Query 004009
Match_columns 779
No_of_seqs 470 out of 2555
Neff 6.7
Searched_HMMs 46136
Date Thu Mar 28 15:56:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004009.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004009hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1802 RNA helicase nonsense 100.0 7E-173 1E-177 1416.3 53.8 653 118-778 38-795 (935)
2 KOG1803 DNA helicase [Replicat 100.0 4.2E-79 9.1E-84 676.0 31.8 510 254-778 51-586 (649)
3 TIGR00376 DNA helicase, putati 100.0 2.6E-76 5.5E-81 692.2 50.9 504 244-778 26-589 (637)
4 KOG1805 DNA replication helica 100.0 2.9E-58 6.3E-63 528.1 26.8 341 388-773 667-1028(1100)
5 KOG1807 Helicases [Replication 100.0 3.6E-48 7.9E-53 434.1 24.7 239 526-778 693-934 (1025)
6 PF09416 UPF1_Zn_bind: RNA hel 100.0 1.2E-48 2.7E-53 370.2 7.1 95 143-239 1-95 (152)
7 COG1112 Superfamily I DNA and 100.0 6.1E-42 1.3E-46 413.5 34.5 439 326-778 207-708 (767)
8 KOG1804 RNA helicase [RNA proc 100.0 2.8E-36 6.1E-41 350.5 9.3 317 405-768 326-662 (775)
9 PF13086 AAA_11: AAA domain; P 100.0 3.6E-33 7.7E-38 287.1 17.4 204 390-594 1-235 (236)
10 KOG1801 tRNA-splicing endonucl 100.0 2.3E-32 5E-37 328.5 25.2 246 530-777 513-766 (827)
11 PF13087 AAA_12: AAA domain; P 100.0 1.1E-30 2.4E-35 264.8 12.6 174 602-778 1-179 (200)
12 KOG1806 DEAD box containing he 100.0 1.7E-28 3.7E-33 282.6 15.7 381 390-777 738-1222(1320)
13 PRK11054 helD DNA helicase IV; 99.9 2.5E-21 5.5E-26 229.2 24.7 177 551-766 430-612 (684)
14 TIGR01075 uvrD DNA helicase II 99.9 2.5E-21 5.4E-26 232.6 22.0 314 389-734 3-367 (715)
15 PRK11773 uvrD DNA-dependent he 99.9 5.1E-21 1.1E-25 230.0 22.4 312 389-734 8-372 (721)
16 TIGR01073 pcrA ATP-dependent D 99.9 1.3E-20 2.8E-25 227.0 23.4 312 389-734 3-369 (726)
17 PRK10919 ATP-dependent DNA hel 99.9 1.2E-20 2.5E-25 224.7 22.0 313 390-734 2-367 (672)
18 TIGR01074 rep ATP-dependent DN 99.8 1.4E-19 3.1E-24 216.1 19.5 313 390-734 1-366 (664)
19 PRK10875 recD exonuclease V su 99.8 1.3E-18 2.9E-23 203.3 25.3 200 391-642 153-381 (615)
20 PF13604 AAA_30: AAA domain; P 99.8 5.7E-19 1.2E-23 179.8 14.5 173 390-644 1-179 (196)
21 TIGR01448 recD_rel helicase, p 99.8 9.2E-17 2E-21 192.3 25.2 170 389-637 322-497 (720)
22 TIGR01447 recD exodeoxyribonuc 99.7 4.4E-17 9.6E-22 190.2 16.8 194 393-637 148-366 (586)
23 COG0210 UvrD Superfamily I DNA 99.7 3.6E-16 7.9E-21 186.7 23.2 314 390-733 2-373 (655)
24 TIGR02768 TraA_Ti Ti-type conj 99.7 6.2E-16 1.3E-20 185.8 22.2 169 389-643 351-523 (744)
25 PRK13826 Dtr system oriT relax 99.6 3.7E-14 8.1E-19 173.3 25.7 229 389-732 380-612 (1102)
26 PRK13889 conjugal transfer rel 99.6 2.3E-14 4.9E-19 174.5 22.4 228 389-731 345-578 (988)
27 TIGR00609 recB exodeoxyribonuc 99.6 4.3E-14 9.3E-19 176.6 23.7 173 550-733 295-493 (1087)
28 TIGR02785 addA_Gpos recombinat 99.6 1.1E-13 2.4E-18 174.8 24.0 178 550-734 387-601 (1232)
29 PF00580 UvrD-helicase: UvrD/R 99.6 4.3E-15 9.3E-20 160.0 7.5 65 391-457 1-68 (315)
30 PRK13709 conjugal transfer nic 99.5 7.6E-13 1.7E-17 168.1 22.2 264 389-735 966-1250(1747)
31 PRK14712 conjugal transfer nic 99.5 7.5E-13 1.6E-17 166.1 21.6 172 389-642 834-1014(1623)
32 PRK10876 recB exonuclease V su 99.4 1.2E-11 2.5E-16 155.5 26.7 174 550-734 376-576 (1181)
33 PRK13909 putative recombinatio 99.4 1.7E-12 3.8E-17 159.9 18.5 157 549-732 326-494 (910)
34 COG1074 RecB ATP-dependent exo 99.4 2.1E-12 4.6E-17 161.9 19.1 175 550-733 377-578 (1139)
35 TIGR02760 TraI_TIGR conjugativ 99.3 2.4E-11 5.2E-16 158.4 19.3 170 389-642 1018-1198(1960)
36 PF13245 AAA_19: Part of AAA d 99.3 3.4E-12 7.5E-17 110.2 7.6 58 397-454 1-62 (76)
37 TIGR02760 TraI_TIGR conjugativ 99.3 6.8E-11 1.5E-15 154.2 21.6 165 390-627 429-598 (1960)
38 PF09848 DUF2075: Uncharacteri 99.3 2.7E-11 5.8E-16 134.4 13.9 165 406-643 2-184 (352)
39 PF05970 PIF1: PIF1-like helic 99.3 3.7E-12 8E-17 141.9 6.3 60 390-450 1-66 (364)
40 COG3973 Superfamily I DNA and 99.3 5.3E-10 1.1E-14 126.2 22.7 175 550-762 527-714 (747)
41 PF01443 Viral_helicase1: Vira 99.0 2.1E-10 4.5E-15 119.1 6.4 79 551-637 62-141 (234)
42 PF02562 PhoH: PhoH-like prote 99.0 8.3E-10 1.8E-14 112.8 9.0 55 389-443 3-58 (205)
43 PRK10536 hypothetical protein; 98.9 1E-08 2.2E-13 107.8 12.7 64 386-449 55-118 (262)
44 COG3972 Superfamily I DNA and 98.9 2.6E-08 5.7E-13 110.4 15.7 335 389-764 161-545 (660)
45 TIGR02773 addB_Gpos ATP-depend 98.9 1.5E-07 3.3E-12 119.6 23.7 152 551-733 196-361 (1158)
46 TIGR02784 addA_alphas double-s 98.8 2.1E-08 4.6E-13 127.1 14.9 174 550-733 390-609 (1141)
47 smart00487 DEXDc DEAD-like hel 98.8 4.8E-08 1.1E-12 96.6 13.3 70 389-458 7-78 (201)
48 cd00046 DEXDc DEAD-like helica 98.6 1.7E-07 3.8E-12 87.0 10.2 51 407-457 2-53 (144)
49 PF00270 DEAD: DEAD/DEAH box h 98.5 6.6E-07 1.4E-11 87.7 11.7 66 392-457 1-67 (169)
50 PF04851 ResIII: Type III rest 98.5 2.3E-07 5.1E-12 91.7 7.2 64 390-457 3-73 (184)
51 PHA02558 uvsW UvsW helicase; P 98.4 1.6E-06 3.6E-11 100.8 12.8 69 389-457 113-181 (501)
52 PRK11634 ATP-dependent RNA hel 98.4 7.8E-06 1.7E-10 97.5 18.6 70 388-457 26-97 (629)
53 KOG1804 RNA helicase [RNA proc 98.4 1.5E-07 3.1E-12 111.7 3.1 304 388-730 118-448 (775)
54 cd00268 DEADc DEAD-box helicas 98.4 3.3E-06 7.2E-11 85.7 12.7 69 389-457 20-92 (203)
55 PRK11776 ATP-dependent RNA hel 98.4 4.5E-05 9.8E-10 87.8 23.0 70 388-457 24-95 (460)
56 PRK05580 primosome assembly pr 98.3 8.1E-06 1.8E-10 98.2 15.0 75 389-464 143-221 (679)
57 PRK11192 ATP-dependent RNA hel 98.2 9.7E-06 2.1E-10 92.5 13.3 70 388-457 21-96 (434)
58 PTZ00424 helicase 45; Provisio 98.2 9E-06 1.9E-10 91.5 12.3 70 388-457 48-119 (401)
59 TIGR00580 mfd transcription-re 98.2 3.2E-05 6.9E-10 95.5 17.6 67 390-457 451-523 (926)
60 PF07652 Flavi_DEAD: Flaviviru 98.2 9.4E-06 2E-10 78.2 9.3 53 405-458 4-57 (148)
61 TIGR00643 recG ATP-dependent D 98.1 2.9E-05 6.4E-10 92.9 15.2 67 390-457 235-307 (630)
62 PRK10917 ATP-dependent DNA hel 98.1 2.9E-05 6.2E-10 93.7 15.1 67 390-457 261-333 (681)
63 PRK02362 ski2-like helicase; P 98.1 7.4E-06 1.6E-10 99.7 9.4 70 387-457 20-90 (737)
64 PRK10689 transcription-repair 98.1 6.1E-05 1.3E-09 95.0 17.3 66 390-456 600-671 (1147)
65 COG1061 SSL2 DNA or RNA helica 98.1 1.2E-05 2.7E-10 92.0 10.4 66 388-457 34-103 (442)
66 PRK10590 ATP-dependent RNA hel 98.1 3.6E-05 7.7E-10 88.7 13.3 70 388-457 21-98 (456)
67 PRK04837 ATP-dependent RNA hel 98.1 1.7E-05 3.8E-10 90.3 10.5 69 388-456 28-105 (423)
68 PRK00254 ski2-like helicase; P 98.0 3.1E-05 6.8E-10 94.1 12.2 69 387-456 20-90 (720)
69 PRK01172 ski2-like helicase; P 98.0 2.7E-05 5.9E-10 94.0 11.5 66 390-456 22-87 (674)
70 TIGR00603 rad25 DNA repair hel 98.0 6E-05 1.3E-09 90.2 13.8 65 389-457 254-321 (732)
71 PRK13766 Hef nuclease; Provisi 97.9 6.2E-05 1.3E-09 92.3 13.0 67 390-457 15-81 (773)
72 PRK04537 ATP-dependent RNA hel 97.8 0.00012 2.7E-09 86.5 13.1 70 388-457 29-107 (572)
73 PTZ00110 helicase; Provisional 97.8 0.00019 4.1E-09 84.5 14.5 71 387-457 149-226 (545)
74 PRK11448 hsdR type I restricti 97.8 6.8E-05 1.5E-09 94.3 11.2 68 390-457 413-486 (1123)
75 smart00489 DEXDc3 DEAD-like he 97.8 0.00033 7.1E-09 76.0 14.0 65 392-456 10-83 (289)
76 smart00488 DEXDc2 DEAD-like he 97.8 0.00033 7.1E-09 76.0 14.0 65 392-456 10-83 (289)
77 PRK01297 ATP-dependent RNA hel 97.8 0.00016 3.5E-09 83.7 12.2 70 388-457 107-185 (475)
78 TIGR03817 DECH_helic helicase/ 97.8 0.00017 3.7E-09 87.7 12.9 71 388-458 34-105 (742)
79 TIGR00348 hsdR type I site-spe 97.8 0.00015 3.3E-09 87.3 12.0 67 392-458 240-317 (667)
80 TIGR01054 rgy reverse gyrase. 97.8 0.00012 2.5E-09 92.8 11.5 67 390-457 78-144 (1171)
81 PRK09401 reverse gyrase; Revie 97.7 0.00014 3.1E-09 91.9 12.1 68 390-458 80-147 (1176)
82 COG0507 RecD ATP-dependent exo 97.7 8.9E-05 1.9E-09 89.9 9.9 133 389-595 318-453 (696)
83 TIGR03117 cas_csf4 CRISPR-asso 97.7 0.0004 8.6E-09 82.4 14.8 59 397-455 7-67 (636)
84 PRK13767 ATP-dependent helicas 97.7 0.00054 1.2E-08 85.0 16.6 68 389-456 31-106 (876)
85 COG1702 PhoH Phosphate starvat 97.7 0.00013 2.9E-09 79.1 9.8 55 388-442 126-181 (348)
86 TIGR00614 recQ_fam ATP-depende 97.7 0.0004 8.7E-09 80.4 14.3 74 388-465 9-82 (470)
87 COG1204 Superfamily II helicas 97.7 0.00016 3.5E-09 87.6 10.8 77 388-464 29-109 (766)
88 TIGR00595 priA primosomal prot 97.7 0.00021 4.5E-09 83.4 10.9 48 409-457 1-48 (505)
89 PLN00206 DEAD-box ATP-dependen 97.6 0.00035 7.5E-09 81.9 12.2 68 389-456 142-218 (518)
90 COG1875 NYN ribonuclease and A 97.6 0.00022 4.7E-09 77.8 9.3 56 387-442 225-284 (436)
91 PHA02653 RNA helicase NPH-II; 97.6 0.00043 9.3E-09 83.0 12.7 69 388-456 161-244 (675)
92 PRK14974 cell division protein 97.6 0.00047 1E-08 76.1 11.7 56 406-462 141-199 (336)
93 PRK14701 reverse gyrase; Provi 97.6 0.00052 1.1E-08 89.2 13.6 67 390-457 79-145 (1638)
94 TIGR01970 DEAH_box_HrpB ATP-de 97.6 0.00017 3.8E-09 88.2 8.9 61 395-456 6-67 (819)
95 TIGR01389 recQ ATP-dependent D 97.5 0.00096 2.1E-08 79.4 14.5 74 388-465 11-84 (591)
96 TIGR00604 rad3 DNA repair heli 97.5 0.00043 9.4E-09 84.0 11.7 66 392-457 12-83 (705)
97 PF05127 Helicase_RecD: Helica 97.5 2.6E-05 5.7E-10 78.1 1.0 47 409-455 1-47 (177)
98 COG1198 PriA Primosomal protei 97.5 0.0004 8.7E-09 83.2 10.9 68 388-456 196-267 (730)
99 COG1110 Reverse gyrase [DNA re 97.5 0.00035 7.7E-09 84.1 9.6 67 391-458 83-149 (1187)
100 PRK04296 thymidine kinase; Pro 97.5 0.00036 7.8E-09 70.9 8.3 36 406-442 3-38 (190)
101 KOG2108 3'-5' DNA helicase [Re 97.4 0.00013 2.9E-09 86.5 5.1 66 390-457 13-81 (853)
102 COG4096 HsdR Type I site-speci 97.4 0.00041 8.8E-09 82.3 9.0 68 390-457 165-238 (875)
103 KOG0952 DNA/RNA helicase MER3/ 97.4 0.00056 1.2E-08 82.5 10.1 69 388-456 108-186 (1230)
104 PF00176 SNF2_N: SNF2 family N 97.4 0.00028 6.1E-09 75.5 7.1 140 395-587 2-174 (299)
105 PRK11664 ATP-dependent RNA hel 97.4 0.00076 1.6E-08 82.7 11.4 62 394-456 8-70 (812)
106 KOG0354 DEAD-box like helicase 97.4 0.00065 1.4E-08 80.5 10.2 70 389-459 61-131 (746)
107 PRK11057 ATP-dependent DNA hel 97.4 0.0017 3.6E-08 77.6 13.9 73 388-464 23-95 (607)
108 PRK14712 conjugal transfer nic 97.4 0.0015 3.2E-08 84.1 14.0 64 389-453 280-346 (1623)
109 TIGR01587 cas3_core CRISPR-ass 97.4 0.00082 1.8E-08 74.6 10.5 50 408-457 2-52 (358)
110 COG4098 comFA Superfamily II D 97.4 0.00073 1.6E-08 72.9 9.4 76 390-466 97-178 (441)
111 COG1111 MPH1 ERCC4-like helica 97.4 0.00085 1.8E-08 75.8 10.2 123 392-567 17-147 (542)
112 PF13361 UvrD_C: UvrD-like hel 97.3 0.00085 1.8E-08 73.0 9.5 97 618-734 1-102 (351)
113 COG1200 RecG RecG-like helicas 97.3 0.027 5.9E-07 66.3 21.5 250 390-731 262-531 (677)
114 PRK07246 bifunctional ATP-depe 97.3 0.0018 3.9E-08 79.7 12.4 62 390-453 245-310 (820)
115 TIGR02784 addA_alphas double-s 97.2 0.00037 8E-09 89.0 6.0 51 406-456 11-63 (1141)
116 TIGR01967 DEAH_box_HrpA ATP-de 97.2 0.00077 1.7E-08 85.2 8.3 64 394-457 70-134 (1283)
117 cd00009 AAA The AAA+ (ATPases 97.1 0.0016 3.4E-08 60.9 7.7 55 393-448 4-61 (151)
118 PRK08074 bifunctional ATP-depe 97.1 0.0018 3.9E-08 80.9 10.3 62 392-453 259-324 (928)
119 PRK11747 dinG ATP-dependent DN 97.1 0.0062 1.4E-07 73.9 14.5 60 393-453 28-97 (697)
120 TIGR01407 dinG_rel DnaQ family 97.1 0.0018 3.9E-08 80.3 10.0 62 391-453 246-311 (850)
121 cd01124 KaiC KaiC is a circadi 97.1 0.001 2.2E-08 66.5 6.2 52 407-460 1-52 (187)
122 PRK00771 signal recognition pa 97.0 0.0043 9.3E-08 70.9 11.9 53 407-460 97-152 (437)
123 TIGR03499 FlhF flagellar biosy 97.0 0.003 6.6E-08 68.2 10.1 36 407-442 196-232 (282)
124 PRK14722 flhF flagellar biosyn 97.0 0.0031 6.8E-08 70.5 10.3 48 405-452 137-188 (374)
125 PRK12377 putative replication 97.0 0.0022 4.8E-08 68.0 8.5 49 392-441 80-136 (248)
126 PRK08181 transposase; Validate 97.0 0.0027 5.8E-08 68.1 9.2 62 388-455 85-150 (269)
127 PRK12723 flagellar biosynthesi 97.0 0.0032 7E-08 70.9 10.1 55 406-460 175-235 (388)
128 PF00448 SRP54: SRP54-type pro 97.0 0.0019 4.1E-08 66.1 7.5 57 407-464 3-62 (196)
129 PRK11889 flhF flagellar biosyn 97.0 0.0039 8.4E-08 69.8 10.2 54 406-460 242-298 (436)
130 TIGR03158 cas3_cyano CRISPR-as 96.9 0.007 1.5E-07 67.6 12.2 59 395-457 2-62 (357)
131 PRK07952 DNA replication prote 96.9 0.0022 4.9E-08 67.8 7.7 59 391-455 77-143 (244)
132 TIGR02621 cas3_GSU0051 CRISPR- 96.9 0.0031 6.8E-08 76.7 9.8 68 391-458 16-86 (844)
133 PRK04914 ATP-dependent helicas 96.8 0.013 2.7E-07 73.0 14.2 72 389-461 151-226 (956)
134 PRK12899 secA preprotein trans 96.8 0.0069 1.5E-07 73.9 11.6 66 390-456 92-157 (970)
135 PF02399 Herpes_ori_bp: Origin 96.8 0.0013 2.9E-08 78.6 5.3 55 405-459 49-103 (824)
136 COG4889 Predicted helicase [Ge 96.8 0.0072 1.6E-07 71.9 10.8 62 389-454 160-226 (1518)
137 PRK05703 flhF flagellar biosyn 96.8 0.0069 1.5E-07 69.2 10.6 47 406-452 222-272 (424)
138 COG0513 SrmB Superfamily II DN 96.7 0.012 2.7E-07 68.8 12.7 70 388-457 49-122 (513)
139 COG1199 DinG Rad3-related DNA 96.7 0.01 2.2E-07 71.6 12.4 67 391-457 16-86 (654)
140 COG2256 MGS1 ATPase related to 96.7 0.0044 9.5E-08 68.8 8.3 42 552-594 105-148 (436)
141 TIGR03714 secA2 accessory Sec 96.7 0.0081 1.8E-07 72.5 11.3 64 391-456 69-133 (762)
142 PRK12898 secA preprotein trans 96.7 0.009 1.9E-07 71.2 11.5 63 391-456 104-166 (656)
143 smart00382 AAA ATPases associa 96.7 0.0011 2.3E-08 61.3 3.1 43 405-448 2-44 (148)
144 PRK11131 ATP-dependent RNA hel 96.7 0.0031 6.8E-08 79.7 8.1 63 394-456 77-140 (1294)
145 KOG0989 Replication factor C, 96.7 0.0017 3.7E-08 69.5 4.7 27 405-431 57-83 (346)
146 KOG2028 ATPase related to the 96.7 0.0033 7.2E-08 68.6 6.6 28 395-422 149-179 (554)
147 PRK06526 transposase; Provisio 96.7 0.004 8.6E-08 66.3 7.3 52 388-440 78-132 (254)
148 PRK14958 DNA polymerase III su 96.7 0.0051 1.1E-07 71.8 8.7 46 550-595 118-169 (509)
149 PRK13709 conjugal transfer nic 96.6 0.021 4.6E-07 74.7 14.8 62 391-453 414-478 (1747)
150 PHA03311 helicase-primase subu 96.6 0.0085 1.8E-07 70.9 9.4 44 406-455 72-115 (828)
151 PRK14956 DNA polymerase III su 96.5 0.0072 1.6E-07 69.5 8.7 24 407-430 42-65 (484)
152 PF06745 KaiC: KaiC; InterPro 96.5 0.0053 1.1E-07 63.7 6.9 54 405-460 19-73 (226)
153 TIGR00064 ftsY signal recognit 96.5 0.0073 1.6E-07 65.0 7.9 56 406-462 73-131 (272)
154 PRK07994 DNA polymerase III su 96.5 0.0069 1.5E-07 72.2 8.3 45 551-595 119-169 (647)
155 PRK07003 DNA polymerase III su 96.4 0.011 2.3E-07 71.0 9.5 45 551-595 119-169 (830)
156 PF13401 AAA_22: AAA domain; P 96.4 0.0032 6.9E-08 59.0 4.2 52 405-456 4-60 (131)
157 TIGR00708 cobA cob(I)alamin ad 96.4 0.022 4.7E-07 57.1 9.9 37 405-442 5-41 (173)
158 PLN03137 ATP-dependent DNA hel 96.4 0.03 6.6E-07 69.9 13.1 73 389-465 459-531 (1195)
159 PRK12323 DNA polymerase III su 96.4 0.0098 2.1E-07 70.4 8.5 45 551-595 124-174 (700)
160 COG1484 DnaC DNA replication p 96.3 0.0063 1.4E-07 64.8 6.2 51 391-442 84-141 (254)
161 cd00561 CobA_CobO_BtuR ATP:cor 96.3 0.048 1E-06 54.0 11.6 59 405-466 2-64 (159)
162 PRK14949 DNA polymerase III su 96.3 0.0076 1.6E-07 73.5 7.0 25 406-430 39-63 (944)
163 PRK10416 signal recognition pa 96.3 0.011 2.3E-07 65.1 7.7 55 407-462 116-173 (318)
164 PRK14088 dnaA chromosomal repl 96.2 0.032 6.9E-07 64.2 11.7 36 407-442 132-168 (440)
165 PRK08116 hypothetical protein; 96.2 0.017 3.6E-07 62.1 8.6 34 407-441 116-149 (268)
166 cd01131 PilT Pilus retraction 96.2 0.0061 1.3E-07 62.3 5.0 37 405-441 1-37 (198)
167 TIGR03877 thermo_KaiC_1 KaiC d 96.2 0.0071 1.5E-07 63.6 5.6 54 405-460 21-74 (237)
168 PLN03142 Probable chromatin-re 96.2 0.055 1.2E-06 67.9 14.0 149 390-587 169-331 (1033)
169 PF00004 AAA: ATPase family as 96.2 0.0037 8E-08 58.3 3.0 22 408-429 1-22 (132)
170 PRK14952 DNA polymerase III su 96.2 0.014 2.9E-07 69.2 8.3 24 407-430 37-60 (584)
171 PRK05973 replicative DNA helic 96.1 0.0093 2E-07 62.8 6.2 53 405-459 64-116 (237)
172 PRK08084 DNA replication initi 96.1 0.017 3.6E-07 60.8 8.0 52 390-442 27-81 (235)
173 PF01695 IstB_IS21: IstB-like 96.1 0.0071 1.5E-07 60.9 5.0 44 406-455 48-91 (178)
174 KOG0744 AAA+-type ATPase [Post 96.1 0.0036 7.9E-08 67.4 2.9 26 405-430 177-202 (423)
175 PRK14087 dnaA chromosomal repl 96.1 0.05 1.1E-06 62.8 12.2 37 406-442 142-179 (450)
176 PRK08533 flagellar accessory p 96.1 0.01 2.2E-07 62.3 6.0 53 405-459 24-76 (230)
177 cd03115 SRP The signal recogni 96.0 0.015 3.1E-07 57.8 6.8 34 407-441 2-35 (173)
178 PRK09183 transposase/IS protei 96.0 0.015 3.2E-07 62.2 7.3 53 388-441 82-137 (259)
179 cd01129 PulE-GspE PulE/GspE Th 96.0 0.01 2.2E-07 63.5 6.1 50 390-440 63-114 (264)
180 PF13191 AAA_16: AAA ATPase do 96.0 0.015 3.2E-07 57.6 6.9 42 393-434 6-53 (185)
181 COG1205 Distinct helicase fami 96.0 0.036 7.9E-07 68.5 11.5 68 390-457 70-138 (851)
182 PRK05563 DNA polymerase III su 96.0 0.016 3.6E-07 68.5 8.2 25 406-430 39-63 (559)
183 cd01120 RecA-like_NTPases RecA 96.0 0.011 2.3E-07 56.8 5.5 40 407-447 1-40 (165)
184 TIGR03880 KaiC_arch_3 KaiC dom 96.0 0.012 2.7E-07 61.0 6.2 54 405-460 16-69 (224)
185 PRK12727 flagellar biosynthesi 95.9 0.03 6.6E-07 65.0 9.5 37 405-441 350-387 (559)
186 TIGR03878 thermo_KaiC_2 KaiC d 95.9 0.012 2.5E-07 63.0 5.7 48 405-454 36-83 (259)
187 PRK06893 DNA replication initi 95.9 0.01 2.2E-07 62.1 5.1 36 405-441 39-74 (229)
188 COG0552 FtsY Signal recognitio 95.9 0.019 4.2E-07 62.6 7.3 58 407-464 141-200 (340)
189 PRK14948 DNA polymerase III su 95.9 0.021 4.5E-07 68.3 8.3 26 406-431 39-64 (620)
190 PRK10867 signal recognition pa 95.9 0.017 3.8E-07 65.9 7.3 56 407-463 102-161 (433)
191 COG2805 PilT Tfp pilus assembl 95.9 0.012 2.5E-07 63.2 5.3 35 404-438 124-158 (353)
192 PRK14969 DNA polymerase III su 95.9 0.029 6.3E-07 65.9 9.2 44 551-594 119-168 (527)
193 TIGR03420 DnaA_homol_Hda DnaA 95.8 0.025 5.3E-07 58.4 7.8 50 391-441 21-73 (226)
194 smart00763 AAA_PrkA PrkA AAA d 95.8 0.019 4.2E-07 63.7 7.3 26 405-430 78-103 (361)
195 PRK09200 preprotein translocas 95.8 0.052 1.1E-06 66.2 11.4 62 392-456 80-141 (790)
196 PRK14951 DNA polymerase III su 95.8 0.018 4E-07 68.4 7.5 44 551-594 124-173 (618)
197 KOG0987 DNA helicase PIF1/RRM3 95.8 0.022 4.8E-07 67.1 8.1 57 389-447 116-178 (540)
198 PRK05986 cob(I)alamin adenolsy 95.8 0.14 2.9E-06 52.3 12.4 60 404-466 21-84 (191)
199 PRK13894 conjugal transfer ATP 95.8 0.02 4.3E-07 63.0 6.9 53 390-442 132-186 (319)
200 PRK13833 conjugal transfer pro 95.7 0.02 4.4E-07 63.0 6.8 50 390-439 128-179 (323)
201 PRK06067 flagellar accessory p 95.7 0.018 3.9E-07 60.2 6.2 54 405-460 25-78 (234)
202 TIGR01425 SRP54_euk signal rec 95.7 0.023 5E-07 64.7 7.5 55 407-462 102-159 (429)
203 PF13481 AAA_25: AAA domain; P 95.7 0.018 4E-07 57.8 6.0 52 405-457 32-92 (193)
204 PRK06851 hypothetical protein; 95.7 0.0087 1.9E-07 66.8 3.9 48 405-452 30-78 (367)
205 TIGR02774 rexB_recomb ATP-depe 95.7 0.14 3E-06 65.2 15.0 155 551-733 185-349 (1076)
206 TIGR02928 orc1/cdc6 family rep 95.7 0.02 4.3E-07 63.7 6.7 41 392-432 20-67 (365)
207 TIGR00963 secA preprotein tran 95.7 0.057 1.2E-06 65.1 10.7 61 393-456 59-119 (745)
208 TIGR02782 TrbB_P P-type conjug 95.7 0.022 4.7E-07 62.2 6.7 52 391-442 117-170 (299)
209 PRK09694 helicase Cas3; Provis 95.7 0.036 7.7E-07 68.6 9.2 67 390-456 286-353 (878)
210 PRK09112 DNA polymerase III su 95.6 0.036 7.7E-07 61.9 8.5 36 396-431 32-71 (351)
211 PF13207 AAA_17: AAA domain; P 95.6 0.01 2.2E-07 55.0 3.5 22 408-429 2-23 (121)
