81.9 2.8 6.1E-05 39.9 5.4 33 18-50 26-65 (233)
290 PRK14950 DNA polymerase III su 81.9 1.2 2.5E-05 49.6 3.3 35 20-54 20-57 (585)
291 TIGR02442 Cob-chelat-sub cobal 81.7 1.5 3.2E-05 49.3 4.1 40 12-52 1-42 (633)
292 PF13481 AAA_25: AAA domain; P 81.6 4 8.6E-05 38.0 6.4 44 34-78 31-81 (193)
293 PRK12422 chromosomal replicati 81.5 4.3 9.4E-05 43.4 7.4 64 8-75 104-177 (445)
294 PF02534 T4SS-DNA_transf: Type 81.5 2 4.4E-05 46.4 5.0 70 36-121 45-115 (469)
295 COG0467 RAD55 RecA-superfamily 81.5 1.8 3.9E-05 42.7 4.3 40 31-74 19-58 (260)
296 PHA02533 17 large terminase pr 81.5 7.1 0.00015 42.8 9.1 72 12-90 56-127 (534)
297 KOG0951 RNA helicase BRR2, DEA 81.4 3.4 7.3E-05 48.3 6.6 50 34-88 1158-1207(1674)
298 KOG0332 ATP-dependent RNA heli 81.1 1.7 3.8E-05 43.9 3.8 75 12-90 108-183 (477)
299 PRK05896 DNA polymerase III su 80.9 1.3 2.8E-05 48.7 3.2 35 20-54 20-57 (605)
300 COG0610 Type I site-specific r 80.9 6.3 0.00014 46.5 8.9 72 18-91 250-327 (962)
301 KOG0949 Predicted helicase, DE 80.2 2.8 6.1E-05 47.7 5.4 68 14-88 510-577 (1330)
302 PRK00080 ruvB Holliday junctio 80.2 2.2 4.8E-05 43.7 4.5 35 19-53 28-69 (328)
303 TIGR02902 spore_lonB ATP-depen 80.1 1.7 3.6E-05 47.7 3.7 34 19-52 68-103 (531)
304 TIGR02524 dot_icm_DotB Dot/Icm 80.1 3.4 7.4E-05 42.8 5.8 33 19-51 117-150 (358)
305 PRK14958 DNA polymerase III su 80.0 2.1 4.5E-05 46.6 4.4 35 20-54 20-57 (509)
306 TIGR02655 circ_KaiC circadian 79.9 3.4 7.3E-05 44.9 6.0 51 34-89 262-312 (484)
307 PF13177 DNA_pol3_delta2: DNA 79.9 2.9 6.4E-05 37.9 4.7 34 20-53 1-37 (162)
308 COG1222 RPT1 ATP-dependent 26S 79.7 2.5 5.4E-05 42.8 4.4 43 36-86 186-228 (406)
309 PF03237 Terminase_6: Terminas 79.3 3.2 6.9E-05 42.9 5.5 45 39-85 1-45 (384)
310 CHL00181 cbbX CbbX; Provisiona 79.3 2.4 5.3E-05 42.4 4.3 19 36-54 60-78 (287)
311 PF01745 IPT: Isopentenyl tran 79.2 1.8 3.9E-05 40.7 3.1 33 37-76 3-35 (233)
312 TIGR02759 TraD_Ftype type IV c 79.2 2.6 5.5E-05 46.6 4.8 38 35-76 176-213 (566)
313 PRK14954 DNA polymerase III su 79.1 2.4 5.1E-05 47.2 4.5 35 20-54 20-57 (620)
314 TIGR03881 KaiC_arch_4 KaiC dom 79.1 2.7 5.9E-05 40.5 4.5 40 32-75 17-56 (229)
315 PF03796 DnaB_C: DnaB-like hel 78.9 2.8 6.1E-05 41.3 4.6 47 27-76 11-57 (259)
316 TIGR02974 phageshock_pspF psp 78.8 5.2 0.00011 41.0 6.6 30 21-50 8-37 (329)
317 PRK00149 dnaA chromosomal repl 78.8 5.6 0.00012 42.8 7.2 52 22-76 130-187 (450)
318 PRK14088 dnaA chromosomal repl 78.7 5.7 0.00012 42.5 7.2 37 36-75 131-168 (440)
319 TIGR01817 nifA Nif-specific re 78.3 6.5 0.00014 43.3 7.7 52 23-77 207-258 (534)
320 PRK09401 reverse gyrase; Revie 78.3 10 0.00022 45.7 9.7 61 524-599 320-383 (1176)
321 PRK05563 DNA polymerase III su 78.2 1.9 4E-05 47.7 3.4 36 20-55 20-58 (559)
322 TIGR00362 DnaA chromosomal rep 78.2 5.7 0.00012 42.0 7.0 51 22-75 118-174 (405)
323 COG2805 PilT Tfp pilus assembl 78.1 1.8 3.8E-05 42.8 2.7 50 13-63 102-152 (353)
324 PRK14949 DNA polymerase III su 78.0 2.6 5.6E-05 48.3 4.4 35 20-54 20-57 (944)
325 PRK11034 clpA ATP-dependent Cl 77.9 2 4.4E-05 49.0 3.6 34 19-52 461-505 (758)
326 cd00079 HELICc Helicase superf 77.9 15 0.00033 31.1 8.5 70 518-599 15-85 (131)
327 PRK14722 flhF flagellar biosyn 77.9 3.5 7.6E-05 42.8 5.0 20 34-53 136-155 (374)
328 COG1223 Predicted ATPase (AAA+ 77.9 2.4 5.1E-05 41.0 3.4 15 36-50 152-166 (368)
329 PRK14964 DNA polymerase III su 77.8 2.8 6E-05 45.2 4.4 35 20-54 17-54 (491)
330 PF00448 SRP54: SRP54-type pro 77.7 5.8 0.00013 37.2 6.1 38 37-77 3-40 (196)
331 PRK06893 DNA replication initi 77.6 6.2 0.00014 38.0 6.5 51 22-76 24-76 (229)
332 PRK15429 formate hydrogenlyase 77.6 5.3 0.00012 45.5 6.9 32 19-50 383-414 (686)
333 PRK10436 hypothetical protein; 77.5 4.5 9.8E-05 43.4 5.9 26 34-60 217-242 (462)
334 PRK12900 secA preprotein trans 77.4 5.4 0.00012 46.1 6.7 77 4-91 127-203 (1025)
335 PRK14957 DNA polymerase III su 77.4 3.1 6.7E-05 45.5 4.7 35 20-54 20-57 (546)
336 PRK04296 thymidine kinase; Pro 77.4 3.8 8.3E-05 38.2 4.8 35 35-73 2-36 (190)
337 PRK14969 DNA polymerase III su 77.4 2.8 6.2E-05 45.8 4.5 35 20-54 20-57 (527)
338 cd01131 PilT Pilus retraction 77.3 3.5 7.6E-05 38.8 4.6 17 36-52 2-18 (198)
339 PRK09361 radB DNA repair and r 77.3 3.1 6.7E-05 39.9 4.3 39 32-74 20-58 (225)
340 COG0630 VirB11 Type IV secreto 77.2 5.5 0.00012 40.4 6.2 49 24-77 132-180 (312)
341 COG1126 GlnQ ABC-type polar am 77.2 1.1 2.3E-05 42.2 0.9 62 2-74 2-63 (240)
342 PRK11192 ATP-dependent RNA hel 77.1 23 0.00049 37.8 11.3 67 522-599 234-302 (434)
343 PRK11776 ATP-dependent RNA hel 77.1 26 0.00056 37.7 11.8 58 531-599 241-299 (460)
344 smart00763 AAA_PrkA PrkA AAA d 76.9 4.1 8.9E-05 41.8 5.1 32 19-50 58-93 (361)
345 TIGR02881 spore_V_K stage V sp 76.8 3.1 6.7E-05 41.1 4.2 18 36-53 43-60 (261)
346 TIGR03346 chaperone_ClpB ATP-d 76.7 2.1 4.5E-05 49.9 3.4 36 18-53 567-613 (852)
347 COG1419 FlhF Flagellar GTP-bin 76.7 4.2 9.1E-05 42.1 5.2 40 35-76 203-243 (407)
348 KOG0729 26S proteasome regulat 76.6 2.6 5.6E-05 40.7 3.3 34 19-52 183-228 (435)
349 PRK14963 DNA polymerase III su 76.5 3.1 6.7E-05 45.2 4.4 36 19-54 17-55 (504)
350 TIGR02639 ClpA ATP-dependent C 76.3 2.4 5.1E-05 48.6 3.7 33 19-51 457-500 (731)
351 TIGR03499 FlhF flagellar biosy 76.3 8.3 0.00018 38.5 7.2 18 36-53 195-212 (282)
352 PRK13342 recombination factor 76.2 2.4 5.2E-05 45.0 3.5 35 19-53 15-54 (413)
353 KOG0384 Chromodomain-helicase 76.2 4.1 8.9E-05 47.5 5.3 72 16-90 370-442 (1373)
354 cd01126 TraG_VirD4 The TraG/Tr 76.1 1.3 2.8E-05 46.6 1.4 41 37-83 1-41 (384)
355 cd01125 repA Hexameric Replica 76.0 4.2 9.2E-05 39.5 4.9 25 36-60 2-26 (239)
356 COG4650 RtcR Sigma54-dependent 76.0 3.6 7.8E-05 40.3 4.2 35 16-50 188-223 (531)
357 KOG0341 DEAD-box protein abstr 75.9 0.99 2.2E-05 45.6 0.4 48 37-85 209-264 (610)
358 TIGR02688 conserved hypothetic 75.9 3.8 8.2E-05 42.9 4.6 35 19-53 193-227 (449)
359 TIGR00665 DnaB replicative DNA 75.8 3 6.5E-05 44.6 4.1 47 27-76 187-233 (434)
360 TIGR02788 VirB11 P-type DNA tr 75.7 2.7 5.9E-05 42.6 3.5 25 26-50 135-159 (308)
361 PF12846 AAA_10: AAA-like doma 75.6 3.6 7.8E-05 41.2 4.5 38 35-76 1-38 (304)
362 COG2256 MGS1 ATPase related to 75.5 6.1 0.00013 40.8 5.8 64 19-89 27-98 (436)
363 TIGR02525 plasmid_TraJ plasmid 75.5 6.3 0.00014 41.0 6.2 32 20-51 133-165 (372)
364 PRK09111 DNA polymerase III su 75.3 3.5 7.6E-05 45.7 4.5 35 20-54 28-65 (598)
365 PRK14965 DNA polymerase III su 75.3 2.5 5.5E-05 46.8 3.5 36 19-54 19-57 (576)
366 TIGR03600 phage_DnaB phage rep 75.3 3.6 7.8E-05 43.8 4.5 43 29-74 188-230 (421)
367 TIGR02237 recomb_radB DNA repa 75.1 5.9 0.00013 37.4 5.6 39 34-76 11-49 (209)
368 PF00004 AAA: ATPase family as 75.1 2.1 4.5E-05 36.8 2.2 16 38-53 1-16 (132)
369 PRK05703 flhF flagellar biosyn 75.0 4.3 9.2E-05 43.1 4.9 39 35-75 221-259 (424)
370 cd01120 RecA-like_NTPases RecA 75.0 6.6 0.00014 34.9 5.6 38 37-78 1-38 (165)
371 COG3598 RepA RecA-family ATPas 74.7 6.4 0.00014 39.4 5.5 46 30-76 84-136 (402)
372 cd01127 TrwB Bacterial conjuga 74.6 3.8 8.3E-05 43.4 4.5 42 35-80 42-83 (410)
373 PHA02624 large T antigen; Prov 74.5 4.9 0.00011 44.0 5.2 49 25-79 421-469 (647)
374 PRK09112 DNA polymerase III su 74.4 4.2 9.1E-05 42.0 4.6 34 20-53 27-63 (351)
375 PRK10865 protein disaggregatio 74.2 2.6 5.6E-05 49.1 3.3 36 18-53 570-616 (857)
376 PRK13850 type IV secretion sys 74.1 1.3 2.7E-05 49.8 0.7 40 35-80 139-178 (670)
377 COG0542 clpA ATP-binding subun 73.9 2.6 5.6E-05 47.6 3.0 35 19-53 494-539 (786)
378 PRK08769 DNA polymerase III su 73.8 5.6 0.00012 40.4 5.2 40 15-54 3-45 (319)
379 PF07724 AAA_2: AAA domain (Cd 73.8 2.9 6.4E-05 38.3 3.0 15 36-50 4-18 (171)
380 PRK12723 flagellar biosynthesi 73.8 12 0.00026 39.1 7.8 40 36-76 175-216 (388)
381 TIGR01420 pilT_fam pilus retra 73.8 5.3 0.00011 41.2 5.2 19 34-52 121-139 (343)
382 PRK12323 DNA polymerase III su 73.8 4.1 8.8E-05 45.2 4.4 35 20-54 20-57 (700)
383 PF06068 TIP49: TIP49 C-termin 73.3 10 0.00023 38.9 6.8 52 19-75 30-85 (398)
384 PRK06620 hypothetical protein; 73.2 3.2 6.9E-05 39.6 3.1 29 22-50 24-59 (214)
385 PRK13822 conjugal transfer cou 73.1 4.3 9.3E-05 45.4 4.5 70 35-121 224-293 (641)
386 PRK07133 DNA polymerase III su 73.1 4.3 9.4E-05 45.7 4.5 35 20-54 22-59 (725)
387 TIGR02655 circ_KaiC circadian 73.0 4 8.7E-05 44.3 4.3 53 32-88 18-70 (484)
388 TIGR02538 type_IV_pilB type IV 72.9 6.4 0.00014 43.6 5.8 31 29-60 309-340 (564)
389 TIGR02621 cas3_GSU0051 CRISPR- 72.9 32 0.0007 39.6 11.4 57 521-586 261-323 (844)
390 cd01129 PulE-GspE PulE/GspE Th 72.7 3.6 7.9E-05 40.6 3.5 25 28-52 72-97 (264)
391 PRK10590 ATP-dependent RNA hel 72.4 40 0.00086 36.3 11.7 57 532-599 245-302 (456)
392 PRK07994 DNA polymerase III su 72.3 4.7 0.0001 45.0 4.6 35 20-54 20-57 (647)
393 PRK07003 DNA polymerase III su 72.0 4.6 0.0001 45.5 4.4 35 20-54 20-57 (830)
394 KOG0388 SNF2 family DNA-depend 72.0 20 0.00043 39.7 8.8 58 18-76 569-626 (1185)
395 PRK11388 DNA-binding transcrip 72.0 11 0.00024 42.5 7.7 54 22-78 335-388 (638)
396 TIGR00609 recB exodeoxyribonuc 72.0 6.9 0.00015 47.0 6.2 53 35-88 9-63 (1087)
397 TIGR01241 FtsH_fam ATP-depende 71.9 5.8 0.00013 43.2 5.2 21 36-58 89-109 (495)
398 KOG0923 mRNA splicing factor A 71.9 2.8 6E-05 45.6 2.5 24 26-49 271-294 (902)
399 PRK13764 ATPase; Provisional 71.8 9.1 0.0002 42.4 6.6 38 13-50 234-272 (602)
400 PF13555 AAA_29: P-loop contai 71.7 5.4 0.00012 29.6 3.3 26 35-62 23-48 (62)
401 COG1221 PspF Transcriptional r 71.7 7.2 0.00016 40.7 5.5 43 34-79 100-143 (403)
402 PRK13897 type IV secretion sys 71.7 1.3 2.7E-05 49.1 -0.0 40 35-80 158-197 (606)
403 PF00931 NB-ARC: NB-ARC domain 71.6 9.6 0.00021 37.9 6.4 64 22-86 2-69 (287)
404 PF05729 NACHT: NACHT domain 71.6 6.4 0.00014 35.2 4.7 25 37-61 2-26 (166)
405 COG0802 Predicted ATPase or ki 71.4 6.5 0.00014 34.8 4.4 56 19-81 9-64 (149)
406 PRK13876 conjugal transfer cou 71.4 1.4 3.1E-05 49.2 0.4 48 34-88 143-190 (663)
407 PF02702 KdpD: Osmosensitive K 71.4 9.7 0.00021 35.5 5.6 50 37-90 7-59 (211)
408 PRK04837 ATP-dependent RNA hel 71.4 46 0.00099 35.4 11.8 58 531-599 254-312 (423)
409 PRK14086 dnaA chromosomal repl 71.3 9.7 0.00021 42.1 6.6 38 36-76 315-353 (617)
410 PRK08760 replicative DNA helic 71.1 4.9 0.00011 43.4 4.3 42 30-74 224-265 (476)
411 PRK14948 DNA polymerase III su 70.9 5 0.00011 44.8 4.4 36 19-54 19-57 (620)
412 cd01394 radB RadB. The archaea 70.8 5.8 0.00012 37.8 4.4 39 32-74 16-54 (218)
413 PTZ00361 26 proteosome regulat 70.8 4.9 0.00011 42.7 4.2 17 36-52 218-234 (438)
414 TIGR02397 dnaX_nterm DNA polym 70.8 5.3 0.00011 41.3 4.4 35 19-53 17-54 (355)
415 PRK08691 DNA polymerase III su 70.7 5.3 0.00011 44.7 4.5 35 20-54 20-57 (709)
416 PRK05022 anaerobic nitric oxid 70.7 13 0.00029 40.6 7.6 53 23-78 198-250 (509)
417 PRK05748 replicative DNA helic 70.7 4.8 0.0001 43.3 4.1 41 31-74 199-239 (448)
418 TIGR03819 heli_sec_ATPase heli 70.6 4.5 9.7E-05 41.6 3.7 27 24-50 167-193 (340)
419 PRK07471 DNA polymerase III su 70.5 6.2 0.00013 41.0 4.8 35 19-53 22-59 (365)
420 PRK06305 DNA polymerase III su 70.4 5.9 0.00013 42.5 4.7 36 19-54 20-58 (451)
421 KOG0743 AAA+-type ATPase [Post 70.4 5.7 0.00012 41.6 4.3 36 21-58 210-256 (457)
422 COG0470 HolB ATPase involved i 70.3 6.5 0.00014 39.9 4.9 37 19-55 5-44 (325)
423 PRK14951 DNA polymerase III su 70.2 5.4 0.00012 44.3 4.5 35 20-54 20-57 (618)
424 COG1220 HslU ATP-dependent pro 70.2 3.9 8.4E-05 41.1 3.0 33 19-51 18-66 (444)
425 PRK07940 DNA polymerase III su 70.0 6.2 0.00013 41.4 4.7 35 19-53 8-54 (394)
426 PRK09302 circadian clock prote 69.9 8.4 0.00018 42.1 5.9 49 35-88 273-321 (509)
427 TIGR01547 phage_term_2 phage t 69.9 11 0.00024 39.6 6.7 53 37-90 3-56 (396)
428 PRK05986 cob(I)alamin adenolsy 69.8 17 0.00037 33.8 7.0 37 33-73 20-56 (191)
429 PRK07764 DNA polymerase III su 69.6 5.5 0.00012 46.0 4.5 36 20-55 19-57 (824)
430 PRK09302 circadian clock prote 69.6 5.3 0.00011 43.7 4.3 54 31-88 27-80 (509)
431 CHL00095 clpC Clp protease ATP 69.6 5 0.00011 46.7 4.3 33 19-51 512-555 (821)
432 PRK14953 DNA polymerase III su 69.5 6 0.00013 42.8 4.5 36 19-54 19-57 (486)
433 PRK03992 proteasome-activating 69.4 5 0.00011 42.2 3.9 16 36-51 166-181 (389)
434 TIGR00614 recQ_fam ATP-depende 69.2 46 0.00099 36.0 11.4 60 530-599 223-283 (470)
435 PRK05595 replicative DNA helic 69.2 5.8 0.00013 42.5 4.4 45 27-74 193-237 (444)
436 TIGR02760 TraI_TIGR conjugativ 69.1 13 0.00029 47.3 8.0 64 17-86 430-493 (1960)
437 PRK04537 ATP-dependent RNA hel 69.0 50 0.0011 36.7 11.7 65 524-599 248-314 (572)
438 PF02562 PhoH: PhoH-like prote 69.0 6.3 0.00014 37.2 4.0 36 196-240 97-132 (205)
439 PRK14712 conjugal transfer nic 68.9 12 0.00026 46.1 7.2 63 17-83 836-900 (1623)
440 COG2519 GCD14 tRNA(1-methylade 68.9 13 0.00028 36.0 6.1 21 69-89 190-210 (256)
441 CHL00176 ftsH cell division pr 68.7 6.4 0.00014 44.1 4.7 38 19-58 189-237 (638)
442 PRK14970 DNA polymerase III su 68.7 6.3 0.00014 41.0 4.5 35 19-53 20-57 (367)
443 TIGR03743 SXT_TraD conjugative 68.6 22 0.00048 39.9 8.8 74 35-120 176-252 (634)
444 COG0210 UvrD Superfamily I DNA 68.4 11 0.00024 42.7 6.6 67 17-91 3-71 (655)
445 TIGR03689 pup_AAA proteasome A 68.2 12 0.00026 40.6 6.4 16 36-51 217-232 (512)
446 PRK14729 miaA tRNA delta(2)-is 68.2 3 6.5E-05 41.8 1.8 20 34-53 3-22 (300)
447 PRK10820 DNA-binding transcrip 68.1 12 0.00027 40.9 6.7 53 23-78 215-267 (520)
448 TIGR03744 traC_PFL_4706 conjug 67.8 21 0.00046 42.0 8.9 73 34-120 474-546 (893)
449 PF10236 DAP3: Mitochondrial r 67.4 17 0.00036 36.9 7.0 45 18-63 4-50 (309)
450 COG1702 PhoH Phosphate starvat 67.2 9 0.0002 38.7 4.9 53 17-76 129-181 (348)
451 PF10412 TrwB_AAD_bind: Type I 67.2 7.4 0.00016 40.8 4.6 45 34-82 14-58 (386)
452 PRK13880 conjugal transfer cou 66.8 1.4 2.9E-05 49.4 -1.1 37 35-77 175-211 (636)
453 cd03115 SRP The signal recogni 66.8 9 0.0002 34.9 4.6 34 37-74 2-35 (173)
454 PRK11823 DNA repair protein Ra 66.5 11 0.00024 40.3 5.9 49 32-85 77-125 (446)
455 TIGR03158 cas3_cyano CRISPR-as 66.5 25 0.00053 36.5 8.3 38 517-554 256-294 (357)
456 KOG0734 AAA+-type ATPase conta 66.4 11 0.00025 40.2 5.6 51 19-76 310-371 (752)
457 TIGR01054 rgy reverse gyrase. 66.0 42 0.00091 40.7 11.0 62 524-599 318-382 (1171)
458 COG1224 TIP49 DNA helicase TIP 65.9 9.1 0.0002 38.9 4.6 32 22-53 48-83 (450)
459 TIGR02767 TraG-Ti Ti-type conj 65.9 2.5 5.3E-05 47.1 0.7 47 35-88 211-257 (623)
460 PF05872 DUF853: Bacterial pro 65.9 5.3 0.00012 41.9 3.1 35 35-73 19-53 (502)
461 PRK09165 replicative DNA helic 65.8 7.2 0.00016 42.4 4.3 31 31-61 213-243 (497)
462 PRK14974 cell division protein 65.7 23 0.0005 36.3 7.6 35 36-74 141-175 (336)
463 PRK07399 DNA polymerase III su 65.2 9.6 0.00021 38.7 4.8 36 19-54 7-45 (314)
464 PF13238 AAA_18: AAA domain; P 64.7 3.8 8.1E-05 35.0 1.6 13 38-50 1-13 (129)
465 KOG0738 AAA+-type ATPase [Post 64.5 5.1 0.00011 41.1 2.6 32 231-264 398-429 (491)
466 TIGR03263 guanyl_kin guanylate 64.5 3.9 8.5E-05 37.5 1.7 16 35-50 1-16 (180)
467 TIGR02533 type_II_gspE general 64.5 6.2 0.00014 42.7 3.5 24 29-52 235-259 (486)
468 COG1074 RecB ATP-dependent exo 64.4 9.9 0.00021 45.9 5.4 50 32-82 13-64 (1139)
469 PTZ00454 26S protease regulato 64.3 6.2 0.00013 41.5 3.3 16 36-51 180-195 (398)
470 PRK12727 flagellar biosynthesi 64.2 9.6 0.00021 41.3 4.7 20 33-52 348-367 (559)
471 TIGR03345 VI_ClpV1 type VI sec 64.2 6.3 0.00014 45.9 3.6 34 19-52 569-613 (852)
472 KOG0390 DNA repair protein, SN 64.0 31 0.00067 39.2 8.7 73 16-91 238-321 (776)
473 PRK13341 recombination factor 64.0 8.2 0.00018 43.9 4.4 34 20-53 32-70 (725)
474 PRK14269 phosphate ABC transpo 63.9 1.1 2.5E-05 43.7 -2.1 43 1-50 1-43 (246)
475 PRK04195 replication factor C 63.7 12 0.00025 40.7 5.4 34 20-53 18-57 (482)
476 PF13476 AAA_23: AAA domain; P 63.7 5.9 0.00013 36.8 2.8 26 36-63 20-45 (202)
477 cd01121 Sms Sms (bacterial rad 63.5 16 0.00034 38.1 6.1 43 32-78 79-121 (372)
478 PRK06647 DNA polymerase III su 63.5 8.2 0.00018 42.6 4.2 35 20-54 20-57 (563)
479 KOG0731 AAA+-type ATPase conta 63.4 5.1 0.00011 45.0 2.5 18 36-53 345-362 (774)
480 TIGR01242 26Sp45 26S proteasom 63.4 7.5 0.00016 40.5 3.8 16 36-51 157-172 (364)
481 PF13207 AAA_17: AAA domain; P 63.4 4 8.6E-05 34.6 1.4 13 38-50 2-14 (121)
482 TIGR02784 addA_alphas double-s 63.4 16 0.00034 44.4 6.9 52 31-83 6-57 (1141)
483 COG3638 ABC-type phosphate/pho 63.2 1.4 3.1E-05 41.9 -1.5 51 1-59 2-52 (258)
484 cd01123 Rad51_DMC1_radA Rad51_ 63.1 8.2 0.00018 37.2 3.8 24 32-55 16-39 (235)
485 PF13173 AAA_14: AAA domain 62.9 5.9 0.00013 34.1 2.4 20 34-53 1-20 (128)
486 KOG2373 Predicted mitochondria 62.9 3.6 7.8E-05 41.3 1.1 25 26-50 264-288 (514)
487 KOG0925 mRNA splicing factor A 62.6 37 0.00081 36.0 8.3 80 454-553 194-274 (699)
488 TIGR02760 TraI_TIGR conjugativ 62.6 19 0.0004 46.0 7.5 62 17-83 1020-1084(1960)
489 PRK13709 conjugal transfer nic 62.5 21 0.00046 44.6 7.7 63 17-83 968-1032(1747)
490 KOG1051 Chaperone HSP104 and r 62.4 9 0.00019 44.1 4.3 35 19-53 565-609 (898)
491 PRK14959 DNA polymerase III su 62.4 9.8 0.00021 42.2 4.5 35 20-54 20-57 (624)
492 PRK10416 signal recognition pa 62.1 20 0.00042 36.5 6.4 51 20-74 88-149 (318)
493 TIGR00368 Mg chelatase-related 62.1 5.8 0.00013 43.0 2.7 34 19-52 195-228 (499)
494 KOG0926 DEAH-box RNA helicase 62.0 5.6 0.00012 44.4 2.5 25 26-50 262-286 (1172)
495 PRK11124 artP arginine transpo 62.0 1.8 3.9E-05 42.1 -1.1 43 1-50 1-43 (242)
496 KOG0952 DNA/RNA helicase MER3/ 61.9 7.6 0.00016 44.8 3.5 52 36-89 944-995 (1230)
497 TIGR02012 tigrfam_recA protein 61.8 16 0.00034 37.2 5.6 47 31-81 51-97 (321)
498 PRK12724 flagellar biosynthesi 61.8 13 0.00027 39.2 5.0 36 36-74 224-259 (432)
499 PF09848 DUF2075: Uncharacteri 61.7 8.3 0.00018 39.9 3.7 16 226-241 82-97 (352)
500 PRK13700 conjugal transfer pro 61.7 11 0.00023 42.4 4.6 45 36-84 186-230 (732)
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=6.7e-108 Score=808.78 Aligned_cols=599 Identities=62% Similarity=1.068 Sum_probs=571.8
Q ss_pred CeEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhH
Q 007505 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (601)
Q Consensus 1 ~~~~i~~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~ 80 (601)
|+|.|+++.|+|||..+||+|.++|.++.++|+.++|.++|.|+|||||.++|.-.++|....|+...|+|||+||.+.+
T Consensus 1 Mk~~id~l~v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEi 80 (755)
T KOG1131|consen 1 MKFYIDDLLVYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEI 80 (755)
T ss_pred CeeeecCeeEecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHH
Confidence 99999999999999999999999999999999999999999999999999999999999999985444999999999999
Q ss_pred HHHHHHHHhhhhhhcccCCCccceEEEeecCccccccchhhhhccChhhHHHHhHHhhhHHHHhhhhcCCCCCCCccccc
Q 007505 81 EKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFEN 160 (601)
Q Consensus 81 ~q~~~el~~l~~~~~~~~~~~~~~~~~~l~~r~~lC~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~c~~~~~ 160 (601)
+..++||+++..|..+.+|.+.++..+.|.||+|+|+|+.+....++..++..|+.+..+|.+++...+.+...|.|++|
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 99999999999999888888889999999999999999999988888889999999999999999888777889999999
Q ss_pred hHHhhhccCCCCCCCCHHHHHHhccccCcchhHHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChH
Q 007505 161 YEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNID 240 (601)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~ 240 (601)
+.. ....+|.++|+.+++.+.|...+.||||.+|..+..|+|||-+||||+||.+.+.+..++.+.++|||||||||.
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 234689999999999999999999999999999999999999999999999988887788899999999999999
Q ss_pred HHHHHhcccccCHHHHHHHHHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhhcC
Q 007505 241 NVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVP 320 (601)
Q Consensus 241 ~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 320 (601)
++|.+.+|+.|+...++.+.+.+..+.+.+.+++..+.++|+++|+++.++|........++.+++||++|++++.+..|
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 99999999999999999999999999888888888899999999999999998765555567899999999999999999
Q ss_pred CchhchhhHHHHHHHHHHHHHhhhhcccccccChhhHHHHHHhhhccCcchhhhhHHHHHHHHHHhhccCCCccchhHHH
Q 007505 321 GNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTI 400 (601)
Q Consensus 321 ~~i~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~l~~~ 400 (601)
|||+++++|+.++++++++++.+++..++..++|.+|++.+.+...+++++++||.+||+.++.+|++.+.++|.+++.+
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 99999999999999999999999998888899999999999999999999999999999999999999999999999999
Q ss_pred HhHHHhhcccCCceEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCEEEEecCCCCCccchhhhcCCCCccccc
Q 007505 401 CDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRS 480 (601)
Q Consensus 401 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ldps~~l~~l~~~~~svIltSgTLsp~~~f~~~Lg~~~~~~~~ 480 (601)
.+|.+++.+|.+||.+++++.+.+.++..++++++.|+|+|.+.+++|++++|||.|||||+|++.|.++|+|.++...+
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 99999999999999999999998888888999999999999999999999999999999999999999999999988899
Q ss_pred ceeeecCCceeeeeeecCCCCCcceeeeccCCChHHHHHHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHH
Q 007505 481 FKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKE 560 (601)
Q Consensus 481 ~~~~~~~~~~~~~~i~~g~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~ 560 (601)
+++.+.++++.|.++++|.++..++|.|+-|+++....++|+.+.+..+.+|||+++|||||-+|+.+...|...||.++
T Consensus 479 ~~mtLaR~c~~PmiitrG~Dqv~iss~fe~r~d~~VvrnyG~llve~sk~vpdG~v~ff~sylYmesiv~~w~~~gil~e 558 (755)
T KOG1131|consen 479 FTMTLARNCLLPLIITRGNDQVAISSKFEARGDPSVVRNYGNLLVEMSKIVPDGIVCFFPSYLYMESIVSRWYEQGILDE 558 (755)
T ss_pred hheecccccccceeeecCCcchhhhhhhhhccChHHHhhcCcceeeecccCCCceEEEEehHHHHHHHHHHHHHHhHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEEcC
Q 007505 561 IMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (601)
Q Consensus 561 l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV~R 601 (601)
+.+.|.+|+|.++..+++.++++|+++|+.|+|||||+|+|
T Consensus 559 i~k~KL~fIetpD~~ETs~al~ny~~aC~~gRGavl~sVar 599 (755)
T KOG1131|consen 559 IMKYKLLFIETPDFRETSLALANYRYACDNGRGAVLLSVAR 599 (755)
T ss_pred HhhCceEEEeCCchhhhHHHHHHHHHHhcCCCCceEEEEec
Confidence 99999999999999999999999999999999999999998
No 2
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=2.5e-87 Score=747.75 Aligned_cols=586 Identities=44% Similarity=0.791 Sum_probs=428.2
Q ss_pred CeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHH
Q 007505 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 7 ~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
+++|+|||+++||+|+++|+.|++++++++++++|||||||||+|.|+|+|+|+...+... |||||||||+|+.|+++|
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 4689999999899999999999999999999999999999999999999999998765446 999999999999999999
Q ss_pred HHhhhhhhcccCCCccceEEEeecCccccccchhhhhccChhhHHHHhHHhhhHHHHhhhhcCCCCCCCccccchHHhh-
Q 007505 87 LKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAA- 165 (601)
Q Consensus 87 l~~l~~~~~~~~~~~~~~~~~~l~~r~~lC~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~- 165 (601)
|+++..+..+..+...++++++|+||+++|+|+.+........+++.|..+...|..+....+.+...|+||++.....
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 9997532111111234689999999999999998876555556788999887655443222222346799998865431
Q ss_pred hccCCCCCCCCHHHHHHhccccCcchhHHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChHHHHHH
Q 007505 166 SAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIE 245 (601)
Q Consensus 166 ~~~~~~~~~~~~~~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~~~~~~ 245 (601)
....+...++|+|++.+.|+.++.||||.+|+.+..|||||+|||||||+.+|..+...+ ++.+|||||||||+|+|++
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 112345679999999999999999999999999999999999999999999998776665 7899999999999999999
Q ss_pred hcccccCHHHHHHHHHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhhcCCchhc
Q 007505 246 ALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRR 325 (601)
Q Consensus 246 ~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 325 (601)
++|++|+..+|..+.+++.++.+........+...+.+.+.+++..+.+.........+..++..+..+....+++..+.
T Consensus 239 ~~S~~ls~~~l~~a~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 318 (705)
T TIGR00604 239 SLSSNLSVRSLKRCSKEIAEYFEKIEERKEVDARKLLDELQKLVEGLKQEDLLTDEDIFLANPVLPKEVLPEAVPGNIRI 318 (705)
T ss_pred HHhcccCHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcccchhhhcCcCchhhccHHHhcccCCc
Confidence 99999999999999999987754332211112223334455555554331100000001111111111111122232333
Q ss_pred hhhHHHHHHHHHHHHHhhhhcccccccChhhHHHHHHhhhccCcchhhhhHHHHHHHHHHhhccCCCccchhH---HHHh
Q 007505 326 AEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQ---TICD 402 (601)
Q Consensus 326 ~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~l~---~~~~ 402 (601)
...+...+.++++.............+....+...+.+...+.. .++++.+++......+.......+.+.. .+..
T Consensus 319 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 397 (705)
T TIGR00604 319 AEIFLHKLSRYLEYLKDALKVLGVVSELPDAFLEHLKEKTFIDR-PLRFCSERLSNLLRELEITHPEDFSALVLLFTFAT 397 (705)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhcccch-hhhHHHHHHHHHHhhhccccccccccchHHHHHHH
Confidence 33343443333322111000000000111222232333222222 4566667777666655544334444332 3333
Q ss_pred HHHhh-cccCCceEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCEEEEecCCCCCccchhhhcCCCCcccccc
Q 007505 403 FATLV-GTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLNFHPVVSRSF 481 (601)
Q Consensus 403 f~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ldps~~l~~l~~~~~svIltSgTLsp~~~f~~~Lg~~~~~~~~~ 481 (601)
|+... ..+.+++..+... ...+..+++||+||+..|+.++++++|+|||||||+|+++|.++||+++....+.
T Consensus 398 ~~~~~~~~~~~~~~~~~~~------~~~~~~l~~~~l~ps~~~~~i~~~~~svil~SgTL~p~~~~~~~Lg~~~~~~~~~ 471 (705)
T TIGR00604 398 LVLTYTNGFLEGIEPYENK------TVPNPILKFMCLDPSIALKPLFERVRSVILASGTLSPLDAFPRNLGFNPVSQDSP 471 (705)
T ss_pred HHHHhccccccceeEeecC------CCCCceEEEEecChHHHHHHHHHhcCEEEEecccCCcHHHHHHHhCCCCccceec
Confidence 44332 2223333333211 1125789999999999999999999999999999999999999999876555566
Q ss_pred eeeecCCceeeeeeecCCCCCcceeeeccCCChHHHHHHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHHH
Q 007505 482 KMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEI 561 (601)
Q Consensus 482 ~~~~~~~~~~~~~i~~g~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l 561 (601)
+|+++++++++.+++.++++..|.++|..|+++++.+++++.|.++++.+|||+|||||||.+|+++++.|++.|++.++
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 78888899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEEcC
Q 007505 562 MQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (601)
Q Consensus 562 ~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV~R 601 (601)
.+.|.||+|+++..++..++++|+++|+.++|||||||||
T Consensus 552 ~~~k~i~~E~~~~~~~~~~l~~f~~~~~~~~gavL~av~g 591 (705)
T TIGR00604 552 EKKKLIFVETKDAQETSDALERYKQAVSEGRGAVLLSVAG 591 (705)
T ss_pred hcCCCEEEeCCCcchHHHHHHHHHHHHhcCCceEEEEecC
Confidence 8889999999987788999999999998889999999997
No 3
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=4.3e-80 Score=648.76 Aligned_cols=562 Identities=24% Similarity=0.431 Sum_probs=379.3
Q ss_pred EEEc-CeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC-----------------
Q 007505 3 FKLE-DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----------------- 64 (601)
Q Consensus 3 ~~i~-~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~----------------- 64 (601)
..|+ |++|+|||++ ||.|+.||..|.++|..+.++++|+||||||||++||++|+|.....
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 4567 9999999997 99999999999999999999999999999999999999999977541
Q ss_pred ---------------------CCCcEEEEEcccchhHHHHHHHHHhhhhhhcccCCCccceEEEeecCccccccchhhhh
Q 007505 65 ---------------------ENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLA 123 (601)
Q Consensus 65 ---------------------~~~~kvv~~t~T~~~~~q~~~el~~l~~~~~~~~~~~~~~~~~~l~~r~~lC~~~~~~~ 123 (601)
.+.++|+|+||||+|+.|+++|+++.. | .++.++|+||+++|+|+.++.
T Consensus 87 ~~~s~~~g~~s~e~~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT~-Y---------~vkmtVLgSReq~Cinpev~k 156 (945)
T KOG1132|consen 87 TQPSDSGGEKSEEAGEPIACYTGIPKIYYASRTHSQLTQVVRELRRTG-Y---------RVKMTVLGSREQLCINPEVKK 156 (945)
T ss_pred CCCccCCCCchhhhcCccccccCCceEEEecchHHHHHHHHHHHhhcC-C---------CCceEEeecchhhccCHHHhh
Confidence 123599999999999999999999852 2 367899999999999999988
Q ss_pred ccChhhHHHHhHHhhhHHHHhhhhcCCCCCCCccccchHHhhhccCCCCCCCCHHHHHHhccccCcchhHHHHHhhccCc
Q 007505 124 AENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFAN 203 (601)
Q Consensus 124 ~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~Cpy~~~r~~~~~ad 203 (601)
.......+..|+++.. ...|.|+...........+...+||||||++.|+....||||.+|++.++||
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 7655555778988762 2689998654433333345667999999999999999999999999999999
Q ss_pred EEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChHHHHHHhcccccCHHHHHHHH---HHHHHHHHHHHHhhhhchhH
Q 007505 204 VVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGAT---RNLSRINQEIERFKATDAGR 280 (601)
Q Consensus 204 ivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~~~~~~~~s~~is~~~l~~~~---~~l~~~~~~~~~~~~~~~~~ 280 (601)
||+||||||+|+.+|.+...+| +++|||||||||+||.|++..|++++..+|.... +++.......... .+.
T Consensus 225 IIF~PYnYLiDp~iR~~~~v~L-knsIVIfDEAHNiEdic~esaS~~lts~~l~~~~~l~~e~~~~~~~~~~~----~~p 299 (945)
T KOG1132|consen 225 IIFCPYNYLIDPKIRRSHKVDL-KNSIVIFDEAHNIEDICRESASFDLTSSDLASGLELINELEQAVTKAAAI----YEP 299 (945)
T ss_pred EEEechhhhcCHhhhccccccc-cccEEEEeccccHHHHHhhcccccccHHHHHHHHHHHHHHHHHHhhhhhh----cCc
Confidence 9999999999999999877777 8999999999999999999999999986666432 3332211100000 000
Q ss_pred HHHHHHHHHHHHhhc-CCCc--cccccccCCCCChhhhhhhcCCchhchhhHHHHHHHHHHHHHhhhhccc-cc--ccCh
Q 007505 281 LRAEYNRLVEGLALR-GNLP--IADAWLSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETEN-VE--KEGP 354 (601)
Q Consensus 281 l~~~~~~l~~~l~~~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~l~~~l~~~~-~~--~~~~ 354 (601)
+.+....+..++.-. ..+. ........... +.+........+.. ..+. . +.+.+...+.... .. ....
T Consensus 300 l~ev~~~l~s~l~~~~e~La~l~~~~~~~~~~~-d~~~~~~~~~giT~-~~~~-~---l~e~~~~a~~t~e~~~~i~~~~ 373 (945)
T KOG1132|consen 300 LREVSLDLISWLELELEDLAKLKEILLFLEEAI-DKVLLPLDDSGITR-PGSP-I---LYEEFAKALITSETAEKIVDSL 373 (945)
T ss_pred hhhhhhccchhhhcchHHHHHHHHHHHHhhhhc-chhccccccccccC-CCcH-H---HHHHHHHhccCccccccchhhH
Confidence 111000111100000 0000 00000000000 00000000000100 0010 0 1111111110000 00 0000
Q ss_pred hhHHHHHHhh---hccCcchhhhhHHHHHHHHHHhhccCCCccchhHHHH-----hHHHhhcc--cCCce--EEEEecCC
Q 007505 355 VSFVASITAH---AGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTIC-----DFATLVGT--YTRGF--SIIIEPFD 422 (601)
Q Consensus 355 ~~~~~~l~~~---~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~l~~~~-----~f~~~~~~--~~~~~--~~~~~~~~ 422 (601)
...+..+... ..+....+..+...+..++-.... ....+.+..... .|-..+.. ..++- -.|-....
T Consensus 374 ~~~v~~le~~~q~~~t~~~s~~~~~~dlld~~fs~~~-~~g~~~~~~~~~~e~s~~~~~~~d~~~~~~~~~~~v~~~~~s 452 (945)
T KOG1132|consen 374 DIAVQHLEGEKQGTATNTGSLWCIFADLLDISFSVIL-QNGSFSSDASFSVEQSYSFGNHLDAPHVINANLGDVWKGKSS 452 (945)
T ss_pred HHHHHHhhcccccchhcccchHHHHHHHHHHHhhccc-cCCccccchhhhhhhhhcccccCCcccccccccccccccccc
Confidence 0001111110 000001110000111111000000 000000000000 01000000 00000 11111111
Q ss_pred CCCCCCCCCeEEEEecCccccchHHhhc-cCEEEEecCCCCCccchhhhcCCCCcccccceeeecCCceeeeeeecCCCC
Q 007505 423 ERMPHIPDPVLQLSCHDASLAVKPVFDR-FQSVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQ 501 (601)
Q Consensus 423 ~~~~~~~~~~l~~~~ldps~~l~~l~~~-~~svIltSgTLsp~~~f~~~Lg~~~~~~~~~~~~~~~~~~~~~~i~~g~~~ 501 (601)
.....-..+++||++|+..|+++..+ +++||||||||+|+++|+.+||+++.....-+|.+.+.++++.+|+.|+.+
T Consensus 453 --~~~~~~~vi~~wcf~p~~sf~d~~~k~vrsIiLtSGTLsP~~s~~~El~~~f~~~lEn~hii~~~qv~~~vv~~Gp~~ 530 (945)
T KOG1132|consen 453 --RKLGNYPVINFWCFSPGYSFRDLLGKGVRSIILTSGTLSPMDSFASELGLEFKIQLENPHIINKSQVWVGVVPKGPDG 530 (945)
T ss_pred --cccCcccceeeeecCcchhHHHHhcccceeEEEecccccCchhHHHHhCCccceeeecchhccccceEEEeeccCCCc
Confidence 00111356899999999999999877 999999999999999999999998877777888899999999999999999
Q ss_pred CcceeeeccCCChHHHHHHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHH
Q 007505 502 LPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLAL 581 (601)
Q Consensus 502 ~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l 581 (601)
..+.|+|..|..++|..++|+.|.++++++|.|+|||||||.+|+++.+.|...++|+++...|.+++|||...++.+++
T Consensus 531 ~ql~sty~nr~~~ey~~~lg~~i~~v~rvVp~G~L~FfPSY~vmdk~~tfw~~~~~we~~~~vk~l~vEPr~k~~f~e~m 610 (945)
T KOG1132|consen 531 AQLDSTYGNRFTPEYLSELGEAILNVARVVPYGLLIFFPSYPVMDKLITFWQNRGLWERMEKVKKLVVEPRSKSEFTEVM 610 (945)
T ss_pred cccccccccccCHHHHHHHHHHHHHHHhhcccceEEeccchHHHHHHHHHHHcchHHHHhhcccCceeccCCccchHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcC--CCCCeEEEEEcC
Q 007505 582 DNYRKACD--CGRGAVFFSVAR 601 (601)
Q Consensus 582 ~~fk~~~~--~~~gaiLfaV~R 601 (601)
++|..++. ...||+||||||
T Consensus 611 ~~y~~~i~~pes~ga~~~aVcR 632 (945)
T KOG1132|consen 611 SRYYNAIADPESSGAVFFAVCR 632 (945)
T ss_pred HHHHHHhhCccccceEEEEEec
Confidence 99999986 456999999998
No 4
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=100.00 E-value=2.7e-77 Score=611.12 Aligned_cols=540 Identities=26% Similarity=0.441 Sum_probs=407.8
Q ss_pred cCeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC----------------------
Q 007505 6 EDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK---------------------- 63 (601)
Q Consensus 6 ~~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~---------------------- 63 (601)
...+++|||.| |..|.++|+++++.|++|+++++|+||||||||+++|+|+.|+..+
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 45678899976 9999999999999999999999999999999999999999997643
Q ss_pred --------------------------------------------------------------------------------
Q 007505 64 -------------------------------------------------------------------------------- 63 (601)
Q Consensus 64 -------------------------------------------------------------------------------- 63 (601)
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 -----------------------CCCCcEEEEEcccchhHHHHHHHHHhhhhhhcccCCCccceEEEeecCccccccchh
Q 007505 64 -----------------------PENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSR 120 (601)
Q Consensus 64 -----------------------~~~~~kvv~~t~T~~~~~q~~~el~~l~~~~~~~~~~~~~~~~~~l~~r~~lC~~~~ 120 (601)
.+++.||+||+|||+|+.|++.||++.. .+.++|++.|+||+++|+|+.
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 QLESGEEAESSSDEEKKVASRVDEDAPVKIYYCSRTHSQLAQFVAELKKTP--------FGKKVRSVSLGSRKNLCINED 236 (821)
T ss_pred hhhcccccccccchhhccccCccccCCeeEEEecccchHHHHHHHHHhhcc--------cccCceEEeecchhhcccCHH
Confidence 0012699999999999999999999841 367889999999999999999
Q ss_pred hhhccChhhHHHHhHHhhhHHHHhhhh------cCCCCCCCccccch--HHhhhccCCCCCCCCHHHHHHhccccCcchh
Q 007505 121 VLAAENRDSVDAACRKRTASWVRALAA------ENPNIETCEFFENY--EKAASAAVLPPGVYTLQDLRAFGKQQGWCPY 192 (601)
Q Consensus 121 ~~~~~~~~~~~~~c~~~~~~~~~~~~~------~~~~~~~c~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~~~Cpy 192 (601)
|..++....+|+.|..+..+-...... .......||||+.. .+..+ .....+.|+|++...|+..+.|||
T Consensus 237 V~Klk~~~~iNE~Cldlq~s~~~~~~~~~~~~~~~~~~~~Cpf~~~~q~~~~rd--~~l~e~~DiEdLv~lGk~~~~CPY 314 (821)
T KOG1133|consen 237 VKKLKSVDAINERCLDLQKSKHSLKPSKKMRMTRTKATARCPFYNHTQMEDLRD--EALSEVLDIEDLVALGKELRGCPY 314 (821)
T ss_pred hccccchhHHHHHHHHHHhccCcccccccchhcccccccCCCccchhHHHHHHH--HHhhhhccHHHHHHhhhhcCCCCc
Confidence 999888889999998876432211110 00113479999542 22222 223478999999999999999999
Q ss_pred HHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChHHHHHHhcccccCHHHHHHHHHHHHHHHHHH-H
Q 007505 193 FLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEI-E 271 (601)
Q Consensus 193 ~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~-~ 271 (601)
|.+|+.+..||+|+.||.+||+...|+++++.| +++||||||||||.|+..+++|.+||.++|..+...+..+.... .
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 999999999999999999999999999988887 89999999999999999999999999999999999888875332 2
Q ss_pred HhhhhchhHH---HHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhhcCCchhchhhH-H------HHHHHHHHHHH
Q 007505 272 RFKATDAGRL---RAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEHF-L------HVLRRLVQYLR 341 (601)
Q Consensus 272 ~~~~~~~~~l---~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~-~------~~l~~~~~~l~ 341 (601)
++...+.-.+ .....+++..+.+.... ++. ..++.. ..| + -.+-++.+++.
T Consensus 394 rl~~~N~~~l~ql~~l~~~ll~fl~~~~~~--------~~~----------~~~~~~-~dfl~~~~id~iNL~kl~~Yi~ 454 (821)
T KOG1133|consen 394 RLKAKNLMYLKQLLSLLRRLLKFLDSNCEL--------NGN----------GESLMR-NDFLFSSGIDNINLFKLLDYIE 454 (821)
T ss_pred hhCccchhHHHHHHHHHHHHHHHHHhhhhh--------CCc----------ccccch-hhhhhhcCccceeHHHHHHHHH
Confidence 3333333222 22222222222110000 000 000111 112 1 11223333332
Q ss_pred hhhhcccccccChhhHHHHHHhhhccCcchhhhhHHHHHHHHH-HhhccCCCcc--chhHHHHhHHHhhcccCCceEEEE
Q 007505 342 GRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLML-TLEITDTDEF--LHIQTICDFATLVGTYTRGFSIII 418 (601)
Q Consensus 342 ~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~l~~~~~-~l~~~~~~~~--~~l~~~~~f~~~~~~~~~~~~~~~ 418 (601)
. ..+ ..+...|...+.+.. .+++ +.+.. ..+....+.+ +++..+..|+..+.....+..+++
T Consensus 455 ~----S~i-~rKv~G~~~r~~~~~---s~pl-------q~l~~~~~~~~ee~~~~ps~l~~l~~FL~~LTn~~~dGri~~ 519 (821)
T KOG1133|consen 455 K----SKI-ARKVDGFGERLSEVF---SQPL-------QSLQKKRVEAEEESQLKPSPLFELSSFLGALTNNNEDGRIFY 519 (821)
T ss_pred H----hhH-HHHhcchhhcchhhc---cchh-------hHhhhccccchhcccCCCchhHHHHHHHHHHhCCCCCCcEEE
Confidence 1 110 111122222222110 0111 11111 0111111223 347888999888766665556666
Q ss_pred ecCCCCCCCCCCCeEEEEecCccccchHHhhccCEEEEecCCCCCccchhhhcC--C-CCcccccceeeecCCceeeeee
Q 007505 419 EPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRLLN--F-HPVVSRSFKMSLTRDCICPMVL 495 (601)
Q Consensus 419 ~~~~~~~~~~~~~~l~~~~ldps~~l~~l~~~~~svIltSgTLsp~~~f~~~Lg--~-~~~~~~~~~~~~~~~~~~~~~i 495 (601)
++.. ..++++..|||+..|..+...+++|||++|||.|++.|...|. . +.+...+|.|+++++++.+.+|
T Consensus 520 ~k~~-------s~~lky~lL~pA~~f~evv~earavvLAGGTMeP~~e~~e~L~~~~~~~i~~fsc~Hvip~e~il~~vv 592 (821)
T KOG1133|consen 520 SKQG-------SGTLKYMLLNPAKHFAEVVLEARAVVLAGGTMEPVDELREQLFPGCPERISPFSCSHVIPPENILPLVV 592 (821)
T ss_pred eccC-------CceEEEEecCcHHHHHHHHHHhheeeecCCccccHHHHHHHhcccchhhccceecccccChhheeeeee
Confidence 6533 2689999999999999999999999999999999999987774 2 2245578999999999999999
Q ss_pred ecCCCCCcceeeeccCCChHHHHHHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecCCch
Q 007505 496 TRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVV 575 (601)
Q Consensus 496 ~~g~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~ 575 (601)
++||.+.++..+|..|.++++++.++..+.+++.++|||++||||||.+|.+++++|...|+.++|...|.||.|+++.
T Consensus 593 ~~gpsg~p~eftf~~R~s~~~l~~l~~~~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~- 671 (821)
T KOG1133|consen 593 SSGPSGQPLEFTFETRESPEMIKDLGSSISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT- 671 (821)
T ss_pred ccCCCCCceEEEeeccCChHHHHHHHHHHHHHHhhCCCcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc-
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred hHHHHHHHHHHhcCCCCCeEEEEEc
Q 007505 576 ETTLALDNYRKACDCGRGAVFFSVA 600 (601)
Q Consensus 576 ~~~~~l~~fk~~~~~~~gaiLfaV~ 600 (601)
...+++.|+.+++.|+|||||||.
T Consensus 672 -~~dvl~~Ya~a~~~g~GaiLlaVV 695 (821)
T KOG1133|consen 672 -VEDVLEGYAEAAERGRGAILLAVV 695 (821)
T ss_pred -HHHHHHHHHHHhhcCCCeEEEEEe
Confidence 678999999999999999999995
No 5
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=100.00 E-value=7.4e-61 Score=529.92 Aligned_cols=517 Identities=16% Similarity=0.179 Sum_probs=320.3
Q ss_pred CCCCCHHHHHHHHHHHHHHhh-----cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH-HH
Q 007505 14 YDNIYPEQYSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-EL 87 (601)
Q Consensus 14 ~~~~r~~Q~~~~~~v~~~l~~-----~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~-el 87 (601)
|+. ||+|.+||..|+++|.+ +++++||||||||||+|||+||+.||..+ ++ ||||||+|++||+|+++ ||
T Consensus 24 ~e~-R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~--~k-~vVIST~T~~LQeQL~~kDl 99 (697)
T PRK11747 24 FIP-RAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAE--KK-KLVISTATVALQEQLVSKDL 99 (697)
T ss_pred CCc-CHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHc--CC-eEEEEcCCHHHHHHHHhhhh
Confidence 876 99999999999999998 48999999999999999999999999976 68 99999999999999987 89
Q ss_pred HhhhhhhcccCCCccceEEEeecCccc-cccchhhhhccCh---hhH------------HHH--h-HHhhhHHHHhhhhc
Q 007505 88 KLLHNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENR---DSV------------DAA--C-RKRTASWVRALAAE 148 (601)
Q Consensus 88 ~~l~~~~~~~~~~~~~~~~~~l~~r~~-lC~~~~~~~~~~~---~~~------------~~~--c-~~~~~~~~~~~~~~ 148 (601)
|.+.++. +.+++++++|||+| +|+++....+... ... ... . ..+...|..+|++|
T Consensus 100 P~l~~~l------~~~~~~~llKGr~nYlCl~r~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~t~tG 173 (697)
T PRK11747 100 PLLLKIS------GLDFKFTLAKGRGRYVCPRKLAALASDEGTQQDLLLFLDDELTPPDEEEQKLLARLAKALATGKWDG 173 (697)
T ss_pred hHHHHHc------CCCceEEEEcCccccccHHHHHHHhccccccchhhhhccccccCCCHHHHHHHHHHHHHHhcCCCcC
Confidence 9887653 66899999999999 9999876533210 000 011 1 12233355567888
Q ss_pred CCCCCCCccccchHHhhhccCCCCCCCCH-HHHHHhccccCcchhHHHHHhhccCcEEEecCccccCHH-hhhHhhhccC
Q 007505 149 NPNIETCEFFENYEKAASAAVLPPGVYTL-QDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPK-VAGIISKEMQ 226 (601)
Q Consensus 149 ~~~~~~c~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~-~~~~~~~~l~ 226 (601)
|.+ .++...+ ...|.. ..++. .|+...|+++..|||+.+|+.+++|||||+||+|||.+. .+. ...+|
T Consensus 174 D~d--el~~~~~-~~~w~~-----v~~~~~~C~~~~Cp~~~~Cf~~~ar~~a~~AdivVtNH~LLladl~~~~--~~iLp 243 (697)
T PRK11747 174 DRD--HWPEPID-DSLWQR-----ITTDKHSCLGRNCPYFRECPFFKARREIDEADVVVANHDLVLADLELGG--GVVLP 243 (697)
T ss_pred cHh--hCcCCCc-HHHHHH-----hhcCccccCCCCCCCCccChHHHHHHHHhhCCEEEECcHHHHhhhhccC--CcccC
Confidence 654 3433111 111221 11122 256788999999999999999999999999999999554 312 12355
Q ss_pred --CCcEEEEeCCCChHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHH-hh-----h-hchhHHHHHHHHHHHHHhhcCC
Q 007505 227 --KESVVVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIER-FK-----A-TDAGRLRAEYNRLVEGLALRGN 297 (601)
Q Consensus 227 --~~~ilIiDEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~-~~-----~-~~~~~l~~~~~~l~~~l~~~~~ 297 (601)
+++++||||||||+|+|+++++.++|...+...++.+.+....... +. . .....+...+..++..+.....