212 TIGR00959 ffh signal recogniti 95.6 0.027 5.9E-07 64.3 7.5 56 407-463 101-160 (428)
213 PRK08727 hypothetical protein; 95.6 0.058 1.3E-06 56.6 9.5 36 405-441 41-76 (233)
214 KOG0330 ATP-dependent RNA heli 95.6 0.044 9.5E-07 60.5 8.5 69 389-457 82-152 (476)
215 PRK04328 hypothetical protein; 95.6 0.021 4.5E-07 60.6 6.0 53 405-459 23-75 (249)
216 cd01122 GP4d_helicase GP4d_hel 95.6 0.023 5E-07 60.6 6.4 51 405-456 30-80 (271)
217 PRK08903 DnaA regulatory inact 95.5 0.038 8.2E-07 57.4 7.8 50 390-440 23-76 (227)
218 PF05729 NACHT: NACHT domain 95.5 0.012 2.6E-07 56.9 3.8 28 406-433 1-28 (166)
219 PRK13104 secA preprotein trans 95.5 0.032 7E-07 68.2 7.9 47 409-456 99-145 (896)
220 PF06309 Torsin: Torsin; Inte 95.5 0.02 4.4E-07 54.3 4.9 29 405-433 52-81 (127)
221 PRK06835 DNA replication prote 95.5 0.029 6.2E-07 62.0 6.9 37 405-442 183-219 (329)
222 PRK10436 hypothetical protein; 95.5 0.02 4.3E-07 66.0 5.9 41 390-430 201-243 (462)
223 TIGR02655 circ_KaiC circadian 95.5 0.02 4.4E-07 66.6 6.0 54 405-459 21-74 (484)
224 TIGR02655 circ_KaiC circadian 95.5 0.019 4E-07 66.9 5.6 54 405-460 263-316 (484)
225 KOG0991 Replication factor C, 95.4 0.02 4.3E-07 59.4 5.0 27 405-431 48-74 (333)
226 TIGR02533 type_II_gspE general 95.4 0.019 4E-07 66.8 5.4 41 390-430 225-267 (486)
227 PRK06921 hypothetical protein; 95.4 0.045 9.8E-07 58.7 7.9 38 405-442 117-154 (266)
228 PLN03025 replication factor C 95.4 0.02 4.4E-07 62.8 5.4 40 392-431 18-60 (319)
229 KOG0335 ATP-dependent RNA heli 95.4 0.033 7.2E-07 63.5 7.0 68 390-457 96-175 (482)
230 TIGR02640 gas_vesic_GvpN gas v 95.3 0.033 7.1E-07 59.6 6.6 23 405-427 21-43 (262)
231 TIGR02881 spore_V_K stage V sp 95.3 0.014 3.1E-07 62.2 3.8 26 406-431 43-68 (261)
232 COG0467 RAD55 RecA-superfamily 95.3 0.026 5.7E-07 60.0 5.7 43 405-448 23-65 (260)
233 PRK00411 cdc6 cell division co 95.3 0.039 8.5E-07 62.1 7.3 41 393-433 36-83 (394)
234 PRK08691 DNA polymerase III su 95.2 0.057 1.2E-06 64.7 8.8 44 551-594 119-168 (709)
235 TIGR02237 recomb_radB DNA repa 95.2 0.03 6.4E-07 57.3 5.7 39 405-444 12-50 (209)
236 PF02689 Herpes_Helicase: Heli 95.2 0.06 1.3E-06 64.1 8.6 48 403-456 57-104 (818)
237 cd01394 radB RadB. The archaea 95.2 0.025 5.3E-07 58.4 5.0 36 405-441 19-54 (218)
238 KOG0922 DEAH-box RNA helicase 95.2 0.11 2.3E-06 61.1 10.5 53 404-456 65-117 (674)
239 PF07728 AAA_5: AAA domain (dy 95.2 0.023 5E-07 54.1 4.4 22 408-429 2-23 (139)
240 TIGR03881 KaiC_arch_4 KaiC dom 95.2 0.034 7.3E-07 57.8 6.0 53 405-459 20-72 (229)
241 cd00984 DnaB_C DnaB helicase C 95.2 0.035 7.5E-07 58.0 6.1 50 405-455 13-62 (242)
242 PHA03333 putative ATPase subun 95.2 0.24 5.3E-06 59.0 13.4 65 393-457 175-239 (752)
243 TIGR01650 PD_CobS cobaltochela 95.1 0.03 6.5E-07 61.6 5.5 40 390-429 48-88 (327)
244 COG0541 Ffh Signal recognition 95.1 0.22 4.9E-06 56.2 12.3 58 407-464 102-161 (451)
245 PRK12726 flagellar biosynthesi 95.1 0.04 8.6E-07 61.7 6.5 55 405-460 206-263 (407)
246 PRK12724 flagellar biosynthesi 95.1 0.055 1.2E-06 61.4 7.6 36 406-441 224-259 (432)
247 PRK14965 DNA polymerase III su 95.1 0.062 1.3E-06 63.9 8.5 37 394-430 23-63 (576)
248 PF13671 AAA_33: AAA domain; P 95.1 0.015 3.3E-07 55.3 2.8 21 407-427 1-21 (143)
249 PF05496 RuvB_N: Holliday junc 95.0 0.016 3.4E-07 60.3 2.9 34 551-585 101-137 (233)
250 KOG0743 AAA+-type ATPase [Post 95.0 0.013 2.8E-07 66.0 2.3 24 406-429 236-259 (457)
251 PRK05642 DNA replication initi 95.0 0.077 1.7E-06 55.8 7.9 35 406-441 46-80 (234)
252 PRK09361 radB DNA repair and r 94.9 0.033 7.1E-07 57.8 5.0 38 405-443 23-60 (225)
253 TIGR02538 type_IV_pilB type IV 94.9 0.036 7.8E-07 65.7 6.0 40 390-429 299-340 (564)
254 COG2804 PulE Type II secretory 94.9 0.039 8.5E-07 63.3 5.8 42 390-431 241-284 (500)
255 COG1197 Mfd Transcription-repa 94.9 0.21 4.5E-06 62.4 12.4 66 390-456 594-665 (1139)
256 PF13173 AAA_14: AAA domain 94.9 0.045 9.8E-07 51.7 5.4 41 405-447 2-42 (128)
257 TIGR01420 pilT_fam pilus retra 94.9 0.027 5.8E-07 62.7 4.4 36 405-440 122-157 (343)
258 PRK14873 primosome assembly pr 94.8 0.12 2.5E-06 62.4 10.0 48 409-457 164-211 (665)
259 TIGR02880 cbbX_cfxQ probable R 94.8 0.025 5.4E-07 61.3 3.8 27 407-433 60-86 (284)
260 PF13238 AAA_18: AAA domain; P 94.8 0.026 5.6E-07 52.3 3.4 22 408-429 1-22 (129)
261 TIGR02525 plasmid_TraJ plasmid 94.7 0.063 1.4E-06 60.3 7.0 47 391-439 137-184 (372)
262 PRK12402 replication factor C 94.7 0.042 9E-07 60.3 5.3 41 392-432 20-63 (337)
263 PRK07471 DNA polymerase III su 94.7 0.13 2.8E-06 57.8 9.2 36 397-432 29-68 (365)
264 cd01130 VirB11-like_ATPase Typ 94.6 0.047 1E-06 55.2 5.1 39 390-428 9-48 (186)
265 PRK09751 putative ATP-dependen 94.6 0.083 1.8E-06 68.4 8.4 47 410-456 1-59 (1490)
266 cd01983 Fer4_NifH The Fer4_Nif 94.6 0.055 1.2E-06 47.0 4.9 33 408-441 2-34 (99)
267 TIGR00635 ruvB Holliday juncti 94.6 0.045 9.6E-07 59.4 5.2 23 406-428 31-53 (305)
268 COG1474 CDC6 Cdc6-related prot 94.6 0.079 1.7E-06 59.5 7.2 65 392-456 22-95 (366)
269 PRK06731 flhF flagellar biosyn 94.5 0.22 4.9E-06 53.5 10.3 52 406-458 76-130 (270)
270 PRK11823 DNA repair protein Ra 94.5 0.064 1.4E-06 61.8 6.3 53 405-459 80-132 (446)
271 PRK05707 DNA polymerase III su 94.4 0.13 2.8E-06 56.9 8.5 45 551-595 106-156 (328)
272 TIGR02012 tigrfam_recA protein 94.4 0.068 1.5E-06 58.8 6.2 39 406-445 56-94 (321)
273 TIGR03015 pepcterm_ATPase puta 94.4 0.072 1.6E-06 56.5 6.2 38 392-429 25-67 (269)
274 PRK08939 primosomal protein Dn 94.4 0.04 8.8E-07 60.3 4.3 34 407-441 158-191 (306)
275 PF02492 cobW: CobW/HypB/UreG, 94.4 0.085 1.9E-06 52.9 6.3 57 406-466 1-59 (178)
276 KOG0781 Signal recognition par 94.4 0.15 3.2E-06 57.9 8.6 46 405-451 377-426 (587)
277 PF00437 T2SE: Type II/IV secr 94.3 0.045 9.8E-07 58.4 4.5 47 394-441 115-162 (270)
278 PHA00729 NTP-binding motif con 94.3 0.035 7.5E-07 58.0 3.4 24 407-430 19-42 (226)
279 cd01121 Sms Sms (bacterial rad 94.3 0.074 1.6E-06 59.8 6.3 52 405-458 82-133 (372)
280 CHL00181 cbbX CbbX; Provisiona 94.3 0.038 8.1E-07 60.0 3.8 26 407-432 61-86 (287)
281 PRK09302 circadian clock prote 94.3 0.066 1.4E-06 62.7 6.1 54 405-460 273-326 (509)
282 PRK04195 replication factor C 94.3 0.051 1.1E-06 63.3 5.1 39 391-429 18-63 (482)
283 cd02019 NK Nucleoside/nucleoti 94.3 0.071 1.5E-06 44.9 4.6 22 408-429 2-23 (69)
284 cd00983 recA RecA is a bacter 94.2 0.11 2.4E-06 57.3 7.2 39 406-445 56-94 (325)
285 PF00308 Bac_DnaA: Bacterial d 94.2 0.26 5.7E-06 51.3 9.6 35 407-441 36-71 (219)
286 PRK07764 DNA polymerase III su 94.2 0.16 3.5E-06 62.6 9.3 24 407-430 39-62 (824)
287 cd00544 CobU Adenosylcobinamid 94.2 0.059 1.3E-06 53.9 4.6 46 407-456 1-46 (169)
288 PTZ00112 origin recognition co 94.2 0.066 1.4E-06 65.2 5.7 39 393-431 761-807 (1164)
289 COG1643 HrpA HrpA-like helicas 94.1 0.12 2.6E-06 63.4 8.0 64 394-457 53-117 (845)
290 PRK09302 circadian clock prote 94.1 0.083 1.8E-06 61.9 6.4 55 405-460 31-85 (509)
291 TIGR02524 dot_icm_DotB Dot/Icm 94.1 0.095 2.1E-06 58.7 6.5 29 404-432 133-161 (358)
292 KOG0923 mRNA splicing factor A 94.1 0.12 2.6E-06 60.4 7.3 52 405-456 280-332 (902)
293 PRK13768 GTPase; Provisional 94.1 0.065 1.4E-06 57.1 4.9 34 407-441 4-37 (253)
294 PF12846 AAA_10: AAA-like doma 94.0 0.07 1.5E-06 56.9 5.2 57 405-466 1-57 (304)
295 TIGR01359 UMP_CMP_kin_fam UMP- 94.0 0.04 8.7E-07 55.0 3.2 22 407-428 1-22 (183)
296 KOG0780 Signal recognition par 94.0 0.13 2.9E-06 56.9 7.2 57 406-462 102-160 (483)
297 PRK06851 hypothetical protein; 94.0 0.064 1.4E-06 60.0 4.9 45 405-450 214-260 (367)
298 PRK00149 dnaA chromosomal repl 94.0 0.17 3.7E-06 58.3 8.6 37 406-442 149-186 (450)
299 PRK00080 ruvB Holliday junctio 94.0 0.068 1.5E-06 58.9 5.2 24 406-429 52-75 (328)
300 PHA02544 44 clamp loader, smal 94.0 0.13 2.7E-06 56.2 7.1 39 391-429 25-67 (316)
301 KOG1131 RNA polymerase II tran 94.0 0.67 1.4E-05 53.2 12.6 63 393-455 19-88 (755)
302 COG1222 RPT1 ATP-dependent 26S 94.0 0.062 1.3E-06 59.1 4.5 19 408-426 188-206 (406)
303 COG1419 FlhF Flagellar GTP-bin 93.9 0.055 1.2E-06 60.7 4.2 37 405-441 203-240 (407)
304 TIGR01360 aden_kin_iso1 adenyl 93.9 0.048 1E-06 54.4 3.5 25 405-429 3-27 (188)
305 TIGR01242 26Sp45 26S proteasom 93.9 0.066 1.4E-06 59.9 4.8 21 408-428 159-179 (364)
306 COG1102 Cmk Cytidylate kinase 93.9 0.045 9.7E-07 54.0 2.9 22 408-429 3-24 (179)
307 PRK03992 proteasome-activating 93.8 0.076 1.7E-06 60.1 5.1 22 407-428 167-188 (389)
308 PF03308 ArgK: ArgK protein; 93.8 0.066 1.4E-06 56.8 4.2 33 408-441 32-64 (266)
309 PF03205 MobB: Molybdopterin g 93.8 0.093 2E-06 50.8 5.0 35 406-441 1-35 (140)
310 PF03266 NTPase_1: NTPase; In 93.8 0.064 1.4E-06 53.6 3.9 25 408-432 2-26 (168)
311 PRK06995 flhF flagellar biosyn 93.7 0.08 1.7E-06 61.3 5.1 36 406-441 257-293 (484)
312 TIGR00416 sms DNA repair prote 93.7 0.12 2.5E-06 59.8 6.4 52 405-458 94-145 (454)
313 PRK11331 5-methylcytosine-spec 93.7 0.087 1.9E-06 60.2 5.3 38 392-429 180-218 (459)
314 PRK12326 preprotein translocas 93.6 0.25 5.5E-06 59.3 9.2 63 693-760 414-493 (764)
315 TIGR03689 pup_AAA proteasome A 93.6 0.081 1.8E-06 61.7 5.0 24 407-430 218-241 (512)
316 PF00910 RNA_helicase: RNA hel 93.6 0.066 1.4E-06 49.1 3.5 24 409-432 2-25 (107)
317 COG1201 Lhr Lhr-like helicases 93.6 0.24 5.2E-06 60.5 9.1 68 389-456 21-95 (814)
318 PRK14723 flhF flagellar biosyn 93.6 0.12 2.6E-06 62.7 6.5 56 406-461 186-245 (767)
319 PF01078 Mg_chelatase: Magnesi 93.6 0.088 1.9E-06 54.2 4.6 34 393-426 9-43 (206)
320 PRK13531 regulatory ATPase Rav 93.5 0.078 1.7E-06 61.1 4.6 30 400-429 34-63 (498)
321 PTZ00361 26 proteosome regulat 93.5 0.096 2.1E-06 60.1 5.3 22 407-428 219-240 (438)
322 COG1444 Predicted P-loop ATPas 93.5 1.3 2.8E-05 53.7 14.8 67 390-456 211-283 (758)
323 TIGR00362 DnaA chromosomal rep 93.5 0.15 3.2E-06 58.0 6.7 35 407-441 138-173 (405)
324 TIGR00750 lao LAO/AO transport 93.4 0.098 2.1E-06 57.1 5.1 36 405-441 34-69 (300)
325 PHA03368 DNA packaging termina 93.4 0.82 1.8E-05 54.5 12.7 55 402-456 251-306 (738)
326 PF13555 AAA_29: P-loop contai 93.4 0.087 1.9E-06 43.8 3.5 26 406-431 24-49 (62)
327 PRK00440 rfc replication facto 93.4 0.11 2.4E-06 56.4 5.4 38 393-430 23-63 (319)
328 PF05673 DUF815: Protein of un 93.4 0.31 6.8E-06 51.4 8.4 60 405-465 52-112 (249)
329 cd02021 GntK Gluconate kinase 93.3 0.063 1.4E-06 51.8 2.9 22 407-428 1-22 (150)
330 TIGR00176 mobB molybdopterin-g 93.3 0.12 2.6E-06 50.9 4.9 35 408-443 2-36 (155)
331 PRK08233 hypothetical protein; 93.2 0.063 1.4E-06 53.2 2.9 24 406-429 4-27 (182)
332 PRK13342 recombination factor 93.2 0.13 2.9E-06 58.6 5.9 22 406-427 37-58 (413)
333 COG3857 AddB ATP-dependent nuc 93.2 3.1 6.7E-05 51.7 17.3 58 407-465 3-66 (1108)
334 PRK14962 DNA polymerase III su 93.2 0.091 2E-06 60.9 4.5 24 407-430 38-61 (472)
335 cd03114 ArgK-like The function 93.1 0.13 2.8E-06 50.2 4.9 33 408-441 2-34 (148)
336 cd01125 repA Hexameric Replica 93.1 0.13 2.7E-06 54.1 5.2 50 407-457 3-63 (239)
337 PRK08118 topology modulation p 93.1 0.075 1.6E-06 52.9 3.3 21 408-428 4-24 (167)
338 COG1202 Superfamily II helicas 93.1 0.21 4.6E-06 57.7 7.1 78 388-466 214-298 (830)
339 PTZ00454 26S protease regulato 93.1 0.11 2.3E-06 59.1 4.9 22 406-427 180-201 (398)
340 COG4088 Predicted nucleotide k 93.0 0.088 1.9E-06 53.9 3.5 28 406-433 2-29 (261)
341 COG5192 BMS1 GTP-binding prote 93.0 0.12 2.5E-06 59.4 4.8 25 408-432 72-96 (1077)
342 PRK05541 adenylylsulfate kinas 93.0 0.13 2.9E-06 51.1 4.8 29 406-434 8-36 (176)
343 PRK05800 cobU adenosylcobinami 93.0 0.11 2.4E-06 51.9 4.3 46 407-456 3-48 (170)
344 PRK14961 DNA polymerase III su 93.0 0.11 2.3E-06 58.4 4.6 24 407-430 40-63 (363)
345 PF07726 AAA_3: ATPase family 92.9 0.062 1.3E-06 51.2 2.2 21 408-428 2-22 (131)
346 KOG0951 RNA helicase BRR2, DEA 92.9 0.27 5.8E-06 61.4 8.0 79 389-467 308-401 (1674)
347 cd01393 recA_like RecA is a b 92.9 0.14 3.1E-06 52.8 5.2 40 405-444 19-63 (226)
348 PRK09435 membrane ATPase/prote 92.9 0.13 2.8E-06 56.9 5.1 35 407-442 58-92 (332)
349 PRK00131 aroK shikimate kinase 92.9 0.091 2E-06 51.5 3.5 25 405-429 4-28 (175)
350 PRK09354 recA recombinase A; P 92.8 0.18 3.8E-06 56.1 5.9 39 406-445 61-99 (349)
351 KOG0385 Chromatin remodeling c 92.8 0.54 1.2E-05 56.2 10.0 147 390-587 167-329 (971)
352 PRK14531 adenylate kinase; Pro 92.7 0.092 2E-06 52.8 3.4 22 407-428 4-25 (183)
353 KOG0348 ATP-dependent RNA heli 92.7 0.33 7.1E-06 55.8 7.8 69 389-457 158-234 (708)
354 PRK14530 adenylate kinase; Pro 92.7 0.1 2.2E-06 53.9 3.7 25 405-429 3-27 (215)
355 KOG1533 Predicted GTPase [Gene 92.7 0.09 1.9E-06 54.7 3.1 32 408-440 5-36 (290)
356 PRK03839 putative kinase; Prov 92.7 0.099 2.1E-06 52.2 3.5 22 408-429 3-24 (180)
357 COG3854 SpoIIIAA ncharacterize 92.7 0.14 3E-06 53.3 4.5 37 408-444 140-180 (308)
358 PRK06762 hypothetical protein; 92.6 0.1 2.2E-06 51.3 3.5 24 406-429 3-26 (166)
359 PRK12422 chromosomal replicati 92.6 0.22 4.7E-06 57.5 6.6 36 406-442 142-177 (445)
360 cd02028 UMPK_like Uridine mono 92.6 0.16 3.5E-06 51.1 4.9 33 407-440 1-33 (179)
361 COG1703 ArgK Putative periplas 92.6 0.12 2.6E-06 55.7 4.0 34 407-441 53-86 (323)
362 PTZ00301 uridine kinase; Provi 92.6 0.17 3.7E-06 52.4 5.1 27 406-432 4-30 (210)
363 COG1618 Predicted nucleotide k 92.6 0.12 2.6E-06 51.0 3.7 26 408-433 8-33 (179)
364 COG4581 Superfamily II RNA hel 92.6 0.28 6E-06 61.1 7.6 66 390-456 119-184 (1041)
365 PF13521 AAA_28: AAA domain; P 92.5 0.1 2.3E-06 51.2 3.3 21 408-428 2-22 (163)
366 PRK13900 type IV secretion sys 92.5 0.19 4.2E-06 55.7 5.7 42 397-440 151-193 (332)
367 PHA02244 ATPase-like protein 92.5 0.17 3.8E-06 56.5 5.3 31 398-428 111-142 (383)
368 PRK00889 adenylylsulfate kinas 92.5 0.18 3.9E-06 50.1 5.0 34 406-440 5-38 (175)
369 cd01428 ADK Adenylate kinase ( 92.5 0.097 2.1E-06 52.5 3.1 21 408-428 2-22 (194)
370 PF03215 Rad17: Rad17 cell cyc 92.4 0.1 2.2E-06 61.2 3.6 24 406-429 46-69 (519)
371 PRK12608 transcription termina 92.4 0.18 3.8E-06 56.5 5.3 50 407-456 135-187 (380)
372 TIGR00665 DnaB replicative DNA 92.4 0.19 4.1E-06 57.6 5.8 52 405-457 195-246 (434)
373 PRK14532 adenylate kinase; Pro 92.4 0.096 2.1E-06 52.6 3.0 20 408-427 3-22 (188)
374 cd02034 CooC The accessory pro 92.4 0.21 4.5E-06 46.8 4.9 45 408-456 2-46 (116)
375 PF03029 ATP_bind_1: Conserved 92.4 0.098 2.1E-06 55.2 3.1 29 410-439 1-29 (238)
376 PRK06620 hypothetical protein; 92.3 0.1 2.2E-06 54.2 3.1 19 406-424 45-63 (214)
377 PF04665 Pox_A32: Poxvirus A32 92.3 0.14 3.1E-06 54.0 4.2 40 402-442 9-49 (241)
378 PRK07667 uridine kinase; Provi 92.3 0.19 4.1E-06 51.1 5.0 35 407-442 19-53 (193)
379 COG0378 HypB Ni2+-binding GTPa 92.3 0.14 3.1E-06 52.0 4.0 51 408-464 16-70 (202)
380 TIGR03574 selen_PSTK L-seryl-t 92.3 0.16 3.6E-06 53.6 4.7 33 407-440 1-33 (249)
381 TIGR01313 therm_gnt_kin carboh 92.3 0.087 1.9E-06 51.6 2.4 21 409-429 2-22 (163)
382 cd02023 UMPK Uridine monophosp 92.3 0.17 3.7E-06 51.4 4.6 33 407-442 1-33 (198)
383 COG0714 MoxR-like ATPases [Gen 92.2 0.16 3.5E-06 56.0 4.7 36 394-429 31-67 (329)
384 COG1936 Predicted nucleotide k 92.2 0.1 2.2E-06 52.0 2.8 19 407-425 2-20 (180)
385 PRK14527 adenylate kinase; Pro 92.2 0.13 2.8E-06 52.1 3.6 24 405-428 6-29 (191)
386 COG0610 Type I site-specific r 92.2 0.56 1.2E-05 59.1 9.8 51 407-457 275-326 (962)
387 PLN02200 adenylate kinase fami 92.2 0.12 2.6E-06 54.5 3.4 23 406-428 44-66 (234)
388 PF00406 ADK: Adenylate kinase 92.2 0.11 2.3E-06 50.4 2.9 19 410-428 1-19 (151)
389 cd01123 Rad51_DMC1_radA Rad51_ 92.2 0.13 2.9E-06 53.4 3.8 40 405-444 19-63 (235)
390 PRK10463 hydrogenase nickel in 92.2 0.41 9E-06 51.9 7.6 71 392-465 88-161 (290)
391 PRK14963 DNA polymerase III su 92.1 0.16 3.5E-06 59.4 4.7 24 407-430 38-61 (504)
392 COG0556 UvrB Helicase subunit 92.0 0.3 6.6E-06 56.2 6.5 60 394-457 16-80 (663)
393 PRK06645 DNA polymerase III su 92.0 0.16 3.5E-06 59.4 4.5 25 406-430 44-68 (507)
394 KOG0389 SNF2 family DNA-depend 92.0 0.33 7.2E-06 58.0 7.0 149 390-587 399-564 (941)
395 TIGR00041 DTMP_kinase thymidyl 92.0 0.3 6.5E-06 49.2 6.0 34 406-440 4-37 (195)
396 PRK04040 adenylate kinase; Pro 91.9 0.13 2.9E-06 52.2 3.4 23 407-429 4-26 (188)
397 cd02020 CMPK Cytidine monophos 91.9 0.14 3E-06 48.7 3.3 22 408-429 2-23 (147)
398 PRK06696 uridine kinase; Valid 91.9 0.22 4.7E-06 51.8 5.0 33 407-440 24-56 (223)
399 TIGR02397 dnaX_nterm DNA polym 91.9 0.21 4.5E-06 55.3 5.2 39 392-430 19-61 (355)
400 PRK02496 adk adenylate kinase; 91.9 0.14 2.9E-06 51.4 3.3 21 408-428 4-24 (184)
401 cd00227 CPT Chloramphenicol (C 91.8 0.16 3.4E-06 50.7 3.7 24 405-428 2-25 (175)
402 TIGR02322 phosphon_PhnN phosph 91.8 0.14 3.1E-06 51.0 3.4 24 406-429 2-25 (179)
403 cd02025 PanK Pantothenate kina 91.8 0.21 4.6E-06 52.0 4.8 35 408-442 2-37 (220)
404 TIGR00150 HI0065_YjeE ATPase, 91.8 0.27 5.9E-06 47.2 5.1 25 405-429 22-46 (133)
405 KOG0342 ATP-dependent RNA heli 91.8 0.52 1.1E-05 53.7 8.0 71 386-456 100-176 (543)
406 KOG0731 AAA+-type ATPase conta 91.8 0.11 2.5E-06 62.4 3.0 34 392-426 332-365 (774)
407 COG2019 AdkA Archaeal adenylat 91.8 1.3 2.8E-05 44.2 9.7 24 406-429 5-28 (189)
408 PRK07261 topology modulation p 91.7 0.14 3E-06 51.1 3.2 20 408-427 3-22 (171)
409 PRK14494 putative molybdopteri 91.7 0.3 6.6E-06 51.2 5.8 58 407-465 3-63 (229)
410 PRK13764 ATPase; Provisional 91.7 0.33 7.2E-06 57.7 6.8 27 405-431 257-283 (602)
411 PRK14528 adenylate kinase; Pro 91.7 0.14 3.1E-06 51.7 3.3 22 407-428 3-24 (186)
412 PRK05480 uridine/cytidine kina 91.7 0.22 4.7E-06 51.1 4.7 24 406-429 7-30 (209)
413 PRK12904 preprotein translocas 91.7 0.49 1.1E-05 58.1 8.2 47 409-456 98-144 (830)
414 PRK13341 recombination factor 91.7 0.32 7E-06 59.3 6.8 23 406-428 53-75 (725)
415 COG2255 RuvB Holliday junction 91.6 0.26 5.6E-06 52.9 5.1 22 406-428 53-74 (332)
416 PRK00279 adk adenylate kinase; 91.6 0.15 3.2E-06 52.7 3.3 21 408-428 3-23 (215)
417 KOG0328 Predicted ATP-dependen 91.6 0.064 1.4E-06 56.9 0.5 67 392-458 51-119 (400)
418 PRK13851 type IV secretion sys 91.6 0.19 4.2E-06 55.9 4.3 45 394-440 150-195 (344)
419 TIGR03600 phage_DnaB phage rep 91.5 0.32 7E-06 55.6 6.3 51 405-456 194-244 (421)
420 PF00485 PRK: Phosphoribulokin 91.5 0.16 3.6E-06 51.5 3.5 27 407-433 1-27 (194)
421 PLN00020 ribulose bisphosphate 91.5 0.14 3.1E-06 57.1 3.2 24 406-429 149-172 (413)
422 cd02027 APSK Adenosine 5'-phos 91.5 0.26 5.7E-06 48.0 4.8 27 407-433 1-27 (149)
423 KOG0388 SNF2 family DNA-depend 91.4 0.44 9.6E-06 56.2 7.1 154 391-587 568-735 (1185)
424 PF08433 KTI12: Chromatin asso 91.4 0.25 5.4E-06 53.2 4.9 35 406-441 2-36 (270)
425 PRK13103 secA preprotein trans 91.4 0.64 1.4E-05 57.3 8.8 62 693-759 436-514 (913)
426 KOG4284 DEAD box protein [Tran 91.4 0.19 4E-06 58.8 4.1 68 392-459 49-118 (980)
427 COG4178 ABC-type uncharacteriz 91.4 0.26 5.7E-06 58.2 5.4 34 551-584 533-572 (604)
428 KOG0733 Nuclear AAA ATPase (VC 91.4 0.12 2.6E-06 60.2 2.5 22 408-429 226-247 (802)
429 TIGR01351 adk adenylate kinase 91.3 0.15 3.3E-06 52.4 3.1 20 408-427 2-21 (210)
430 KOG3347 Predicted nucleotide k 91.3 0.17 3.7E-06 49.3 3.1 22 405-426 7-28 (176)
431 PRK14493 putative bifunctional 91.3 0.26 5.7E-06 53.1 4.9 34 407-442 3-36 (274)
432 cd00550 ArsA_ATPase Oxyanion-t 91.3 0.26 5.7E-06 52.4 4.9 34 407-441 2-35 (254)
433 KOG0390 DNA repair protein, SN 91.3 1.2 2.7E-05 54.0 10.9 64 390-454 238-317 (776)
434 CHL00195 ycf46 Ycf46; Provisio 91.3 0.16 3.4E-06 59.2 3.4 22 407-428 261-282 (489)