T Consensus 244 ~~~~~~lViDEAH~L~d~A~~~~~~~~s~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 323 (697)
T PRK11747 244 DPENLLYVLDEGHHLPDVARDHFAASAELKGTADWLEKLLKLLTKLVALIMEPPLALPERLNAHCEELRELLASLNQILN 323 (697)
T ss_pred CCCCCEEEEECccchHHHHHHHhhhhccHHHHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5899999999999999999999999988887777666442111100 00 0 0001111112222222111000
Q ss_pred -C-c----cccccccCCCCChhhhhhhcCCchhchhhHHHHHHHHHHHH---HhhhhcccccccChhhHHHHHHhhhccC
Q 007505 298 -L-P----IADAWLSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYL---RGRLETENVEKEGPVSFVASITAHAGID 368 (601)
Q Consensus 298 -~-~----~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~l---~~~l~~~~~~~~~~~~~~~~l~~~~~~~ 368 (601)
. . ....++....++..+.. ....+...+..+...+ .+.+............-...+
T Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~l~~l~~~l~~l~~~l~~~~~~~~~~~~~~~~~------- 388 (697)
T PRK11747 324 LFLPAGGEEARYRFEMGELPEELLE--------LAERLAKLTEKLLGLLEKLLNDLSEAMKTGKIDIVRLERL------- 388 (697)
T ss_pred hhcccccccccccccCCCCcHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHhccccchhhHHHH-------
Confidence 0 0 00000000111111000 0011111222221111 111100000000000000000
Q ss_pred cchhhhhHHHHHHHHHHhhccCCCccchhHHHHhHHHhhcccCCceEEEEecCCCCCCCCCCCeEEEEecCccccc-hHH
Q 007505 369 QKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPV 447 (601)
Q Consensus 369 ~~~l~~~~~~l~~~~~~l~~~~~~~~~~l~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ldps~~l-~~l 447 (601)
...+..+..++..+.+.+.. |..........++.|++..... ......++..|+||+..| +.+
T Consensus 389 ~~~l~~~~~~l~~~~~~l~~--------------~~~~~~~~~~~~v~Wie~~~~~--~~~~~~l~~~Pl~~~~~l~~~l 452 (697)
T PRK11747 389 LLELGRALGRLEALSKLWRL--------------AAKEDQESGAPMARWITREERD--GQGDYLFHASPIRVGDQLERLL 452 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHH--------------HhcccccCCCCceEEEEeccCC--CCceEEEEEecCCHHHHHHHHH
Confidence 00122223333333322221 1110000111468898765321 123568999999999999 689
Q ss_pred hhccCEEEEecCCCCCccch---hhhcCCCC---cccccceeeecCCceeeeeeecCCCCCcceeeeccCCChHHHHHHH
Q 007505 448 FDRFQSVVITSGTLSPIDLY---PRLLNFHP---VVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYG 521 (601)
Q Consensus 448 ~~~~~svIltSgTLsp~~~f---~~~Lg~~~---~~~~~~~~~~~~~~~~~~~i~~g~~~~~l~s~f~~r~~~~~~~~l~ 521 (601)
|++++++|||||||+|.++| .+.+|++. .....++++++..+....+++.. +++.++++++.+.++
T Consensus 453 ~~~~~~vIltSATL~~~~~f~~~~~~lGL~~~~~~~~~~~~SpF~~~~q~~l~vp~~--------~~~p~~~~~~~~~~~ 524 (697)
T PRK11747 453 WSRAPGAVLTSATLRSLNSFDRFQEQSGLPEKDGDRFLALPSPFDYPNQGKLVIPKM--------RAEPDNEEAHTAEMA 524 (697)
T ss_pred HhhCCEEEEEeeeCCCCCchHHHHHHcCCCCCCCceEEEcCCCCCHHHccEEEeCCC--------CCCCCCcHHHHHHHH
Confidence 99999999999999998755 56789863 33344555554333222333220 122356778889999
Q ss_pred HHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 522 KLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 522 ~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
+.|.+++. ++||+|||||||.+|+++++.|.+. . .+.|++|+. .++..++++|++.++.++|+|||||
T Consensus 525 ~~i~~l~~-~~gg~LVlFtSy~~l~~v~~~l~~~-----~--~~~ll~Q~~--~~~~~ll~~f~~~~~~~~~~VL~g~ 592 (697)
T PRK11747 525 EFLPELLE-KHKGSLVLFASRRQMQKVADLLPRD-----L--RLMLLVQGD--QPRQRLLEKHKKRVDEGEGSVLFGL 592 (697)
T ss_pred HHHHHHHh-cCCCEEEEeCcHHHHHHHHHHHHHh-----c--CCcEEEeCC--chHHHHHHHHHHHhccCCCeEEEEe
Confidence 99999999 9999999999999999999999741 2 467999764 4678899999999888889999997
No 6
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=1.5e-56 Score=510.75 Aligned_cols=522 Identities=15% Similarity=0.160 Sum_probs=314.4
Q ss_pred CCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH-HHHhhhh
Q 007505 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-ELKLLHN 92 (601)
Q Consensus 14 ~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~-el~~l~~ 92 (601)
|+. ||+|.+||..|+++|.+++++++|||||||||+|||+|++.|+... ++ ||||||+|++||+|+++ |+|.+.+
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 67 99999999999999988 7888766
Q ss_pred hhcccCCCccceEEEeecCccc-cccchhhhhccChh-h-HHHHhHHhhhHHHHhhhhcCCCCCCCccccchHHhhhccC
Q 007505 93 YQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRD-S-VDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAV 169 (601)
Q Consensus 93 ~~~~~~~~~~~~~~~~l~~r~~-lC~~~~~~~~~~~~-~-~~~~c~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~ 169 (601)
.. +.+++++++|||+| +|+++....+.... . ....+...+..|..+|++||.+ .+++-......|.
T Consensus 332 ~~------~~~~~~~~lKGr~nYlcl~k~~~~l~~~~~~~~~~~~~~~ll~Wl~~T~tGD~d--El~~~~~~~~~w~--- 400 (928)
T PRK08074 332 IF------PFPVEAALLKGRSHYLCLRKFEQALQEEDDNYDVALTKAQLLVWLTETETGDLD--ELNLPSGGKLLWN--- 400 (928)
T ss_pred Hc------CCCceEEEEEcccccccHHHHHHHHhccCCCHHHHHHHHHHHHHHccCCCCCHH--HccCCCCCcchHH---
Confidence 53 56789999999999 99998765432111 1 1112333456899999999754 3432211111111
Q ss_pred CCCCCCCHH-HHHHhccccCcchhHHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChHHHHHHhcc
Q 007505 170 LPPGVYTLQ-DLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALS 248 (601)
Q Consensus 170 ~~~~~~~~~-~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~~~~~~~~s 248 (601)
...++.+ |+.+.|+++..|||+.+|+.+++|||||+||+|||.+..... ..+|+++++||||||||+|+|.++++
T Consensus 401 --~i~~~~~~c~~~~cp~~~~Cf~~~ar~~a~~AdivItNHalLl~dl~~~~--~ilp~~~~lViDEAH~l~d~A~~~~~ 476 (928)
T PRK08074 401 --RIASDGESDGGKQSPWFSRCFYQRAKNRAKFADLVITNHALLLTDLTSEE--PLLPSYEHIIIDEAHHFEEAASRHLG 476 (928)
T ss_pred --HhhccCcccCCCCCCcccccHHHHHHHHHhcCCEEEECHHHHHHHHhhhc--ccCCCCCeEEEECCchHHHHHHHHhc
Confidence 1112222 567789999999999999999999999999999996543221 24689999999999999999999999
Q ss_pred cccCHHHHHHHHHHHHHHHH-----HHHH-hhhh-------------chhHHHHHHHHHHHHHhhcCCCcc-ccccccCC
Q 007505 249 VSVRRQTLEGATRNLSRINQ-----EIER-FKAT-------------DAGRLRAEYNRLVEGLALRGNLPI-ADAWLSNP 308 (601)
Q Consensus 249 ~~is~~~l~~~~~~l~~~~~-----~~~~-~~~~-------------~~~~l~~~~~~l~~~l~~~~~~~~-~~~~~~~~ 308 (601)
.++|...+...++.+..... .... .... ....+..+...++..+........ .... .
T Consensus 477 ~~~s~~~~~~~l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~---~ 553 (928)
T PRK08074 477 EQFSYMSFQLLLSRLGTLEEDGLLSKLAKLFKKSDQASRSSFRDLDESLKELKFEADELFQMLRSFVLKRKKQEQN---G 553 (928)
T ss_pred ceecHHHHHHHHHHHhhhccccHHHHHHHHHhhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccc---c
Confidence 99999988887776532110 0000 0000 000011111111111100000000 0000 0
Q ss_pred CCChhhhhhhcCCchhchhhHHHHHHHHHHHHHhhhhcccccccChhhHHHHHHhhhccCcchh---hhhHHHHHHHHHH
Q 007505 309 ALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTL---RFCYERLHSLMLT 385 (601)
Q Consensus 309 ~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~l---~~~~~~l~~~~~~ 385 (601)
.....+......+. ........+.++...+......- ......+.+....+.... .....++.+.
T Consensus 554 ~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~l~~~l-------~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~--- 621 (928)
T PRK08074 554 RLIYRYNTESEKGK--LWDAITELANRLCYDLRDLLTLL-------EAQKKELQEKMESESAFLTGEYAHLIDLLEK--- 621 (928)
T ss_pred cceeecccccccch--hhHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhhhhhhhhhhHHHHHHHHHHHHHH---
Confidence 00000000000000 00000111111111110000000 000000000000000000 0000000000
Q ss_pred hhccCCCccchhHHHHhHHHhhcccCCceEEEEecCCCCCCCCCCCeEEEEecCccccc-hHHhhccCEEEEecCCCCCc
Q 007505 386 LEITDTDEFLHIQTICDFATLVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFDRFQSVVITSGTLSPI 464 (601)
Q Consensus 386 l~~~~~~~~~~l~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ldps~~l-~~l~~~~~svIltSgTLsp~ 464 (601)
...+..++...+++++.|++..... ......++..|+|++..| +.+|++++++|||||||++.
T Consensus 622 --------------~~~l~~~~~~~~~~~v~w~e~~~~~--~~~~~~l~~~pld~~~~l~~~l~~~~~~~iltSATL~~~ 685 (928)
T PRK08074 622 --------------MAQLLQLLFEEDPDYVTWIEIDAKG--AINATRLYAQPVEVAERLADEFFAKKKSVILTSATLTVN 685 (928)
T ss_pred --------------HHHHHHHHhcCCCCeEEEEEecCCC--CCceEEEEEeeccHHHHHHHHHHhcCCcEEEEeeecccC
Confidence 0111112222345678899865321 112457999999999999 56889999999999999987
Q ss_pred cch---hhhcCCCCc--ccccceeeecCCceeeeeeecCCCCCcceeeeccCCChHHHHHHHHHHHHhhcccCCeEEEEe
Q 007505 465 DLY---PRLLNFHPV--VSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFF 539 (601)
Q Consensus 465 ~~f---~~~Lg~~~~--~~~~~~~~~~~~~~~~~~i~~g~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfF 539 (601)
++| .+.||++.. ....++++++..+-...+++. .++ +..+++++.|.+.+++.|.+++..++||+||||
T Consensus 686 ~~f~~~~~~lGl~~~~~~~~~~~SpF~~~~q~~l~vp~-----d~p-~~~~~~~~~~~~~la~~i~~l~~~~~g~~LVLF 759 (928)
T PRK08074 686 GSFDYIIERLGLEDFYPRTLQIPSPFSYEEQAKLMIPT-----DMP-PIKDVPIEEYIEEVAAYIAKIAKATKGRMLVLF 759 (928)
T ss_pred CCcHHHHHhcCCCCCCccEEEeCCCCCHHHhcEEEeec-----CCC-CCCCCChHHHHHHHHHHHHHHHHhCCCCEEEEE
Confidence 655 578998642 123344444322111122322 122 124455678889999999999999999999999
Q ss_pred cCHHHHHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 540 VSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 540 pSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
|||++|++|++.|++... .....++.++.+..++..++++|++ +.++||||+
T Consensus 760 tSy~~l~~v~~~l~~~~~----~~~~~ll~Qg~~~~~r~~l~~~F~~----~~~~iLlG~ 811 (928)
T PRK08074 760 TSYEMLKKTYYNLKNEEE----LEGYVLLAQGVSSGSRARLTKQFQQ----FDKAILLGT 811 (928)
T ss_pred CCHHHHHHHHHHHhhccc----ccCceEEecCCCCCCHHHHHHHHHh----cCCeEEEec
Confidence 999999999999975311 1224577765434567889999997 368999996
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-53 Score=479.55 Aligned_cols=480 Identities=16% Similarity=0.184 Sum_probs=308.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH-HHHhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA-ELKLL 90 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~-el~~l 90 (601)
.+|+. ||+|.+||..|.+++.+++++++|||||||||+|||+|++.++. . ++ +|||+|+|+++|+|++. |++.+
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 45775 89999999999999999999999999999999999999999887 2 57 99999999999999987 78887
Q ss_pred hhhhcccCCCccceEEEeecCccc-cccchhhhhccChhhHHHHh---HHhhhHHHHhhhhcCCCCCCCccccchHHhhh
Q 007505 91 HNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAAC---RKRTASWVRALAAENPNIETCEFFENYEKAAS 166 (601)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~l~~r~~-lC~~~~~~~~~~~~~~~~~c---~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~ 166 (601)
.+.. +.++++++++||+| +|+.+......... .+..| +..+..|..+|++||.+ .++........|.
T Consensus 317 ~~~~------~~~~~~~~~kG~~~ylcl~k~~~~l~~~~-~~~~~~~~~~~~~~wl~~T~tGD~~--el~~~~~~~~~~~ 387 (850)
T TIGR01407 317 NEIL------NFKINAALIKGKSNYLSLGKFSQILKDNT-DNYEFNIFKMQVLVWLTETETGDLD--ELNLKGGNKMFFA 387 (850)
T ss_pred HHHc------CCCceEEEEEcchhhccHHHHHHHHhcCC-CcHHHHHHHHHHHHHhccCCccCHh--hccCCCcchhhHH
Confidence 6542 45689999999999 88876654332111 11122 22346899999998743 3332211111111
Q ss_pred ccCCCCCCCCHHHHHHhccccCcchhHHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChHHHHHHh
Q 007505 167 AAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEA 246 (601)
Q Consensus 167 ~~~~~~~~~~~~~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~~~~~~~ 246 (601)
. + .++. |+.+.|++++.|||+.+|+.+++|||||+||+|||++..... ..+|++.++||||||||+|+|+++
T Consensus 388 ~--i---~~~~-~l~~~c~~~~~Cf~~~ar~~a~~AdivItNHa~L~~~~~~~~--~ilp~~~~lIiDEAH~L~d~a~~~ 459 (850)
T TIGR01407 388 Q--V---RHDG-NLSKKDLFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDNP--ELFPSFRDLIIDEAHHLPDIAENQ 459 (850)
T ss_pred H--h---hcCC-CCCCCCCCccccHHHHHHHHHhcCCEEEecHHHHHHHhhccc--ccCCCCCEEEEECcchHHHHHHHH
Confidence 1 0 1111 667789999999999999999999999999999997754321 235788999999999999999999
Q ss_pred cccccCHHHHHHHHHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhhcCCchhch
Q 007505 247 LSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRA 326 (601)
Q Consensus 247 ~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ 326 (601)
+|.+++...+..+++.+.... ...+...+.+++....... ...+. .
T Consensus 460 ~~~~ls~~~~~~~l~~l~~~~----------~~~l~~~l~~~~~~~~~~~-----~~~~~---~---------------- 505 (850)
T TIGR01407 460 LQEELDYADIKYQIDLIGKGE----------NEQLLKRIQQLEKQEILEK-----LFDFE---T---------------- 505 (850)
T ss_pred hcceeCHHHHHHHHHHHHhhh----------hHHHHHHHHHHHHHHHHHH-----Hhhhh---h----------------
Confidence 999999999988877653211 0011111111111100000 00000 0
Q ss_pred hhHHHHHHHHHHHHHhhhhcccccccChhhHHHHHHhhhccCcchhhhhHHHHHHHHHHhhccCCCccchhHHHHhHHHh
Q 007505 327 EHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATL 406 (601)
Q Consensus 327 ~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~l~~~~~f~~~ 406 (601)
......+..+.+.+.+.+... ..+.+ .....+...+..+.. .+..+..+.
T Consensus 506 ~~~~~~l~~~~~~l~~~l~~~-----------~~~~~------~~~~~l~~~~~~~~~-----------~~~~l~~~~-- 555 (850)
T TIGR01407 506 KDILKDLQAILDKLNKLLQIF-----------SELSH------KTVDQLRKFDLALKD-----------DFKNIEQSL-- 555 (850)
T ss_pred hhHHHHHHHHHHHHHHHHHHH-----------Hhhhh------hhHHHHHHHHHHHHH-----------HHHHHHHHh--
Confidence 000000111111111100000 00000 000000000000000 001111111
Q ss_pred hcccCCceEEEEecCCCCCCCCCCCeEEEEecCccccc-hHHhhccCEEEEecCCCC---CccchhhhcCCCCcccccc-
Q 007505 407 VGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAV-KPVFDRFQSVVITSGTLS---PIDLYPRLLNFHPVVSRSF- 481 (601)
Q Consensus 407 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ldps~~l-~~l~~~~~svIltSgTLs---p~~~f~~~Lg~~~~~~~~~- 481 (601)
.+....|++..... ......++..|+||+..+ +.+|++.+++|||||||+ |.++|.+.||++......+
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 23346787754321 112456899999999988 789999999999999999 5567788999964322222
Q ss_pred eeeec-CCceeeeeeecCCCCCcceeeeccCCChHHHHHHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHH
Q 007505 482 KMSLT-RDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKE 560 (601)
Q Consensus 482 ~~~~~-~~~~~~~~i~~g~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~ 560 (601)
+++++ .++.. .+++. .++ .+.+++.+.+.+++++.|.+++..++|++|||||||.+|+++++.|...+
T Consensus 630 ~spf~~~~~~~-l~v~~-----d~~-~~~~~~~~~~~~~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~~---- 698 (850)
T TIGR01407 630 PTPLNYAENQR-VLIPT-----DAP-AIQNKSLEEYAQEIASYIIEITAITSPKILVLFTSYEMLHMVYDMLNELP---- 698 (850)
T ss_pred CCCCCHHHcCE-EEecC-----CCC-CCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhhc----
Confidence 34444 22322 22222 122 23445667788899999999999999999999999999999999997521
Q ss_pred HhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 561 IMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 561 l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
......++.++++ .++..++++|++ ++++||||+
T Consensus 699 ~~~~~~~l~q~~~-~~r~~ll~~F~~----~~~~iLlgt 732 (850)
T TIGR01407 699 EFEGYEVLAQGIN-GSRAKIKKRFNN----GEKAILLGT 732 (850)
T ss_pred cccCceEEecCCC-ccHHHHHHHHHh----CCCeEEEEc
Confidence 1224568887665 467889999987 478999986
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=8.5e-51 Score=434.96 Aligned_cols=492 Identities=14% Similarity=0.093 Sum_probs=300.5
Q ss_pred HHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh-hhhcccC
Q 007505 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH-NYQTRHL 98 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~-~~~~~~~ 98 (601)
+|.+||+.|++++.+++++++|||||||||+|||+|++.|+.... ++ ||+|+|+|++||+|++++++.+. +..
T Consensus 1 ~Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~-~~-rvlIstpT~~Lq~Ql~~~l~~l~~~~l---- 74 (636)
T TIGR03117 1 EQALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERP-DQ-KIAIAVPTLALMGQLWSELERLTAEGL---- 74 (636)
T ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhcc-Cc-eEEEECCcHHHHHHHHHHHHHHHHhhc----
Confidence 599999999999999999999999999999999999999987432 56 99999999999999999999886 432
Q ss_pred CCccceEEEeecCccc-cccchhhhhccChhhHHHHhHHhhhHHHHhhh-h-cCCCCCCCccc--------cchHHhhhc
Q 007505 99 GPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAACRKRTASWVRALA-A-ENPNIETCEFF--------ENYEKAASA 167 (601)
Q Consensus 99 ~~~~~~~~~~l~~r~~-lC~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~-~-~~~~~~~c~~~--------~~~~~~~~~ 167 (601)
+.+++++.++||+| +|.++......... .+. ...+..|..+|+ . |+.. ..|.+- ...+.....
T Consensus 75 --~~~i~~~~lkGr~nYlCl~rl~~~l~~~~-~~~--~~~i~~W~~~T~~~~~~~~-~~~~~~~~~~~~~~~tGD~~el~ 148 (636)
T TIGR03117 75 --AGPVQAGFFPGSQEFVSPGALQELLDQSG-YDK--DPAVQLWIGQGGPLIHEAA-LIRCMSDAPTKMHWMTHDLKAVA 148 (636)
T ss_pred --CCCeeEEEEECCcccccHHHHHHHhcccc-hhH--HHHHHHHHhcCCccccccc-hhccccchhhccCCCCCCHhhcc
Confidence 45788999999999 88887655332211 111 233467999884 0 1100 001110 000000000
Q ss_pred cCCCCCCCCHHHHHHhccccCcchhHHHHHh---hccCcEEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChHHHHH
Q 007505 168 AVLPPGVYTLQDLRAFGKQQGWCPYFLARHM---VQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCI 244 (601)
Q Consensus 168 ~~~~~~~~~~~~l~~~~~~~~~Cpy~~~r~~---~~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~~~~~ 244 (601)
..+... ...|+...|.. ..|+|+.+|+. ++.|||||+||++|+.. .+... ..+|+++++||||||||+++|.
T Consensus 149 -~~~~~~-~~~~~~~~~~~-~~~~~~~aR~~~~~a~~AdivItNHalL~~~-~~~~~-~iLP~~~~lIiDEAH~L~d~A~ 223 (636)
T TIGR03117 149 -TLLNRQ-DDVTLAIREDD-EDKRLVESREYEAEARRCRILFCTHAMLGLA-FRDKW-GLLPQPDILIVDEAHLFEQNIS 223 (636)
T ss_pred -CCcCcc-hhhhccccCCC-cccHHHHHHHHhhccccCCEEEECHHHHHHH-hhhhc-CCCCCCCEEEEeCCcchHHHHH
Confidence 000000 01122334544 45899999999 99999999999999963 34332 3578999999999999999999
Q ss_pred HhcccccCHHHHHHHHHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhhcCCchh
Q 007505 245 EALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIR 324 (601)
Q Consensus 245 ~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ 324 (601)
++++.++|..++...++.+..... ... .......+...++.+....... . +.. .
T Consensus 224 ~~~g~~ls~~~l~~~l~~l~~~~~--~~~----~~~~~~~~~~~~~~l~~~~~~~--~-----~~~-------------~ 277 (636)
T TIGR03117 224 RVYSNALSLRRLHLYVEKRHTGAG--KGI----VSAAVAAVSHCIQRLRALDVFG--D-----GQT-------------L 277 (636)
T ss_pred HHhccEECHHHHHHHHHHHhhccc--chh----HHHHHHHHHHHHHHHHhhhccc--c-----ccc-------------c
Confidence 999999999988887775421100 000 0011112223333322100000 0 000 0
Q ss_pred chhhHHHHHHHHHHHHHhhhhcccccccChhhHHHHHHhhhccCcchhhhhHHHHHHHHHHhhccCCCccchhHHHHhHH
Q 007505 325 RAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFA 404 (601)
Q Consensus 325 ~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~l~~~~~f~ 404 (601)
........+.++...+...+. .+.. . ........+.+|++.+.+.+..+ .
T Consensus 278 ~~~~~~~~l~~l~~~L~~l~~--------------~l~~-~-~~~~~~~~~~~rl~~~~~~~~~~--------------~ 327 (636)
T TIGR03117 278 CLDAGNKELETLFADLDAALD--------------ACSV-G-RNRDENKKALSVVKDVKKARFIL--------------D 327 (636)
T ss_pred cHHHHHHHHHHHHHHHHHHHH--------------HHhh-c-ccchHHHHHHHHHHHHHHHHHHH--------------h
Confidence 001111111111111111000 0000 0 00011222455555554433221 1
Q ss_pred Hhhccc--CCceEEEEecCCCCCCCCCCCeEEEEecCccccchHH-hhccCEEEEecCCCCCcc--------chhhhcCC
Q 007505 405 TLVGTY--TRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPV-FDRFQSVVITSGTLSPID--------LYPRLLNF 473 (601)
Q Consensus 405 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~ldps~~l~~l-~~~~~svIltSgTLsp~~--------~f~~~Lg~ 473 (601)
..+... ...+.+|++.... ...|+..|+|++..|+.+ +++.+++|||||||+..+ +|.+.+|+
T Consensus 328 ~~~~~~~~~~~~~~~~~~~~~------~~~L~~~Pl~va~~l~~~~~~~~~~~I~TSATL~v~~~~~~~~F~~f~~~lGL 401 (636)
T TIGR03117 328 NAITAIQGKASAVLQFSPDRR------FPSLIVGREDLGKVMGGLWKDVTHGAIIVSATLYLPDRFGQMSCDYLKRVLSL 401 (636)
T ss_pred hhccccccccceEEEEecCCC------ceEEEEecccHHHHHHHHHhcCCCeEEEEccccccCCcCCCcCcHHHHHhcCC
Confidence 100011 1246777765321 348999999999999654 567789999999999955 46788998
Q ss_pred CCcccccceeeec----CCceeeeeeecC-CCCCcceeeeccCC------ChHHHHHHHHHHHHhhcccCCeEEEEecCH
Q 007505 474 HPVVSRSFKMSLT----RDCICPMVLTRG-SDQLPVSTKFDMRS------DPGVARNYGKLLVEMVSIVPDGIVCFFVSY 542 (601)
Q Consensus 474 ~~~~~~~~~~~~~----~~~~~~~~i~~g-~~~~~l~s~f~~r~------~~~~~~~l~~~i~~~~~~~~gg~LVfFpSy 542 (601)
+.. ....++++. ++.+....++.. +..++-+......+ .+++.+++++.|.+++....||+|||||||
T Consensus 402 ~~~-~l~~~SPFd~~y~~qa~~~LyvP~~~~~~lP~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~lvLfTS~ 480 (636)
T TIGR03117 402 PLS-RLDTPSPIVAPWVRNAIPHLHVPNAKARFLRPVGKDEQGDANLQEAERTWLENVSLSTAAILRKAQGGTLVLTTAF 480 (636)
T ss_pred Ccc-ceeCCCCCCchhHhcCceEEEEcCccccCCCCCCCCcccchhhhcchhhHHHHHHHHHHHHHHHcCCCEEEEechH
Confidence 632 233344444 334222333321 01111111111111 255777899999999999999999999999
Q ss_pred HHHHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 543 SYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 543 ~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
+.|+++++.+++ ++ ..++++++.+ .+...++++|++.++.|.++||||+
T Consensus 481 ~~~~~~~~~l~~-----~l--~~~~l~qg~~-~~~~~l~~~f~~~~~~~~~~vL~gt 529 (636)
T TIGR03117 481 SHISAIGQLVEL-----GI--PAEIVIQSEK-NRLASAEQQFLALYANGIQPVLIAA 529 (636)
T ss_pred HHHHHHHHHHHh-----hc--CCCEEEeCCC-ccHHHHHHHHHHhhcCCCCcEEEeC
Confidence 999999999975 34 3679996643 2567899999999888889999996
No 9
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=5.2e-50 Score=448.11 Aligned_cols=511 Identities=23% Similarity=0.270 Sum_probs=303.4
Q ss_pred CeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHH
Q 007505 7 DVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 7 ~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
...+.||+..+|+.|.+||..|.+++.+++++++|||||||||++||+|++.|+... ++ +|||+|+|+++|+|++++
T Consensus 6 ~~~~~~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~--~~-~viist~t~~lq~q~~~~ 82 (654)
T COG1199 6 YLAVAFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREE--GK-KVIISTRTKALQEQLLEE 82 (654)
T ss_pred hHHhhCCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHc--CC-cEEEECCCHHHHHHHHHh
Confidence 345678877789999999999999999999999999999999999999999999977 57 999999999999999997
Q ss_pred HHhhhhhhcccCCCccceEEEeecCccc-cccchhhhhccChhhHHHHhHHh-------hhHHHHhhhhcCCCCCCCccc
Q 007505 87 LKLLHNYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENRDSVDAACRKR-------TASWVRALAAENPNIETCEFF 158 (601)
Q Consensus 87 l~~l~~~~~~~~~~~~~~~~~~l~~r~~-lC~~~~~~~~~~~~~~~~~c~~~-------~~~~~~~~~~~~~~~~~c~~~ 158 (601)
...+..... ....++..++||.| +|+.+.......+......|... ...|..++.+++.+......
T Consensus 83 ~~~~~~~~~-----~~~~~~~~~kgr~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 156 (654)
T COG1199 83 DLPIHKLLK-----KLGGKFALLKGRSNYLCLSRLERLAQLGGDDDDYLQSLALKALADLLVWLTETKTGDLRELTPKA- 156 (654)
T ss_pred hcchhhhhh-----hhhhHHHHHhccccccchHHHHHHHHccCcchhHHhhhhHHHHHHHHHHhhcCCCCChhhccccc-
Confidence 665433221 12224678999999 66555443222222222333321 34566666555422111111
Q ss_pred cchHHhhhccCCCCCCCCH------HHHHHhccccCcchhHHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcEEE
Q 007505 159 ENYEKAASAAVLPPGVYTL------QDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVV 232 (601)
Q Consensus 159 ~~~~~~~~~~~~~~~~~~~------~~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilI 232 (601)
.....|.. .|....|+.+..|||+.+|+.++.||+||+||++++.....+.....+|++.++|
T Consensus 157 -----------~~~~~~~~~~~~~~~~~~~~cp~~~~c~~~~~~~~~~~ad~vv~nh~~~~~~~~~~~~~~~~p~~~v~v 225 (654)
T COG1199 157 -----------LDDPLWTLVTDDKDSCLGEDCPYYTECFYFPARKEAENADLVVTNHALLLADVALEESRILLPENDVVV 225 (654)
T ss_pred -----------cccchhhhhhcccccccccCCcchhhhHHHHHHHHHhhCCEEEEccHHHHhHHHhhhhhccCCcccEEE
Confidence 11111211 1344679999999999999999999999999999997766543322157899999
Q ss_pred EeCCCChHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHhhcCCCccccccccCCCCCh
Q 007505 233 FDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPS 312 (601)
Q Consensus 233 iDEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~ 312 (601)
||||||||+.|++++|.+++...|..+.+++......... ...........+...++......... .....
T Consensus 226 ~DEAH~l~d~a~~~~s~~l~~~~L~~~~~~~~~~~~~~~~-~~~~~~~~~~~L~~~~~~~~~~~~~~--------~~~~~ 296 (654)
T COG1199 226 FDEAHNLPDIARSALSIRLSERTLERLLKEIQALGETLEK-DLKRLEDLADRLEKALEDLRELLIFD--------VDELG 296 (654)
T ss_pred EeccccchHHHHHHHHHHhhHHHHHHHHHHHHHhhhhhhh-hHHHHHhhHHHHHHHHHHHHHHHhcc--------hhhhh
Confidence 9999999999999999999999999998877765421000 00000000011111111111100000 00000
Q ss_pred hhhhhhcCCchhchhhHHHHHHHHHHHHHhhhhcccccccChhhHHHHHHhhhccCcchhhhhHHHHHHHHHHhhccCCC
Q 007505 313 DILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTD 392 (601)
Q Consensus 313 ~~~~~~~~~~i~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 392 (601)
.+... ..... ........+..+.+.+...+.. ..++.....+ ..+. ......++.....
T Consensus 297 ~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~--~~d~--~~~~~~~~~~~~~-------- 355 (654)
T COG1199 297 NLRER-LREQL-SSEEAKEALGKLEEALLEKLKN-------LSELLGLSQN--ELDR--PTSILERLKEELD-------- 355 (654)
T ss_pred hHHHh-ccccc-hhhHHHHHHHHHHHHHHHHHHH-------HHHHHHhhhh--hccc--hhHHHHHHHHHHH--------
Confidence 00000 00000 0000000001111100000000 0000000000 0000 0000111111111
Q ss_pred ccchhHHHHhHHH--hhcccCCceEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCEEEEecCCCCCccchhhh
Q 007505 393 EFLHIQTICDFAT--LVGTYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPIDLYPRL 470 (601)
Q Consensus 393 ~~~~l~~~~~f~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ldps~~l~~l~~~~~svIltSgTLsp~~~f~~~ 470 (601)
.+.. .......++..|++..+..+ ...+..+|++|+...+.+|++++++|||||||+|.++|...
T Consensus 356 ---------~~~~~~~~~~~~~~~~~w~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~vl~SaTL~~~~~f~~~ 422 (654)
T COG1199 356 ---------RLLSRELLLSDDPDYSYWLEIEEREG----VLLLVLPLLVPSKLLEELFSKVASVVLTSATLSPLDSFSSL 422 (654)
T ss_pred ---------HHHhhcccccCCCCceEEEEeccccc----ceeEEeecccHHHHHHHHHhhcCcEEEeeeeccCCCcHHHH
Confidence 1111 00112346888888765321 11356777778877799999999999999999999999988
Q ss_pred cCCCCcccccceeeecC--CceeeeeeecCCCCCcceeeeccCCChHHHHHHHHHHHHhhcccCCeEEEEecCHHHHHHH
Q 007505 471 LNFHPVVSRSFKMSLTR--DCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEI 548 (601)
Q Consensus 471 Lg~~~~~~~~~~~~~~~--~~~~~~~i~~g~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v 548 (601)
+|+.+.........++. +... .....+++.|..++++.+..+++..|.++++.+|||+|||||||.+|+.+
T Consensus 423 ~~~~~~~~~~~~~~~~spf~~~~-------~~~~~v~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~lvlF~Sy~~l~~~ 495 (654)
T COG1199 423 LGLLGLEEKLRFLSLPSPFNYEE-------QGQLYVPTDLPEPREPELLAKLAAYLREILKASPGGVLVLFPSYEYLKRV 495 (654)
T ss_pred HHHcCCccccceeccCCCCChhh-------cceEeccccCCCCCChHHHHHHHHHHHHHHhhcCCCEEEEeccHHHHHHH
Confidence 87654211110011110 1000 00123444555555567889999999999999999999999999999999
Q ss_pred HHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEE
Q 007505 549 IATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFS 598 (601)
Q Consensus 549 ~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfa 598 (601)
++.|++...+ ..++. ++..++..++++|++.. .+++++|
T Consensus 496 ~~~~~~~~~~------~~v~~--q~~~~~~~~l~~f~~~~---~~~~lv~ 534 (654)
T COG1199 496 AERLKDERST------LPVLT--QGEDEREELLEKFKASG---EGLILVG 534 (654)
T ss_pred HHHHhhcCcc------ceeee--cCCCcHHHHHHHHHHhc---CCeEEEe
Confidence 9999864211 34555 55566778999999974 2355554
No 10
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=4.8e-49 Score=441.10 Aligned_cols=453 Identities=15% Similarity=0.145 Sum_probs=287.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHH-HHHHhhh
Q 007505 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL-AELKLLH 91 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~-~el~~l~ 91 (601)
+|+. ||+|.+||..|+++|.+++++++|||||||||+|||+|++.++. +. +|||+|+|..+|+|++ ++++.+.
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 3876 99999999999999999999999999999999999999887542 46 9999999999999997 5788876
Q ss_pred hhhcccCCCccceEEEeecCccc-cccchhhhhccCh--hhHHHHhHHhhhHHHHhhhhcCCCCCCCccccchHHhhhcc
Q 007505 92 NYQTRHLGPAAKILAIGLSSRKN-LCVNSRVLAAENR--DSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAA 168 (601)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~~r~~-lC~~~~~~~~~~~--~~~~~~c~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~ 168 (601)
++. ++++..++|+.| +|.++....+... ..........+..|+.+|++||.+ +++........|...
T Consensus 317 ~~~--------~~~~~~~kg~~~ylcl~k~~~~l~~~~~~~~~~~~~~~il~Wl~~T~tGD~~--El~~~~~~~~~w~~i 386 (820)
T PRK07246 317 EVF--------HIDCHSLKGPQNYLKLDAFYDSLQQNDDNRLVNRYKMQLLVWLTETETGDLD--EIKQKQRYAAYFDQL 386 (820)
T ss_pred Hhc--------CCcEEEEECCcccccHHHHHHHhhccCcchHHHHHHHHHHHHHhcCCCCCHh--hccCCccccHHHHHh
Confidence 542 345678888888 9999876543211 111122333456799999999754 555432211122210
Q ss_pred CCCCCCCCHHHHHHhccccCcchhHHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChHHHHHHhcc
Q 007505 169 VLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEALS 248 (601)
Q Consensus 169 ~~~~~~~~~~~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~~~~~~~~s 248 (601)
.++ .|+...|++++.|||+.+|+.+++|||||+||+||+++.... ..+|+++++||||||||++++.++.+
T Consensus 387 -----~~~-~~~~~~cp~~~~cf~~~ar~~a~~AdivItNHall~~~~~~~---~~~p~~~~lIiDEAH~l~~~~~~~~~ 457 (820)
T PRK07246 387 -----KHD-GNLSQSSLFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDD---KDFARNKVLVFDEAQKLMLQLEQLSR 457 (820)
T ss_pred -----hcc-CCCCCCCCcchhhHHHHHHHHHHhCCEEEEchHHHHHHHhhc---cCCCCCCEEEEECcchhHHHHHHHhc
Confidence 011 124457999999999999999999999999999999654332 23688999999999999999887777
Q ss_pred cccCHHHHHHHHHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhhcCCchhchhh
Q 007505 249 VSVRRQTLEGATRNLSRINQEIERFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEH 328 (601)
Q Consensus 249 ~~is~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~ 328 (601)
..++...+...+..+.. ... ..+.. ..+..+.
T Consensus 458 ~~~~~~~~~~~l~~~~~---~~~-------~~~~~---~~~~~~~----------------------------------- 489 (820)
T PRK07246 458 HQLNITSFLQTIQKALS---GPL-------PLLQK---RLLESIS----------------------------------- 489 (820)
T ss_pred ceecHHHHHHHHHHHHH---HHH-------HHHhh---hhHHHHH-----------------------------------
Confidence 77876666644332110 000 00000 0000000
Q ss_pred HHHHHHHHHHHHHhhhhcccccccChhhHHHHHHhhhccCcchhhhhHHHHHHHHHHhhccCCCccchhHHHHhHHHhhc
Q 007505 329 FLHVLRRLVQYLRGRLETENVEKEGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVG 408 (601)
Q Consensus 329 ~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~l~~~~~f~~~~~ 408 (601)
..+..+...+..... ....... ..++...+..+.. + .... +...+.
T Consensus 490 --~~~~~~~~~~~~~~~--------~~~~~~~---------------l~~l~~~l~~l~~---~---~~~~---~~~~~~ 535 (820)
T PRK07246 490 --FELLQLSEQFYQGKE--------RQLIHDS---------------LSRLHQYFSELEV---A---GFQE---LQAFFA 535 (820)
T ss_pred --HHHHHHHHHHHhhhh--------hHHHHHH---------------HHHHHHHHHHHHH---H---HHHH---HHHHHh
Confidence 000000000000000 0000000 0111111111110 0 0001 111111
Q ss_pred ccCCceEEEEecCCCCCCCCCCCeEEEEecCccccchHHhhccCEEEEecCCCCCc--cchhhhcCCCCcccccceeeec
Q 007505 409 TYTRGFSIIIEPFDERMPHIPDPVLQLSCHDASLAVKPVFDRFQSVVITSGTLSPI--DLYPRLLNFHPVVSRSFKMSLT 486 (601)
Q Consensus 409 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ldps~~l~~l~~~~~svIltSgTLsp~--~~f~~~Lg~~~~~~~~~~~~~~ 486 (601)
. ...++|++..... ......++..|++++. ++.+|++.+++|||||||+.. -+|.+.+|++.....+.++...
T Consensus 536 ~--~~~~~W~e~~~~~--~~~~~~l~~~pl~v~~-~~~~~~~~~~~i~tSATL~v~~~f~~~~~lGl~~~~~~~~~~~~~ 610 (820)
T PRK07246 536 T--AEGDYWLESEKQS--EKRVTYLNSASKAFTH-FSQLLPETCKTYFVSATLQISPRVSLADLLGFEEYLFHKIEKDKK 610 (820)
T ss_pred C--CCCeEEEEecCCC--CcceeEEEeeeCcHHH-HHHHHhcCCeEEEEecccccCCCCcHHHHcCCCccceecCCCChH
Confidence 1 1126788765321 1112469999999985 599999999999999999743 3577889986432223332222
Q ss_pred CCceeeeeeecCCCCCcceeeeccCCChHHHHHHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCe
Q 007505 487 RDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKL 566 (601)
Q Consensus 487 ~~~~~~~~i~~g~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~ 566 (601)
++.. .+++. .++.+. ..+++.|.+.+++.|..++ .++||+|||||||++|+++++.+... ...
T Consensus 611 ~~~~--~~i~~-----~~p~~~-~~~~~~~~~~~~~~i~~~~-~~~g~~LVLFtS~~~l~~v~~~l~~~--------~~~ 673 (820)
T PRK07246 611 QDQL--VVVDQ-----DMPLVT-ETSDEVYAEEIAKRLEELK-QLQQPILVLFNSKKHLLAVSDLLDQW--------QVS 673 (820)
T ss_pred HccE--EEeCC-----CCCCCC-CCChHHHHHHHHHHHHHHH-hcCCCEEEEECcHHHHHHHHHHHhhc--------CCc
Confidence 2222 22222 123222 2456778889999998888 78999999999999999999988642 357
Q ss_pred eEEecCCchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 567 VFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 567 if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
+++|+.++ +...++++|++ +.++||||+
T Consensus 674 ~l~Qg~~~-~~~~l~~~F~~----~~~~vLlG~ 701 (820)
T PRK07246 674 HLAQEKNG-TAYNIKKRFDR----GEQQILLGL 701 (820)
T ss_pred EEEeCCCc-cHHHHHHHHHc----CCCeEEEec
Confidence 88887653 45678999986 468999997
No 11
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=100.00 E-value=1.3e-49 Score=396.20 Aligned_cols=259 Identities=48% Similarity=0.782 Sum_probs=208.2
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCC--CcEEEEEcccchhHHHHHHH
Q 007505 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 9 ~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~--~~kvv~~t~T~~~~~q~~~e 86 (601)
+|.|||++ ||+|.+||+.|++++.+++++++|||||||||++||+|++.|+...+.. +.||+|+|+|+++++|.+++
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---------------hcccCCCccceEEEeecCccccccchhhhhccChhh-HHHHhHHhhhHHHHhhhhcCC
Q 007505 87 LKLLHNY---------------QTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDS-VDAACRKRTASWVRALAAENP 150 (601)
Q Consensus 87 l~~l~~~---------------~~~~~~~~~~~~~~~l~~r~~lC~~~~~~~~~~~~~-~~~~c~~~~~~~~~~~~~~~~ 150 (601)
++++... ....-..+.++++++|+||+++|+++.+..+..... .++.|..+...|...+...+.
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 000000145688999999999999998875432222 336799888777664411112
Q ss_pred CCCCCccccchHHhhhccCCCCCCCCHHHHHHhccccCcchhHHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcE
Q 007505 151 NIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (601)
Q Consensus 151 ~~~~c~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~i 230 (601)
+...|+|+++.........+...+||++++...|+.++.|||+.+|+.+++|||||+||+|||++.+++.++..+ ++.+
T Consensus 161 ~~~~c~~~~~~~~~~~~~~~~~~~~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l-~~~~ 239 (289)
T smart00489 161 KVERCPFYENTEFLLVRDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIEL-KDSI 239 (289)
T ss_pred CCCCCCccchhhhhhhhhhcccCCCCHHHHHHhcccCCCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhcccc-cccE
Confidence 356899998754322222344678999999999999999999999999999999999999999998887655555 6999
Q ss_pred EEEeCCCChHHHHHHhcccccCHHHHHHHHHHHHHHHHH
Q 007505 231 VVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQE 269 (601)
Q Consensus 231 lIiDEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~ 269 (601)
|||||||||+|+|++++|.+++...|..+.++|.++...
T Consensus 240 lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~ 278 (289)
T smart00489 240 VIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFER 278 (289)
T ss_pred EEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999988887543
No 12
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=100.00 E-value=1.3e-49 Score=396.20 Aligned_cols=259 Identities=48% Similarity=0.782 Sum_probs=208.2
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCC--CcEEEEEcccchhHHHHHHH
Q 007505 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPEN--PVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 9 ~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~--~~kvv~~t~T~~~~~q~~~e 86 (601)
+|.|||++ ||+|.+||+.|++++.+++++++|||||||||++||+|++.|+...+.. +.||+|+|+|+++++|.+++
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---------------hcccCCCccceEEEeecCccccccchhhhhccChhh-HHHHhHHhhhHHHHhhhhcCC
Q 007505 87 LKLLHNY---------------QTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDS-VDAACRKRTASWVRALAAENP 150 (601)
Q Consensus 87 l~~l~~~---------------~~~~~~~~~~~~~~~l~~r~~lC~~~~~~~~~~~~~-~~~~c~~~~~~~~~~~~~~~~ 150 (601)
++++... ....-..+.++++++|+||+++|+++.+..+..... .++.|..+...|...+...+.
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 000000145688999999999999998875432222 336799888777664411112
Q ss_pred CCCCCccccchHHhhhccCCCCCCCCHHHHHHhccccCcchhHHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcE
Q 007505 151 NIETCEFFENYEKAASAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (601)
Q Consensus 151 ~~~~c~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~i 230 (601)
+...|+|+++.........+...+||++++...|+.++.|||+.+|+.+++|||||+||+|||++.+++.++..+ ++.+
T Consensus 161 ~~~~c~~~~~~~~~~~~~~~~~~~~d~e~l~~~~~~~~~CpY~~~r~~~~~Adivi~ny~yll~~~~r~~~~~~l-~~~~ 239 (289)
T smart00488 161 KVERCPFYENTEFLLVRDLLPAEVYDIEDLLELGKRLGGCPYFASRKAIEFANVVVLPYQYLLDPKIRQALSIEL-KDSI 239 (289)
T ss_pred CCCCCCccchhhhhhhhhhcccCCCCHHHHHHhcccCCCChhHHHHHHhhcCCEEEECHHHHhcHHHHHHhcccc-cccE
Confidence 356899998754322222344678999999999999999999999999999999999999999998887655555 6999
Q ss_pred EEEeCCCChHHHHHHhcccccCHHHHHHHHHHHHHHHHH
Q 007505 231 VVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLSRINQE 269 (601)
Q Consensus 231 lIiDEAHnl~~~~~~~~s~~is~~~l~~~~~~l~~~~~~ 269 (601)
|||||||||+|+|++++|.+++...|..+.++|.++...
T Consensus 240 lIiDEAHnL~d~a~~~~s~~ls~~~l~~~~~~l~~~~~~ 278 (289)
T smart00488 240 VIFDEAHNLDNVCISALSSELSRRSLERAHKNIKKYFER 278 (289)
T ss_pred EEEeCccChHHHHHHHhcCeeCHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999988887543
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=100.00 E-value=8.2e-34 Score=263.10 Aligned_cols=173 Identities=31% Similarity=0.660 Sum_probs=130.2
Q ss_pred EEcccchhHHHHHHHHHhhhhhhcccCCCccceEEEeecCccccccchhhhhccChhhHHHHhHHhhhHHHHhhhhcCCC
Q 007505 72 YCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPN 151 (601)
Q Consensus 72 ~~t~T~~~~~q~~~el~~l~~~~~~~~~~~~~~~~~~l~~r~~lC~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~ 151 (601)
|+||||+|++|+++||+++..+.+. +.++++++|+||+++|+++.+.....++.+++.|..+...|..
T Consensus 1 y~~RThsQl~q~i~El~~~~~~~~~----~~~~~~~~l~gR~~~C~~~~v~~~~~~~~~~~~C~~l~~~~~~-------- 68 (174)
T PF06733_consen 1 YASRTHSQLSQVIRELKKINKYRPK----GESIKAVILKGRQNLCINSKVKRLANNEDINEFCRELRKSGKR-------- 68 (174)
T ss_dssp EEESSHHHHHHHHHHHCCHCCCS-----------EEEE--CCCC-TTCHHHTT-SHHHHHHHHHHHHHHHHC--------
T ss_pred CCCcCHHHHHHHHHHHHHHHhhccc----ccceeeeEeccccccccCchhhhhhhhhhHHHHHHHhhccccc--------
Confidence 7999999999999999998654321 4578999999999999999888765566788899987754321
Q ss_pred CCCCccccchHHhhh-ccCCCCCCCCHHHHHHhccccCcchhHHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcE
Q 007505 152 IETCEFFENYEKAAS-AAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESV 230 (601)
Q Consensus 152 ~~~c~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~i 230 (601)
...|+|+.+...... .......+|+++++.+.|+..+.||||.+|+.+.+|||||+||+|||++.++..+....+++.+
T Consensus 69 ~~~C~~~~~~~~~~~~~~~~~~~~~d~~~l~~~~~~~~~CPY~~~r~~~~~adivi~~y~yl~~~~~~~~~~~~~~~~~i 148 (174)
T PF06733_consen 69 KESCPYYNNFDEIEELSDLSNEEVWDIEELVEIGKKHGVCPYYLARELAKNADIVICNYNYLFDPSIRKSLFGIDLKDNI 148 (174)
T ss_dssp TCCSTTTTGGGG-HHHHHHHCHCHHHHHHHHHHHHHCT--HHHHHHHCGGG-SEEEEETHHHHSHHHHHHHCT--CCCEE
T ss_pred ccccchhHHHHhHHHhhhhcccccccHHHHHHhcCCCCCChhHHHHHhcccCCEEEeCHHHHhhHHHHhhhccccccCcE
Confidence 147999987522111 1233557899999999999999999999999999999999999999999988766423358899
Q ss_pred EEEeCCCChHHHHHHhcccccCHHHH
Q 007505 231 VVFDEAHNIDNVCIEALSVSVRRQTL 256 (601)
Q Consensus 231 lIiDEAHnl~~~~~~~~s~~is~~~l 256 (601)
|||||||||+++|++++|++||.++|
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
>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=99.74 E-value=2.2e-17 Score=141.72 Aligned_cols=142 Identities=56% Similarity=0.868 Sum_probs=130.7
Q ss_pred HhhhhchhHHHHHHHHHHHHHhhcCCCccccccccCCCCChhhhhhhcCCchhchhhHHHHHHHHHHHHHhhhhcccccc
Q 007505 272 RFKATDAGRLRAEYNRLVEGLALRGNLPIADAWLSNPALPSDILKEAVPGNIRRAEHFLHVLRRLVQYLRGRLETENVEK 351 (601)
Q Consensus 272 ~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~l~~~l~~~~~~~ 351 (601)
+++..+.+.|+++|++|.++|+........+.++.+|.+|+++..+.+||+|+.+++|+.+|++++++++.+++...+..
T Consensus 5 ~~k~~d~~rLq~EY~rLV~GL~~~~~~~~~d~~~~npvLp~dil~eaVPGnIR~AeHFv~flkR~veylk~rlrv~~v~~ 84 (146)
T PF06777_consen 5 EIKETDAQRLQDEYDRLVEGLREAEIARETDEILANPVLPDDILKEAVPGNIRRAEHFVAFLKRFVEYLKTRLRVQHVIS 84 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccccchhhcCCCCchhhhhhcCCchHHhHHHHHHHHHHHHHHHHHHhhhcceee
Confidence 34456788999999999999998776656677899999999999999999999999999999999999999998888889
Q ss_pred cChhhHHHHHHhhhccCcchhhhhHHHHHHHHHHhhccCCCccchhHHHHhHHHhhcccCCc
Q 007505 352 EGPVSFVASITAHAGIDQKTLRFCYERLHSLMLTLEITDTDEFLHIQTICDFATLVGTYTRG 413 (601)
Q Consensus 352 ~~~~~~~~~l~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~l~~~~~f~~~~~~~~~~ 413 (601)
++|.+|+..+.+...++.+++++|.+||.+++++|++.+.++|.++..+++|.+++.+|.+|
T Consensus 85 e~P~sFL~~~~~~~~id~k~LrFc~eRL~sLl~TLei~d~~df~~L~~Va~FaTLv~tY~~G 146 (146)
T PF06777_consen 85 ESPLSFLQHLKDETFIDRKPLRFCSERLSSLLRTLEITDIDDFSALQLVADFATLVSTYSKG 146 (146)
T ss_pred cCHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHCCCcHhhhhHHHHHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999999999999999999999999999999888754
No 15
>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=99.40 E-value=1.8e-12 Score=123.69 Aligned_cols=74 Identities=19% Similarity=0.175 Sum_probs=63.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC--CCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~--~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
++|..+++.|.+.+..+.+ +++++++||||+|||++|+.|++...... ..+. +++|.++|.++..|..+.++.
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 5777789999999877765 78999999999999999999988876654 2345 899999999999999888776
Q ss_pred h
Q 007505 90 L 90 (601)
Q Consensus 90 l 90 (601)
+
T Consensus 92 ~ 92 (203)
T cd00268 92 L 92 (203)
T ss_pred H
Confidence 5
No 16
>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=99.32 E-value=7.6e-12 Score=115.50 Aligned_cols=67 Identities=19% Similarity=0.289 Sum_probs=57.1
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.|.|.+.+..+. +++++++.||||+|||++|+.|++...... ... +++|.+||.++.+|..++++.+
T Consensus 1 t~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~~-~~~-~~lii~P~~~l~~q~~~~~~~~ 67 (169)
T PF00270_consen 1 TPLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQEG-KDA-RVLIIVPTRALAEQQFERLRKF 67 (169)
T ss_dssp -HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHTT-SSS-EEEEEESSHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhccC-CCc-eEEEEeeccccccccccccccc
Confidence 378988887766 678899999999999999999998877654 345 8999999999999999988775
No 17
>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=99.31 E-value=1.7e-11 Score=114.71 Aligned_cols=67 Identities=28% Similarity=0.426 Sum_probs=56.3
Q ss_pred CCHHHHHHHHHHHHHHhhc---CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 17 IYPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~---~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
+||.|.+.+..+.+.+... .++++++|||+|||..++..+.... + +++|.+++.++.+|+.+++..+
T Consensus 4 lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~------~-~~l~~~p~~~l~~Q~~~~~~~~ 73 (184)
T PF04851_consen 4 LRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA------R-KVLIVAPNISLLEQWYDEFDDF 73 (184)
T ss_dssp E-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH------C-EEEEEESSHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc------c-ceeEecCHHHHHHHHHHHHHHh
Confidence 4899999999999999976 8999999999999998885433322 3 8999999999999999988654
No 18
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.28 E-value=2.1e-11 Score=129.79 Aligned_cols=76 Identities=26% Similarity=0.251 Sum_probs=62.3
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC-------CCCcEEEEEcccchhHHHH
Q 007505 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-------ENPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 11 ~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~-------~~~~kvv~~t~T~~~~~q~ 83 (601)
.++|..|+|.|.+.+.. +-+|+.+++.||||+|||++|++|++......+ .+. +++|.+||..+..|+
T Consensus 25 ~~g~~~pt~iQ~~aip~----il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~-~~lil~PtreLa~Qi 99 (423)
T PRK04837 25 KKGFHNCTPIQALALPL----TLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQP-RALIMAPTRELAVQI 99 (423)
T ss_pred HCCCCCCCHHHHHHHHH----HhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCc-eEEEECCcHHHHHHH
Confidence 36788889999987765 447889999999999999999999887654321 124 899999999999999
Q ss_pred HHHHHhhh
Q 007505 84 LAELKLLH 91 (601)
Q Consensus 84 ~~el~~l~ 91 (601)
.+++..+.
T Consensus 100 ~~~~~~l~ 107 (423)
T PRK04837 100 HADAEPLA 107 (423)
T ss_pred HHHHHHHh
Confidence 99887764
No 19
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.26 E-value=3.7e-11 Score=128.45 Aligned_cols=76 Identities=24% Similarity=0.189 Sum_probs=62.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC---CCCcEEEEEcccchhHHHHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---ENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~---~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.+|..|+|.|.+.+..+. +++.+++.||||+|||++|++|++.+....+ .+..+++|.++|..+..|+.+.+.
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 678888999988877655 5778999999999999999999988765432 122389999999999999998877
Q ss_pred hhh
Q 007505 89 LLH 91 (601)
Q Consensus 89 ~l~ 91 (601)
.+.
T Consensus 95 ~l~ 97 (434)
T PRK11192 95 ELA 97 (434)
T ss_pred HHH
Confidence 764
No 20
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.25 E-value=3.7e-11 Score=128.85 Aligned_cols=77 Identities=17% Similarity=0.173 Sum_probs=62.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCC-----CCcEEEEEcccchhHHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-----NPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~-----~~~kvv~~t~T~~~~~q~~~e 86 (601)
+.|..++|.|.+.+..+. +++.+++.||||+|||++|++|.+........ ...+++|.++|..|..|+.++
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 578888999998887654 67889999999999999999998877643211 123799999999999999998
Q ss_pred HHhhhh
Q 007505 87 LKLLHN 92 (601)
Q Consensus 87 l~~l~~ 92 (601)
++.+.+
T Consensus 95 ~~~~~~ 100 (456)
T PRK10590 95 VRDYSK 100 (456)
T ss_pred HHHHhc
Confidence 887643
No 21
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.24 E-value=4.9e-11 Score=130.58 Aligned_cols=75 Identities=23% Similarity=0.243 Sum_probs=61.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC-------CCCcEEEEEcccchhHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-------ENPVKLIYCTRTVHEMEKTL 84 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~-------~~~~kvv~~t~T~~~~~q~~ 84 (601)
++|+.++|.|.+.+..+ -+++.+++.||||+|||++|++|++......+ .+. +++|.++|..|..|+.
T Consensus 27 ~g~~~ptpiQ~~~ip~~----l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~-raLIl~PTreLa~Qi~ 101 (572)
T PRK04537 27 AGFTRCTPIQALTLPVA----LPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDP-RALILAPTRELAIQIH 101 (572)
T ss_pred CCCCCCCHHHHHHHHHH----hCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCc-eEEEEeCcHHHHHHHH
Confidence 67888899999888654 47889999999999999999999887654321 124 8999999999999999
Q ss_pred HHHHhhh
Q 007505 85 AELKLLH 91 (601)
Q Consensus 85 ~el~~l~ 91 (601)
+++..+.
T Consensus 102 ~~~~~l~ 108 (572)
T PRK04537 102 KDAVKFG 108 (572)
T ss_pred HHHHHHh
Confidence 9887753
No 22
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.24 E-value=4e-11 Score=129.06 Aligned_cols=75 Identities=19% Similarity=0.159 Sum_probs=62.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
.+|+.++|.|.+.+..+. +++++++.||||+|||++|++|.+........+. +++|.+||..+..|+.++++.+.
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 578888999988887654 6889999999999999999999887765433234 89999999999999999888764
No 23
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.23 E-value=4.7e-11 Score=129.75 Aligned_cols=74 Identities=24% Similarity=0.199 Sum_probs=60.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC-------CCCCcEEEEEcccchhHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-------PENPVKLIYCTRTVHEMEKTL 84 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~-------~~~~~kvv~~t~T~~~~~q~~ 84 (601)
.+|..|+|.|.+.+..+. .|+++++.||||+|||++|++|++...... ..+. +++|.+||..|..|+.
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 578888999998876654 688999999999999999999988765421 1245 8999999999999988
Q ss_pred HHHHhh
Q 007505 85 AELKLL 90 (601)
Q Consensus 85 ~el~~l 90 (601)
++++.+
T Consensus 214 ~~~~~l 219 (518)
T PLN00206 214 DQAKVL 219 (518)
T ss_pred HHHHHH
Confidence 877765
No 24
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.21 E-value=7.5e-11 Score=129.98 Aligned_cols=76 Identities=17% Similarity=0.154 Sum_probs=62.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
.+|+.|+|.|.+.+..+ .+++.+|+.||||||||++|++|++........+. +++|.+||..|..|+.+++..+.
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 67888899998877654 46788999999999999999999887655433345 89999999999999999888764
Q ss_pred h
Q 007505 92 N 92 (601)
Q Consensus 92 ~ 92 (601)
+
T Consensus 99 ~ 99 (629)
T PRK11634 99 K 99 (629)
T ss_pred h
Confidence 3
No 25
>PTZ00110 helicase; Provisional
Probab=99.20 E-value=7.4e-11 Score=128.70 Aligned_cols=74 Identities=16% Similarity=0.089 Sum_probs=60.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC-----CCCCcEEEEEcccchhHHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-----PENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~-----~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
..|+.|+|.|.+.+.. +..++.+|+.||||+|||++|++|++...... ..++ .++|.+||..|..|+.++
T Consensus 148 ~g~~~pt~iQ~~aip~----~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp-~~LIL~PTreLa~Qi~~~ 222 (545)
T PTZ00110 148 AGFTEPTPIQVQGWPI----ALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGP-IVLVLAPTRELAEQIREQ 222 (545)
T ss_pred CCCCCCCHHHHHHHHH----HhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCc-EEEEECChHHHHHHHHHH
Confidence 4688889999887755 34678999999999999999999998765532 1245 899999999999999988
Q ss_pred HHhh
Q 007505 87 LKLL 90 (601)
Q Consensus 87 l~~l 90 (601)
+..+
T Consensus 223 ~~~~ 226 (545)
T PTZ00110 223 CNKF 226 (545)
T ss_pred HHHH
Confidence 8775
No 26
>PTZ00424 helicase 45; Provisional
Probab=99.19 E-value=1.8e-10 Score=122.01 Aligned_cols=75 Identities=11% Similarity=0.038 Sum_probs=61.5
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 11 ~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.|+|+.++|.|.+.+..+. ++..+++.||||+|||++|++|++........+. +++|.+||.++..|+.+.+..+
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 3678878999988877654 6778999999999999999999988765433345 8999999999999987766654
No 27
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.16 E-value=1.5e-10 Score=124.94 Aligned_cols=76 Identities=21% Similarity=0.170 Sum_probs=62.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCC------CCcEEEEEcccchhHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE------NPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~------~~~kvv~~t~T~~~~~q~~~ 85 (601)
++|..++|.|.+.+.. +.+|+++++.||||+|||++|++|.+......+. +..+++|.++|.+|..|+.+
T Consensus 105 ~g~~~~~~iQ~~ai~~----~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~ 180 (475)
T PRK01297 105 LGFPYCTPIQAQVLGY----TLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAK 180 (475)
T ss_pred CCCCCCCHHHHHHHHH----HhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHH
Confidence 6788889999888765 4578899999999999999999998876654321 12389999999999999999
Q ss_pred HHHhhh
Q 007505 86 ELKLLH 91 (601)
Q Consensus 86 el~~l~ 91 (601)
+++.+.
T Consensus 181 ~~~~l~ 186 (475)
T PRK01297 181 DAAALT 186 (475)
T ss_pred HHHHhh
Confidence 887764
No 28
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.14 E-value=3.8e-10 Score=126.32 Aligned_cols=92 Identities=18% Similarity=0.132 Sum_probs=74.1
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH
Q 007505 8 VTVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 8 ~~~~fp~~~~r~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~ 85 (601)
+.-.+||+. ++.|.+.+..|...+..+ .+.++.||||+|||++|+.|++.... .+. +++|.+||..+..|..+
T Consensus 254 ~~~~l~f~l-t~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~---~g~-q~lilaPT~~LA~Q~~~ 328 (681)
T PRK10917 254 FLASLPFEL-TGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIE---AGY-QAALMAPTEILAEQHYE 328 (681)
T ss_pred HHHhCCCCC-CHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHH---cCC-eEEEEeccHHHHHHHHH
Confidence 344689985 999999999999988765 47899999999999999999877654 256 99999999999999999
Q ss_pred HHHhhhhhhcccCCCccceEEEeecCc
Q 007505 86 ELKLLHNYQTRHLGPAAKILAIGLSSR 112 (601)
Q Consensus 86 el~~l~~~~~~~~~~~~~~~~~~l~~r 112 (601)
.++.+.+ +..+++..+.|.
T Consensus 329 ~l~~l~~--------~~~i~v~ll~G~ 347 (681)
T PRK10917 329 NLKKLLE--------PLGIRVALLTGS 347 (681)
T ss_pred HHHHHHh--------hcCcEEEEEcCC
Confidence 9887643 223556666554
No 29
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.11 E-value=4.8e-10 Score=124.66 Aligned_cols=90 Identities=18% Similarity=0.152 Sum_probs=71.5
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHH
Q 007505 10 VYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el 87 (601)
-.+||+. ++.|.+.+.+|...+... .+.++.||||+|||++|+.|++.... .+. +++|.+||..+..|..+.+
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---AGY-QVALMAPTEILAEQHYNSL 304 (630)
T ss_pred HhCCCCC-CHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHH---cCC-cEEEECCHHHHHHHHHHHH
Confidence 3589975 999999999999888655 36899999999999999998776543 256 8999999999999999988
Q ss_pred HhhhhhhcccCCCccceEEEeecCc
Q 007505 88 KLLHNYQTRHLGPAAKILAIGLSSR 112 (601)
Q Consensus 88 ~~l~~~~~~~~~~~~~~~~~~l~~r 112 (601)
+++.+ +.++++..+.|.
T Consensus 305 ~~l~~--------~~gi~v~lltg~ 321 (630)
T TIGR00643 305 RNLLA--------PLGIEVALLTGS 321 (630)
T ss_pred HHHhc--------ccCcEEEEEecC
Confidence 87643 223555555553
No 30
>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=99.10 E-value=4.8e-10 Score=120.72 Aligned_cols=70 Identities=20% Similarity=0.291 Sum_probs=58.9
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 9 ~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.-.|+|..+||.|.+.+..+. +++.+++.||||+|||++|++|++.. ++ ..+|.+||.+|..|.+..+.
T Consensus 4 ~~~~g~~~~r~~Q~~ai~~~l----~g~dvlv~apTGsGKTl~y~lp~l~~------~~-~~lVi~P~~~L~~dq~~~l~ 72 (470)
T TIGR00614 4 KTVFGLSSFRPVQLEVINAVL----LGRDCFVVMPTGGGKSLCYQLPALCS------DG-ITLVISPLISLMEDQVLQLK 72 (470)
T ss_pred HhhcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCCcHhHHHHHHHHHc------CC-cEEEEecHHHHHHHHHHHHH
Confidence 346999999999998887654 57789999999999999999998742 35 78999999999998888765
Q ss_pred h
Q 007505 89 L 89 (601)
Q Consensus 89 ~ 89 (601)
.
T Consensus 73 ~ 73 (470)
T TIGR00614 73 A 73 (470)
T ss_pred H
Confidence 4
No 31
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=99.06 E-value=1.5e-09 Score=122.26 Aligned_cols=73 Identities=18% Similarity=0.170 Sum_probs=61.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.+|+.+||.|.+.+.. +.+|+++++.||||+|||+||++|++......+ +. +++|.+||.+|..|..+.++.+
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 4677789999877765 457899999999999999999999998776543 34 8999999999999999988765
No 32
>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=99.06 E-value=1.1e-09 Score=121.40 Aligned_cols=69 Identities=20% Similarity=0.293 Sum_probs=58.1
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
-.|+|..+||.|.+.+..+. +|+.+++.||||+|||++|++|++.. ++ .++|.+|+.++..|.++.++.
T Consensus 7 ~~fg~~~fr~~Q~~~i~~il----~g~dvlv~~PTG~GKTl~y~lpal~~------~g-~~lVisPl~sL~~dq~~~l~~ 75 (591)
T TIGR01389 7 RTFGYDDFRPGQEEIISHVL----DGRDVLVVMPTGGGKSLCYQVPALLL------KG-LTVVISPLISLMKDQVDQLRA 75 (591)
T ss_pred HhcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCccHhHHHHHHHHHc------CC-cEEEEcCCHHHHHHHHHHHHH
Confidence 46999999999998887665 67889999999999999999998741 34 577889999999988887665
No 33
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=99.03 E-value=1.5e-09 Score=123.63 Aligned_cols=77 Identities=19% Similarity=0.232 Sum_probs=66.2
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHH
Q 007505 10 VYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el 87 (601)
-.|||++ +|.|.+.+..|...+..+ ...++.||||+|||.+++.|++..+.. +. +++|.+||..|..|..+.+
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 4699985 999999999999988765 478999999999999999997765542 46 9999999999999999988
Q ss_pred Hhhh
Q 007505 88 KLLH 91 (601)
Q Consensus 88 ~~l~ 91 (601)
+.+.
T Consensus 521 ~~~~ 524 (926)
T TIGR00580 521 KERF 524 (926)
T ss_pred HHHh
Confidence 8753
No 34
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.00 E-value=2.5e-09 Score=118.48 Aligned_cols=69 Identities=20% Similarity=0.313 Sum_probs=58.3
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
-.|+|+.+||.|.+.+..+. +++.+++.||||+|||++|++|++.. ++ .++|.+||.++..|.+..++.
T Consensus 19 ~~fG~~~~r~~Q~~ai~~il----~g~dvlv~apTGsGKTl~y~lpal~~------~g-~tlVisPl~sL~~dqv~~l~~ 87 (607)
T PRK11057 19 ETFGYQQFRPGQQEIIDAVL----SGRDCLVVMPTGGGKSLCYQIPALVL------DG-LTLVVSPLISLMKDQVDQLLA 87 (607)
T ss_pred HHcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCchHHHHHHHHHHHc------CC-CEEEEecHHHHHHHHHHHHHH
Confidence 35999989999998887654 67889999999999999999998742 35 688899999999998887664
No 35
>PRK13767 ATP-dependent helicase; Provisional
Probab=98.98 E-value=2.9e-09 Score=122.28 Aligned_cols=71 Identities=21% Similarity=0.282 Sum_probs=56.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC-----CCCcEEEEEcccchhHHHHHHHHH
Q 007505 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 14 ~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~-----~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
|..++|.|.+.+..+ .+++++++.||||+|||+||++|++......+ .+.++++|.+||.++..|+.+.+.
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 556799999988664 56889999999999999999999887654321 112389999999999999877554
No 36
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.96 E-value=4.9e-09 Score=98.87 Aligned_cols=74 Identities=27% Similarity=0.317 Sum_probs=58.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
+++.+++|.|.+++..+.... +++++.+|||+|||.+++.+++......+ .+ +++|.++|.++..|+.+++...
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 445567999998887665322 89999999999999988887666555332 35 8999999999999998877764
No 37
>PRK02362 ski2-like helicase; Provisional
Probab=98.91 E-value=6e-09 Score=118.33 Aligned_cols=72 Identities=18% Similarity=0.223 Sum_probs=60.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.+|+.+||.|.+.+.. .+.+++++++.||||+|||++|++|.+.... .++ +++|.+||.++..|..++++.+
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 4577789999988754 3567899999999999999999998776554 256 8999999999999999988764
No 38
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.89 E-value=6.7e-09 Score=105.18 Aligned_cols=149 Identities=20% Similarity=0.312 Sum_probs=103.1
Q ss_pred CCHHHHHHHHHHHHHHhh-----cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 17 IYPEQYSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~-----~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
..|.|...+-.+...+.. .+.+.|.||||+|||+||.+|.+...-..+-+..|.+|..+|..+..|+...+..+.
T Consensus 160 ~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~ 239 (620)
T KOG0350|consen 160 LFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLN 239 (620)
T ss_pred ccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhc
Confidence 357888888888888773 356899999999999999999887766655556789999999999999999998874
Q ss_pred hhhcccCCCccceEEEeecCccccccchhhhhccChhhHHHHhHHhhhHHHHhhhhcCCCCCCCccccchHHhhhccCCC
Q 007505 92 NYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAASAAVLP 171 (601)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~~r~~lC~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~ 171 (601)
. +..+.++.+.|...+ ...-..|.
T Consensus 240 ~--------~tgL~V~~~sgq~sl---------------~~E~~qL~--------------------------------- 263 (620)
T KOG0350|consen 240 S--------GTGLAVCSLSGQNSL---------------EDEARQLA--------------------------------- 263 (620)
T ss_pred c--------CCceEEEecccccch---------------HHHHHHHh---------------------------------
Confidence 3 444544444443211 00001111
Q ss_pred CCCCCHHHHHHhccccCcchhHHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChHHHHHH
Q 007505 172 PGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIE 245 (601)
Q Consensus 172 ~~~~~~~~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~~~~~~ 245 (601)
.....| .+||+|++-.=|.|+.-. .-+..|..-..+|||||..|.+.+.+
T Consensus 264 -------------~~~~~~----------~~DIlVaTPGRLVDHl~~-~k~f~Lk~LrfLVIDEADRll~qsfQ 313 (620)
T KOG0350|consen 264 -------------SDPPEC----------RIDILVATPGRLVDHLNN-TKSFDLKHLRFLVIDEADRLLDQSFQ 313 (620)
T ss_pred -------------cCCCcc----------ccceEEcCchHHHHhccC-CCCcchhhceEEEechHHHHHHHHHH
Confidence 112233 689999998888876421 11234545678999999999887644
No 39
>PRK01172 ski2-like helicase; Provisional
Probab=98.88 E-value=8.5e-09 Score=116.23 Aligned_cols=70 Identities=24% Similarity=0.305 Sum_probs=58.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.+|+ +||.|.+.+.. +.+++++++.||||+|||++++.+.+..... ++ +++|.+||.++..|..+++.++
T Consensus 19 ~~~~-l~~~Q~~ai~~----l~~~~nvlv~apTGSGKTl~a~lail~~l~~---~~-k~v~i~P~raLa~q~~~~~~~l 88 (674)
T PRK01172 19 NDFE-LYDHQRMAIEQ----LRKGENVIVSVPTAAGKTLIAYSAIYETFLA---GL-KSIYIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred CCCC-CCHHHHHHHHH----HhcCCcEEEECCCCchHHHHHHHHHHHHHHh---CC-cEEEEechHHHHHHHHHHHHHH
Confidence 4677 59999988865 4678899999999999999999887654432 46 8999999999999999988764
No 40
>PRK00254 ski2-like helicase; Provisional
Probab=98.85 E-value=1.5e-08 Score=114.86 Aligned_cols=73 Identities=21% Similarity=0.281 Sum_probs=61.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.+|+.++|.|.+.+.. .+.+++++++.||||+|||++|.+|.+...... +. +++|.+||.++..|..++++.+
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 5788789999987764 356788999999999999999999988765533 56 8999999999999999887653
No 41
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=98.84 E-value=3.3e-09 Score=97.34 Aligned_cols=68 Identities=25% Similarity=0.544 Sum_probs=55.5
Q ss_pred HHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEEcC
Q 007505 524 LVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (601)
Q Consensus 524 i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV~R 601 (601)
|.++++.+|||+|||||||+.|+.+.+.|++.+ ....+.+|.|. ..+...++++|++ +.|+|||||+|
T Consensus 1 i~~l~~~~~g~~lv~f~Sy~~l~~~~~~~~~~~----~~~~~~v~~q~--~~~~~~~l~~~~~----~~~~il~~v~~ 68 (167)
T PF13307_consen 1 ILELISAVPGGVLVFFPSYRRLEKVYERLKERL----EEKGIPVFVQG--SKSRDELLEEFKR----GEGAILLAVAG 68 (167)
T ss_dssp HHHHHHCCSSEEEEEESSHHHHHHHHTT-TSS-----E-ETSCEEEST--CCHHHHHHHHHCC----SSSEEEEEETT
T ss_pred ChHHHhcCCCCEEEEeCCHHHHHHHHHHHHhhc----ccccceeeecC--cchHHHHHHHHHh----ccCeEEEEEec
Confidence 578899999999999999999999999998752 22356899974 4677889999998 47999999984
No 42
>PRK09694 helicase Cas3; Provisional
Probab=98.81 E-value=1.3e-08 Score=114.87 Aligned_cols=69 Identities=23% Similarity=0.179 Sum_probs=54.0
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.|||.|..+... -.+++.+++|||||+|||.++|..+...+... ... +|+|+.||.+..+|+.+.+...
T Consensus 286 ~p~p~Q~~~~~~----~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~-~~~-gi~~aLPT~Atan~m~~Rl~~~ 354 (878)
T PRK09694 286 QPRQLQTLVDAL----PLQPGLTIIEAPTGSGKTEAALAYAWRLIDQG-LAD-SIIFALPTQATANAMLSRLEAL 354 (878)
T ss_pred CChHHHHHHHhh----ccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhC-CCC-eEEEECcHHHHHHHHHHHHHHH
Confidence 459999977432 12567899999999999999998766544432 235 8999999999999999987764
No 43
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.79 E-value=3.9e-08 Score=99.13 Aligned_cols=75 Identities=17% Similarity=0.204 Sum_probs=57.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHh-CCC---CCcEEEEEcccchhHHHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS-KPE---NPVKLIYCTRTVHEMEKTLAEL 87 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~-~~~---~~~kvv~~t~T~~~~~q~~~el 87 (601)
++|+.+.|.|...+-. |..++.+++|||||+|||+|+|+|.+..... ..+ +.+-.+|.|||..+..|+.+-+
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 5688789999776654 5578899999999999999999999987722 211 1124689999999999987744
Q ss_pred Hhh
Q 007505 88 KLL 90 (601)
Q Consensus 88 ~~l 90 (601)
..+
T Consensus 100 ~~F 102 (567)
T KOG0345|consen 100 QPF 102 (567)
T ss_pred HHH
Confidence 443
No 44
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=98.77 E-value=5.5e-08 Score=105.34 Aligned_cols=76 Identities=24% Similarity=0.208 Sum_probs=61.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcE-EEEEcccchhHHHHHHHHHhhh
Q 007505 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVK-LIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~k-vv~~t~T~~~~~q~~~el~~l~ 91 (601)
+|+.|.|.|...+-.+. .|+.+++.|+||||||+||++|.+............ .+|.+||..|..|+.++++.+.
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 57778999988886655 568999999999999999999999886531112212 8999999999999999999875
Q ss_pred h
Q 007505 92 N 92 (601)
Q Consensus 92 ~ 92 (601)
.
T Consensus 124 ~ 124 (513)
T COG0513 124 K 124 (513)
T ss_pred h
Confidence 4
No 45
>PRK09401 reverse gyrase; Reviewed
Probab=98.77 E-value=5.6e-08 Score=113.70 Aligned_cols=71 Identities=21% Similarity=0.187 Sum_probs=55.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
+++++ +|.|.+.+..+ -.|+.+++.||||+|||..++ +.+.+.... +. +++|.+||..|..|+.+.++.+.
T Consensus 77 ~G~~p-t~iQ~~~i~~i----l~g~dv~i~ApTGsGKT~f~l-~~~~~l~~~--g~-~alIL~PTreLa~Qi~~~l~~l~ 147 (1176)
T PRK09401 77 TGSKP-WSLQRTWAKRL----LLGESFAIIAPTGVGKTTFGL-VMSLYLAKK--GK-KSYIIFPTRLLVEQVVEKLEKFG 147 (1176)
T ss_pred cCCCC-cHHHHHHHHHH----HCCCcEEEEcCCCCCHHHHHH-HHHHHHHhc--CC-eEEEEeccHHHHHHHHHHHHHHh
Confidence 57764 89998777654 377899999999999997544 444444332 56 99999999999999999888764
No 46
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.76 E-value=5.5e-08 Score=113.45 Aligned_cols=77 Identities=14% Similarity=0.100 Sum_probs=64.4
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHH
Q 007505 9 TVYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 9 ~~~fp~~~~r~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
.-.|||++ +|.|.+.+..+...+... ...++.||||+|||.+++.++..... .+. +++|.+||..+..|..+.
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 34699975 999999999999888765 57999999999999999887654432 256 999999999999999998
Q ss_pred HHhh
Q 007505 87 LKLL 90 (601)
Q Consensus 87 l~~l 90 (601)
+...
T Consensus 669 f~~~ 672 (1147)
T PRK10689 669 FRDR 672 (1147)
T ss_pred HHHh
Confidence 7763
No 47
>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=98.75 E-value=3.7e-08 Score=109.47 Aligned_cols=76 Identities=18% Similarity=0.229 Sum_probs=56.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcC-cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~-~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.+|+ |+|.|.+.+..+. +|+ .+++.||||||||.++.++.+.......... ++||+++|..+..|+.+++.++
T Consensus 12 ~G~~-PtpiQ~~~i~~il----~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~-rLv~~vPtReLa~Qi~~~~~~~ 85 (844)
T TIGR02621 12 HGYS-PFPWQLSLAERFV----AGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPR-RLVYVVNRRTVVDQVTEEAEKI 85 (844)
T ss_pred hCCC-CCHHHHHHHHHHH----cCCCcceEecCCCCcccHHHHHhhccccccccccc-eEEEeCchHHHHHHHHHHHHHH
Confidence 3677 5999999998754 444 7888999999999976554443322222234 7888999999999999998887
Q ss_pred hhh
Q 007505 91 HNY 93 (601)
Q Consensus 91 ~~~ 93 (601)
.+.
T Consensus 86 ~k~ 88 (844)
T TIGR02621 86 GER 88 (844)
T ss_pred HHH
Confidence 553
No 48
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=98.73 E-value=9.9e-08 Score=105.05 Aligned_cols=67 Identities=18% Similarity=0.195 Sum_probs=52.9
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~ 92 (601)
||.|.+++..+. +.+| .++|++||+|||+++++|++..+. .++ .|+|.|+|..|..|..+++..+.+
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--NIAEMKTGEGKTLTATMPLYLNAL---TGK-GAMLVTTNDYLAKRDAEEMGPVYE 136 (762)
T ss_pred CccHHHHHHHHH--hcCC--ceeEecCCcchHHHHHHHHHHHhh---cCC-ceEEeCCCHHHHHHHHHHHHHHHh
Confidence 566666776653 3344 699999999999999999765554 256 899999999999999998877654
No 49
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.70 E-value=3.9e-08 Score=109.88 Aligned_cols=69 Identities=25% Similarity=0.307 Sum_probs=56.8
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
.+|.|.+.....+. +++++||.||||+|||+..+++.+.-.... +. |+||.+|+++|.++.++++.++.
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 47888877665543 388999999999999999998877766644 46 89999999999999999988653
No 50
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.68 E-value=4.7e-08 Score=102.32 Aligned_cols=73 Identities=18% Similarity=0.103 Sum_probs=60.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHh------CCCCCcEEEEEcccchhHHHHHHH
Q 007505 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS------KPENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~------~~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
.|+.|.|.|.+...-+. .|+.++.-|-||+||||||++|++.++.. .+.++ +++|.+||..+..|+-.+
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 46667899977765443 67899999999999999999999999886 23345 899999999999999888
Q ss_pred HHhh
Q 007505 87 LKLL 90 (601)
Q Consensus 87 l~~l 90 (601)
.+.+
T Consensus 185 ~~~~ 188 (519)
T KOG0331|consen 185 AREF 188 (519)
T ss_pred HHHH
Confidence 7765
No 51
>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=98.66 E-value=1.1e-07 Score=84.16 Aligned_cols=53 Identities=30% Similarity=0.330 Sum_probs=42.2
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
+++++.+|||+|||..++..+....... ..+ +++|++++..+.+|..+.+...
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 8999999999999988876653
No 52
>PRK13766 Hef nuclease; Provisional
Probab=98.65 E-value=1.2e-07 Score=108.94 Aligned_cols=69 Identities=20% Similarity=0.190 Sum_probs=54.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
++++ |+.|.++...+. .+ ++++-+|||+|||++++.++..... . .++ +++|.++|.++.+|..++++..
T Consensus 13 ~~~~-r~yQ~~~~~~~l---~~--n~lv~~ptG~GKT~~a~~~i~~~l~-~-~~~-~vLvl~Pt~~L~~Q~~~~~~~~ 81 (773)
T PRK13766 13 TIEA-RLYQQLLAATAL---KK--NTLVVLPTGLGKTAIALLVIAERLH-K-KGG-KVLILAPTKPLVEQHAEFFRKF 81 (773)
T ss_pred cCCc-cHHHHHHHHHHh---cC--CeEEEcCCCccHHHHHHHHHHHHHH-h-CCC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 3554 999999876543 32 7999999999999988877665543 2 256 8999999999999998888764
No 53
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=98.63 E-value=1.5e-07 Score=101.81 Aligned_cols=67 Identities=19% Similarity=0.326 Sum_probs=56.6
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
.+|..|.++.. .|| +++.+|-+|||.|||+.+...++.|.+..+. . |||+.++|..+..|-+..+..
T Consensus 62 ~lR~YQ~eivq---~AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-~-KiVF~aP~~pLv~QQ~a~~~~ 128 (746)
T KOG0354|consen 62 ELRNYQEELVQ---PAL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK-G-KVVFLAPTRPLVNQQIACFSI 128 (746)
T ss_pred cccHHHHHHhH---Hhh--cCCeEEEeecCCCccchHHHHHHHHHhcCCc-c-eEEEeeCCchHHHHHHHHHhh
Confidence 45999988764 466 8999999999999999999888999988874 5 899999999999998754443
No 54
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=98.61 E-value=2.5e-07 Score=102.86 Aligned_cols=65 Identities=23% Similarity=0.223 Sum_probs=50.4
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~ 92 (601)
|+.| ++..+ ++.+|. ++|+.||+|||+++++|++..+. .|+ +|.|.|+|.-|..|..+.+..+.+
T Consensus 80 ~~vQ--l~~~~--~l~~G~--Iaem~TGeGKTL~a~lp~~l~al---~G~-~v~VvTpt~~LA~qd~e~~~~l~~ 144 (790)
T PRK09200 80 YDVQ--LIGAL--VLHEGN--IAEMQTGEGKTLTATMPLYLNAL---EGK-GVHLITVNDYLAKRDAEEMGQVYE 144 (790)
T ss_pred chHH--HHhHH--HHcCCc--eeeecCCCcchHHHHHHHHHHHH---cCC-CeEEEeCCHHHHHHHHHHHHHHHh
Confidence 4555 44333 334454 99999999999999999876555 267 899999999999999998887754
No 55
>PHA02653 RNA helicase NPH-II; Provisional
Probab=98.61 E-value=2.9e-07 Score=101.61 Aligned_cols=77 Identities=17% Similarity=0.053 Sum_probs=62.6
Q ss_pred CCC--CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHH---------HHHHHHHHHHh---CCCCCcEEEEEcccch
Q 007505 13 PYD--NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIA---------LLSLITSYVLS---KPENPVKLIYCTRTVH 78 (601)
Q Consensus 13 p~~--~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla---------~L~~~l~~~~~---~~~~~~kvv~~t~T~~ 78 (601)
||. +.++.|.++-+++..++.+++.+++.|+||+|||.+ ||.|++.++.. ...++ +|++++||..
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 555 578999999999999999999999999999999997 66666665532 11245 8999999999
Q ss_pred hHHHHHHHHHhh
Q 007505 79 EMEKTLAELKLL 90 (601)
Q Consensus 79 ~~~q~~~el~~l 90 (601)
+..|+..++...
T Consensus 234 La~qi~~~i~~~ 245 (675)
T PHA02653 234 LVRLHSITLLKS 245 (675)
T ss_pred HHHHHHHHHHHH
Confidence 999987776653
No 56
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.60 E-value=3.2e-07 Score=99.53 Aligned_cols=68 Identities=21% Similarity=0.245 Sum_probs=50.0
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.+||.|.+.+..+. ++..+++.||||+|||+.+... ..+.... .+. +++|.++|..+.+|+.+++..+
T Consensus 114 ~~r~~Q~~av~~~l----~~~~~il~apTGsGKT~i~~~l-~~~~~~~-~~~-~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 114 EPHWYQYDAVYEGL----KNNRRLLNLPTSAGKSLIQYLL-SRYYLEN-YEG-KVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred CCCHHHHHHHHHHH----hcCceEEEeCCCCCHHHHHHHH-HHHHHhc-CCC-eEEEEECcHHHHHHHHHHHHHh
Confidence 46999998765443 3556899999999999965432 2222222 134 8999999999999999988764
No 57
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.60 E-value=3.2e-07 Score=106.86 Aligned_cols=71 Identities=21% Similarity=0.231 Sum_probs=56.7
Q ss_pred CCHHHHHHHHHHHHHHhhc-CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 17 IYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~-~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
+|+.|.+.+.++.+++.++ +.+++.+|||||||+..+..+-...+.. ..+ ||+|.+.+..|.+|..+++..
T Consensus 414 lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~-~~~-rVLfLvDR~~L~~Qa~~~F~~ 485 (1123)
T PRK11448 414 LRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAK-RFR-RILFLVDRSALGEQAEDAFKD 485 (1123)
T ss_pred CCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcC-ccC-eEEEEecHHHHHHHHHHHHHh
Confidence 5999999999999999765 5789999999999987554332222322 246 999999999999999998765
No 58
>PRK14701 reverse gyrase; Provisional
Probab=98.57 E-value=5.3e-07 Score=108.11 Aligned_cols=73 Identities=14% Similarity=0.149 Sum_probs=59.6
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 11 ~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.++|+ |++.|.+.+..+. +|+.+++-||||+|||+.++.+++..+. .+. +++|.+||.+|..|+.+.++.+
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 37886 6999998887655 5788999999999999977777665433 256 8999999999999999988876
Q ss_pred hh
Q 007505 91 HN 92 (601)
Q Consensus 91 ~~ 92 (601)
..
T Consensus 146 ~~ 147 (1638)
T PRK14701 146 CE 147 (1638)
T ss_pred Hh
Confidence 43
No 59
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.57 E-value=6.7e-07 Score=100.06 Aligned_cols=71 Identities=23% Similarity=0.286 Sum_probs=58.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
|++ +++.|.+.+..+.+.+ .+...++.||||+|||.+|+.++..... . ++ +++|.+||.++..|+.+.++.
T Consensus 142 ~~~-Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~-~--g~-~vLvLvPt~~L~~Q~~~~l~~ 212 (679)
T PRK05580 142 PPT-LNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLA-Q--GK-QALVLVPEIALTPQMLARFRA 212 (679)
T ss_pred CCC-CCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHH-c--CC-eEEEEeCcHHHHHHHHHHHHH
Confidence 454 5899999988887655 4578999999999999999986544433 2 57 999999999999999998775
No 60
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.56 E-value=3.5e-07 Score=93.69 Aligned_cols=68 Identities=16% Similarity=0.084 Sum_probs=53.5
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhh
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~ 92 (601)
+|..|..++.+.. . ++.++-.|||-|||+..+.-...+.... ++ |+++..||++|..|-.+-++++..
T Consensus 16 ~R~YQ~~i~a~al---~--~NtLvvlPTGLGKT~IA~~V~~~~l~~~--~~-kvlfLAPTKPLV~Qh~~~~~~v~~ 83 (542)
T COG1111 16 PRLYQLNIAAKAL---F--KNTLVVLPTGLGKTFIAAMVIANRLRWF--GG-KVLFLAPTKPLVLQHAEFCRKVTG 83 (542)
T ss_pred HHHHHHHHHHHHh---h--cCeEEEecCCccHHHHHHHHHHHHHHhc--CC-eEEEecCCchHHHHHHHHHHHHhC
Confidence 4888988776543 3 3889999999999997776656666655 56 899999999999998887776543
No 61
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=98.55 E-value=4.4e-07 Score=103.00 Aligned_cols=69 Identities=20% Similarity=0.258 Sum_probs=58.2
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
+|+.|.+.++. +.+|+++||-+|||+|||.+|++|.+..+...+ .. +.+|.-||++|.+.-.+.|+++.
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 68999887765 557899999999999999999999998887664 34 78999999999887777777654
No 62
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.54 E-value=1.6e-07 Score=96.68 Aligned_cols=74 Identities=22% Similarity=0.233 Sum_probs=60.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCC-------C--CcEEEEEcccchhHHHH
Q 007505 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-------N--PVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~-------~--~~kvv~~t~T~~~~~q~ 83 (601)
.|..+.|.|+.-+.. +.+|..++++|+||+|||.|+|+|++.++..... + -++++|.++|+.|..|+
T Consensus 93 ~~~~ptpvQk~sip~----i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi 168 (482)
T KOG0335|consen 93 GYTKPTPVQKYSIPI----ISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQI 168 (482)
T ss_pred cccCCCcceeeccce----eecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHH
Confidence 355567778666544 4577889999999999999999999999886521 1 13899999999999999
Q ss_pred HHHHHhh
Q 007505 84 LAELKLL 90 (601)
Q Consensus 84 ~~el~~l 90 (601)
.+|-+++
T Consensus 169 ~nea~k~ 175 (482)
T KOG0335|consen 169 YNEARKF 175 (482)
T ss_pred HHHHHhh
Confidence 9998875
No 63
>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=98.52 E-value=4.4e-07 Score=94.55 Aligned_cols=51 Identities=27% Similarity=0.293 Sum_probs=43.6
Q ss_pred EEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 38 ~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
+++.||||+|||++++.|++...... .+. +++|..||.++..|..+.+..+
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 78999999999999999988765433 346 9999999999999999987764
No 64
>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=98.51 E-value=6.2e-07 Score=98.81 Aligned_cols=68 Identities=13% Similarity=0.208 Sum_probs=51.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
+.++ +||.|.+.+... +.++ ..+++..|||+|||+..+..+.. . ++ +++|.++|..+.+|+.+++.+
T Consensus 252 ~~~~-LRpYQ~eAl~~~---~~~gr~r~GIIvLPtGaGKTlvai~aa~~----l--~k-~tLILvps~~Lv~QW~~ef~~ 320 (732)
T TIGR00603 252 PTTQ-IRPYQEKSLSKM---FGNGRARSGIIVLPCGAGKSLVGVTAACT----V--KK-SCLVLCTSAVSVEQWKQQFKM 320 (732)
T ss_pred cCCC-cCHHHHHHHHHH---HhcCCCCCcEEEeCCCCChHHHHHHHHHH----h--CC-CEEEEeCcHHHHHHHHHHHHH
Confidence 3455 599999877655 4444 47899999999999988754322 1 35 788888999999999998886
Q ss_pred h
Q 007505 90 L 90 (601)
Q Consensus 90 l 90 (601)
.
T Consensus 321 ~ 321 (732)
T TIGR00603 321 W 321 (732)
T ss_pred h
Confidence 4
No 65
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=98.50 E-value=6.9e-07 Score=97.95 Aligned_cols=55 Identities=18% Similarity=0.102 Sum_probs=45.2
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhh
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~ 92 (601)
+.+|. ++|++||+|||+++++|++..+.. |+ +|.|.|+|.-|..|..+.+..+.+
T Consensus 68 l~~G~--Iaem~TGeGKTLva~lpa~l~aL~---G~-~V~VvTpt~~LA~qdae~~~~l~~ 122 (745)
T TIGR00963 68 LHKGK--IAEMKTGEGKTLTATLPAYLNALT---GK-GVHVVTVNDYLAQRDAEWMGQVYR 122 (745)
T ss_pred hcCCc--eeeecCCCccHHHHHHHHHHHHHh---CC-CEEEEcCCHHHHHHHHHHHHHHhc
Confidence 34444 999999999999999998654442 56 899999999999999998888754
No 66
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=98.48 E-value=7.8e-07 Score=98.59 Aligned_cols=73 Identities=22% Similarity=0.263 Sum_probs=60.3
Q ss_pred CCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC----CCCcEEEEEcccchhHHHHHHHHHh
Q 007505 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 14 ~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~----~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
|..++|.|++++..|. +|+++++-||||+|||+|.++|++.-..... .+++.++|-||=++|-..+.+-|..
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 6778999999997765 8999999999999999999999998776651 2235899999999998777766655
Q ss_pred h
Q 007505 90 L 90 (601)
Q Consensus 90 l 90 (601)
.
T Consensus 96 ~ 96 (814)
T COG1201 96 P 96 (814)
T ss_pred H
Confidence 4
No 67
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.47 E-value=1.2e-06 Score=97.43 Aligned_cols=67 Identities=15% Similarity=0.116 Sum_probs=55.1
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~ 92 (601)
+|.|.+.+..+. .+..+++||+||+|||++|++|++.-+.. ++ .+.|.|+|.-|..|..+.+..+.+
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 899988886655 45669999999999999999998876642 34 588889999999999988887654
No 68
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=98.43 E-value=6.5e-07 Score=101.63 Aligned_cols=68 Identities=16% Similarity=0.156 Sum_probs=55.7
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
..|+|..+||.|.+.+..+ ..|+.+++-||||+|||++|++|++.. +. .+||.+|+.+|+.+.+..|.
T Consensus 454 ~~FG~~sFRp~Q~eaI~ai----L~GrDVLVimPTGSGKSLcYQLPAL~~------~G-iTLVISPLiSLmqDQV~~L~ 521 (1195)
T PLN03137 454 KVFGNHSFRPNQREIINAT----MSGYDVFVLMPTGGGKSLTYQLPALIC------PG-ITLVISPLVSLIQDQIMNLL 521 (1195)
T ss_pred HHcCCCCCCHHHHHHHHHH----HcCCCEEEEcCCCccHHHHHHHHHHHc------CC-cEEEEeCHHHHHHHHHHHHH
Confidence 3588999999998887665 478899999999999999999998842 35 78999999999875455444
No 69
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.42 E-value=1.4e-06 Score=92.68 Aligned_cols=72 Identities=21% Similarity=0.277 Sum_probs=57.2
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
+.+.++ +||.|.+.++++...+.+++.+++-+|||+|||...+-.+ ... +. +++|.++|..+++|..+.+..
T Consensus 31 ~~~~~~-lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~----~~~--~~-~~Lvlv~~~~L~~Qw~~~~~~ 102 (442)
T COG1061 31 VAFEFE-LRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAI----AEL--KR-STLVLVPTKELLDQWAEALKK 102 (442)
T ss_pred cccCCC-CcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHH----HHh--cC-CEEEEECcHHHHHHHHHHHHH
Confidence 445555 5999999999999988878889999999999998666432 112 35 699999999999999876554
No 70
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=98.38 E-value=2.1e-06 Score=100.81 Aligned_cols=71 Identities=14% Similarity=0.119 Sum_probs=54.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
..++ |+|.|.+.+..+ -.|+.+++.||||+|||+ +.+|++.+.... ++ +++|.+||..|..|+.+.++.+.
T Consensus 75 ~g~~-p~~iQ~~~i~~i----l~G~d~vi~ApTGsGKT~-f~l~~~~~l~~~--g~-~vLIL~PTreLa~Qi~~~l~~l~ 145 (1171)
T TIGR01054 75 VGSE-PWSIQKMWAKRV----LRGDSFAIIAPTGVGKTT-FGLAMSLFLAKK--GK-RCYIILPTTLLVIQVAEKISSLA 145 (1171)
T ss_pred cCCC-CcHHHHHHHHHH----hCCCeEEEECCCCCCHHH-HHHHHHHHHHhc--CC-eEEEEeCHHHHHHHHHHHHHHHH
Confidence 3455 589998777654 367889999999999998 444544444322 56 99999999999999999888764
No 71
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.30 E-value=1.8e-06 Score=88.17 Aligned_cols=77 Identities=22% Similarity=0.188 Sum_probs=61.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCC--cEEEEEcccchhHHHHHHHHHh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENP--VKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~--~kvv~~t~T~~~~~q~~~el~~ 89 (601)
.+|..|.|.|...+-- || .|+.++..|-||||||.||.+|.|.-+.+.|.+. +||+|.+||..|.-|+..-.++
T Consensus 199 lGy~~PTpIQ~a~IPv---al-lgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~q 274 (691)
T KOG0338|consen 199 LGYKKPTPIQVATIPV---AL-LGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQ 274 (691)
T ss_pred cCCCCCCchhhhcccH---Hh-hcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHH
Confidence 4688788999877642 22 4677889999999999999999999988876432 3899999999999998776666
Q ss_pred hhh
Q 007505 90 LHN 92 (601)
Q Consensus 90 l~~ 92 (601)
|..
T Consensus 275 laq 277 (691)
T KOG0338|consen 275 LAQ 277 (691)
T ss_pred HHh
Confidence 644
No 72
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=98.30 E-value=5.8e-06 Score=90.20 Aligned_cols=66 Identities=23% Similarity=0.125 Sum_probs=54.1
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhh
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~ 92 (601)
|||.|..-+-.+. .|+ |+|+.||+|||+++++|++..+. .++ .+.|.|+|.-|..|..+++..+..
T Consensus 104 p~~VQ~~~~~~ll----~G~--Iae~~TGeGKTla~~lp~~~~al---~G~-~v~VvTptreLA~qdae~~~~l~~ 169 (656)
T PRK12898 104 HFDVQLMGGLALL----SGR--LAEMQTGEGKTLTATLPAGTAAL---AGL-PVHVITVNDYLAERDAELMRPLYE 169 (656)
T ss_pred CChHHHHHHHHHh----CCC--eeeeeCCCCcHHHHHHHHHHHhh---cCC-eEEEEcCcHHHHHHHHHHHHHHHh
Confidence 3788877665543 555 99999999999999999887654 256 999999999999999998888754
No 73
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=98.28 E-value=9.2e-07 Score=90.00 Aligned_cols=79 Identities=24% Similarity=0.246 Sum_probs=64.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC---CCCcEEEEEcccchhHHHHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---ENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~---~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
-+|+.+.+.|...+..+ -.|+.+++-|-||||||+|+|+||+.|....+ ..++.++|+++|..+.-|...|++
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 46777788887666543 36779999999999999999999999877542 223489999999999999999999
Q ss_pred hhhhhh
Q 007505 89 LLHNYQ 94 (601)
Q Consensus 89 ~l~~~~ 94 (601)
.+.++.
T Consensus 176 ~Ll~~h 181 (543)
T KOG0342|consen 176 ELLKYH 181 (543)
T ss_pred HHHhhC
Confidence 998865
No 74
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=98.23 E-value=2.7e-06 Score=75.29 Aligned_cols=57 Identities=33% Similarity=0.726 Sum_probs=51.7
Q ss_pred HHHHHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEEcC
Q 007505 542 YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (601)
Q Consensus 542 y~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV~R 601 (601)
|++|+++++.|++.+.+.+|.+.|.||+|+++..+...++++|++.+ .+||||||+|
T Consensus 1 y~~m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~~---~~~iL~~~~~ 57 (141)
T smart00492 1 YQYMESFVQYWKENGILENINKNLLLLVQGEDGKETGKLLEKYVEAC---ENAILLATAR 57 (141)
T ss_pred CHHHHHHHHHHHHcCchhhHhcCCeEEEeCCChhHHHHHHHHHHHcC---CCEEEEEccc
Confidence 78999999999999999999999999999998777889999999863 3599999986
No 75
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=98.23 E-value=2.6e-06 Score=75.52 Aligned_cols=56 Identities=41% Similarity=0.811 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEEcC
Q 007505 542 YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVAR 601 (601)
Q Consensus 542 y~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV~R 601 (601)
|++|+++++.|++.+++ .+.++||+|+++..+...++++|++.++.+ |||||||+|
T Consensus 1 y~~m~~v~~~~~~~~~~---~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~-g~iL~~v~~ 56 (142)
T smart00491 1 YRYLEQVVEYWKENGIL---EINKPVFIEGKDSGETEELLEKYSAACEAR-GALLLAVAR 56 (142)
T ss_pred ChHHHHHHHHHHhcCcc---ccCceEEEECCCCchHHHHHHHHHHhcCCC-CEEEEEEeC
Confidence 78999999999987665 346899999998777789999999988776 899999986
No 76
>COG4889 Predicted helicase [General function prediction only]
Probab=98.21 E-value=1.1e-05 Score=87.37 Aligned_cols=167 Identities=20% Similarity=0.281 Sum_probs=104.7
Q ss_pred cCeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH
Q 007505 6 EDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 6 ~~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~ 85 (601)
.++++.-|+++ ||.|.+.+.++.+.|..+.-+=+-..+|||||+..|=-+-+.+. . +|.+..|+++++.|.++
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 35667778876 99999999999999998766666678999999988853322222 4 89999999999999998
Q ss_pred HHHhhhhhhcccCCCccceEEEeecCccccccchhhhhccChhhHHHHhHHhhhHHHHhhhhcCCCCCCCccccchHHhh
Q 007505 86 ELKLLHNYQTRHLGPAAKILAIGLSSRKNLCVNSRVLAAENRDSVDAACRKRTASWVRALAAENPNIETCEFFENYEKAA 165 (601)
Q Consensus 86 el~~l~~~~~~~~~~~~~~~~~~l~~r~~lC~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~ 165 (601)
|...= ...+++... +|-...+.... + |.. ++
T Consensus 225 ew~~~---------~~l~~~a~a------VcSD~kvsrs~--e----------------------Dik---~s------- 255 (1518)
T COG4889 225 EWTAQ---------KELDFRASA------VCSDDKVSRSA--E----------------------DIK---AS------- 255 (1518)
T ss_pred HHhhc---------cCccceeEE------EecCccccccc--c----------------------ccc---cc-------
Confidence 76541 133454433 35544433210 0 000 00
Q ss_pred hccCCCCCCCCHHHHHHhccccCcchhHHHHHhhccCcEEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChHH
Q 007505 166 SAAVLPPGVYTLQDLRAFGKQQGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDN 241 (601)
Q Consensus 166 ~~~~~~~~~~~~~~l~~~~~~~~~Cpy~~~r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~~ 241 (601)
...+|. .-+.+.+.+. ..-|+++..--||+++|.-+..-. +.....+++.+.||.||||.--.
T Consensus 256 -dl~~p~-sT~~~~il~~---------~~~~~k~~~~~vvFsTYQSl~~i~--eAQe~G~~~fDliicDEAHRTtG 318 (1518)
T COG4889 256 -DLPIPV-STDLEDILSE---------MEHRQKANGLTVVFSTYQSLPRIK--EAQEAGLDEFDLIICDEAHRTTG 318 (1518)
T ss_pred -cCCCCC-cccHHHHHHH---------HHHhhccCCcEEEEEcccchHHHH--HHHHcCCCCccEEEecchhcccc
Confidence 001121 1233333322 122556667789999999776322 22222467899999999998643
No 77
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.21 E-value=4.7e-06 Score=89.16 Aligned_cols=70 Identities=20% Similarity=0.258 Sum_probs=56.3
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 9 ~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.-.|+|+..||+|.+.++. +-+++++++=.|||.|||++|-+||+.. .+ -.+|.+|=.+|.+.-+..|+
T Consensus 10 ~~~fGy~~FR~gQ~evI~~----~l~g~d~lvvmPTGgGKSlCyQiPAll~------~G-~TLVVSPLiSLM~DQV~~l~ 78 (590)
T COG0514 10 KQVFGYASFRPGQQEIIDA----LLSGKDTLVVMPTGGGKSLCYQIPALLL------EG-LTLVVSPLISLMKDQVDQLE 78 (590)
T ss_pred HHHhCccccCCCHHHHHHH----HHcCCcEEEEccCCCCcchHhhhHHHhc------CC-CEEEECchHHHHHHHHHHHH
Confidence 4469999999999865544 5577999999999999999999999853 24 47888899999877666655
Q ss_pred h
Q 007505 89 L 89 (601)
Q Consensus 89 ~ 89 (601)
.
T Consensus 79 ~ 79 (590)
T COG0514 79 A 79 (590)
T ss_pred H
Confidence 4
No 78
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=98.17 E-value=6e-06 Score=97.67 Aligned_cols=50 Identities=18% Similarity=0.311 Sum_probs=40.3
Q ss_pred EEccCCChhHHHHHHHHHHHHHhCC---------CCCcEEEEEcccchhHHHHHHHHHh
Q 007505 40 LEMPTGTGKTIALLSLITSYVLSKP---------ENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 40 ~EapTGtGKTla~L~~~l~~~~~~~---------~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
|.||||+|||+||++|+|.-....+ .++.+++|.|||+++..|+.+.|+.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 4699999999999999887654321 1224899999999999999988765
No 79
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=98.17 E-value=5.2e-06 Score=92.60 Aligned_cols=51 Identities=18% Similarity=0.089 Sum_probs=43.7
Q ss_pred EEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhh
Q 007505 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (601)
Q Consensus 38 ~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~ 92 (601)
-+.|++||+|||+++++|++..+. .++ .|.|.|+|.-|..|..+++..+.+
T Consensus 98 ~Iaem~TGeGKTL~a~Lpa~~~al---~G~-~V~VvTpn~yLA~qd~e~m~~l~~ 148 (896)
T PRK13104 98 NIAEMRTGEGKTLVATLPAYLNAI---SGR-GVHIVTVNDYLAKRDSQWMKPIYE 148 (896)
T ss_pred ccccccCCCCchHHHHHHHHHHHh---cCC-CEEEEcCCHHHHHHHHHHHHHHhc
Confidence 478999999999999999886665 256 799999999999999998888754
No 80
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.17 E-value=7.3e-06 Score=81.24 Aligned_cols=87 Identities=16% Similarity=0.045 Sum_probs=70.3
Q ss_pred CCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhhh
Q 007505 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (601)
Q Consensus 14 ~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~~ 93 (601)
|..|.+.|.+.|-.+. +|+++|.-|-||+|||.||++|.+..+...+... ...|.|||..+..|+-+.+..+-
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 6667899988886654 7889999999999999999999999888877544 99999999999999877666542
Q ss_pred hcccCCCccceEEEeecCcc
Q 007505 94 QTRHLGPAAKILAIGLSSRK 113 (601)
Q Consensus 94 ~~~~~~~~~~~~~~~l~~r~ 113 (601)
.+..++++++-|..
T Consensus 154 ------~~iglr~~~lvGG~ 167 (476)
T KOG0330|consen 154 ------SGIGLRVAVLVGGM 167 (476)
T ss_pred ------cccCeEEEEEecCc
Confidence 35667777666653
No 81
>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=98.13 E-value=9.9e-06 Score=87.49 Aligned_cols=47 Identities=23% Similarity=0.246 Sum_probs=38.4
Q ss_pred EEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 39 LLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 39 ~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
++.||||+|||.+|+.. +..+... ++ +++|.+||.++..|+.+.++.
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 3434433 67 999999999999999988775
No 82
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.13 E-value=1.4e-05 Score=90.85 Aligned_cols=62 Identities=26% Similarity=0.222 Sum_probs=50.6
Q ss_pred HHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 23 ~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
+...+|.+++.+++.+++.||||+|||.+|..+.+.... .+. +|++..||..+..|+.+.+.
T Consensus 8 ~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~---~~~-~ilvlqPrR~aA~qia~rva 69 (812)
T PRK11664 8 AVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGG---ING-KIIMLEPRRLAARNVAQRLA 69 (812)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCC---cCC-eEEEECChHHHHHHHHHHHH
Confidence 456788899999999999999999999999988775321 135 89999999999988877554
No 83
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.09 E-value=4.9e-06 Score=85.51 Aligned_cols=77 Identities=18% Similarity=0.139 Sum_probs=62.4
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC------CCCcEEEEEcccchhHHHHH
Q 007505 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP------ENPVKLIYCTRTVHEMEKTL 84 (601)
Q Consensus 11 ~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~------~~~~kvv~~t~T~~~~~q~~ 84 (601)
...+..|...|.+.+-.+.. |+.++|+|+||+|||||||+|.+..+.... +|. =.+|..+|..+..|+.
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 34566678899988877664 889999999999999999999988776552 234 5688889999999999
Q ss_pred HHHHhhhh
Q 007505 85 AELKLLHN 92 (601)
Q Consensus 85 ~el~~l~~ 92 (601)
+-+.+|.+
T Consensus 229 ~~~qKLl~ 236 (708)
T KOG0348|consen 229 ETVQKLLK 236 (708)
T ss_pred HHHHHHhc
Confidence 98888754
No 84
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.08 E-value=1.2e-05 Score=83.54 Aligned_cols=71 Identities=20% Similarity=0.210 Sum_probs=58.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
+++...|.|. -.|...|-+|.+++|-++|+|||||.-=++.+.-+... |+ |.+|.+|-.++.+|-.+|++.
T Consensus 213 G~~eLlPVQ~---laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~--g~-KmlfLvPLVALANQKy~dF~~ 283 (830)
T COG1202 213 GIEELLPVQV---LAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSG--GK-KMLFLVPLVALANQKYEDFKE 283 (830)
T ss_pred Ccceecchhh---hhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhC--CC-eEEEEehhHHhhcchHHHHHH
Confidence 3566677774 45667888999999999999999998877777766643 67 999999999999999998875
No 85
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=98.01 E-value=4.1e-05 Score=86.89 Aligned_cols=62 Identities=23% Similarity=0.240 Sum_probs=50.9
Q ss_pred HHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 23 ~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
+...++.++|.++..+++.||||+|||.++..+.+.... .+. +|++..+|.....|+.+.+.
T Consensus 5 ~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~---~~~-~ilvlqPrR~aA~qiA~rva 66 (819)
T TIGR01970 5 AVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPG---IGG-KIIMLEPRRLAARSAAQRLA 66 (819)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc---cCC-eEEEEeCcHHHHHHHHHHHH
Confidence 456788899999999999999999999999998775432 245 89999999998888776543
No 86
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=97.99 E-value=9.5e-06 Score=83.75 Aligned_cols=75 Identities=20% Similarity=0.199 Sum_probs=54.8
Q ss_pred CCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC---CCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK---PENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 14 ~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~---~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
|-.+.+.|.+.+ --|| +|..++--|-||+|||||+|+|.|..+... +..+.-.+|-|||..+.-|.++-|.++
T Consensus 89 fv~~teiQ~~~I---p~aL-~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kv 164 (758)
T KOG0343|consen 89 FVKMTEIQRDTI---PMAL-QGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKV 164 (758)
T ss_pred CccHHHHHHhhc---chhc-cCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHH
Confidence 334445555433 2334 466788899999999999999999866543 223337899999999999999988887
Q ss_pred hh
Q 007505 91 HN 92 (601)
Q Consensus 91 ~~ 92 (601)
-+
T Consensus 165 gk 166 (758)
T KOG0343|consen 165 GK 166 (758)
T ss_pred hh
Confidence 54
No 87
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.95 E-value=1.5e-05 Score=83.16 Aligned_cols=75 Identities=20% Similarity=0.213 Sum_probs=61.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC----CCCcEEEEEcccchhHHHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAEL 87 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~----~~~~kvv~~t~T~~~~~q~~~el 87 (601)
-+|..|.|.|++.+ -.+-++..++..||||+|||+||++|.+..++... ..+.+.+|..+|..+..|+..|.
T Consensus 154 ~~F~~Pt~iq~~ai----pvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~ 229 (593)
T KOG0344|consen 154 LGFDEPTPIQKQAI----PVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREM 229 (593)
T ss_pred CCCCCCCcccchhh----hhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHH
Confidence 35666789998554 44567889999999999999999999888777653 23349999999999999999998
Q ss_pred Hhh
Q 007505 88 KLL 90 (601)
Q Consensus 88 ~~l 90 (601)
+.+
T Consensus 230 ~k~ 232 (593)
T KOG0344|consen 230 RKY 232 (593)
T ss_pred Hhc
Confidence 875
No 88
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=97.94 E-value=1.3e-05 Score=80.56 Aligned_cols=77 Identities=19% Similarity=0.174 Sum_probs=58.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC------CCCCcEEEEEcccchhHHHHHHH
Q 007505 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK------PENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~------~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
+|+.|.-.|...+-- + -+|+.++.-|-||+|||+|||+|.+.-.... ..+. ..+|..||..+.+|+...
T Consensus 38 G~ekpTlIQs~aIpl---a-LEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~-sa~iLvPTkEL~qQvy~v 112 (569)
T KOG0346|consen 38 GWEKPTLIQSSAIPL---A-LEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGP-SAVILVPTKELAQQVYKV 112 (569)
T ss_pred CcCCcchhhhcccch---h-hcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccc-eeEEEechHHHHHHHHHH
Confidence 566656666554433 2 3577899999999999999999987654432 1234 789999999999999999
Q ss_pred HHhhhhhh
Q 007505 87 LKLLHNYQ 94 (601)
Q Consensus 87 l~~l~~~~ 94 (601)
+.+|..+.
T Consensus 113 iekL~~~c 120 (569)
T KOG0346|consen 113 IEKLVEYC 120 (569)
T ss_pred HHHHHHHH
Confidence 88887664
No 89
>PF13245 AAA_19: Part of AAA domain
Probab=97.90 E-value=4.9e-05 Score=59.38 Aligned_cols=59 Identities=24% Similarity=0.373 Sum_probs=41.6
Q ss_pred HHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHH--HhCCCCCcEEEEEcccchhHHHHHHHH
Q 007505 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV--LSKPENPVKLIYCTRTVHEMEKTLAEL 87 (601)
Q Consensus 27 ~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~--~~~~~~~~kvv~~t~T~~~~~q~~~el 87 (601)
.|..++.++..++|+||+|||||...+-.+..+. ...+ ++ +|++.|.|+...+.+.+.+
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 3556777556677799999999965554333333 2223 56 8999999999988877755
No 90
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=97.82 E-value=0.00014 Score=83.33 Aligned_cols=68 Identities=22% Similarity=0.202 Sum_probs=48.7
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
++|.|.+.+..|... ...-+++--.+|.|||+-....+ ......+..+ ||+|.+|+ +++.|+..|+.+
T Consensus 153 l~pHQl~~~~~vl~~--~~~R~LLADEvGLGKTIeAglil-~~l~~~g~~~-rvLIVvP~-sL~~QW~~El~~ 220 (956)
T PRK04914 153 LIPHQLYIAHEVGRR--HAPRVLLADEVGLGKTIEAGMII-HQQLLTGRAE-RVLILVPE-TLQHQWLVEMLR 220 (956)
T ss_pred CCHHHHHHHHHHhhc--cCCCEEEEeCCcCcHHHHHHHHH-HHHHHcCCCC-cEEEEcCH-HHHHHHHHHHHH
Confidence 589999987765433 23457778999999999665432 2222233346 89999998 899999999864
No 91
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=97.81 E-value=0.00011 Score=74.45 Aligned_cols=70 Identities=19% Similarity=0.156 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHH---------hhcCcEEEEccCCChhHHHHHHHHHHHHHhCCC--CCcEEEEEcccchhHHHHHHHHH
Q 007505 20 EQYSYMLELKRAL---------DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE--NPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 20 ~Q~~~~~~v~~~l---------~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~--~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.|++.+.-+.+.. ...+.+++--.+|+|||+..+..+.......+. .+ +++|.+|+ +++.|+.+|+.