435 cd03116 MobB Molybdenum is an 91.2 0.43 9.3E-06 47.2 6.0 59 407-466 3-66 (159)
436 PRK08154 anaerobic benzoate ca 91.2 0.27 5.9E-06 53.9 5.1 42 388-429 105-157 (309)
437 PRK14957 DNA polymerase III su 91.2 0.22 4.7E-06 58.7 4.5 24 407-430 40-63 (546)
438 COG0470 HolB ATPase involved i 91.2 0.32 7E-06 52.8 5.6 26 407-432 26-51 (325)
439 KOG0651 26S proteasome regulat 91.2 0.15 3.2E-06 55.2 2.8 22 406-427 167-188 (388)
440 PRK14964 DNA polymerase III su 91.2 0.44 9.5E-06 55.5 6.9 49 407-455 37-106 (491)
441 KOG1970 Checkpoint RAD17-RFC c 91.1 0.16 3.5E-06 58.6 3.2 28 402-429 107-134 (634)
442 cd02117 NifH_like This family 91.1 0.32 6.9E-06 50.1 5.2 32 408-440 3-34 (212)
443 PRK10751 molybdopterin-guanine 91.1 0.32 7E-06 48.8 5.0 39 405-444 6-44 (173)
444 KOG0738 AAA+-type ATPase [Post 91.1 0.14 3.1E-06 56.8 2.7 47 408-463 248-294 (491)
445 TIGR01241 FtsH_fam ATP-depende 91.1 0.15 3.3E-06 59.6 3.1 22 407-428 90-111 (495)
446 PHA02624 large T antigen; Prov 91.0 0.23 5E-06 58.5 4.5 36 394-429 416-455 (647)
447 PRK13107 preprotein translocas 91.0 0.67 1.5E-05 57.0 8.5 47 409-456 99-145 (908)
448 PRK13947 shikimate kinase; Pro 91.0 0.19 4.1E-06 49.5 3.3 22 408-429 4-25 (171)
449 PRK04301 radA DNA repair and r 91.0 0.31 6.7E-06 53.6 5.3 50 405-454 102-157 (317)
450 KOG0331 ATP-dependent RNA heli 91.0 0.65 1.4E-05 54.0 8.0 69 389-457 112-188 (519)
451 PRK12906 secA preprotein trans 90.9 0.64 1.4E-05 56.8 8.2 46 409-455 97-142 (796)
452 PRK05439 pantothenate kinase; 90.9 0.3 6.5E-06 53.6 5.0 35 407-441 88-123 (311)
453 cd01672 TMPK Thymidine monopho 90.9 0.42 9.2E-06 47.7 5.8 33 407-440 2-34 (200)
454 COG0563 Adk Adenylate kinase a 90.9 0.2 4.2E-06 50.6 3.3 21 408-428 3-23 (178)
455 PRK05298 excinuclease ABC subu 90.9 0.98 2.1E-05 54.7 9.8 65 389-457 11-80 (652)
456 PF00931 NB-ARC: NB-ARC domain 90.8 0.2 4.3E-06 53.5 3.5 37 394-430 3-44 (287)
457 PF03796 DnaB_C: DnaB-like hel 90.6 0.52 1.1E-05 50.0 6.5 51 405-456 19-69 (259)
458 PRK06547 hypothetical protein; 90.6 0.22 4.8E-06 49.9 3.4 23 406-428 16-38 (172)
459 PRK05748 replicative DNA helic 90.5 0.41 9E-06 55.2 6.0 51 405-456 203-253 (448)
460 COG1223 Predicted ATPase (AAA+ 90.5 0.19 4.2E-06 53.1 2.9 22 405-426 151-172 (368)
461 PRK14955 DNA polymerase III su 90.5 0.33 7.2E-06 55.1 5.0 35 396-430 25-63 (397)
462 PF06068 TIP49: TIP49 C-termin 90.4 0.3 6.4E-06 54.4 4.4 25 405-429 50-74 (398)
463 COG1224 TIP49 DNA helicase TIP 90.4 0.22 4.8E-06 54.8 3.3 24 406-429 66-89 (450)
464 PF02374 ArsA_ATPase: Anion-tr 90.4 0.37 8.1E-06 52.8 5.2 45 406-451 2-48 (305)
465 cd00464 SK Shikimate kinase (S 90.4 0.24 5.3E-06 47.6 3.3 22 408-429 2-23 (154)
466 PF05707 Zot: Zonular occluden 90.3 0.21 4.7E-06 50.7 3.1 26 407-432 2-28 (193)
467 PF13476 AAA_23: AAA domain; P 90.3 0.23 5E-06 49.6 3.3 27 404-430 18-44 (202)
468 PHA02530 pseT polynucleotide k 90.3 0.2 4.3E-06 54.3 3.0 24 406-429 3-26 (300)
469 PHA00547 hypothetical protein 90.3 0.43 9.2E-06 50.5 5.2 37 394-430 64-100 (337)
470 TIGR00631 uvrb excinuclease AB 90.3 0.84 1.8E-05 55.2 8.5 62 392-457 11-77 (655)
471 PRK14970 DNA polymerase III su 90.3 0.38 8.2E-06 53.8 5.2 38 393-430 23-64 (367)
472 TIGR02236 recomb_radA DNA repa 90.2 0.37 8E-06 52.7 5.0 26 405-430 95-120 (310)
473 PRK13765 ATP-dependent proteas 90.2 0.35 7.6E-06 58.0 5.2 50 405-454 50-99 (637)
474 PRK14489 putative bifunctional 90.2 0.74 1.6E-05 51.8 7.5 61 406-467 206-271 (366)
475 PTZ00088 adenylate kinase 1; P 90.2 0.24 5.2E-06 52.0 3.3 20 408-427 9-28 (229)
476 COG3911 Predicted ATPase [Gene 90.2 0.25 5.3E-06 48.2 3.1 21 406-426 10-30 (183)
477 PRK01184 hypothetical protein; 90.1 0.23 5E-06 49.7 3.0 16 407-422 3-18 (184)
478 PF01583 APS_kinase: Adenylyls 90.1 0.49 1.1E-05 46.7 5.2 32 407-439 4-35 (156)
479 PRK05896 DNA polymerase III su 90.0 0.42 9.2E-06 56.7 5.4 24 407-430 40-63 (605)
480 TIGR03575 selen_PSTK_euk L-ser 89.9 0.39 8.5E-06 53.3 4.8 38 407-444 1-38 (340)
481 TIGR00764 lon_rel lon-related 89.9 0.44 9.6E-06 57.1 5.6 50 405-454 37-86 (608)
482 PRK13407 bchI magnesium chelat 89.9 0.39 8.5E-06 53.3 4.8 22 406-427 30-51 (334)
483 PF01580 FtsK_SpoIIIE: FtsK/Sp 89.8 0.36 7.7E-06 49.3 4.2 39 405-443 38-79 (205)
484 PRK14960 DNA polymerase III su 89.8 0.35 7.6E-06 57.8 4.6 25 406-430 38-62 (702)
485 PF13479 AAA_24: AAA domain 89.8 0.25 5.5E-06 51.1 3.1 27 407-442 5-31 (213)
486 cd03112 CobW_like The function 89.8 0.54 1.2E-05 46.3 5.2 40 406-448 1-42 (158)
487 PRK06217 hypothetical protein; 89.6 0.26 5.7E-06 49.5 3.0 22 408-429 4-25 (183)
488 PF06414 Zeta_toxin: Zeta toxi 89.6 0.23 5.1E-06 50.6 2.6 25 406-430 16-40 (199)
489 COG0606 Predicted ATPase with 89.5 0.29 6.2E-06 56.0 3.5 33 394-426 186-219 (490)
490 PRK06761 hypothetical protein; 89.5 0.28 6E-06 53.1 3.3 26 406-431 4-29 (282)
491 PRK08760 replicative DNA helic 89.5 0.54 1.2E-05 54.7 5.9 52 405-457 229-280 (476)
492 PRK07940 DNA polymerase III su 89.5 0.4 8.6E-06 54.5 4.6 25 407-431 38-62 (394)
493 PRK09519 recA DNA recombinatio 89.5 0.69 1.5E-05 56.5 6.8 48 405-453 60-107 (790)
494 TIGR00678 holB DNA polymerase 89.4 0.36 7.9E-06 48.6 3.9 27 406-432 15-41 (188)
495 cd02035 ArsA ArsA ATPase funct 89.4 0.49 1.1E-05 49.0 4.9 34 407-441 1-34 (217)
496 TIGR00602 rad24 checkpoint pro 89.4 0.46 1E-05 57.0 5.2 37 392-428 89-133 (637)
497 PRK05342 clpX ATP-dependent pr 89.3 0.31 6.7E-06 55.6 3.6 23 405-427 108-130 (412)
498 PRK05595 replicative DNA helic 89.3 0.64 1.4E-05 53.6 6.2 52 405-457 201-252 (444)
499 PRK12678 transcription termina 89.3 0.43 9.2E-06 56.1 4.7 28 406-433 417-444 (672)
500 cd02037 MRP-like MRP (Multiple 89.3 0.48 1E-05 46.8 4.6 33 407-440 2-34 (169)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=6.7e-173 Score=1416.26 Aligned_cols=653 Identities=71% Similarity=1.158 Sum_probs=635.4
Q ss_pred cccccccccCCCccCcccCCccCCcccccccCCCCCCceEEcCCCccCeeeeCCCCCCCcchhhhhhhhcCcceEeecCC
Q 004009 118 MAGLSFEETGDDVEGFEYGKADFTEHACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKD 197 (779)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~ycg~~~~~~~~~c~~~~c~kwfcn~~~~~~~shi~~hlv~~~~~~~~lh~~ 197 (779)
.+++.|||-..+.+. .+ +.++|+|+|+||||++|.||++|++ |+|||||||++|+|||||+||||++|++|+||+|
T Consensus 38 ~~e~~fee~~~~~~~-~~-~~~~~~~~c~Ycgi~~p~~v~kc~~--c~Kwfcn~r~gtsgshIv~hlvra~hk~v~lh~d 113 (935)
T KOG1802|consen 38 VGEVLFEECLVEKNR-AR-EQKLPEHACAYCGISEPACVIKCNT--CGKWFCNSRGGTSGSHIVNHLVRAKHKEVSLHKD 113 (935)
T ss_pred cchhhhhhhcccccc-cc-ccccchhhhhhccCCCchheeeccc--cCceeecCCCCCchhHHHHHHHHhhhheeEeccC
Confidence 789999885554333 23 4589999999999999999999999 9999999999999999999999999999999999
Q ss_pred CCCcccceeeecccccccccccceeccCCceEEEEcchhHhH--------------------------------------
Q 004009 198 SPLGETILECYNCGCRNVFLLGFISAKTESVVVLLCREPCLN-------------------------------------- 239 (779)
Q Consensus 198 ~~~~~~~lecy~c~~~nvf~lgf~~~~~~~~~~~~~r~~~~~-------------------------------------- 239 (779)
+|+|||+||||+||++|||+|||||+|+|+|||++||+||++
T Consensus 114 s~lget~lecyncg~~nvf~lGFi~~ksd~VVvllcr~pcas~s~~kd~Nwd~~qw~~li~dr~~l~wivk~pseqe~~~ 193 (935)
T KOG1802|consen 114 SPLGETVLECYNCGSRNVFLLGFIPAKSDSVVVLLCRQPCASRSNLKDMNWDLSQWQPLIEDRCLLSWIVKVPSEQEQLR 193 (935)
T ss_pred CCCCcceEEeeccCcchhhhhcccccccCceEEEEecCcccccccCCCcCCChhhccchhhhhcccchhccCCcchhhhh
Confidence 999999999999999999999999999999999999999986
Q ss_pred -----------------------------------------------------------------HhhhcccccceEEEE
Q 004009 240 -----------------------------------------------------------------MMKESQSKDNVTIRW 254 (779)
Q Consensus 240 -----------------------------------------------------------------~~~e~~~~~~~~~~~ 254 (779)
.+||||.+++++|||
T Consensus 194 aR~iT~qqi~~~eelwr~np~at~~dl~kP~~d~~~~hv~~ry~da~~y~~vf~pliklea~ydk~~Kes~~q~~~tvRW 273 (935)
T KOG1802|consen 194 ARKITAQQIVKLEELWRKNPSATLEDLDKPGEDEEPPHVQLRYEDAYEYQNVFSPLIKLEADYDKRLKESQTQENGTVRW 273 (935)
T ss_pred hccccHHHHHHHHhhhccCCccchhhcCCcccccCCCcccccccchHHHhhhcchhhhhhhhhhhhhhhhcccccceEEe
Confidence 799999999999999
Q ss_pred EecCCceEEEEEEccCCCCCcCCCCCCEEEEEecCCCCCCcceEEEEEEEecc--ccEEEEEeecCCCCccccCCCceEE
Q 004009 255 DIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTA--QEEVALELRASQGVPVDINHGFSVD 332 (779)
Q Consensus 255 ~~~l~~k~~~~f~~~~~~~~~~l~~GD~v~l~~~g~~~~~~~~~~g~V~~v~~--~~~v~l~l~~~~~~p~~~~~~~~v~ 332 (779)
++|||+|+++||.+++.++++++..||+++|+|+|. +..+|.++|+|+++++ ++|+.||++...+.|.+.+++|.|+
T Consensus 274 ~~gLnkk~~a~f~~~k~~~e~kl~~GdE~~L~y~~~-~~~~w~~~g~v~~~pd~~~dE~~lEl~~~~~~p~e~~~~Ftvd 352 (935)
T KOG1802|consen 274 DIGLNKKRLAYFTLPKLDSELKLAIGDEIRLTYSGG-LVLPWNGIGSVLKIPDNNGDEVKLELEFSQDPPIEVTHGFTVD 352 (935)
T ss_pred eeccccceEEEEecCCCcchhccccCCeeEEEecCC-cCCcccccceEEecCCCCcceeEEEeecCCCCCcccccceEEE
Confidence 999999999999999999999999999999999998 6667999999999998 6999999999999999999999999
Q ss_pred EeeccchHHHHHHHHHHHHhhhcchhhhHhhhhcCCchhhhhhhccCCCCCCCCCCCCCCHHHHHHHHHhhcCCeEEEEc
Q 004009 333 FVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQRPISLIQG 412 (779)
Q Consensus 333 ~~~~~~s~~R~~~aL~~~~~~~~~~~~~i~~~llg~~~~~~~~~~~~p~~~~~~~~~~LN~sQ~~AV~~aL~~~l~LIqG 412 (779)
|+|+.++|+||+.||+.|+.|+.+++.|+|+.+||++.++..++..+|+.|+.|++++||.||..||+++|+++++||||
T Consensus 353 ~vwk~ts~drm~~alk~la~D~~~vs~y~y~klLgh~~~~~~~k~~LP~~~s~~~lpkLN~SQ~~AV~~VL~rplsLIQG 432 (935)
T KOG1802|consen 353 FVWKSTSFDRMQLALKLLAVDEKKVSGYLYHKLLGHPVEDSSLKKLLPRRFSVPNLPKLNASQSNAVKHVLQRPLSLIQG 432 (935)
T ss_pred EEEcCccHHHHHHHHHHhhhccccchhhhhhHHhcCcchhhhhcccCchhhcCCCchhhchHHHHHHHHHHcCCceeeec
Confidence 99999999999999999999999999999999999999888888899999999999999999999999999999999999
Q ss_pred CCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCccchhhHHHHHhhccchh
Q 004009 413 PPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSE 492 (779)
Q Consensus 413 PPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~sre~i~~~~~~l~l~~~v~~~~~~~ 492 (779)
|||||||.|+++||++|+++...+||||||||.|||+|+++|++.|++|+|+.+++||.+++++.++++|.+++.+..
T Consensus 433 PPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~tgLKVvRl~aksRE~~~S~vs~L~lh~~~~~~~~-- 510 (935)
T KOG1802|consen 433 PPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKTGLKVVRLCAKSREDIESDVSFLSLHEQLRNMDK-- 510 (935)
T ss_pred CCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhcCceEeeeehhhhhhccCCccHHHHHHHHhccCc--
Confidence 999999999999999999998899999999999999999999999999999999999999999999999999999876
Q ss_pred HHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCccccCCCCCEEEEEcCCCCChhhhhhhh
Q 004009 493 KSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPL 572 (779)
Q Consensus 493 ~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQatEpe~LipL 572 (779)
.+++++.+++++.++++..|+++|..+++..+++++.+|+||||||++||+.+|..++|..||||||+|++||+|||||
T Consensus 511 -pELq~l~klkde~gelS~sD~~k~~~lk~~~e~ell~~AdVIccTcv~Agd~rl~~~kfr~VLiDEaTQatEpe~LiPl 589 (935)
T KOG1802|consen 511 -PELQKLLKLKDEGGELSSSDEKKYRKLKRAAEKELLNQADVICCTCVGAGDRRLSKFKFRTVLIDEATQATEPECLIPL 589 (935)
T ss_pred -HHHHHHHhhhhhcccccchhhHHHHHHHHHHHHHHHhhcCEEEEecccccchhhccccccEEEEecccccCCcchhhhh
Confidence 8899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCCCccEEeccccCCchHHHHHHHhhhcCCcccccCccccc
Q 004009 573 VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINER 652 (779)
Q Consensus 573 ~~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r 652 (779)
.+|++++||||||+||+|++++++++.+||.+||||||+..|..|++|.+||||||.|++|||++||+|.|++|++..+|
T Consensus 590 vlG~kq~VlVGDh~QLgpvi~~kK~a~Agl~qsLferli~lg~~P~~L~vQYRmhP~lSefpsn~fY~G~LqnGVT~~~R 669 (935)
T KOG1802|consen 590 VLGAKQLVLVGDHKQLGPVIMCKKAATAGLSQSLFERLISLGIKPIRLQVQYRMHPALSEFPSNMFYEGELQNGVTEIER 669 (935)
T ss_pred hhcceeEEEeccccccCceeeeHHHHHhHHHHHHHHHHHhccCCceEEEEeeeeChhhhhcchhhhccchhhcCcchhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCCCCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHc
Q 004009 653 QSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (779)
Q Consensus 653 ~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~ 732 (779)
...++++|||.++.|++||...|.|+++.+|+||.|+.||..+++||+.|++.|+.+++|||||||.+|+.+|.++|+..
T Consensus 670 ~~~g~~~pwp~p~~pl~fy~~~g~eeisasGtSf~Nr~Ea~~~ekii~~l~~~gv~~~qIGVITpYegQr~~i~~ym~~~ 749 (935)
T KOG1802|consen 670 SPLGVDFPWPQPDKPLFFYVCYGQEEISASGTSFLNRTEAANCEKIITKLLKSGVKPSQIGVITPYEGQRSYIVNYMQTN 749 (935)
T ss_pred ccCCCCCCCCCCCCccceEEeccceeeeccccceecHHHHHHHHHHHHHHHHcCCCHHHeeeecccchhHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccccCCCeEEccCCCCCCCcCCEEEEEeeeeCCCCCcccccCC
Q 004009 733 GALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQRNRYVKTK 778 (779)
Q Consensus 733 ~~~~~~~~~~V~V~TVD~FQGrEkDvIIlS~VRSn~~~~iGFL~d~ 778 (779)
|.++..+|..|+|+|||+|||+|||+||+||||+|++++||||+|+
T Consensus 750 gsl~~~ly~~veVasVDaFQGrEKdfIIlSCVRsn~~qgIGFl~d~ 795 (935)
T KOG1802|consen 750 GSLHKDLYKEVEVASVDAFQGREKDFIILSCVRSNEHQGIGFLNDP 795 (935)
T ss_pred CccccchhheeEEEeeccccCcccceEEEEEeecccccccccccCc
Confidence 9999999999999999999999999999999999999999999997
No 2
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=4.2e-79 Score=675.97 Aligned_cols=510 Identities=29% Similarity=0.421 Sum_probs=377.6
Q ss_pred EEecCCceEEEEEEccCC-CCCcCCCCCCEEEEEecCCCCCCcceEEEEEEEeccccEEEEEeecCCCCccccCCCceEE
Q 004009 254 WDIGLNKKRVAYFVFPKE-DNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPVDINHGFSVD 332 (779)
Q Consensus 254 ~~~~l~~k~~~~f~~~~~-~~~~~l~~GD~v~l~~~g~~~~~~~~~~g~V~~v~~~~~v~l~l~~~~~~p~~~~~~~~v~ 332 (779)
-..||.||.+..|..... -....+.+||.|.|+...-..+..-...|.|+++... .|.+.+......|.... ..++.
T Consensus 51 ~~tGl~g~~li~f~~~~~~lp~~~~~~gd~v~lr~~~~~~~~~~~~~GvV~~~~~~-~i~~a~ee~~d~~~~~~-~l~l~ 128 (649)
T KOG1803|consen 51 VRTGLGGKSLIVFSKNREVLPSNSFGPGDVVWLRTDKLNNKSKPCTEGVVYRVAED-SIDVAFEEEVDKPLTLS-SLRLL 128 (649)
T ss_pred EeecccceEEEEeccCccccCcCCCCCCcEEEEEcccccccCcccccceeEeeccc-hhhHhHHhhhcccchhh-HHHHH
Confidence 347999999998887653 3456799999999984321111111456889988752 34444444444444332 45667
Q ss_pred EeeccchHHHHHHHHHHHHhh-hcchhhhHhhhhcCCchhhhhhhccCCCCCCCCCCCCCCHHHHHHHHHhhcC-CeEEE
Q 004009 333 FVWKSTSFDRMQGAMKTFAVD-ETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVLQR-PISLI 410 (779)
Q Consensus 333 ~~~~~~s~~R~~~aL~~~~~~-~~~~~~~i~~~llg~~~~~~~~~~~~p~~~~~~~~~~LN~sQ~~AV~~aL~~-~l~LI 410 (779)
.+.|..+|+||..+|..+... ....+.-+.+.+.|...+........ .. ..+....||.||++||..++.. .+++|
T Consensus 129 kl~n~vty~R~~~~~i~l~~~~~~~~~~~vv~~l~~~~~~~~~~~~~~-~~-~~~~~~~ln~SQk~Av~~~~~~k~l~~I 206 (649)
T KOG1803|consen 129 KLENKVTYRRMKDTMICLSKFSNPGPSSDVVETLFGDRKPIPSPNIEI-KK-ITFFNKNLNSSQKAAVSFAINNKDLLII 206 (649)
T ss_pred HhhhhhhheecHHHHhhHhhhcCccchhhhHHHHhccccCCCCchhhh-cc-cccCCccccHHHHHHHHHHhccCCceEe
Confidence 778899999999998887652 11122233444555432221111000 00 1223468999999999999985 89999
Q ss_pred EcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCccchhhHHHHHhhccc
Q 004009 411 QGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDT 490 (779)
Q Consensus 411 qGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~sre~i~~~~~~l~l~~~v~~~~~ 490 (779)
+||||||||+|++++|.++++++. +||||||||.|||||.+||.-.+++++|+|++.|..... ....+...+..-+.
T Consensus 207 ~GPPGTGKT~TlvEiI~qlvk~~k-~VLVcaPSn~AVdNiverl~~~~~~l~R~g~paRl~~~~--~~~sld~~~~t~d~ 283 (649)
T KOG1803|consen 207 HGPPGTGKTRTLVEIISQLVKQKK-RVLVCAPSNVAVDNIVERLTHLKLNLVRVGHPARLLESV--ADHSLDLLSNTKDN 283 (649)
T ss_pred eCCCCCCceeeHHHHHHHHHHcCC-eEEEEcCchHHHHHHHHHhcccccchhhcCchhhhhhhh--hhhHHHHHHhcCch
Confidence 999999999999999999999874 999999999999999999999999999999998753211 11122222221111
Q ss_pred hhHH-HH-HHHHHhhhhhcc-----CCchHHHHH-------HHHHHHHHHHHhhccccceecccccCCccccCCCCCEEE
Q 004009 491 SEKS-EL-HKLQQLKDEQGE-----LSSSDEKKY-------KALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVL 556 (779)
Q Consensus 491 ~~~~-~l-~kl~~lk~~~~e-----ls~~d~k~~-------~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VI 556 (779)
.... .. +.+......... +.....+.+ ++..+....+++.+++||++|..++....+.+..||+||
T Consensus 284 ~~~~~~~sk~~d~~~~~~~~tk~~~~~~~~~~~i~~lrkdl~kre~~~v~eii~n~~VVfaTl~ga~~~~~~~~~fD~vI 363 (649)
T KOG1803|consen 284 SQNAKDISKDIDILFQKNTKTKNDKLRKGIRKEIKLLRKDLRKRERKTVKEIISNSRVVFATLGGALDRLLRKRTFDLVI 363 (649)
T ss_pred hhhhhhhHHHHHHHhhhhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccceEEEeccchhhhhhcccCCCEEE
Confidence 0000 00 001100000000 001111112 222233446899999999999999999888889999999
Q ss_pred EEcCCCCChhhhhhhhhcCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCC--CccEEeccccCCchHHHHHH
Q 004009 557 IDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG--LKPIRLQVQYRMHPSLSEFP 634 (779)
Q Consensus 557 IDEAsQatEpe~LipL~~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g--~~~~~L~~QYRmhp~I~~f~ 634 (779)
||||+|+.||+||+|+.. .+++||+|||+||||++.+.++...|+..|+|||+.+.. .-.++|++|||||..|+.|+
T Consensus 364 IDEaaQamE~~cWipvlk-~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~ws 442 (649)
T KOG1803|consen 364 IDEAAQAMEPQCWIPVLK-GKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWS 442 (649)
T ss_pred EehhhhhccchhhhHHhc-CCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhCc
Confidence 999999999999999975 589999999999999999999999999999999998753 45679999999999999999
Q ss_pred HhhhcCCcccccCccccccCCCCCCCCC--CCCCCeEEEEeCCcceeccC-----CCCCCCHHHHHHHHHHHHHHHHCCC
Q 004009 635 SNSFYEGTLQNGVTINERQSSGIDFPWP--VPNRPMFFYVQMGQEEISAS-----GTSYLNRTEAANVEKIVTTFLRSGV 707 (779)
Q Consensus 635 S~~FY~g~L~~~~s~~~r~~~~~~~~~p--~~~~P~~f~~~~g~ee~~~~-----~~S~~N~~EA~~V~~iV~~Ll~~gv 707 (779)
|..||+|+|.++.++..+.+..+...-+ ....|++|+++.|.+..+.. -.|++|.+||++|..++..|++.|+
T Consensus 443 n~~fY~~qlka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~gV 522 (649)
T KOG1803|consen 443 NEVFYNGQLKAASSVASHLLRDLPNVLATESTKSPLVLVDTQGEKDEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEAGV 522 (649)
T ss_pred HhhhcCCeeeecchhhhhhhhcccCCCCccccCCcEEEEecccchhhhhccchhhccccCCHHHHHHHHHHHHHHHHcCC
Confidence 9999999999999998887765543322 25789999999987654322 1389999999999999999999999
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEEeeeeCCCCCcccccCC
Q 004009 708 VPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNEHQRNRYVKTK 778 (779)
Q Consensus 708 ~~~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~~~~V~V~TVD~FQGrEkDvIIlS~VRSn~~~~iGFL~d~ 778 (779)
+|.+|||||||++|+.+|++.. .....+++|+|||+|||||+|+||||+||||+.+.+|||.|.
T Consensus 523 ~p~dIaVIsPY~aQv~llR~~~-------~~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~k~evGFL~e~ 586 (649)
T KOG1803|consen 523 QPSDIAVISPYNAQVSLLREED-------EEDFRDVEVGTVDGFQGREKDVVIFSLVRSNDKGEVGFLGET 586 (649)
T ss_pred ChhHeEEeccchHHHHHHhhcc-------cccCccceeecccccccceeeEEEEEEEeecCcccccccCCc
Confidence 9999999999999999999321 112457999999999999999999999999999999999985
No 3
>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=100.00 E-value=2.6e-76 Score=692.18 Aligned_cols=504 Identities=31% Similarity=0.435 Sum_probs=385.1
Q ss_pred cccccceEEEEEecCCceEEEEEEccCCCCCcCCCCCCEEEEEecCCCCCCcceEEEEEEEeccccEEEEEeecCCCCcc
Q 004009 244 SQSKDNVTIRWDIGLNKKRVAYFVFPKEDNELRLVPGDELRLRYSGDAAHPAWQSVGHVIKLTAQEEVALELRASQGVPV 323 (779)
Q Consensus 244 ~~~~~~~~~~~~~~l~~k~~~~f~~~~~~~~~~l~~GD~v~l~~~g~~~~~~~~~~g~V~~v~~~~~v~l~l~~~~~~p~ 323 (779)
.....++.++|..|+.|+++..|.-. ...+.+|.+||.|.|+..+. ..|.+.|+|+++.+ ..|.+.+.. ..|.