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 445678888899999999888644322222211 12 48888888 88899999998
Q ss_pred hhh
Q 007505 89 LLH 91 (601)
Q Consensus 89 ~l~ 91 (601)
+..
T Consensus 79 ~~~ 81 (299)
T PF00176_consen 79 KWF 81 (299)
T ss_dssp HHS
T ss_pred ccc
Confidence 863
No 92
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=97.78 E-value=0.00012 Score=81.91 Aligned_cols=65 Identities=18% Similarity=0.083 Sum_probs=49.2
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~ 92 (601)
|+.|.- ..+ +|.+| -+.|+.||+|||+++.+|++..+. .|+ .|.|.|+|.-|..|..+.+..+.+
T Consensus 83 ~dvQli--g~l--~L~~G--~Iaem~TGeGKTLva~lpa~l~aL---~G~-~V~IvTpn~yLA~rd~e~~~~l~~ 147 (830)
T PRK12904 83 FDVQLI--GGM--VLHEG--KIAEMKTGEGKTLVATLPAYLNAL---TGK-GVHVVTVNDYLAKRDAEWMGPLYE 147 (830)
T ss_pred CccHHH--hhH--HhcCC--chhhhhcCCCcHHHHHHHHHHHHH---cCC-CEEEEecCHHHHHHHHHHHHHHHh
Confidence 566643 333 34455 388999999999999999864444 256 789999999999999998887644
No 93
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.77 E-value=0.00012 Score=78.65 Aligned_cols=89 Identities=18% Similarity=0.144 Sum_probs=72.8
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHhhcC--cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 11 YFPYDNIYPEQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 11 ~fp~~~~r~~Q~~~~~~v~~~l~~~~--~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.-||+. ...|++.+.+|..-+.... +=++.+-.|+|||+..+++++.... .|. ++....||.-+.+|-...+.
T Consensus 258 ~LPF~L-T~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~---~G~-Q~ALMAPTEILA~QH~~~~~ 332 (677)
T COG1200 258 ALPFKL-TNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE---AGY-QAALMAPTEILAEQHYESLR 332 (677)
T ss_pred hCCCCc-cHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHH---cCC-eeEEeccHHHHHHHHHHHHH
Confidence 469986 8999999999999988764 5689999999999999887665433 367 99999999999999999888
Q ss_pred hhhhhhcccCCCccceEEEeecCc
Q 007505 89 LLHNYQTRHLGPAAKILAIGLSSR 112 (601)
Q Consensus 89 ~l~~~~~~~~~~~~~~~~~~l~~r 112 (601)
++.+ +..+++..|.|+
T Consensus 333 ~~l~--------~~~i~V~lLtG~ 348 (677)
T COG1200 333 KWLE--------PLGIRVALLTGS 348 (677)
T ss_pred HHhh--------hcCCeEEEeecc
Confidence 7653 334777877775
No 94
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=97.74 E-value=0.00014 Score=81.20 Aligned_cols=53 Identities=19% Similarity=0.139 Sum_probs=43.6
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhhh
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~~ 93 (601)
--|.|++||+|||+++.+|++..+. .++ .|.|.|+|.-|..|..+.+..+..+
T Consensus 97 G~IaEm~TGEGKTL~a~lp~~l~al---~g~-~VhIvT~ndyLA~RD~e~m~~l~~~ 149 (908)
T PRK13107 97 NRIAEMRTGEGKTLTATLPAYLNAL---TGK-GVHVITVNDYLARRDAENNRPLFEF 149 (908)
T ss_pred CccccccCCCCchHHHHHHHHHHHh---cCC-CEEEEeCCHHHHHHHHHHHHHHHHh
Confidence 3588999999999999999876665 356 7999999999999988877776443
No 95
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=97.68 E-value=8.6e-05 Score=84.16 Aligned_cols=71 Identities=20% Similarity=0.284 Sum_probs=59.2
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
-.|||+. .|-|++.+ .+|+.+..++++||||.|||...-. |++.+... +. |+||.||.+++-+|..+||..
T Consensus 114 ~~~~F~L-D~fQ~~a~----~~Ler~esVlV~ApTssGKTvVaey-Ai~~al~~--~q-rviYTsPIKALsNQKyrdl~~ 184 (1041)
T COG4581 114 REYPFEL-DPFQQEAI----AILERGESVLVCAPTSSGKTVVAEY-AIALALRD--GQ-RVIYTSPIKALSNQKYRDLLA 184 (1041)
T ss_pred HhCCCCc-CHHHHHHH----HHHhCCCcEEEEccCCCCcchHHHH-HHHHHHHc--CC-ceEeccchhhhhhhHHHHHHH
Confidence 3489987 69998776 4577999999999999999997776 45666654 67 899999999999999998764
No 96
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=97.65 E-value=0.00017 Score=74.80 Aligned_cols=57 Identities=26% Similarity=0.246 Sum_probs=44.5
Q ss_pred HHHHHhhcC--cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 28 LKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 28 v~~~l~~~~--~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
+.+++.+++ ++++.||||+|||.++++|++. . +. +.+|.+||.++.+|..+.++...
T Consensus 5 ~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~----~--~~-~~~~~~P~~aL~~~~~~~~~~~~ 63 (357)
T TIGR03158 5 TFEALQSKDADIIFNTAPTGAGKTLAWLTPLLH----G--EN-DTIALYPTNALIEDQTEAIKEFV 63 (357)
T ss_pred HHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHH----c--CC-CEEEEeChHHHHHHHHHHHHHHH
Confidence 344455554 5899999999999999998773 1 34 78999999999999988777653
No 97
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=97.63 E-value=0.0001 Score=82.13 Aligned_cols=91 Identities=15% Similarity=0.159 Sum_probs=72.4
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC-----CCCcEEEEEcccchhHHHHH
Q 007505 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTL 84 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~-----~~~~kvv~~t~T~~~~~q~~ 84 (601)
-.+.|++++|.|.+++-.|. .|..+|.-|-||+|||+||++|-+......+ +|+ -.+|.++|..|..|+-
T Consensus 381 kkl~y~k~~~IQ~qAiP~Im----sGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGP-i~li~aPtrela~QI~ 455 (997)
T KOG0334|consen 381 KKLGYEKPTPIQAQAIPAIM----SGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGP-IALILAPTRELAMQIH 455 (997)
T ss_pred HHhcCCCCcchhhhhcchhc----cCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCc-eEEEEcCCHHHHHHHH
Confidence 35789999999999987654 7889999999999999999999886655432 345 6799999999999999
Q ss_pred HHHHhhhhhhcccCCCccceEEEeecCcc
Q 007505 85 AELKLLHNYQTRHLGPAAKILAIGLSSRK 113 (601)
Q Consensus 85 ~el~~l~~~~~~~~~~~~~~~~~~l~~r~ 113 (601)
++++++.+. ..++++...|+.
T Consensus 456 r~~~kf~k~--------l~ir~v~vygg~ 476 (997)
T KOG0334|consen 456 REVRKFLKL--------LGIRVVCVYGGS 476 (997)
T ss_pred HHHHHHHhh--------cCceEEEecCCc
Confidence 999998653 345566655553
No 98
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.59 E-value=0.00016 Score=74.20 Aligned_cols=57 Identities=21% Similarity=0.248 Sum_probs=45.7
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCC-----CCCcEEEEEcccchhHHHHHHHHHhhhh
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKP-----ENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~-----~~~~kvv~~t~T~~~~~q~~~el~~l~~ 92 (601)
+..++=-|-||+|||.|++.|.+......+ +++ =.+|+++|..+..|+..|-+++-+
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 445677789999999999999887765432 344 679999999999999999888643
No 99
>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=97.58 E-value=0.00019 Score=80.56 Aligned_cols=72 Identities=18% Similarity=0.214 Sum_probs=58.4
Q ss_pred CCHHHHHHHHHHHHHHhh------cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 17 IYPEQYSYMLELKRALDA------KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~------~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
+|+.|.+.+.++.+.+.+ ++.+++..|||||||+..+..+....... ..+ +|+|.|.+..|.+|+.+++...
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 589999999999999876 35799999999999997776544333322 345 9999999999999999988764
No 100
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=97.56 E-value=0.00031 Score=81.03 Aligned_cols=72 Identities=15% Similarity=0.154 Sum_probs=54.5
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC-CCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~-~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
..||.|.+-+.-+.....++..+|+-=..|.|||+-.+. ++.+.... +..+ +++|.+|. +++.|+.+|+.++
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIa-lL~~L~~~~~~~g-p~LIVvP~-SlL~nW~~Ei~kw 241 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTIS-LLGYLHEYRGITG-PHMVVAPK-STLGNWMNEIRRF 241 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHH-HHHHHHHhcCCCC-CEEEEeCh-HHHHHHHHHHHHH
Confidence 469999999998888888888899988999999997654 34444332 2234 56777775 6678999999875
No 101
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=97.54 E-value=0.00062 Score=72.23 Aligned_cols=81 Identities=15% Similarity=0.289 Sum_probs=55.0
Q ss_pred CCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhhh
Q 007505 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (601)
Q Consensus 14 ~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~~ 93 (601)
.+..-..|....+.|. ++..-+|.+|+|||||..-- ++.|-.....+. +|.+|.+++.-.+|+.+-+.+.
T Consensus 408 lpkLN~SQ~~AV~~VL----~rplsLIQGPPGTGKTvtsa--~IVyhl~~~~~~-~VLvcApSNiAVDqLaeKIh~t--- 477 (935)
T KOG1802|consen 408 LPKLNASQSNAVKHVL----QRPLSLIQGPPGTGKTVTSA--TIVYHLARQHAG-PVLVCAPSNIAVDQLAEKIHKT--- 477 (935)
T ss_pred chhhchHHHHHHHHHH----cCCceeeecCCCCCceehhH--HHHHHHHHhcCC-ceEEEcccchhHHHHHHHHHhc---
Confidence 4444567766655544 67789999999999998433 344433222245 8999999999999998865542
Q ss_pred hcccCCCccceEEEeecCcc
Q 007505 94 QTRHLGPAAKILAIGLSSRK 113 (601)
Q Consensus 94 ~~~~~~~~~~~~~~~l~~r~ 113 (601)
.++++.+-+|+
T Consensus 478 ---------gLKVvRl~aks 488 (935)
T KOG1802|consen 478 ---------GLKVVRLCAKS 488 (935)
T ss_pred ---------CceEeeeehhh
Confidence 25666655554
No 102
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=97.49 E-value=0.00042 Score=77.57 Aligned_cols=51 Identities=20% Similarity=0.106 Sum_probs=42.6
Q ss_pred EEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhh
Q 007505 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (601)
Q Consensus 38 ~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~ 92 (601)
-|+|..||.|||++..+|++..+. .|+ .|.+.|+|.-|..|-.+.+..+..
T Consensus 98 ~iaEM~TGEGKTLvA~l~a~l~al---~G~-~VhvvT~ndyLA~RD~e~m~~l~~ 148 (913)
T PRK13103 98 KIAEMRTGEGKTLVGTLAVYLNAL---SGK-GVHVVTVNDYLARRDANWMRPLYE 148 (913)
T ss_pred ccccccCCCCChHHHHHHHHHHHH---cCC-CEEEEeCCHHHHHHHHHHHHHHhc
Confidence 578999999999999988766555 367 899999999999998888877643
No 103
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.46 E-value=0.00078 Score=71.14 Aligned_cols=71 Identities=21% Similarity=0.393 Sum_probs=49.4
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
..||..- -+.|++. |.-++..+...++.+|+|||||....- .+.-+.. .++ ||++|-||+.-.+-+++.|-
T Consensus 180 ~~~~~~l-n~SQk~A---v~~~~~~k~l~~I~GPPGTGKT~TlvE-iI~qlvk--~~k-~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 180 TFFNKNL-NSSQKAA---VSFAINNKDLLIIHGPPGTGKTRTLVE-IISQLVK--QKK-RVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred ccCCccc-cHHHHHH---HHHHhccCCceEeeCCCCCCceeeHHH-HHHHHHH--cCC-eEEEEcCchHHHHHHHHHhc
Confidence 3466653 5677654 344566668999999999999985443 1222332 257 99999999999999888543
No 104
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=97.37 E-value=0.00038 Score=71.87 Aligned_cols=75 Identities=23% Similarity=0.164 Sum_probs=61.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC---------CCCcEEEEEcccchhHHHH
Q 007505 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP---------ENPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~---------~~~~kvv~~t~T~~~~~q~ 83 (601)
.|..|.|.|++.+-- ..+++..|.-|-||+|||+|+++|.+.|....| .|+ ..++..+|.-+..|+
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 476678888877753 346677888999999999999999999987665 356 899999999999999
Q ss_pred HHHHHhhhh
Q 007505 84 LAELKLLHN 92 (601)
Q Consensus 84 ~~el~~l~~ 92 (601)
.+|-.++.+
T Consensus 339 eeEt~kf~~ 347 (673)
T KOG0333|consen 339 EEETNKFGK 347 (673)
T ss_pred HHHHHHhcc
Confidence 998777654
No 105
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.21 E-value=0.003 Score=72.19 Aligned_cols=76 Identities=21% Similarity=0.267 Sum_probs=64.2
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHhhcCc--EEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHH
Q 007505 9 TVYFPYDNIYPEQYSYMLELKRALDAKGH--CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 9 ~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~--~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
.-.|||+. .|-|...+++|.+=+..+++ =+|++-.|.|||-.++=+|-... .+|+ +|.+.+||--|.+|=.+-
T Consensus 588 ~~~FPyeE-T~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV---~~GK-QVAvLVPTTlLA~QHy~t 662 (1139)
T COG1197 588 EASFPYEE-TPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAV---MDGK-QVAVLVPTTLLAQQHYET 662 (1139)
T ss_pred HhcCCCcC-CHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHh---cCCC-eEEEEcccHHhHHHHHHH
Confidence 35799998 89999999999999999874 58999999999999998765433 2478 999999999999997776
Q ss_pred HHh
Q 007505 87 LKL 89 (601)
Q Consensus 87 l~~ 89 (601)
++.
T Consensus 663 Fke 665 (1139)
T COG1197 663 FKE 665 (1139)
T ss_pred HHH
Confidence 653
No 106
>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=97.21 E-value=0.00083 Score=63.06 Aligned_cols=56 Identities=27% Similarity=0.239 Sum_probs=39.7
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccch
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~ 78 (601)
..+.|..++..+. +...+++.+|.|||||+..+..|+..... ..-+ ||||+-++..
T Consensus 5 ~~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~-g~~~-kiii~Rp~v~ 60 (205)
T PF02562_consen 5 KNEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKE-GEYD-KIIITRPPVE 60 (205)
T ss_dssp -SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHT-TS-S-EEEEEE-S--
T ss_pred CCHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHh-CCCc-EEEEEecCCC
Confidence 4689999987766 77899999999999999999888877665 3345 8888877654
No 107
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.21 E-value=0.00075 Score=65.37 Aligned_cols=67 Identities=27% Similarity=0.364 Sum_probs=43.3
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHH------HhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV------LSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~------~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
-+.|.+.+ ..++......+|.+|+|||||-... .++... .....++ +|+++++|+.-.+++++.|..
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 36676655 3444444469999999999994333 233333 1123467 999999999999999997776
No 108
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.17 E-value=0.00029 Score=70.40 Aligned_cols=73 Identities=23% Similarity=0.118 Sum_probs=55.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC------CCCcEEEEEcccchhHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP------ENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~------~~~~kvv~~t~T~~~~~q~~~ 85 (601)
-+|++|.|.|.++=-- +-+|..++--|-||||||++||.|++.+..+.+ .+. .+++.|+|..|.-|+--
T Consensus 238 ~GFqKPtPIqSQaWPI----~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p-~~lvl~ptreLalqie~ 312 (629)
T KOG0336|consen 238 TGFQKPTPIQSQAWPI----LLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGP-GVLVLTPTRELALQIEG 312 (629)
T ss_pred ccCCCCCcchhcccce----eecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCC-ceEEEeccHHHHHHHHh
Confidence 3577777777666533 336778999999999999999999887655432 234 89999999999888766
Q ss_pred HHHh
Q 007505 86 ELKL 89 (601)
Q Consensus 86 el~~ 89 (601)
|..+
T Consensus 313 e~~k 316 (629)
T KOG0336|consen 313 EVKK 316 (629)
T ss_pred HHhH
Confidence 7665
No 109
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=97.05 E-value=0.0017 Score=76.21 Aligned_cols=32 Identities=19% Similarity=0.197 Sum_probs=26.8
Q ss_pred HHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHH
Q 007505 26 LELKRALDAKGHCLLEMPTGTGKTIALLSLITSY 59 (601)
Q Consensus 26 ~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~ 59 (601)
.+|.+++.++..+++.|+||+|||. .+|.+.+
T Consensus 80 ~~Il~ai~~~~VviI~GeTGSGKTT--qlPq~ll 111 (1294)
T PRK11131 80 QDILEAIRDHQVVIVAGETGSGKTT--QLPKICL 111 (1294)
T ss_pred HHHHHHHHhCCeEEEECCCCCCHHH--HHHHHHH
Confidence 5778888899999999999999999 5675544
No 110
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=97.04 E-value=0.0015 Score=74.14 Aligned_cols=72 Identities=25% Similarity=0.195 Sum_probs=57.4
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHh-CCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS-KPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~-~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
++.|....+.+.+....+..++++||||.|||.+.+.++..-... ..... |+|+..++.+..+++.+.++..
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 788888887766655544489999999999999999887766554 22245 9999999999999998877764
No 111
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.95 E-value=0.0034 Score=59.22 Aligned_cols=62 Identities=19% Similarity=0.186 Sum_probs=42.7
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~ 85 (601)
.++|++++..+.. ..+...++.+|.|||||...- ......... +. +|+++++|+.....+-+
T Consensus 3 ~~~Q~~a~~~~l~--~~~~~~~l~G~aGtGKT~~l~-~~~~~~~~~--g~-~v~~~apT~~Aa~~L~~ 64 (196)
T PF13604_consen 3 NEEQREAVRAILT--SGDRVSVLQGPAGTGKTTLLK-ALAEALEAA--GK-RVIGLAPTNKAAKELRE 64 (196)
T ss_dssp -HHHHHHHHHHHH--CTCSEEEEEESTTSTHHHHHH-HHHHHHHHT--T---EEEEESSHHHHHHHHH
T ss_pred CHHHHHHHHHHHh--cCCeEEEEEECCCCCHHHHHH-HHHHHHHhC--CC-eEEEECCcHHHHHHHHH
Confidence 4789999887642 233589999999999998543 333333433 56 99999999988777544
No 112
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=96.87 E-value=0.0029 Score=70.76 Aligned_cols=75 Identities=17% Similarity=0.297 Sum_probs=53.1
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC------CCCCcEEEEEcccchhHHHHH
Q 007505 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK------PENPVKLIYCTRTVHEMEKTL 84 (601)
Q Consensus 11 ~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~------~~~~~kvv~~t~T~~~~~q~~ 84 (601)
.|+|+..-..|-+.-.. |...+.+++|.||||+|||-.+++..|.-.+.. ..+..||||..|+++|..-++
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 45666555555433322 456688999999999999998887766655531 113359999999999998888
Q ss_pred HHHH
Q 007505 85 AELK 88 (601)
Q Consensus 85 ~el~ 88 (601)
+...
T Consensus 182 ~~~~ 185 (1230)
T KOG0952|consen 182 DKFS 185 (1230)
T ss_pred HHHh
Confidence 7644
No 113
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=96.86 E-value=0.00068 Score=64.72 Aligned_cols=74 Identities=11% Similarity=0.079 Sum_probs=57.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
++||.|...|...+-.|. +|..+++.|-.|||||.+|-++.+-...-. ...+++.+.|||..+..|+-+-+..+
T Consensus 45 yGfekPS~IQqrAi~~Il----kGrdViaQaqSGTGKTa~~si~vlq~~d~~-~r~tQ~lilsPTRELa~Qi~~vi~al 118 (400)
T KOG0328|consen 45 YGFEKPSAIQQRAIPQIL----KGRDVIAQAQSGTGKTATFSISVLQSLDIS-VRETQALILSPTRELAVQIQKVILAL 118 (400)
T ss_pred hccCCchHHHhhhhhhhh----cccceEEEecCCCCceEEEEeeeeeecccc-cceeeEEEecChHHHHHHHHHHHHHh
Confidence 789998999988776654 788999999999999999888765432222 12348999999999998887755554
No 114
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.85 E-value=0.0031 Score=62.38 Aligned_cols=70 Identities=20% Similarity=0.148 Sum_probs=57.6
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.|.|.|..-+-+|. +|..++=.|-||+|||.|+-+|-+.-+...|.+- =.+|.|||+.+.-|+-+.+.-+
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 45899977776654 7888999999999999999999887766666655 6789999999999988876654
No 115
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=96.80 E-value=0.004 Score=68.37 Aligned_cols=72 Identities=17% Similarity=0.139 Sum_probs=58.2
Q ss_pred CCCHHHHHHHHHHHHHHhhcC-cEEEEccCCChhHHHHHHHHHHHHH-hCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 16 NIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVL-SKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~-~~~~EapTGtGKTla~L~~~l~~~~-~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.+|..|...+..|.+|+.+|+ -+++-..||||||..++. +.|.. .....+ ||.+.+-+.+|.+|........
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAia--ii~rL~r~~~~K-RVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIA--IIDRLIKSGWVK-RVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHH--HHHHHHhcchhh-eeeEEechHHHHHHHHHHHHHh
Confidence 469999999999999999874 599999999999997763 44432 333457 9999999999999998875553
No 116
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.76 E-value=0.0014 Score=66.15 Aligned_cols=74 Identities=20% Similarity=0.162 Sum_probs=59.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
+|..|.|.|+.-|-.+. ++..++--|-||+|||.|+++|++..+........|..+.++|..+..|.++-++.+
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 46667899987776544 677788899999999999999999887765433449999999999999988866554
No 117
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=96.74 E-value=0.0037 Score=54.56 Aligned_cols=53 Identities=21% Similarity=0.264 Sum_probs=35.3
Q ss_pred hhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 33 ~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.+|+.-++...+|.|||--+|--.+.-+... +. |+++..+|....+-+-+.|+
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 4567788999999999998775444333333 45 99999999988776665444
No 118
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.74 E-value=0.00074 Score=65.54 Aligned_cols=73 Identities=21% Similarity=0.132 Sum_probs=52.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhH---HHHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM---EKTLAELK 88 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~---~q~~~el~ 88 (601)
-+|+.|.|.|.+-+--+ | .|+.+++-|-.|||||-||.+|.|.-.....+ ..+.+|..+|..+. .|+..++.
T Consensus 103 ~G~ekPSPiQeesIPia---L-tGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~-~IQ~~ilVPtrelALQtSqvc~~ls 177 (459)
T KOG0326|consen 103 KGFEKPSPIQEESIPIA---L-TGRDILARAKNGTGKTAAYCIPVLEKIDPKKN-VIQAIILVPTRELALQTSQVCKELS 177 (459)
T ss_pred hccCCCCCcccccccee---e-cchhhhhhccCCCCCccceechhhhhcCcccc-ceeEEEEeecchhhHHHHHHHHHHh
Confidence 46888889998766443 2 57789999999999999999999976554332 23667777776644 45555555
Q ss_pred h
Q 007505 89 L 89 (601)
Q Consensus 89 ~ 89 (601)
+
T Consensus 178 k 178 (459)
T KOG0326|consen 178 K 178 (459)
T ss_pred c
Confidence 4
No 119
>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=96.70 E-value=0.0074 Score=67.27 Aligned_cols=67 Identities=24% Similarity=0.353 Sum_probs=48.9
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
..-+.|++.+ ..++..+...+|.+|+|||||-.... .+..+... +. +|+++++|+.-.+++++.|..
T Consensus 157 ~ln~~Q~~Av---~~~l~~~~~~lI~GpPGTGKT~t~~~-ii~~~~~~--g~-~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 157 NLNESQKEAV---SFALSSKDLFLIHGPPGTGKTRTLVE-LIRQLVKR--GL-RVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCHHHHHHH---HHHhcCCCeEEEEcCCCCCHHHHHHH-HHHHHHHc--CC-CEEEEcCcHHHHHHHHHHHHh
Confidence 3467888755 44666668899999999999964432 22223322 56 999999999999999887654
No 120
>KOG4284 consensus DEAD box protein [Transcription]
Probab=96.62 E-value=0.00084 Score=71.02 Aligned_cols=73 Identities=19% Similarity=0.149 Sum_probs=52.6
Q ss_pred CCHHHHHHHHHHHHHHhh-------------------cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccc
Q 007505 17 IYPEQYSYMLELKRALDA-------------------KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~-------------------~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~ 77 (601)
+-+.|..+-+.|...|.. +-.+||.|-.|||||+.|-+.|+.-...+.... .++|.|+|.
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 345566666666655552 336999999999999999887776554443344 899999999
Q ss_pred hhHHHHHHHHHhh
Q 007505 78 HEMEKTLAELKLL 90 (601)
Q Consensus 78 ~~~~q~~~el~~l 90 (601)
...-|+-+-++.+
T Consensus 104 EiaVQI~~tv~~v 116 (980)
T KOG4284|consen 104 EIAVQIKETVRKV 116 (980)
T ss_pred hhhhHHHHHHHHh
Confidence 8888877766654
No 121
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=96.58 E-value=0.0074 Score=65.48 Aligned_cols=72 Identities=15% Similarity=0.187 Sum_probs=54.1
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCC-CCcEEEEEcccchhHHHHHHHHHhh
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~-~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
..|+.|.+=+.=+.....+|-++|+---.|-|||+-.+. .|.|.+.... .+ +-+|++|- +-+..+++|++++
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs-~l~yl~~~~~~~G-PfLVi~P~-StL~NW~~Ef~rf 239 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTIS-LLGYLKGRKGIPG-PFLVIAPK-STLDNWMNEFKRF 239 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHH-HHHHHHHhcCCCC-CeEEEeeH-hhHHHHHHHHHHh
Confidence 468999999999999999998999988999999996654 4566665322 23 45555554 4556888998886
No 122
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=96.49 E-value=0.027 Score=62.91 Aligned_cols=65 Identities=28% Similarity=0.328 Sum_probs=46.6
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
-..|++. +.+++......+|.+=+|||||-. ++..+..+.+. |+ +|..++-||+-.+.++--|+.
T Consensus 671 N~dQr~A---~~k~L~aedy~LI~GMPGTGKTTt-I~~LIkiL~~~--gk-kVLLtsyThsAVDNILiKL~~ 735 (1100)
T KOG1805|consen 671 NNDQRQA---LLKALAAEDYALILGMPGTGKTTT-ISLLIKILVAL--GK-KVLLTSYTHSAVDNILIKLKG 735 (1100)
T ss_pred CHHHHHH---HHHHHhccchheeecCCCCCchhh-HHHHHHHHHHc--CC-eEEEEehhhHHHHHHHHHHhc
Confidence 3467764 456778889999999999999862 22233333333 68 999999999998887665543
No 123
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=96.45 E-value=0.0082 Score=70.83 Aligned_cols=32 Identities=19% Similarity=0.217 Sum_probs=27.3
Q ss_pred HHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHH
Q 007505 26 LELKRALDAKGHCLLEMPTGTGKTIALLSLITSY 59 (601)
Q Consensus 26 ~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~ 59 (601)
.+|.++|.++..+||.|+||+|||- .+|.+.+
T Consensus 73 ~~Il~~l~~~~vvii~g~TGSGKTT--qlPq~ll 104 (1283)
T TIGR01967 73 EDIAEAIAENQVVIIAGETGSGKTT--QLPKICL 104 (1283)
T ss_pred HHHHHHHHhCceEEEeCCCCCCcHH--HHHHHHH
Confidence 7888999999999999999999998 5575544
No 124
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.39 E-value=0.013 Score=66.81 Aligned_cols=73 Identities=22% Similarity=0.190 Sum_probs=56.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhc----------------------------------CcEEEEccCCChhHHHHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAK----------------------------------GHCLLEMPTGTGKTIALLSLIT 57 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~----------------------------------~~~~~EapTGtGKTla~L~~~l 57 (601)
|-|+. =|.|.+.+.+|..+|..= .++.++.+||||||+.||...+
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 55777 599999999999998641 2789999999999999998665
Q ss_pred HHHHhCCCCCcEEEEEcccchhHHHHHHHH
Q 007505 58 SYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (601)
Q Consensus 58 ~~~~~~~~~~~kvv~~t~T~~~~~q~~~el 87 (601)
...... +-.++||.+|+.+-.+.+.+-|
T Consensus 82 ~l~~~~--~~~~fii~vp~~aI~egv~~~l 109 (986)
T PRK15483 82 ELHQKY--GLFKFIIVVPTPAIKEGTRNFI 109 (986)
T ss_pred HHHHHc--CCcEEEEEeCCHHHHHHHHHHh
Confidence 555544 3338999999988777765533
No 125
>PRK10536 hypothetical protein; Provisional
Probab=96.18 E-value=0.011 Score=57.25 Aligned_cols=56 Identities=21% Similarity=0.201 Sum_probs=36.5
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccch
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~ 78 (601)
+....|..++.. +.++..+++.+|+|||||+..+..++..... + .++.+|.||..-
T Consensus 59 p~n~~Q~~~l~a----l~~~~lV~i~G~aGTGKT~La~a~a~~~l~~-~--~~~kIiI~RP~v 114 (262)
T PRK10536 59 ARNEAQAHYLKA----IESKQLIFATGEAGCGKTWISAAKAAEALIH-K--DVDRIIVTRPVL 114 (262)
T ss_pred CCCHHHHHHHHH----HhcCCeEEEECCCCCCHHHHHHHHHHHHHhc-C--CeeEEEEeCCCC
Confidence 456778777764 4557799999999999999777665543322 2 224444445443
No 126
>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=96.17 E-value=0.014 Score=59.32 Aligned_cols=64 Identities=23% Similarity=0.315 Sum_probs=43.7
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC--CCCcEEEEEcccchhHHHHHHHHHh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~--~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
.+.|.+++.. .+++++|.|+.|||||.+.+.-+ .|+.... ... +|++.|-|.+....+-+.++.
T Consensus 2 ~~eQ~~~i~~------~~~~~lV~a~AGSGKT~~l~~ri-~~ll~~~~~~~~-~Il~lTft~~aa~e~~~ri~~ 67 (315)
T PF00580_consen 2 TDEQRRIIRS------TEGPLLVNAGAGSGKTTTLLERI-AYLLYEGGVPPE-RILVLTFTNAAAQEMRERIRE 67 (315)
T ss_dssp -HHHHHHHHS-------SSEEEEEE-TTSSHHHHHHHHH-HHHHHTSSSTGG-GEEEEESSHHHHHHHHHHHHH
T ss_pred CHHHHHHHhC------CCCCEEEEeCCCCCchHHHHHHH-HHhhccccCChH-HheecccCHHHHHHHHHHHHH
Confidence 4678777744 57899999999999999777543 3443332 234 899999999877666555544
No 127
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=96.15 E-value=0.02 Score=64.32 Aligned_cols=71 Identities=17% Similarity=0.156 Sum_probs=57.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
.+|++ ...|+--+..+. .|+..-+-||||+|||-=-++.++-+|.. |+ |++|..||..|..|+.+-|.++.
T Consensus 79 ~G~~~-ws~QR~WakR~~----rg~SFaiiAPTGvGKTTfg~~~sl~~a~k---gk-r~yii~PT~~Lv~Q~~~kl~~~~ 149 (1187)
T COG1110 79 TGFRP-WSAQRVWAKRLV----RGKSFAIIAPTGVGKTTFGLLMSLYLAKK---GK-RVYIIVPTTTLVRQVYERLKKFA 149 (1187)
T ss_pred hCCCc-hHHHHHHHHHHH----cCCceEEEcCCCCchhHHHHHHHHHHHhc---CC-eEEEEecCHHHHHHHHHHHHHHH
Confidence 45765 799988887755 67788889999999998666666655542 57 99999999999999999887764
No 128
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=96.05 E-value=0.048 Score=61.39 Aligned_cols=53 Identities=19% Similarity=0.126 Sum_probs=41.5
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhhh
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~~ 93 (601)
--|+|..||-||||++.+|+...|. .|+ .|-|.|.+-=|..+..+.+..+-++
T Consensus 100 G~IAEM~TGEGKTL~atlpaylnAL---~Gk-gVhVVTvNdYLA~RDae~m~~vy~~ 152 (939)
T PRK12902 100 GQIAEMKTGEGKTLVATLPSYLNAL---TGK-GVHVVTVNDYLARRDAEWMGQVHRF 152 (939)
T ss_pred CceeeecCCCChhHHHHHHHHHHhh---cCC-CeEEEeCCHHHHHhHHHHHHHHHHH
Confidence 3578999999999999988766555 367 8999999988887777766665443
No 129
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=95.96 E-value=0.0054 Score=70.13 Aligned_cols=66 Identities=18% Similarity=0.241 Sum_probs=51.3
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH
Q 007505 9 TVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 9 ~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~ 85 (601)
...|++...||.|.+++. +...|+..+|..|||-||+++|-+||+.+ ++ -.+|.+|-.+|++-.+.
T Consensus 257 ~~~Fg~~~FR~~Q~eaI~----~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~------~g-itvVISPL~SLm~DQv~ 322 (941)
T KOG0351|consen 257 KEVFGHKGFRPNQLEAIN----ATLSGKDCFVLMPTGGGKSLCYQLPALLL------GG-VTVVISPLISLMQDQVT 322 (941)
T ss_pred HHHhccccCChhHHHHHH----HHHcCCceEEEeecCCceeeEeecccccc------CC-ceEEeccHHHHHHHHHH
Confidence 346889989999999886 45578899999999999999999998854 34 34566677777654433
No 130
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=95.88 E-value=0.049 Score=61.24 Aligned_cols=53 Identities=17% Similarity=0.058 Sum_probs=41.5
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhh
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHN 92 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~ 92 (601)
+--++|+.||-||||+..+|+...+. .|+ .|.|.|.+--|..+..+.+..+-+
T Consensus 90 ~G~IaEm~TGEGKTL~a~l~ayl~aL---~G~-~VhVvT~NdyLA~RD~e~m~pvy~ 142 (870)
T CHL00122 90 DGKIAEMKTGEGKTLVATLPAYLNAL---TGK-GVHIVTVNDYLAKRDQEWMGQIYR 142 (870)
T ss_pred CCccccccCCCCchHHHHHHHHHHHh---cCC-ceEEEeCCHHHHHHHHHHHHHHHH
Confidence 34688999999999999988755444 267 899999998888887776666543
No 131
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=95.85 E-value=0.013 Score=58.14 Aligned_cols=68 Identities=22% Similarity=0.270 Sum_probs=50.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
|..+..||-|++.+..+. .++.+++--|||-||||+|-+|||.. .. =.++.+|-+++.+.-+-.|+.+
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 556778999998876544 57778899999999999999999852 24 3455567777776554445553
No 132
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=95.74 E-value=0.021 Score=59.69 Aligned_cols=75 Identities=20% Similarity=0.233 Sum_probs=59.6
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHhhc-CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHH
Q 007505 8 VTVYFPYDNIYPEQYSYMLELKRALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 8 ~~~~fp~~~~r~~Q~~~~~~v~~~l~~~-~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
....=||+| ---|-+.+..+.+.+.+| ++-++-+-||||||+..- +..+. .++ +.+|..+.+.+..|+..|
T Consensus 5 F~l~s~f~P-aGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~A-----nVI~~-~~r-PtLV~AhNKTLAaQLy~E 76 (663)
T COG0556 5 FKLHSPFKP-AGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMA-----NVIAK-VQR-PTLVLAHNKTLAAQLYSE 76 (663)
T ss_pred eEeccCCCC-CCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHH-----HHHHH-hCC-CeEEEecchhHHHHHHHH
Confidence 345568886 788999999999999987 578889999999998433 22222 246 788888999999999999
Q ss_pred HHhh
Q 007505 87 LKLL 90 (601)
Q Consensus 87 l~~l 90 (601)
++.+
T Consensus 77 fk~f 80 (663)
T COG0556 77 FKEF 80 (663)
T ss_pred HHHh
Confidence 9976
No 133
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=95.64 E-value=0.033 Score=60.92 Aligned_cols=88 Identities=20% Similarity=0.313 Sum_probs=64.4
Q ss_pred cCEEEEecCCCCCccchhh--hcCCCCcccccceeeecCCceeeeeeecCCCCCcceeeeccCCChHHHHHHHHHHHHhh
Q 007505 451 FQSVVITSGTLSPIDLYPR--LLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMV 528 (601)
Q Consensus 451 ~~svIltSgTLsp~~~f~~--~Lg~~~~~~~~~~~~~~~~~~~~~~i~~g~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~ 528 (601)
.--.|+|||||...+.-.. ++.+.+ -+|.-..++.+++--|+.|...+|+.+-.+-...|.
T Consensus 414 pLKLIIMSATLRVsDFtenk~LFpi~p-----------------PlikVdARQfPVsIHF~krT~~DYi~eAfrKtc~IH 476 (1172)
T KOG0926|consen 414 PLKLIIMSATLRVSDFTENKRLFPIPP-----------------PLIKVDARQFPVSIHFNKRTPDDYIAEAFRKTCKIH 476 (1172)
T ss_pred ceeEEEEeeeEEecccccCceecCCCC-----------------ceeeeecccCceEEEeccCCCchHHHHHHHHHHHHh
Confidence 3467999999988642211 111111 123334677888889999988888877777777788
Q ss_pred cccC-CeEEEEecCHHHHHHHHHHHHhc
Q 007505 529 SIVP-DGIVCFFVSYSYMDEIIATWNDS 555 (601)
Q Consensus 529 ~~~~-gg~LVfFpSy~~l~~v~~~~~~~ 555 (601)
+..| ||+|||.|--...+++.+.+++.
T Consensus 477 ~kLP~G~ILVFvTGQqEV~qL~~kLRK~ 504 (1172)
T KOG0926|consen 477 KKLPPGGILVFVTGQQEVDQLCEKLRKR 504 (1172)
T ss_pred hcCCCCcEEEEEeChHHHHHHHHHHHhh
Confidence 7775 99999999999999999998863
No 134
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.62 E-value=0.019 Score=54.21 Aligned_cols=89 Identities=11% Similarity=0.072 Sum_probs=67.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
-+|+.|.+.|.+-+-... -|..++..|-.|.|||..+.+++|--..-. +|.+.|++.+.|..+.-|+-+|..+..
T Consensus 60 cgfehpsevqhecipqai----lgmdvlcqaksgmgktavfvl~tlqqiepv-~g~vsvlvmchtrelafqi~~ey~rfs 134 (387)
T KOG0329|consen 60 CGFEHPSEVQHECIPQAI----LGMDVLCQAKSGMGKTAVFVLATLQQIEPV-DGQVSVLVMCHTRELAFQISKEYERFS 134 (387)
T ss_pred ccCCCchHhhhhhhhHHh----hcchhheecccCCCceeeeehhhhhhcCCC-CCeEEEEEEeccHHHHHHHHHHHHHHH
Confidence 468888888887765433 256689999999999999998877544332 355688999999999999999999988
Q ss_pred hhhcccCCCccceEEEeecCc
Q 007505 92 NYQTRHLGPAAKILAIGLSSR 112 (601)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~~r 112 (601)
+|.|. +++++.-|.
T Consensus 135 kymP~-------vkvaVFfGG 148 (387)
T KOG0329|consen 135 KYMPS-------VKVSVFFGG 148 (387)
T ss_pred hhCCC-------ceEEEEEcc
Confidence 88753 556655543
No 135
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=95.54 E-value=0.052 Score=59.91 Aligned_cols=66 Identities=24% Similarity=0.188 Sum_probs=52.2
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhhh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~~ 93 (601)
|+.|.--+-.+. +| -|+|..||.|||+...+|+...+. .|+ .|.+.|+|--|..|-.+++..+...
T Consensus 80 ydvQlig~l~Ll----~G--~VaEM~TGEGKTLvA~l~a~l~AL---~G~-~VhvvT~NdyLA~RDae~m~~ly~~ 145 (764)
T PRK12326 80 FDVQLLGALRLL----AG--DVIEMATGEGKTLAGAIAAAGYAL---QGR-RVHVITVNDYLARRDAEWMGPLYEA 145 (764)
T ss_pred chHHHHHHHHHh----CC--CcccccCCCCHHHHHHHHHHHHHH---cCC-CeEEEcCCHHHHHHHHHHHHHHHHh
Confidence 788876664433 44 477999999999999998776665 367 8999999999999999988877543
No 136
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=95.46 E-value=0.052 Score=62.26 Aligned_cols=91 Identities=20% Similarity=0.240 Sum_probs=62.4
Q ss_pred CCCCCCCHHHHHHHHHHHH-HHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCC-------CCcEEEEEcccchhHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKR-ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-------NPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~-~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~-------~~~kvv~~t~T~~~~~q~ 83 (601)
|.++..-+.| ..|+. |+....++++.||||.|||-..+.-+|.-+..+.. +..||+|-.+.++|.+-+
T Consensus 305 ~g~~sLNrIQ----S~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~ 380 (1674)
T KOG0951|consen 305 FGKQSLNRIQ----SKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEM 380 (1674)
T ss_pred ccchhhhHHH----HHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHH
Confidence 3344444444 33443 45667899999999999999888776665443311 234899999999999999
Q ss_pred HHHHHhhhhhhcccCCCccceEEEeecCccc
Q 007505 84 LAELKLLHNYQTRHLGPAAKILAIGLSSRKN 114 (601)
Q Consensus 84 ~~el~~l~~~~~~~~~~~~~~~~~~l~~r~~ 114 (601)
+..+-+-. .+..++++-+.|-.+
T Consensus 381 VgsfSkRl--------a~~GI~V~ElTgD~~ 403 (1674)
T KOG0951|consen 381 VGSFSKRL--------APLGITVLELTGDSQ 403 (1674)
T ss_pred HHHHHhhc--------cccCcEEEEeccccc
Confidence 99766422 145677777777655
No 137
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=95.43 E-value=0.0093 Score=59.77 Aligned_cols=69 Identities=16% Similarity=0.164 Sum_probs=53.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~ 85 (601)
|+||.|...|...+--+. +|.++.+.|.+|||||.+++++++.-. ..+.....+++.-||+.+..|..+
T Consensus 44 yGFekPSaIQqraI~p~i----~G~dv~~qaqsgTgKt~af~i~iLq~i-D~~~ke~qalilaPtreLa~qi~~ 112 (397)
T KOG0327|consen 44 YGFEKPSAIQQRAILPCI----KGHDVIAQAQSGTGKTAAFLISILQQI-DMSVKETQALILAPTRELAQQIQK 112 (397)
T ss_pred hccCCchHHHhccccccc----cCCceeEeeeccccchhhhHHHHHhhc-CcchHHHHHHHhcchHHHHHHHHH
Confidence 789999999987664433 678999999999999999999887543 222233378888899988888775
No 138
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=95.39 E-value=0.046 Score=61.41 Aligned_cols=66 Identities=20% Similarity=0.159 Sum_probs=51.3
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhhh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~~ 93 (601)
|+.|.--+ + +|.+|. ++|..||.|||+...+|+...+. .|+ .|-+.|+|--|.+|-.+.+..+.+.
T Consensus 82 ~dvQlig~--l--~l~~G~--iaEm~TGEGKTLvA~l~a~l~al---~G~-~v~vvT~neyLA~Rd~e~~~~~~~~ 147 (796)
T PRK12906 82 FDVQIIGG--I--VLHEGN--IAEMKTGEGKTLTATLPVYLNAL---TGK-GVHVVTVNEYLSSRDATEMGELYRW 147 (796)
T ss_pred chhHHHHH--H--HHhcCC--cccccCCCCCcHHHHHHHHHHHH---cCC-CeEEEeccHHHHHhhHHHHHHHHHh
Confidence 67775433 3 345554 89999999999999888776665 367 8999999999999998888877553
No 139
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=95.38 E-value=0.03 Score=56.88 Aligned_cols=70 Identities=19% Similarity=0.175 Sum_probs=48.6
Q ss_pred eCCCCC-CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 11 YFPYDN-IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 11 ~fp~~~-~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
.|+|.+ -.|-|.+.+..| ...+..+.|..|||.||||+|-+|+|.. +. =.||.++-.+++..-|.-|.+
T Consensus 14 ~FGh~kFKs~LQE~A~~c~---VK~k~DVyVsMPTGaGKSLCyQLPaL~~------~g-ITIV~SPLiALIkDQiDHL~~ 83 (641)
T KOG0352|consen 14 LFGHKKFKSRLQEQAINCI---VKRKCDVYVSMPTGAGKSLCYQLPALVH------GG-ITIVISPLIALIKDQIDHLKR 83 (641)
T ss_pred HhCchhhcChHHHHHHHHH---HhccCcEEEeccCCCchhhhhhchHHHh------CC-eEEEehHHHHHHHHHHHHHHh
Confidence 466552 247777655443 3466789999999999999999998852 23 345556778877666665655
Q ss_pred h
Q 007505 90 L 90 (601)
Q Consensus 90 l 90 (601)
|
T Consensus 84 L 84 (641)
T KOG0352|consen 84 L 84 (641)
T ss_pred c
Confidence 4
No 140
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=95.31 E-value=0.038 Score=61.57 Aligned_cols=74 Identities=14% Similarity=0.195 Sum_probs=60.1
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHH
Q 007505 8 VTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (601)
Q Consensus 8 ~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el 87 (601)
.-..|||+. =+-|++.+ .+|..|..++|-|+|-.|||+.+=.+ ++.+..+ +. |.||.||-+++-+|-++|+
T Consensus 290 ~a~~~pFel-D~FQk~Ai----~~lerg~SVFVAAHTSAGKTvVAEYA-ialaq~h--~T-R~iYTSPIKALSNQKfRDF 360 (1248)
T KOG0947|consen 290 MALIYPFEL-DTFQKEAI----YHLERGDSVFVAAHTSAGKTVVAEYA-IALAQKH--MT-RTIYTSPIKALSNQKFRDF 360 (1248)
T ss_pred HHhhCCCCc-cHHHHHHH----HHHHcCCeEEEEecCCCCcchHHHHH-HHHHHhh--cc-ceEecchhhhhccchHHHH
Confidence 345699997 69998877 45778999999999999999977664 3444444 45 9999999999999999999
Q ss_pred Hhh
Q 007505 88 KLL 90 (601)
Q Consensus 88 ~~l 90 (601)
+..
T Consensus 361 k~t 363 (1248)
T KOG0947|consen 361 KET 363 (1248)
T ss_pred HHh
Confidence 874
No 141
>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=95.27 E-value=0.027 Score=52.14 Aligned_cols=59 Identities=19% Similarity=0.253 Sum_probs=26.1
Q ss_pred CCCCCCCHHHHHHHHHHHH--HHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 12 FPYDNIYPEQYSYMLELKR--ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~--~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
|.|...++.+...+..+.. .++++.++++-+|||||||.-.. |+...... .+. +|.|.+
T Consensus 22 ~d~~~~~~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKThLa~--ai~~~~~~-~g~-~v~f~~ 82 (178)
T PF01695_consen 22 FDFSNERGIDKAQIAQLAALEFIENGENLILYGPPGTGKTHLAV--AIANEAIR-KGY-SVLFIT 82 (178)
T ss_dssp ------------HHHHHHHH-S-SC--EEEEEESTTSSHHHHHH--HHHHHHHH-TT---EEEEE
T ss_pred ccccchhhHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHHHHH--HHHHHhcc-CCc-ceeEee
Confidence 4444434555555555532 24556799999999999998444 34322211 245 777765
No 142
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=95.17 E-value=0.021 Score=59.76 Aligned_cols=87 Identities=22% Similarity=0.179 Sum_probs=58.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC-----------CCCcE--EEEEcccchh
Q 007505 13 PYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-----------ENPVK--LIYCTRTVHE 79 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~-----------~~~~k--vv~~t~T~~~ 79 (601)
+|..|.|.|.-. +-.|+..+..++=-|-||+||||||=+|.++-..... ... + ..|.|||..+
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 566556666433 3344555567888899999999999999887322210 122 5 7899999999
Q ss_pred HHHHHHHHHhhhhhhcccCCCccceEEEeecC
Q 007505 80 MEKTLAELKLLHNYQTRHLGPAAKILAIGLSS 111 (601)
Q Consensus 80 ~~q~~~el~~l~~~~~~~~~~~~~~~~~~l~~ 111 (601)
.-|+..-|..+..+ ..++++.+.|
T Consensus 276 a~QV~~Hl~ai~~~--------t~i~v~si~G 299 (731)
T KOG0347|consen 276 AHQVKQHLKAIAEK--------TQIRVASITG 299 (731)
T ss_pred HHHHHHHHHHhccc--------cCeEEEEeec
Confidence 99998877766432 3456665554
No 143
>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=95.16 E-value=0.12 Score=50.69 Aligned_cols=71 Identities=21% Similarity=0.197 Sum_probs=50.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
.++.+ |+.|.--+-. |.+|. ++|..||-|||+...+||...+. .|+ +|-|.|.+.-|.++..+++..+-
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--LAEMKTGEGKTLIAALPAALNAL---QGK-GVHVVTSNDYLAKRDAEEMRPFY 142 (266)
T ss_dssp TS-----HHHHHHHHH----HHTTS--EEEESTTSHHHHHHHHHHHHHHT---TSS--EEEEESSHHHHHHHHHHHHHHH
T ss_pred cCCcc-cHHHHhhhhh----cccce--eEEecCCCCcHHHHHHHHHHHHH---hcC-CcEEEeccHHHhhccHHHHHHHH
Confidence 44544 7777655533 34443 99999999999998888766665 267 89999999999999888888775
Q ss_pred hh
Q 007505 92 NY 93 (601)
Q Consensus 92 ~~ 93 (601)
++
T Consensus 143 ~~ 144 (266)
T PF07517_consen 143 EF 144 (266)
T ss_dssp HH
T ss_pred HH
Confidence 54
No 144
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=95.16 E-value=0.035 Score=59.74 Aligned_cols=28 Identities=21% Similarity=0.298 Sum_probs=25.8
Q ss_pred HHHHHHHHHHhhcCcEEEEccCCChhHH
Q 007505 23 SYMLELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 23 ~~~~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
++..++..++++++.+||-+.||+|||-
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKST 81 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKST 81 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCccc
Confidence 5678899999999999999999999996
No 145
>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=95.15 E-value=0.061 Score=53.23 Aligned_cols=36 Identities=25% Similarity=0.161 Sum_probs=32.7
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHH
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L 53 (601)
.|..+++.+.+..++..+.++++++|+|||||...-
T Consensus 4 t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~ 39 (262)
T TIGR02640 4 TDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAM 39 (262)
T ss_pred CHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHH
Confidence 588899999999999999999999999999998554
No 146
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=95.08 E-value=0.077 Score=59.24 Aligned_cols=70 Identities=24% Similarity=0.270 Sum_probs=57.5
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.-+.|......+...+...+..++.+.||+|||-.||-.. +-..+ .|+ .+++..|-+++..|++..++..
T Consensus 199 Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i-~~~L~--~Gk-qvLvLVPEI~Ltpq~~~rf~~r 268 (730)
T COG1198 199 LNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAI-AKVLA--QGK-QVLVLVPEIALTPQLLARFKAR 268 (730)
T ss_pred cCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHH-HHHHH--cCC-EEEEEeccccchHHHHHHHHHH
Confidence 4688999998988887445789999999999999999753 33333 378 9999999999999999987763
No 147
>PHA02244 ATPase-like protein
Probab=95.05 E-value=0.069 Score=54.57 Aligned_cols=49 Identities=12% Similarity=0.068 Sum_probs=36.7
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHH
Q 007505 10 VYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYV 60 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~ 60 (601)
+.|||-..-|.+......+.+.+..+.++++.+|||||||. |+-++++.
T Consensus 94 ~d~~~ig~sp~~~~~~~ri~r~l~~~~PVLL~GppGtGKTt--LA~aLA~~ 142 (383)
T PHA02244 94 IDTTKIASNPTFHYETADIAKIVNANIPVFLKGGAGSGKNH--IAEQIAEA 142 (383)
T ss_pred CCCcccCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHH--HHHHHHHH
Confidence 34566544567766777888999999999999999999997 33345544
No 148
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=94.87 E-value=0.071 Score=50.69 Aligned_cols=68 Identities=18% Similarity=0.250 Sum_probs=54.4
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
+||.|.+++.++.+. ..+++.+.+.-+|-|||-. ++|.++++.+. +. +++...=-++|.+|....|+.
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 699999999998864 5678999999999999964 56888887765 56 777776677888888776664
No 149
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=94.85 E-value=0.11 Score=58.01 Aligned_cols=74 Identities=19% Similarity=0.163 Sum_probs=59.2
Q ss_pred eeeCCCCCCCHHHHHHHHHHHHHHhhcC-cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHH
Q 007505 9 TVYFPYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (601)
Q Consensus 9 ~~~fp~~~~r~~Q~~~~~~v~~~l~~~~-~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el 87 (601)
.+.=||+| .-.|-+.+.++.+++.++. ..++-+-||+|||+... .+. .. . ++ +++|.|++..+..|+.+||
T Consensus 3 ~~~~~~~~-~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a--~~~-~~-~--~~-p~Lvi~~n~~~A~ql~~el 74 (655)
T TIGR00631 3 KLHSPFQP-AGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMA--NVI-AQ-V--NR-PTLVIAHNKTLAAQLYNEF 74 (655)
T ss_pred eeccCCCC-ChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHH--HHH-HH-h--CC-CEEEEECCHHHHHHHHHHH
Confidence 34558986 7999999999999998763 67799999999998432 222 22 1 46 8999999999999999999
Q ss_pred Hhh
Q 007505 88 KLL 90 (601)
Q Consensus 88 ~~l 90 (601)
+.+
T Consensus 75 ~~f 77 (655)
T TIGR00631 75 KEF 77 (655)
T ss_pred HHh
Confidence 876
No 150
>PRK08181 transposase; Validated
Probab=94.77 E-value=0.07 Score=52.72 Aligned_cols=53 Identities=19% Similarity=0.194 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~ 75 (601)
+.|........+-+.++.++++-+|+|||||- |+-|+...... .+. +|+|.+.
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 45555544443556778899999999999996 33333322211 255 7777763
No 151
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=94.68 E-value=0.084 Score=51.82 Aligned_cols=51 Identities=20% Similarity=0.255 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 22 ~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
.+-+....+.+.+++++++-+|+|||||. |..|+..... ..|. +|+|.|-+
T Consensus 92 l~~~~~~~~~~~~~~nl~l~G~~G~GKTh--La~Ai~~~l~-~~g~-sv~f~~~~ 142 (254)
T COG1484 92 LEDLASLVEFFERGENLVLLGPPGVGKTH--LAIAIGNELL-KAGI-SVLFITAP 142 (254)
T ss_pred HHHHHHHHHHhccCCcEEEECCCCCcHHH--HHHHHHHHHH-HcCC-eEEEEEHH
Confidence 33334444566778899999999999998 5555555444 2355 77777644
No 152
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.50 E-value=0.09 Score=53.59 Aligned_cols=37 Identities=35% Similarity=0.345 Sum_probs=25.0
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~ 75 (601)
+.++++-+|||||||. |+-|++..... .+. +|+|.|.
T Consensus 183 ~~~Lll~G~~GtGKTh--La~aIa~~l~~-~g~-~V~y~t~ 219 (329)
T PRK06835 183 NENLLFYGNTGTGKTF--LSNCIAKELLD-RGK-SVIYRTA 219 (329)
T ss_pred CCcEEEECCCCCcHHH--HHHHHHHHHHH-CCC-eEEEEEH
Confidence 5789999999999998 33333332222 256 7888765
No 153
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=94.42 E-value=0.24 Score=54.55 Aligned_cols=85 Identities=13% Similarity=0.085 Sum_probs=59.9
Q ss_pred CCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHH--HHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL--SLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 14 ~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L--~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
|...+|.|++=.+=+.+.-.++.-+|+-=-.|-|||+-.+ +++|.+.... -+ +++|.+|+ +.+.|+++|+.++
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 4456788999888888888888889999999999998443 3445444211 24 44444443 4788999999986
Q ss_pred hhhcccCCCccceEEEeecCc
Q 007505 92 NYQTRHLGPAAKILAIGLSSR 112 (601)
Q Consensus 92 ~~~~~~~~~~~~~~~~~l~~r 112 (601)
..++++.++.|-
T Consensus 278 ---------~p~~rv~ilh~t 289 (923)
T KOG0387|consen 278 ---------WPPFRVFILHGT 289 (923)
T ss_pred ---------CcceEEEEEecC
Confidence 345778887764
No 154
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=94.21 E-value=0.19 Score=49.93 Aligned_cols=59 Identities=20% Similarity=0.175 Sum_probs=50.3
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchh
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~ 79 (601)
..|+|+.....+...+.+++..++-|-||.|||-- +.+++..+... |. +|-++||-..-
T Consensus 98 Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEM-if~~i~~al~~--G~-~vciASPRvDV 156 (441)
T COG4098 98 LSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEM-IFQGIEQALNQ--GG-RVCIASPRVDV 156 (441)
T ss_pred cChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhh-hHHHHHHHHhc--CC-eEEEecCcccc
Confidence 46999999999999999999999999999999974 44678887755 67 89999887543
No 155
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=94.15 E-value=0.1 Score=53.65 Aligned_cols=56 Identities=34% Similarity=0.355 Sum_probs=42.0
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccch
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~ 78 (601)
+-++.+.+..+..++..++++++|+|+|||||. |.-+++.... .+...|-+|+...
T Consensus 26 ~~g~~~~~~~~l~a~~~~~~vll~G~PG~gKT~--la~~lA~~l~---~~~~~i~~t~~l~ 81 (329)
T COG0714 26 VVGDEEVIELALLALLAGGHVLLEGPPGVGKTL--LARALARALG---LPFVRIQCTPDLL 81 (329)
T ss_pred eeccHHHHHHHHHHHHcCCCEEEECCCCccHHH--HHHHHHHHhC---CCeEEEecCCCCC
Confidence 345889999999999999999999999999998 5555554443 2335566665543
No 156
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=93.87 E-value=0.11 Score=56.70 Aligned_cols=70 Identities=21% Similarity=0.294 Sum_probs=54.9
Q ss_pred eCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 11 YFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 11 ~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
.|||+- =|-|.+.+ .++++++.++|.|-|-.|||..+=.+ ++-+.. ++. ||||.+|-+++-+|-.+||..