T Consensus 26 g~~~~~l~~~~~~~~~g~~~~~f~~~-~~~~~~~~~GD~v~i~~~~~---~~~~~~g~V~~v~~-~~i~v~~~~--~~~~ 98 (637)
T TIGR00376 26 GRAILNLQGKIRGGLLGFLLVRFGRR-KAIATEISVGDIVLVSRGNP---LQSDLTGVVTRVGK-RFITVALEE--SVPQ 98 (637)
T ss_pred CceEeceEEEEEeCCCCeEEEEEecC-CCCCCcCCCCCEEEEecCCC---CCCCcEEEEEEEcC-cEEEEEECC--CCCc
Confidence 55667899999999999999999843 34467999999999975332 34678899999986 234444432 2455
Q ss_pred ccCCCceEEEeeccchHHHHHHHHHHHHhhhcchhhhHhhhhcCCchhhhhhhccCCCCCCCCCCCCCCHHHHHHHHHhh
Q 004009 324 DINHGFSVDFVWKSTSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAVKSVL 403 (779)
Q Consensus 324 ~~~~~~~v~~~~~~~s~~R~~~aL~~~~~~~~~~~~~i~~~llg~~~~~~~~~~~~p~~~~~~~~~~LN~sQ~~AV~~aL 403 (779)
+...+|+++++||++||+||..||..|..... .+++.|+|...+..... ..+ + .+..+.||++|++||..++
T Consensus 99 ~~~~~~~i~~~~~~~t~~rm~~aL~~l~~~~~----~l~~~llg~~~p~~~~~-~~~--~-~~~~~~ln~~Q~~Av~~~l 170 (637)
T TIGR00376 99 WSLKRVRIDLYANDVTFKRMKEALRALTENHS----RLLEFILGREAPSKASE-IHD--F-QFFDPNLNESQKEAVSFAL 170 (637)
T ss_pred ccCceEEEEEecCccHHHHHHHHHHHHHhchh----hHHHHHhCCCCCCcccc-ccc--c-cccCCCCCHHHHHHHHHHh
Confidence 55567999999999999999999999976432 46777888764432111 111 1 1123689999999999999
Q ss_pred cC-CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCccchhhHH
Q 004009 404 QR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLH 482 (779)
Q Consensus 404 ~~-~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~sre~i~~~~~~l~l~ 482 (779)
.. ++++|+||||||||+|+++++.++++.+. +||+|||||.|||+|+++|.+.+++++|+|++.+.. ......+++
T Consensus 171 ~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~-~VLv~a~sn~Avd~l~e~l~~~~~~vvRlg~~~r~~--~~~~~~sl~ 247 (637)
T TIGR00376 171 SSKDLFLIHGPPGTGKTRTLVELIRQLVKRGL-RVLVTAPSNIAVDNLLERLALCDQKIVRLGHPARLL--KSNKQHSLD 247 (637)
T ss_pred cCCCeEEEEcCCCCCHHHHHHHHHHHHHHcCC-CEEEEcCcHHHHHHHHHHHHhCCCcEEEeCCchhcc--hhHHhccHH
Confidence 75 89999999999999999999999998765 999999999999999999999999999999987732 122223344
Q ss_pred HHHhhccch-----hHHHHHHHHH---------------------hhhhhc-----cCCc--------------hH---H
Q 004009 483 YQVRHLDTS-----EKSELHKLQQ---------------------LKDEQG-----ELSS--------------SD---E 514 (779)
Q Consensus 483 ~~v~~~~~~-----~~~~l~kl~~---------------------lk~~~~-----els~--------------~d---~ 514 (779)
..+...+.. ...++..+.+ ++++.. .+.. .. .
T Consensus 248 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~ 327 (637)
T TIGR00376 248 YLIENHPKYQIVADIREKIDELIEERNKKLKPSPQKRRGLSDIKILRKALKKREARGIESLKIASMAEWIETNKSIDRLL 327 (637)
T ss_pred HHHhcChhHHHHHHHHHHHHHHHHHHHhhccchHhHhhccchHHHHHHHHhhhhhcccchhhhHHHHHHHHhhhhhHHHH
Confidence 433322110 0001111100 000000 0000 00 0
Q ss_pred HHHHHHHHHHHHHHhhccccceecccccCCccccCCCCCEEEEEcCCCCChhhhhhhhhcCCCeEEEEeCCCCCCceeec
Q 004009 515 KKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (779)
Q Consensus 515 k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQatEpe~LipL~~~~~~lILVGD~~QLpPvv~s 594 (779)
+.+.+....+.++++..|+|+++| ++...+....||+||||||+|++||++|+|+.. ++++||||||+||||++.+
T Consensus 328 ~~~~~~~~~~~~~il~~a~v~~st---~~~~~l~~~~Fd~vIIDEAsQ~~ep~~lipl~~-~~~~vLvGD~~QLpP~v~s 403 (637)
T TIGR00376 328 KLLPEIEERIENEILAESDVVQST---NSSAGLKGWEFDVAVIDEASQAMEPSCLIPLLK-ARKLILAGDHKQLPPTILS 403 (637)
T ss_pred HHHHHHHHHHHHHHHhhCCEEEec---cCcHhhccCCCCEEEEECccccchHHHHHHHhh-CCeEEEecChhhcCCcccc
Confidence 111122233556899999987666 556678888999999999999999999999985 5899999999999999988
Q ss_pred hHHHHhccchhHHHHHHHCC-CccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCCCCC--C-----CCCCC
Q 004009 595 KKAARAGLAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFP--W-----PVPNR 666 (779)
Q Consensus 595 ~~a~~~gl~~SLFeRLi~~g-~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~--~-----p~~~~ 666 (779)
.. ..++..|||+||+... ....+|++||||||.|++|+|..||+|+|.++.+...+.+..++.. + .....
T Consensus 404 ~~--~~~l~~SlferL~~~~~~~~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 481 (637)
T TIGR00376 404 HD--AEELELTLFERLIKEYPERSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANILLRDLPKVEATDSEDDLETEI 481 (637)
T ss_pred cc--ccccchhHHHHHHHhCCCceeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhhhhhcccccccccccccCCCC
Confidence 65 3588999999999853 4478999999999999999999999999999887766544322211 1 12356
Q ss_pred CeEEEEeCCcce---eccCCCCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCCcccccCCCe
Q 004009 667 PMFFYVQMGQEE---ISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEI 743 (779)
Q Consensus 667 P~~f~~~~g~ee---~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~~~~V 743 (779)
|++|+++.|.+. ....++|++|..||..|.+++..|++.|+++.+|||||||++|+.+|++.|...+ ..+
T Consensus 482 p~~fidt~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~~~~IgVItPY~aQv~~L~~~l~~~~-------~~i 554 (637)
T TIGR00376 482 PLLFIDTSGCELFELKEADSTSKYNPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHRH-------IDI 554 (637)
T ss_pred CEEEEECCCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcCCCcceEEEEcccHHHHHHHHHHHHhhC-------CCe
Confidence 999999998764 3456789999999999999999999999999999999999999999999986532 469
Q ss_pred EEccCCCCCCCcCCEEEEEeeeeCCCCCcccccCC
Q 004009 744 EVASVDSFQGREKDYIILSCVRSNEHQRNRYVKTK 778 (779)
Q Consensus 744 ~V~TVD~FQGrEkDvIIlS~VRSn~~~~iGFL~d~ 778 (779)
+|+|||+|||+|+|+||+|+||||..+.+|||.|.
T Consensus 555 ~v~TVd~fQG~E~DvIi~S~vrsn~~~~~gFl~d~ 589 (637)
T TIGR00376 555 EVSSVDGFQGREKEVIIISFVRSNRKGEVGFLKDL 589 (637)
T ss_pred EEccccccCCccccEEEEEEEecCCCCCcccccCc
Confidence 99999999999999999999999999999999985
No 4
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=2.9e-58 Score=528.11 Aligned_cols=341 Identities=33% Similarity=0.541 Sum_probs=282.7
Q ss_pred CCCCCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEecc
Q 004009 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~ 466 (779)
+..||..|++|+..+|. +++.||.|-||||||||++.+|..|+..++ +||++++||.|||||+-||...++.++|+|.
T Consensus 667 ~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~~gk-kVLLtsyThsAVDNILiKL~~~~i~~lRLG~ 745 (1100)
T KOG1805|consen 667 LLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKILVALGK-KVLLTSYTHSAVDNILIKLKGFGIYILRLGS 745 (1100)
T ss_pred HhhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHHHHHHHcCC-eEEEEehhhHHHHHHHHHHhccCcceeecCC
Confidence 45899999999999997 789999999999999999999999998875 9999999999999999999999999999998
Q ss_pred ccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCcc
Q 004009 467 KSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR 546 (779)
Q Consensus 467 ~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~ 546 (779)
..+ .|..++.+.. ......+.|..++ ..+++..||.|||.+.+++.
T Consensus 746 ~~k-----------ih~~v~e~~~------------------~~~~s~ks~~~l~-----~~~~~~~IVa~TClgi~~pl 791 (1100)
T KOG1805|consen 746 EEK-----------IHPDVEEFTL------------------TNETSEKSYADLK-----KFLDQTSIVACTCLGINHPL 791 (1100)
T ss_pred ccc-----------cchHHHHHhc------------------ccccchhhHHHHH-----HHhCCCcEEEEEccCCCchh
Confidence 653 2333332210 1111223344333 45789999999999999999
Q ss_pred ccCCCCCEEEEEcCCCCChhhhhhhhhcCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCCC-ccEEeccccC
Q 004009 547 LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGL-KPIRLQVQYR 625 (779)
Q Consensus 547 L~~~~Fd~VIIDEAsQatEpe~LipL~~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g~-~~~~L~~QYR 625 (779)
+.+.+||++|||||+|+..|-+|.|+.. ++++||||||.||||.|.+.+|...|++.|||+||..... ....|+.|||
T Consensus 792 f~~R~FD~cIiDEASQI~lP~~LgPL~~-s~kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL~e~hpeaV~~Lt~QYR 870 (1100)
T KOG1805|consen 792 FVNRQFDYCIIDEASQILLPLCLGPLSF-SNKFVLVGDHYQLPPLVRSSEARQEGLSESLFKRLSEKHPEAVSSLTLQYR 870 (1100)
T ss_pred hhccccCEEEEccccccccchhhhhhhh-cceEEEecccccCCccccchhhhhcCcchHHHHHHhhhCchHHHhHHHHHh
Confidence 9999999999999999999999999987 6999999999999999999999999999999999988543 4568999999
Q ss_pred CchHHHHHHHhhhcCCcccccCccccccC-------------CCCCCCCC----CCCCCeEEEEeCCccee--ccCCCCC
Q 004009 626 MHPSLSEFPSNSFYEGTLQNGVTINERQS-------------SGIDFPWP----VPNRPMFFYVQMGQEEI--SASGTSY 686 (779)
Q Consensus 626 mhp~I~~f~S~~FY~g~L~~~~s~~~r~~-------------~~~~~~~p----~~~~P~~f~~~~g~ee~--~~~~~S~ 686 (779)
|+.+|+.+.|.+||+|+|..|.....+.. .....+|- .+.++++|+.+...... .....-.
T Consensus 871 Mn~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p~~~v~f~~~D~~~~ie~~~e~~~i 950 (1100)
T KOG1805|consen 871 MNREIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEPTRDVCFVNTDTCSTIESQGEKGGI 950 (1100)
T ss_pred hcchHHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcCCccceEEecCcccchhhhccccCc
Confidence 99999999999999999998754433210 01123452 35678888655443222 2244566
Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEEeeee
Q 004009 687 LNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRS 766 (779)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~~~~V~V~TVD~FQGrEkDvIIlS~VRS 766 (779)
.|..||..|.+++..|++.|+++++|||||||++|+.+|++.+... .+||.|||.||||+||+||+|+||+
T Consensus 951 ~N~~EA~li~~~~~~fv~sGv~~~dIGIis~YraQv~Li~~~l~~~---------~lEinTVD~yQGRDKd~IivSfvrs 1021 (1100)
T KOG1805|consen 951 TNHGEAKLISELVEDFVKSGVKPSDIGIISPYRAQVELIRKILSSA---------VLEINTVDRYQGRDKDCIIVSFVRS 1021 (1100)
T ss_pred CchhHHHHHHHHHHHHHHcCCCHHHeeeeehHHHHHHHHHhhcccc---------ceeeeehhhhcCCCCCEEEEEEEec
Confidence 7999999999999999999999999999999999999999988542 3999999999999999999999999
Q ss_pred CCCCCcc
Q 004009 767 NEHQRNR 773 (779)
Q Consensus 767 n~~~~iG 773 (779)
|+....|
T Consensus 1022 n~~~~~~ 1028 (1100)
T KOG1805|consen 1022 NKKSKVG 1028 (1100)
T ss_pred CCcccHH
Confidence 9875544
No 5
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=3.6e-48 Score=434.07 Aligned_cols=239 Identities=33% Similarity=0.450 Sum_probs=202.3
Q ss_pred HHHhhccccceecccccCCcc--ccCCCCCEEEEEcCCCCChhhhhhhhhcCCCeEEEEeCCCCCCceeechH-HHHhcc
Q 004009 526 REISQSADVICCTCVGAGDPR--LANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKK-AARAGL 602 (779)
Q Consensus 526 ~~iL~~a~VI~~T~~~a~~~~--L~~~~Fd~VIIDEAsQatEpe~LipL~~~~~~lILVGD~~QLpPvv~s~~-a~~~gl 602 (779)
..+++.++||.+|..+++..+ |.+..+.+|||.||+...|+.++-++...+.++||||||+||+|....-+ +..++|
T Consensus 693 a~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal~p~~EhviLIGDHKQLrP~~~vy~L~q~fnL 772 (1025)
T KOG1807|consen 693 AFLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAALTPHTEHVILIGDHKQLRPFSGVYKLPQIFNL 772 (1025)
T ss_pred HHHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhhcccceeEEEecchhhcCCCcchhhHhHhcch
Confidence 358899999999999988754 77789999999999999999977777777899999999999999865433 445789
Q ss_pred chhHHHHHHHCCCccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCcceeccC
Q 004009 603 AQSLFERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISAS 682 (779)
Q Consensus 603 ~~SLFeRLi~~g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~ 682 (779)
..||||||+..|.+-.+|+.||||+|.|+++....||++.+. ..++... .. -+.-...++|+.+...|+.- +
T Consensus 773 ~iSlFERLVe~glpfsrLn~QhRM~p~IsrllvpsiYddl~d-~esvk~y--ed----I~gms~nlfFv~hnspee~~-d 844 (1025)
T KOG1807|consen 773 SISLFERLVEAGLPFSRLNLQHRMRPCISRLLVPSIYDDLLD-SESVKEY--ED----IRGMSKNLFFVQHNSPEECM-D 844 (1025)
T ss_pred hHHHHHHHHHcCCChhhhhHHhhhchHHHHHhhHHHhhhhhc-chhhccc--cc----cccccceeeEEecCCcccCc-c
Confidence 999999999999999999999999999999999999996543 3333211 00 11234567888776665543 4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEE
Q 004009 683 GTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILS 762 (779)
Q Consensus 683 ~~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~~~~V~V~TVD~FQGrEkDvIIlS 762 (779)
+.|+.|..||.+++++++.|+++++.+++|.|+|+|.+|...|++.|... ....|.|.|||+|||.|+|||++|
T Consensus 845 e~S~~NlhEa~mlv~l~kyli~q~y~psdIviLttY~gQk~ci~rllp~~------~~stv~VatVDsfQGeEndIVLlS 918 (1025)
T KOG1807|consen 845 EMSIGNLHEAGMLVKLTKYLIQQQYKPSDIVILTTYNGQKECIKRLLPQN------YRSTVQVATVDSFQGEENDIVLLS 918 (1025)
T ss_pred hhhhhhHHHHHHHHHHHHHHHhcCCCccceEEEeechhHHHHHHHHhHHH------hcCcceEEEeccccCccccEEEEE
Confidence 59999999999999999999999999999999999999999999988653 345799999999999999999999
Q ss_pred eeeeCCCCCcccccCC
Q 004009 763 CVRSNEHQRNRYVKTK 778 (779)
Q Consensus 763 ~VRSn~~~~iGFL~d~ 778 (779)
+||||..+.||||+-.
T Consensus 919 LVRsn~~griGFL~~a 934 (1025)
T KOG1807|consen 919 LVRSNISGRIGFLRQA 934 (1025)
T ss_pred EEeccCCceeeeeecc
Confidence 9999999999999754
No 6
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=100.00 E-value=1.2e-48 Score=370.16 Aligned_cols=95 Identities=78% Similarity=1.533 Sum_probs=73.0
Q ss_pred ccccccCCCCCCceEEcCCCccCeeeeCCCCCCCcchhhhhhhhcCcceEeecCCCCCcccceeeeccccccccccccee
Q 004009 143 HACRYCGVSNPACVVRCNVPSCRKWFCNSRGNTSGSHIVNHLVRAKHKEVCLHKDSPLGETILECYNCGCRNVFLLGFIS 222 (779)
Q Consensus 143 ~~c~ycg~~~~~~~~~c~~~~c~kwfcn~~~~~~~shi~~hlv~~~~~~~~lh~~~~~~~~~lecy~c~~~nvf~lgf~~ 222 (779)
|||+|||+|+|+|||+|++ |+||||||+|++++||||+|||||||+||+||||+|||||+||||+||+||||+|||||
T Consensus 1 haC~YCG~~~p~~vv~C~~--c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~NvF~LGFip 78 (152)
T PF09416_consen 1 HACAYCGIHDPSCVVKCNT--CNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSRNVFLLGFIP 78 (152)
T ss_dssp TS-TTT----CCCEEEETT--TTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT----TTTEEEEE
T ss_pred CCccccCCCCcccEeEcCC--CCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCCceeeEEEEE
Confidence 8999999999999999999 99999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCceEEEEcchhHhH
Q 004009 223 AKTESVVVLLCREPCLN 239 (779)
Q Consensus 223 ~~~~~~~~~~~r~~~~~ 239 (779)
||+|+|||||||+||+.
T Consensus 79 ak~d~vvvllCR~pC~~ 95 (152)
T PF09416_consen 79 AKSDSVVVLLCRQPCAN 95 (152)
T ss_dssp ETTSCEEEEEETTTTTS
T ss_pred eccCCeEEEEeCCchhc
Confidence 99999999999999984
No 7
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=6.1e-42 Score=413.53 Aligned_cols=439 Identities=34% Similarity=0.458 Sum_probs=313.0
Q ss_pred CCCceEEEeec------cchHHHHHHHHHHHHhhhcchhhhHhhhhcCCchhhhhhhccCCCCCCCCCCCCCCHHHHHHH
Q 004009 326 NHGFSVDFVWK------STSFDRMQGAMKTFAVDETSVSGYIYHHLLGHEVEVQMVRNTLPRRFGAPGLPELNASQVFAV 399 (779)
Q Consensus 326 ~~~~~v~~~~~------~~s~~R~~~aL~~~~~~~~~~~~~i~~~llg~~~~~~~~~~~~p~~~~~~~~~~LN~sQ~~AV 399 (779)
.....+++..+ ...+.++...+..+.........++.+...+.......... ...+ ......++..|..++
T Consensus 207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~~~~~~~~ 283 (767)
T COG1112 207 KEEVRVDIVENLLELSESILLRRELELLSKFALILKRLLESLFEILRGKDLPIKLLDV--ELEL-VEINKELDNEQKLAV 283 (767)
T ss_pred ccceEEEehhhccccchhHHHHhhhhhhHHHhhcccchhhhHHHHhhccccccccCCc--ceee-eccchhccchhHHHH
Confidence 34566666665 67888888777776643332222222222221111000000 0001 112356788888888
Q ss_pred HHhhc-CCeEEEE-cCCCChHHH--HHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcC--CeEEEeccccccccC
Q 004009 400 KSVLQ-RPISLIQ-GPPGTGKTV--TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG--LKVVRLCAKSREAVS 473 (779)
Q Consensus 400 ~~aL~-~~l~LIq-GPPGTGKT~--tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~--l~vvRl~~~sre~i~ 473 (779)
..... .+..++. ||+|||||. ++.+.+.........+++.++++|.+++++..++.+.. ...+|++++.+....
T Consensus 284 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 363 (767)
T COG1112 284 KRLLSLNDLFLIHQGPFGTGKTRSVTILELIIELLENNKLKILPTAESNAAVDNLLRRLKRTVIKVELLRIGHPSRVLKK 363 (767)
T ss_pred HHHhcccceeEeecCCCCCCcchHHHHHHHHHHHHHhcccceEEecCcccchhhHHHHHHhhccccceEEcCCcchhhhh
Confidence 87765 5555554 999999999 77777777777766799999999999999999998764 457777766543211
Q ss_pred CccchhhHHHHHhhc--cc-hhHHH-----------------------------HHHHHHhhhhhccCCc----------
Q 004009 474 SPVEHLTLHYQVRHL--DT-SEKSE-----------------------------LHKLQQLKDEQGELSS---------- 511 (779)
Q Consensus 474 ~~~~~l~l~~~v~~~--~~-~~~~~-----------------------------l~kl~~lk~~~~els~---------- 511 (779)
.. ...+...+... .. ..... ..+..........+..
T Consensus 364 ~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~ 441 (767)
T COG1112 364 LK--LDTLEELLEKHEIPGNKIAALDKVIRELREEGERIIREIAKLRERLERKRLDKISHLNVALRGILPALNKSEALWI 441 (767)
T ss_pred hh--hhHHHHHHHhcccccchhHHHHHHHHHHhhhhhccceecHHHHhhhhhhHHHHHHHhhhhhcchhHHHHHHHHHHH
Confidence 10 00111000000 00 00000 0000000000000000
Q ss_pred -------hHHHHHHHHHHHHHHHHhhccccceecccccCCccccCCCCCEEEEEcCCCCChhhhhhhhhcCCCeEEEEeC
Q 004009 512 -------SDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGD 584 (779)
Q Consensus 512 -------~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQatEpe~LipL~~~~~~lILVGD 584 (779)
...+....+.......+...+++|++|++.++...+....||+||||||+|+++|.+++|+.. ++++|++||
T Consensus 442 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~~~~~~fd~viiDEAsQ~~~~~~~~~l~~-~~~~il~GD 520 (767)
T COG1112 442 SLEEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSILKKYEFDYVIIDEASQATEPSALIALSR-AKKVILVGD 520 (767)
T ss_pred hhhhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHHhcccccCEEEEcchhcccchhHHHhHhh-cCeEEEecC
Confidence 000111122233445677788899999999999888888999999999999999999999987 899999999
Q ss_pred CCCCCceeechHHHHhccchhHHHHHHHCCC-ccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCC
Q 004009 585 HCQLGPVIMCKKAARAGLAQSLFERLVLLGL-KPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPV 663 (779)
Q Consensus 585 ~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g~-~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~ 663 (779)
|+||||++........++..++|++++..+. ...+|+.||||||.|+.|+|..||+|++..+.............++..
T Consensus 521 ~kQL~p~~~~~~~~~~~~~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~ 600 (767)
T COG1112 521 HKQLPPTVFFKESSPEGLSASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVV 600 (767)
T ss_pred CccCCCeecchhhcccchhHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhcccccccc
Confidence 9999999988755667899999999999875 788999999999999999999999999998876655443333334444
Q ss_pred CCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCCcccccCCCe
Q 004009 664 PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEI 743 (779)
Q Consensus 664 ~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~~~~V 743 (779)
...|+.|+++.+.++ ...+.++.|..||..+..++..+++.++.+.+|||||||++|+.+|++.+...+ ..+
T Consensus 601 ~~~~~~~~~~~~~~~-~~~~~~~~n~~e~~~~~~~~~~~~~~~~~~~~igvis~y~~q~~~i~~~~~~~~-------~~v 672 (767)
T COG1112 601 ISNPLEFYDTLGAEE-FFESKSKLNELEAEIVKVIVDELLKDGLEENDIGVISPYRAQVSLIRRLLNEAG-------KGV 672 (767)
T ss_pred ccCceEEEEecCccc-ccCccceecHHHHHHHHHHHHHHHHcCCcHHHcceecccHHHHHHHHHHHHhcC-------Cce
Confidence 568999999999887 456789999999999999999999999999999999999999999999987543 579
Q ss_pred EEccCCCCCCCcCCEEEEEeeeeCCC-CCcccccCC
Q 004009 744 EVASVDSFQGREKDYIILSCVRSNEH-QRNRYVKTK 778 (779)
Q Consensus 744 ~V~TVD~FQGrEkDvIIlS~VRSn~~-~~iGFL~d~ 778 (779)
+|+|||+|||+|+||||+|+||||.. ++||||.|.
T Consensus 673 ~v~tvd~fQG~EkdvIi~S~v~s~~~~~~i~~l~d~ 708 (767)
T COG1112 673 EVGTVDGFQGREKDVIILSLVRSNDDKGEIGFLGDP 708 (767)
T ss_pred EEeeccccCCccCcEEEEEEEeecCCCccccccCch
Confidence 99999999999999999999999998 799999985
No 8
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.8e-36 Score=350.52 Aligned_cols=317 Identities=32% Similarity=0.415 Sum_probs=239.3
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE-eccccccccCCccchhhHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLKVVR-LCAKSREAVSSPVEHLTLH 482 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~l~vvR-l~~~sre~i~~~~~~l~l~ 482 (779)
.....++||||||||.++++.++++... ....|++|+++|+|.|+...|++.- .-+-+ .+.+.+.. .. +..
T Consensus 326 ~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~~~rl~~p-~~~~~~~~~~~~~~--~~----~~~ 398 (775)
T KOG1804|consen 326 PEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQPAHRLHYP-LTFSTARGEDVRAK--SS----TAW 398 (775)
T ss_pred ccccccccCCCcCCccchHHHHHHHHhcchHHHhhccccccccccccccccccc-cccccccccccccc--ch----hHH
Confidence 4678999999999999998877776544 5568999999999999999998421 11110 00000000 00 000
Q ss_pred HHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCcc---ccCCCCCEEEEEc
Q 004009 483 YQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPR---LANFRFRQVLIDE 559 (779)
Q Consensus 483 ~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~---L~~~~Fd~VIIDE 559 (779)
. ...+.... ..+++. ...+....++.+||..+|.-. ..-.+|.++++||
T Consensus 399 ~-----------~~~~v~~~-----------~~~~e~------~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~De 450 (775)
T KOG1804|consen 399 Y-----------NNAEVSEV-----------VEKVEE------LRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDE 450 (775)
T ss_pred h-----------hhHHHHHH-----------HHHHHH------HhhccceEEEEeeccceeeeecccccccceeeeeecc
Confidence 0 00000000 000111 113556788999998877532 4445899999999
Q ss_pred CCCCChhhhhhhhhc--CCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCC------------CccEEeccccC
Q 004009 560 STQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG------------LKPIRLQVQYR 625 (779)
Q Consensus 560 AsQatEpe~LipL~~--~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g------------~~~~~L~~QYR 625 (779)
|++++||++++|+.. ...++||.|||+||+|++.+..+...|++.|||+|++... .-.+.|-.+||
T Consensus 451 Ag~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyr 530 (775)
T KOG1804|consen 451 AGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYR 530 (775)
T ss_pred cccccCcccccccccccceeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHh
Confidence 999999999999873 2348999999999999999999999999999999998631 12467999999
Q ss_pred CchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHHHHHC
Q 004009 626 MHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRS 705 (779)
Q Consensus 626 mhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~ 705 (779)
+||.|...+|++||+|.|.......+.... .-|.. .++|+.+.|..+++.++.|++|+.||..|..+++.+...
T Consensus 531 shp~il~l~~~l~y~~eL~~~~~~~~v~~~---~~w~~---liif~g~~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~~ 604 (775)
T KOG1804|consen 531 SHPIILCLENRLYYLGELTAEASEVDVRGL---ELWSG---LILFYGAPGFTERAGNSPSWLNLEEAAVVVRMTKALPLG 604 (775)
T ss_pred hhhHhhhcccccccccceeeeccHHHHHHH---Hhccc---ceeccccccccccccCChhhccHHHHHHHHHHHhccCCC
Confidence 999999999999999999865444332211 23432 489999999999999999999999999998888887654
Q ss_pred C-CCCCeEEEEcccHHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEEeeeeCC
Q 004009 706 G-VVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRSNE 768 (779)
Q Consensus 706 g-v~~~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~~~~V~V~TVD~FQGrEkDvIIlS~VRSn~ 768 (779)
. ..+.||||||||++|++.|+..+...+ ..++.|++|+.|||+|+.+||+|+|||..
T Consensus 605 ~~~~~~DIgvitpy~aq~~~i~~~l~~~~------~~~~~vgsVe~fqGqE~~viiiStVrS~~ 662 (775)
T KOG1804|consen 605 EVAQPQDIGVITPYTAQVSEIRKALRRLG------VPGVKVGSVEEFQGQEPWVILGSTVRSFA 662 (775)
T ss_pred CccccccceeeCcHHHHHHHHHHHhcccC------CCCCcccceeeeccccceeeEeecccccC
Confidence 3 345689999999999999999987654 56899999999999999999999999985
No 9
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=100.00 E-value=3.6e-33 Score=287.06 Aligned_cols=204 Identities=38% Similarity=0.569 Sum_probs=128.0
Q ss_pred CCCHHHHHHHHHhhcCCe-EEEEcCCCChHHHHHHHHHHHHH-------HhCCCcEEEEcCcHHHHHHHHHHHHh-----
Q 004009 390 ELNASQVFAVKSVLQRPI-SLIQGPPGTGKTVTSAAIVYHMA-------KQGQGQVLVCAPSNVAVDQLAEKISA----- 456 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l-~LIqGPPGTGKT~tla~iI~~L~-------~~~~~rILV~ApSN~AVD~L~erL~~----- 456 (779)
.||++|++||..++..+. ++|+||||||||+|++.++..++ .....+||+||+||.|||++++++.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~~~~~~ 80 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKKLLDED 80 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC-----
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHhhcccc
Confidence 489999999999998775 99999999999999999999883 23567999999999999999999998
Q ss_pred ---cCCeEEEeccccccccCCccchhhHHHHHhhccc----hhHHHHHHH------HHhhhhhccCCchH---HHHHHHH
Q 004009 457 ---TGLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDT----SEKSELHKL------QQLKDEQGELSSSD---EKKYKAL 520 (779)
Q Consensus 457 ---~~l~vvRl~~~sre~i~~~~~~l~l~~~v~~~~~----~~~~~l~kl------~~lk~~~~els~~d---~k~~~~l 520 (779)
...+++|++... +..........+...+..... ......+++ ..+......+.... .+.++..