T Consensus 125 ~YPF~L-DpFQ~~aI----~Cidr~eSVLVSAHTSAGKTVVAeYA-IA~sLr--~kQ-RVIYTSPIKALSNQKYREl~~ 194 (1041)
T KOG0948|consen 125 TYPFTL-DPFQSTAI----KCIDRGESVLVSAHTSAGKTVVAEYA-IAMSLR--EKQ-RVIYTSPIKALSNQKYRELLE 194 (1041)
T ss_pred CCCccc-CchHhhhh----hhhcCCceEEEEeecCCCcchHHHHH-HHHHHH--hcC-eEEeeChhhhhcchhHHHHHH
Confidence 478875 58886655 67889999999999999999866553 333333 356 999999999999998887653
No 157
>PRK13531 regulatory ATPase RavA; Provisional
Probab=93.71 E-value=0.057 Score=57.21 Aligned_cols=34 Identities=18% Similarity=0.051 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHH
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~ 52 (601)
.+|.+.++.+..++..++++++++|+|||||...
T Consensus 23 ~gre~vI~lll~aalag~hVLL~GpPGTGKT~LA 56 (498)
T PRK13531 23 YERSHAIRLCLLAALSGESVFLLGPPGIAKSLIA 56 (498)
T ss_pred cCcHHHHHHHHHHHccCCCEEEECCCChhHHHHH
Confidence 5788999999999999999999999999999844
No 158
>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=93.61 E-value=0.29 Score=56.24 Aligned_cols=86 Identities=19% Similarity=0.135 Sum_probs=49.0
Q ss_pred CCHHHHHHHHHHHHHHh----hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc--ccchhHHHHHHHHHhh
Q 007505 17 IYPEQYSYMLELKRALD----AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT--RTVHEMEKTLAELKLL 90 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~----~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t--~T~~~~~q~~~el~~l 90 (601)
.+.-|-.....+...-+ .|-.+|-=|.||.|||+|=.= +.|+.+.+....|..|+- ||.++ |.=.+++.-
T Consensus 409 rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNAR--ImyaLsd~~~g~RfsiALGLRTLTL--QTGda~r~r 484 (1110)
T TIGR02562 409 RFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANAR--AMYALRDDKQGARFAIALGLRSLTL--QTGHALKTR 484 (1110)
T ss_pred CcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHHH--HHHHhCCCCCCceEEEEccccceec--cchHHHHHh
Confidence 35567666544443222 233577789999999997664 445555443334787775 55555 444455542
Q ss_pred hhhhcccCCCccceEEEeecCcc
Q 007505 91 HNYQTRHLGPAAKILAIGLSSRK 113 (601)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~l~~r~ 113 (601)
.. ++.+--+|++||..
T Consensus 485 L~-------L~~ddLAVlIGs~A 500 (1110)
T TIGR02562 485 LN-------LSDDDLAVLIGGTA 500 (1110)
T ss_pred cC-------CCccceEEEECHHH
Confidence 22 33333367777654
No 159
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=93.54 E-value=0.3 Score=54.91 Aligned_cols=75 Identities=20% Similarity=0.210 Sum_probs=60.1
Q ss_pred eeeeCCCCCCCHHHHHHHHHHHHHHhhcC-cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHH
Q 007505 8 VTVYFPYDNIYPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 8 ~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~-~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
..+.=||.+ ++.|......+.+++.++. ..++.+.||+|||+.+. .+ .... ++ +++|.|++..+..|+.++
T Consensus 5 ~~~~~~~~~-~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia--~l--~~~~--~r-~vLIVt~~~~~A~~l~~d 76 (652)
T PRK05298 5 FKLVSPYKP-AGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMA--NV--IARL--QR-PTLVLAHNKTLAAQLYSE 76 (652)
T ss_pred cccccCCCC-ChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHH--HH--HHHh--CC-CEEEEECCHHHHHHHHHH
Confidence 345668986 8999999999999997663 56799999999998643 22 2222 46 899999999999999999
Q ss_pred HHhh
Q 007505 87 LKLL 90 (601)
Q Consensus 87 l~~l 90 (601)
|+.+
T Consensus 77 L~~~ 80 (652)
T PRK05298 77 FKEF 80 (652)
T ss_pred HHHh
Confidence 9875
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=93.31 E-value=0.19 Score=43.96 Aligned_cols=31 Identities=39% Similarity=0.433 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHhh--cCcEEEEccCCChhHH
Q 007505 20 EQYSYMLELKRALDA--KGHCLLEMPTGTGKTI 50 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~--~~~~~~EapTGtGKTl 50 (601)
+|.+....+...+.. +.++++-+|+|+|||.
T Consensus 2 ~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~ 34 (151)
T cd00009 2 GQEEAIEALREALELPPPKNLLLYGPPGTGKTT 34 (151)
T ss_pred chHHHHHHHHHHHhCCCCCeEEEECCCCCCHHH
Confidence 566777888888877 6789999999999996
No 161
>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=93.22 E-value=0.56 Score=40.19 Aligned_cols=55 Identities=18% Similarity=0.091 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHh----h---cCcEE--EEccCCChhHHHHHHHHHH-HHHhCCCCCcEEEEEc
Q 007505 20 EQYSYMLELKRALD----A---KGHCL--LEMPTGTGKTIALLSLITS-YVLSKPENPVKLIYCT 74 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~----~---~~~~~--~EapTGtGKTla~L~~~l~-~~~~~~~~~~kvv~~t 74 (601)
||.-..+.|.+++. + +++++ +-+|||||||...=+-|=. |.....+.-+..+++|
T Consensus 29 GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~ 93 (127)
T PF06309_consen 29 GQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIAT 93 (127)
T ss_pred CcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeeccc
Confidence 45544455555554 3 24555 7999999999843322221 3222222223566666
No 162
>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=92.91 E-value=0.1 Score=48.89 Aligned_cols=34 Identities=35% Similarity=0.286 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHH
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~ 52 (601)
.+|.+.-+++.-|...+.++++.+|.|||||+..
T Consensus 6 ~GQe~aKrAL~iAAaG~h~lLl~GppGtGKTmlA 39 (206)
T PF01078_consen 6 VGQEEAKRALEIAAAGGHHLLLIGPPGTGKTMLA 39 (206)
T ss_dssp SSTHHHHHHHHHHHHCC--EEEES-CCCTHHHHH
T ss_pred cCcHHHHHHHHHHHcCCCCeEEECCCCCCHHHHH
Confidence 6899999999988889999999999999999843
No 163
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=92.79 E-value=0.072 Score=58.34 Aligned_cols=68 Identities=19% Similarity=0.273 Sum_probs=48.1
Q ss_pred HHHHhccccCcchhHHHHH-------hh----ccCcEEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChHHHHHHhc
Q 007505 179 DLRAFGKQQGWCPYFLARH-------MV----QFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNIDNVCIEAL 247 (601)
Q Consensus 179 ~l~~~~~~~~~Cpy~~~r~-------~~----~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~~~~~~~~ 247 (601)
++.++||...+=|||.+.. .+ ..-||+|++|++.-...-...++... +.+++|+||||-|-+...+-|
T Consensus 466 Ef~kwCPsl~Ve~YyGSq~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~-~~n~viyDEgHmLKN~~SeRy 544 (941)
T KOG0389|consen 466 EFAKWCPSLKVEPYYGSQDERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQ-KFNYVIYDEGHMLKNRTSERY 544 (941)
T ss_pred HHHHhCCceEEEeccCcHHHHHHHHHHHhccCCCccEEEEEeecccCChHHHHHHHhc-cccEEEecchhhhhccchHHH
Confidence 5788999999988986422 22 15699999999987432222343443 789999999999977655443
No 164
>PRK06526 transposase; Provisional
Probab=92.74 E-value=0.12 Score=50.77 Aligned_cols=41 Identities=20% Similarity=0.287 Sum_probs=26.3
Q ss_pred HHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 30 ~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
+-+.++.++++-+|+|||||.... ++...... .+. +|.|.|
T Consensus 93 ~fi~~~~nlll~Gp~GtGKThLa~--al~~~a~~-~g~-~v~f~t 133 (254)
T PRK06526 93 DFVTGKENVVFLGPPGTGKTHLAI--GLGIRACQ-AGH-RVLFAT 133 (254)
T ss_pred chhhcCceEEEEeCCCCchHHHHH--HHHHHHHH-CCC-chhhhh
Confidence 345677899999999999997433 33332221 245 676643
No 165
>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=92.70 E-value=0.24 Score=47.45 Aligned_cols=62 Identities=23% Similarity=0.410 Sum_probs=35.5
Q ss_pred CCCCCCCHHH-HHHHHHHHHHHhhc-----CcEEEEccCCChhHHHHHHHHHHHHH-hCCCCCcEEEEEccc
Q 007505 12 FPYDNIYPEQ-YSYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSYVL-SKPENPVKLIYCTRT 76 (601)
Q Consensus 12 fp~~~~r~~Q-~~~~~~v~~~l~~~-----~~~~~EapTGtGKTla~L~~~l~~~~-~~~~~~~kvv~~t~T 76 (601)
|-|+..-++. .+.+....+++.++ ..+++.+|+|+|||- +|.+....+. ..+ +. +|+|.+..
T Consensus 5 ~tFdnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTH-LL~Ai~~~~~~~~~-~~-~v~y~~~~ 73 (219)
T PF00308_consen 5 YTFDNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTH-LLQAIANEAQKQHP-GK-RVVYLSAE 73 (219)
T ss_dssp -SCCCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHH-HHHHHHHHHHHHCT-TS--EEEEEHH
T ss_pred CccccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHH-HHHHHHHHHHhccc-cc-cceeecHH
Confidence 4555433343 45555666666553 258999999999999 3333222222 333 45 89998764
No 166
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=92.69 E-value=0.13 Score=53.39 Aligned_cols=42 Identities=21% Similarity=0.319 Sum_probs=30.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHHHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLI 56 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L~~~ 56 (601)
-|-..+||.|..-..+ .|.+| ..++|--|.|.||||.-+.++
T Consensus 298 KPst~iRpYQEksL~K---MFGNgRARSGiIVLPCGAGKtLVGvTAa 341 (776)
T KOG1123|consen 298 KPSTQIRPYQEKSLSK---MFGNGRARSGIIVLPCGAGKTLVGVTAA 341 (776)
T ss_pred CcccccCchHHHHHHH---HhCCCcccCceEEEecCCCCceeeeeee
Confidence 3555679999876544 45665 368888899999998766543
No 167
>PRK06921 hypothetical protein; Provisional
Probab=92.68 E-value=0.41 Score=47.37 Aligned_cols=38 Identities=24% Similarity=0.251 Sum_probs=24.1
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~ 75 (601)
+..+++-+|||+|||.-.. |++.......+. +|+|.+.
T Consensus 117 ~~~l~l~G~~G~GKThLa~--aia~~l~~~~g~-~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLT--AAANELMRKKGV-PVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHH--HHHHHHhhhcCc-eEEEEEH
Confidence 5679999999999997333 333322111145 7888764
No 168
>PRK12377 putative replication protein; Provisional
Probab=92.62 E-value=0.36 Score=47.07 Aligned_cols=54 Identities=20% Similarity=0.138 Sum_probs=30.7
Q ss_pred CHHHHHHHHHHH---HHHhhc-CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 007505 18 YPEQYSYMLELK---RALDAK-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (601)
Q Consensus 18 r~~Q~~~~~~v~---~~l~~~-~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~ 75 (601)
.++|..++..+. +.+..+ ..+++-+|+|||||. |..|++..... .+. +|+|.|-
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKTh--La~AIa~~l~~-~g~-~v~~i~~ 137 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNH--LAAAIGNRLLA-KGR-SVIVVTV 137 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHH--HHHHHHHHHHH-cCC-CeEEEEH
Confidence 367765544333 333333 579999999999997 33333332222 245 6665543
No 169
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=92.61 E-value=0.3 Score=49.63 Aligned_cols=26 Identities=31% Similarity=0.282 Sum_probs=21.0
Q ss_pred HHHHHHHHhhcCcEEEEccCCChhHH
Q 007505 25 MLELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 25 ~~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
+..+..++..++++++-+|||+|||-
T Consensus 138 ~~~L~~~v~~~~~ilI~G~tGSGKTT 163 (319)
T PRK13894 138 REAIIAAVRAHRNILVIGGTGSGKTT 163 (319)
T ss_pred HHHHHHHHHcCCeEEEECCCCCCHHH
Confidence 34455677788999999999999993
No 170
>PRK08939 primosomal protein DnaI; Reviewed
Probab=92.42 E-value=0.38 Score=48.61 Aligned_cols=51 Identities=16% Similarity=0.105 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHh------hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 20 EQYSYMLELKRALD------AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~------~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
.+.+++..+.+.+. .++.+++-+|+|||||. |+.|++..... .+. ++.|.+
T Consensus 135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKTh--La~Aia~~l~~-~g~-~v~~~~ 191 (306)
T PRK08939 135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSY--LLAAIANELAK-KGV-SSTLLH 191 (306)
T ss_pred HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHH--HHHHHHHHHHH-cCC-CEEEEE
Confidence 56666655555555 24579999999999997 54455443322 244 565553
No 171
>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=92.35 E-value=0.25 Score=51.25 Aligned_cols=51 Identities=25% Similarity=0.279 Sum_probs=36.0
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
..++|+++.|||||+.++--+-... ....+. +++|.+.++++...+-+.+.
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~-~~~~~~-~~~~l~~n~~l~~~l~~~l~ 52 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQ-NSEEGK-KVLYLCGNHPLRNKLREQLA 52 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhh-ccccCC-ceEEEEecchHHHHHHHHHh
Confidence 4689999999999997664332221 112356 89999999999877665544
No 172
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=92.34 E-value=0.6 Score=48.41 Aligned_cols=70 Identities=16% Similarity=0.177 Sum_probs=43.0
Q ss_pred CHHHHHHHHHHHHH-Hhhc--CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 18 YPEQYSYMLELKRA-LDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 18 r~~Q~~~~~~v~~~-l~~~--~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
|..|.+-+..+... +.++ .++++.+|||||||...-.-+=......+... -+.|=+..+....|++.++-
T Consensus 22 Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~ 94 (366)
T COG1474 22 REEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKIL 94 (366)
T ss_pred cHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHH
Confidence 78888766655554 4443 37999999999999976643222111111111 35555777777778777543
No 173
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=92.08 E-value=1.1 Score=51.48 Aligned_cols=73 Identities=10% Similarity=0.154 Sum_probs=45.3
Q ss_pred HHHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecCC--chhHHHHHHHHHHhcCCCCCeE
Q 007505 518 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQD--VVETTLALDNYRKACDCGRGAV 595 (601)
Q Consensus 518 ~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~--~~~~~~~l~~fk~~~~~~~gai 595 (601)
..+...+..+++..+|.+|||+|+....+.+++.+++. +.....|+.-+.+ ..+...+++.|+. |+--|
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 34455566666666899999999999999999998751 2112234433333 2234556666654 44566
Q ss_pred EEEE
Q 007505 596 FFSV 599 (601)
Q Consensus 596 LfaV 599 (601)
++|.
T Consensus 266 lVAT 269 (819)
T TIGR01970 266 VLAT 269 (819)
T ss_pred EEec
Confidence 6653
No 174
>PRK07952 DNA replication protein DnaC; Validated
Probab=92.01 E-value=0.5 Score=45.98 Aligned_cols=52 Identities=13% Similarity=0.148 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhh---c-CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 19 PEQYSYMLELKRALDA---K-GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~---~-~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
++|......+.+...+ + ..+++-+|+|||||.-+. +++..... .+. +|+|.|
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~--aia~~l~~-~g~-~v~~it 134 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAA--AICNELLL-RGK-SVLIIT 134 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHH--HHHHHHHh-cCC-eEEEEE
Confidence 5676655555544432 2 478999999999997333 33332222 245 777774
No 175
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=91.99 E-value=0.79 Score=52.70 Aligned_cols=63 Identities=19% Similarity=0.147 Sum_probs=41.6
Q ss_pred EEcCeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccc
Q 007505 4 KLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (601)
Q Consensus 4 ~i~~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~ 77 (601)
...|-++.+...+ |+.|.-= .+ +|.+| -++|..||-||||+.-+|+...|.. |+ .|-+.|-+-
T Consensus 158 ~~~g~~~~W~m~~-yDVQliG--gi--vLh~G--~IAEM~TGEGKTLvAtlp~yLnAL~---Gk-gVHvVTVND 220 (1112)
T PRK12901 158 DAGGNEITWDMVH-YDVQLIG--GV--VLHQG--KIAEMATGEGKTLVATLPVYLNALT---GN-GVHVVTVND 220 (1112)
T ss_pred ccccccccCCCcc-cchHHhh--hh--hhcCC--ceeeecCCCCchhHHHHHHHHHHHc---CC-CcEEEEech
Confidence 3456777777765 7888432 22 23344 5789999999999988886655552 45 566665543
No 176
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=91.97 E-value=0.12 Score=52.65 Aligned_cols=40 Identities=25% Similarity=0.281 Sum_probs=31.8
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHH-hhc-CcEEEEccCCChhHH
Q 007505 10 VYFPYDNIYPEQYSYMLELKRAL-DAK-GHCLLEMPTGTGKTI 50 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l-~~~-~~~~~EapTGtGKTl 50 (601)
..|||.. -.+|.++...+.-++ ..+ +++++++|+|||||.
T Consensus 3 ~~~~f~~-i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~ 44 (334)
T PRK13407 3 KPFPFSA-IVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKST 44 (334)
T ss_pred CCCCHHH-hCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHH
Confidence 3577766 479999998887644 344 799999999999996
No 177
>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=91.85 E-value=0.19 Score=51.48 Aligned_cols=39 Identities=31% Similarity=0.376 Sum_probs=33.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhh--cCcEEEEccCCChhHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIA 51 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~--~~~~~~EapTGtGKTla 51 (601)
|||... -+|.++...+.-++-. .+++++++|+|+|||..
T Consensus 1 ~pf~~i-vgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl 41 (337)
T TIGR02030 1 FPFTAI-VGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTA 41 (337)
T ss_pred CCcccc-ccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHH
Confidence 899885 8999999998766655 57899999999999983
No 178
>PRK09183 transposase/IS protein; Provisional
Probab=91.84 E-value=0.24 Score=48.90 Aligned_cols=39 Identities=23% Similarity=0.337 Sum_probs=26.0
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
+..+.++++-+|+|+|||.-.. ++..... ..+. +|.|.+
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa~--al~~~a~-~~G~-~v~~~~ 137 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLAI--ALGYEAV-RAGI-KVRFTT 137 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHHH--HHHHHHH-HcCC-eEEEEe
Confidence 6778899999999999997333 3332211 1255 777665
No 179
>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=91.71 E-value=0.39 Score=50.04 Aligned_cols=55 Identities=24% Similarity=0.328 Sum_probs=38.7
Q ss_pred CHHHHHHHHHHHHHHhh--cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 18 YPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~--~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
-+.|++....|.+++.. +.++++.+|-|||||..+-+ ...+.+. .++ +++++.+|
T Consensus 3 n~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~-i~~~~~~--~~~-~~~~~a~t 59 (364)
T PF05970_consen 3 NEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKA-IIDYLRS--RGK-KVLVTAPT 59 (364)
T ss_pred CHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHH-HHHHhcc--ccc-eEEEecch
Confidence 47899999999888854 56899999999999985543 1233332 234 56666555
No 180
>PRK14873 primosome assembly protein PriA; Provisional
Probab=91.67 E-value=1.2 Score=49.91 Aligned_cols=48 Identities=8% Similarity=0.093 Sum_probs=37.7
Q ss_pred EEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 38 ~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
.+..+.+|+|||-.||-.+-..+. .|+ .++|..+.+++..|+++.|+.
T Consensus 163 ~i~~~~~GSGKTevyl~~i~~~l~---~Gk-~vLvLvPEi~lt~q~~~rl~~ 210 (665)
T PRK14873 163 AVWQALPGEDWARRLAAAAAATLR---AGR-GALVVVPDQRDVDRLEAALRA 210 (665)
T ss_pred HHhhcCCCCcHHHHHHHHHHHHHH---cCC-eEEEEecchhhHHHHHHHHHH
Confidence 455565799999999975433332 378 999999999999999998775
No 181
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=91.51 E-value=0.28 Score=48.27 Aligned_cols=37 Identities=38% Similarity=0.414 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHHHHH
Q 007505 19 PEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSL 55 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L~~ 55 (601)
-+|......+..++..+ -+.++.+|.|||||-..++.
T Consensus 39 ~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalaf 77 (346)
T KOG0989|consen 39 AGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAF 77 (346)
T ss_pred cchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHH
Confidence 47888888888888774 48999999999999888753
No 182
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=91.48 E-value=1.3 Score=51.05 Aligned_cols=72 Identities=11% Similarity=0.143 Sum_probs=44.8
Q ss_pred HHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecCCc--hhHHHHHHHHHHhcCCCCCeEE
Q 007505 519 NYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDV--VETTLALDNYRKACDCGRGAVF 596 (601)
Q Consensus 519 ~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~--~~~~~~l~~fk~~~~~~~gaiL 596 (601)
.+...|..+++..+|.+|||+|+....+.+++.+.+. +...-.|+.-+.+. .+....++.|+. |+..|+
T Consensus 199 ~v~~~l~~~l~~~~g~iLVFlpg~~ei~~l~~~L~~~-----~~~~~~v~~Lhg~l~~~eq~~~~~~~~~----G~rkVl 269 (812)
T PRK11664 199 AVARATAELLRQESGSLLLFLPGVGEIQRVQEQLASR-----VASDVLLCPLYGALSLAEQQKAILPAPA----GRRKVV 269 (812)
T ss_pred HHHHHHHHHHHhCCCCEEEEcCCHHHHHHHHHHHHHh-----ccCCceEEEeeCCCCHHHHHHHhccccC----CCeEEE
Confidence 4455666666666799999999999999999999751 21122344333332 233445555543 556777
Q ss_pred EEE
Q 007505 597 FSV 599 (601)
Q Consensus 597 faV 599 (601)
+|.
T Consensus 270 vAT 272 (812)
T PRK11664 270 LAT 272 (812)
T ss_pred Eec
Confidence 764
No 183
>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=91.31 E-value=0.39 Score=46.26 Aligned_cols=52 Identities=21% Similarity=0.298 Sum_probs=31.3
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
.+...++++|+|||||.-.+--+...+... +. +++|.|-..+ -+++++.++.
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 457899999999999985554444444431 35 6666653322 2566665554
No 184
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=90.70 E-value=1.5 Score=45.88 Aligned_cols=34 Identities=35% Similarity=0.426 Sum_probs=27.2
Q ss_pred HHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHH
Q 007505 26 LELKRALDAKGHCLLEMPTGTGKTIALLSLITSY 59 (601)
Q Consensus 26 ~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~ 59 (601)
+-|.-||+.|+-+++---.|-|||+-.|+-|-.|
T Consensus 205 eGv~faL~RgGR~llADeMGLGKTiQAlaIA~yy 238 (689)
T KOG1000|consen 205 EGVIFALERGGRILLADEMGLGKTIQALAIARYY 238 (689)
T ss_pred hhHHHHHhcCCeEEEecccccchHHHHHHHHHHH
Confidence 3456678889999999999999999888755444
No 185
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=90.66 E-value=1.5 Score=45.85 Aligned_cols=68 Identities=21% Similarity=0.196 Sum_probs=41.9
Q ss_pred CHHHHHHHHHHHHHHh-hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 18 YPEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~-~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
-|-|++...=...-=. .-.-+++--..|.|||.-.+.-.|+ ..++. +..+..|+.++. |+.+|+.+..
T Consensus 186 L~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLlla----e~~ra-~tLVvaP~VAlm-QW~nEI~~~T 254 (791)
T KOG1002|consen 186 LPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLA----EVDRA-PTLVVAPTVALM-QWKNEIERHT 254 (791)
T ss_pred hhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHh----ccccC-CeeEEccHHHHH-HHHHHHHHhc
Confidence 3567766543221100 0123566667899999876643332 24456 788888998876 8889988753
No 186
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=90.05 E-value=0.76 Score=47.04 Aligned_cols=45 Identities=24% Similarity=0.193 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEE
Q 007505 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIY 72 (601)
Q Consensus 23 ~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~ 72 (601)
+++.-+..++..++++++-+|||+|||- ++-+|. ...+... ||+.
T Consensus 148 ~~~~~L~~~v~~~~nili~G~tgSGKTT--ll~aL~--~~ip~~~-ri~t 192 (332)
T PRK13900 148 KIKEFLEHAVISKKNIIISGGTSTGKTT--FTNAAL--REIPAIE-RLIT 192 (332)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHH--HHHHHH--hhCCCCC-eEEE
Confidence 4555666677889999999999999997 333332 2224345 6654
No 187
>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=89.95 E-value=0.75 Score=42.62 Aligned_cols=46 Identities=24% Similarity=0.265 Sum_probs=28.5
Q ss_pred EEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 38 CLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 38 ~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.+|.+|+|||||.-.+--+...++ .++ +++|.|-. ...+++++.+.
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~---~g~-~v~~~s~e-~~~~~~~~~~~ 47 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLA---RGE-PGLYVTLE-ESPEELIENAE 47 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHH---CCC-cEEEEECC-CCHHHHHHHHH
Confidence 689999999999966544444443 256 67666533 23445555443
No 188
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=89.69 E-value=1.4 Score=50.25 Aligned_cols=109 Identities=26% Similarity=0.323 Sum_probs=69.6
Q ss_pred cCEEEEecCCCCCcc----chhhhcCCCCcccccceeeecCCceeeeeeecCCCCCcceeeeccCCChHHHHHHHHHHHH
Q 007505 451 FQSVVITSGTLSPID----LYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVE 526 (601)
Q Consensus 451 ~~svIltSgTLsp~~----~f~~~Lg~~~~~~~~~~~~~~~~~~~~~~i~~g~~~~~l~s~f~~r~~~~~~~~l~~~i~~ 526 (601)
...+|++|||.+|-+ -|..+|||+.- +....+ + | +.-.|... .....+.+
T Consensus 276 ~g~LvvsSATg~~rg~R~~LfReLlgFevG---~~~~~L-R-N--------------IvD~y~~~-------~~~e~~~e 329 (1187)
T COG1110 276 LGILVVSSATGKPRGSRLKLFRELLGFEVG---SGGEGL-R-N--------------IVDIYVES-------ESLEKVVE 329 (1187)
T ss_pred CceEEEeeccCCCCCchHHHHHHHhCCccC---ccchhh-h-h--------------eeeeeccC-------ccHHHHHH
Confidence 456799999999987 47778898641 100000 0 1 11122211 22355667
Q ss_pred hhcccCCeEEEEecC---HHHHHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEEc
Q 007505 527 MVSIVPDGIVCFFVS---YSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSVA 600 (601)
Q Consensus 527 ~~~~~~gg~LVfFpS---y~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV~ 600 (601)
+++..+.|.|||.|. -...+.++++++++|+-..+ +.- +....++.|.+ |+=.+|.||+
T Consensus 330 lvk~lG~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a~~-----~~a------~~~~~le~F~~----GeidvLVGvA 391 (1187)
T COG1110 330 LVKKLGDGGLIFVPIDYGREKAEELAEYLRSHGINAEL-----IHA------EKEEALEDFEE----GEVDVLVGVA 391 (1187)
T ss_pred HHHHhCCCeEEEEEcHHhHHHHHHHHHHHHhcCceEEE-----eec------cchhhhhhhcc----CceeEEEEec
Confidence 778888899999999 88999999999988753222 222 12456888876 5667777774
No 189
>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=89.69 E-value=0.75 Score=52.56 Aligned_cols=60 Identities=17% Similarity=0.128 Sum_probs=41.8
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHH
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~ 83 (601)
..++|++.+..+. ..++..+|.+|+|||||..+= ++...+... +. +|+.+.+|......+
T Consensus 353 Ls~~Q~~Av~~i~---~s~~~~il~G~aGTGKTtll~-~i~~~~~~~--g~-~V~~~ApTg~Aa~~L 412 (744)
T TIGR02768 353 LSEEQYEAVRHVT---GSGDIAVVVGRAGTGKSTMLK-AAREAWEAA--GY-RVIGAALSGKAAEGL 412 (744)
T ss_pred CCHHHHHHHHHHh---cCCCEEEEEecCCCCHHHHHH-HHHHHHHhC--CC-eEEEEeCcHHHHHHH
Confidence 3699999877654 335789999999999996432 233333332 56 899999997665443
No 190
>PRK08116 hypothetical protein; Validated
Probab=89.68 E-value=1.1 Score=44.41 Aligned_cols=34 Identities=29% Similarity=0.302 Sum_probs=22.3
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
.+++.+|+|||||. |..+++...... +. +++|.+
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 444444332222 45 677665
No 191
>PRK05973 replicative DNA helicase; Provisional
Probab=89.61 E-value=0.42 Score=46.18 Aligned_cols=56 Identities=23% Similarity=0.216 Sum_probs=35.9
Q ss_pred HHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHH
Q 007505 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAEL 87 (601)
Q Consensus 27 ~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el 87 (601)
.+...+..|...+|-|++|+|||.-.+--+...+. .|+ +++|-|--.+ -+|+++.+
T Consensus 56 ~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~---~Ge-~vlyfSlEes-~~~i~~R~ 111 (237)
T PRK05973 56 ELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMK---SGR-TGVFFTLEYT-EQDVRDRL 111 (237)
T ss_pred HhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh---cCC-eEEEEEEeCC-HHHHHHHH
Confidence 44456667788999999999999966654444333 256 7766654333 24555543
No 192
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=89.55 E-value=1.3 Score=50.58 Aligned_cols=83 Identities=12% Similarity=0.185 Sum_probs=55.3
Q ss_pred EEEEecCCCCCccchhhhcCCCCcccccceeeecCCceeeeeeecCCCCCcceeeeccCCChH--HHHHHHHHHHHhhcc
Q 007505 453 SVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPG--VARNYGKLLVEMVSI 530 (601)
Q Consensus 453 svIltSgTLsp~~~f~~~Lg~~~~~~~~~~~~~~~~~~~~~~i~~g~~~~~l~s~f~~r~~~~--~~~~l~~~i~~~~~~ 530 (601)
.+|+|||||.+ +-|+..++--++ +...-...+|.-.|...-..+ ..+.+...+......
T Consensus 197 KiIimSATld~-~rfs~~f~~apv------------------i~i~GR~fPVei~Y~~~~~~d~~l~~ai~~~v~~~~~~ 257 (845)
T COG1643 197 KLIIMSATLDA-ERFSAYFGNAPV------------------IEIEGRTYPVEIRYLPEAEADYILLDAIVAAVDIHLRE 257 (845)
T ss_pred eEEEEecccCH-HHHHHHcCCCCE------------------EEecCCccceEEEecCCCCcchhHHHHHHHHHHHhccC
Confidence 35999999977 456666652221 111123345666663333222 345666777777777
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHh
Q 007505 531 VPDGIVCFFVSYSYMDEIIATWND 554 (601)
Q Consensus 531 ~~gg~LVfFpSy~~l~~v~~~~~~ 554 (601)
-+|.+|||+|.=...+++.+.+.+
T Consensus 258 ~~GdILvFLpG~~EI~~~~~~L~~ 281 (845)
T COG1643 258 GSGSILVFLPGQREIERTAEWLEK 281 (845)
T ss_pred CCCCEEEECCcHHHHHHHHHHHHh
Confidence 789999999999999999999875
No 193
>PRK05642 DNA replication initiation factor; Validated
Probab=89.54 E-value=0.76 Score=44.55 Aligned_cols=37 Identities=14% Similarity=0.151 Sum_probs=23.8
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
.++++-+|+|+|||- |+-|+...... .+. +++|.+..
T Consensus 46 ~~l~l~G~~G~GKTH--Ll~a~~~~~~~-~~~-~v~y~~~~ 82 (234)
T PRK05642 46 SLIYLWGKDGVGRSH--LLQAACLRFEQ-RGE-PAVYLPLA 82 (234)
T ss_pred CeEEEECCCCCCHHH--HHHHHHHHHHh-CCC-cEEEeeHH
Confidence 468999999999997 33333332222 245 78887653
No 194
>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=89.51 E-value=0.57 Score=52.43 Aligned_cols=51 Identities=20% Similarity=0.335 Sum_probs=39.6
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhC--CCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~--~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
.++..+|-||.|||||-+.+ .|.+.. ..+. +|++.|...++.+++...++.
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi----~wLk~~l~~~~~-~VLvVShRrSL~~sL~~rf~~ 100 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALI----RWLKDALKNPDK-SVLVVSHRRSLTKSLAERFKK 100 (824)
T ss_pred CCCeEEEECCCCCCcHHHHH----HHHHHhccCCCC-eEEEEEhHHHHHHHHHHHHhh
Confidence 45789999999999998776 344433 2246 899999999999999886654
No 195
>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=89.48 E-value=0.47 Score=40.71 Aligned_cols=52 Identities=17% Similarity=0.050 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhH
Q 007505 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (601)
Q Consensus 22 ~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~ 80 (601)
+++++.+.+.+..+..++++++-|+|||- ++-++.-+ . +. +-.|.+||=+++
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--FVRGLARA--L--GI-DEEVTSPTFSLV 53 (123)
T ss_dssp HHHHHHHHHHHSS-EEEEEEESTTSSHHH--HHHHHHHH--T--T---S----TTTTSE
T ss_pred HHHHHHHHHhCCCCCEEEEECCCCCCHHH--HHHHHHHH--c--CC-CCCcCCCCeEEE
Confidence 46788899999999999999999999997 54444333 3 23 337788886653
No 196
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=89.40 E-value=0.92 Score=52.96 Aligned_cols=60 Identities=15% Similarity=0.072 Sum_probs=42.9
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHH
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~ 83 (601)
..++|++.+..+ +..+...+|.++.|||||.. |-++...+... +. +|+.+.+|......+
T Consensus 347 Ls~eQr~Av~~i---l~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~~--G~-~V~~~ApTGkAA~~L 406 (988)
T PRK13889 347 LSGEQADALAHV---TDGRDLGVVVGYAGTGKSAM-LGVAREAWEAA--GY-EVRGAALSGIAAENL 406 (988)
T ss_pred CCHHHHHHHHHH---hcCCCeEEEEeCCCCCHHHH-HHHHHHHHHHc--CC-eEEEecCcHHHHHHH
Confidence 468999876654 34456899999999999985 33344444433 56 899999998766544
No 197
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=89.36 E-value=0.83 Score=51.68 Aligned_cols=65 Identities=17% Similarity=0.178 Sum_probs=45.7
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC-C-CCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~-~-~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
.|.|++.+.. ..++++|-||.|||||..... -++|+... + ... +|++.|=|..-.+.+-+-+..+
T Consensus 4 n~~Q~~av~~------~~g~~lV~AgpGSGKT~vL~~-Ria~Li~~~~v~p~-~IL~lTFT~kAA~em~~Rl~~~ 70 (672)
T PRK10919 4 NPGQQQAVEF------VTGPCLVLAGAGSGKTRVITN-KIAHLIRGCGYQAR-HIAAVTFTNKAAREMKERVAQT 70 (672)
T ss_pred CHHHHHHHhC------CCCCEEEEecCCCCHHHHHHH-HHHHHHHhcCCCHH-HeeeEechHHHHHHHHHHHHHH
Confidence 5788776543 357899999999999987554 45565532 2 234 8999999998877766655543
No 198
>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=89.30 E-value=1.2 Score=53.23 Aligned_cols=41 Identities=10% Similarity=0.078 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhc
Q 007505 515 GVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDS 555 (601)
Q Consensus 515 ~~~~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~ 555 (601)
++...+.+.+..++...+|.+|||+|+....+.+.+.+++.
T Consensus 262 ~~~~~i~~~I~~l~~~~~GdILVFLpg~~EI~~l~~~L~~~ 302 (1283)
T TIGR01967 262 DQLEAILDAVDELFAEGPGDILIFLPGEREIRDAAEILRKR 302 (1283)
T ss_pred hHHHHHHHHHHHHHhhCCCCEEEeCCCHHHHHHHHHHHHhc
Confidence 34456667777777767899999999999999999999754
No 199
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.05 E-value=0.34 Score=53.27 Aligned_cols=35 Identities=37% Similarity=0.358 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
+|....+.+..++..++ | .++.+|.|||||....+
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 58999999999987664
No 200
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=88.89 E-value=1.5 Score=52.46 Aligned_cols=41 Identities=12% Similarity=0.067 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhc
Q 007505 515 GVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDS 555 (601)
Q Consensus 515 ~~~~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~ 555 (601)
++...+...+..++...+|.+|||+|+....+.+.+.+++.
T Consensus 269 d~l~~ll~~V~~l~~~~~GdILVFLpg~~EIe~lae~L~~~ 309 (1294)
T PRK11131 269 DQLQAIFDAVDELGREGPGDILIFMSGEREIRDTADALNKL 309 (1294)
T ss_pred HHHHHHHHHHHHHhcCCCCCEEEEcCCHHHHHHHHHHHHhc
Confidence 34455555555666666788999999999999999999764
No 201
>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=88.84 E-value=1.4 Score=40.18 Aligned_cols=57 Identities=21% Similarity=0.205 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccch
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~ 78 (601)
+.=+++++.+.++.....+++|++++||||++ +.-++.-.....+++ =|.|-+++.+
T Consensus 6 ~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~--lA~~IH~~s~r~~~p-fi~vnc~~~~ 62 (168)
T PF00158_consen 6 PAMKRLREQAKRAASSDLPVLITGETGTGKEL--LARAIHNNSPRKNGP-FISVNCAALP 62 (168)
T ss_dssp HHHHHHHHHHHHHTTSTS-EEEECSTTSSHHH--HHHHHHHCSTTTTS--EEEEETTTS-
T ss_pred HHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHH--HHHHHHHhhhcccCC-eEEEehhhhh
Confidence 34455666666666667899999999999997 322333222112233 4555555553
No 202
>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=88.79 E-value=1.2 Score=49.73 Aligned_cols=55 Identities=20% Similarity=0.222 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCC-cEEEEEcccc
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENP-VKLIYCTRTV 77 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~-~kvv~~t~T~ 77 (601)
-+|.++...+..++..+.++++-+|+|||||...- +++... +... .+++|..+..
T Consensus 21 iG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~la~--~la~~l--~~~~~~~~~~~~n~~ 76 (608)
T TIGR00764 21 IGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSMLAK--AMAELL--PDEELEDILVYPNPE 76 (608)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEECCCCCCHHHHHH--HHHHHc--CchhheeEEEEeCCC
Confidence 68999999999999999999999999999997433 333222 2221 2566665553
No 203
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.73 E-value=0.47 Score=50.07 Aligned_cols=35 Identities=23% Similarity=0.227 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
+|......+..++.+++ | .++.+|.|+|||..+.+
T Consensus 20 Gq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~ 57 (397)
T PRK14955 20 AQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARV 57 (397)
T ss_pred ChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHH
Confidence 89999999999999874 4 88999999999986664
No 204
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=88.73 E-value=0.63 Score=48.57 Aligned_cols=33 Identities=30% Similarity=0.210 Sum_probs=28.3
Q ss_pred CHHHHHHHHHHHHHHhh----------------cCcEEEEccCCChhHH
Q 007505 18 YPEQYSYMLELKRALDA----------------KGHCLLEMPTGTGKTI 50 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~----------------~~~~~~EapTGtGKTl 50 (601)
-.+|.+..+.+..++.+ .+++++.+|||+|||.
T Consensus 17 IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~ 65 (443)
T PRK05201 17 IIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTE 65 (443)
T ss_pred cCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHH
Confidence 36899999999988865 3689999999999995
No 205
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=88.65 E-value=0.92 Score=52.19 Aligned_cols=46 Identities=24% Similarity=0.151 Sum_probs=31.6
Q ss_pred eeeCCCC-----CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHH
Q 007505 9 TVYFPYD-----NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 9 ~~~fp~~-----~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~ 54 (601)
.|.||-. ..|..|+.=..=++...+++-++|+---.|-|||.-.+.
T Consensus 603 qVktpvPsLLrGqLReYQkiGLdWLatLYeknlNGILADEmGLGKTIQtIS 653 (1958)
T KOG0391|consen 603 QVKTPVPSLLRGQLREYQKIGLDWLATLYEKNLNGILADEMGLGKTIQTIS 653 (1958)
T ss_pred eeccCchHHHHHHHHHHHHhhHHHHHHHHHhcccceehhhhcccchhHHHH
Confidence 4556643 345666665555666666777899988999999985543
No 206
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=88.61 E-value=1.1 Score=45.41 Aligned_cols=25 Identities=28% Similarity=0.437 Sum_probs=20.7
Q ss_pred HHHHHHHhhcCcEEEEccCCChhHH
Q 007505 26 LELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 26 ~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
..+..++..++++++-+|||+|||-
T Consensus 135 ~~L~~~v~~~~nilI~G~tGSGKTT 159 (323)
T PRK13833 135 SVIRSAIDSRLNIVISGGTGSGKTT 159 (323)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHHH
Confidence 3455677778899999999999997
No 207
>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=88.60 E-value=1.9 Score=47.71 Aligned_cols=65 Identities=22% Similarity=0.255 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCC-CCcEEEEEcccchhHHHHHHHH
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPE-NPVKLIYCTRTVHEMEKTLAEL 87 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~-~~~kvv~~t~T~~~~~q~~~el 87 (601)
+.|++. +..++. +...+|.+|.|||||.....-...+....+. ++.+|.++.+|+.-...+-+-+
T Consensus 148 ~~Qk~A---~~~al~-~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~ 213 (586)
T TIGR01447 148 NWQKVA---VALALK-SNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESL 213 (586)
T ss_pred HHHHHH---HHHHhh-CCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHH
Confidence 566544 334444 6799999999999998543221112222211 1238999999987776655533
No 208
>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=88.60 E-value=0.49 Score=46.06 Aligned_cols=45 Identities=11% Similarity=0.199 Sum_probs=31.4
Q ss_pred HHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 29 KRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 29 ~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
...+..|...+|.||||+|||.-.+--+..++... +. +++|.|--
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 34566778999999999999986665455555542 45 67666643
No 209
>PHA00729 NTP-binding motif containing protein
Probab=88.56 E-value=0.58 Score=44.67 Aligned_cols=27 Identities=22% Similarity=0.343 Sum_probs=22.0
Q ss_pred HHHHHHHHHhhcC--cEEEEccCCChhHH
Q 007505 24 YMLELKRALDAKG--HCLLEMPTGTGKTI 50 (601)
Q Consensus 24 ~~~~v~~~l~~~~--~~~~EapTGtGKTl 50 (601)
++..+.+.+.+++ ++++.+++|||||-
T Consensus 4 ~~k~~~~~l~~~~f~nIlItG~pGvGKT~ 32 (226)
T PHA00729 4 LAKKIVSAYNNNGFVSAVIFGKQGSGKTT 32 (226)
T ss_pred HHHHHHHHHhcCCeEEEEEECCCCCCHHH
Confidence 5667777777664 79999999999996
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=88.49 E-value=0.56 Score=40.48 Aligned_cols=19 Identities=32% Similarity=0.340 Sum_probs=16.2
Q ss_pred cCcEEEEccCCChhHHHHH
Q 007505 35 KGHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L 53 (601)
+.++++.+|+|||||....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~ 20 (148)
T smart00382 2 GEVILIVGPPGSGKTTLAR 20 (148)
T ss_pred CCEEEEECCCCCcHHHHHH
Confidence 4679999999999998554
No 211
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=88.46 E-value=0.43 Score=50.00 Aligned_cols=32 Identities=34% Similarity=0.299 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHH
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
.+|.+.=+++.-|-..+.++++.+|+|||||+
T Consensus 182 ~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTm 213 (490)
T COG0606 182 KGQEQAKRALEIAAAGGHNLLLVGPPGTGKTM 213 (490)
T ss_pred cCcHHHHHHHHHHHhcCCcEEEecCCCCchHH
Confidence 57888888888888899999999999999998
No 212
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=88.36 E-value=1.4 Score=42.50 Aligned_cols=53 Identities=19% Similarity=0.224 Sum_probs=33.5
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
+..+...++.+|+|+|||.-.+-.+...+. .+. +++|.+ +..-.+++++.+..
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 456789999999999999864332222222 245 777777 43344566665543
No 213
>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=88.30 E-value=0.87 Score=43.71 Aligned_cols=33 Identities=18% Similarity=0.210 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHhh--cCcEEEEccCCChhHHHH
Q 007505 20 EQYSYMLELKRALDA--KGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~--~~~~~~EapTGtGKTla~ 52 (601)
.+.+.+..+.+.+.. +.++++.+|+|||||...
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la 55 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLL 55 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHH
Confidence 456666666665432 458999999999999743
No 214
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=88.26 E-value=1.2 Score=51.01 Aligned_cols=67 Identities=16% Similarity=0.200 Sum_probs=47.5
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC-C-CCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~-~-~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
...|.|++.+.. ..++++|-||.|||||..... =++|+... . ... +|++.|=|..-...+-+.+..+
T Consensus 9 ~Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~vl~~-Ria~Li~~~~v~p~-~IL~lTFT~kAA~Em~~Rl~~~ 77 (721)
T PRK11773 9 SLNDKQREAVAA------PLGNMLVLAGAGSGKTRVLVH-RIAWLMQVENASPY-SIMAVTFTNKAAAEMRHRIEQL 77 (721)
T ss_pred hcCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHH-HHHHHHHcCCCChh-HeEeeeccHHHHHHHHHHHHHH
Confidence 357889876642 457999999999999987654 34555532 1 124 8999999998877766655554
No 215
>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=88.26 E-value=0.83 Score=46.19 Aligned_cols=31 Identities=13% Similarity=0.157 Sum_probs=25.3
Q ss_pred HHHHHHHHHHhhcCcEEEEccCCChhHHHHH
Q 007505 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 23 ~~~~~v~~~l~~~~~~~~EapTGtGKTla~L 53 (601)
+....|..++..++++++++|+|||||...-
T Consensus 52 ~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~ 82 (327)
T TIGR01650 52 ATTKAICAGFAYDRRVMVQGYHGTGKSTHIE 82 (327)
T ss_pred HHHHHHHHHHhcCCcEEEEeCCCChHHHHHH
Confidence 3455688888889999999999999998433
No 216
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=88.24 E-value=1.9 Score=47.92 Aligned_cols=74 Identities=16% Similarity=0.114 Sum_probs=44.0
Q ss_pred eCCCCC-CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 11 YFPYDN-IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 11 ~fp~~~-~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.||... .-+.|++.+.. ++ .+...+|-+|+|||||.....-.-.+....+....+|.++++|..-...+-+.+.
T Consensus 146 lf~~~~~~~d~Qk~Av~~---a~-~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~ 220 (615)
T PRK10875 146 LFGPVTDEVDWQKVAAAV---AL-TRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLG 220 (615)
T ss_pred hcCcCCCCCHHHHHHHHH---Hh-cCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence 455431 13678765533 33 3578999999999999753221111112111112389999999987777666443
No 217
>PRK08727 hypothetical protein; Validated
Probab=88.18 E-value=1.1 Score=43.53 Aligned_cols=36 Identities=28% Similarity=0.301 Sum_probs=22.6
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~ 75 (601)
..+++-+|+|||||- |.-|+...... .+. +++|.+-
T Consensus 42 ~~l~l~G~~G~GKTh--L~~a~~~~~~~-~~~-~~~y~~~ 77 (233)
T PRK08727 42 DWLYLSGPAGTGKTH--LALALCAAAEQ-AGR-SSAYLPL 77 (233)
T ss_pred CeEEEECCCCCCHHH--HHHHHHHHHHH-cCC-cEEEEeH
Confidence 369999999999996 22233322222 245 7777763
No 218
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=88.07 E-value=1.3 Score=44.68 Aligned_cols=28 Identities=32% Similarity=0.264 Sum_probs=22.5
Q ss_pred HHHHHHHHHhhcCcEEEEccCCChhHHH
Q 007505 24 YMLELKRALDAKGHCLLEMPTGTGKTIA 51 (601)
Q Consensus 24 ~~~~v~~~l~~~~~~~~EapTGtGKTla 51 (601)
++..+..++..++++++-+|||+|||-.
T Consensus 121 ~~~~L~~~v~~~~~ilI~G~tGSGKTTl 148 (299)
T TIGR02782 121 QRDVLREAVLARKNILVVGGTGSGKTTL 148 (299)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHHH
Confidence 4455666777788999999999999973
No 219
>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=88.04 E-value=0.74 Score=40.12 Aligned_cols=53 Identities=21% Similarity=0.076 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHH
Q 007505 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEME 81 (601)
Q Consensus 22 ~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~ 81 (601)
.++++.+.+.+..+..+++.++.|+|||- |+-++.-.. +. .-.|.+||-++++
T Consensus 9 ~~l~~~l~~~l~~~~~i~l~G~lGaGKTt--l~~~l~~~l----g~-~~~v~SPTf~lv~ 61 (133)
T TIGR00150 9 DKFGKAFAKPLDFGTVVLLKGDLGAGKTT--LVQGLLQGL----GI-QGNVTSPTFTLVN 61 (133)
T ss_pred HHHHHHHHHhCCCCCEEEEEcCCCCCHHH--HHHHHHHHc----CC-CCcccCCCeeeee
Confidence 35677788888888999999999999997 443343222 22 3357788866543
No 220
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=87.99 E-value=0.59 Score=48.02 Aligned_cols=34 Identities=38% Similarity=0.528 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHhhcC--cEEEEccCCChhHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALL 53 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~~~EapTGtGKTla~L 53 (601)
+|.+..+.+..++..+. ++++.+|+|||||....
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~ 54 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVR 54 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHH
Confidence 56777888888888877 89999999999997554
No 221
>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=87.96 E-value=1 Score=43.76 Aligned_cols=53 Identities=17% Similarity=0.137 Sum_probs=32.3
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
+..+...+|.+|+|+|||.-.+--+...+. .+. +++|.|- ....+|+++.+..
T Consensus 18 ~~~gs~~lI~G~pGsGKT~la~~~l~~~~~---~ge-~~lyvs~-ee~~~~i~~~~~~ 70 (237)
T TIGR03877 18 IPERNVVLLSGGPGTGKSIFSQQFLWNGLQ---MGE-PGIYVAL-EEHPVQVRRNMAQ 70 (237)
T ss_pred CcCCeEEEEEcCCCCCHHHHHHHHHHHHHH---cCC-cEEEEEe-eCCHHHHHHHHHH
Confidence 445678999999999999844432222232 256 6766662 3344466665443
No 222
>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=87.85 E-value=1.9 Score=49.07 Aligned_cols=65 Identities=15% Similarity=0.021 Sum_probs=43.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~ 83 (601)
+++. ..+.|++.+..+. .++..++.+|.|||||...-. .+..+....... +|+++.+|..-..++
T Consensus 320 ~~~~-l~~~Q~~Ai~~~~----~~~~~iitGgpGTGKTt~l~~-i~~~~~~~~~~~-~v~l~ApTg~AA~~L 384 (720)
T TIGR01448 320 LRKG-LSEEQKQALDTAI----QHKVVILTGGPGTGKTTITRA-IIELAEELGGLL-PVGLAAPTGRAAKRL 384 (720)
T ss_pred cCCC-CCHHHHHHHHHHH----hCCeEEEECCCCCCHHHHHHH-HHHHHHHcCCCc-eEEEEeCchHHHHHH
Confidence 4454 4789998877653 567999999999999974432 223333321115 899999998776544
No 223
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=87.75 E-value=0.37 Score=49.41 Aligned_cols=40 Identities=28% Similarity=0.345 Sum_probs=33.9
Q ss_pred eeCCCCCCCHHHHHHHHHHHHHHhhc--CcEEEEccCCChhHH
Q 007505 10 VYFPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTI 50 (601)
Q Consensus 10 ~~fp~~~~r~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTl 50 (601)
..|||... -+|.++..++..++.+. +.+++.+|+|||||.
T Consensus 12 ~~~pf~~i-vGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~ 53 (350)
T CHL00081 12 PVFPFTAI-VGQEEMKLALILNVIDPKIGGVMIMGDRGTGKST 53 (350)
T ss_pred CCCCHHHH-hChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHH
Confidence 46999875 99999999998887663 368899999999997
No 224
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=87.51 E-value=0.67 Score=48.90 Aligned_cols=31 Identities=26% Similarity=0.396 Sum_probs=25.3
Q ss_pred HHHHHHHHHHhhcCcEEEEccCCChhHHHHH
Q 007505 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 23 ~~~~~v~~~l~~~~~~~~EapTGtGKTla~L 53 (601)
+..+.+..++..++++++.+|+|||||...-
T Consensus 182 ~~le~l~~~L~~~~~iil~GppGtGKT~lA~ 212 (459)
T PRK11331 182 TTIETILKRLTIKKNIILQGPPGVGKTFVAR 212 (459)
T ss_pred HHHHHHHHHHhcCCCEEEECCCCCCHHHHHH
Confidence 3456677888889999999999999997443
No 225
>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=87.49 E-value=0.61 Score=48.66 Aligned_cols=35 Identities=29% Similarity=0.217 Sum_probs=29.1
Q ss_pred CHHHHHHHHHHHHHHhhc----------------CcEEEEccCCChhHHHH
Q 007505 18 YPEQYSYMLELKRALDAK----------------GHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~----------------~~~~~EapTGtGKTla~ 52 (601)
--+|.+....+.-|+.++ +++++.+|||+|||...
T Consensus 14 IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lA 64 (441)
T TIGR00390 14 IIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIA 64 (441)
T ss_pred ccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHH
Confidence 368999999998888763 68999999999999833
No 226
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=87.42 E-value=1.5 Score=49.73 Aligned_cols=64 Identities=20% Similarity=0.291 Sum_probs=44.2
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC-C-CCCcEEEEEcccchhHHHHHHHHHh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~-~-~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
.|.|++.+.. ..++++|-|+.|||||...+.-+ .|.... + ..+ +|++.|=|..-...+-+.+..
T Consensus 3 n~~Q~~av~~------~~~~~~V~Ag~GSGKT~~L~~ri-~~ll~~~~~~p~-~IL~vTFt~~Aa~em~~Rl~~ 68 (664)
T TIGR01074 3 NPQQQEAVEY------VTGPCLVLAGAGSGKTRVITNKI-AYLIQNCGYKAR-NIAAVTFTNKAAREMKERVAK 68 (664)
T ss_pred CHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHH-HHHHHhcCCCHH-HeEEEeccHHHHHHHHHHHHH
Confidence 5778775532 45789999999999998777643 444432 1 234 799998888777666665544
No 227
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=87.40 E-value=1.2 Score=50.87 Aligned_cols=66 Identities=20% Similarity=0.204 Sum_probs=46.8
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC-C-CCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~-~-~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
..|.|++.+.. ..++++|-|+.|||||-.... =++|+... . ... +|++.|=|..-...+-+-+..+
T Consensus 5 Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~~L~~-Ria~Li~~~~v~p~-~IL~lTFTnkAA~em~~Rl~~~ 72 (715)
T TIGR01075 5 LNDKQREAVAA------PPGNLLVLAGAGSGKTRVLTH-RIAWLLSVENASPH-SIMAVTFTNKAAAEMRHRIGAL 72 (715)
T ss_pred cCHHHHHHHcC------CCCCEEEEecCCCCHHHHHHH-HHHHHHHcCCCCHH-HeEeeeccHHHHHHHHHHHHHH
Confidence 46888876642 457899999999999987554 45565542 1 224 8999999988777665555554
No 228
>PLN03025 replication factor C subunit; Provisional
Probab=87.35 E-value=0.73 Score=47.02 Aligned_cols=34 Identities=26% Similarity=0.327 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHHH
Q 007505 20 EQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L 53 (601)
+|.+.+..+...+..+ .++++.+|+|||||-...
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~ 52 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSIL 52 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHH
Confidence 6777777777777665 479999999999997554
No 229
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.34 E-value=0.56 Score=50.40 Aligned_cols=34 Identities=26% Similarity=0.234 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHhhcCc---EEEEccCCChhHHHHH
Q 007505 20 EQYSYMLELKRALDAKGH---CLLEMPTGTGKTIALL 53 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~---~~~EapTGtGKTla~L 53 (601)
+|......+..++.+++. +++.+|+|||||....
T Consensus 18 Gq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~ 54 (472)
T PRK14962 18 GQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVAR 54 (472)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 888888888888888753 6999999999997554
No 230
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=87.32 E-value=0.7 Score=45.83 Aligned_cols=35 Identities=37% Similarity=0.485 Sum_probs=24.6
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
+.++++-+|||+|||| |.-+|+-.. +- +.-++-.|
T Consensus 97 KSNILLiGPTGsGKTl--LAqTLAk~L----nV-PFaiADAT 131 (408)
T COG1219 97 KSNILLIGPTGSGKTL--LAQTLAKIL----NV-PFAIADAT 131 (408)
T ss_pred eccEEEECCCCCcHHH--HHHHHHHHh----CC-Ceeecccc
Confidence 3589999999999998 444554433 23 67777666
No 231
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=87.30 E-value=1.4 Score=47.40 Aligned_cols=50 Identities=6% Similarity=0.102 Sum_probs=38.6
Q ss_pred ChHHHHHHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHHHh
Q 007505 513 DPGVARNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIM 562 (601)
Q Consensus 513 ~~~~~~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~ 562 (601)
+..+.+...+.+-++.+.-.+.+.|-++-+....++.+.+++..-|.-|.
T Consensus 636 ne~l~qr~~~ii~~mkk~~~etiaVi~kt~~d~~~~~d~lre~~~~r~I~ 685 (747)
T COG3973 636 NEELVQRNPDIIPRMKKRGSETIAVICKTDHDCKAVMDSLREKDSQRTIA 685 (747)
T ss_pred hHHHHHhhHHHHHHHHhcCCCceEEECCcHHHHHHHHHHHhhcchhhHHH
Confidence 44566666677777777777899999999999999999998765555554
No 232
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=87.08 E-value=1.2 Score=45.01 Aligned_cols=51 Identities=25% Similarity=0.241 Sum_probs=32.6
Q ss_pred HHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhH
Q 007505 25 MLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (601)
Q Consensus 25 ~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~ 80 (601)
+..+..+.....+.++.++||+|||- |+-++.... +... |||..=-|-.+|
T Consensus 163 a~~L~~av~~r~NILisGGTGSGKTT--lLNal~~~i--~~~e-RvItiEDtaELq 213 (355)
T COG4962 163 AKFLRRAVGIRCNILISGGTGSGKTT--LLNALSGFI--DSDE-RVITIEDTAELQ 213 (355)
T ss_pred HHHHHHHHhhceeEEEeCCCCCCHHH--HHHHHHhcC--CCcc-cEEEEeehhhhc
Confidence 34444555556799999999999996 443443322 3356 888776664443
No 233
>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=87.06 E-value=0.8 Score=45.84 Aligned_cols=17 Identities=35% Similarity=0.313 Sum_probs=14.7
Q ss_pred CcEEEEccCCChhHHHH
Q 007505 36 GHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~ 52 (601)
.++++.+|+|||||...