T Consensus 81 ~~~~~~~~ir~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 (236)
T PF13086_consen 81 GKVYKPKIIRLGSEE-EKIHEDLQKFSLESKLEQRFESKLKRLREQLEELQQKIRLSELKEEKKKLKKSIKRLRKELEKI 159 (236)
T ss_dssp ---TT--EEE---GG-TTS--TTGGGBHHHHHHTTT-----------THHHCHHHHHHHHHHHCCSSCHHHHHHHHHHHH
T ss_pred ccccccchhhhcccc-cccccccccccccccccccccccchhhhHHHHHHHHhhhhhhhhhhhhhcchhccccccccccc
Confidence 346799999876 222222233333333322210 001111111 11112222222221 2334444
Q ss_pred HHHHHHHHhhccccceecccccCCccccCC--CCCEEEEEcCCCCChhhhhhhhhcCCCeEEEEeCCCCCCceeec
Q 004009 521 KRATEREISQSADVICCTCVGAGDPRLANF--RFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (779)
Q Consensus 521 ~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~--~Fd~VIIDEAsQatEpe~LipL~~~~~~lILVGD~~QLpPvv~s 594 (779)
.+...+.+++.++||++|+.++....+... .||+||||||+|++|+++|+||.++++++||||||+||||++++
T Consensus 160 ~~~~~~~~l~~~~vi~~T~~~~~~~~~~~~~~~~d~vIvDEAsq~~e~~~l~~l~~~~~~~vlvGD~~QLpP~v~s 235 (236)
T PF13086_consen 160 REELRRFILKEADVIFTTLSSAASPFLSNFKEKFDVVIVDEASQITEPEALIPLSRAPKRIVLVGDPKQLPPVVKS 235 (236)
T ss_dssp HHHHHHHHHHT-SEEEEETCGGG-CCGTT-----SEEEETTGGGS-HHHHHHHHTTTBSEEEEEE-TTS-----S-
T ss_pred ccchhhhhcccccccccccccchhhHhhhhcccCCEEEEeCCCCcchHHHHHHHHHhCCEEEEECChhhcCCeeCC
Confidence 455667899999999999999977777776 89999999999999999999998877999999999999999976
No 10
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=2.3e-32 Score=328.48 Aligned_cols=246 Identities=34% Similarity=0.468 Sum_probs=203.9
Q ss_pred hccccceecccccCCccc--cCCCCCEEEEEcCCCCChhhhhhhhhc-CCCeEEEEeCCCCCCceeechHHHHhccchhH
Q 004009 530 QSADVICCTCVGAGDPRL--ANFRFRQVLIDESTQATEPECLIPLVL-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSL 606 (779)
Q Consensus 530 ~~a~VI~~T~~~a~~~~L--~~~~Fd~VIIDEAsQatEpe~LipL~~-~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SL 606 (779)
+.+.+|++|+.+.+.... ....|+.|+||||.|+.|+..++||.+ +..+.+++||+.|||++|.+..+....+..|+
T Consensus 513 ~~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~sl 592 (827)
T KOG1801|consen 513 EEAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATVHSSPAGCFKYMTSL 592 (827)
T ss_pred ccceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccccCChhhccchhccccchhhH
Confidence 388999999998877443 334799999999999999999999998 88999999999999999999999999999999
Q ss_pred HHHHHHCCCccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeC-CcceeccCCCC
Q 004009 607 FERLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQM-GQEEISASGTS 685 (779)
Q Consensus 607 FeRLi~~g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~-g~ee~~~~~~S 685 (779)
|+|+...+.+...|++||||||+|+.||+..||+|+|.....+........... .....|+.|++.. |.|... .+.|
T Consensus 593 f~rl~l~~~~~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~-~~~~~~y~f~~v~~g~e~~~-~~~s 670 (827)
T KOG1801|consen 593 FERLELAGHKTLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHS-GETFGPYPFFNVHYGKERAG-GGKS 670 (827)
T ss_pred HHHHHHccCccceecceeecCCccccCccccccccccccCcccchhhccccCcC-CCccCceEEEEecccccccC-CCCC
Confidence 999999998888999999999999999999999999987766664433222111 1234577777665 766544 4589
Q ss_pred CCCHHHHHHHHHHHHHHHHC----CCCCCeEEEEcccHHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEE
Q 004009 686 YLNRTEAANVEKIVTTFLRS----GVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIIL 761 (779)
Q Consensus 686 ~~N~~EA~~V~~iV~~Ll~~----gv~~~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~~~~V~V~TVD~FQGrEkDvIIl 761 (779)
..|..|+..+..++..|.+. +..+..+|||+||+.|+..+++.+.............+.|.|||+|||.|+|+||+
T Consensus 671 ~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fqg~e~diii~ 750 (827)
T KOG1801|consen 671 PVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQGGERDIIII 750 (827)
T ss_pred cccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEecccccCCCCceeEE
Confidence 99999999999999998763 33377899999999999999988765432111112479999999999999999999
Q ss_pred EeeeeCCCCCcccccC
Q 004009 762 SCVRSNEHQRNRYVKT 777 (779)
Q Consensus 762 S~VRSn~~~~iGFL~d 777 (779)
||||++..+.|||+.|
T Consensus 751 s~vrs~~~g~igf~~~ 766 (827)
T KOG1801|consen 751 STVRSIDEGSIGFECN 766 (827)
T ss_pred EEEEecccCccchhhh
Confidence 9999999999999976
No 11
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=99.97 E-value=1.1e-30 Score=264.79 Aligned_cols=174 Identities=38% Similarity=0.602 Sum_probs=123.3
Q ss_pred cchhHHHHHHHCC-CccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCcceec
Q 004009 602 LAQSLFERLVLLG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEIS 680 (779)
Q Consensus 602 l~~SLFeRLi~~g-~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~ 680 (779)
|..|||+||+..+ .+.++|++||||||+|++|+|+.||+|+|.++.+...+... ....++....|++|+++.+.+...
T Consensus 1 ~~~Slferl~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~i~v~~~~~~~ 79 (200)
T PF13087_consen 1 LDRSLFERLIKNGSVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAP-LLKLLPSPQNPIVFIDVSGSESSS 79 (200)
T ss_dssp TTS-HHHHHHHCT----EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T------SSTTSSEEEEE----EEEE
T ss_pred CCccHHHHHHHcCCCCceecccccCCCHHHHHHHHHHHhchhcccCccccccccc-ccccccCCCCceEEEecccccccc
Confidence 4689999999998 88999999999999999999999999999988766554432 122345567899999999987766
Q ss_pred cCC-CCCCCHHHHHHHHHHHHHHHHCCCCC---CeEEEEcccHHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcC
Q 004009 681 ASG-TSYLNRTEAANVEKIVTTFLRSGVVP---SQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREK 756 (779)
Q Consensus 681 ~~~-~S~~N~~EA~~V~~iV~~Ll~~gv~~---~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~~~~V~V~TVD~FQGrEk 756 (779)
..+ +|++|..||+.|+++++.|+..+... .+|||||||++|+.+|++.|........ ...++|+|||+|||+|+
T Consensus 80 ~~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~--~~~~~v~Tvd~~QG~E~ 157 (200)
T PF13087_consen 80 ESSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSP--IKDIKVSTVDSFQGQEA 157 (200)
T ss_dssp TTC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHH--HHCSEEEEHHHHTT--E
T ss_pred cccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccc--cceEEEecHHHhccccc
Confidence 554 89999999999999999999987765 8999999999999999999986543211 11299999999999999
Q ss_pred CEEEEEeeeeCCCCCcccccCC
Q 004009 757 DYIILSCVRSNEHQRNRYVKTK 778 (779)
Q Consensus 757 DvIIlS~VRSn~~~~iGFL~d~ 778 (779)
|+||+|+||++...++|||.|.
T Consensus 158 diVi~s~v~~~~~~~~~f~~~~ 179 (200)
T PF13087_consen 158 DIVIVSLVRTNSSSNIGFLNDP 179 (200)
T ss_dssp EEEEEEE---STTS-SGGGC-H
T ss_pred eEEEEEeccCCccccccccCCc
Confidence 9999999999988899999874
No 12
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.96 E-value=1.7e-28 Score=282.56 Aligned_cols=381 Identities=29% Similarity=0.375 Sum_probs=265.8
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcHHHHHHHHHHHHhcCCe---EEEec
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK---VVRLC 465 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~l~---vvRl~ 465 (779)
..|+.|.+|+.+..+.+++.+.||||||||.+++.++..+..+ +..|-|+++.||.|...+.+++.+.... +.|++
T Consensus 738 ~ft~~qveai~sg~qpgltmvvgppgtgktd~avqil~~lyhn~p~qrTlivthsnqaln~lfeKi~~~d~d~rhLlrlg 817 (1320)
T KOG1806|consen 738 KFTPTQVEAILSGMQPGLTMVVGPPGTGKTDVAVQILSVLYHNSPNQRTLIVTHSNQALNQLFEKIMALDVDERHLLRLG 817 (1320)
T ss_pred ccCHHHHHHHHhcCCCCceeeecCCCCCCcchhhhhhhhhhhcCCCcceEEEEecccchhHHHHHHHhcccchhhHHHhc
Confidence 3589999999999999999999999999999999999888776 6679999999999999999999875432 44444
Q ss_pred cccccc-----------cCC-ccchhhHHHHHhhccch--------------h-----------HHHHHHHHHhhhh---
Q 004009 466 AKSREA-----------VSS-PVEHLTLHYQVRHLDTS--------------E-----------KSELHKLQQLKDE--- 505 (779)
Q Consensus 466 ~~sre~-----------i~~-~~~~l~l~~~v~~~~~~--------------~-----------~~~l~kl~~lk~~--- 505 (779)
+...+. +.. +...+.+.+.++.+-.+ . .+-+.++++-...
T Consensus 818 ~ge~eletd~dfsrygrvn~~l~~r~~ll~ev~rla~sl~~pgdv~ytcetagyf~~~~V~~~wee~l~~v~~~~~~~~~ 897 (1320)
T KOG1806|consen 818 HGEEELETDKDFSRYGRVNYVLSRRLELLREVERLAKSLQAPGDVDYTCETAGYFFLAYVKRRWEEYLAKVDKGCDKDSV 897 (1320)
T ss_pred ccHHhhhcccchhheeeEeeeeccchHHHHHHHHhhhhhcCccccccccchhhhhhhhHHHhhhHHHHHHhccCCCchhh
Confidence 321110 000 00111111111111000 0 0001111100000
Q ss_pred ------------hccCC-----c--------hHHHHHHHHHHHHH-------------------HHHhhccccceecccc
Q 004009 506 ------------QGELS-----S--------SDEKKYKALKRATE-------------------REISQSADVICCTCVG 541 (779)
Q Consensus 506 ------------~~els-----~--------~d~k~~~~l~~~~~-------------------~~iL~~a~VI~~T~~~ 541 (779)
.++.+ . ..+..|+.+....+ ..+.++|.+|.+||..
T Consensus 898 ~~~~~~fpf~~~f~d~p~~vfeg~n~~~d~~~a~~cf~hl~~ifqqLee~rafellr~~~dr~~Yll~kqakiiamtcth 977 (1320)
T KOG1806|consen 898 DIVSNRFPFHSYFGDKPKPPFEGYNKENDMDYATGCFRHLEYIFQQLEEFRAFELLRSGEDRELYLLVKQAKIIAMTCTH 977 (1320)
T ss_pred hhHhhhCcchhhhhcCCCccccccchhhhhhhhhhhHHHHHHHHHHHHhcccccccccchhHhhccCcccceeeecccCC
Confidence 00000 0 00112222221111 1245789999999998
Q ss_pred cCCcc----ccCCCCCEEEEEcCCCCChhhhhhhhhcC--------CCeEEEEeCCCCCCceeechHH-HHhccchhHHH
Q 004009 542 AGDPR----LANFRFRQVLIDESTQATEPECLIPLVLG--------AKQVVLVGDHCQLGPVIMCKKA-ARAGLAQSLFE 608 (779)
Q Consensus 542 a~~~~----L~~~~Fd~VIIDEAsQatEpe~LipL~~~--------~~~lILVGD~~QLpPvv~s~~a-~~~gl~~SLFe 608 (779)
++..+ -..++||-+++.|++|+.|.+..+|+.+. -+++|++|||.||||++....- ......+|||.
T Consensus 978 aalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm~qslf~ 1057 (1320)
T KOG1806|consen 978 AALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNMEQSLFT 1057 (1320)
T ss_pred hhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcchhhhhh
Confidence 87543 23568999999999999999999998752 3689999999999999965443 34567899999
Q ss_pred HHHHCCCccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEe---CCcceeccCCCC
Q 004009 609 RLVLLGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQ---MGQEEISASGTS 685 (779)
Q Consensus 609 RLi~~g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~---~g~ee~~~~~~S 685 (779)
|+...+.+.+.|+.|+|..+.|+++.+..+-.-....+++...+.. ..-.....+..|++. .|..|...+..-
T Consensus 1058 r~vRl~ip~i~lnaqgrar~sI~~Ly~wry~lLg~l~~v~~lp~f~----~aNagf~~~~qlinv~Df~g~gEt~p~p~f 1133 (1320)
T KOG1806|consen 1058 RLVRLGVPIIDLNAQGRARASIASLYNWRYPLLGNLPHVSPLPRFQ----YANAGFAYEFQFINVPDFKGSGETEPSPGF 1133 (1320)
T ss_pred cceecccceecchhhhhHHHHHHHHHHhhhcccccCcCCccchhhh----ccccCceeeEEEecchhhccccccCCCccc
Confidence 9999999999999999999999999887664322223333222110 000111235555544 466666677778
Q ss_pred CCCHHHHHHHHHHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEEeee
Q 004009 686 YLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVR 765 (779)
Q Consensus 686 ~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~~~~V~V~TVD~FQGrEkDvIIlS~VR 765 (779)
|.|.+||+.++.+...|.-.|++.+.|.|+|.|++|+.+|++.++++.....-....-.|.|||.|||+..|+||+|+||
T Consensus 1134 yQnlgeaey~vAly~YMr~Lgypa~Kisilttyngq~~lirdii~rrc~~nPfig~pAkv~tvdk~qgqqndfiIlslv~ 1213 (1320)
T KOG1806|consen 1134 YQNLGEAEYAVALFQYMRLLGYPANKISILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVDKFQGQQNDFIILSLVR 1213 (1320)
T ss_pred ccCCchhhhHHHHHHHHHHhCCchhHeeEEEeecchHHHHHHHHHHhccCCCccCCcccCCccccccccccceEEeeehh
Confidence 99999999999999999999999999999999999999999999988765555556678999999999999999999999
Q ss_pred eCCCCCcccccC
Q 004009 766 SNEHQRNRYVKT 777 (779)
Q Consensus 766 Sn~~~~iGFL~d 777 (779)
+.. +|-++|
T Consensus 1214 tr~---~gh~rd 1222 (1320)
T KOG1806|consen 1214 TRE---VGHLRD 1222 (1320)
T ss_pred hhh---hhhhcc
Confidence 975 454443
No 13
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.88 E-value=2.5e-21 Score=229.16 Aligned_cols=177 Identities=15% Similarity=0.234 Sum_probs=109.8
Q ss_pred CCCEEEEEcCCCCChhhh--hhhhhc--CCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHC--CCccEEecccc
Q 004009 551 RFRQVLIDESTQATEPEC--LIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQY 624 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe~--LipL~~--~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~--g~~~~~L~~QY 624 (779)
.|++|+|||+++.+..+. +-.+.. ...++++|||+.| .|+... |-...++..+... ....+.|+++|
T Consensus 430 ~~~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~Q---sIY~fr----Ga~~~~~~~f~~~f~~~~~~~L~~nY 502 (684)
T PRK11054 430 PWKHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQ---AIYRFS----GADLSLTTAFHERFGEGDRCHLDTTY 502 (684)
T ss_pred cccEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCc---cccccC----CCChHHHHHHHhhcCCCeEEEeCCCC
Confidence 699999999999998773 223322 2358999999999 444322 2233444444321 23457899999
Q ss_pred CCchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHHHHH
Q 004009 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLR 704 (779)
Q Consensus 625 Rmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~ 704 (779)
|+++.|.++++.++-.+.-+.. . .+. +......|.+..... .+.+.++..+..+..
T Consensus 503 Rs~~~I~~~An~~i~~n~~~~~-----k---~l~-s~~~g~~p~v~~~~~---------------~~~~~il~~l~~~~~ 558 (684)
T PRK11054 503 RFNSRIGEVANRFIQQNPHQLK-----K---PLN-SLTKGDKKAVTLLPE---------------DQLEALLDKLSGYAK 558 (684)
T ss_pred CCCHHHHHHHHHHHHhCccccC-----C---ccc-ccCCCCCceEEEeCC---------------HHHHHHHHHHHHhhc
Confidence 9999999999887633211100 0 000 001123344333211 134444444444443
Q ss_pred CCCCCCeEEEEcccHHHHHHHHHHHHHcCCcccccCCCeEEccCCCCCCCcCCEEEEEeeee
Q 004009 705 SGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQLYKEIEVASVDSFQGREKDYIILSCVRS 766 (779)
Q Consensus 705 ~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~~~~V~V~TVD~FQGrEkDvIIlS~VRS 766 (779)
+.++|+||++|+.+...+.+.+.... ...+|.+.|+++.+|.|+|+|||-.+.+
T Consensus 559 ---~~~~I~IL~R~~~~~~~~l~~~~~~~-----~~~~i~~~T~h~sKGLEfD~ViI~g~~~ 612 (684)
T PRK11054 559 ---PDERILLLARYHHLRPALLDKAATRW-----PKLQIDFMTIHASKGQQADYVIILGLQE 612 (684)
T ss_pred ---CCCcEEEEEechhhHHHHHHHHHhhc-----ccCCeEEEehhhhcCCcCCEEEEecCCc
Confidence 45799999999998865554443321 1237999999999999999999976543
No 14
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.87 E-value=2.5e-21 Score=232.63 Aligned_cols=314 Identities=18% Similarity=0.216 Sum_probs=180.7
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHh---CCCcEEEEcCcHHHHHHHHHHHHhcCC---eEE
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATGL---KVV 462 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~~l---~vv 462 (779)
..||++|++||.+. .+..+|.|+||||||+|++..|.+|+.. +..+||++|+||+|+++|.+|+.+..- .-+
T Consensus 3 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~~~~~~ 80 (715)
T TIGR01075 3 DGLNDKQREAVAAP--PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGTSARGM 80 (715)
T ss_pred cccCHHHHHHHcCC--CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcccccCc
Confidence 46999999999764 6788999999999999999999999975 356899999999999999999976411 101
Q ss_pred Eecccc-------cc-----ccCCccchhhH-------HHHHhhccchh-----HHHHHHHHHhhhhh------ccCCch
Q 004009 463 RLCAKS-------RE-----AVSSPVEHLTL-------HYQVRHLDTSE-----KSELHKLQQLKDEQ------GELSSS 512 (779)
Q Consensus 463 Rl~~~s-------re-----~i~~~~~~l~l-------~~~v~~~~~~~-----~~~l~kl~~lk~~~------~els~~ 512 (779)
.++.-- ++ ........+.- ...+....... ......+...+... ......
T Consensus 81 ~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~~ 160 (715)
T TIGR01075 81 WIGTFHGLAHRLLRAHHLDAGLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAMWYINNQKDEGLRPSHIQAFDNP 160 (715)
T ss_pred EEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHCCCCHHHHHhccCh
Confidence 111000 00 00000000000 00000000000 00000011111100 000000
Q ss_pred HHHHHHHHHHHHHH-----HHhhccccceecccccC-Ccccc---CCCCCEEEEEcCCCCChhhhhh--hhhcCCCeEEE
Q 004009 513 DEKKYKALKRATER-----EISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPECLI--PLVLGAKQVVL 581 (779)
Q Consensus 513 d~k~~~~l~~~~~~-----~iL~~a~VI~~T~~~a~-~~~L~---~~~Fd~VIIDEAsQatEpe~Li--pL~~~~~~lIL 581 (779)
..+.+..+.+.++. ..+...|++.-+..... .+.+. ..+|++|+|||+|+++..+..+ .|....+++++
T Consensus 161 ~~~~~~~iy~~Y~~~~~~~~~lDfdDll~~~~~lL~~~~~~~~~~~~~~~~ilVDEfQDtn~~Q~~ll~~L~~~~~~l~v 240 (715)
T TIGR01075 161 VERTWIKIYQAYQEACDRAGLVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEFQDTNKIQYAWIRLLAGNTGNVMI 240 (715)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEccccCCHHHHHHHHHHhCCCCeEEE
Confidence 01111111111111 12333343333322211 11121 2489999999999999888332 23334578999
Q ss_pred EeCCCCCCceeechHHHHhccchhHHHHHHHC--CCccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCCCC
Q 004009 582 VGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDF 659 (779)
Q Consensus 582 VGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~--g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~ 659 (779)
|||++| .|++...+ ....|.++... +...+.|+.|||+++.|.+++|.++-.+.-..+. .
T Consensus 241 VGD~~Q---sIY~fRGA----~~~~i~~f~~~~~~~~~~~L~~NyRS~~~Il~~an~li~~~~~r~~~-----------~ 302 (715)
T TIGR01075 241 VGDDDQ---SIYGWRGA----QVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGK-----------N 302 (715)
T ss_pred EeCCcc---cccccCCC----CHHHHHHHHHhCCCCeEEECcccCCCCHHHHHHHHHHHHhccccccc-----------c
Confidence 999999 55443222 23334343332 2346899999999999999999988654221110 0
Q ss_pred CCCC--CCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCC
Q 004009 660 PWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (779)
Q Consensus 660 ~~p~--~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~ 734 (779)
.|.. .+.++.++.... ...||..|++.|..|++.|+++++|+||++.+.|...|.+.|...+.
T Consensus 303 ~~~~~~~g~~i~~~~~~~------------~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~~L~~~gI 367 (715)
T TIGR01075 303 LWTDGEVGEPISLYSAFN------------ELDEARFVVSRIKTWQRNGGALDECAVLYRSNAQSRVLEEALLQASI 367 (715)
T ss_pred ccCCCCCCCceEEEeCCC------------HHHHHHHHHHHHHHHHHcCCCccCEEEEEecCchHHHHHHHHHHcCC
Confidence 1211 122333332211 14589999999999999999999999999999999999999987763
No 15
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.87 E-value=5.1e-21 Score=229.96 Aligned_cols=312 Identities=20% Similarity=0.237 Sum_probs=180.7
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHh---CCCcEEEEcCcHHHHHHHHHHHHhc-CCeE--E
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GLKV--V 462 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~-~l~v--v 462 (779)
..||++|++||.+. .+..+|.|+||||||+|++..|.+|+.. +..+||++|+||+|+++|.+|+.+. +... +
T Consensus 8 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~~~~~ 85 (721)
T PRK11773 8 DSLNDKQREAVAAP--LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTSQGGM 85 (721)
T ss_pred HhcCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhccCCCCC
Confidence 36999999999865 6788999999999999999999999974 3568999999999999999999764 1110 0
Q ss_pred Eec--ccc-----cc-----ccCCccchhh-------HHHHHhhcc--ch---hHHHHHHHHHhhhhhccCCch------
Q 004009 463 RLC--AKS-----RE-----AVSSPVEHLT-------LHYQVRHLD--TS---EKSELHKLQQLKDEQGELSSS------ 512 (779)
Q Consensus 463 Rl~--~~s-----re-----~i~~~~~~l~-------l~~~v~~~~--~~---~~~~l~kl~~lk~~~~els~~------ 512 (779)
.++ |.- ++ ........+. +...+..+. .. .......+...+.. .+...
T Consensus 86 ~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~k~~--~~~~~~~~~~~ 163 (721)
T PRK11773 86 WVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAQWYINGQKDE--GLRPQHIQSYG 163 (721)
T ss_pred EEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHc--CCCHHHHHhcc
Confidence 010 000 00 0000000000 000000000 00 00000001111110 00000
Q ss_pred --HH----HHHHHHHHHHH-HHHhhccccceecccccC-Cccc---cCCCCCEEEEEcCCCCChhhh--hhhhhcCCCeE
Q 004009 513 --DE----KKYKALKRATE-REISQSADVICCTCVGAG-DPRL---ANFRFRQVLIDESTQATEPEC--LIPLVLGAKQV 579 (779)
Q Consensus 513 --d~----k~~~~l~~~~~-~~iL~~a~VI~~T~~~a~-~~~L---~~~~Fd~VIIDEAsQatEpe~--LipL~~~~~~l 579 (779)
.. +.|+...+... ...+...|++..+..... .+.+ ...+|++|+|||+|+++..+. +-.|.....++
T Consensus 164 ~~~~~~~~~iy~~Y~~~~~~~~~~DfdDll~~~~~lL~~~~~~~~~~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l 243 (721)
T PRK11773 164 DPVEQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAIQYAWIRLLAGDTGKV 243 (721)
T ss_pred ChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEchhcCCHHHHHHHHHHhCCCCeE
Confidence 01 11111111111 113333444433333221 1222 124799999999999998872 33333345789
Q ss_pred EEEeCCCCCCceeechHHHHhccchhHHHHHHH--CCCccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCC
Q 004009 580 VLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL--LGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGI 657 (779)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~--~g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~ 657 (779)
++|||++| .|++...+ ....|.++.. .+...+.|..|||+++.|.++++.++-.+.-..+.
T Consensus 244 ~vVGD~dQ---sIY~fRGA----~~~~~~~f~~~~~~~~~i~L~~NyRSt~~Il~~an~li~~n~~r~~k---------- 306 (721)
T PRK11773 244 MIVGDDDQ---SIYGWRGA----QVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGK---------- 306 (721)
T ss_pred EEEecCcc---cccccCCC----ChHHHHHHHHhCCCCeEEECCcCCCCCHHHHHHHHHHHHhcccccCc----------
Confidence 99999999 45443221 2333434333 23456899999999999999999988554321110
Q ss_pred CCCCCC--CCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCC
Q 004009 658 DFPWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (779)
Q Consensus 658 ~~~~p~--~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~ 734 (779)
..|+. .+.++.++.... ...||..|++.|..++..|++.++|+||++.+.|...|.+.|...+.
T Consensus 307 -~~~~~~~~g~~v~~~~~~~------------~~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~~L~~~gI 372 (721)
T PRK11773 307 -ELWTDGGDGEPISLYCAFN------------ELDEARFVVERIKTWQDNGGALSDCAILYRSNAQSRVLEEALLQAGI 372 (721)
T ss_pred -ccccCCCCCCeeEEEeCCC------------HHHHHHHHHHHHHHHHHcCCCcccEEEEEecchhHHHHHHHHHHCCC
Confidence 01211 122333322111 24689999999999999999999999999999999999999988764
No 16
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.86 E-value=1.3e-20 Score=226.98 Aligned_cols=312 Identities=16% Similarity=0.191 Sum_probs=179.4
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHh---CCCcEEEEcCcHHHHHHHHHHHHhcCC-eE--E
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISATGL-KV--V 462 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~~l-~v--v 462 (779)
..||++|++||.+. .+..+|.|+||||||+|++..|.+|+.. .+.+||++|+||.|+.+|.+|+.+..- .. +
T Consensus 3 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~~~~~~ 80 (726)
T TIGR01073 3 AHLNPEQREAVKTT--EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPVAEDI 80 (726)
T ss_pred cccCHHHHHHHhCC--CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhccccCCc
Confidence 46999999999864 6789999999999999999999999875 346899999999999999999975411 10 1
Q ss_pred Eecccc-------cc---c--cCCccchhh-------HHHHHhhccch-----hHHHHHHHHHhhhhhccCCchH-----
Q 004009 463 RLCAKS-------RE---A--VSSPVEHLT-------LHYQVRHLDTS-----EKSELHKLQQLKDEQGELSSSD----- 513 (779)
Q Consensus 463 Rl~~~s-------re---~--i~~~~~~l~-------l~~~v~~~~~~-----~~~~l~kl~~lk~~~~els~~d----- 513 (779)
.++.-. ++ . .......+. +...+...... .......+..++... ++..+
T Consensus 81 ~i~TFHs~~~~iLr~~~~~~g~~~~f~i~d~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~--~~~~~~~~~~ 158 (726)
T TIGR01073 81 WISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTILKDKNLDPKKFEPRSILGTISNAKNEL--LPPEDFAKEA 158 (726)
T ss_pred EEEcHHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHHHHHHhcCCCcccCCHHHHHHHHHHHHHcC--CCHHHHHHhh
Confidence 111000 00 0 000000000 00000000000 000001111111110 01000
Q ss_pred ----HHHHHHHHHHHHH-----HHhhccccceecccccC-Cccc---cCCCCCEEEEEcCCCCChhhh--hhhhhcCCCe
Q 004009 514 ----EKKYKALKRATER-----EISQSADVICCTCVGAG-DPRL---ANFRFRQVLIDESTQATEPEC--LIPLVLGAKQ 578 (779)
Q Consensus 514 ----~k~~~~l~~~~~~-----~iL~~a~VI~~T~~~a~-~~~L---~~~~Fd~VIIDEAsQatEpe~--LipL~~~~~~ 578 (779)
.+.+..+.+.+++ ..+...|++..+..... .+.+ ...+|++|+|||+|+++..+. +-.|....++
T Consensus 159 ~~~~~~~~~~iy~~Y~~~l~~~~~lDfdDll~~~~~lL~~~~~v~~~~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~ 238 (726)
T TIGR01073 159 TNYFEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEYQDTNRAQYTLVRLLASRFRN 238 (726)
T ss_pred cchHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEccccCCHHHHHHHHHHhCCCCE
Confidence 0011111111111 22333344433322211 1222 123899999999999998883 2233334578
Q ss_pred EEEEeCCCCCCceeechHHHHhccchhHHHHHHH--CCCccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCC
Q 004009 579 VVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL--LGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSG 656 (779)
Q Consensus 579 lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~--~g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~ 656 (779)
+++|||++| .|++... -....|.++.. .+...+.|.+|||+++.|+++++.++-.+.-.... .
T Consensus 239 l~vVGD~~Q---sIY~fRg----A~~~~~~~f~~~~~~~~~i~L~~NyRS~~~Il~~an~li~~~~~r~~~--------~ 303 (726)
T TIGR01073 239 LCVVGDADQ---SIYGWRG----ADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKPK--------N 303 (726)
T ss_pred EEEEeCCCc---cccccCC----CChHHHHHHHHhCCCCeEEECccCCCCCHHHHHHHHHHHHhccccccc--------c
Confidence 999999999 4544322 12333333332 13456889999999999999999988554211100 0
Q ss_pred CCCCCCC--CCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHHHHHCC-CCCCeEEEEcccHHHHHHHHHHHHHcC
Q 004009 657 IDFPWPV--PNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVNYMSRNG 733 (779)
Q Consensus 657 ~~~~~p~--~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~g-v~~~~IgIITPY~~Qv~~L~~~L~~~~ 733 (779)
.|.. .+.++.++.... -..||..|.+.|.+|+..| +++.+|+||++.+.|...|.+.|.+.+
T Consensus 304 ---l~~~~~~g~~v~~~~~~~------------~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~~~~~~~l~~~L~~~g 368 (726)
T TIGR01073 304 ---LWTENSSGDKITYYEADT------------ERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEETLLKAN 368 (726)
T ss_pred ---cccCCCCCcceEEEeCCC------------HHHHHHHHHHHHHHHHHcCCCCcCCEEEEEeCchhHHHHHHHHHHcC
Confidence 1110 122333332211 1358999999999999876 689999999999999999999998876
Q ss_pred C
Q 004009 734 A 734 (779)
Q Consensus 734 ~ 734 (779)
.