T Consensus 59 ~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVA 75 (284)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 37999999999999754
No 234
>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=87.02 E-value=1.5 Score=53.23 Aligned_cols=62 Identities=21% Similarity=0.237 Sum_probs=44.3
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~ 85 (601)
+.+.|.+.+. ..+.+++|.|+-|||||..+.--++.......+.. +|++.|=|..-...+-+
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 3688988875 36789999999999999988765555443221224 69999999876654433
No 235
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=86.85 E-value=1 Score=42.60 Aligned_cols=33 Identities=27% Similarity=0.407 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhhcC--cEEEEccCCChhHHHHHHH
Q 007505 23 SYMLELKRALDAKG--HCLLEMPTGTGKTIALLSL 55 (601)
Q Consensus 23 ~~~~~v~~~l~~~~--~~~~EapTGtGKTla~L~~ 55 (601)
+.++.+.-...+|. |+++.+|+|||||-+.+|-
T Consensus 34 ~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~L 68 (333)
T KOG0991|consen 34 DTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCL 68 (333)
T ss_pred HHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHH
Confidence 34444433334443 8999999999999999874
No 236
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=86.65 E-value=0.65 Score=53.02 Aligned_cols=36 Identities=8% Similarity=0.091 Sum_probs=27.3
Q ss_pred HHHHHHHhhccc-CCeEEEEecCHHHHHHHHHHHHhc
Q 007505 520 YGKLLVEMVSIV-PDGIVCFFVSYSYMDEIIATWNDS 555 (601)
Q Consensus 520 l~~~i~~~~~~~-~gg~LVfFpSy~~l~~v~~~~~~~ 555 (601)
+.+.+..++..- +|.+|||.|.|..+.++++.+...
T Consensus 400 i~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~ 436 (924)
T KOG0920|consen 400 IEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVN 436 (924)
T ss_pred HHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhc
Confidence 334444455553 699999999999999999998754
No 237
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=86.62 E-value=0.51 Score=52.56 Aligned_cols=44 Identities=25% Similarity=0.209 Sum_probs=31.7
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHH
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q 82 (601)
++=|+..||||||.+||--..+.-+.. |-.|.||.+||.+-.+-
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 567899999999999996433322333 45589999999875544
No 238
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=86.47 E-value=1.2 Score=45.73 Aligned_cols=27 Identities=33% Similarity=0.314 Sum_probs=22.6
Q ss_pred HHHHHHHHHhhcCcEEEEccCCChhHH
Q 007505 24 YMLELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 24 ~~~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
++.-+..++..++++++-+|||+|||-
T Consensus 151 ~~~~l~~~v~~~~nilI~G~tGSGKTT 177 (344)
T PRK13851 151 LEAFLHACVVGRLTMLLCGPTGSGKTT 177 (344)
T ss_pred HHHHHHHHHHcCCeEEEECCCCccHHH
Confidence 455566677788999999999999997
No 239
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.42 E-value=0.65 Score=49.51 Aligned_cols=35 Identities=26% Similarity=0.193 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHhhcCc---EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKGH---CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~---~~~EapTGtGKTla~L~ 54 (601)
+|......+..++..++. +++.+|.|||||-.+.+
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 899999999999998863 69999999999986654
No 240
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=86.36 E-value=1.7 Score=49.36 Aligned_cols=47 Identities=19% Similarity=0.255 Sum_probs=36.3
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK 63 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~ 63 (601)
..++.|+.-.+=+.....++-++++-=-+|.|||...+. .+.|....
T Consensus 394 ~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIs-LitYLmE~ 440 (1157)
T KOG0386|consen 394 ELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTIS-LITYLMEH 440 (1157)
T ss_pred CCchhhhhhhHHHhhccCCCcccccchhcccchHHHHHH-HHHHHHHH
Confidence 347888888888888888888899999999999997764 34555443
No 241
>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=86.07 E-value=0.8 Score=48.14 Aligned_cols=34 Identities=35% Similarity=0.284 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHhh--------------------cCcEEEEccCCChhHHHH
Q 007505 19 PEQYSYMLELKRALDA--------------------KGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~--------------------~~~~~~EapTGtGKTla~ 52 (601)
-+|.+..+.+..++.+ +.++++.+|||+|||...
T Consensus 80 iGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lA 133 (413)
T TIGR00382 80 IGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLA 133 (413)
T ss_pred cCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHH
Confidence 4788888888777621 247999999999999833
No 242
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=85.92 E-value=3.1 Score=44.58 Aligned_cols=59 Identities=15% Similarity=0.129 Sum_probs=33.9
Q ss_pred HHHHHHHHHHhhc-----CcEEEEccCCChhHHHHHHHHHHH-HHhCCCCCcEEEEEcccchhHHHHHH
Q 007505 23 SYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSY-VLSKPENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 23 ~~~~~v~~~l~~~-----~~~~~EapTGtGKTla~L~~~l~~-~~~~~~~~~kvv~~t~T~~~~~q~~~ 85 (601)
+++...+..+.++ .++++-+|+|+|||- |+-|+.. +.....+. +|+|.|.. .....++.
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 3444555555432 469999999999995 4444433 22222245 88887764 33334333
No 243
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.91 E-value=0.99 Score=46.98 Aligned_cols=34 Identities=26% Similarity=0.274 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L 53 (601)
||......+..++..++ | +++.+|+|+|||....
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 4899999999997555
No 244
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=85.83 E-value=5.1 Score=38.70 Aligned_cols=67 Identities=21% Similarity=0.284 Sum_probs=42.2
Q ss_pred CHHHHHHHHHHHHHHhhc---CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccc-hhHHHHHHHHH
Q 007505 18 YPEQYSYMLELKRALDAK---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV-HEMEKTLAELK 88 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~---~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~-~~~~q~~~el~ 88 (601)
++.|++.+.+-.++|-+| .++++.++.|||||-..-.-.-.|+. .| .|+|-..+.. ..+..+++.|+
T Consensus 32 ie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~---~G-LRlIev~k~~L~~l~~l~~~l~ 102 (249)
T PF05673_consen 32 IERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYAD---QG-LRLIEVSKEDLGDLPELLDLLR 102 (249)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhh---cC-ceEEEECHHHhccHHHHHHHHh
Confidence 467888777777777776 48999999999998754432222322 23 4887776542 33333444333
No 245
>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=85.65 E-value=1.5 Score=38.41 Aligned_cols=17 Identities=47% Similarity=0.499 Sum_probs=14.1
Q ss_pred cEEEEccCCChhHHHHH
Q 007505 37 HCLLEMPTGTGKTIALL 53 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L 53 (601)
++++.+|+|+|||..+-
T Consensus 1 ~vlL~G~~G~GKt~l~~ 17 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLAR 17 (139)
T ss_dssp EEEEEESSSSSHHHHHH
T ss_pred CEEEECCCCCCHHHHHH
Confidence 47999999999998433
No 246
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=85.61 E-value=0.4 Score=44.25 Aligned_cols=34 Identities=26% Similarity=0.293 Sum_probs=21.1
Q ss_pred CHHHHHHHHHHHHHHhh--cCcEEEEccCCChhHHH
Q 007505 18 YPEQYSYMLELKRALDA--KGHCLLEMPTGTGKTIA 51 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~--~~~~~~EapTGtGKTla 51 (601)
|..|.+.+....++... +.+++|.+|.|+|||.-
T Consensus 5 R~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~l 40 (185)
T PF13191_consen 5 REEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSL 40 (185)
T ss_dssp -HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHH
Confidence 77787777776653332 35899999999999983
No 247
>PHA02653 RNA helicase NPH-II; Provisional
Probab=85.54 E-value=12 Score=42.26 Aligned_cols=60 Identities=13% Similarity=0.073 Sum_probs=37.1
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 531 ~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
.+|.+|||+|+-...+.+.+.+.+. .. .-.++.-+.+.....+.+++|.+ +|+--||+|.
T Consensus 394 ~~g~iLVFlpg~~ei~~l~~~L~~~-----~~-~~~v~~LHG~Lsq~eq~l~~ff~---~gk~kILVAT 453 (675)
T PHA02653 394 KGSSGIVFVASVSQCEEYKKYLEKR-----LP-IYDFYIIHGKVPNIDEILEKVYS---SKNPSIIIST 453 (675)
T ss_pred cCCcEEEEECcHHHHHHHHHHHHhh-----cC-CceEEeccCCcCHHHHHHHHHhc---cCceeEEecc
Confidence 4578999999999999999888642 11 12344333443334456677642 2455677653
No 248
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=85.37 E-value=2.8 Score=44.13 Aligned_cols=37 Identities=32% Similarity=0.394 Sum_probs=24.7
Q ss_pred CHHHH-HHHHHHHHHHhhc--CcEEEEccCCChhHHHHHH
Q 007505 18 YPEQY-SYMLELKRALDAK--GHCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 18 r~~Q~-~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L~ 54 (601)
|..|. ++...+..++.++ .++++-+|+|||||...-.
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~ 74 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKK 74 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHH
Confidence 45554 4444444555433 5799999999999996654
No 249
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=85.32 E-value=1.7 Score=43.98 Aligned_cols=63 Identities=24% Similarity=0.162 Sum_probs=41.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~ 79 (601)
|+-.+ |-.|..|+- ++|... +.+.+-++-|||||+-+|++++.--...+.-+ |||++-+|.+.
T Consensus 224 wGi~p-rn~eQ~~AL---dlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~-KiiVtRp~vpv 288 (436)
T COG1875 224 WGIRP-RNAEQRVAL---DLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYR-KIIVTRPTVPV 288 (436)
T ss_pred hccCc-ccHHHHHHH---HHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhc-eEEEecCCcCc
Confidence 44444 555555553 334443 46778899999999999999887555444445 77777666544
No 250
>PRK08084 DNA replication initiation factor; Provisional
Probab=85.29 E-value=1.9 Score=41.83 Aligned_cols=37 Identities=22% Similarity=0.212 Sum_probs=23.2
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
.++++-+|+|+|||--.- ++...... .+. +++|.+-.
T Consensus 46 ~~l~l~Gp~G~GKThLl~--a~~~~~~~-~~~-~v~y~~~~ 82 (235)
T PRK08084 46 GYIYLWSREGAGRSHLLH--AACAELSQ-RGR-AVGYVPLD 82 (235)
T ss_pred CeEEEECCCCCCHHHHHH--HHHHHHHh-CCC-eEEEEEHH
Confidence 579999999999996322 22222111 245 78777654
No 251
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=85.01 E-value=0.86 Score=46.37 Aligned_cols=34 Identities=41% Similarity=0.484 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHhhcC--cEEEEccCCChhHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--HCLLEMPTGTGKTIALL 53 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~~~EapTGtGKTla~L 53 (601)
+|.+.++.+...+..+. ++++.+|+|+|||...-
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~ 56 (319)
T PRK00440 21 GQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAAL 56 (319)
T ss_pred CcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHH
Confidence 68888888888888764 69999999999998554
No 252
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=84.79 E-value=0.8 Score=47.26 Aligned_cols=39 Identities=36% Similarity=0.490 Sum_probs=27.6
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhH
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~ 80 (601)
+.++++-+|||+|||| |.-.|+-.. +- +++||-.|.--|
T Consensus 226 KSNvLllGPtGsGKTl--laqTLAr~l----dV-PfaIcDcTtLTQ 264 (564)
T KOG0745|consen 226 KSNVLLLGPTGSGKTL--LAQTLARVL----DV-PFAICDCTTLTQ 264 (564)
T ss_pred cccEEEECCCCCchhH--HHHHHHHHh----CC-CeEEecccchhh
Confidence 4589999999999998 444554433 23 799997774333
No 253
>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=84.73 E-value=3.6 Score=42.72 Aligned_cols=36 Identities=28% Similarity=0.258 Sum_probs=23.6
Q ss_pred CHHHHHHHHHHHH-HHhhc--CcEEEEccCCChhHHHHH
Q 007505 18 YPEQYSYMLELKR-ALDAK--GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 18 r~~Q~~~~~~v~~-~l~~~--~~~~~EapTGtGKTla~L 53 (601)
|..|.+-+..... ++..+ .+++|-+|+|||||...-
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 5666644444443 34332 579999999999997543
No 254
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=84.73 E-value=1.8 Score=41.69 Aligned_cols=38 Identities=16% Similarity=0.038 Sum_probs=23.0
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
+.++++-+|+|||||- |.-++....... +. +++|.+..
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 4589999999999996 322333322122 44 56665543
No 255
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=84.70 E-value=1.5 Score=38.55 Aligned_cols=32 Identities=22% Similarity=0.294 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHhhcCcEEEEccCCChhHHH
Q 007505 20 EQYSYMLELKRALDAKGHCLLEMPTGTGKTIA 51 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla 51 (601)
.-+++.+.+.++-..+.++++.+++||||+..
T Consensus 6 ~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 6 AMRRLRRQLERLAKSSSPVLITGEPGTGKSLL 37 (138)
T ss_dssp HHHHHHHHHHHHHCSSS-EEEECCTTSSHHHH
T ss_pred HHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHH
Confidence 34455566666666678999999999999983
No 256
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=84.69 E-value=0.93 Score=47.79 Aligned_cols=34 Identities=35% Similarity=0.281 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHh------------------hcCcEEEEccCCChhHHHH
Q 007505 19 PEQYSYMLELKRALD------------------AKGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~------------------~~~~~~~EapTGtGKTla~ 52 (601)
-+|.+..+.+..++. .+.++++.+|||||||...
T Consensus 74 iGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lA 125 (412)
T PRK05342 74 IGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLA 125 (412)
T ss_pred eChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHH
Confidence 467777776655552 1357999999999999833
No 257
>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=84.68 E-value=0.65 Score=39.98 Aligned_cols=17 Identities=47% Similarity=0.515 Sum_probs=11.3
Q ss_pred cEEEEccCCChhHHHHH
Q 007505 37 HCLLEMPTGTGKTIALL 53 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L 53 (601)
|+++|+++|+|||...-
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 68999999999998555
No 258
>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=84.58 E-value=1.2 Score=44.28 Aligned_cols=35 Identities=31% Similarity=0.347 Sum_probs=25.0
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHH
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~ 52 (601)
...-..+..-+...+..+.++++-+|||||||...
T Consensus 16 T~dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 16 TVDTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp -HHHHHHHHHHHHHHHCTEEEEEESSTTSSHHHHH
T ss_pred cHHHHHHHHHHHHHHHcCCcEEEECCCCCchhHHH
Confidence 34444455455556677889999999999999833
No 259
>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=84.55 E-value=1 Score=41.88 Aligned_cols=29 Identities=38% Similarity=0.567 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHH
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
+.|.+++. .++..++.+++-+|||+|||-
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 456778999999999999996
No 260
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.46 E-value=0.93 Score=50.10 Aligned_cols=35 Identities=29% Similarity=0.249 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
||....+.+..++.+++ + +++.+|.|+|||-.+.+
T Consensus 19 GQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAri 56 (702)
T PRK14960 19 GQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARI 56 (702)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999999875 3 49999999999986654
No 261
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=84.26 E-value=4.2 Score=44.43 Aligned_cols=83 Identities=16% Similarity=0.265 Sum_probs=55.8
Q ss_pred EEEEecCCCCCccchhhhcCCCCcccccceeeecCCceeeeeeecCCCCCcceeeeccCCChHHHHHHHHHHHHhhcc-c
Q 007505 453 SVVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSI-V 531 (601)
Q Consensus 453 svIltSgTLsp~~~f~~~Lg~~~~~~~~~~~~~~~~~~~~~~i~~g~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~-~ 531 (601)
-+|+|||||.. +-|+...+--++ +.-.-...++.--|-....++|.++....+.++... -
T Consensus 197 klIimSATlda-~kfS~yF~~a~i------------------~~i~GR~fPVei~y~~~p~~dYv~a~~~tv~~Ih~~E~ 257 (674)
T KOG0922|consen 197 KLIIMSATLDA-EKFSEYFNNAPI------------------LTIPGRTFPVEILYLKEPTADYVDAALITVIQIHLTEP 257 (674)
T ss_pred eEEEEeeeecH-HHHHHHhcCCce------------------EeecCCCCceeEEeccCCchhhHHHHHHHHHHHHccCC
Confidence 67999999965 344443321111 000112345555566666778888777777776655 4
Q ss_pred CCeEEEEecCHHHHHHHHHHHHh
Q 007505 532 PDGIVCFFVSYSYMDEIIATWND 554 (601)
Q Consensus 532 ~gg~LVfFpSy~~l~~v~~~~~~ 554 (601)
||.+|||.|.-...+.+.+.+.+
T Consensus 258 ~GDILvFLtGqeEIe~~~~~l~e 280 (674)
T KOG0922|consen 258 PGDILVFLTGQEEIEAACELLRE 280 (674)
T ss_pred CCCEEEEeCCHHHHHHHHHHHHH
Confidence 69999999999999999998875
No 262
>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=84.26 E-value=4.8 Score=39.70 Aligned_cols=36 Identities=22% Similarity=0.221 Sum_probs=28.1
Q ss_pred CHHHHHHHHHHHHHHhhcC-cEEEEccCCChhHHHHH
Q 007505 18 YPEQYSYMLELKRALDAKG-HCLLEMPTGTGKTIALL 53 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~-~~~~EapTGtGKTla~L 53 (601)
.+.+.+....+...+..+. .+++-+|+|+|||...-
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~ 61 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIR 61 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 3677777777777777654 78999999999997444
No 263
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=83.94 E-value=4.2 Score=41.59 Aligned_cols=58 Identities=16% Similarity=0.145 Sum_probs=37.9
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccch
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~ 78 (601)
-|.-.++.+.+.++...+.+++|.+++||||+... -++........++ =|.+-+.+.+
T Consensus 12 S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA--~~iH~~s~r~~~p-fv~v~c~~~~ 69 (326)
T PRK11608 12 ANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIA--SRLHYLSSRWQGP-FISLNCAALN 69 (326)
T ss_pred CHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHH--HHHHHhCCccCCC-eEEEeCCCCC
Confidence 35666777777788778899999999999999733 2344333222233 4555555543
No 264
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=83.58 E-value=3.1 Score=46.08 Aligned_cols=53 Identities=25% Similarity=0.412 Sum_probs=37.7
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhC--CCCCcEEEEEcccchhHHHHHHHH
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSK--PENPVKLIYCTRTVHEMEKTLAEL 87 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~--~~~~~kvv~~t~T~~~~~q~~~el 87 (601)
.+..++.+|+|||||+.-|-+.=...... -..+.+|.+.+-|+.-.+|+..-+
T Consensus 393 yelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligi 447 (1025)
T KOG1807|consen 393 YELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGI 447 (1025)
T ss_pred hhhheeecCCCCCceeehHHHHHHHHhcccccccccceeeeehhhHHHHHHHHHH
Confidence 46799999999999998876532222211 111238999999999999987743
No 265
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=83.57 E-value=2.1 Score=49.01 Aligned_cols=28 Identities=25% Similarity=0.329 Sum_probs=24.5
Q ss_pred HHHHHHHHHhhcCcEEEEccCCChhHHH
Q 007505 24 YMLELKRALDAKGHCLLEMPTGTGKTIA 51 (601)
Q Consensus 24 ~~~~v~~~l~~~~~~~~EapTGtGKTla 51 (601)
...++.+++.+...++|.||||+|||-.
T Consensus 54 ~~~~i~~ai~~~~vvii~getGsGKTTq 81 (845)
T COG1643 54 VRDEILKAIEQNQVVIIVGETGSGKTTQ 81 (845)
T ss_pred HHHHHHHHHHhCCEEEEeCCCCCChHHH
Confidence 3467888999999999999999999973
No 266
>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=83.45 E-value=1.4 Score=43.64 Aligned_cols=42 Identities=19% Similarity=0.197 Sum_probs=28.5
Q ss_pred HHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 30 ~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
..+..+...++-||||+|||.-.+.-+..++... +. +|+|.|
T Consensus 25 gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~--g~-~vl~iS 66 (271)
T cd01122 25 KGLRKGELIILTAGTGVGKTTFLREYALDLITQH--GV-RVGTIS 66 (271)
T ss_pred EEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhc--Cc-eEEEEE
Confidence 4566778999999999999985554344444432 45 676654
No 267
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=83.43 E-value=1.7 Score=43.23 Aligned_cols=50 Identities=26% Similarity=0.148 Sum_probs=35.3
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCC----CCCcEEEEEcccchhHHHHHHHHH
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKP----ENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~----~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
+.+++.+|+|||||- ||-||+--..-. ..+ -++|--+.|++-..++.|=-
T Consensus 178 RliLlhGPPGTGKTS--LCKaLaQkLSIR~~~~y~~-~~liEinshsLFSKWFsESg 231 (423)
T KOG0744|consen 178 RLILLHGPPGTGKTS--LCKALAQKLSIRTNDRYYK-GQLIEINSHSLFSKWFSESG 231 (423)
T ss_pred eEEEEeCCCCCChhH--HHHHHHHhheeeecCcccc-ceEEEEehhHHHHHHHhhhh
Confidence 468999999999997 888776322110 113 57778888988888877633
No 268
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=83.40 E-value=1.8 Score=45.90 Aligned_cols=32 Identities=38% Similarity=0.475 Sum_probs=22.9
Q ss_pred HHHhh-cCcEEEEccCCChhHHHHHHHHHHHHHh
Q 007505 30 RALDA-KGHCLLEMPTGTGKTIALLSLITSYVLS 62 (601)
Q Consensus 30 ~~l~~-~~~~~~EapTGtGKTla~L~~~l~~~~~ 62 (601)
+.+.+ .+.+++-+|||+|||-. |.++|.++..
T Consensus 252 ~~~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~ 284 (500)
T COG2804 252 RLLNRPQGLILVTGPTGSGKTTT-LYAALSELNT 284 (500)
T ss_pred HHHhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcC
Confidence 34444 36899999999999975 4556776653
No 269
>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=83.39 E-value=1.9 Score=40.68 Aligned_cols=43 Identities=28% Similarity=0.377 Sum_probs=25.1
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
+..|+++-++||+|||...-.-+...+........++++.-..
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 4459999999999999977765555444221123377776554
No 270
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=83.18 E-value=0.74 Score=39.73 Aligned_cols=21 Identities=24% Similarity=0.431 Sum_probs=13.0
Q ss_pred hhcCcEEEEccCCChhHHHHH
Q 007505 33 DAKGHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 33 ~~~~~~~~EapTGtGKTla~L 53 (601)
.+++.+++.||+|+|||...-
T Consensus 2 ~~~~~~~i~G~~G~GKT~~~~ 22 (131)
T PF13401_consen 2 QSQRILVISGPPGSGKTTLIK 22 (131)
T ss_dssp -----EEEEE-TTSSHHHHHH
T ss_pred CCCcccEEEcCCCCCHHHHHH
Confidence 356789999999999998443
No 271
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=83.06 E-value=3.8 Score=42.81 Aligned_cols=52 Identities=19% Similarity=0.204 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHhh-----cCcEEEEccCCChhHHHHHHHHHH-HHHhCCCCCcEEEEEccc
Q 007505 22 YSYMLELKRALDA-----KGHCLLEMPTGTGKTIALLSLITS-YVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 22 ~~~~~~v~~~l~~-----~~~~~~EapTGtGKTla~L~~~l~-~~~~~~~~~~kvv~~t~T 76 (601)
.+++.++..++.+ ..++++-+|+|.|||- |.-|+. ++.+...+. +|+|.|.-
T Consensus 95 N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTH--Ll~Aign~~~~~~~~a-~v~y~~se 152 (408)
T COG0593 95 NRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTH--LLQAIGNEALANGPNA-RVVYLTSE 152 (408)
T ss_pred hHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHH--HHHHHHHHHHhhCCCc-eEEeccHH
Confidence 3566677777776 4689999999999998 433333 333332234 78888764
No 272
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=82.94 E-value=2.9 Score=40.16 Aligned_cols=50 Identities=22% Similarity=0.177 Sum_probs=31.0
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.+...++.+|+|+|||.-.+--+...+. .+. +++|.|-..+ .+|+++.+.
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~---~g~-~~~y~s~e~~-~~~l~~~~~ 64 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLK---NGE-KAMYISLEER-EERILGYAK 64 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHh---CCC-eEEEEECCCC-HHHHHHHHH
Confidence 4568899999999998744432322222 256 7777655443 456666544
No 273
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=82.88 E-value=1.4 Score=50.00 Aligned_cols=46 Identities=24% Similarity=0.338 Sum_probs=29.2
Q ss_pred cCeeeeCCCCCCCHHHHHHH-HHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 6 EDVTVYFPYDNIYPEQYSYM-LELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 6 ~~~~~~fp~~~~r~~Q~~~~-~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
+-++...|. |+.|.+-+ ..+..++.+.. . ++|-+|||||||+....
T Consensus 751 DYVPD~LPh---REeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~ 800 (1164)
T PTZ00112 751 DVVPKYLPC---REKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYS 800 (1164)
T ss_pred ccCCCcCCC---hHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHH
Confidence 344445554 56666555 44445665432 3 46999999999997664
No 274
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=82.84 E-value=3 Score=40.36 Aligned_cols=53 Identities=17% Similarity=0.206 Sum_probs=33.0
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
+-.+...++.+|+|+|||.-.+.-+...+. .+. +++|.|--.+. +++++.+..
T Consensus 22 ~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~---~g~-~~~y~~~e~~~-~~~~~~~~~ 74 (234)
T PRK06067 22 IPFPSLILIEGDHGTGKSVLSQQFVYGALK---QGK-KVYVITTENTS-KSYLKQMES 74 (234)
T ss_pred CcCCcEEEEECCCCCChHHHHHHHHHHHHh---CCC-EEEEEEcCCCH-HHHHHHHHH
Confidence 444678999999999999844432222222 356 78777765443 456555443
No 275
>PRK11054 helD DNA helicase IV; Provisional
Probab=82.83 E-value=3.4 Score=46.74 Aligned_cols=65 Identities=15% Similarity=0.292 Sum_probs=44.7
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC--CCCcEEEEEcccchhHHHHHHHHH
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~--~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
+..+.|++.+. ...++++|-|+.|||||...+.- ++|+.... .+. +|++.|-|....+-+-+-|.
T Consensus 196 ~L~~~Q~~av~------~~~~~~lV~agaGSGKT~vl~~r-~ayLl~~~~~~~~-~IL~ltft~~AA~em~eRL~ 262 (684)
T PRK11054 196 PLNPSQARAVV------NGEDSLLVLAGAGSGKTSVLVAR-AGWLLARGQAQPE-QILLLAFGRQAAEEMDERIR 262 (684)
T ss_pred CCCHHHHHHHh------CCCCCeEEEEeCCCCHHHHHHHH-HHHHHHhCCCCHH-HeEEEeccHHHHHHHHHHHH
Confidence 34788877663 24467899999999999876653 44544321 234 89999999887766555444
No 276
>PRK04328 hypothetical protein; Provisional
Probab=82.72 E-value=2.5 Score=41.34 Aligned_cols=52 Identities=15% Similarity=0.136 Sum_probs=28.8
Q ss_pred hhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 33 ~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
-.+...++.+|+|+|||.-.+--+...+. .+. +++|.|- ..--+++++.+..
T Consensus 21 p~gs~ili~G~pGsGKT~l~~~fl~~~~~---~ge-~~lyis~-ee~~~~i~~~~~~ 72 (249)
T PRK04328 21 PERNVVLLSGGPGTGKSIFSQQFLWNGLQ---MGE-PGVYVAL-EEHPVQVRRNMRQ 72 (249)
T ss_pred cCCcEEEEEcCCCCCHHHHHHHHHHHHHh---cCC-cEEEEEe-eCCHHHHHHHHHH
Confidence 34678999999999998743332222222 245 5555542 2222345554443
No 277
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=82.55 E-value=1.6 Score=47.29 Aligned_cols=35 Identities=23% Similarity=0.103 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L~ 54 (601)
+|..+...+..++.+++ .+++.+|.|||||....+
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 89999999999898875 689999999999986654
No 278
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=82.49 E-value=0.33 Score=52.69 Aligned_cols=45 Identities=31% Similarity=0.414 Sum_probs=29.0
Q ss_pred hhccCcEEEecCccccC-H--HhhhHh-hhcc--CCCcEEEEeCCCChHHH
Q 007505 198 MVQFANVVVYSYQYLLD-P--KVAGII-SKEM--QKESVVVFDEAHNIDNV 242 (601)
Q Consensus 198 ~~~~adivv~n~~~ll~-~--~~~~~~-~~~l--~~~~ilIiDEAHnl~~~ 242 (601)
..+.-||||++|+++-. + ...... ...| -..+-||+|||||+-+.
T Consensus 428 ~L~~YDvViTTY~lva~~~~~e~~~~~~~spL~~I~W~RVILDEAH~IrN~ 478 (901)
T KOG4439|consen 428 ELRKYDVVITTYNLVANKPDDELEEGKNSSPLARIAWSRVILDEAHNIRNS 478 (901)
T ss_pred HHhhcceEEEeeeccccCCchhhhcccCccHHHHhhHHHhhhhhhhhhccc
Confidence 45678999999999874 1 111100 0011 15678999999999663
No 279
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=82.31 E-value=3.4 Score=46.97 Aligned_cols=66 Identities=27% Similarity=0.325 Sum_probs=46.4
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhhh
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNY 93 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~~ 93 (601)
|+.|. +..+ +|.+|. |+|..||-||||+..+|+...|. .|+ .|-|.|-.--|...-.+.+..+-.+
T Consensus 80 ydVQl--iGgl--vLh~G~--IAEMkTGEGKTLvAtLpayLnAL---~Gk-gVhVVTvNdYLA~RDae~mg~vy~f 145 (925)
T PRK12903 80 YDVQI--IGGI--ILDLGS--VAEMKTGEGKTITSIAPVYLNAL---TGK-GVIVSTVNEYLAERDAEEMGKVFNF 145 (925)
T ss_pred CchHH--HHHH--HHhcCC--eeeecCCCCccHHHHHHHHHHHh---cCC-ceEEEecchhhhhhhHHHHHHHHHH
Confidence 56664 3333 244554 69999999999988888654444 367 8988998888887777766666444
No 280
>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=82.28 E-value=1.9 Score=42.83 Aligned_cols=29 Identities=38% Similarity=0.557 Sum_probs=21.6
Q ss_pred HHHHHHHHHhhcCcEEEEccCCChhHHHH
Q 007505 24 YMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 24 ~~~~v~~~l~~~~~~~~EapTGtGKTla~ 52 (601)
+.+.+..++..++++++-+|||+|||-.+
T Consensus 116 ~~~~l~~~v~~~~~ili~G~tGSGKTT~l 144 (270)
T PF00437_consen 116 IAEFLRSAVRGRGNILISGPTGSGKTTLL 144 (270)
T ss_dssp HHHHHHHCHHTTEEEEEEESTTSSHHHHH
T ss_pred HHHHHhhccccceEEEEECCCccccchHH
Confidence 33344445566789999999999999744
No 281
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=82.27 E-value=1.2 Score=45.22 Aligned_cols=42 Identities=21% Similarity=0.208 Sum_probs=31.1
Q ss_pred CCC-CCCCH-------HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHH
Q 007505 12 FPY-DNIYP-------EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (601)
Q Consensus 12 fp~-~~~r~-------~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L 53 (601)
+|+ +.+|| +|.+....+...+.++. + +++.+|+|+|||...-
T Consensus 9 ~~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~ 61 (316)
T PHA02544 9 FMWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAK 61 (316)
T ss_pred CcceeccCCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHH
Confidence 444 56677 88888888888887764 3 4459999999997443
No 282
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=82.26 E-value=3.1 Score=47.74 Aligned_cols=66 Identities=20% Similarity=0.221 Sum_probs=45.2
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhC-C-CCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~-~-~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
..|.|++.+.. ..++++|-|+.|||||.....= ++|+... + ... +|+..|=|..-...+.+-+..+
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 4578999999999999876654 4454432 1 124 8999999977665555544443
No 283
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=82.14 E-value=2.4 Score=47.27 Aligned_cols=65 Identities=17% Similarity=0.201 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHH
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
.+|.+.+..+..++.++.++++.+|+|+|||...-. ++-......-. .+++...+......+++.
T Consensus 34 igq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla~~--l~~~l~~~~~~-~~~~~~np~~~~~~~~~~ 98 (637)
T PRK13765 34 IGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLAKA--MAELLPKEELQ-DILVYPNPEDPNNPKIRT 98 (637)
T ss_pred CChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHH--HHHHcChHhHH-HheEeeCCCcchHHHHHH
Confidence 689999999999999999999999999999974432 22111100002 556665555555555543
No 284
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=82.10 E-value=4.3 Score=48.02 Aligned_cols=62 Identities=11% Similarity=0.012 Sum_probs=45.8
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~ 85 (601)
..++|++.+..|. ..+...+|.++.|||||...-.. ...+... |. +|+-+.+|......+-+
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 4799999887764 45779999999999999865543 3333333 56 89999999877766543
No 285
>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=82.09 E-value=1.6 Score=42.96 Aligned_cols=39 Identities=13% Similarity=0.184 Sum_probs=25.6
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
+-.+...+|.+|+|+|||.-.+--+...+. .+. +++|.|
T Consensus 33 ip~gs~~lI~G~pGtGKT~l~~qf~~~~a~---~Ge-~vlyis 71 (259)
T TIGR03878 33 IPAYSVINITGVSDTGKSLMVEQFAVTQAS---RGN-PVLFVT 71 (259)
T ss_pred eECCcEEEEEcCCCCCHHHHHHHHHHHHHh---CCC-cEEEEE
Confidence 345678999999999999955543333333 245 665544
No 286
>PRK10646 ADP-binding protein; Provisional
Probab=82.06 E-value=1.7 Score=38.82 Aligned_cols=53 Identities=21% Similarity=0.039 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHH
Q 007505 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEME 81 (601)
Q Consensus 22 ~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~ 81 (601)
.++++.+.+.+..+..+++++.-|+|||- ++-++.-+. +. +-.|.+||=++++
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 46778888888888899999999999997 554554333 22 3347888877643
No 287
>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=81.97 E-value=2.9 Score=41.45 Aligned_cols=39 Identities=26% Similarity=0.339 Sum_probs=26.6
Q ss_pred cEEEEccCCChhHHHHHHH-HHHHHHhCCCCCcEEEEEcccch
Q 007505 37 HCLLEMPTGTGKTIALLSL-ITSYVLSKPENPVKLIYCTRTVH 78 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~-~l~~~~~~~~~~~kvv~~t~T~~ 78 (601)
+++|-+|||+|||- |+- .++...-.|..+ .||+-|+++.
T Consensus 89 I~~VYGPTG~GKSq--LlRNLis~~lI~P~PE-TVfFItP~~~ 128 (369)
T PF02456_consen 89 IGVVYGPTGSGKSQ--LLRNLISCQLIQPPPE-TVFFITPQKD 128 (369)
T ss_pred EEEEECCCCCCHHH--HHHHhhhcCcccCCCC-ceEEECCCCC
Confidence 58999999999996 432 222222234456 8999999864
No 288
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=81.93 E-value=2 Score=43.40 Aligned_cols=34 Identities=32% Similarity=0.321 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHhh-----c--CcEEEEccCCChhHHHHH
Q 007505 20 EQYSYMLELKRALDA-----K--GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~-----~--~~~~~EapTGtGKTla~L 53 (601)
+|.+....+...+.. + .++++.+|+|+|||....
T Consensus 8 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~ 48 (305)
T TIGR00635 8 GQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAH 48 (305)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHH
Confidence 566766666666652 2 469999999999997443
No 289
>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=81.88 E-value=2.8 Score=39.89 Aligned_cols=33 Identities=30% Similarity=0.314 Sum_probs=23.0
Q ss_pred CHHHHHHHHHHHHHHh---h-c---CcEEEEccCCChhHH
Q 007505 18 YPEQYSYMLELKRALD---A-K---GHCLLEMPTGTGKTI 50 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~---~-~---~~~~~EapTGtGKTl 50 (601)
+-||..+.....-.+. . + .|+++-+|+|+|||-
T Consensus 26 fiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTT 65 (233)
T PF05496_consen 26 FIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTT 65 (233)
T ss_dssp S-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHH
T ss_pred ccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhH
Confidence 5789999887554333 2 2 389999999999986
No 290
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.88 E-value=1.2 Score=49.65 Aligned_cols=35 Identities=29% Similarity=0.339 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
+|......+..++..++ + +|+.+|.|+|||....+
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 89999999999998874 3 48999999999986664
No 291
>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=81.65 E-value=1.5 Score=49.30 Aligned_cols=40 Identities=30% Similarity=0.349 Sum_probs=32.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHH
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~ 52 (601)
|||..+ -+|..+...+.-+.... +++++++|+|||||...
T Consensus 1 ~pf~~i-vGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~la 42 (633)
T TIGR02442 1 FPFTAI-VGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTAA 42 (633)
T ss_pred CCcchh-cChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHHH
Confidence 899874 89999988887776653 46999999999999844
No 292
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=81.55 E-value=4 Score=37.96 Aligned_cols=44 Identities=23% Similarity=0.381 Sum_probs=27.9
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhC-------CCCCcEEEEEcccch
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK-------PENPVKLIYCTRTVH 78 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~-------~~~~~kvv~~t~T~~ 78 (601)
.|...++-||+|+|||...+--+..++... ..+. +|+|.+.-.+
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~-~Vl~i~~E~~ 81 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPG-RVLYISLEDS 81 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT----------EEEEESSS-
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCc-eEEEEeccCC
Confidence 467899999999999998776666666421 1234 6777655444
No 293
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=81.55 E-value=4.3 Score=43.37 Aligned_cols=64 Identities=17% Similarity=0.256 Sum_probs=36.2
Q ss_pred eeeeCCCCCCC-HHHHHHHHHHHHHHhh------c---CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 007505 8 VTVYFPYDNIY-PEQYSYMLELKRALDA------K---GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (601)
Q Consensus 8 ~~~~fp~~~~r-~~Q~~~~~~v~~~l~~------~---~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~ 75 (601)
+.-.|-|+..- ....+++..++..+.+ + .++++-+|+|+|||- |+-++...... .+. +|+|.+.
T Consensus 104 l~~~~tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTH--Ll~Ai~~~l~~-~~~-~v~yi~~ 177 (445)
T PRK12422 104 LDPLMTFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTH--LMQAAVHALRE-SGG-KILYVRS 177 (445)
T ss_pred CCccccccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHH--HHHHHHHHHHH-cCC-CEEEeeH
Confidence 33344455322 1234455555555532 1 469999999999997 44344433322 245 8888875
No 294
>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=81.53 E-value=2 Score=46.41 Aligned_cols=70 Identities=21% Similarity=0.105 Sum_probs=40.6
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhhhhcccCCCccceEEEeecCccc-
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN- 114 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~~~~~~~~~~~~~~~~~l~~r~~- 114 (601)
.|+++-||||+|||.++++|.+.- . +. .+||.-+.-.+.......+++ .+.++.+.-..+..+
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 489999999999999999997631 2 23 455555554443333222222 133454444444444
Q ss_pred cccchhh
Q 007505 115 LCVNSRV 121 (601)
Q Consensus 115 lC~~~~~ 121 (601)
.|.|+..
T Consensus 109 ~~~NPL~ 115 (469)
T PF02534_consen 109 HRWNPLD 115 (469)
T ss_pred cccCCcc
Confidence 4666543
No 295
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=81.52 E-value=1.8 Score=42.67 Aligned_cols=40 Identities=28% Similarity=0.400 Sum_probs=27.9
Q ss_pred HHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 31 ~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
.+..+...+|.+++|||||.-.+-.+..-+.. +. +++|.|
T Consensus 19 G~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~---ge-~vlyvs 58 (260)
T COG0467 19 GLPRGSVVLITGPPGTGKTIFALQFLYEGARE---GE-PVLYVS 58 (260)
T ss_pred CCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhc---CC-cEEEEE
Confidence 35567899999999999999666554444442 45 665554
No 296
>PHA02533 17 large terminase protein; Provisional
Probab=81.49 E-value=7.1 Score=42.75 Aligned_cols=72 Identities=11% Similarity=0.062 Sum_probs=54.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
-||+. +|.|++++..+. .++..+++.|-..|||.....-++.++...+ +. +|+++.+|..|...+++.++.+
T Consensus 56 ~Pf~L-~p~Q~~i~~~~~----~~R~~ii~~aRq~GKStl~a~~al~~a~~~~-~~-~v~i~A~~~~QA~~vF~~ik~~ 127 (534)
T PHA02533 56 IKVQM-RDYQKDMLKIMH----KNRFNACNLSRQLGKTTVVAIFLLHYVCFNK-DK-NVGILAHKASMAAEVLDRTKQA 127 (534)
T ss_pred eecCC-cHHHHHHHHHHh----cCeEEEEEEcCcCChHHHHHHHHHHHHHhCC-CC-EEEEEeCCHHHHHHHHHHHHHH
Confidence 47765 899999988763 4567789999999999976654555555443 45 8888899988888888877654
No 297
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=81.43 E-value=3.4 Score=48.34 Aligned_cols=50 Identities=16% Similarity=0.304 Sum_probs=36.9
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.+.++++-||+|||||.+.=.+.+. +....+++|.++.+.-..-..++..
T Consensus 1158 ~nd~v~vga~~gsgkt~~ae~a~l~-----~~~~~~~vyi~p~~~i~~~~~~~w~ 1207 (1674)
T KOG0951|consen 1158 TNDNVLVGAPNGSGKTACAELALLR-----PDTIGRAVYIAPLEEIADEQYRDWE 1207 (1674)
T ss_pred ccceEEEecCCCCchhHHHHHHhcC-----CccceEEEEecchHHHHHHHHHHHH
Confidence 3568999999999999866554432 3334489999999887777666644
No 298
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=81.13 E-value=1.7 Score=43.88 Aligned_cols=75 Identities=20% Similarity=0.146 Sum_probs=49.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhh-cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 12 FPYDNIYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 12 fp~~~~r~~Q~~~~~~v~~~l~~-~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
..|+.|...|....--+ |.+ .++++..|-.|||||.|+.+.-|+-....--.+ ..+-..||..+..|..+=+...
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 45666677776544322 222 368999999999999999987665322111112 5666699999999987754443
No 299
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=80.93 E-value=1.3 Score=48.65 Aligned_cols=35 Identities=26% Similarity=0.177 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
||......+..++.+++ | .++.+|.|+|||..+..
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 89999999999998763 3 78999999999986664
No 300
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=80.89 E-value=6.3 Score=46.48 Aligned_cols=72 Identities=22% Similarity=0.337 Sum_probs=51.9
Q ss_pred CHHHHHHHHHHHH-HHhh-----cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 18 YPEQYSYMLELKR-ALDA-----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 18 r~~Q~~~~~~v~~-~l~~-----~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
|..|...+....+ .+.. ++.++|-=-||+|||+..+..|- ++...+..+ +|++.|-...|-.|+.+++..+.
T Consensus 250 ~~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~-~l~~~~~~~-~v~fvvDR~dLd~Q~~~~f~~~~ 327 (962)
T COG0610 250 RYAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLAR-LLLELPKNP-KVLFVVDRKDLDDQTSDEFQSFG 327 (962)
T ss_pred HHHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHH-HHHhccCCC-eEEEEechHHHHHHHHHHHHHHH
Confidence 4556655553333 3332 23599999999999998887653 444445556 99999999999999999888753
No 301
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=80.25 E-value=2.8 Score=47.66 Aligned_cols=68 Identities=18% Similarity=0.228 Sum_probs=49.6
Q ss_pred CCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 14 YDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 14 ~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
|.+ -.-|.++. +..+.++.++|-|||-.|||++--..-=...+.+ +.+ -|||+.||+++..|+-.++.
T Consensus 510 F~P-d~WQ~elL----DsvDr~eSavIVAPTSaGKTfisfY~iEKVLRes-D~~-VVIyvaPtKaLVnQvsa~Vy 577 (1330)
T KOG0949|consen 510 FCP-DEWQRELL----DSVDRNESAVIVAPTSAGKTFISFYAIEKVLRES-DSD-VVIYVAPTKALVNQVSANVY 577 (1330)
T ss_pred cCC-cHHHHHHh----hhhhcccceEEEeeccCCceeccHHHHHHHHhhc-CCC-EEEEecchHHHhhhhhHHHH
Confidence 554 37787766 5567889999999999999985444323334444 345 68999999999999877544
No 302
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=80.15 E-value=2.2 Score=43.69 Aligned_cols=35 Identities=34% Similarity=0.276 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHhh----c---CcEEEEccCCChhHHHHH
Q 007505 19 PEQYSYMLELKRALDA----K---GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~----~---~~~~~EapTGtGKTla~L 53 (601)
-+|.+.+..+...+.. + .++++.+|+|||||....
T Consensus 28 vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 28 IGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred cCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence 3777777776665542 2 479999999999998554
No 303
>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=80.12 E-value=1.7 Score=47.73 Aligned_cols=34 Identities=35% Similarity=0.338 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHH
Q 007505 19 PEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~ 52 (601)
-+|...|..+..++... .++++.+|+|||||.+.
T Consensus 68 iGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lA 103 (531)
T TIGR02902 68 IGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAA 103 (531)
T ss_pred eCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHH
Confidence 37888888888777654 68999999999999844
No 304
>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=80.06 E-value=3.4 Score=42.77 Aligned_cols=33 Identities=18% Similarity=0.290 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHh-hcCcEEEEccCCChhHHH
Q 007505 19 PEQYSYMLELKRALD-AKGHCLLEMPTGTGKTIA 51 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~-~~~~~~~EapTGtGKTla 51 (601)
-.|.-+-..+.+.+. .++.+++-+|||+|||-.
T Consensus 117 l~~l~~~~~~~~~~~~~~glilI~GpTGSGKTTt 150 (358)
T TIGR02524 117 LSKLDLPAAIIDAIAPQEGIVFITGATGSGKSTL 150 (358)
T ss_pred HHHcCCCHHHHHHHhccCCEEEEECCCCCCHHHH
Confidence 333333334455555 568999999999999873
No 305
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=80.01 E-value=2.1 Score=46.64 Aligned_cols=35 Identities=31% Similarity=0.291 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
||......+..++.+++ | .++.+|.|||||-...+
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 58999999999975553
No 306
>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=79.94 E-value=3.4 Score=44.86 Aligned_cols=51 Identities=18% Similarity=0.165 Sum_probs=32.7
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
.+...++.+|+|||||.-.+--+-..++ ++. +++|.+- ..-.+|+++....
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~---~ge-~~~y~s~-eEs~~~i~~~~~~ 312 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKFLENACA---NKE-RAILFAY-EESRAQLLRNAYS 312 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHH---CCC-eEEEEEe-eCCHHHHHHHHHH
Confidence 3568999999999999855543333332 256 8888763 3334466664443
No 307
>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=79.86 E-value=2.9 Score=37.87 Aligned_cols=34 Identities=29% Similarity=0.390 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L 53 (601)
||.+..+.+...+.+++ | +++++|.|+||+...+
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 68899999999999884 4 6999999999987555
No 308
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=79.67 E-value=2.5 Score=42.79 Aligned_cols=43 Identities=26% Similarity=0.306 Sum_probs=25.1
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHH
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
+-+++-+|+|||||| |.=|+ ++.++- .||=..-..+.+.++.|
T Consensus 186 KGVLLYGPPGTGKTL--LAkAV----A~~T~A--tFIrvvgSElVqKYiGE 228 (406)
T COG1222 186 KGVLLYGPPGTGKTL--LAKAV----ANQTDA--TFIRVVGSELVQKYIGE 228 (406)
T ss_pred CceEeeCCCCCcHHH--HHHHH----HhccCc--eEEEeccHHHHHHHhcc
Confidence 469999999999998 32233 332233 34444444555555544
No 309
>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=79.32 E-value=3.2 Score=42.94 Aligned_cols=45 Identities=20% Similarity=0.367 Sum_probs=30.7
Q ss_pred EEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH
Q 007505 39 LLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 39 ~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~ 85 (601)
++.+|.|.|||.....-++.++...+... .|+++ +|..++...+.
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 88888777543
No 310
>CHL00181 cbbX CbbX; Provisional
Probab=79.26 E-value=2.4 Score=42.42 Aligned_cols=19 Identities=37% Similarity=0.375 Sum_probs=15.7
Q ss_pred CcEEEEccCCChhHHHHHH
Q 007505 36 GHCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~ 54 (601)
-++++.+|+|||||..+-+
T Consensus 60 ~~ill~G~pGtGKT~lAr~ 78 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALK 78 (287)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3689999999999985554
No 311
>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=79.21 E-value=1.8 Score=40.67 Aligned_cols=33 Identities=30% Similarity=0.369 Sum_probs=20.1
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
..++-+|||||||--.+ ..|+.+ +. +||+.=+-
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 46788999999997444 445544 45 77777443
No 312
>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=79.20 E-value=2.6 Score=46.56 Aligned_cols=38 Identities=21% Similarity=0.444 Sum_probs=27.5
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
.+|+++-||||+|||.+ +-..+.|.... +. ++||-=++
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 33456666654 56 77776555
No 313
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=79.13 E-value=2.4 Score=47.19 Aligned_cols=35 Identities=23% Similarity=0.245 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
||..+...+..++.+++ | .|+.+|.|+|||..+.+
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 78999999999986654
No 314
>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=79.05 E-value=2.7 Score=40.45 Aligned_cols=40 Identities=25% Similarity=0.250 Sum_probs=25.6
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~ 75 (601)
+..+..+++.+|+|+|||.-.+.-+...+. .+. +++|.+-
T Consensus 17 i~~G~~~~i~G~~G~GKT~l~~~~~~~~~~---~g~-~~~~is~ 56 (229)
T TIGR03881 17 IPRGFFVAVTGEPGTGKTIFCLHFAYKGLR---DGD-PVIYVTT 56 (229)
T ss_pred CcCCeEEEEECCCCCChHHHHHHHHHHHHh---cCC-eEEEEEc
Confidence 445678999999999998755433333333 245 6655543
No 315
>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=78.91 E-value=2.8 Score=41.26 Aligned_cols=47 Identities=19% Similarity=0.244 Sum_probs=33.5
Q ss_pred HHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 27 ~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
.+...+..+...++-|+||.|||.-.+--+..++... +. +|+|.|-=
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 3334556678999999999999998888777777743 35 77777643
No 316
>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=78.79 E-value=5.2 Score=40.97 Aligned_cols=30 Identities=20% Similarity=0.228 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhhcCcEEEEccCCChhHH
Q 007505 21 QYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 21 Q~~~~~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
=+++.+.+.++-..+.+++|.+++||||+.
T Consensus 8 m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~ 37 (329)
T TIGR02974 8 FLEVLEQVSRLAPLDRPVLIIGERGTGKEL 37 (329)
T ss_pred HHHHHHHHHHHhCCCCCEEEECCCCChHHH
Confidence 344555666666678899999999999998
No 317
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=78.75 E-value=5.6 Score=42.77 Aligned_cols=52 Identities=21% Similarity=0.202 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhhc-----CcEEEEccCCChhHHHHHHHHHHHHH-hCCCCCcEEEEEccc
Q 007505 22 YSYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSYVL-SKPENPVKLIYCTRT 76 (601)
Q Consensus 22 ~~~~~~v~~~l~~~-----~~~~~EapTGtGKTla~L~~~l~~~~-~~~~~~~kvv~~t~T 76 (601)
.+++......+.++ ..+++-+|+|+|||.-+- ++.... ....+. +++|.+..
T Consensus 130 n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~--ai~~~~~~~~~~~-~v~yi~~~ 187 (450)
T PRK00149 130 NRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLH--AIGNYILEKNPNA-KVVYVTSE 187 (450)
T ss_pred cHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHH--HHHHHHHHhCCCC-eEEEEEHH
Confidence 44455666655542 469999999999997333 333222 111134 78777654
No 318
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=78.69 E-value=5.7 Score=42.47 Aligned_cols=37 Identities=19% Similarity=0.223 Sum_probs=23.7
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHH-HhCCCCCcEEEEEcc
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYV-LSKPENPVKLIYCTR 75 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~-~~~~~~~~kvv~~t~ 75 (601)
.++++-+|+|+|||.-+- ++... .....+. +|+|.|.
T Consensus 131 n~l~lyG~~G~GKTHLl~--ai~~~l~~~~~~~-~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQ--SIGNYVVQNEPDL-RVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHHH--HHHHHHHHhCCCC-eEEEEEH
Confidence 369999999999998433 33322 2211135 7888875
No 319
>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=78.31 E-value=6.5 Score=43.31 Aligned_cols=52 Identities=15% Similarity=0.227 Sum_probs=29.8
Q ss_pred HHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccc
Q 007505 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (601)
Q Consensus 23 ~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~ 77 (601)
++.+.+..+-..+.+++|.+++||||+... -++........++ =|.+-+...
T Consensus 207 ~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA--~~ih~~s~r~~~p-fv~i~c~~~ 258 (534)
T TIGR01817 207 QVVDQARVVARSNSTVLLRGESGTGKELIA--KAIHYLSPRAKRP-FVKVNCAAL 258 (534)
T ss_pred HHHHHHHHHhCcCCCEEEECCCCccHHHHH--HHHHHhCCCCCCC-eEEeecCCC
Confidence 344444444456779999999999999832 2344332222233 344555444
No 320
>PRK09401 reverse gyrase; Reviewed
Probab=78.31 E-value=10 Score=45.71 Aligned_cols=61 Identities=25% Similarity=0.348 Sum_probs=40.2
Q ss_pred HHHhhcccCCeEEEEecCHHH---HHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 524 LVEMVSIVPDGIVCFFVSYSY---MDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 524 i~~~~~~~~gg~LVfFpSy~~---l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
+..+++..++|+|||+++-.. .+.+.+.++..|+ +...+ +.+. ...+++|++ |+--||.|+
T Consensus 320 L~~ll~~l~~~~LIFv~t~~~~~~ae~l~~~L~~~gi-------~v~~~-hg~l---~~~l~~F~~----G~~~VLVat 383 (1176)
T PRK09401 320 LVELVKRLGDGGLIFVPSDKGKEYAEELAEYLEDLGI-------NAELA-ISGF---ERKFEKFEE----GEVDVLVGV 383 (1176)
T ss_pred HHHHHHhcCCCEEEEEecccChHHHHHHHHHHHHCCC-------cEEEE-eCcH---HHHHHHHHC----CCCCEEEEe
Confidence 444555567899999998554 8888888876543 22222 2332 334688987 567888885
No 321
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=78.24 E-value=1.9 Score=47.65 Aligned_cols=36 Identities=36% Similarity=0.379 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~~ 55 (601)
+|......+..++..++ | .++.+|.|||||-..-+-
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 678999999999876653
No 322
>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=78.16 E-value=5.7 Score=42.01 Aligned_cols=51 Identities=20% Similarity=0.220 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhhc-----CcEEEEccCCChhHHHHHHHHHHH-HHhCCCCCcEEEEEcc
Q 007505 22 YSYMLELKRALDAK-----GHCLLEMPTGTGKTIALLSLITSY-VLSKPENPVKLIYCTR 75 (601)
Q Consensus 22 ~~~~~~v~~~l~~~-----~~~~~EapTGtGKTla~L~~~l~~-~~~~~~~~~kvv~~t~ 75 (601)
.+++..+...+.++ ..+++-+|+|+|||.-.- ++.. +.....+. +++|.+.
T Consensus 118 n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~--ai~~~l~~~~~~~-~v~yi~~ 174 (405)
T TIGR00362 118 NRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLH--AIGNEILENNPNA-KVVYVSS 174 (405)
T ss_pred HHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHH--HHHHHHHHhCCCC-cEEEEEH
Confidence 34455555555442 368999999999998443 3332 22221134 7877764
No 323
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=78.05 E-value=1.8 Score=42.83 Aligned_cols=50 Identities=22% Similarity=0.362 Sum_probs=31.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHhh-cCcEEEEccCCChhHHHHHHHHHHHHHhC
Q 007505 13 PYDNIYPEQYSYMLELKRALDA-KGHCLLEMPTGTGKTIALLSLITSYVLSK 63 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l~~-~~~~~~EapTGtGKTla~L~~~l~~~~~~ 63 (601)
|...|.-.|..+=..+.+.+.. .+.++|.+|||+|||-.. .+-+.|...+
T Consensus 102 p~~i~~~e~LglP~i~~~~~~~~~GLILVTGpTGSGKSTTl-AamId~iN~~ 152 (353)
T COG2805 102 PSKIPTLEELGLPPIVRELAESPRGLILVTGPTGSGKSTTL-AAMIDYINKH 152 (353)
T ss_pred CccCCCHHHcCCCHHHHHHHhCCCceEEEeCCCCCcHHHHH-HHHHHHHhcc
Confidence 4444555666655555554433 468999999999998643 3345665544
No 324
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.97 E-value=2.6 Score=48.32 Aligned_cols=35 Identities=29% Similarity=0.286 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHhhcC--cE-EEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~~-~~EapTGtGKTla~L~ 54 (601)
||......+..++..++ |+ |+.+|.|||||....+
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARi 57 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARL 57 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998874 55 8999999999986654
No 325
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=77.95 E-value=2 Score=48.97 Aligned_cols=34 Identities=32% Similarity=0.356 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHhh--------c---CcEEEEccCCChhHHHH
Q 007505 19 PEQYSYMLELKRALDA--------K---GHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~--------~---~~~~~EapTGtGKTla~ 52 (601)
-+|.+.+..|.+++.. + ..+++.+|||+|||...
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 4788999999988873 1 35899999999999744
No 326
>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=77.93 E-value=15 Score=31.12 Aligned_cols=70 Identities=17% Similarity=0.206 Sum_probs=44.0
Q ss_pred HHHHHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEec-CCchhHHHHHHHHHHhcCCCCCeEE
Q 007505 518 RNYGKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVF 596 (601)
Q Consensus 518 ~~l~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~-~~~~~~~~~l~~fk~~~~~~~gaiL 596 (601)
..+.+.+.+... ..+.+|||+++...++.+.+.+.+. .....++.. -+..++..+++.|++. ...|+
T Consensus 15 ~~i~~~i~~~~~-~~~~~lvf~~~~~~~~~~~~~l~~~-------~~~~~~~~~~~~~~~~~~~~~~f~~~----~~~il 82 (131)
T cd00079 15 EALLELLKEHLK-KGGKVLIFCPSKKMLDELAELLRKP-------GIKVAALHGDGSQEEREEVLKDFREG----EIVVL 82 (131)
T ss_pred HHHHHHHHhccc-CCCcEEEEeCcHHHHHHHHHHHHhc-------CCcEEEEECCCCHHHHHHHHHHHHcC----CCcEE
Confidence 345555555433 4678999999999999999998752 122333322 2334566778888763 34566
Q ss_pred EEE
Q 007505 597 FSV 599 (601)
Q Consensus 597 faV 599 (601)
+++
T Consensus 83 i~t 85 (131)
T cd00079 83 VAT 85 (131)
T ss_pred EEc
Confidence 653
No 327
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=77.92 E-value=3.5 Score=42.76 Aligned_cols=20 Identities=40% Similarity=0.433 Sum_probs=16.7
Q ss_pred hcCcEEEEccCCChhHHHHH
Q 007505 34 AKGHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L 53 (601)
+++++++-+|||+|||....