T Consensus 369 I 369 (726)
T TIGR01073 369 I 369 (726)
T ss_pred C
Confidence 3
No 17
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.86 E-value=1.2e-20 Score=224.72 Aligned_cols=313 Identities=16% Similarity=0.178 Sum_probs=172.8
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHh---CCCcEEEEcCcHHHHHHHHHHHHhc-CCe-E--E
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GLK-V--V 462 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~-~l~-v--v 462 (779)
.||++|++||.+. .+..+|.|+||||||+|++..|.+|+.. ...+||++|+||.|+++|.+|+.+. +.. . +
T Consensus 2 ~Ln~~Q~~av~~~--~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~~~~~v 79 (672)
T PRK10919 2 RLNPGQQQAVEFV--TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEARGL 79 (672)
T ss_pred CCCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCcccccCc
Confidence 5999999999864 6788999999999999999999999974 3468999999999999999999764 211 0 1
Q ss_pred Eecc--c-c----cc-----ccCCccchhh-------HHHHHhhccchhHHHHHH----HHHhhhhhccCCchH------
Q 004009 463 RLCA--K-S----RE-----AVSSPVEHLT-------LHYQVRHLDTSEKSELHK----LQQLKDEQGELSSSD------ 513 (779)
Q Consensus 463 Rl~~--~-s----re-----~i~~~~~~l~-------l~~~v~~~~~~~~~~l~k----l~~lk~~~~els~~d------ 513 (779)
.++. . . +. .+......+. +..............+.. +..++.. .++..+
T Consensus 80 ~i~TfHS~~~~iLr~~~~~~g~~~~~~i~d~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~~~k~~--~~~~~~~~~~~~ 157 (672)
T PRK10919 80 MISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKELTEGLIEDDKVLLQQLISTISNWKND--LKTPAQAAAGAK 157 (672)
T ss_pred EEEcHHHHHHHHHHHHHHHhCCCCCCeeCCHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHc--CCCHHHHHHHhc
Confidence 1110 0 0 00 0000000000 000000000000000111 1111110 001000
Q ss_pred ---HHHHHHHHHHHH-----HHHhhccccceeccccc-CCccc---cCCCCCEEEEEcCCCCChhhhhh--hhhcCCCeE
Q 004009 514 ---EKKYKALKRATE-----REISQSADVICCTCVGA-GDPRL---ANFRFRQVLIDESTQATEPECLI--PLVLGAKQV 579 (779)
Q Consensus 514 ---~k~~~~l~~~~~-----~~iL~~a~VI~~T~~~a-~~~~L---~~~~Fd~VIIDEAsQatEpe~Li--pL~~~~~~l 579 (779)
.+.+..+.+.++ ...++-.|++.-+.... ..+.+ ...+|++|+|||+|+++..+..+ .|.....++
T Consensus 158 ~~~~~~~~~~~~~Ye~~l~~~~~lDf~Dll~~~~~ll~~~~~~~~~~~~~~~~ilVDE~QDtn~~Q~~ll~~l~~~~~~l 237 (672)
T PRK10919 158 GERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARF 237 (672)
T ss_pred chhHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCHHHHHHHHhcCCEEEEEchhcCCHHHHHHHHHHHcCCCEE
Confidence 011111111121 12233334443222111 11111 12479999999999999888322 233335689
Q ss_pred EEEeCCCCCCceeechHHHHhccchhHHHHHHHC--CCccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCC
Q 004009 580 VLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGI 657 (779)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~--g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~ 657 (779)
++|||++| .|++.. |-....|.++... +...+.|.+|||+++.|.++++.++-.+.-.- ......
T Consensus 238 ~~VGD~~Q---sIY~fr----GA~~~~~~~f~~~~~~~~~~~L~~NyRs~~~I~~~an~li~~n~~~~----~k~~~~-- 304 (672)
T PRK10919 238 TVVGDDDQ---SIYSWR----GARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANNPHVF----EKRLFS-- 304 (672)
T ss_pred EEEcCCcc---cccccC----CCChHHHHHHHHhCCCCcEEECCCCCCCcHHHHHHHHHHHhhCcccc----cccccc--
Confidence 99999999 555432 2234455444432 34568999999999999999999885432110 000000
Q ss_pred CCCCCCCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHH-HHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCC
Q 004009 658 DFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIV-TTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (779)
Q Consensus 658 ~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV-~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~ 734 (779)
..+ .+.++.++.... -..||..|+..+ ......|++.++|+||+.-+.|...|.+.|...+.
T Consensus 305 --~~~-~g~~~~~~~~~~------------~~~ea~~i~~~i~~~~~~~~~~~~diAVL~Rs~~~~~~le~~L~~~gI 367 (672)
T PRK10919 305 --ELG-YGDELKVLSANN------------EEHEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVFEKFLMQNRI 367 (672)
T ss_pred --CCC-CCCceEEEcCCC------------HHHHHHHHHHHHHHHHHhcCCCcCcEEEEEeCchhHHHHHHHHHHcCC
Confidence 001 112222222111 135777765543 33334678899999999999999999999988764
No 18
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.82 E-value=1.4e-19 Score=216.07 Aligned_cols=313 Identities=17% Similarity=0.151 Sum_probs=171.1
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHh---CCCcEEEEcCcHHHHHHHHHHHHhc-CCe-E--E
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT-GLK-V--V 462 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~-~l~-v--v 462 (779)
.||+.|++||... .+..+|.|+||||||+|++..|.+|+.. ...+||++|+||.|+.+|.+||.+. +.. . +
T Consensus 1 ~Ln~~Q~~av~~~--~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~~~~~v 78 (664)
T TIGR01074 1 KLNPQQQEAVEYV--TGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKGEARGL 78 (664)
T ss_pred CCCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCccccCCe
Confidence 4899999999865 6788999999999999999999999864 3468999999999999999999763 111 0 1
Q ss_pred Eeccccc-------c-----ccCCccchhh-------HHHHHhhccchhHHHHHHH----HHhhhhhccCCchH------
Q 004009 463 RLCAKSR-------E-----AVSSPVEHLT-------LHYQVRHLDTSEKSELHKL----QQLKDEQGELSSSD------ 513 (779)
Q Consensus 463 Rl~~~sr-------e-----~i~~~~~~l~-------l~~~v~~~~~~~~~~l~kl----~~lk~~~~els~~d------ 513 (779)
.++.-.+ + .+......+. +...+..........+..+ ..++. ..++..+
T Consensus 79 ~v~TfHs~a~~il~~~~~~~g~~~~~~il~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~i~~~k~--~~~~~~~~~~~~~ 156 (664)
T TIGR01074 79 TISTFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEGLIKDDKDLLDKLISTISNWKN--DLLTPEQALASAR 156 (664)
T ss_pred EEEeHHHHHHHHHHHHHHHhCCCCCCEEeCHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHH--cCCCHHHHHHhcc
Confidence 1110000 0 0000000000 0000000000000001111 11111 0011000
Q ss_pred ---HHHHHHHHHHHH----H-HHhhccccceecccccC-Ccccc---CCCCCEEEEEcCCCCChhhh--hhhhhcCCCeE
Q 004009 514 ---EKKYKALKRATE----R-EISQSADVICCTCVGAG-DPRLA---NFRFRQVLIDESTQATEPEC--LIPLVLGAKQV 579 (779)
Q Consensus 514 ---~k~~~~l~~~~~----~-~iL~~a~VI~~T~~~a~-~~~L~---~~~Fd~VIIDEAsQatEpe~--LipL~~~~~~l 579 (779)
...+..+...++ + ..+...|++........ .+.+. ..+|++|+|||+++++..+. +-.|.....++
T Consensus 157 ~~~~~~~~~i~~~Y~~~l~~~~~ldf~Dll~~~~~~L~~~~~i~~~~~~~~~~ilVDEfQD~~~~Q~~ll~~L~~~~~~l 236 (664)
T TIGR01074 157 GEREQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTSQYELVKLLVGDRARF 236 (664)
T ss_pred ChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhhChHHHHHHHHhCCEEEEeehccCCHHHHHHHHHHhcCCCeE
Confidence 000111111111 1 12333333322222111 12222 24799999999999998873 33333334689
Q ss_pred EEEeCCCCCCceeechHHHHhccchhHHHHHHH--CCCccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCC
Q 004009 580 VLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL--LGLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGI 657 (779)
Q Consensus 580 ILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~--~g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~ 657 (779)
++|||++| .|++.. |-....|.++.. .+...+.|.+|||+++.|.++++.+|-.+.-.. .. ..
T Consensus 237 ~~vGD~~Q---sIY~fr----ga~~~~~~~~~~~~~~~~~~~L~~NyRs~~~Il~~~n~l~~~~~~~~-----~~---~~ 301 (664)
T TIGR01074 237 TVVGDDDQ---SIYSWR----GARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIANNPHVF-----EK---KL 301 (664)
T ss_pred EEEcCCcc---cccCCC----CCCHHHHHHHHHhCCCCeEEECCCCCCChHHHHHHHHHHHhcCcccc-----cc---cc
Confidence 99999999 443322 112233333332 234567899999999999999999764322100 00 00
Q ss_pred CCCCCCCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHH-HHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCC
Q 004009 658 DFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTT-FLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (779)
Q Consensus 658 ~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~-Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~ 734 (779)
....+ .+.++.++.... ...||+.|++.+.. .+..|++.++|+||++.+.|...|...|.+.+.
T Consensus 302 ~~~~~-~g~~v~~~~~~~------------~~~Ea~~ia~~I~~~~~~~~~~~~diAVL~R~~~~~~~l~~~l~~~gI 366 (664)
T TIGR01074 302 FSELG-YGEKIKVIECNN------------EEHEAERIAGEIIAHKLVNKTQYKDYAILYRGNHQSRLLEKALMQNRI 366 (664)
T ss_pred cccCC-CCCceEEEeCCC------------HHHHHHHHHHHHHHHHHcCCCCcccEEEEEecCchHHHHHHHHHHcCC
Confidence 00001 112333332211 13588888776653 234589999999999999999999999987764
No 19
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.82 E-value=1.3e-18 Score=203.29 Aligned_cols=200 Identities=22% Similarity=0.262 Sum_probs=121.9
Q ss_pred CCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhC---CCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 004009 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (779)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~---~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~ 467 (779)
..+.|+.|+..++.+++++|.||||||||||+..++..+.+.. ..+|+++|||++|+..|.+++.....+ +.-.
T Consensus 153 ~~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~---~~~~ 229 (615)
T PRK10875 153 EVDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQ---LPLT 229 (615)
T ss_pred CCHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhc---cccc
Confidence 4579999999999999999999999999999999998887642 347999999999999999988643111 1000
Q ss_pred cccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCccc
Q 004009 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (779)
Q Consensus 468 sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (779)
.......+..-.++|..+..... .. .+ ....-
T Consensus 230 ~~~~~~~~~~a~TiHrlLg~~~~---------------~~--------~~-------------------------~~~~~ 261 (615)
T PRK10875 230 DEQKKRIPEEASTLHRLLGAQPG---------------SQ--------RL-------------------------RYHAG 261 (615)
T ss_pred hhhhhcCCCchHHHHHHhCcCCC---------------cc--------ch-------------------------hhccc
Confidence 00000001112233332221110 00 00 00011
Q ss_pred cCCCCCEEEEEcCCCCChhhhh--hhhhcCCCeEEEEeCCCCCCceeechHHHH------hccchhHHHHHHH-------
Q 004009 548 ANFRFRQVLIDESTQATEPECL--IPLVLGAKQVVLVGDHCQLGPVIMCKKAAR------AGLAQSLFERLVL------- 612 (779)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~L--ipL~~~~~~lILVGD~~QLpPvv~s~~a~~------~gl~~SLFeRLi~------- 612 (779)
....+|+||||||++...+... +-......++|||||+.||||+-.+.-..+ .++.....+.+..
T Consensus 262 ~~l~~dvlIvDEaSMvd~~lm~~ll~al~~~~rlIlvGD~~QL~sV~~G~VL~DL~~~~~~~~~~~~~~~l~~~~~~~~~ 341 (615)
T PRK10875 262 NPLHLDVLVVDEASMVDLPMMARLIDALPPHARVIFLGDRDQLASVEAGAVLGDICRFAEAGYSAERAQQLSRLTGCHLP 341 (615)
T ss_pred cCCCCCeEEEChHhcccHHHHHHHHHhcccCCEEEEecchhhcCCCCCCchHHHHHHhhhcccchhhhhHHhhhcccccc
Confidence 1236899999999999877622 222234579999999999999865432111 1222111111111
Q ss_pred C----CCcc-----EEeccccCCc--hHHHHHHHhhhcCCc
Q 004009 613 L----GLKP-----IRLQVQYRMH--PSLSEFPSNSFYEGT 642 (779)
Q Consensus 613 ~----g~~~-----~~L~~QYRmh--p~I~~f~S~~FY~g~ 642 (779)
. ..++ ++|++.||.. ..|..++... ..|.
T Consensus 342 ~~~~~~~~~~~~~~~~L~~~~Rf~~~SgI~~lA~~I-~~G~ 381 (615)
T PRK10875 342 AGTGTEAASVRDSLCLLRKSYRFGSDSGIGQLAAAV-NRGD 381 (615)
T ss_pred ccccccCCccccceeecceeecCCCCCcHHHHHHHH-HCCC
Confidence 0 1122 5899999985 5688887554 4554
No 20
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.80 E-value=5.7e-19 Score=179.81 Aligned_cols=173 Identities=28% Similarity=0.361 Sum_probs=111.3
Q ss_pred CCCHHHHHHHHHhhcC--CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 004009 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~ 467 (779)
.||++|++|+..++.. ++.+|+||||||||+++..++..+...+ .+|+++||||.|+++|.+++. .+.
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g-~~v~~~apT~~Aa~~L~~~~~---~~a------ 70 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAG-KRVIGLAPTNKAAKELREKTG---IEA------ 70 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT---EEEEESSHHHHHHHHHHHT---S-E------
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCC-CeEEEECCcHHHHHHHHHhhC---cch------
Confidence 4899999999999864 5899999999999999998887776665 699999999999999998852 111
Q ss_pred cccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCccc
Q 004009 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (779)
Q Consensus 468 sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (779)
.+++..+...... .. ....
T Consensus 71 -----------~Ti~~~l~~~~~~----------------~~----------------------------------~~~~ 89 (196)
T PF13604_consen 71 -----------QTIHSFLYRIPNG----------------DD----------------------------------EGRP 89 (196)
T ss_dssp -----------EEHHHHTTEECCE----------------EC----------------------------------CSSC
T ss_pred -----------hhHHHHHhcCCcc----------------cc----------------------------------cccc
Confidence 1233222211110 00 0000
Q ss_pred cCCCCCEEEEEcCCCCChhhhhhhhh--c-CCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCCCccEEecccc
Q 004009 548 ANFRFRQVLIDESTQATEPECLIPLV--L-GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (779)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~LipL~--~-~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g~~~~~L~~QY 624 (779)
....+++||||||+++........+. . ...++|||||++||||+-. .+.|..+...+...+.|+..+
T Consensus 90 ~~~~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~~----------g~~~~~l~~~~~~~~~L~~i~ 159 (196)
T PF13604_consen 90 ELPKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVGA----------GSPFADLQESGGITVELTEIR 159 (196)
T ss_dssp C-TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCST----------TCHHHHHCGCSTTEEEE---S
T ss_pred cCCcccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCcC----------CcHHHHHHhcCCCeEEeChhh
Confidence 02357899999999999887433332 2 2468999999999999953 246666766665588999999
Q ss_pred CCc-hHHHHHHHhhhcCCccc
Q 004009 625 RMH-PSLSEFPSNSFYEGTLQ 644 (779)
Q Consensus 625 Rmh-p~I~~f~S~~FY~g~L~ 644 (779)
|.. +.+. -.+..+.+|...
T Consensus 160 Rq~~~~~~-~~~~~~~~g~~~ 179 (196)
T PF13604_consen 160 RQKDPELR-EAAKAIREGDAE 179 (196)
T ss_dssp CCCCTHHH-HHHHHHCTT---
T ss_pred cCCChHHH-HHHHHHHcCCCc
Confidence 987 5555 445666666544
No 21
>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=99.75 E-value=9.2e-17 Score=192.28 Aligned_cols=170 Identities=24% Similarity=0.288 Sum_probs=119.0
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~ 467 (779)
..||+.|++|+..++.+++++|+|+||||||+++..++..+...+ ..+|++||||+.|++.|.+.+. .
T Consensus 322 ~~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g---~-------- 390 (720)
T TIGR01448 322 KGLSEEQKQALDTAIQHKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTG---L-------- 390 (720)
T ss_pred CCCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcC---C--------
Confidence 469999999999999999999999999999999988887666554 2589999999999998776531 1
Q ss_pred cccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCccc
Q 004009 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (779)
Q Consensus 468 sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (779)
...++|..+..... ... . ...-
T Consensus 391 ---------~a~Tih~lL~~~~~-----------------~~~--~------------------------------~~~~ 412 (720)
T TIGR01448 391 ---------TASTIHRLLGYGPD-----------------TFR--H------------------------------NHLE 412 (720)
T ss_pred ---------ccccHHHHhhccCC-----------------ccc--h------------------------------hhhh
Confidence 11234433221110 000 0 0000
Q ss_pred cCCCCCEEEEEcCCCCChhhhh--hhhhcCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCC-CccEEecccc
Q 004009 548 ANFRFRQVLIDESTQATEPECL--IPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIRLQVQY 624 (779)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~L--ipL~~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g-~~~~~L~~QY 624 (779)
.....++||||||+++...... +.......++|||||+.||||+-.+ ..|..++..+ .+.++|+..|
T Consensus 413 ~~~~~~llIvDEaSMvd~~~~~~Ll~~~~~~~rlilvGD~~QLpsV~~G----------~v~~dl~~~~~~~~~~L~~i~ 482 (720)
T TIGR01448 413 DPIDCDLLIVDESSMMDTWLALSLLAALPDHARLLLVGDTDQLPSVGPG----------QVLKDLILSQAIPVTRLTKVY 482 (720)
T ss_pred ccccCCEEEEeccccCCHHHHHHHHHhCCCCCEEEEECccccccCCCCC----------chHHHHHhcCCCCEEEeCeee
Confidence 0136899999999999876522 2212245799999999999998532 3466666654 6778999999
Q ss_pred CCc--hHHHHHHHhh
Q 004009 625 RMH--PSLSEFPSNS 637 (779)
Q Consensus 625 Rmh--p~I~~f~S~~ 637 (779)
|.. ..|..++...
T Consensus 483 RQ~~~s~i~~~a~~i 497 (720)
T TIGR01448 483 RQAAGSPIITLAHGI 497 (720)
T ss_pred ccCCCcHHHHHHHHH
Confidence 986 4588887655
No 22
>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=99.73 E-value=4.4e-17 Score=190.21 Aligned_cols=194 Identities=23% Similarity=0.282 Sum_probs=118.3
Q ss_pred HHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCC----CcEEEEcCcHHHHHHHHHHHHhcCCeEEEecccc
Q 004009 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ----GQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (779)
Q Consensus 393 ~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~----~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~s 468 (779)
+.|+.|+..++.+++++|+||||||||+|++.++..+.+... .+|+++|||++|+..|.+.+.....+ +....
T Consensus 148 ~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~---l~~~~ 224 (586)
T TIGR01447 148 NWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKN---LAAAE 224 (586)
T ss_pred HHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcc---cccch
Confidence 689999999999999999999999999999999988876532 48999999999999999998653211 10000
Q ss_pred ccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCcccc
Q 004009 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (779)
Q Consensus 469 re~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~ 548 (779)
......+....++|..+..... . ..+ ....-.
T Consensus 225 ~~~~~~~~~a~TiHrlLg~~~~---------------~--------~~~-------------------------~~~~~~ 256 (586)
T TIGR01447 225 ALIAALPSEAVTIHRLLGIKPD---------------T--------KRF-------------------------RHHERN 256 (586)
T ss_pred hhhhccccccchhhhhhcccCC---------------c--------chh-------------------------hhcccC
Confidence 0000001112233322211100 0 000 000011
Q ss_pred CCCCCEEEEEcCCCCChhhh--hhhhhcCCCeEEEEeCCCCCCceeechHHHH------hccchhHHHHH-----HH---
Q 004009 549 NFRFRQVLIDESTQATEPEC--LIPLVLGAKQVVLVGDHCQLGPVIMCKKAAR------AGLAQSLFERL-----VL--- 612 (779)
Q Consensus 549 ~~~Fd~VIIDEAsQatEpe~--LipL~~~~~~lILVGD~~QLpPvv~s~~a~~------~gl~~SLFeRL-----i~--- 612 (779)
...+|+||||||+++..+.. ++-......++||+||+.||||+-.+.-... .++.......+ ..
T Consensus 257 ~l~~dvlIiDEaSMvd~~l~~~ll~al~~~~rlIlvGD~~QLpsV~~G~vl~dl~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 (586)
T TIGR01447 257 PLPLDVLVVDEASMVDLPLMAKLLKALPPNTKLILLGDKNQLPSVEAGAVLGDLCELASIGYLFQSAQAYALCKKINSKT 336 (586)
T ss_pred CCcccEEEEcccccCCHHHHHHHHHhcCCCCEEEEECChhhCCCCCCChhHHHHHHhhccccchhhhhhhcccccccccc
Confidence 23689999999999998752 2222234679999999999999965422111 01000000000 00
Q ss_pred -CCCc--cEEeccccCCch--HHHHHHHhh
Q 004009 613 -LGLK--PIRLQVQYRMHP--SLSEFPSNS 637 (779)
Q Consensus 613 -~g~~--~~~L~~QYRmhp--~I~~f~S~~ 637 (779)
..++ .++|++.||... .|..++...
T Consensus 337 ~~~i~~~~~~L~~~~R~~~~S~I~~lA~~I 366 (586)
T TIGR01447 337 RNPLSDNVCFLKTSHRFGKDSGIGQLAKAI 366 (586)
T ss_pred cCCCCCcEEEeceeecCCCCccHHHHHHHH
Confidence 0123 679999999975 698887655
No 23
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.72 E-value=3.6e-16 Score=186.65 Aligned_cols=314 Identities=20% Similarity=0.189 Sum_probs=180.5
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhC---CCcEEEEcCcHHHHHHHHHHHHhcCCe------
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISATGLK------ 460 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~---~~rILV~ApSN~AVD~L~erL~~~~l~------ 460 (779)
.||+.|++||... .+..+|.++||||||+|++..|.+|+..+ ..+||++|+||+|+.+|.+|+.+....
T Consensus 2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~~~~~~~ 79 (655)
T COG0210 2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLGLPAAEGL 79 (655)
T ss_pred CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhCcccccCc
Confidence 5999999999887 78999999999999999999999999873 457999999999999999999876321
Q ss_pred EEEecccc-----c---ccc--CCccchh---hHHHHHhh-------ccch--hHHH-HHHHHHhhhhhcc---CC----
Q 004009 461 VVRLCAKS-----R---EAV--SSPVEHL---TLHYQVRH-------LDTS--EKSE-LHKLQQLKDEQGE---LS---- 510 (779)
Q Consensus 461 vvRl~~~s-----r---e~i--~~~~~~l---~l~~~v~~-------~~~~--~~~~-l~kl~~lk~~~~e---ls---- 510 (779)
.+...+.- + ... ......+ ..+..++. ++.. .... ...+...+...-. ..
T Consensus 80 ~v~TfHs~~~~~lr~~~~~~~~~~~~~i~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~ 159 (655)
T COG0210 80 TVGTFHSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRELNLDDKELLPREALRYISEAKNALLSPLEASALLL 159 (655)
T ss_pred EEeeHHHHHHHHHHHHHHhcCCCCCCEEecHHHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHhhCCChhhhhhhhh
Confidence 11111100 0 000 0000000 00000000 0000 0000 0001111110000 00
Q ss_pred ----chHHHHHHHHHHHHHHH-----HhhccccceecccccC-Ccc-cc--CCCCCEEEEEcCCCCChhhh--hhhhhcC
Q 004009 511 ----SSDEKKYKALKRATERE-----ISQSADVICCTCVGAG-DPR-LA--NFRFRQVLIDESTQATEPEC--LIPLVLG 575 (779)
Q Consensus 511 ----~~d~k~~~~l~~~~~~~-----iL~~a~VI~~T~~~a~-~~~-L~--~~~Fd~VIIDEAsQatEpe~--LipL~~~ 575 (779)
....+....+...+.+. .++-.|.+.-++.... .+. +. ..+|++|+|||+|++...+. +-.+...
T Consensus 160 ~~~~~~~~~~~~~~y~~Y~~~~~~~~~~df~dll~~~~~l~~~~~~v~~~~~~rf~~iLvDE~QDtn~~Q~~ll~~la~~ 239 (655)
T COG0210 160 AAIKSEAEKKLAELYEEYQELLRLNNALDFDDLLLLALRLLEENPEVLEALQARFRYILVDEFQDTNPLQYELLKLLAGN 239 (655)
T ss_pred hccccHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHhhCCEEEEeCcCCCCHHHHHHHHHHhCC
Confidence 00011111111111111 2222333333332222 111 11 35899999999999888773 3333333
Q ss_pred CCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCC--CccEEeccccCCchHHHHHHHhhhcCCcccccCcccccc
Q 004009 576 AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG--LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQ 653 (779)
Q Consensus 576 ~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g--~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~ 653 (779)
...+++|||+.| .|++.. |-....|.++.... .+.+.|..|||+.+.|...++...=.+.-...
T Consensus 240 ~~~l~~VGD~dQ---sIY~fr----GA~~~ni~~f~~df~~~~~i~Le~NyRSt~~Il~~An~~i~~n~~r~~------- 305 (655)
T COG0210 240 AANLFVVGDDDQ---SIYGFR----GADPENILDFEKDFPAAKVIKLEQNYRSTPNILAAANKVIANNKKRQA------- 305 (655)
T ss_pred CCCEEEEcCCcc---ccceeC----CCChHHHHHHHhhCCCCcEEEecCCCCCcHHHHHHHHHHHhcCCccCC-------
Confidence 568889999999 444322 22333444443322 46789999999999999999998852221111
Q ss_pred CCCCCCCC-CCCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHHHHHCC-CCCCeEEEEcccHHHHHHHHHHHHH
Q 004009 654 SSGIDFPW-PVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLRSG-VVPSQIGVITPYEGQRAYIVNYMSR 731 (779)
Q Consensus 654 ~~~~~~~~-p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~~g-v~~~~IgIITPY~~Qv~~L~~~L~~ 731 (779)
..+ +.+ -..+..+.++. ..-...||..|...+..+...| ....+|+|+...+.|...+.+.+.+
T Consensus 306 -k~l-~~~~~~~~~~~~~~~------------~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~~s~~~e~~l~~ 371 (655)
T COG0210 306 -KTL-RTEVEGSGEKVVLLL------------ANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNAQSRLIEEALRA 371 (655)
T ss_pred -Ccc-eeccCCCCCCceEEe------------CCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCcchHHHHHHHHH
Confidence 011 111 11111222221 2224679999999999999988 8999999999999999999999986
Q ss_pred cC
Q 004009 732 NG 733 (779)
Q Consensus 732 ~~ 733 (779)
.+
T Consensus 372 ~~ 373 (655)
T COG0210 372 AG 373 (655)
T ss_pred cC
Confidence 55
No 24
>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=99.70 E-value=6.2e-16 Score=185.82 Aligned_cols=169 Identities=23% Similarity=0.220 Sum_probs=115.0
Q ss_pred CCCCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 004009 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~ 467 (779)
..||+.|++||..++. .++++|+|+||||||+++..++..+...+ .+|++||||+.|+..|.+.. +...
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~i~~~~~~~g-~~V~~~ApTg~Aa~~L~~~~---g~~a------ 420 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEAAG-YRVIGAALSGKAAEGLQAES---GIES------ 420 (744)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHHHHHHhCC-CeEEEEeCcHHHHHHHHhcc---CCce------
Confidence 3699999999999987 58999999999999999988776655544 59999999999999987542 1110
Q ss_pred cccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCccc
Q 004009 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (779)
Q Consensus 468 sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (779)
.++|.....+.. +..
T Consensus 421 -----------~Ti~~~~~~~~~----------------------------------------------------~~~-- 435 (744)
T TIGR02768 421 -----------RTLASLEYAWAN----------------------------------------------------GRD-- 435 (744)
T ss_pred -----------eeHHHHHhhhcc----------------------------------------------------Ccc--
Confidence 122221110000 000
Q ss_pred cCCCCCEEEEEcCCCCChhhh--hhhhh-cCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCCCccEEecccc
Q 004009 548 ANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (779)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~--LipL~-~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g~~~~~L~~QY 624 (779)
.....++||||||+++..... |+-.. ....++|||||+.||||+-.+. .|..|+. ..+.+.|+..|
T Consensus 436 ~~~~~~llIvDEasMv~~~~~~~Ll~~~~~~~~kliLVGD~~QLpsVgaG~----------~f~~l~~-~~~~~~Lt~I~ 504 (744)
T TIGR02768 436 LLSDKDVLVIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAGA----------AFRAIAE-RIGYAELETIR 504 (744)
T ss_pred cCCCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECChHHccccccCc----------HHHHHHH-hhCeEEeeeEE
Confidence 013689999999999887652 22222 2456899999999999997532 4544443 35678999999
Q ss_pred CCchHHHHHHHhhhcCCcc
Q 004009 625 RMHPSLSEFPSNSFYEGTL 643 (779)
Q Consensus 625 Rmhp~I~~f~S~~FY~g~L 643 (779)
|....-..-.+..+-.|..