T Consensus 136 ~g~ii~lvGptGvGKTTtia 155 (374)
T PRK14722 136 RGGVFALMGPTGVGKTTTTA 155 (374)
T ss_pred CCcEEEEECCCCCCHHHHHH
Confidence 46789999999999998544
No 328
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=77.85 E-value=2.4 Score=40.97 Aligned_cols=15 Identities=47% Similarity=0.700 Sum_probs=14.2
Q ss_pred CcEEEEccCCChhHH
Q 007505 36 GHCLLEMPTGTGKTI 50 (601)
Q Consensus 36 ~~~~~EapTGtGKTl 50 (601)
+++++-+|+|||||+
T Consensus 152 knVLFyGppGTGKTm 166 (368)
T COG1223 152 KNVLFYGPPGTGKTM 166 (368)
T ss_pred ceeEEECCCCccHHH
Confidence 689999999999998
No 329
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.78 E-value=2.8 Score=45.18 Aligned_cols=35 Identities=26% Similarity=0.206 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L~ 54 (601)
+|..+.+.+..++..++ ..++.+|.|+|||-...+
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 89999999999998874 589999999999975554
No 330
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=77.70 E-value=5.8 Score=37.23 Aligned_cols=38 Identities=29% Similarity=0.293 Sum_probs=22.3
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccc
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~ 77 (601)
.+++-+|||+|||-...=-|..+.. . ++.-.++|+-|.
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~-~--~~~v~lis~D~~ 40 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKL-K--GKKVALISADTY 40 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHH-T--T--EEEEEESTS
T ss_pred EEEEECCCCCchHhHHHHHHHHHhh-c--cccceeecCCCC
Confidence 5778899999999855432323332 2 341346666554
No 331
>PRK06893 DNA replication initiation factor; Validated
Probab=77.64 E-value=6.2 Score=38.03 Aligned_cols=51 Identities=14% Similarity=0.055 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHhhc--CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 22 YSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 22 ~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
..++..+.+.+... ..+++-+|+|+|||--.- |++..... .+. +++|.+-+
T Consensus 24 ~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~--ai~~~~~~-~~~-~~~y~~~~ 76 (229)
T PRK06893 24 LLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLK--AVSNHYLL-NQR-TAIYIPLS 76 (229)
T ss_pred HHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHH--HHHHHHHH-cCC-CeEEeeHH
Confidence 34455555555432 247899999999996322 22221111 134 66666554
No 332
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=77.56 E-value=5.3 Score=45.49 Aligned_cols=32 Identities=25% Similarity=0.384 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHH
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
+.-..+.+.+..+-..+.+++|.++||||||+
T Consensus 383 ~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~ 414 (686)
T PRK15429 383 EAMYSVLKQVEMVAQSDSTVLILGETGTGKEL 414 (686)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECCCCcCHHH
Confidence 33344444444455556799999999999997
No 333
>PRK10436 hypothetical protein; Provisional
Probab=77.48 E-value=4.5 Score=43.36 Aligned_cols=26 Identities=35% Similarity=0.511 Sum_probs=19.5
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHH
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYV 60 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~ 60 (601)
.++.+++.+|||+|||-.. .+++.+.
T Consensus 217 ~~GliLvtGpTGSGKTTtL-~a~l~~~ 242 (462)
T PRK10436 217 PQGLILVTGPTGSGKTVTL-YSALQTL 242 (462)
T ss_pred cCCeEEEECCCCCChHHHH-HHHHHhh
Confidence 4578999999999999854 3455554
No 334
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=77.44 E-value=5.4 Score=46.11 Aligned_cols=77 Identities=16% Similarity=0.079 Sum_probs=51.7
Q ss_pred EEcCeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHH
Q 007505 4 KLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 4 ~i~~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~ 83 (601)
...|-++.+...+ |+.|.-=. + +|.+|+ |.|..||-||||+.-+|+...|.. |+ .|-+.|-.-=|...-
T Consensus 127 ~~~g~~~~wdm~~-ydVQLiGg--i--vLh~G~--IAEM~TGEGKTLvatlp~yLnAL~---G~-gVHvVTvNDYLA~RD 195 (1025)
T PRK12900 127 QVMGREMTWDMVP-YDVQLIGG--I--VLHSGK--ISEMATGEGKTLVSTLPTFLNALT---GR-GVHVVTVNDYLAQRD 195 (1025)
T ss_pred cccccccccCccc-cchHHhhh--H--HhhcCC--ccccCCCCCcchHhHHHHHHHHHc---CC-CcEEEeechHhhhhh
Confidence 3567788888876 78885332 2 234454 689999999999998887665553 56 677777666565555
Q ss_pred HHHHHhhh
Q 007505 84 LAELKLLH 91 (601)
Q Consensus 84 ~~el~~l~ 91 (601)
-+.+..+-
T Consensus 196 aewm~p~y 203 (1025)
T PRK12900 196 KEWMNPVF 203 (1025)
T ss_pred HHHHHHHH
Confidence 44444443
No 335
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.43 E-value=3.1 Score=45.53 Aligned_cols=35 Identities=29% Similarity=0.259 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
||......+..++..++ + .++.+|.|+|||.....
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 89999999999998865 3 68999999999985553
No 336
>PRK04296 thymidine kinase; Provisional
Probab=77.42 E-value=3.8 Score=38.23 Aligned_cols=35 Identities=17% Similarity=0.155 Sum_probs=23.8
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEE
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~ 73 (601)
+...++-+|+|+|||...+--+..++. .++ +|+|.
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~~---~g~-~v~i~ 36 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYEE---RGM-KVLVF 36 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHH---cCC-eEEEE
Confidence 346788999999999877654443333 246 77665
No 337
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.41 E-value=2.8 Score=45.85 Aligned_cols=35 Identities=29% Similarity=0.295 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
+|......+..++..++ | .++.+|.|+|||....+
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 88999999999998874 4 48999999999975554
No 338
>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=77.33 E-value=3.5 Score=38.75 Aligned_cols=17 Identities=47% Similarity=0.792 Sum_probs=14.4
Q ss_pred CcEEEEccCCChhHHHH
Q 007505 36 GHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~ 52 (601)
+.+++-+|||+|||-..
T Consensus 2 GlilI~GptGSGKTTll 18 (198)
T cd01131 2 GLVLVTGPTGSGKSTTL 18 (198)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 46889999999999854
No 339
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=77.30 E-value=3.1 Score=39.93 Aligned_cols=39 Identities=26% Similarity=0.318 Sum_probs=25.6
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
+..+....+.+|+|+|||.-.+.-+...+.. +. +++|.+
T Consensus 20 i~~g~i~~i~G~~GsGKT~l~~~la~~~~~~---~~-~v~yi~ 58 (225)
T PRK09361 20 FERGTITQIYGPPGSGKTNICLQLAVEAAKN---GK-KVIYID 58 (225)
T ss_pred CCCCeEEEEECCCCCCHHHHHHHHHHHHHHC---CC-eEEEEE
Confidence 3445689999999999998666544444332 35 555544
No 340
>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=77.23 E-value=5.5 Score=40.42 Aligned_cols=49 Identities=20% Similarity=0.175 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccc
Q 007505 24 YMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (601)
Q Consensus 24 ~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~ 77 (601)
++..+..+++.++.+++.+|||+|||-... |+.... +... |++..-.|.
T Consensus 132 ~~ayL~~~ie~~~siii~G~t~sGKTt~ln--all~~I--p~~~-rivtIEdt~ 180 (312)
T COG0630 132 QAAYLWLAIEARKSIIICGGTASGKTTLLN--ALLDFI--PPEE-RIVTIEDTP 180 (312)
T ss_pred HHHHHHHHHHcCCcEEEECCCCCCHHHHHH--HHHHhC--Cchh-cEEEEeccc
Confidence 334478889999999999999999997443 232222 3234 787776553
No 341
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=77.15 E-value=1.1 Score=42.24 Aligned_cols=62 Identities=10% Similarity=0.184 Sum_probs=42.6
Q ss_pred eEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 2 IFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 2 ~~~i~~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
.+.|.++..+|+ +.+....|--.+..|..+++-+|.|+|||- |+=++..+... +.. .|.|--
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--LLRCLNGLEEP-DSG-SITVDG 63 (240)
T ss_pred eEEEEeeeEEeC-------CeEEecCcceeEcCCCEEEEECCCCCCHHH--HHHHHHCCcCC-CCc-eEEECC
Confidence 466778877776 333445566667789999999999999997 55456555443 445 566653
No 342
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=77.11 E-value=23 Score=37.84 Aligned_cols=67 Identities=15% Similarity=0.237 Sum_probs=46.0
Q ss_pred HHHHHhhcc-cCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecC-CchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 522 KLLVEMVSI-VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 522 ~~i~~~~~~-~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
+.+..+++. ..+.+|||++|....+.+++.++..| ....++.+. ...++..+++.|++ |+--||+|.
T Consensus 234 ~~l~~l~~~~~~~~~lVF~~s~~~~~~l~~~L~~~~-------~~~~~l~g~~~~~~R~~~l~~f~~----G~~~vLVaT 302 (434)
T PRK11192 234 ALLCHLLKQPEVTRSIVFVRTRERVHELAGWLRKAG-------INCCYLEGEMVQAKRNEAIKRLTD----GRVNVLVAT 302 (434)
T ss_pred HHHHHHHhcCCCCeEEEEeCChHHHHHHHHHHHhCC-------CCEEEecCCCCHHHHHHHHHHHhC----CCCcEEEEc
Confidence 445555554 45789999999999999999987643 234444332 23456778999986 566777764
No 343
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=77.06 E-value=26 Score=37.73 Aligned_cols=58 Identities=14% Similarity=0.228 Sum_probs=40.8
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEec-CCchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIET-QDVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 531 ~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~-~~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
.++.+|||+++-...+.+++.+...|+ +...+-+ -...++..+++.|++ |+-.||+|+
T Consensus 241 ~~~~~lVF~~t~~~~~~l~~~L~~~~~-------~v~~~hg~~~~~eR~~~l~~F~~----g~~~vLVaT 299 (460)
T PRK11776 241 QPESCVVFCNTKKECQEVADALNAQGF-------SALALHGDLEQRDRDQVLVRFAN----RSCSVLVAT 299 (460)
T ss_pred CCCceEEEECCHHHHHHHHHHHHhCCC-------cEEEEeCCCCHHHHHHHHHHHHc----CCCcEEEEe
Confidence 467899999999999999999976542 2222222 233467789999986 456677764
No 344
>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=76.94 E-value=4.1 Score=41.83 Aligned_cols=32 Identities=25% Similarity=0.221 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHh----hcCcEEEEccCCChhHH
Q 007505 19 PEQYSYMLELKRALD----AKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~----~~~~~~~EapTGtGKTl 50 (601)
+...+++..+..+.. .++.+++.+|+|+|||.
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 344444444444443 24688999999999998
No 345
>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=76.84 E-value=3.1 Score=41.06 Aligned_cols=18 Identities=33% Similarity=0.370 Sum_probs=15.0
Q ss_pred CcEEEEccCCChhHHHHH
Q 007505 36 GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L 53 (601)
.++++.+|+|||||...-
T Consensus 43 ~~vll~GppGtGKTtlA~ 60 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVAR 60 (261)
T ss_pred ceEEEEcCCCCCHHHHHH
Confidence 378999999999997443
No 346
>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=76.70 E-value=2.1 Score=49.94 Aligned_cols=36 Identities=28% Similarity=0.243 Sum_probs=29.0
Q ss_pred CHHHHHHHHHHHHHHhhc-----------CcEEEEccCCChhHHHHH
Q 007505 18 YPEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~-----------~~~~~EapTGtGKTla~L 53 (601)
--+|.+.+..|.+++... ..+++.+|||||||...-
T Consensus 567 v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~ 613 (852)
T TIGR03346 567 VVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAK 613 (852)
T ss_pred cCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHH
Confidence 368999999999998752 358899999999997433
No 347
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=76.68 E-value=4.2 Score=42.13 Aligned_cols=40 Identities=43% Similarity=0.494 Sum_probs=25.0
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEE-EEEccc
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKL-IYCTRT 76 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kv-v~~t~T 76 (601)
++++.+-+|||+|||-..-=-|-.|....+ .+ || +|+|-|
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~-~~-kVaiITtDt 243 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKK-KK-KVAIITTDT 243 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhcc-Cc-ceEEEEecc
Confidence 678999999999998744321223331122 23 55 788777
No 348
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=76.60 E-value=2.6 Score=40.70 Aligned_cols=34 Identities=35% Similarity=0.386 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHH------------hhcCcEEEEccCCChhHHHH
Q 007505 19 PEQYSYMLELKRAL------------DAKGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l------------~~~~~~~~EapTGtGKTla~ 52 (601)
+.|++-+++|.+.= +--+-+++-+|+||||||+.
T Consensus 183 keqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~a 228 (435)
T KOG0729|consen 183 KEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCA 228 (435)
T ss_pred HHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHH
Confidence 67888888887641 11256899999999999743
No 349
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=76.51 E-value=3.1 Score=45.22 Aligned_cols=36 Identities=31% Similarity=0.234 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhhcC--cE-EEEccCCChhHHHHHH
Q 007505 19 PEQYSYMLELKRALDAKG--HC-LLEMPTGTGKTIALLS 54 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~--~~-~~EapTGtGKTla~L~ 54 (601)
-+|......+..++..++ |+ ++.+|+|||||....+
T Consensus 17 vGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~ 55 (504)
T PRK14963 17 VGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARL 55 (504)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 378888888888888875 44 9999999999987664
No 350
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=76.30 E-value=2.4 Score=48.62 Aligned_cols=33 Identities=30% Similarity=0.316 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHhhc-----------CcEEEEccCCChhHHH
Q 007505 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIA 51 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~~~EapTGtGKTla 51 (601)
-+|.+.++.|..++... ..+++.+|||||||..
T Consensus 457 ~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~l 500 (731)
T TIGR02639 457 FGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTEL 500 (731)
T ss_pred eCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHH
Confidence 37888888888888741 2479999999999963
No 351
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=76.28 E-value=8.3 Score=38.51 Aligned_cols=18 Identities=50% Similarity=0.606 Sum_probs=14.4
Q ss_pred CcEEEEccCCChhHHHHH
Q 007505 36 GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L 53 (601)
..+++-+|||+|||-...
T Consensus 195 ~vi~~vGptGvGKTTt~~ 212 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLA 212 (282)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 467788999999997443
No 352
>PRK13342 recombination factor protein RarA; Reviewed
Probab=76.21 E-value=2.4 Score=44.99 Aligned_cols=35 Identities=31% Similarity=0.320 Sum_probs=27.1
Q ss_pred HHHHHHHHH---HHHHHhhcC--cEEEEccCCChhHHHHH
Q 007505 19 PEQYSYMLE---LKRALDAKG--HCLLEMPTGTGKTIALL 53 (601)
Q Consensus 19 ~~Q~~~~~~---v~~~l~~~~--~~~~EapTGtGKTla~L 53 (601)
-+|...+.. +.+.+.++. ++++.+|+|||||...-
T Consensus 15 vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~ 54 (413)
T PRK13342 15 VGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLAR 54 (413)
T ss_pred cCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHH
Confidence 367777666 777787664 79999999999997443
No 353
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=76.18 E-value=4.1 Score=47.51 Aligned_cols=72 Identities=15% Similarity=0.162 Sum_probs=45.6
Q ss_pred CCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC-CCCcEEEEEcccchhHHHHHHHHHhh
Q 007505 16 NIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP-ENPVKLIYCTRTVHEMEKTLAELKLL 90 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~-~~~~kvv~~t~T~~~~~q~~~el~~l 90 (601)
..|..|.+=+.=++-...++.++|+-=--|-|||+--++ .|.|..... -.+ +.+|.++-+.. ..+.+|+...
T Consensus 370 ~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~-fl~~l~~~~~~~g-pflvvvplst~-~~W~~ef~~w 442 (1373)
T KOG0384|consen 370 ELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTIT-FLSYLFHSLQIHG-PFLVVVPLSTI-TAWEREFETW 442 (1373)
T ss_pred hhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHH-HHHHHHHhhhccC-CeEEEeehhhh-HHHHHHHHHH
Confidence 358889988888888889999999999999999985544 234433221 112 34444443222 2344555554
No 354
>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=76.13 E-value=1.3 Score=46.57 Aligned_cols=41 Identities=20% Similarity=0.172 Sum_probs=29.9
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHH
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~ 83 (601)
|+++-||||+|||.++++|.+.. . +. .+||.-+.-.+.+..
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll~---~--~~-s~vv~D~Kge~~~~t 41 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLLT---W--PG-SVVVLDPKGENFELT 41 (384)
T ss_pred CeeEecCCCCCCccEEEccchhc---C--CC-CEEEEccchhHHHHH
Confidence 67899999999999999986642 2 24 577777665555443
No 355
>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=76.04 E-value=4.2 Score=39.45 Aligned_cols=25 Identities=36% Similarity=0.376 Sum_probs=19.9
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHH
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYV 60 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~ 60 (601)
...++-||.|+|||.-.+.-|++.+
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va 26 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMA 26 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHh
Confidence 4678999999999998887666544
No 356
>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=76.01 E-value=3.6 Score=40.25 Aligned_cols=35 Identities=29% Similarity=0.500 Sum_probs=28.5
Q ss_pred CCCHHHHHHHHHHHH-HHhhcCcEEEEccCCChhHH
Q 007505 16 NIYPEQYSYMLELKR-ALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~-~l~~~~~~~~EapTGtGKTl 50 (601)
+..|.=..|++.|.+ ++....++++.+|||.|||+
T Consensus 188 trnp~fnrmieqierva~rsr~p~ll~gptgagksf 223 (531)
T COG4650 188 TRNPHFNRMIEQIERVAIRSRAPILLNGPTGAGKSF 223 (531)
T ss_pred ccChHHHHHHHHHHHHHhhccCCeEeecCCCcchhH
Confidence 345666788888887 56677899999999999997
No 357
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=75.92 E-value=0.99 Score=45.62 Aligned_cols=48 Identities=19% Similarity=0.207 Sum_probs=35.6
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhC--------CCCCcEEEEEcccchhHHHHHH
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSK--------PENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~--------~~~~~kvv~~t~T~~~~~q~~~ 85 (601)
.++=-|-||+|||+.+.+|.+-++... .+|+ =-.|.+++..+..|..+
T Consensus 209 DmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP-~gLiicPSRELArQt~~ 264 (610)
T KOG0341|consen 209 DMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGP-YGLIICPSRELARQTHD 264 (610)
T ss_pred ceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCC-eeEEEcCcHHHHHHHHH
Confidence 455568899999999999998887743 3455 44666677778777655
No 358
>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=75.88 E-value=3.8 Score=42.93 Aligned_cols=35 Identities=17% Similarity=0.198 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHH
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L 53 (601)
..+...+.....-++++.|++.=+|+|||||-.+-
T Consensus 193 r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~ 227 (449)
T TIGR02688 193 RQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYN 227 (449)
T ss_pred HHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHH
Confidence 33444444555667888999999999999996444
No 359
>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=75.83 E-value=3 Score=44.60 Aligned_cols=47 Identities=15% Similarity=0.246 Sum_probs=31.0
Q ss_pred HHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 27 ~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
.+...+..|...+|-|+||+|||.-.+--+...+... +. +|+|.|-=
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 3334556667889999999999987775454444432 45 67666433
No 360
>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=75.71 E-value=2.7 Score=42.62 Aligned_cols=25 Identities=28% Similarity=0.381 Sum_probs=20.6
Q ss_pred HHHHHHHhhcCcEEEEccCCChhHH
Q 007505 26 LELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 26 ~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
.-+.-++..+.++++-+|||+|||-
T Consensus 135 ~~l~~~v~~~~~ili~G~tGsGKTT 159 (308)
T TIGR02788 135 EFLRLAIASRKNIIISGGTGSGKTT 159 (308)
T ss_pred HHHHHHhhCCCEEEEECCCCCCHHH
Confidence 3344567788999999999999997
No 361
>PF12846 AAA_10: AAA-like domain
Probab=75.62 E-value=3.6 Score=41.16 Aligned_cols=38 Identities=26% Similarity=0.440 Sum_probs=24.8
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
+.|.++-++||+|||.....- +...... +. ++++-=++
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l-~~~~~~~--g~-~~~i~D~~ 38 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNL-LEQLIRR--GP-RVVIFDPK 38 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHH-HHHHHHc--CC-CEEEEcCC
Confidence 358999999999999877743 3333322 34 66666333
No 362
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=75.47 E-value=6.1 Score=40.76 Aligned_cols=64 Identities=25% Similarity=0.289 Sum_probs=39.7
Q ss_pred HHHHHHH---HHHHHHHhhcC--cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEE---cccchhHHHHHHHHHh
Q 007505 19 PEQYSYM---LELKRALDAKG--HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC---TRTVHEMEKTLAELKL 89 (601)
Q Consensus 19 ~~Q~~~~---~~v~~~l~~~~--~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~---t~T~~~~~q~~~el~~ 89 (601)
-+|..+. .-+.++++.+. .+|+-+|+|||||-..- +|+- .. +. .+.-. |.++..+++++++-++
T Consensus 27 vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~--liA~--~~--~~-~f~~~sAv~~gvkdlr~i~e~a~~ 98 (436)
T COG2256 27 VGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLAR--LIAG--TT--NA-AFEALSAVTSGVKDLREIIEEARK 98 (436)
T ss_pred cChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHH--HHHH--hh--CC-ceEEeccccccHHHHHHHHHHHHH
Confidence 4677776 34556777664 79999999999996222 2322 11 22 34433 4556677777776654
No 363
>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=75.46 E-value=6.3 Score=40.97 Aligned_cols=32 Identities=31% Similarity=0.333 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHH-hhcCcEEEEccCCChhHHH
Q 007505 20 EQYSYMLELKRAL-DAKGHCLLEMPTGTGKTIA 51 (601)
Q Consensus 20 ~Q~~~~~~v~~~l-~~~~~~~~EapTGtGKTla 51 (601)
.|.-+...+.+.+ ..++.+++-+|||+|||-.
T Consensus 133 ~~lgl~~~~~~~l~~~~GlilI~G~TGSGKTT~ 165 (372)
T TIGR02525 133 KQMGIEPDLFNSLLPAAGLGLICGETGSGKSTL 165 (372)
T ss_pred HHcCCCHHHHHHHHhcCCEEEEECCCCCCHHHH
Confidence 3444444444433 3456889999999999973
No 364
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=75.33 E-value=3.5 Score=45.73 Aligned_cols=35 Identities=23% Similarity=0.218 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L~ 54 (601)
+|..+...+..++..++ .+++.+|.|+|||....+
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 489999999999986654
No 365
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=75.31 E-value=2.5 Score=46.80 Aligned_cols=36 Identities=28% Similarity=0.267 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 19 PEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
-+|......+..++.+++ | .|+.+|.|+|||....+
T Consensus 19 iGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~ 57 (576)
T PRK14965 19 TGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARI 57 (576)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 389999999999998874 4 48999999999986664
No 366
>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=75.30 E-value=3.6 Score=43.79 Aligned_cols=43 Identities=14% Similarity=0.237 Sum_probs=29.8
Q ss_pred HHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 29 KRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 29 ~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
...+..|...++-|+||+|||.-.+--+...+... +. +|+|.+
T Consensus 188 ~~G~~~g~liviag~pg~GKT~~al~ia~~~a~~~--g~-~v~~fS 230 (421)
T TIGR03600 188 TNGLVKGDLIVIGARPSMGKTTLALNIAENVALRE--GK-PVLFFS 230 (421)
T ss_pred hcCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhC--CC-cEEEEE
Confidence 33555667899999999999997776555555333 45 665554
No 367
>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=75.11 E-value=5.9 Score=37.43 Aligned_cols=39 Identities=21% Similarity=0.250 Sum_probs=25.5
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
.+....+.+|+|+|||.-.+..+...+. . +. +++|.+-.
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 4568999999999999976654443333 2 45 55555443
No 368
>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=75.06 E-value=2.1 Score=36.79 Aligned_cols=16 Identities=50% Similarity=0.578 Sum_probs=13.1
Q ss_pred EEEEccCCChhHHHHH
Q 007505 38 CLLEMPTGTGKTIALL 53 (601)
Q Consensus 38 ~~~EapTGtGKTla~L 53 (601)
+++.+|+|+|||...-
T Consensus 1 ill~G~~G~GKT~l~~ 16 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLAR 16 (132)
T ss_dssp EEEESSTTSSHHHHHH
T ss_pred CEEECcCCCCeeHHHH
Confidence 5789999999998433
No 369
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=75.05 E-value=4.3 Score=43.14 Aligned_cols=39 Identities=36% Similarity=0.402 Sum_probs=23.0
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~ 75 (601)
++.+++-+|||+|||-...--|..++... .+. +|.+.+-
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~-~g~-~V~li~~ 259 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLY-GKK-KVALITL 259 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhc-CCC-eEEEEEC
Confidence 45678889999999975553233333112 245 6765553
No 370
>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=74.96 E-value=6.6 Score=34.86 Aligned_cols=38 Identities=29% Similarity=0.351 Sum_probs=23.4
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccch
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~ 78 (601)
+.++.+|+|+|||.-...-+-..+. .+. +++|.+....
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 4688999999999855433222222 245 6766655433
No 371
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=74.72 E-value=6.4 Score=39.36 Aligned_cols=46 Identities=24% Similarity=0.241 Sum_probs=30.4
Q ss_pred HHHhhcCcEEEEccCCChhHHHHHHHHHHHHH-------hCCCCCcEEEEEccc
Q 007505 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVL-------SKPENPVKLIYCTRT 76 (601)
Q Consensus 30 ~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~-------~~~~~~~kvv~~t~T 76 (601)
+.+.++-..++-++.|+|||+..|.-.|+.+. ..++.+ +|+|.|--
T Consensus 84 ~~fr~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epG-kvlyvslE 136 (402)
T COG3598 84 EFFRKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPG-KVLYVSLE 136 (402)
T ss_pred HHhhcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCC-eEEEEEec
Confidence 34556666788899999999987765554332 123345 78887643
No 372
>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=74.65 E-value=3.8 Score=43.40 Aligned_cols=42 Identities=19% Similarity=0.252 Sum_probs=28.7
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhH
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~ 80 (601)
.+|+++-||||+|||... -..+.++.+. +. ++||.=++-...
T Consensus 42 ~~h~~i~g~tGsGKt~~i-~~l~~~~~~~--~~-~~vi~D~kg~~~ 83 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQI-RELLASIRAR--GD-RAIIYDPNGGFV 83 (410)
T ss_pred hccEEEEcCCCCCHHHHH-HHHHHHHHhc--CC-CEEEEeCCcchh
Confidence 368999999999999853 3344555544 45 777776665443
No 373
>PHA02624 large T antigen; Provisional
Probab=74.48 E-value=4.9 Score=44.00 Aligned_cols=49 Identities=14% Similarity=0.080 Sum_probs=29.3
Q ss_pred HHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchh
Q 007505 25 MLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHE 79 (601)
Q Consensus 25 ~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~ 79 (601)
++.+.+.+-++..+++.+|.|||||. ++.+|.-.. .|. -+-|.++|..+
T Consensus 421 lk~~l~giPKk~~il~~GPpnTGKTt--f~~sLl~~L---~G~-vlsVNsPt~ks 469 (647)
T PHA02624 421 LKLIVENVPKRRYWLFKGPVNSGKTT--LAAALLDLC---GGK-SLNVNCPPDKL 469 (647)
T ss_pred HHHHHhcCCCCeEEEEECCCCCCHHH--HHHHHHHHc---CCe-EEEeeCCcchh
Confidence 33334444456789999999999997 655554322 133 34444556444
No 374
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=74.38 E-value=4.2 Score=41.99 Aligned_cols=34 Identities=24% Similarity=0.201 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHH
Q 007505 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALL 53 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L 53 (601)
+|.+....+..++..++ .+++.+|+|+|||....
T Consensus 27 Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~ 63 (351)
T PRK09112 27 GHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAF 63 (351)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHH
Confidence 78899999999999886 48999999999997444
No 375
>PRK10865 protein disaggregation chaperone; Provisional
Probab=74.23 E-value=2.6 Score=49.08 Aligned_cols=36 Identities=28% Similarity=0.252 Sum_probs=28.6
Q ss_pred CHHHHHHHHHHHHHHhhc-----------CcEEEEccCCChhHHHHH
Q 007505 18 YPEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~-----------~~~~~EapTGtGKTla~L 53 (601)
.-+|...+..|.+++... ..+++.+|||||||...-
T Consensus 570 viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~ 616 (857)
T PRK10865 570 VIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCK 616 (857)
T ss_pred EeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHH
Confidence 358999999999888742 358999999999998443
No 376
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=74.12 E-value=1.3 Score=49.75 Aligned_cols=40 Identities=18% Similarity=0.143 Sum_probs=29.4
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhH
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~ 80 (601)
..|+++-||||+|||.++++|.+.- . +. .+||.-+.-...
T Consensus 139 ~~hvlviApTgSGKgvg~VIPnLL~---~--~g-S~VV~DpKGE~~ 178 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPTLLT---F--KG-SVIALDVKGELF 178 (670)
T ss_pred CceEEEEecCCCCceeeehHhHHhc---C--CC-CEEEEeCCchHH
Confidence 4699999999999999999997642 2 24 566666664443
No 377
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=73.85 E-value=2.6 Score=47.57 Aligned_cols=35 Identities=29% Similarity=0.248 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHhhc-----------CcEEEEccCCChhHHHHH
Q 007505 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~~~EapTGtGKTla~L 53 (601)
-+|.+.+..|.+++... +..++-+|||+|||--..
T Consensus 494 iGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAk 539 (786)
T COG0542 494 IGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAK 539 (786)
T ss_pred eChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHH
Confidence 48999999999999752 358889999999998433
No 378
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=73.85 E-value=5.6 Score=40.43 Aligned_cols=40 Identities=33% Similarity=0.309 Sum_probs=33.4
Q ss_pred CCCCHHHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 15 DNIYPEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 15 ~~~r~~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
...||-|......+..++.+++ | .++.+|.|+||+...+.
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 88999999999985553
No 379
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=73.82 E-value=2.9 Score=38.25 Aligned_cols=15 Identities=47% Similarity=0.680 Sum_probs=13.3
Q ss_pred CcEEEEccCCChhHH
Q 007505 36 GHCLLEMPTGTGKTI 50 (601)
Q Consensus 36 ~~~~~EapTGtGKTl 50 (601)
.++++-+|||+|||.
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 380
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=73.81 E-value=12 Score=39.11 Aligned_cols=40 Identities=25% Similarity=0.365 Sum_probs=23.7
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhC-CCCCcEE-EEEccc
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKL-IYCTRT 76 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~-~~~~~kv-v~~t~T 76 (601)
.++++-+|||+|||-...--|..+.... ..++ +| ++++-|
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~-~V~lit~Dt 216 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSL-NIKIITIDN 216 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCC-eEEEEeccC
Confidence 4788999999999985543232232221 1245 55 455555
No 381
>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=73.78 E-value=5.3 Score=41.19 Aligned_cols=19 Identities=42% Similarity=0.742 Sum_probs=16.1
Q ss_pred hcCcEEEEccCCChhHHHH
Q 007505 34 AKGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~ 52 (601)
.++.+++.+|||+|||-..
T Consensus 121 ~~g~ili~G~tGSGKTT~l 139 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTL 139 (343)
T ss_pred cCcEEEEECCCCCCHHHHH
Confidence 4678999999999999744
No 382
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.76 E-value=4.1 Score=45.16 Aligned_cols=35 Identities=29% Similarity=0.289 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
+|..+.+.+..++.+++ | +|+.+|.|+|||....+
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 59999999999975553
No 383
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=73.30 E-value=10 Score=38.90 Aligned_cols=52 Identities=15% Similarity=0.138 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHhhc----CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcc
Q 007505 19 PEQYSYMLELKRALDAK----GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTR 75 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~----~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~ 75 (601)
...++.+.-|.+.+.++ +.+++-+|+|||||.-.+ +.++....+- +.+-.+.
T Consensus 30 ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~----~ia~eLG~~~-PF~~isg 85 (398)
T PF06068_consen 30 EKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAM----AIAKELGEDV-PFVSISG 85 (398)
T ss_dssp HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHH----HHHHHCTTTS--EEEEEG
T ss_pred HHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHH----HHHHHhCCCC-CeeEccc
Confidence 34567788888888875 478999999999997333 3345543222 4444433
No 384
>PRK06620 hypothetical protein; Validated
Probab=73.21 E-value=3.2 Score=39.61 Aligned_cols=29 Identities=17% Similarity=0.236 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHhhc-------CcEEEEccCCChhHH
Q 007505 22 YSYMLELKRALDAK-------GHCLLEMPTGTGKTI 50 (601)
Q Consensus 22 ~~~~~~v~~~l~~~-------~~~~~EapTGtGKTl 50 (601)
.+.+....+.+.++ ..+++.+|+|+|||-
T Consensus 24 N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKTh 59 (214)
T PRK06620 24 NDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTY 59 (214)
T ss_pred HHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHH
Confidence 34455555555542 348999999999997
No 385
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=73.07 E-value=4.3 Score=45.42 Aligned_cols=70 Identities=13% Similarity=0.077 Sum_probs=41.5
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhhhhcccCCCccceEEEeecCccc
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRKN 114 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~~~~~~~~~~~~~~~~~l~~r~~ 114 (601)
..|+++-||||+|||.++.+|.+. .. +. .+|+.-+ +...-.+....++- .+.++.+.-..+...
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnLL---~~--~g-S~VV~Dp-KgEl~~~Ta~~R~~---------~G~~V~vfdP~~~~~ 287 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTAL---KW--GG-PLVVLDP-STEVAPMVSEHRRD---------AGREVIVLDPTNPGT 287 (641)
T ss_pred CceEEEEeCCCCCccceEehhhhh---cC--CC-CEEEEeC-cHHHHHHHHHHHHH---------CCCeEEEEeCCCCcc
Confidence 469999999999999999999763 11 23 4555544 34444444544431 133443343444444
Q ss_pred cccchhh
Q 007505 115 LCVNSRV 121 (601)
Q Consensus 115 lC~~~~~ 121 (601)
|-|+..
T Consensus 288 -~~NPLd 293 (641)
T PRK13822 288 -GFNVLD 293 (641)
T ss_pred -CCCchh
Confidence 666653
No 386
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=73.07 E-value=4.3 Score=45.70 Aligned_cols=35 Identities=31% Similarity=0.374 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
||......+..++..++ | .|+.+|.|+|||..+..
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 48999999999986654
No 387
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=73.04 E-value=4 Score=44.26 Aligned_cols=53 Identities=15% Similarity=0.238 Sum_probs=31.5
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
|-.+...+|.+|+|||||.-.+--+..-+... +. +++|.|-- .-.+++++...
T Consensus 18 lp~g~~~Li~G~pGsGKT~la~qfl~~g~~~~--ge-~~lyvs~e-E~~~~l~~~~~ 70 (484)
T TIGR02655 18 LPIGRSTLVSGTSGTGKTLFSIQFLYNGIIHF--DE-PGVFVTFE-ESPQDIIKNAR 70 (484)
T ss_pred CCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhC--CC-CEEEEEEe-cCHHHHHHHHH
Confidence 33467899999999999985554333333322 45 66666532 23345555433
No 388
>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=72.94 E-value=6.4 Score=43.57 Aligned_cols=31 Identities=32% Similarity=0.523 Sum_probs=21.2
Q ss_pred HHHHh-hcCcEEEEccCCChhHHHHHHHHHHHH
Q 007505 29 KRALD-AKGHCLLEMPTGTGKTIALLSLITSYV 60 (601)
Q Consensus 29 ~~~l~-~~~~~~~EapTGtGKTla~L~~~l~~~ 60 (601)
.+++. .++.+++.+|||+|||-.+ .+++.+.
T Consensus 309 ~~~~~~~~Glilv~G~tGSGKTTtl-~a~l~~~ 340 (564)
T TIGR02538 309 LEAIHKPQGMVLVTGPTGSGKTVSL-YTALNIL 340 (564)
T ss_pred HHHHHhcCCeEEEECCCCCCHHHHH-HHHHHhh
Confidence 34444 3568899999999999754 4455544
No 389
>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=72.89 E-value=32 Score=39.63 Aligned_cols=57 Identities=11% Similarity=0.096 Sum_probs=37.0
Q ss_pred HHHHHHhhcccCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecC-CchhHH-----HHHHHHHH
Q 007505 521 GKLLVEMVSIVPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETT-----LALDNYRK 586 (601)
Q Consensus 521 ~~~i~~~~~~~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~-----~~l~~fk~ 586 (601)
...+..+....++.+|||+.+-..-+.+++.+++.++ +++-++ ...++. .++++|+.
T Consensus 261 v~~L~~ll~e~g~~vLVF~NTv~~Aq~L~~~L~~~g~---------~lLHG~m~q~dR~~~~~~~il~~Fk~ 323 (844)
T TIGR02621 261 VKELNLLMKDSGGAILVFCRTVKHVRKVFAKLPKEKF---------ELLTGTLRGAERDDLVKKEIFNRFLP 323 (844)
T ss_pred HHHHHHHHhhCCCcEEEEECCHHHHHHHHHHHHhcCC---------eEeeCCCCHHHHhhHHHHHHHHHHhc
Confidence 3334444444567799999999999999999876432 233221 223444 56888986
No 390
>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=72.69 E-value=3.6 Score=40.62 Aligned_cols=25 Identities=40% Similarity=0.708 Sum_probs=18.3
Q ss_pred HHHHHhh-cCcEEEEccCCChhHHHH
Q 007505 28 LKRALDA-KGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 28 v~~~l~~-~~~~~~EapTGtGKTla~ 52 (601)
+.+++.. ++.+++-+|||+|||-.+
T Consensus 72 l~~~~~~~~GlilisG~tGSGKTT~l 97 (264)
T cd01129 72 FRKLLEKPHGIILVTGPTGSGKTTTL 97 (264)
T ss_pred HHHHHhcCCCEEEEECCCCCcHHHHH
Confidence 3444443 468999999999999744
No 391
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=72.40 E-value=40 Score=36.30 Aligned_cols=57 Identities=18% Similarity=0.241 Sum_probs=39.7
Q ss_pred CCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEe-cCCchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 532 PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIE-TQDVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 532 ~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E-~~~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
...+|||++|....+.+++.+...|+ ....+- .-...++..+++.|++ |+-.||+|+
T Consensus 245 ~~~~lVF~~t~~~~~~l~~~L~~~g~-------~~~~lhg~~~~~~R~~~l~~F~~----g~~~iLVaT 302 (456)
T PRK10590 245 WQQVLVFTRTKHGANHLAEQLNKDGI-------RSAAIHGNKSQGARTRALADFKS----GDIRVLVAT 302 (456)
T ss_pred CCcEEEEcCcHHHHHHHHHHHHHCCC-------CEEEEECCCCHHHHHHHHHHHHc----CCCcEEEEc
Confidence 46799999999999999998876432 222222 2233456778999986 466788775
No 392
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=72.26 E-value=4.7 Score=44.98 Aligned_cols=35 Identities=29% Similarity=0.224 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHhhcCc---EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKGH---CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~~---~~~EapTGtGKTla~L~ 54 (601)
||......+..++.+++. .|+.+|.|+|||....+
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 58999999999985554
No 393
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=72.03 E-value=4.6 Score=45.48 Aligned_cols=35 Identities=31% Similarity=0.290 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
+|..+.+.+..++..++ | +|+.+|.|||||....+
T Consensus 20 GQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAri 57 (830)
T PRK07003 20 GQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRI 57 (830)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999999874 4 48999999999975553
No 394
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=72.01 E-value=20 Score=39.67 Aligned_cols=58 Identities=17% Similarity=0.061 Sum_probs=38.0
Q ss_pred CHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 18 YPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
.+.|..=..=+....++|-++|+--..|-|||.-.+. .|+++....+---+..|.|+.
T Consensus 569 KEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsis-vlAhLaE~~nIwGPFLVVtpa 626 (1185)
T KOG0388|consen 569 KEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSIS-VLAHLAETHNIWGPFLVVTPA 626 (1185)
T ss_pred HHHhhccHHHHHHHHHccccceehhhhccchhHHHHH-HHHHHHHhccCCCceEEeehH
Confidence 4567666667777778888999999999999986654 455554432211144444444
No 395
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=71.96 E-value=11 Score=42.47 Aligned_cols=54 Identities=13% Similarity=0.043 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccch
Q 007505 22 YSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (601)
Q Consensus 22 ~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~ 78 (601)
.++.+.+.++...+.++++.++|||||++.. -++........++ =|.|-+...+
T Consensus 335 ~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A--~~ih~~s~r~~~p-fv~vnc~~~~ 388 (638)
T PRK11388 335 RRLIHFGRQAAKSSFPVLLCGEEGVGKALLA--QAIHNESERAAGP-YIAVNCQLYP 388 (638)
T ss_pred HHHHHHHHHHhCcCCCEEEECCCCcCHHHHH--HHHHHhCCccCCC-eEEEECCCCC
Confidence 3344455555556789999999999999832 2343322222233 4555555554
No 396
>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=71.96 E-value=6.9 Score=47.02 Aligned_cols=53 Identities=26% Similarity=0.411 Sum_probs=35.5
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhC-C-CCCcEEEEEcccchhHHHHHHHHH
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~-~-~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.+..+|||.-|||||.+.-.-.+...... + ..+ +|.+.|=|.+-.+.+-+-++
T Consensus 9 ~G~~lieAsAGtGKT~ti~~~~lrll~~~~~~~~~-~iLvvTFT~aAt~el~~RIr 63 (1087)
T TIGR00609 9 NGTFLIEASAGTGKTFTIAQLYLRLLLEGGPLTVE-EILVVTFTNAATEELKTRIR 63 (1087)
T ss_pred CCCEEEEECCCCCHHHHHHHHHHHHHhcCCCCChh-hEEEEehhHHHHHHHHHHHH
Confidence 35789999999999996655444443322 1 124 89999999876655555444
No 397
>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=71.91 E-value=5.8 Score=43.20 Aligned_cols=21 Identities=43% Similarity=0.561 Sum_probs=16.4
Q ss_pred CcEEEEccCCChhHHHHHHHHHH
Q 007505 36 GHCLLEMPTGTGKTIALLSLITS 58 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~ 58 (601)
+.+++.+|+|||||. |+-+++
T Consensus 89 ~giLL~GppGtGKT~--la~alA 109 (495)
T TIGR01241 89 KGVLLVGPPGTGKTL--LAKAVA 109 (495)
T ss_pred CcEEEECCCCCCHHH--HHHHHH
Confidence 369999999999998 444554
No 398
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=71.85 E-value=2.8 Score=45.63 Aligned_cols=24 Identities=33% Similarity=0.385 Sum_probs=0.0
Q ss_pred HHHHHHHhhcCcEEEEccCCChhH
Q 007505 26 LELKRALDAKGHCLLEMPTGTGKT 49 (601)
Q Consensus 26 ~~v~~~l~~~~~~~~EapTGtGKT 49 (601)
.++..|+.+.+.++|++.||+|||
T Consensus 271 dell~av~e~QVLiI~GeTGSGKT 294 (902)
T KOG0923|consen 271 DELLKAVKEHQVLIIVGETGSGKT 294 (902)
T ss_pred HHHHHHHHhCcEEEEEcCCCCCcc
No 399
>PRK13764 ATPase; Provisional
Probab=71.83 E-value=9.1 Score=42.35 Aligned_cols=38 Identities=26% Similarity=0.389 Sum_probs=23.8
Q ss_pred CCCCCCHHHHHHHHHHHHHH-hhcCcEEEEccCCChhHH
Q 007505 13 PYDNIYPEQYSYMLELKRAL-DAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 13 p~~~~r~~Q~~~~~~v~~~l-~~~~~~~~EapTGtGKTl 50 (601)
|...+.-.+..+...+.+.+ ..++++++-+|||+|||-
T Consensus 234 p~~~~~Le~l~l~~~l~~~l~~~~~~ILIsG~TGSGKTT 272 (602)
T PRK13764 234 PVVKLSLEDYNLSEKLKERLEERAEGILIAGAPGAGKST 272 (602)
T ss_pred cCCCCCHHHhCCCHHHHHHHHhcCCEEEEECCCCCCHHH
Confidence 44333334444333444444 446789999999999997
No 400
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=71.75 E-value=5.4 Score=29.58 Aligned_cols=26 Identities=31% Similarity=0.346 Sum_probs=19.9
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHh
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLS 62 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~ 62 (601)
+...++-+|+|+|||- |+=|+.|+..
T Consensus 23 g~~tli~G~nGsGKST--llDAi~~~L~ 48 (62)
T PF13555_consen 23 GDVTLITGPNGSGKST--LLDAIQTVLY 48 (62)
T ss_pred CcEEEEECCCCCCHHH--HHHHHHHHHc
Confidence 3479999999999997 5556666553
No 401
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=71.70 E-value=7.2 Score=40.67 Aligned_cols=43 Identities=21% Similarity=0.206 Sum_probs=26.4
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhC-CCCCcEEEEEcccchh
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSK-PENPVKLIYCTRTVHE 79 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~-~~~~~kvv~~t~T~~~ 79 (601)
.+.++++.++|||||++..-. |.+.... .+++ -|-|=+...+.
T Consensus 100 ~~~~vLi~GetGtGKel~A~~--iH~~s~r~~~~P-FI~~NCa~~~e 143 (403)
T COG1221 100 SGLPVLIIGETGTGKELFARL--IHALSARRAEAP-FIAFNCAAYSE 143 (403)
T ss_pred CCCcEEEecCCCccHHHHHHH--HHHhhhcccCCC-EEEEEHHHhCc
Confidence 367999999999999985443 3322222 2334 55555655544
No 402
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=71.66 E-value=1.3 Score=49.13 Aligned_cols=40 Identities=20% Similarity=0.297 Sum_probs=29.2
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhH
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEM 80 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~ 80 (601)
..|+++-||||+|||.++.+|.|... +. -+||.-+.-.+.
T Consensus 158 ~~hvLviapTgSGKg~g~VIPnLL~~-----~~-S~VV~DpKGEl~ 197 (606)
T PRK13897 158 FQHALLFAPTGSGKGVGFVIPNLLFW-----ED-SVVVHDIKLENY 197 (606)
T ss_pred CceEEEEcCCCCCcceEEehhhHHhC-----CC-CEEEEeCcHHHH
Confidence 45899999999999999999977532 23 466665554444
No 403
>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=71.56 E-value=9.6 Score=37.89 Aligned_cols=64 Identities=14% Similarity=0.027 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHhh----cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHH
Q 007505 22 YSYMLELKRALDA----KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 22 ~~~~~~v~~~l~~----~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
...+++|.+.|.. ...+.|-++.|+|||-.+.-.+-.......-+. .+++...+.....++...
T Consensus 2 e~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~-v~wv~~~~~~~~~~~~~~ 69 (287)
T PF00931_consen 2 EKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDG-VIWVSLSKNPSLEQLLEQ 69 (287)
T ss_dssp HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTE-EEEEEEES-SCCHHHHHH
T ss_pred HHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccccccccccc-cccccccccccccccccc
Confidence 3456777788776 357999999999999855432211111111122 455555544444555554
No 404
>PF05729 NACHT: NACHT domain
Probab=71.56 E-value=6.4 Score=35.19 Aligned_cols=25 Identities=20% Similarity=0.203 Sum_probs=17.4
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHH
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVL 61 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~ 61 (601)
.++|.|++|+|||...---+-.|..
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~ 26 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAE 26 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHh
Confidence 5789999999999854433333443
No 405
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=71.43 E-value=6.5 Score=34.76 Aligned_cols=56 Identities=23% Similarity=0.079 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHH
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEME 81 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~ 81 (601)
....++...+.+.+..+..++++++=|.|||- |+=++. +.. +. +.-|.+||=++.+
T Consensus 9 ~~t~~lg~~l~~~l~~g~Vv~L~GdLGAGKTt--f~rgi~--~~L--g~-~~~V~SPTFtlv~ 64 (149)
T COG0802 9 EATLALGERLAEALKAGDVVLLSGDLGAGKTT--LVRGIA--KGL--GV-DGNVKSPTFTLVE 64 (149)
T ss_pred HHHHHHHHHHHhhCCCCCEEEEEcCCcCChHH--HHHHHH--HHc--CC-CCcccCCCeeeeh
Confidence 45678888999999999999999999999997 554443 333 33 5667788877653
No 406
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=71.42 E-value=1.4 Score=49.21 Aligned_cols=48 Identities=21% Similarity=0.117 Sum_probs=31.6
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
...|+++-||||+|||.++.+|.|.-. .. .+||.-.. -..-++....+
T Consensus 143 g~~hvLviApTrSGKgvg~VIPnLL~~-----~~-S~VV~D~K-GEl~~~Ta~~R 190 (663)
T PRK13876 143 GPEHVLCFAPTRSGKGVGLVVPTLLTW-----PG-SAIVHDIK-GENWQLTAGFR 190 (663)
T ss_pred CCceEEEEecCCCCcceeEehhhHHhC-----CC-CEEEEeCc-chHHHHHHHHH
Confidence 346999999999999999999976421 23 45555444 33334444333
No 407
>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=71.40 E-value=9.7 Score=35.52 Aligned_cols=50 Identities=24% Similarity=0.290 Sum_probs=32.2
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEE---cccchhHHHHHHHHHhh
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC---TRTVHEMEKTLAELKLL 90 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~---t~T~~~~~q~~~el~~l 90 (601)
-+.+-+..|+|||.+.|..|-.... .|. .|||. |...+...++++.|+.+
T Consensus 7 kIflG~apGVGKTy~ML~ea~~l~~---~G~-DVViG~vethgR~et~~l~~gLe~i 59 (211)
T PF02702_consen 7 KIFLGAAPGVGKTYAMLQEAHRLKE---QGV-DVVIGYVETHGRPETEALLEGLEVI 59 (211)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHH---TT---EEEEE---TT-HHHHHHHCTS-B-
T ss_pred EEEEecCCCCCHHHHHHHHHHHHHH---CCC-CEEEEEecCCCcHHHHHHHcCCCcC
Confidence 4778899999999999987654433 245 66665 44457777777766654
No 408
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=71.37 E-value=46 Score=35.37 Aligned_cols=58 Identities=16% Similarity=0.297 Sum_probs=40.6
Q ss_pred cCCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecC-CchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 531 VPDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 531 ~~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
.++.+|||+++-...+.+++.+...| .+..++-+. ...++..++++|++ |+-.||+|.
T Consensus 254 ~~~~~lVF~~t~~~~~~l~~~L~~~g-------~~v~~lhg~~~~~~R~~~l~~F~~----g~~~vLVaT 312 (423)
T PRK04837 254 WPDRAIIFANTKHRCEEIWGHLAADG-------HRVGLLTGDVAQKKRLRILEEFTR----GDLDILVAT 312 (423)
T ss_pred CCCeEEEEECCHHHHHHHHHHHHhCC-------CcEEEecCCCChhHHHHHHHHHHc----CCCcEEEEe
Confidence 46889999999999999999887643 222333221 23456778999986 466777764
No 409
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=71.32 E-value=9.7 Score=42.10 Aligned_cols=38 Identities=16% Similarity=0.118 Sum_probs=24.1
Q ss_pred CcEEEEccCCChhHHHHHHHHHHH-HHhCCCCCcEEEEEccc
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSY-VLSKPENPVKLIYCTRT 76 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~-~~~~~~~~~kvv~~t~T 76 (601)
..++|-+|+|+|||. |+-|+.. +.....+. +|+|.+..
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 359999999999997 3333333 22221245 78887753
No 410
>PRK08760 replicative DNA helicase; Provisional
Probab=71.08 E-value=4.9 Score=43.38 Aligned_cols=42 Identities=14% Similarity=0.170 Sum_probs=29.0
Q ss_pred HHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 30 RALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 30 ~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
..+..|...+|-|+||+|||.-.|--|...+... +. +|+|-|
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 3455567889999999999997776555555433 45 665554
No 411
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.86 E-value=5 Score=44.81 Aligned_cols=36 Identities=33% Similarity=0.286 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHHH
Q 007505 19 PEQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L~ 54 (601)
.+|.++...+..++..++ .+|+.+|.|+|||.....
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 489999999999998874 568999999999986664
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=70.82 E-value=5.8 Score=37.80 Aligned_cols=39 Identities=23% Similarity=0.259 Sum_probs=26.0
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
+..+...++.+|+|+|||.-.+.-+...+. .+. +++|-+
T Consensus 16 i~~g~i~~i~G~~GsGKT~l~~~~a~~~~~---~g~-~v~yi~ 54 (218)
T cd01394 16 VERGTVTQVYGPPGTGKTNIAIQLAVETAG---QGK-KVAYID 54 (218)
T ss_pred ccCCeEEEEECCCCCCHHHHHHHHHHHHHh---cCC-eEEEEE
Confidence 344568999999999999966654433332 245 676654
No 413
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=70.80 E-value=4.9 Score=42.71 Aligned_cols=17 Identities=41% Similarity=0.542 Sum_probs=14.5
Q ss_pred CcEEEEccCCChhHHHH
Q 007505 36 GHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~ 52 (601)
..+++.+|+|||||+..
T Consensus 218 ~gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLA 234 (438)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 46899999999999843
No 414
>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=70.77 E-value=5.3 Score=41.30 Aligned_cols=35 Identities=31% Similarity=0.293 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHH
Q 007505 19 PEQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALL 53 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L 53 (601)
-+|.+..+.+.+++.+++ ..++.+|+|+|||....
T Consensus 17 ig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~ 54 (355)
T TIGR02397 17 IGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIAR 54 (355)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 588999999999998875 46899999999997554
No 415
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=70.73 E-value=5.3 Score=44.70 Aligned_cols=35 Identities=31% Similarity=0.264 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L~ 54 (601)
+|..+...+..++..++ .+|+.+|.|+|||....+
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 369999999999976554
No 416
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=70.69 E-value=13 Score=40.60 Aligned_cols=53 Identities=13% Similarity=0.151 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccch
Q 007505 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (601)
Q Consensus 23 ~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~ 78 (601)
++.+.+..+-..+.+++|.+++||||+...- ++........++ =+.|-+...+
T Consensus 198 ~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~--~ih~~s~r~~~p-~v~v~c~~~~ 250 (509)
T PRK05022 198 QLKKEIEVVAASDLNVLILGETGVGKELVAR--AIHAASPRADKP-LVYLNCAALP 250 (509)
T ss_pred HHHHHHHHHhCCCCcEEEECCCCccHHHHHH--HHHHhCCcCCCC-eEEEEcccCC
Confidence 3444444444557799999999999998433 444333222233 3445555443
No 417
>PRK05748 replicative DNA helicase; Provisional
Probab=70.68 E-value=4.8 Score=43.25 Aligned_cols=41 Identities=12% Similarity=0.199 Sum_probs=28.1
Q ss_pred HHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 31 ~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
.+..|...+|-|+||+|||.-.+--+...+... +. +|+|.|
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 445567899999999999997775444444332 56 676654
No 418
>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=70.57 E-value=4.5 Score=41.57 Aligned_cols=27 Identities=30% Similarity=0.289 Sum_probs=20.9
Q ss_pred HHHHHHHHHhhcCcEEEEccCCChhHH
Q 007505 24 YMLELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 24 ~~~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
++.-+..++..++++++-+|||+|||-
T Consensus 167 ~~~~L~~~v~~~~~ili~G~tGsGKTT 193 (340)
T TIGR03819 167 VARLLRAIVAARLAFLISGGTGSGKTT 193 (340)
T ss_pred HHHHHHHHHhCCCeEEEECCCCCCHHH
Confidence 334444556678899999999999986
No 419
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=70.54 E-value=6.2 Score=41.01 Aligned_cols=35 Identities=23% Similarity=0.205 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHH
Q 007505 19 PEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALL 53 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L 53 (601)
-+|.+....+.+++..++ | .++.+|.|+||+...+
T Consensus 22 iGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~ 59 (365)
T PRK07471 22 FGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAY 59 (365)
T ss_pred cChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHH
Confidence 389999999999999884 4 8899999999997554
No 420
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=70.37 E-value=5.9 Score=42.51 Aligned_cols=36 Identities=31% Similarity=0.182 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHHH
Q 007505 19 PEQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L~ 54 (601)
-||......+..++..++ ..++.+|+|+|||....+
T Consensus 20 iGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~ 58 (451)
T PRK06305 20 LGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARI 58 (451)
T ss_pred cCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHH
Confidence 389999999999998874 378999999999986664
No 421
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=70.35 E-value=5.7 Score=41.59 Aligned_cols=36 Identities=25% Similarity=0.297 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHhhc-----------CcEEEEccCCChhHHHHHHHHHH
Q 007505 21 QYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITS 58 (601)
Q Consensus 21 Q~~~~~~v~~~l~~~-----------~~~~~EapTGtGKTla~L~~~l~ 58 (601)
=+++++++.+.+..+ .--++-+|+|||||- +++|++
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 247899999999997 777775
No 422
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=70.26 E-value=6.5 Score=39.91 Aligned_cols=37 Identities=41% Similarity=0.432 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHhh--cCc-EEEEccCCChhHHHHHHH
Q 007505 19 PEQYSYMLELKRALDA--KGH-CLLEMPTGTGKTIALLSL 55 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~--~~~-~~~EapTGtGKTla~L~~ 55 (601)
+.|............. ..| +++.+|.|+|||.+.++-
T Consensus 5 ~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~l 44 (325)
T COG0470 5 PWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALAL 44 (325)
T ss_pred cchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHH
Confidence 4444444444444433 357 999999999999987753
No 423
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.23 E-value=5.4 Score=44.32 Aligned_cols=35 Identities=29% Similarity=0.279 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
+|..+...+..++..++ | .++.+|.|+|||-...+
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 89999999999999875 4 49999999999986654
No 424
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=70.22 E-value=3.9 Score=41.10 Aligned_cols=33 Identities=30% Similarity=0.240 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHhhc----------------CcEEEEccCCChhHHH
Q 007505 19 PEQYSYMLELKRALDAK----------------GHCLLEMPTGTGKTIA 51 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~----------------~~~~~EapTGtGKTla 51 (601)
-+|.+.=++|+=||.+. ++++.-+|||+|||-.