T Consensus 505 RQ~~~~~~~aa~~i~~G~~ 523 (744)
T TIGR02768 505 RQREAWARQASLELARGDV 523 (744)
T ss_pred ecCCHHHHHHHHHHHcCCH
Confidence 9865433444455555543
No 25
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.62 E-value=3.7e-14 Score=173.32 Aligned_cols=229 Identities=19% Similarity=0.192 Sum_probs=145.3
Q ss_pred CCCCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 004009 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~ 467 (779)
..||+.|++||..+.. .++.+|+|+|||||||++..++..+-..+ .+|+.+|||+.|+..|.+.. |+.
T Consensus 380 ~~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~G-~~V~g~ApTgkAA~~L~e~~---Gi~------- 448 (1102)
T PRK13826 380 ARLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAREAWEAAG-YRVVGGALAGKAAEGLEKEA---GIQ------- 448 (1102)
T ss_pred CCCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHHHHHHHHHHcC-CeEEEEcCcHHHHHHHHHhh---CCC-------
Confidence 3699999999998754 68999999999999999988776554444 59999999999999886542 111
Q ss_pred cccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCccc
Q 004009 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (779)
Q Consensus 468 sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (779)
-.+++.+...+.. +...+
T Consensus 449 ----------a~TIas~ll~~~~----------------------------------------------------~~~~l 466 (1102)
T PRK13826 449 ----------SRTLSSWELRWNQ----------------------------------------------------GRDQL 466 (1102)
T ss_pred ----------eeeHHHHHhhhcc----------------------------------------------------CccCC
Confidence 0123321100000 00001
Q ss_pred cCCCCCEEEEEcCCCCChhhhhhhh--h-cCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCCCccEEecccc
Q 004009 548 ANFRFRQVLIDESTQATEPECLIPL--V-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (779)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~LipL--~-~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g~~~~~L~~QY 624 (779)
..-++||||||+++........+ . ....++|||||+.||||+-.+ ..|..|.. ......|+..|
T Consensus 467 --~~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG----------~~f~~l~~-~i~~a~LteI~ 533 (1102)
T PRK13826 467 --DNKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAG----------AAFRAIAD-RIGYAELETIY 533 (1102)
T ss_pred --CCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCC----------cHHHHHHh-hcCEEEeeeee
Confidence 13579999999999887633222 2 245799999999999999643 24555554 45678999999
Q ss_pred CCchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHHHHH
Q 004009 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLR 704 (779)
Q Consensus 625 Rmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~ 704 (779)
|....-..-++..+-.|........ + . ....+.+. + . ..+.+..++.....
T Consensus 534 RQ~~~~~r~Aa~~i~~G~~~~aL~~----~------~--~~g~v~~~-----~----------~--~~e~~~~lv~~~~~ 584 (1102)
T PRK13826 534 RQREQWMRDASLDLARGNVGKALDA----Y------R--ANGRVIGS-----R----------L--KAEAVESLIADWNR 584 (1102)
T ss_pred ecCChHHHHHHHHHHcCCchhhhhH----h------h--cCCeEecc-----c----------c--HHHHHHHHHHHHhh
Confidence 9876533444566666654311100 0 0 00011110 0 0 12345556665554
Q ss_pred CCCCCCeEEEEcccHHHHHHHHHHHHHc
Q 004009 705 SGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (779)
Q Consensus 705 ~gv~~~~IgIITPY~~Qv~~L~~~L~~~ 732 (779)
..-+..++-||+|.+.-+..|...++..
T Consensus 585 ~~~~~~~~lILa~tn~~v~~LN~~iR~~ 612 (1102)
T PRK13826 585 DYDPTKTTLILAHLRRDVRMLNEMARAK 612 (1102)
T ss_pred ccCcccceEEECCchHHHHHHHHHHHHH
Confidence 3233457999999999999888777643
No 26
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.62 E-value=2.3e-14 Score=174.48 Aligned_cols=228 Identities=16% Similarity=0.110 Sum_probs=140.2
Q ss_pred CCCCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 004009 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~ 467 (779)
..||+.|++||..++. .++++|+|+|||||||++..++.. ++..+.+|+++|||+.|+..|.+.. |+.
T Consensus 345 ~~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~~~~~~-~e~~G~~V~~~ApTGkAA~~L~e~t---Gi~------- 413 (988)
T PRK13889 345 LVLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREA-WEAAGYEVRGAALSGIAAENLEGGS---GIA------- 413 (988)
T ss_pred CCCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHH-HHHcCCeEEEecCcHHHHHHHhhcc---Ccc-------
Confidence 3699999999999987 579999999999999987665544 4444459999999999998886521 110
Q ss_pred cccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCccc
Q 004009 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (779)
Q Consensus 468 sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (779)
-.+++.....+.. +..
T Consensus 414 ----------a~TI~sll~~~~~----------------------------------------------------~~~-- 429 (988)
T PRK13889 414 ----------SRTIASLEHGWGQ----------------------------------------------------GRD-- 429 (988)
T ss_pred ----------hhhHHHHHhhhcc----------------------------------------------------ccc--
Confidence 1123221100000 000
Q ss_pred cCCCCCEEEEEcCCCCChhhhhhhhh---cCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCCCccEEecccc
Q 004009 548 ANFRFRQVLIDESTQATEPECLIPLV---LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (779)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~LipL~---~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g~~~~~L~~QY 624 (779)
.-...++||||||+++......-.+. ....++|||||+.|||||-.+ ..|..|.. ..+...|+..+
T Consensus 430 ~l~~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~aG----------~~f~~L~~-~~~~a~LteI~ 498 (988)
T PRK13889 430 LLTSRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEAG----------AAFRSIHE-RHGGAEIGEVR 498 (988)
T ss_pred ccccCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCCC----------chHHHHHH-hcCeEEeceee
Confidence 01257899999999998776332221 335699999999999999432 34555443 24568999999
Q ss_pred CCchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHHHHH
Q 004009 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTFLR 704 (779)
Q Consensus 625 Rmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~Ll~ 704 (779)
|.......-.+..+..|........ +. ... .+... -+.. +.+..++.....
T Consensus 499 RQ~~~~~r~aa~~i~~G~~~~al~~----~~---------~~g-~v~~~-------------~~~e--~~~~~lv~~~~~ 549 (988)
T PRK13889 499 RQREDWQRDATRDLATGRTGEALDA----YE---------AHG-MVHAA-------------ATRE--QARADLIDRWDR 549 (988)
T ss_pred cCCCHHHHHHHHHHHcCCchhhhhh----hh---------ccC-eEecc-------------CCHH--HHHHHHHHHHHH
Confidence 9876555455566666654211100 00 000 01100 0111 222333333322
Q ss_pred C-CC-CCCeEEEEcccHHHHHHHHHHHHH
Q 004009 705 S-GV-VPSQIGVITPYEGQRAYIVNYMSR 731 (779)
Q Consensus 705 ~-gv-~~~~IgIITPY~~Qv~~L~~~L~~ 731 (779)
. .. +..++-||||.+..+..|...++.
T Consensus 550 ~r~~~~~~~~lVLaptn~~v~~LN~~iR~ 578 (988)
T PRK13889 550 DRQAAPDRSRIILTHTNDEVRALNEAARE 578 (988)
T ss_pred hhccCCcccEEEEcCCcccHHHHHHHHHH
Confidence 1 22 236899999999999888777665
No 27
>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=99.60 E-value=4.3e-14 Score=176.60 Aligned_cols=173 Identities=17% Similarity=0.184 Sum_probs=102.9
Q ss_pred CCCCEEEEEcCCCCChhh--hhhhhhcCCC--eEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCCCccEEeccccC
Q 004009 550 FRFRQVLIDESTQATEPE--CLIPLVLGAK--QVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYR 625 (779)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe--~LipL~~~~~--~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g~~~~~L~~QYR 625 (779)
.+|++|+|||+|+++..+ ++-.+..+.. .+++|||++| .|++...+ ....|-++.......+.|.+|||
T Consensus 295 ~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQ---SIY~FRGA----D~~~~~~~~~~~~~~~~L~~NyR 367 (1087)
T TIGR00609 295 EQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQ---AIYSFRGA----DIFTYLQAKSKADARYTLGTNWR 367 (1087)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCcc---ccccCCCC----CHHHHHHHHHhcCcEEECCCCCC
Confidence 489999999999999887 3333332333 7999999999 45443222 23344444332235689999999
Q ss_pred CchHHHHHHHhhhcCCcccc--cC---cccc-ccCCCCCCCCC-CCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHH
Q 004009 626 MHPSLSEFPSNSFYEGTLQN--GV---TINE-RQSSGIDFPWP-VPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKI 698 (779)
Q Consensus 626 mhp~I~~f~S~~FY~g~L~~--~~---s~~~-r~~~~~~~~~p-~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~i 698 (779)
++|.|.++.|.+|-...-.. +. .+.. +.........+ ....++.++....... +..-.-..+|+.+.+.
T Consensus 368 S~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~~----~~~~~~~~~a~~~a~~ 443 (1087)
T TIGR00609 368 STPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVESE----GVDDYRQTIAQKCARE 443 (1087)
T ss_pred CcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCccc----ccchHHHHHHHHHHHH
Confidence 99999999999985421110 00 0000 00000000000 1123555554322111 0001123456667776
Q ss_pred HHHHHHC---------------CCCCCeEEEEcccHHHHHHHHHHHHHcC
Q 004009 699 VTTFLRS---------------GVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (779)
Q Consensus 699 V~~Ll~~---------------gv~~~~IgIITPY~~Qv~~L~~~L~~~~ 733 (779)
+.+++.. ++++++|+||++.+.|...|++.|.+.+
T Consensus 444 I~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~~~G 493 (1087)
T TIGR00609 444 IALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALKKAQ 493 (1087)
T ss_pred HHHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHHHCC
Confidence 6666643 4678999999999999999999998765
No 28
>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=99.58 E-value=1.1e-13 Score=174.83 Aligned_cols=178 Identities=20% Similarity=0.263 Sum_probs=105.4
Q ss_pred CCCCEEEEEcCCCCChhh-hhhhhhcC----CCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHC----C---Ccc
Q 004009 550 FRFRQVLIDESTQATEPE-CLIPLVLG----AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL----G---LKP 617 (779)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe-~LipL~~~----~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~----g---~~~ 617 (779)
.+|++|+|||+|+++..+ .++.+..+ ..++++|||++| .|++...+ ..++|.++... + ...
T Consensus 387 ~rf~~ILVDEfQDTn~lQ~~Il~~L~~~~~~~~nLf~VGD~KQ---SIY~FRGA----dp~lf~~~~~~f~~~~~~~~~~ 459 (1232)
T TIGR02785 387 EKFKEVLVDEYQDTNLLQESILQLLKRGEEDEGNLFMVGDVKQ---SIYRFRQA----DPSLFLEKYHRFAQEGNEHGKR 459 (1232)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHhccCCCCCeEEEEcCCcc---hhhhhcCC----ChHHHHHHHHHhhhhccCCceE
Confidence 489999999999999888 33333332 368999999999 55443332 34455443321 1 346
Q ss_pred EEeccccCCchHHHHHHHhhhcCCc--ccccCc--cccccCCC-CCCCCCC-CCCCeEEEEeCCcceeccCC------CC
Q 004009 618 IRLQVQYRMHPSLSEFPSNSFYEGT--LQNGVT--INERQSSG-IDFPWPV-PNRPMFFYVQMGQEEISASG------TS 685 (779)
Q Consensus 618 ~~L~~QYRmhp~I~~f~S~~FY~g~--L~~~~s--~~~r~~~~-~~~~~p~-~~~P~~f~~~~g~ee~~~~~------~S 685 (779)
+.|.+|||+++.|.++.|.+|..-. -..... ...+...+ ..++-.. ....+.++...........+ ..
T Consensus 460 i~L~~NfRS~~~Il~~~N~lF~~~~~~~~~~i~Y~~~~~l~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~ 539 (1232)
T TIGR02785 460 IDLAENFRSRKEVLDTTNYLFKQLMDEEVGEIDYDEEAQLKFGNAKYPENPDNKTELLLYEKLAIEEEEEEEIDEEEEIL 539 (1232)
T ss_pred EECCcCCCCcHHHHHHHHHHHHHhccccccCcCcchhhhhccccccCCCCCCCCceeEEeeccccccccccccccccccc
Confidence 7899999999999999999995411 000000 00000000 0111000 11111222111000000000 00
Q ss_pred CCCHHHHHHHHHHHHHHHHCC-------------CCCCeEEEEcccHHHHHHHHHHHHHcCC
Q 004009 686 YLNRTEAANVEKIVTTFLRSG-------------VVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (779)
Q Consensus 686 ~~N~~EA~~V~~iV~~Ll~~g-------------v~~~~IgIITPY~~Qv~~L~~~L~~~~~ 734 (779)
-....||..|.+.|.+|+..| +++++|+||++.+.+...|.+.|...+.
T Consensus 540 ~~~~~EA~~IA~~I~~l~~~g~~v~d~~~~~~r~~~~~DIAIL~Rs~~~~~~i~~aL~~~GI 601 (1232)
T TIGR02785 540 DKAQQEATMVAERIKALIKEGFKVYDKKTGEYRPVTYRDIVILTRSRGWNLQIMEEFKKYGI 601 (1232)
T ss_pred chhHHHHHHHHHHHHHHHhcCCccccccccccCCCCcCCEEEEEeccccHHHHHHHHHHcCC
Confidence 112568999999999998764 5788999999999999999999987653
No 29
>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=99.56 E-value=4.3e-15 Score=159.99 Aligned_cols=65 Identities=25% Similarity=0.318 Sum_probs=56.6
Q ss_pred CCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhC---CCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG---QGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~---~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
||++|.++|.. ..+..+|.|+||||||+|+++++.+|+..+ ..+||++|+||.|+++|.+||...
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~ 68 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIREL 68 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHh
Confidence 78999999988 588999999999999999999999988864 568999999999999999999763
No 30
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.50 E-value=7.6e-13 Score=168.09 Aligned_cols=264 Identities=17% Similarity=0.219 Sum_probs=157.2
Q ss_pred CCCCHHHHHHHHHhhc--CCeEEEEcCCCChHHHHHHHHHHHHHH---hCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 004009 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAK---QGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L~~---~~~~rILV~ApSN~AVD~L~erL~~~~l~vvR 463 (779)
..||+.|++||..++. .++++|+|+||||||+++..++..+.. ....+|+.+|||+.|+..|.+ .|++
T Consensus 966 ~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e----~Gi~--- 1038 (1747)
T PRK13709 966 EGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS----AGVD--- 1038 (1747)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh----cCcc---
Confidence 4699999999999997 469999999999999999887766532 234579999999999998764 2221
Q ss_pred eccccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccC
Q 004009 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (779)
Q Consensus 464 l~~~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~ 543 (779)
-.++|..+..... ....+
T Consensus 1039 --------------A~TI~s~L~~~~~------------------------------------------------~~~~~ 1056 (1747)
T PRK13709 1039 --------------AQTLASFLHDTQL------------------------------------------------QQRSG 1056 (1747)
T ss_pred --------------hhhHHHHhccccc------------------------------------------------ccccc
Confidence 1234433221100 00000
Q ss_pred CccccCCCCCEEEEEcCCCCChhhhhhhh--h-cCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHC-CCccEE
Q 004009 544 DPRLANFRFRQVLIDESTQATEPECLIPL--V-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (779)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQatEpe~LipL--~-~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~-g~~~~~ 619 (779)
.......+++|||||+++......-.+ . ....++|||||..||||+-.+ ..|..|+.. +++...
T Consensus 1057 --~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~aG----------~~f~~l~~~~~i~~~~ 1124 (1747)
T PRK13709 1057 --ETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPG----------QPFRLMQTRSAADVAI 1124 (1747)
T ss_pred --cCCCCCCcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCCCC----------hHHHHHHHhCCCCeEE
Confidence 001124689999999999876633222 2 234689999999999999532 567778764 577889
Q ss_pred eccccCCchHHHHHHHhhhcCCcccccCcccccc----CCCCCCCCCCCCCCeEEEEeCCccee---ccCCCCCCCHHHH
Q 004009 620 LQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQ----SSGIDFPWPVPNRPMFFYVQMGQEEI---SASGTSYLNRTEA 692 (779)
Q Consensus 620 L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~----~~~~~~~~p~~~~P~~f~~~~g~ee~---~~~~~S~~N~~EA 692 (779)
|+..+|-.+.+- -+...+..|........-+.. ...-.-.|.. +.-+........+.. ...++-.+.....
T Consensus 1125 L~eI~RQ~~~lr-~Av~~~~~g~~~~al~~L~~~~~~~~~r~~~~~~~-~~~v~e~~~~~~~~~~~~~~~~~~~~~~~~~ 1202 (1747)
T PRK13709 1125 MKEIVRQTPELR-EAVYSLINRDVERALSGIESVKPSQVPRQEGAWAP-ESSVTEFSHPQEAKLAEAQQKAMLAFPDVPM 1202 (1747)
T ss_pred eCeEEcCcHHHH-HHHHHHHccCHHHHHHHHHhccccccccccccccc-ccceeecccchhhhhhhhhhccccccccchh
Confidence 999999998444 445566666443221111100 0000012321 112222111100000 0112222233334
Q ss_pred HHHHHHHHHHHHC-CCCCCeEEEEcccHHHHHHHHHHH----HHcCCc
Q 004009 693 ANVEKIVTTFLRS-GVVPSQIGVITPYEGQRAYIVNYM----SRNGAL 735 (779)
Q Consensus 693 ~~V~~iV~~Ll~~-gv~~~~IgIITPY~~Qv~~L~~~L----~~~~~~ 735 (779)
+.+..++...+.. --...+-.||+|.++-+..|...+ +..|.+
T Consensus 1203 ~~~~~ia~dYl~lt~e~R~~TLIia~tn~~R~aIN~~IR~~L~~~G~L 1250 (1747)
T PRK13709 1203 TLYEAIVRDYTGRTPEAREQTLIITHLNEDRRVLNSMIHDAREKAGEL 1250 (1747)
T ss_pred HHHHHHHHHHHhcChhhcCceEEEecchHHHHHHHHHHHHHHHHcCCC
Confidence 5666777777653 223467899999999998776655 445554
No 31
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.50 E-value=7.5e-13 Score=166.11 Aligned_cols=172 Identities=22% Similarity=0.285 Sum_probs=119.5
Q ss_pred CCCCHHHHHHHHHhhc--CCeEEEEcCCCChHHHHHHHHHHHH---HHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 004009 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHM---AKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L---~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvR 463 (779)
..||+.|++||..+|. .++++|+|+||||||+++..++..+ .+....+|+.+|||+.|+..|.+. |++
T Consensus 834 ~~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e~----Gi~--- 906 (1623)
T PRK14712 834 EKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSA----GVD--- 906 (1623)
T ss_pred cccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHHHh----Cch---
Confidence 3799999999999995 4899999999999999987766543 233455899999999999998642 211
Q ss_pred eccccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccC
Q 004009 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (779)
Q Consensus 464 l~~~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~ 543 (779)
-.++|..+..... . ...+
T Consensus 907 --------------A~TIasfL~~~~~---------~---------------------------------------~~~~ 924 (1623)
T PRK14712 907 --------------AQTLASFLHDTQL---------Q---------------------------------------QRSG 924 (1623)
T ss_pred --------------HhhHHHHhccccc---------h---------------------------------------hhcc
Confidence 1233333221100 0 0000
Q ss_pred CccccCCCCCEEEEEcCCCCChhhh--hhhhh-cCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHC-CCccEE
Q 004009 544 DPRLANFRFRQVLIDESTQATEPEC--LIPLV-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLKPIR 619 (779)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQatEpe~--LipL~-~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~-g~~~~~ 619 (779)
. ......+++|||||+++..... ++-+. ....++|||||+.||+|+-. .+.|+.|+.. +.+...
T Consensus 925 ~--~~~~~~~llIVDEASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~a----------G~~F~~lq~~~~~~ta~ 992 (1623)
T PRK14712 925 E--TPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAP----------GQPFRLQQTRSAADVVI 992 (1623)
T ss_pred c--CCCCCCcEEEEEccccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCCC----------CHHHHHHHHcCCCCeEE
Confidence 0 0012468999999999988663 22222 23468999999999999953 3578888876 578889
Q ss_pred eccccCCchHHHHHHHhhhcCCc
Q 004009 620 LQVQYRMHPSLSEFPSNSFYEGT 642 (779)
Q Consensus 620 L~~QYRmhp~I~~f~S~~FY~g~ 642 (779)
|+..+|-.+.+...+... .+|.
T Consensus 993 L~eI~RQ~~elr~AV~~~-~~g~ 1014 (1623)
T PRK14712 993 MKEIVRQTPELREAVYSL-INRD 1014 (1623)
T ss_pred eCeeecCCHHHHHHHHHH-HcCC
Confidence 999999999887776443 3443
No 32
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.44 E-value=1.2e-11 Score=155.53 Aligned_cols=174 Identities=17% Similarity=0.224 Sum_probs=104.4
Q ss_pred CCCCEEEEEcCCCCChhh--hhhhhhcC--CCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCCCccEEeccccC
Q 004009 550 FRFRQVLIDESTQATEPE--CLIPLVLG--AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYR 625 (779)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe--~LipL~~~--~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g~~~~~L~~QYR 625 (779)
.+|++|+|||+|+++..+ ++..|... ...+++|||++| .|++...+ ....|-.........+.|.+|||
T Consensus 376 ~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQ---sIY~FRGA----d~~~~l~~~~~~~~~~~L~~NyR 448 (1181)
T PRK10876 376 TRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQ---AIYAFRGA----DIFTYMKARSEVSAHYTLDTNWR 448 (1181)
T ss_pred hCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCcc---ccccCCCC----CchHHHHHHhccCCeeECCCCcC
Confidence 389999999999999887 33334321 347999999999 55543221 11112122222234578999999
Q ss_pred CchHHHHHHHhhhcCCccc---ccCc---ccc-ccCCCCCCCCC-CCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHH
Q 004009 626 MHPSLSEFPSNSFYEGTLQ---NGVT---INE-RQSSGIDFPWP-VPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEK 697 (779)
Q Consensus 626 mhp~I~~f~S~~FY~g~L~---~~~s---~~~-r~~~~~~~~~p-~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~ 697 (779)
+++.|++++|.+|-...-. .+.. +.. .......+... ....|+.++...+... ........||+.|.+
T Consensus 449 S~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~eA~~iA~ 524 (1181)
T PRK10876 449 SAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLMEGEGV----GVGDYQQTMAQQCAA 524 (1181)
T ss_pred cCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeecCCCcc----CcchHHHHHHHHHHH
Confidence 9999999999999653210 0000 000 00000000000 1112344443332111 112233567888888
Q ss_pred HHHHHHHCC---------------CCCCeEEEEcccHHHHHHHHHHHHHcCC
Q 004009 698 IVTTFLRSG---------------VVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (779)
Q Consensus 698 iV~~Ll~~g---------------v~~~~IgIITPY~~Qv~~L~~~L~~~~~ 734 (779)
.|.+|+..| +++++|+||++.+.|...|++.|.+.+.
T Consensus 525 ~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~~~gI 576 (1181)
T PRK10876 525 QIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALTLLAI 576 (1181)
T ss_pred HHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHHhCCC
Confidence 888887543 5678999999999999999999988763
No 33
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.44 E-value=1.7e-12 Score=159.92 Aligned_cols=157 Identities=18% Similarity=0.252 Sum_probs=104.7
Q ss_pred CCCCCEEEEEcCCCCChhh--hhhhhhc----C-----CCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHC-CCc
Q 004009 549 NFRFRQVLIDESTQATEPE--CLIPLVL----G-----AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL-GLK 616 (779)
Q Consensus 549 ~~~Fd~VIIDEAsQatEpe--~LipL~~----~-----~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~-g~~ 616 (779)
..+|++|+|||+|+++..+ .+.+|.. + ...+++|||++| .|++.. |-...+|.++... +..
T Consensus 326 ~~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQ---SIY~FR----GA~~~~f~~~~~~~~~~ 398 (910)
T PRK13909 326 DSKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQ---SIYRFR----GGKKELFDKVSKDFKQK 398 (910)
T ss_pred hcCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchh---hhhhhc----CCChHHHHHHHHHhhhh
Confidence 3489999999999999887 3444431 1 357999999999 343321 2234577776542 124
Q ss_pred cEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHH
Q 004009 617 PIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVE 696 (779)
Q Consensus 617 ~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~ 696 (779)
.+.|.+||||+|.|.+|.|..|-... .. ...... +-...+..+.++.. .. ....+++.|+
T Consensus 399 ~~~L~~NyRS~~~Iv~~~N~~f~~~~-~~-~~~~~~-------~~~~~~g~v~i~~~-~~----------~~~~~a~~ia 458 (910)
T PRK13909 399 VDNLDTNYRSAPLIVDFVNEVFKKKY-KN-YKTQYA-------EQHKSGGYVEVVEV-AD----------ESEELLEQLL 458 (910)
T ss_pred hcccccCCCCChHHHHHHHHHHHHHH-Hh-hhhhhc-------ccccCCCcEEEEEC-CC----------ccHHHHHHHH
Confidence 57899999999999999999984311 00 000000 00001112222221 10 1234678899
Q ss_pred HHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHc
Q 004009 697 KIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRN 732 (779)
Q Consensus 697 ~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~ 732 (779)
+.+..+++.|+++++|+||++.+.|...|.+.|...
T Consensus 459 ~~I~~l~~~g~~~~dIaILvR~~~~~~~l~~~L~~~ 494 (910)
T PRK13909 459 QEIQFLLEKGIDPDDIAILCWTNDDALEIKEFLQEQ 494 (910)
T ss_pred HHHHHHHHcCCCcCCEEEEEecCccHHHHHHHHHhc
Confidence 999999999999999999999999999999988877
No 34
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.43 E-value=2.1e-12 Score=161.92 Aligned_cols=175 Identities=20% Similarity=0.261 Sum_probs=109.3
Q ss_pred CCCCEEEEEcCCCCChhh--hhhhhhcC----CCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHH--CCCccEEec
Q 004009 550 FRFRQVLIDESTQATEPE--CLIPLVLG----AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL--LGLKPIRLQ 621 (779)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe--~LipL~~~----~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~--~g~~~~~L~ 621 (779)
.+|++|+|||+|+++..+ ++-.+..+ ...++||||+|| .|++. .|-...+|..... .....+.|.
T Consensus 377 ~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQ---SIY~F----RgAD~~~f~~a~~~~~~~~~~~L~ 449 (1139)
T COG1074 377 EQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQ---SIYRF----RGADIFTFLEAASSEKAFARITLE 449 (1139)
T ss_pred hcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchH---Hhhhh----cCCChHHHHHHhhccccCceeecc
Confidence 489999999998888777 33334333 248999999999 33322 2334567777666 456788999
Q ss_pred cccCCchHHHHHHHhhhcC------CcccccCcccc--c-cCCCCCCCCCCCCCCeEEEEeCC--cceeccCCCCCCCHH
Q 004009 622 VQYRMHPSLSEFPSNSFYE------GTLQNGVTINE--R-QSSGIDFPWPVPNRPMFFYVQMG--QEEISASGTSYLNRT 690 (779)
Q Consensus 622 ~QYRmhp~I~~f~S~~FY~------g~L~~~~s~~~--r-~~~~~~~~~p~~~~P~~f~~~~g--~ee~~~~~~S~~N~~ 690 (779)
+|||+.+.|+++.|.+|-. +.....+.... + .......+|+. ....++.... ...............
T Consensus 450 ~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~e~~~~~~~~~~~~~~~~~~ 527 (1139)
T COG1074 450 TNYRSTPELLNAVNALFKQAMFAYPGEIDYDPVAELGARNGSPGSVNGEPL--PALKFWEEEDDWTAPENEEDEREIADL 527 (1139)
T ss_pred cccCCcHHHHHHHHHHHhhhhhhcCCCCCCchhhhhhcccCCCCCCCcccc--hhhhhhcCcccccCCCCchhHHHHHHH
Confidence 9999999999999999853 12211111000 0 01111112221 1112221110 000000011344566
Q ss_pred HHHHHHHHHHHHHH--------CCCCCCeEEEEcccHHHHHHHHHHHHHcC
Q 004009 691 EAANVEKIVTTFLR--------SGVVPSQIGVITPYEGQRAYIVNYMSRNG 733 (779)
Q Consensus 691 EA~~V~~iV~~Ll~--------~gv~~~~IgIITPY~~Qv~~L~~~L~~~~ 733 (779)
||..|...+..+.. ..+.+.||+||++-+.+...|++.|+..+
T Consensus 528 ~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~~~~ 578 (1139)
T COG1074 528 EARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALKKAG 578 (1139)
T ss_pred HHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHHhcC
Confidence 77888888888875 34888999999999999999999998873
No 35
>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=99.33 E-value=2.4e-11 Score=158.36 Aligned_cols=170 Identities=22% Similarity=0.259 Sum_probs=113.9
Q ss_pred CCCCHHHHHHHHHhhc--CCeEEEEcCCCChHHHHHHHHHH---HHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 004009 389 PELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVY---HMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~---~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvR 463 (779)
..||+.|+.|+..++. ..+++|+|+||||||+++.+++. .+.+..+.+|+.+|||+.|+.+|.+ .|++
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~~----~g~~--- 1090 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELKS----AGVQ--- 1090 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHh----cCCc---
Confidence 4699999999999886 46899999999999999965443 3344455689999999999999864 2221
Q ss_pred eccccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccC
Q 004009 464 LCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAG 543 (779)
Q Consensus 464 l~~~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~ 543 (779)
-.+++..+..... ...