T Consensus 18 IGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEI 66 (444)
T COG1220 18 IGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEI 66 (444)
T ss_pred cCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHH
Confidence 36777778888888752 5899999999999973
No 425
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=69.99 E-value=6.2 Score=41.42 Aligned_cols=35 Identities=31% Similarity=0.434 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHhhcC-----------c-EEEEccCCChhHHHHH
Q 007505 19 PEQYSYMLELKRALDAKG-----------H-CLLEMPTGTGKTIALL 53 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~-----------~-~~~EapTGtGKTla~L 53 (601)
-+|....+.+..++..+. | +++.+|.|+|||....
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 489999999999998753 3 7899999999997555
No 426
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=69.90 E-value=8.4 Score=42.13 Aligned_cols=49 Identities=14% Similarity=0.143 Sum_probs=30.6
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
+...++.+|+|+|||.-.+.-+...+. .+. +++|.|-..+ .+|+++.+.
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~---~g~-~~~yis~e~~-~~~i~~~~~ 321 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACR---RGE-RCLLFAFEES-RAQLIRNAR 321 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHh---CCC-cEEEEEecCC-HHHHHHHHH
Confidence 567889999999999855443322222 256 7777765443 445555443
No 427
>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=69.87 E-value=11 Score=39.61 Aligned_cols=53 Identities=9% Similarity=0.202 Sum_probs=39.1
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHH-HHHHHHhh
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK-TLAELKLL 90 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q-~~~el~~l 90 (601)
..+++++.|+|||.+...-.+.++...+.+. +++++-+|...+.+ ++.++..+
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~-~~~~~r~~~~sl~~sv~~~l~~~ 56 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQ-NILAARKVQNSIRDSVFKDIENL 56 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhcCCCc-EEEEEehhhhHHHHHHHHHHHHH
Confidence 5789999999999988887777777642245 88888888775555 55566543
No 428
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=69.78 E-value=17 Score=33.78 Aligned_cols=37 Identities=22% Similarity=0.275 Sum_probs=27.8
Q ss_pred hhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEE
Q 007505 33 DAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (601)
Q Consensus 33 ~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~ 73 (601)
.+++.+++-.|+|.|||-+.+--++..+- .|. +|.+.
T Consensus 20 ~~~g~v~v~~g~GkGKtt~a~g~a~ra~g---~G~-~V~iv 56 (191)
T PRK05986 20 EEKGLLIVHTGNGKGKSTAAFGMALRAVG---HGK-KVGVV 56 (191)
T ss_pred ccCCeEEEECCCCCChHHHHHHHHHHHHH---CCC-eEEEE
Confidence 46678999999999999999976665443 245 66654
No 429
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=69.64 E-value=5.5 Score=45.96 Aligned_cols=36 Identities=36% Similarity=0.373 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLSL 55 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~~ 55 (601)
+|....+.+..++..++ | +|+.+|.|+|||...++-
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 89999999999998874 5 689999999999877754
No 430
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=69.64 E-value=5.3 Score=43.72 Aligned_cols=54 Identities=19% Similarity=0.218 Sum_probs=32.8
Q ss_pred HHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 31 ~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
.+-.|...++.+++|+|||.-.+--+...+... +. +++|.|-.. --+|+++.+.
T Consensus 27 G~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~--ge-~~lyis~ee-~~~~i~~~~~ 80 (509)
T PRK09302 27 GLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRF--DE-PGVFVTFEE-SPEDIIRNVA 80 (509)
T ss_pred CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhc--CC-CEEEEEccC-CHHHHHHHHH
Confidence 344567899999999999986554444444432 45 666654333 2235555443
No 431
>CHL00095 clpC Clp protease ATP binding subunit
Probab=69.63 E-value=5 Score=46.68 Aligned_cols=33 Identities=27% Similarity=0.342 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHhhc-----------CcEEEEccCCChhHHH
Q 007505 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIA 51 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~~~EapTGtGKTla 51 (601)
.+|.+.+..|.+++... ...++-+|||+|||..
T Consensus 512 ~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~l 555 (821)
T CHL00095 512 IGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTEL 555 (821)
T ss_pred cChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHH
Confidence 68999999999998742 1368999999999963
No 432
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.46 E-value=6 Score=42.83 Aligned_cols=36 Identities=31% Similarity=0.288 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhhcC--c-EEEEccCCChhHHHHHH
Q 007505 19 PEQYSYMLELKRALDAKG--H-CLLEMPTGTGKTIALLS 54 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~--~-~~~EapTGtGKTla~L~ 54 (601)
-+|...+..+..++.++. | .++.+|.|+|||....+
T Consensus 19 iGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~ 57 (486)
T PRK14953 19 IGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARI 57 (486)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 389999999999998874 4 47899999999875554
No 433
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=69.42 E-value=5 Score=42.18 Aligned_cols=16 Identities=50% Similarity=0.625 Sum_probs=14.0
Q ss_pred CcEEEEccCCChhHHH
Q 007505 36 GHCLLEMPTGTGKTIA 51 (601)
Q Consensus 36 ~~~~~EapTGtGKTla 51 (601)
+.+++.+|+|||||+.
T Consensus 166 ~gvLL~GppGtGKT~l 181 (389)
T PRK03992 166 KGVLLYGPPGTGKTLL 181 (389)
T ss_pred CceEEECCCCCChHHH
Confidence 4699999999999983
No 434
>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=69.25 E-value=46 Score=35.99 Aligned_cols=60 Identities=8% Similarity=0.122 Sum_probs=40.8
Q ss_pred ccCCeE-EEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 530 IVPDGI-VCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 530 ~~~gg~-LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
..+|.. +||++|-...+.+++.++..|+ .-..+--.-...++..+++.|++ |+-.||+|+
T Consensus 223 ~~~~~~~IIF~~s~~~~e~la~~L~~~g~------~~~~~H~~l~~~eR~~i~~~F~~----g~~~vLVaT 283 (470)
T TIGR00614 223 EFKGKSGIIYCPSRKKSEQVTASLQNLGI------AAGAYHAGLEISARDDVHHKFQR----DEIQVVVAT 283 (470)
T ss_pred hcCCCceEEEECcHHHHHHHHHHHHhcCC------CeeEeeCCCCHHHHHHHHHHHHc----CCCcEEEEe
Confidence 445554 9999999999999999976542 11122222344567788999985 566777775
No 435
>PRK05595 replicative DNA helicase; Provisional
Probab=69.20 E-value=5.8 Score=42.51 Aligned_cols=45 Identities=13% Similarity=0.146 Sum_probs=30.2
Q ss_pred HHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 27 ELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 27 ~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
.+...+..|..++|-|+||.|||.-.+--+..++... +. +|+|.+
T Consensus 193 ~~~~G~~~g~liviaarpg~GKT~~al~ia~~~a~~~--g~-~vl~fS 237 (444)
T PRK05595 193 AKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALRE--GK-SVAIFS 237 (444)
T ss_pred HhcCCCCCCcEEEEEecCCCChHHHHHHHHHHHHHHc--CC-cEEEEe
Confidence 3334556677889999999999997775554444433 55 675554
No 436
>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=69.05 E-value=13 Score=47.31 Aligned_cols=64 Identities=13% Similarity=0.068 Sum_probs=44.3
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHH
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAE 86 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~e 86 (601)
.-++|++.+..+... .+...+|.++.|||||-..-. ++..+... |. +|+.+++|..-..++-++
T Consensus 430 Ls~~Q~~Av~~il~s--~~~v~ii~G~aGTGKTt~l~~-l~~~~~~~--G~-~V~~lAPTgrAA~~L~e~ 493 (1960)
T TIGR02760 430 LSPSNKDAVSTLFTS--TKRFIIINGFGGTGSTEIAQL-LLHLASEQ--GY-EIQIITAGSLSAQELRQK 493 (1960)
T ss_pred CCHHHHHHHHHHHhC--CCCeEEEEECCCCCHHHHHHH-HHHHHHhc--CC-eEEEEeCCHHHHHHHHHH
Confidence 368998777654322 457999999999999975443 33333433 67 999999998766555443
No 437
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=69.01 E-value=50 Score=36.74 Aligned_cols=65 Identities=12% Similarity=0.287 Sum_probs=43.8
Q ss_pred HHHhhccc-CCeEEEEecCHHHHHHHHHHHHhcchHHHHhcCCeeEEecC-CchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 524 LVEMVSIV-PDGIVCFFVSYSYMDEIIATWNDSGILKEIMQHKLVFIETQ-DVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 524 i~~~~~~~-~gg~LVfFpSy~~l~~v~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
+..++... ...+|||+.+-...+.+++.+.+.|+ +..++-++ ...++..+++.|++ |+--||+|+
T Consensus 248 L~~ll~~~~~~k~LVF~nt~~~ae~l~~~L~~~g~-------~v~~lhg~l~~~eR~~il~~Fr~----G~~~VLVaT 314 (572)
T PRK04537 248 LLGLLSRSEGARTMVFVNTKAFVERVARTLERHGY-------RVGVLSGDVPQKKRESLLNRFQK----GQLEILVAT 314 (572)
T ss_pred HHHHHhcccCCcEEEEeCCHHHHHHHHHHHHHcCC-------CEEEEeCCCCHHHHHHHHHHHHc----CCCeEEEEe
Confidence 44444443 45799999999999999999876432 23333222 23456789999986 566788775
No 438
>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=68.98 E-value=6.3 Score=37.20 Aligned_cols=36 Identities=17% Similarity=0.457 Sum_probs=23.1
Q ss_pred HHhhccCcEEEecCccccCHHhhhHhhhccCCCcEEEEeCCCChH
Q 007505 196 RHMVQFANVVVYSYQYLLDPKVAGIISKEMQKESVVVFDEAHNID 240 (601)
Q Consensus 196 r~~~~~adivv~n~~~ll~~~~~~~~~~~l~~~~ilIiDEAHnl~ 240 (601)
.....+-.|-+.+++|+ |.+- + ++++||+|||.|+-
T Consensus 97 ~~~~~~~~Ie~~~~~~i-----RGrt---~-~~~~iIvDEaQN~t 132 (205)
T PF02562_consen 97 EELIQNGKIEIEPLAFI-----RGRT---F-DNAFIIVDEAQNLT 132 (205)
T ss_dssp HHHHHTTSEEEEEGGGG-----TT-----B--SEEEEE-SGGG--
T ss_pred HHHhhcCeEEEEehhhh-----cCcc---c-cceEEEEecccCCC
Confidence 44456778889998873 4322 3 68999999999984
No 439
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=68.87 E-value=12 Score=46.11 Aligned_cols=63 Identities=13% Similarity=0.133 Sum_probs=42.7
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHH--HHHHHHHHhCCCCCcEEEEEcccchhHHHH
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL--SLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L--~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~ 83 (601)
..++|++.+..+... .+.+.+|.++.|||||...- +.++...... .+. +|+.+.+|+.-...+
T Consensus 836 Lt~~Qr~Av~~iLts--~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~-~g~-~V~glAPTgkAa~~L 900 (1623)
T PRK14712 836 LTSGQRAATRMILET--SDRFTVVQGYAGVGKTTQFRAVMSAVNMLPES-ERP-RVVGLGPTHRAVGEM 900 (1623)
T ss_pred cCHHHHHHHHHHHhC--CCceEEEEeCCCCCHHHHHHHHHHHHHHHhhc-cCc-eEEEEechHHHHHHH
Confidence 478999887766432 35799999999999998642 2222211111 245 899999999877665
No 440
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=68.85 E-value=13 Score=35.96 Aligned_cols=21 Identities=29% Similarity=0.426 Sum_probs=15.6
Q ss_pred EEEEEcccchhHHHHHHHHHh
Q 007505 69 KLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 69 kvv~~t~T~~~~~q~~~el~~ 89 (601)
.+++-++|..|.+..++.|+.
T Consensus 190 ~~~~y~P~veQv~kt~~~l~~ 210 (256)
T COG2519 190 VVVVYSPTVEQVEKTVEALRE 210 (256)
T ss_pred EEEEEcCCHHHHHHHHHHHHh
Confidence 677778888887777776665
No 441
>CHL00176 ftsH cell division protein; Validated
Probab=68.67 E-value=6.4 Score=44.09 Aligned_cols=38 Identities=32% Similarity=0.322 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHhhc-----------CcEEEEccCCChhHHHHHHHHHH
Q 007505 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITS 58 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~~~EapTGtGKTla~L~~~l~ 58 (601)
+.+++-+..+.+.+.+. +.+++.+|+|||||+ |.-+++
T Consensus 189 ~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~--LAralA 237 (638)
T CHL00176 189 EEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTL--LAKAIA 237 (638)
T ss_pred HHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHH--HHHHHH
Confidence 45555556666555543 358999999999998 433443
No 442
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.67 E-value=6.3 Score=41.04 Aligned_cols=35 Identities=26% Similarity=0.219 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHH
Q 007505 19 PEQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALL 53 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L 53 (601)
-+|....+.+...+.++. ++++.+|+|+|||....
T Consensus 20 ig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~ 57 (367)
T PRK14970 20 VGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCAR 57 (367)
T ss_pred CCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 489999999999998874 68899999999997554
No 443
>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=68.56 E-value=22 Score=39.89 Aligned_cols=74 Identities=20% Similarity=0.158 Sum_probs=39.2
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccch--hHHHHHHHHHhhhhhhcccCCCccceEEEeecCc
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH--EMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSR 112 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~--~~~q~~~el~~l~~~~~~~~~~~~~~~~~~l~~r 112 (601)
.+|.+|-||||+|||..+ ...+..+... +. .||+.=+... +...+....+.. |...++.+.-++..
T Consensus 176 ~~H~lv~G~TGsGKT~l~-~~l~~q~i~~--g~-~viv~DpKgD~~l~~~~~~~~~~~--------G~~dd~~~f~~~~p 243 (634)
T TIGR03743 176 VGHTLVLGTTGVGKTRLA-ELLITQDIRR--GD-VVIVIDPKGDADLKRRMRAEAKRA--------GRPDRFYYFHPAFP 243 (634)
T ss_pred CCcEEEECCCCCCHHHHH-HHHHHHHHHc--CC-eEEEEeCCCchHHHHHHHHHHHHh--------CCCceEEEEecCCC
Confidence 469999999999999765 2333434433 34 5555544432 333333333321 12233555555554
Q ss_pred cc-cccchh
Q 007505 113 KN-LCVNSR 120 (601)
Q Consensus 113 ~~-lC~~~~ 120 (601)
.. .|.|+.
T Consensus 244 ~~S~~~NPl 252 (634)
T TIGR03743 244 EISVRYNPL 252 (634)
T ss_pred CcCcCcChh
Confidence 54 555554
No 444
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=68.36 E-value=11 Score=42.73 Aligned_cols=67 Identities=24% Similarity=0.285 Sum_probs=47.5
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCC--CCCcEEEEEcccchhHHHHHHHHHhhh
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKP--ENPVKLIYCTRTVHEMEKTLAELKLLH 91 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~--~~~~kvv~~t~T~~~~~q~~~el~~l~ 91 (601)
..|.|+++.... .++++|.||.|+|||-+... -++|..... ... +|...|=|+.-...+.+.+..+.
T Consensus 3 Ln~~Q~~av~~~------~gp~lV~AGaGsGKT~vlt~-Ria~li~~~~v~p~-~Il~vTFTnkAA~em~~Rl~~~~ 71 (655)
T COG0210 3 LNPEQREAVLHP------DGPLLVLAGAGSGKTRVLTE-RIAYLIAAGGVDPE-QILAITFTNKAAAEMRERLLKLL 71 (655)
T ss_pred CCHHHHHHHhcC------CCCeEEEECCCCCchhhHHH-HHHHHHHcCCcChH-HeeeeechHHHHHHHHHHHHHHh
Confidence 468888887664 78999999999999986554 345554431 123 68888888877777777666653
No 445
>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=68.21 E-value=12 Score=40.64 Aligned_cols=16 Identities=44% Similarity=0.571 Sum_probs=14.2
Q ss_pred CcEEEEccCCChhHHH
Q 007505 36 GHCLLEMPTGTGKTIA 51 (601)
Q Consensus 36 ~~~~~EapTGtGKTla 51 (601)
+.+++.+|+|||||+.
T Consensus 217 ~GILLyGPPGTGKT~L 232 (512)
T TIGR03689 217 KGVLLYGPPGCGKTLI 232 (512)
T ss_pred cceEEECCCCCcHHHH
Confidence 4699999999999983
No 446
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=68.16 E-value=3 Score=41.85 Aligned_cols=20 Identities=25% Similarity=0.321 Sum_probs=16.0
Q ss_pred hcCcEEEEccCCChhHHHHH
Q 007505 34 AKGHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L 53 (601)
.++.++|-+|||+|||--.+
T Consensus 3 ~~~ii~I~GpTasGKS~LAl 22 (300)
T PRK14729 3 ENKIVFIFGPTAVGKSNILF 22 (300)
T ss_pred CCcEEEEECCCccCHHHHHH
Confidence 34578999999999998443
No 447
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=68.09 E-value=12 Score=40.89 Aligned_cols=53 Identities=15% Similarity=0.165 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccch
Q 007505 23 SYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (601)
Q Consensus 23 ~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~ 78 (601)
++...+.++-..+.++++.++|||||++.+ -++........++ =+.+-++..+
T Consensus 215 ~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA--~aiH~~s~r~~~p-fv~inca~~~ 267 (520)
T PRK10820 215 QVVEQARKLAMLDAPLLITGDTGTGKDLLA--YACHLRSPRGKKP-FLALNCASIP 267 (520)
T ss_pred HHHHHHHHHhCCCCCEEEECCCCccHHHHH--HHHHHhCCCCCCC-eEEeccccCC
Confidence 344444444456789999999999999832 2343332222122 3555555544
No 448
>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=67.81 E-value=21 Score=42.00 Aligned_cols=73 Identities=16% Similarity=0.193 Sum_probs=40.8
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHhhhhhhcccCCCccceEEEeecCcc
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKLLHNYQTRHLGPAAKILAIGLSSRK 113 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~l~~~~~~~~~~~~~~~~~~l~~r~ 113 (601)
.+.|.+|-||||+|||...-.-+..+.... +. +|||.=.-.+- ..+.+-.+. .+..+..+.++...
T Consensus 474 ~n~n~~I~G~TGSGKS~l~~~li~q~~~~~--~~-~v~IiD~g~sy-~~l~~~~~a----------lGG~~~~I~l~~gs 539 (893)
T TIGR03744 474 KNAHLLILGPTGAGKSATLTNLLMQVMAVH--RP-RLFIVEAGNSF-GLLADYAAR----------LGLSVNRVSLKPGS 539 (893)
T ss_pred CcccEEEECCCCCCHHHHHHHHHHHHHHhc--CC-EEEEEcCCCCH-HHHHHHHHh----------cCCceeEEEecCCC
Confidence 357999999999999985543222222222 45 88887665542 222211121 13333345555555
Q ss_pred ccccchh
Q 007505 114 NLCVNSR 120 (601)
Q Consensus 114 ~lC~~~~ 120 (601)
..|+|+.
T Consensus 540 ~~~lNPf 546 (893)
T TIGR03744 540 GVSLPPF 546 (893)
T ss_pred CcccCch
Confidence 5777765
No 449
>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=67.42 E-value=17 Score=36.92 Aligned_cols=45 Identities=20% Similarity=0.281 Sum_probs=32.7
Q ss_pred CHHHHHHHHHHHHHHhhc--CcEEEEccCCChhHHHHHHHHHHHHHhC
Q 007505 18 YPEQYSYMLELKRALDAK--GHCLLEMPTGTGKTIALLSLITSYVLSK 63 (601)
Q Consensus 18 r~~Q~~~~~~v~~~l~~~--~~~~~EapTGtGKTla~L~~~l~~~~~~ 63 (601)
|+.=.+++..+.++-... ...++-++.|+|||.+++- +++||..+
T Consensus 4 R~~t~el~~~l~~~~~~~~~~r~vL~G~~GsGKS~~L~q-~~~~A~~~ 50 (309)
T PF10236_consen 4 RKPTLELINKLKEADKSSKNNRYVLTGERGSGKSVLLAQ-AVHYAREN 50 (309)
T ss_pred chHHHHHHHHHHHhcccCCceEEEEECCCCCCHHHHHHH-HHHHHHhC
Confidence 555566677766663322 3699999999999997765 57888865
No 450
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=67.25 E-value=9 Score=38.70 Aligned_cols=53 Identities=25% Similarity=0.226 Sum_probs=34.6
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
..++|..++++|. +....+--+|-|||||.-....|.....+ +.++=|++||-
T Consensus 129 kt~~Q~~y~eai~----~~di~fGiGpAGTGKTyLava~av~al~~---~~v~rIiLtRP 181 (348)
T COG1702 129 KTPGQNMYPEAIE----EHDIVFGIGPAGTGKTYLAVAKAVDALGA---GQVRRIILTRP 181 (348)
T ss_pred cChhHHHHHHHHH----hcCeeeeecccccCChhhhHHhHhhhhhh---cccceeeecCc
Confidence 3689999997654 66677778899999998555444443332 22244555554
No 451
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=67.16 E-value=7.4 Score=40.85 Aligned_cols=45 Identities=20% Similarity=0.248 Sum_probs=28.6
Q ss_pred hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHH
Q 007505 34 AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEK 82 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q 82 (601)
+.+|.++-+.||+|||- .+-..+..+... +. ++||-=++-...+.
T Consensus 14 e~~~~li~G~~GsGKT~-~i~~ll~~~~~~--g~-~~iI~D~kg~~~~~ 58 (386)
T PF10412_consen 14 ENRHILIIGATGSGKTQ-AIRHLLDQIRAR--GD-RAIIYDPKGEFTER 58 (386)
T ss_dssp GGG-EEEEE-TTSSHHH-HHHHHHHHHHHT--T--EEEEEEETTHHHHH
T ss_pred hhCcEEEECCCCCCHHH-HHHHHHHHHHHc--CC-EEEEEECCchHHHH
Confidence 35689999999999996 445555555544 56 77777666554433
No 452
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=66.84 E-value=1.4 Score=49.43 Aligned_cols=37 Identities=19% Similarity=0.126 Sum_probs=27.2
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccc
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTV 77 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~ 77 (601)
..|+++-||||+|||.++++|.|.- . +. .+||.=+.-
T Consensus 175 ~~HvlviapTgSGKgvg~ViPnLL~---~--~~-S~VV~D~KG 211 (636)
T PRK13880 175 PEHVLTYAPTRSGKGVGLVVPTLLS---W--GH-SSVITDLKG 211 (636)
T ss_pred CceEEEEecCCCCCceEEEccchhh---C--CC-CEEEEeCcH
Confidence 4689999999999999999997642 1 24 455554443
No 453
>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=66.82 E-value=9 Score=34.90 Aligned_cols=34 Identities=26% Similarity=0.212 Sum_probs=21.6
Q ss_pred cEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 37 HCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 37 ~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
..++.+|+|+|||-....-+..++. . +. +|++..
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 3678999999999965543333333 2 45 665543
No 454
>PRK11823 DNA repair protein RadA; Provisional
Probab=66.53 E-value=11 Score=40.28 Aligned_cols=49 Identities=18% Similarity=0.236 Sum_probs=31.8
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHH
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLA 85 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~ 85 (601)
+..+...++.+|+|+|||.-.+.-+..++. .+. +++|.+--.+ .+|+..
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 334568999999999999966655444443 246 8888775433 234433
No 455
>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=66.51 E-value=25 Score=36.49 Aligned_cols=38 Identities=5% Similarity=0.039 Sum_probs=27.8
Q ss_pred HHHHHHHHHHhhccc-CCeEEEEecCHHHHHHHHHHHHh
Q 007505 517 ARNYGKLLVEMVSIV-PDGIVCFFVSYSYMDEIIATWND 554 (601)
Q Consensus 517 ~~~l~~~i~~~~~~~-~gg~LVfFpSy~~l~~v~~~~~~ 554 (601)
...+.+.+.+..+.. ++.+||||+|....+.+++.+++
T Consensus 256 l~~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l~~~L~~ 294 (357)
T TIGR03158 256 LSELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQ 294 (357)
T ss_pred HHHHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHhh
Confidence 344555555544433 45799999999999999999875
No 456
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=66.40 E-value=11 Score=40.24 Aligned_cols=51 Identities=29% Similarity=0.370 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHhhc-----------CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEccc
Q 007505 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRT 76 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T 76 (601)
++=++=.++|.+.|.+- +-+++-+|+|||||+ |.-|++ - +..++.+|++..
T Consensus 310 DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTl--LARAvA----G-EA~VPFF~~sGS 371 (752)
T KOG0734|consen 310 DEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTL--LARAVA----G-EAGVPFFYASGS 371 (752)
T ss_pred HHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhH--HHHHhh----c-ccCCCeEecccc
Confidence 34445567777777652 358999999999998 433332 2 223478888765
No 457
>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=65.98 E-value=42 Score=40.65 Aligned_cols=62 Identities=19% Similarity=0.291 Sum_probs=41.7
Q ss_pred HHHhhcccCCeEEEEecCH---HHHHHHHHHHHhcchHHHHhcCCeeEEecCCchhHHHHHHHHHHhcCCCCCeEEEEE
Q 007505 524 LVEMVSIVPDGIVCFFVSY---SYMDEIIATWNDSGILKEIMQHKLVFIETQDVVETTLALDNYRKACDCGRGAVFFSV 599 (601)
Q Consensus 524 i~~~~~~~~gg~LVfFpSy---~~l~~v~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~fk~~~~~~~gaiLfaV 599 (601)
+.++++..++|+|||+++- ...+.+.+.+++.|+ +...+- .+. + ...+++|++ |+--||.|+
T Consensus 318 L~~ll~~l~~~~IVFv~t~~~~~~a~~l~~~L~~~g~-------~a~~lh-g~~-~-~~~l~~Fr~----G~~~vLVat 382 (1171)
T TIGR01054 318 LLEIVKKLGTGGIVYVSIDYGKEKAEEIAEFLENHGV-------KAVAYH-ATK-P-KEDYEKFAE----GEIDVLIGV 382 (1171)
T ss_pred HHHHHHHcCCCEEEEEeccccHHHHHHHHHHHHhCCc-------eEEEEe-CCC-C-HHHHHHHHc----CCCCEEEEe
Confidence 3444455567899999998 889999998876542 222332 221 1 367899987 566788885
No 458
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=65.93 E-value=9.1 Score=38.88 Aligned_cols=32 Identities=22% Similarity=0.219 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHhhc----CcEEEEccCCChhHHHHH
Q 007505 22 YSYMLELKRALDAK----GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 22 ~~~~~~v~~~l~~~----~~~~~EapTGtGKTla~L 53 (601)
++.|.-|.+.+.+| +-+++-+|+|||||.-++
T Consensus 48 ReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~ 83 (450)
T COG1224 48 REAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAM 83 (450)
T ss_pred HHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHH
Confidence 34566667777765 468899999999997433
No 459
>TIGR02767 TraG-Ti Ti-type conjugative transfer system protien TraG. This protein is found in the Agrobacterium tumefaciens Ti plasmid tra region responsible for conjugative transfer of the entire plasmid among Agrobacterium strains. The protein is distantly related to the F-type conjugation system TraG protein. Both of these systems are examples of type IV secretion systems.
Probab=65.91 E-value=2.5 Score=47.06 Aligned_cols=47 Identities=15% Similarity=0.135 Sum_probs=31.2
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHH
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELK 88 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~ 88 (601)
..|+++-||||+|||.++.+|.+. .. +. .+|+.-+ +...-.+....+
T Consensus 211 ~~H~lv~ApTgsGKgvg~VIPnLL---~~--~g-S~VV~Dp-KgE~~~~Ta~~R 257 (623)
T TIGR02767 211 STHMIFFAGSGGFKTTSVVVPTAL---KY--GG-PLVCLDP-STEVAPMVCEHR 257 (623)
T ss_pred CceEEEEeCCCCCccceeehhhhh---cC--CC-CEEEEEC-hHHHHHHHHHHH
Confidence 369999999999999999999653 11 23 4555444 444444444444
No 460
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=65.86 E-value=5.3 Score=41.93 Aligned_cols=35 Identities=31% Similarity=0.420 Sum_probs=25.3
Q ss_pred cCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEE
Q 007505 35 KGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYC 73 (601)
Q Consensus 35 ~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~ 73 (601)
+.|++|-+.||||||..+=+-|-.+.. ..++|+.+
T Consensus 19 NRHGLIaGATGTGKTvTLqvlAE~fS~----~GVPVfla 53 (502)
T PF05872_consen 19 NRHGLIAGATGTGKTVTLQVLAEQFSD----AGVPVFLA 53 (502)
T ss_pred cccceeeccCCCCceehHHHHHHHhhh----cCCcEEEe
Confidence 579999999999999987764444333 23377766
No 461
>PRK09165 replicative DNA helicase; Provisional
Probab=65.80 E-value=7.2 Score=42.42 Aligned_cols=31 Identities=16% Similarity=0.109 Sum_probs=22.9
Q ss_pred HHhhcCcEEEEccCCChhHHHHHHHHHHHHH
Q 007505 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVL 61 (601)
Q Consensus 31 ~l~~~~~~~~EapTGtGKTla~L~~~l~~~~ 61 (601)
.+..|...+|-|+||+|||.-.|--|...+.
T Consensus 213 G~~~g~livIaarpg~GKT~~al~ia~~~a~ 243 (497)
T PRK09165 213 GLHPSDLIILAGRPSMGKTALATNIAFNAAK 243 (497)
T ss_pred CCCCCceEEEEeCCCCChHHHHHHHHHHHHH
Confidence 3444567899999999999877765555554
No 462
>PRK14974 cell division protein FtsY; Provisional
Probab=65.71 E-value=23 Score=36.29 Aligned_cols=35 Identities=20% Similarity=0.245 Sum_probs=21.9
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
..+++.+|+|+|||-...--| .++... +. +|.+.+
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA-~~l~~~--g~-~V~li~ 175 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLA-YYLKKN--GF-SVVIAA 175 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHH-HHHHHc--CC-eEEEec
Confidence 368899999999998444322 223322 45 675554
No 463
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=65.20 E-value=9.6 Score=38.70 Aligned_cols=36 Identities=25% Similarity=0.283 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHHH
Q 007505 19 PEQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L~ 54 (601)
-||.+.......++.+++ ..++.+|.|+||+...+.
T Consensus 7 iGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~ 45 (314)
T PRK07399 7 IGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALC 45 (314)
T ss_pred CCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHH
Confidence 689999999999999884 689999999999976654
No 464
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=64.75 E-value=3.8 Score=34.95 Aligned_cols=13 Identities=31% Similarity=0.291 Sum_probs=11.6
Q ss_pred EEEEccCCChhHH
Q 007505 38 CLLEMPTGTGKTI 50 (601)
Q Consensus 38 ~~~EapTGtGKTl 50 (601)
++|.+++|+|||-
T Consensus 1 I~i~G~~GsGKtT 13 (129)
T PF13238_consen 1 IGISGIPGSGKTT 13 (129)
T ss_dssp EEEEESTTSSHHH
T ss_pred CEEECCCCCCHHH
Confidence 4789999999997
No 465
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=64.48 E-value=5.1 Score=41.05 Aligned_cols=32 Identities=16% Similarity=0.275 Sum_probs=22.7
Q ss_pred EEEeCCCChHHHHHHhcccccCHHHHHHHHHHHH
Q 007505 231 VVFDEAHNIDNVCIEALSVSVRRQTLEGATRNLS 264 (601)
Q Consensus 231 lIiDEAHnl~~~~~~~~s~~is~~~l~~~~~~l~ 264 (601)
+..|+--|+++.+...-+ .|..++..+.++..
T Consensus 398 ~~~~~~~~~~~lae~~eG--ySGaDI~nvCreAs 429 (491)
T KOG0738|consen 398 VELDDPVNLEDLAERSEG--YSGADITNVCREAS 429 (491)
T ss_pred ccCCCCccHHHHHHHhcC--CChHHHHHHHHHHH
Confidence 567888899999888544 45667777666543
No 466
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=64.47 E-value=3.9 Score=37.54 Aligned_cols=16 Identities=25% Similarity=0.401 Sum_probs=14.3
Q ss_pred cCcEEEEccCCChhHH
Q 007505 35 KGHCLLEMPTGTGKTI 50 (601)
Q Consensus 35 ~~~~~~EapTGtGKTl 50 (601)
|+.+++.+|+|+|||-
T Consensus 1 g~ii~l~G~~GsGKsT 16 (180)
T TIGR03263 1 GLLIVISGPSGVGKST 16 (180)
T ss_pred CcEEEEECCCCCCHHH
Confidence 4678999999999997
No 467
>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=64.45 E-value=6.2 Score=42.70 Aligned_cols=24 Identities=42% Similarity=0.656 Sum_probs=17.4
Q ss_pred HHHHhh-cCcEEEEccCCChhHHHH
Q 007505 29 KRALDA-KGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 29 ~~~l~~-~~~~~~EapTGtGKTla~ 52 (601)
.+++.. ++.+++-+|||+|||-..
T Consensus 235 ~~~~~~~~GlilitGptGSGKTTtL 259 (486)
T TIGR02533 235 ERLIRRPHGIILVTGPTGSGKTTTL 259 (486)
T ss_pred HHHHhcCCCEEEEEcCCCCCHHHHH
Confidence 334443 357899999999999744
No 468
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=64.37 E-value=9.9 Score=45.92 Aligned_cols=50 Identities=24% Similarity=0.319 Sum_probs=35.1
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhC-C-CCCcEEEEEcccchhHHH
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSK-P-ENPVKLIYCTRTVHEMEK 82 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~-~-~~~~kvv~~t~T~~~~~q 82 (601)
...++.++|||..|||||.+.-.=.+...... + +-. +|++.|=|.+-..-
T Consensus 13 ~~~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~-~ILvvTFT~aAa~E 64 (1139)
T COG1074 13 SPPGQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVD-EILVVTFTKAAAAE 64 (1139)
T ss_pred cCCCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChh-HeeeeeccHHHHHH
Confidence 34567999999999999997665455554442 1 224 89999999864433
No 469
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=64.25 E-value=6.2 Score=41.54 Aligned_cols=16 Identities=50% Similarity=0.621 Sum_probs=14.3
Q ss_pred CcEEEEccCCChhHHH
Q 007505 36 GHCLLEMPTGTGKTIA 51 (601)
Q Consensus 36 ~~~~~EapTGtGKTla 51 (601)
+.+++.+|+|||||+.
T Consensus 180 kgvLL~GppGTGKT~L 195 (398)
T PTZ00454 180 RGVLLYGPPGTGKTML 195 (398)
T ss_pred ceEEEECCCCCCHHHH
Confidence 5799999999999983
No 470
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=64.22 E-value=9.6 Score=41.29 Aligned_cols=20 Identities=40% Similarity=0.572 Sum_probs=16.1
Q ss_pred hhcCcEEEEccCCChhHHHH
Q 007505 33 DAKGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 33 ~~~~~~~~EapTGtGKTla~ 52 (601)
..++.+++-+|||+|||-..
T Consensus 348 ~~G~vIaLVGPtGvGKTTta 367 (559)
T PRK12727 348 ERGGVIALVGPTGAGKTTTI 367 (559)
T ss_pred cCCCEEEEECCCCCCHHHHH
Confidence 45678888899999999744
No 471
>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=64.16 E-value=6.3 Score=45.88 Aligned_cols=34 Identities=26% Similarity=0.297 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHhhc-----------CcEEEEccCCChhHHHH
Q 007505 19 PEQYSYMLELKRALDAK-----------GHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~-----------~~~~~EapTGtGKTla~ 52 (601)
-+|.+.+..|.+++..- ..+++-+|||+|||...
T Consensus 569 ~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA 613 (852)
T TIGR03345 569 IGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETA 613 (852)
T ss_pred cChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHH
Confidence 58999999999988531 14799999999999843
No 472
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=64.00 E-value=31 Score=39.18 Aligned_cols=73 Identities=19% Similarity=0.168 Sum_probs=50.7
Q ss_pred CCCHHHHHHHHHHHHHHhhc-----CcEEEEc-cCCChhHHHHHHHHHHHHHhCCC-----CCcEEEEEcccchhHHHHH
Q 007505 16 NIYPEQYSYMLELKRALDAK-----GHCLLEM-PTGTGKTIALLSLITSYVLSKPE-----NPVKLIYCTRTVHEMEKTL 84 (601)
Q Consensus 16 ~~r~~Q~~~~~~v~~~l~~~-----~~~~~Ea-pTGtGKTla~L~~~l~~~~~~~~-----~~~kvv~~t~T~~~~~q~~ 84 (601)
..||.|+|-.+-+++++... .++.|.| ..|+|||+-.+.-.=.|.+..|. .+ .+|||-. +++.-+-
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k-~lVV~P~--sLv~nWk 314 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINK-PLVVAPS--SLVNNWK 314 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccc-cEEEccH--HHHHHHH
Confidence 46999999999999998753 3455555 67999999444333334566665 45 5565543 4777788
Q ss_pred HHHHhhh
Q 007505 85 AELKLLH 91 (601)
Q Consensus 85 ~el~~l~ 91 (601)
+|+.++.
T Consensus 315 kEF~KWl 321 (776)
T KOG0390|consen 315 KEFGKWL 321 (776)
T ss_pred HHHHHhc
Confidence 8888864
No 473
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=63.99 E-value=8.2 Score=43.91 Aligned_cols=34 Identities=35% Similarity=0.400 Sum_probs=25.0
Q ss_pred HHHHHHH---HHHHHHhhc--CcEEEEccCCChhHHHHH
Q 007505 20 EQYSYML---ELKRALDAK--GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 20 ~Q~~~~~---~v~~~l~~~--~~~~~EapTGtGKTla~L 53 (601)
+|...+. .+.+++..+ .++++.+|+|||||...-
T Consensus 32 GQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~ 70 (725)
T PRK13341 32 GQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLAR 70 (725)
T ss_pred CcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHH
Confidence 7777774 455666655 379999999999997433
No 474
>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional
Probab=63.91 E-value=1.1 Score=43.69 Aligned_cols=43 Identities=16% Similarity=0.336 Sum_probs=32.7
Q ss_pred CeEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHH
Q 007505 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 1 ~~~~i~~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
|.+++.++...||= + ...+.+-=.+..|+++.+-+|.|+|||.
T Consensus 1 ~~~~~~~l~~~~~~---~----~~l~~isl~i~~Ge~~~i~G~nGsGKST 43 (246)
T PRK14269 1 MIAKTTNLNLFYGK---K----QALFDINMQIEQNKITALIGASGCGKST 43 (246)
T ss_pred CceeeeeeEEEECC---E----eeeeeeEEEEcCCCEEEEECCCCCCHHH
Confidence 78999999998861 1 1334444455678899999999999997
No 475
>PRK04195 replication factor C large subunit; Provisional
Probab=63.68 E-value=12 Score=40.70 Aligned_cols=34 Identities=26% Similarity=0.230 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHh---h---cCcEEEEccCCChhHHHHH
Q 007505 20 EQYSYMLELKRALD---A---KGHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~---~---~~~~~~EapTGtGKTla~L 53 (601)
+|.+....+...+. + ..++++-+|+|+|||...-
T Consensus 18 g~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ 57 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAH 57 (482)
T ss_pred CCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHH
Confidence 44444444444443 3 3689999999999997443
No 476
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=63.67 E-value=5.9 Score=36.77 Aligned_cols=26 Identities=27% Similarity=0.459 Sum_probs=20.7
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhC
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSK 63 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~ 63 (601)
+.-++-||+|+|||- ++-|+.|+...
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 578889999999998 45677887743
No 477
>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=63.52 E-value=16 Score=38.14 Aligned_cols=43 Identities=21% Similarity=0.278 Sum_probs=29.0
Q ss_pred HhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccch
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVH 78 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~ 78 (601)
+..+...++-+|+|+|||.-.+.-+...+. .+. +++|.+...+
T Consensus 79 i~~GslvLI~G~pG~GKStLllq~a~~~a~---~g~-~VlYvs~EEs 121 (372)
T cd01121 79 LVPGSVILIGGDPGIGKSTLLLQVAARLAK---RGG-KVLYVSGEES 121 (372)
T ss_pred ccCCeEEEEEeCCCCCHHHHHHHHHHHHHh---cCC-eEEEEECCcC
Confidence 344578999999999999966654433333 246 7888765443
No 478
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=63.45 E-value=8.2 Score=42.59 Aligned_cols=35 Identities=23% Similarity=0.312 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L~ 54 (601)
||......+..++.+++ ..++.+|.|+|||.++.+
T Consensus 20 Gqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~ 57 (563)
T PRK06647 20 GQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARA 57 (563)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 89999999999998875 368999999999987764
No 479
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=63.44 E-value=5.1 Score=45.05 Aligned_cols=18 Identities=44% Similarity=0.510 Sum_probs=14.9
Q ss_pred CcEEEEccCCChhHHHHH
Q 007505 36 GHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L 53 (601)
+-+++.+|+||||||-+-
T Consensus 345 kGvLL~GPPGTGKTLLAK 362 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTLLAK 362 (774)
T ss_pred CceEEECCCCCcHHHHHH
Confidence 359999999999998444
No 480
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=63.37 E-value=7.5 Score=40.45 Aligned_cols=16 Identities=50% Similarity=0.625 Sum_probs=13.7
Q ss_pred CcEEEEccCCChhHHH
Q 007505 36 GHCLLEMPTGTGKTIA 51 (601)
Q Consensus 36 ~~~~~EapTGtGKTla 51 (601)
+.+++.+|+|||||..
T Consensus 157 ~gvLL~GppGtGKT~l 172 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLL 172 (364)
T ss_pred ceEEEECCCCCCHHHH
Confidence 3589999999999973
No 481
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=63.37 E-value=4 Score=34.58 Aligned_cols=13 Identities=31% Similarity=0.710 Sum_probs=11.9
Q ss_pred EEEEccCCChhHH
Q 007505 38 CLLEMPTGTGKTI 50 (601)
Q Consensus 38 ~~~EapTGtGKTl 50 (601)
++|.+|+|+|||-
T Consensus 2 I~I~G~~gsGKST 14 (121)
T PF13207_consen 2 IIISGPPGSGKST 14 (121)
T ss_dssp EEEEESTTSSHHH
T ss_pred EEEECCCCCCHHH
Confidence 6889999999997
No 482
>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=63.36 E-value=16 Score=44.41 Aligned_cols=52 Identities=23% Similarity=0.255 Sum_probs=36.6
Q ss_pred HHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHH
Q 007505 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 31 ~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~ 83 (601)
|++-...++|+|+-|||||..+.--.+.......... +|++.|-|+.-...+
T Consensus 6 A~dp~~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~-~i~~~t~t~~aa~em 57 (1141)
T TIGR02784 6 ASDPKTSAWVSANAGSGKTHVLTQRVIRLLLNGVPPS-KILCLTYTKAAAAEM 57 (1141)
T ss_pred hcCCCCCEEEEEECCCCHHHHHHHHHHHHHHcCCCCC-eEEEEecCHHHHHHH
Confidence 4566678999999999999877655444443322235 899999998655443
No 483
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=63.18 E-value=1.4 Score=41.91 Aligned_cols=51 Identities=14% Similarity=0.275 Sum_probs=39.4
Q ss_pred CeEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHH
Q 007505 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSY 59 (601)
Q Consensus 1 ~~~~i~~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~ 59 (601)
|.+.+.|+...|| ++...+..|.=.+..|+.+.+-+|.|.|||- |+=++.-
T Consensus 2 ~~i~~~nl~k~yp------~~~~aL~~Vnl~I~~GE~VaiIG~SGaGKST--LLR~lng 52 (258)
T COG3638 2 MMIEVKNLSKTYP------GGHQALKDVNLEINQGEMVAIIGPSGAGKST--LLRSLNG 52 (258)
T ss_pred ceEEEeeeeeecC------CCceeeeeEeEEeCCCcEEEEECCCCCcHHH--HHHHHhc
Confidence 5678888888877 4455667777778899999999999999996 4444443
No 484
>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=63.10 E-value=8.2 Score=37.16 Aligned_cols=24 Identities=21% Similarity=0.151 Sum_probs=18.8
Q ss_pred HhhcCcEEEEccCCChhHHHHHHH
Q 007505 32 LDAKGHCLLEMPTGTGKTIALLSL 55 (601)
Q Consensus 32 l~~~~~~~~EapTGtGKTla~L~~ 55 (601)
+..+....+.+|+|+|||.-.+.-
T Consensus 16 i~~g~i~~i~G~~GsGKT~l~~~l 39 (235)
T cd01123 16 IETGSITEIFGEFGSGKTQLCHQL 39 (235)
T ss_pred CCCCeEEEEECCCCCCHHHHHHHH
Confidence 335678999999999999865543
No 485
>PF13173 AAA_14: AAA domain
Probab=62.86 E-value=5.9 Score=34.14 Aligned_cols=20 Identities=35% Similarity=0.461 Sum_probs=16.4
Q ss_pred hcCcEEEEccCCChhHHHHH
Q 007505 34 AKGHCLLEMPTGTGKTIALL 53 (601)
Q Consensus 34 ~~~~~~~EapTGtGKTla~L 53 (601)
+++.+++.+|.|+|||....
T Consensus 1 n~~~~~l~G~R~vGKTtll~ 20 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLLK 20 (128)
T ss_pred CCCeEEEECCCCCCHHHHHH
Confidence 35789999999999997443
No 486
>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]
Probab=62.86 E-value=3.6 Score=41.33 Aligned_cols=25 Identities=28% Similarity=0.337 Sum_probs=19.3
Q ss_pred HHHHHHHhhcCcEEEEccCCChhHH
Q 007505 26 LELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 26 ~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
.++.+....|..-++.+|||+|||-
T Consensus 264 Nk~LkGhR~GElTvlTGpTGsGKTT 288 (514)
T KOG2373|consen 264 NKYLKGHRPGELTVLTGPTGSGKTT 288 (514)
T ss_pred HHHhccCCCCceEEEecCCCCCcee
Confidence 3444555567789999999999995
No 487
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=62.62 E-value=37 Score=35.99 Aligned_cols=80 Identities=14% Similarity=0.270 Sum_probs=52.2
Q ss_pred EEEecCCCCCccchhhhcCCCCcccccceeeecCCceeeeeeecCCCCCcceeeeccCCChHHHHHHHHHHHHhhcc-cC
Q 007505 454 VVITSGTLSPIDLYPRLLNFHPVVSRSFKMSLTRDCICPMVLTRGSDQLPVSTKFDMRSDPGVARNYGKLLVEMVSI-VP 532 (601)
Q Consensus 454 vIltSgTLsp~~~f~~~Lg~~~~~~~~~~~~~~~~~~~~~~i~~g~~~~~l~s~f~~r~~~~~~~~l~~~i~~~~~~-~~ 532 (601)
+|.+||||.. +-|.+..|-.|.+.. +...++.--|.-.-++++..+..+.+++++.. -|
T Consensus 194 ~vvmSatl~a-~Kfq~yf~n~Pll~v-------------------pg~~PvEi~Yt~e~erDylEaairtV~qih~~ee~ 253 (699)
T KOG0925|consen 194 LVVMSATLDA-EKFQRYFGNAPLLAV-------------------PGTHPVEIFYTPEPERDYLEAAIRTVLQIHMCEEP 253 (699)
T ss_pred EEEeecccch-HHHHHHhCCCCeeec-------------------CCCCceEEEecCCCChhHHHHHHHHHHHHHhccCC
Confidence 5899999965 445555553332111 11223333344444567777777888886544 47
Q ss_pred CeEEEEecCHHHHHHHHHHHH
Q 007505 533 DGIVCFFVSYSYMDEIIATWN 553 (601)
Q Consensus 533 gg~LVfFpSy~~l~~v~~~~~ 553 (601)
|-+|||.|+-...+.+.+.+.
T Consensus 254 GDilvFLtgeeeIe~aC~~i~ 274 (699)
T KOG0925|consen 254 GDILVFLTGEEEIEDACRKIS 274 (699)
T ss_pred CCEEEEecCHHHHHHHHHHHH
Confidence 999999999999999988876
No 488
>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=62.60 E-value=19 Score=46.05 Aligned_cols=62 Identities=16% Similarity=0.039 Sum_probs=41.4
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHH--HHHH-HHHHhCCCCCcEEEEEcccchhHHHH
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALL--SLIT-SYVLSKPENPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L--~~~l-~~~~~~~~~~~kvv~~t~T~~~~~q~ 83 (601)
..++|++.+..|.. ..+..++|.++.|||||...- ..++ ..+.. .+. +|+.+.+|+.-..++
T Consensus 1020 Lt~~Q~~Ai~~il~--~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~--~g~-~v~glApT~~Aa~~L 1084 (1960)
T TIGR02760 1020 LTHGQKQAIHLIIS--TKDRFVAVQGLAGVGKTTMLESRYKPVLQAFES--EQL-QVIGLAPTHEAVGEL 1084 (1960)
T ss_pred CCHHHHHHHHHHHh--CCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHh--cCC-eEEEEeChHHHHHHH
Confidence 47999987766531 234689999999999998662 1222 22222 245 899999998766554
No 489
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=62.54 E-value=21 Score=44.62 Aligned_cols=63 Identities=16% Similarity=0.190 Sum_probs=41.8
Q ss_pred CCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHHHHHHHHHHHh--CCCCCcEEEEEcccchhHHHH
Q 007505 17 IYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTIALLSLITSYVLS--KPENPVKLIYCTRTVHEMEKT 83 (601)
Q Consensus 17 ~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~--~~~~~~kvv~~t~T~~~~~q~ 83 (601)
..++|++.+..+... .+.+.+|.++.|||||...-. .+..+.. ...+. +|+.+.+|+.-..++
T Consensus 968 Lt~~Q~~Av~~il~s--~dr~~~I~G~AGTGKTT~l~~-v~~~~~~l~~~~~~-~V~glAPTgrAAk~L 1032 (1747)
T PRK13709 968 LTSGQRAATRMILES--TDRFTVVQGYAGVGKTTQFRA-VMSAVNTLPESERP-RVVGLGPTHRAVGEM 1032 (1747)
T ss_pred CCHHHHHHHHHHHhC--CCcEEEEEeCCCCCHHHHHHH-HHHHHHHhhcccCc-eEEEECCcHHHHHHH
Confidence 478999887666521 246999999999999975432 2222221 11234 899999998776654
No 490
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=62.40 E-value=9 Score=44.08 Aligned_cols=35 Identities=23% Similarity=0.169 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHhhcC----------cEEEEccCCChhHHHHH
Q 007505 19 PEQYSYMLELKRALDAKG----------HCLLEMPTGTGKTIALL 53 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~----------~~~~EapTGtGKTla~L 53 (601)
++|.+.+.+|.+|+.... -+++.+|||+|||--..
T Consensus 565 ~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAk 609 (898)
T KOG1051|consen 565 IGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAK 609 (898)
T ss_pred cchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHH
Confidence 789999999999997632 48999999999998444
No 491
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.37 E-value=9.8 Score=42.21 Aligned_cols=35 Identities=26% Similarity=0.179 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhhcC---cEEEEccCCChhHHHHHH
Q 007505 20 EQYSYMLELKRALDAKG---HCLLEMPTGTGKTIALLS 54 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~~~~---~~~~EapTGtGKTla~L~ 54 (601)
+|......+..++.+++ .+|+.+|.|+|||....+
T Consensus 20 GQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiAri 57 (624)
T PRK14959 20 GQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARI 57 (624)
T ss_pred CCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHH
Confidence 88888888888898874 477899999999986664
No 492
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=62.12 E-value=20 Score=36.53 Aligned_cols=51 Identities=18% Similarity=0.109 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHh-----------hcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 20 EQYSYMLELKRALD-----------AKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 20 ~Q~~~~~~v~~~l~-----------~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
.+..+.+.+.+.+. .+..+++-+|+|+|||-.... |+..... .++ +|.+.+
T Consensus 88 ~~~~l~~~l~~~l~~~~~~~~~~~~~~~vi~lvGpnGsGKTTt~~k--LA~~l~~-~g~-~V~Li~ 149 (318)
T PRK10416 88 LKELLKEELAEILEPVEKPLNIEEKKPFVILVVGVNGVGKTTTIGK--LAHKYKA-QGK-KVLLAA 149 (318)
T ss_pred HHHHHHHHHHHHhCcCCccccccCCCCeEEEEECCCCCcHHHHHHH--HHHHHHh-cCC-eEEEEe
Confidence 34455555555553 134677789999999974433 3332222 355 666554
No 493
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=62.08 E-value=5.8 Score=43.00 Aligned_cols=34 Identities=29% Similarity=0.235 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHhhcCcEEEEccCCChhHHHH
Q 007505 19 PEQYSYMLELKRALDAKGHCLLEMPTGTGKTIAL 52 (601)
Q Consensus 19 ~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTla~ 52 (601)
.+|....+.+.-++..+.++++-+|+|+|||...
T Consensus 195 ~Gq~~~~~al~~aa~~g~~vlliG~pGsGKTtla 228 (499)
T TIGR00368 195 KGQQHAKRALEIAAAGGHNLLLFGPPGSGKTMLA 228 (499)
T ss_pred cCcHHHHhhhhhhccCCCEEEEEecCCCCHHHHH
Confidence 5688888888888888999999999999999844
No 494
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=62.04 E-value=5.6 Score=44.38 Aligned_cols=25 Identities=24% Similarity=0.349 Sum_probs=22.4
Q ss_pred HHHHHHHhhcCcEEEEccCCChhHH
Q 007505 26 LELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 26 ~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
..|.+++.++..+||.+.||+|||-
T Consensus 262 q~IMEaIn~n~vvIIcGeTGsGKTT 286 (1172)
T KOG0926|consen 262 QRIMEAINENPVVIICGETGSGKTT 286 (1172)
T ss_pred HHHHHHhhcCCeEEEecCCCCCccc
Confidence 3677889999999999999999996
No 495
>PRK11124 artP arginine transporter ATP-binding subunit; Provisional
Probab=62.03 E-value=1.8 Score=42.09 Aligned_cols=43 Identities=16% Similarity=0.349 Sum_probs=32.2
Q ss_pred CeEEEcCeeeeCCCCCCCHHHHHHHHHHHHHHhhcCcEEEEccCCChhHH
Q 007505 1 MIFKLEDVTVYFPYDNIYPEQYSYMLELKRALDAKGHCLLEMPTGTGKTI 50 (601)
Q Consensus 1 ~~~~i~~~~~~fp~~~~r~~Q~~~~~~v~~~l~~~~~~~~EapTGtGKTl 50 (601)
|.+.+.++...|+ . + .....+-=.+..|+++.+-+|.|+|||-
T Consensus 1 ~~l~~~~l~~~~~--~-~----~il~~vsl~i~~Ge~~~i~G~nGsGKST 43 (242)
T PRK11124 1 MSIQLNGINCFYG--A-H----QALFDITLDCPQGETLVLLGPSGAGKSS 43 (242)
T ss_pred CEEEEEeeEEEEC--C-e----eeEeeeeeEEcCCCEEEEECCCCCCHHH
Confidence 7788888888775 2 1 1344444456678999999999999996
No 496
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=61.89 E-value=7.6 Score=44.76 Aligned_cols=52 Identities=23% Similarity=0.277 Sum_probs=39.1
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHHHHHHh
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTLAELKL 89 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~~el~~ 89 (601)
.+.++-||||.|||++|=.+...-....| +. |++|.++-+++.+--+.+..+
T Consensus 944 ~~~~~g~ptgsgkt~~ae~a~~~~~~~~p-~~-kvvyIap~kalvker~~Dw~~ 995 (1230)
T KOG0952|consen 944 LNFLLGAPTGSGKTVVAELAIFRALSYYP-GS-KVVYIAPDKALVKERSDDWSK 995 (1230)
T ss_pred hhhhhcCCccCcchhHHHHHHHHHhccCC-Cc-cEEEEcCCchhhcccccchhh
Confidence 46788999999999999876443333444 56 899999999998776665544
No 497
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=61.80 E-value=16 Score=37.16 Aligned_cols=47 Identities=15% Similarity=0.024 Sum_probs=31.1
Q ss_pred HHhhcCcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHH
Q 007505 31 ALDAKGHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEME 81 (601)
Q Consensus 31 ~l~~~~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~ 81 (601)
.+..+....|-+|+|+|||.-.|..+...+. .+. +++|-..-++.-.
T Consensus 51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~---~g~-~v~yId~E~~~~~ 97 (321)
T TIGR02012 51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQK---AGG-TAAFIDAEHALDP 97 (321)
T ss_pred CCcCCeEEEEECCCCCCHHHHHHHHHHHHHH---cCC-cEEEEcccchhHH
Confidence 3445568999999999999976655444443 245 6766655555443
No 498
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=61.80 E-value=13 Score=39.24 Aligned_cols=36 Identities=28% Similarity=0.411 Sum_probs=22.3
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEc
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCT 74 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t 74 (601)
..+++-+|||+|||-...--|..+.... +. +|.+.|
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~--G~-~V~Lit 259 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHM--GK-SVSLYT 259 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhc--CC-eEEEec
Confidence 4577889999999985443333332322 45 676555
No 499
>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=61.74 E-value=8.3 Score=39.93 Aligned_cols=16 Identities=31% Similarity=0.555 Sum_probs=14.7
Q ss_pred CCCcEEEEeCCCChHH
Q 007505 226 QKESVVVFDEAHNIDN 241 (601)
Q Consensus 226 ~~~~ilIiDEAHnl~~ 241 (601)
++.++|||||||.|.+
T Consensus 82 ~~~DviivDEAqrl~~ 97 (352)
T PF09848_consen 82 NKYDVIIVDEAQRLRT 97 (352)
T ss_pred CcCCEEEEehhHhhhh
Confidence 4789999999999988
No 500
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=61.73 E-value=11 Score=42.40 Aligned_cols=45 Identities=13% Similarity=0.228 Sum_probs=33.5
Q ss_pred CcEEEEccCCChhHHHHHHHHHHHHHhCCCCCcEEEEEcccchhHHHHH
Q 007505 36 GHCLLEMPTGTGKTIALLSLITSYVLSKPENPVKLIYCTRTVHEMEKTL 84 (601)
Q Consensus 36 ~~~~~EapTGtGKTla~L~~~l~~~~~~~~~~~kvv~~t~T~~~~~q~~ 84 (601)
+|.++-+.||||||-+. --.|.++++. +. |+||-=++-.-.+.+.
T Consensus 186 ~H~li~GttGSGKS~~i-~~LL~~ir~R--Gd-rAIIyD~~GeFv~~FY 230 (732)
T PRK13700 186 QNFCLHGTVGAGKSEVI-RRLANYARQR--GD-MVVIYDRSGEFVKSYY 230 (732)
T ss_pred cceEEeCCCCCCHHHHH-HHHHHHHHHc--CC-eEEEEeCCCchHHHhc
Confidence 58999999999999954 4567777765 67 8888877766555443
Done!