T Consensus 1091 --------------a~Ti~s~l~~~~~--------------------------------------------------~~~ 1106 (1960)
T TIGR02760 1091 --------------AQTLDSFLTDISL--------------------------------------------------YRN 1106 (1960)
T ss_pred --------------hHhHHHHhcCccc--------------------------------------------------ccc
Confidence 1133322211000 000
Q ss_pred CccccCCCCCEEEEEcCCCCChhhhhhhh--h-cCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCC-CccEE
Q 004009 544 DPRLANFRFRQVLIDESTQATEPECLIPL--V-LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLG-LKPIR 619 (779)
Q Consensus 544 ~~~L~~~~Fd~VIIDEAsQatEpe~LipL--~-~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g-~~~~~ 619 (779)
.. ...+.+++|||||+++...+..-.+ . ....++|||||++||+|+-.+ ..|+-++..+ ++.+.
T Consensus 1107 ~~--~~~~~~v~ivDEasMv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~aG----------~~f~~~~~~~~~~~~~ 1174 (1960)
T TIGR02760 1107 SG--GDFRNTLFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLAAG----------KPFELAITFDIIDTAI 1174 (1960)
T ss_pred cC--CCCcccEEEEEccccccHHHHHHHHHhccCCCCEEEEeCChhhcCCCCCC----------cCHHHHHhcCCCCeEE
Confidence 00 0125689999999999887633322 2 234789999999999997432 3466666555 77889
Q ss_pred eccccCCc--hHHHHHHHhhhcCCc
Q 004009 620 LQVQYRMH--PSLSEFPSNSFYEGT 642 (779)
Q Consensus 620 L~~QYRmh--p~I~~f~S~~FY~g~ 642 (779)
|+..+|-. |.+-+ +...+-.|.
T Consensus 1175 L~~I~RQ~~~~~l~~-a~~~~~~~~ 1198 (1960)
T TIGR02760 1175 MKEIVRQNNSAELKA-AHNSLDKRS 1198 (1960)
T ss_pred eeeEecCCCCHHHHH-HHHHHhcCc
Confidence 99999984 55544 445554554
No 36
>PF13245 AAA_19: Part of AAA domain
Probab=99.32 E-value=3.4e-12 Score=110.19 Aligned_cols=58 Identities=43% Similarity=0.644 Sum_probs=51.2
Q ss_pred HHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHh---CCCcEEEEcCcHHHHHHHHHHH
Q 004009 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKI 454 (779)
Q Consensus 397 ~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL 454 (779)
+||..++. +++++|+||||||||+|++.++..++.. +.++||+++|||.|+|+|.+|+
T Consensus 1 ~av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 1 EAVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CHHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 36776776 8899999999999999999999999864 2459999999999999999999
No 37
>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=99.31 E-value=6.8e-11 Score=154.20 Aligned_cols=165 Identities=18% Similarity=0.204 Sum_probs=109.9
Q ss_pred CCCHHHHHHHHHhhcC--CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccc
Q 004009 390 ELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAK 467 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~ 467 (779)
.||+.|++||..++.. .+.+|+|+||||||+++..++..+-..+ .+|.++|||..|+..|.+.+...
T Consensus 429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~~~~~~~G-~~V~~lAPTgrAA~~L~e~~g~~---------- 497 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLLHLASEQG-YEIQIITAGSLSAQELRQKIPRL---------- 497 (1960)
T ss_pred CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHHHHHHhcC-CeEEEEeCCHHHHHHHHHHhcch----------
Confidence 6999999999999874 7999999999999999998886554444 59999999999999998764211
Q ss_pred cccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCccc
Q 004009 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (779)
Q Consensus 468 sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (779)
-.+++.++..+.... ....+. ..+ . ....+
T Consensus 498 ----------A~Ti~~~l~~l~~~~--~~~tv~--------------------------~fl-~-----------~~~~l 527 (1960)
T TIGR02760 498 ----------ASTFITWVKNLFNDD--QDHTVQ--------------------------GLL-D-----------KSSPF 527 (1960)
T ss_pred ----------hhhHHHHHHhhcccc--cchhHH--------------------------Hhh-c-----------ccCCC
Confidence 113343333211100 000000 000 0 00001
Q ss_pred cCCCCCEEEEEcCCCCChhhhhhhhh---cCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCCCccEEecccc
Q 004009 548 ANFRFRQVLIDESTQATEPECLIPLV---LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQY 624 (779)
Q Consensus 548 ~~~~Fd~VIIDEAsQatEpe~LipL~---~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g~~~~~L~~QY 624 (779)
..-++||||||+++...+..-.+. ....++|||||+.||+++-.+ ..|.-|...|.+.++|...-
T Consensus 528 --~~~~vlIVDEAsMl~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~aG----------~~f~~L~~~gv~t~~l~~i~ 595 (1960)
T TIGR02760 528 --SNKDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMSAG----------SAIDLLKEGGVTTYAWVDTK 595 (1960)
T ss_pred --CCCCEEEEECCCCCCHHHHHHHHHHHhhcCCEEEEEcChhhcCccccc----------hHHHHHHHCCCcEEEeeccc
Confidence 256899999999999887443332 235799999999999998532 35666666777777776654
Q ss_pred CCc
Q 004009 625 RMH 627 (779)
Q Consensus 625 Rmh 627 (779)
|..
T Consensus 596 rq~ 598 (1960)
T TIGR02760 596 QQK 598 (1960)
T ss_pred ccC
Confidence 433
No 38
>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=99.28 E-value=2.7e-11 Score=134.44 Aligned_cols=165 Identities=19% Similarity=0.271 Sum_probs=104.5
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH--HHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEeccccccccCCccchhhHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM--AKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKSREAVSSPVEHLTLHY 483 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L--~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~sre~i~~~~~~l~l~~ 483 (779)
.+++|+|.||||||.++..++..+ ... ..++++++++..-++.+.+.+.+... .... ..
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~-~~~~~~l~~n~~l~~~l~~~l~~~~~-----~~~~-------------~~ 62 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEE-GKKVLYLCGNHPLRNKLREQLAKKYN-----PKLK-------------KS 62 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhcccc-CCceEEEEecchHHHHHHHHHhhhcc-----cchh-------------hh
Confidence 468999999999999999999988 443 44888888988888888877754310 0000 00
Q ss_pred HHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCccccCCCCCEEEEEcCCCC
Q 004009 484 QVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLANFRFRQVLIDESTQA 563 (779)
Q Consensus 484 ~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~~~~Fd~VIIDEAsQa 563 (779)
. ..... . .+.... ........||+||||||+.+
T Consensus 63 ~-----------~~~~~------------------~--------~i~~~~----------~~~~~~~~~DviivDEAqrl 95 (352)
T PF09848_consen 63 D-----------FRKPT------------------S--------FINNYS----------ESDKEKNKYDVIIVDEAQRL 95 (352)
T ss_pred h-----------hhhhH------------------H--------HHhhcc----------cccccCCcCCEEEEehhHhh
Confidence 0 00000 0 000000 11122348999999999998
Q ss_pred Ch----------hhhhhhhhcCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHH-CCCc--c-EEeccccCC--c
Q 004009 564 TE----------PECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL-LGLK--P-IRLQVQYRM--H 627 (779)
Q Consensus 564 tE----------pe~LipL~~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~-~g~~--~-~~L~~QYRm--h 627 (779)
.. ...|.-+...++.+|++-|+.| ++..... .....++.+.. .+.. . +.|..|||| .
T Consensus 96 ~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q---~i~~~e~----~~~~~l~~~~~~~~~~~~~~~~L~~q~R~~~~ 168 (352)
T PF09848_consen 96 RTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQ---SIRPSEI----GTLENLEEIAENLGIEVRHFFELKTQFRCHGS 168 (352)
T ss_pred hhccccccccccHHHHHHHHhcCCEEEEEEcccc---EeecccC----CCHHHHHHHHHhcCCccccCcCcCcceecCCC
Confidence 87 2345555555788999999999 4432211 11233444433 3332 2 389999999 8
Q ss_pred hHHHHHHHhhhcCCcc
Q 004009 628 PSLSEFPSNSFYEGTL 643 (779)
Q Consensus 628 p~I~~f~S~~FY~g~L 643 (779)
+++.+|+.++++....
T Consensus 169 ~~~~~wI~~ll~~~~~ 184 (352)
T PF09848_consen 169 KEYIDWIDNLLDNKNI 184 (352)
T ss_pred HHHHHHHHHHHhcccc
Confidence 9999999999977543
No 39
>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=99.27 E-value=3.7e-12 Score=141.87 Aligned_cols=60 Identities=30% Similarity=0.440 Sum_probs=50.9
Q ss_pred CCCHHHHHHHHHhh------cCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHH
Q 004009 390 ELNASQVFAVKSVL------QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQL 450 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL------~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L 450 (779)
.||++|++++..++ ......|.||+|||||+++.+++..+... +..|++||+|..|+-++
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~-~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSR-GKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccc-cceEEEecchHHHHHhc
Confidence 48999999988873 34577899999999999999988776543 45899999999999887
No 40
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.26 E-value=5.3e-10 Score=126.23 Aligned_cols=175 Identities=21% Similarity=0.287 Sum_probs=117.8
Q ss_pred CCCCEEEEEcCCCCChhhhhhhhh--cCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHH----CCCccEEeccc
Q 004009 550 FRFRQVLIDESTQATEPECLIPLV--LGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL----LGLKPIRLQVQ 623 (779)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe~LipL~--~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~----~g~~~~~L~~Q 623 (779)
.++.++|||||++.+..+ +..+. ..+...-.+||-.| +++.... ..+.++|+.. ..+..+.|..+
T Consensus 527 ~~~kh~vIDeaqdys~~q-~~~~r~l~~~as~tivgd~gq---~i~~~~~-----e~~~~e~~~~~fed~~~e~v~l~~s 597 (747)
T COG3973 527 RRLKHTVIDEAQDYSRFQ-FTDNRTLAERASMTIVGDYGQ---VIYDEAQ-----ELSPMERMDVFFEDPSFEYVGLIAS 597 (747)
T ss_pred ccccceeechhhhcchhh-hHHHhhhhhhccceEeccCCc---eehhhhc-----ccCHHHHHHHHHhCCCchhhhhhhh
Confidence 468999999999998877 33322 23567889999999 4432211 1233444432 22455789999
Q ss_pred cCCchHHHHHHHhhhcCCcccccCccccccCCCCCCCC-CCCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHHH
Q 004009 624 YRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW-PVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTTF 702 (779)
Q Consensus 624 YRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~-p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~L 702 (779)
||+..+|.+|++.+.-++ ... .|. .+.+.|...- +..|..=.+.+..++.+|
T Consensus 598 yrSt~eI~efan~~l~d~-----~~~---------~p~~rsge~p~~i~-------------~~~ne~l~qr~~~ii~~m 650 (747)
T COG3973 598 YRSTAEIDEFANSLLPDR-----FRI---------HPLTRSGEKPAVIM-------------SVANEELVQRNPDIIPRM 650 (747)
T ss_pred hcChHHHHHHHHHhccCC-----Ccc---------chhhcCCCCceeee-------------ccchHHHHHhhHHHHHHH
Confidence 999999999998876421 000 010 1234454432 223444456777888888
Q ss_pred HHCCCCCCeEEEEcccHHHHHHHHHHHHHcCCcc------cccCCCeEEccCCCCCCCcCCEEEEE
Q 004009 703 LRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALR------QQLYKEIEVASVDSFQGREKDYIILS 762 (779)
Q Consensus 703 l~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~~~------~~~~~~V~V~TVD~FQGrEkDvIIlS 762 (779)
.+.|. +.||||++...|+.++...|+.....+ +.......|--|+-.+|.|+|.||+-
T Consensus 651 kk~~~--etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~ 714 (747)
T COG3973 651 KKRGS--ETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVV 714 (747)
T ss_pred HhcCC--CceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEe
Confidence 87764 789999999999999999987654332 22345678999999999999998873
No 41
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=99.05 E-value=2.1e-10 Score=119.08 Aligned_cols=79 Identities=19% Similarity=0.171 Sum_probs=49.6
Q ss_pred CCCEEEEEcCCCCChhhhhhhh-hcCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHCCCccEEeccccCCchH
Q 004009 551 RFRQVLIDESTQATEPECLIPL-VLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLLGLKPIRLQVQYRMHPS 629 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe~LipL-~~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~g~~~~~L~~QYRmhp~ 629 (779)
.++++||||+++...-.++..+ ...++.++++||+.|.+..-.........+... ......+.+.||+...
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~r~~~~ 133 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFLLPHFISD--------ISHRFGKRTSYRCPSD 133 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccceecccccc--------eeeeecceeEeecccc
Confidence 6999999999888754433322 235679999999999776543221111111111 1223457788998888
Q ss_pred HHHHHHhh
Q 004009 630 LSEFPSNS 637 (779)
Q Consensus 630 I~~f~S~~ 637 (779)
+..+.+..
T Consensus 134 ~~~~~~~~ 141 (234)
T PF01443_consen 134 RFDIISAL 141 (234)
T ss_pred cceeeecc
Confidence 88776665
No 42
>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=99.01 E-value=8.3e-10 Score=112.81 Aligned_cols=55 Identities=29% Similarity=0.603 Sum_probs=40.9
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCC-CcEEEEcCc
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCAPS 443 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~-~rILV~ApS 443 (779)
..+|..|..++...+..+++.+.||+|||||..+.+...+++..+. .+|+++-|.
T Consensus 3 ~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~ 58 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPP 58 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence 3579999999999999999999999999999999998888887754 355555443
No 43
>PRK10536 hypothetical protein; Provisional
Probab=98.91 E-value=1e-08 Score=107.78 Aligned_cols=64 Identities=19% Similarity=0.226 Sum_probs=47.5
Q ss_pred CCCCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHH
Q 004009 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQ 449 (779)
Q Consensus 386 ~~~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~ 449 (779)
.....+|..|..++..+...+++++.||+|||||+++..+..+.+..+.-+.++++.++..+++
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge 118 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADE 118 (262)
T ss_pred ccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchh
Confidence 3456789999999998888889999999999999999888886554443344444454444433
No 44
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=98.90 E-value=2.6e-08 Score=110.38 Aligned_cols=335 Identities=15% Similarity=0.131 Sum_probs=169.8
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHH-HhCCCcEEEEcCcHHHHHHHHHHHHhc----------
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVCAPSNVAVDQLAEKISAT---------- 457 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~-~~~~~rILV~ApSN~AVD~L~erL~~~---------- 457 (779)
.+|+..|++|+-..- .+.-.|+|=.|+|||.+++..+++|. +++..||+++.+|..-...+..++.+.
T Consensus 161 anfD~~Q~kaa~~~~-~G~qrIrGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~f~~~e~~pd 239 (660)
T COG3972 161 ANFDTDQTKAAFQSG-FGKQRIRGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEFFFMRVEKQPD 239 (660)
T ss_pred hcccchhheeeeecC-CchhhhhcccCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHHHHHhhcCCC
Confidence 468888988754332 34458999999999999999888875 457889999999999988888777553
Q ss_pred -CCeEEEeccccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccce
Q 004009 458 -GLKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVIC 536 (779)
Q Consensus 458 -~l~vvRl~~~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~ 536 (779)
+...++.+..... ++- +.+....+... ++. .++...-. +.... ++++..++-
T Consensus 240 W~~~l~~h~wgG~t---~~g-~y~~~~~~~~~--------------~~~--~fsg~g~~-F~~aC----~eli~~~~~-- 292 (660)
T COG3972 240 WGTKLFCHNWGGLT---KEG-FYGMYRYICHY--------------YEI--PFSGFGNG-FDAAC----KELIADINN-- 292 (660)
T ss_pred ccceEEEeccCCCC---CCc-chHHHHHHhcc--------------ccc--ccCCCCcc-hHHHH----HHHHHhhhc--
Confidence 1223443332110 000 00000000000 000 00000000 11111 122222111
Q ss_pred ecccccCCccccCCCCCEEEEEcCCCCChhh--hhhhhhcCCCeEEEEeCCCC-CCceeechHHHHhccchhHHHH--HH
Q 004009 537 CTCVGAGDPRLANFRFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQ-LGPVIMCKKAARAGLAQSLFER--LV 611 (779)
Q Consensus 537 ~T~~~a~~~~L~~~~Fd~VIIDEAsQatEpe--~LipL~~~~~~lILVGD~~Q-LpPvv~s~~a~~~gl~~SLFeR--Li 611 (779)
..-+|+|+|||+++.+..= +..-+....+++|.++|.-| |.-+-+-..+...|-...---| |.
T Consensus 293 ------------~~~yD~ilIDE~QDFP~~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~ppe~iFg~d~dg~P~V~l~ 360 (660)
T COG3972 293 ------------KKAYDYILIDESQDFPQSFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRPPEEIFGPDSDGEPRVNLA 360 (660)
T ss_pred ------------cccccEEEecccccCCHHHHHHHHHHhcCcceEEEehHhhhcccccCCCCHHHhcCcCCCCCcccccc
Confidence 2369999999998765432 11222235699999999999 2222222111111110000000 00
Q ss_pred HCCCccEEeccccCCchHHHHHHHhh---hcCCccc--c--------cCccccccC---CCCCCCCCCCCCCeEEEEeCC
Q 004009 612 LLGLKPIRLQVQYRMHPSLSEFPSNS---FYEGTLQ--N--------GVTINERQS---SGIDFPWPVPNRPMFFYVQMG 675 (779)
Q Consensus 612 ~~g~~~~~L~~QYRmhp~I~~f~S~~---FY~g~L~--~--------~~s~~~r~~---~~~~~~~p~~~~P~~f~~~~g 675 (779)
...-+-+.|...||..|...-++-.+ .|.|..+ . |.++..-.+ ..+...-+....|.++ ...+
T Consensus 361 radr~DiVL~kCYRnsp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl-~e~~ 439 (660)
T COG3972 361 RADRNDIVLKKCYRNSPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFL-PENH 439 (660)
T ss_pred cCccccchHHHHhcCCchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcccc-cccC
Confidence 00112367999999887766554333 2333221 0 011100000 0000000111223222 2222
Q ss_pred cceeccCCCCCCC-HHHHHHHHHHHHHHHHCCCCCCeEEEEccc----HHHHHHHHHHHHHcCCcc---------c---c
Q 004009 676 QEEISASGTSYLN-RTEAANVEKIVTTFLRSGVVPSQIGVITPY----EGQRAYIVNYMSRNGALR---------Q---Q 738 (779)
Q Consensus 676 ~ee~~~~~~S~~N-~~EA~~V~~iV~~Ll~~gv~~~~IgIITPY----~~Qv~~L~~~L~~~~~~~---------~---~ 738 (779)
.......--.+-| ..|+.+|+.-+.++.+.++.+++|.||.+= ++-..+|.+.|...+.-. + .
T Consensus 440 ~p~~i~~fi~fd~~~deivwi~~qI~~~~edeLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~ 519 (660)
T COG3972 440 KPTAIHLFIGFDNGPDEIVWIIIQIKEFREDELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFK 519 (660)
T ss_pred ChhhhheeeccCCcchhhHHHHHHHHHhcccccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccc
Confidence 1111001011112 468888888888888889999999999873 233344444444333110 0 1
Q ss_pred cCCCeEEccCCCCCCCcCCEEEEEee
Q 004009 739 LYKEIEVASVDSFQGREKDYIILSCV 764 (779)
Q Consensus 739 ~~~~V~V~TVD~FQGrEkDvIIlS~V 764 (779)
....|.+.+|-+..|.|+.+|+.--+
T Consensus 520 ~dgkvtis~IyrAKGnEapfV~aL~a 545 (660)
T COG3972 520 QDGKVTISRIYRAKGNEAPFVYALGA 545 (660)
T ss_pred cCceEEeeeehhccCCCCcEEEEehh
Confidence 11268999999999999999987544
No 45
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=98.87 E-value=1.5e-07 Score=119.56 Aligned_cols=152 Identities=16% Similarity=0.123 Sum_probs=94.9
Q ss_pred CCCEEEEEcCCCCChhh--hhhhhhcCCCeEEEEeCCCCCCceeechHH-HHhccchhHHHHHH----HCCC---ccEEe
Q 004009 551 RFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVIMCKKA-ARAGLAQSLFERLV----LLGL---KPIRL 620 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~~~~~lILVGD~~QLpPvv~s~~a-~~~gl~~SLFeRLi----~~g~---~~~~L 620 (779)
++.+|+|||+++.+..+ ++-.|...++.++++||..|-. ..... ....+....|.++. ..+. .++.+
T Consensus 196 ~~~~I~VDeFqdf~~~Q~~lI~~L~~~~~~v~Vv~d~Dq~~---~~~~~~~lf~~~~~~~~~l~~~~~~~~~~~~~~i~~ 272 (1158)
T TIGR02773 196 KGAEIYIDGFHSFTPQEYSVIGALMKKAKKVTVTLTLDGPK---SLEDELSLFRATSETYYRLKELAKELGIEVEEPIFL 272 (1158)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCcEEEEEEeCCcc---ccCCccccchhHHHHHHHHHHHHHHcCCCccccccc
Confidence 46799999999999887 4444555578899999999951 00000 00112222333332 2232 23455
Q ss_pred ccccCC--chHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHH
Q 004009 621 QVQYRM--HPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEAANVEKI 698 (779)
Q Consensus 621 ~~QYRm--hp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~i 698 (779)
..+++. ++.|..+..+++=.+. . ++...+.++.++..... ..||+.|.+.
T Consensus 273 ~~~~~~~~~~~l~~Lek~l~~~~~-~---------------~~~~~~~~I~i~~~~~~------------~~Eae~va~~ 324 (1158)
T TIGR02773 273 NEYRPNKKNKELAHLEKQFDARPF-N---------------AYIEEDGSISIFEANNR------------RAEVEGVARQ 324 (1158)
T ss_pred ccccCCCCCHHHHHHHHHHhhCCC-C---------------CCCCCCCCeEEEEcCCH------------HHHHHHHHHH
Confidence 666663 7777777665552111 0 00111223444433222 3589999999
Q ss_pred HHHHHHC-CCCCCeEEEEccc-HHHHHHHHHHHHHcC
Q 004009 699 VTTFLRS-GVVPSQIGVITPY-EGQRAYIVNYMSRNG 733 (779)
Q Consensus 699 V~~Ll~~-gv~~~~IgIITPY-~~Qv~~L~~~L~~~~ 733 (779)
|.+|++. |+++++|+|+++- +.+...|...|...+
T Consensus 325 I~~l~~~~g~~~~DIAVL~R~~~~y~~~i~~~f~~~~ 361 (1158)
T TIGR02773 325 ILRLTRDKQYRYQDIAILTRDLEDYAKLVEAVFSDYE 361 (1158)
T ss_pred HHHHHHcCCCChhheEEEeCCHHHHHHHHHHHHHhCC
Confidence 9999886 9999999999999 999999999987654
No 46
>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=98.85 E-value=2.1e-08 Score=127.07 Aligned_cols=174 Identities=16% Similarity=0.207 Sum_probs=103.2
Q ss_pred CCCCEEEEEcCCCCChhh--hhhhhhcC-----------CCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHHC---
Q 004009 550 FRFRQVLIDESTQATEPE--CLIPLVLG-----------AKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVLL--- 613 (779)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe--~LipL~~~-----------~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~~--- 613 (779)
.+|++|+|||+|+++..+ ++.+|... .+.+++|||++| .|++...+ ...+|.++...
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQ---SIY~FRGA----d~~~f~~~~~~~~~ 462 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQ---SIYSFQGA----DPDRFAEERREFNR 462 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcc---cCccccCC----CHHHHHHHHHHHHH
Confidence 489999999999999887 44445321 368999999999 55543322 34455443221
Q ss_pred -------CCccEEeccccCCchHHHHHHHhhhcCCcccccCccc--cccCCCCCCCCCCCCCCeEEEEeCCcceecc---
Q 004009 614 -------GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTIN--ERQSSGIDFPWPVPNRPMFFYVQMGQEEISA--- 681 (779)
Q Consensus 614 -------g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~--~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~--- 681 (779)
....+.|++|||+++.|+++.|.+|-......+.... ........ .....++.++.....++...
T Consensus 463 ~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~~~~~~~~~~~~~~~~~~~~~---~~~~g~v~l~~~~~~~~~~~~~~ 539 (1141)
T TIGR02784 463 KVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFADPENYRGLSADSDLVVHEAIR---SDLPGEVELWDLISPEEGEDPED 539 (1141)
T ss_pred hhhhccCCceEeeCCcCCCChHHHHHHHHHHHhCchhccccCCcchhhcccccc---cCCCCceEEEeccCccccccccc
Confidence 1245789999999999999999999653221111000 00000000 00011222222111100000
Q ss_pred -------CCCCCCCHHHHHHHHHHHHHHHHCC----------CCCCeEEEEcccHHH-HHHHHHHHHHcC
Q 004009 682 -------SGTSYLNRTEAANVEKIVTTFLRSG----------VVPSQIGVITPYEGQ-RAYIVNYMSRNG 733 (779)
Q Consensus 682 -------~~~S~~N~~EA~~V~~iV~~Ll~~g----------v~~~~IgIITPY~~Q-v~~L~~~L~~~~ 733 (779)
.........||+.|.+.|..++..| +++.+|+||++.+.+ ...|.+.|.+.+
T Consensus 540 ~~~~~~~~~~~~~~~~eA~~Ia~~I~~ll~~g~~~~~~~~r~~~~~DIAILvRs~~~~~~~i~~aL~~~g 609 (1141)
T TIGR02784 540 WTAPVDELGERAPEVRLAERIAATIRDWLDRGTPIPKGRGRAARPGDILVLVRKRDAFVSALIRALKRRG 609 (1141)
T ss_pred cccccccccccchHHHHHHHHHHHHHHHHhCCCccccCCcCCCCCCcEEEEEeCCchhHHHHHHHHHHCC
Confidence 0001112258999999999998877 578899999999997 577887776543
No 47
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.82 E-value=4.8e-08 Score=96.56 Aligned_cols=70 Identities=27% Similarity=0.397 Sum_probs=60.5
Q ss_pred CCCCHHHHHHHHHhhcC-CeEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEEEcCcHHHHHHHHHHHHhcC
Q 004009 389 PELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISATG 458 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~-~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~~~ 458 (779)
..+++.|.+++..++.. ...+|.||+|||||++++..+...+... ..++|+++|++.++.++..++....
T Consensus 7 ~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~ 78 (201)
T smart00487 7 EPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLG 78 (201)
T ss_pred CCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHh
Confidence 46899999999999887 8999999999999998888777766553 4689999999999999999887653
No 48
>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=98.63 E-value=1.7e-07 Score=87.04 Aligned_cols=51 Identities=31% Similarity=0.504 Sum_probs=44.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..+|.||||||||+++...+..+... ...++++++|++..++++.+++...
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHH
Confidence 46899999999999999988887765 4569999999999999999888764
No 49
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=98.54 E-value=6.6e-07 Score=87.67 Aligned_cols=66 Identities=23% Similarity=0.375 Sum_probs=56.2
Q ss_pred CHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
++.|.+++..++...-++|.||+|+|||.+..-.+...+..+ ..++++++|+...++++.+++...
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~ 67 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKF 67 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeeccccccccccccccc
Confidence 468999999999777899999999999999887776666554 349999999999999999998765
No 50
>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=98.49 E-value=2.3e-07 Score=91.67 Aligned_cols=64 Identities=25% Similarity=0.464 Sum_probs=56.0
Q ss_pred CCCHHHHHHHHHhhc-------CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
+|.+.|.+|+..++. .+..+|.+|+|||||.+++.++..+.. ++++++|+..-++++.+.+...
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~----~~l~~~p~~~l~~Q~~~~~~~~ 73 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR----KVLIVAPNISLLEQWYDEFDDF 73 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC----EEEEEESSHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc----ceeEecCHHHHHHHHHHHHHHh
Confidence 478899999999884 578999999999999999998888875 9999999999999999998543
No 51
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.41 E-value=1.6e-06 Score=100.80 Aligned_cols=69 Identities=22% Similarity=0.222 Sum_probs=60.0
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..|.+.|.+||..++...-.++++|.|+|||.+++.++..++..+..++||++||...++++.+++.+.
T Consensus 113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHh
Confidence 368899999999999877789999999999999887776666655559999999999999999999765
No 52
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.41 E-value=7.8e-06 Score=97.47 Aligned_cols=70 Identities=23% Similarity=0.215 Sum_probs=55.1
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHh--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~--~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
+..+++-|.+|+..++...-.++++|.|||||.+..--+.+.+.. ...++||++||...+.++.+.+...
T Consensus 26 ~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~ 97 (629)
T PRK11634 26 YEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDF 97 (629)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 346889999999999987789999999999998865433333322 2348999999999999998887653
No 53
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.38 E-value=1.5e-07 Score=111.72 Aligned_cols=304 Identities=26% Similarity=0.333 Sum_probs=192.4
Q ss_pred CCCCCHHHHHHHHHhh-----cCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc----C
Q 004009 388 LPELNASQVFAVKSVL-----QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT----G 458 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL-----~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~----~ 458 (779)
.+.+|..|..++.... .....|+.|+ |+|||.+++.-+..+......+++++.+++.|+|......... +
T Consensus 118 ~~~~~~~~~~~l~~~~~~~l~e~~P~L~~G~-~~~~~~~~~~~~~~~~~~~~~k~~~~l~~~~~~~~~ir~y~~~~v~~~ 196 (775)
T KOG1804|consen 118 EPRLNALQKGALLAITVPLLRELPPSLLIGP-GTGETLELAQAVKSLLQQEEAKILILLHSESAADIYIREYLHPYVEEG 196 (775)
T ss_pred chhhhhhhcccccceeccccccCCcccccCC-ccccceeecchhhcccccccccceEeechhHHHHHHHHHhhccccccc
Confidence 3567777777665532 2356788999 9999999988887776666679999999999977666554321 1
Q ss_pred CeE---EEeccccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccc
Q 004009 459 LKV---VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVI 535 (779)
Q Consensus 459 l~v---vRl~~~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI 535 (779)
.+. .|+....+..+....... ... .-++. .-.+ ..-....+.+ .+|+
T Consensus 197 ~~~~~~~r~~~~~r~l~~~~pvv~--~~~-~if~~-----------------------~~~~---~~pq~~~~~~-Hrv~ 246 (775)
T KOG1804|consen 197 LPEATPLRVYSRKRPLAQVNPVVL--QYC-FIFDS-----------------------HITF---RRPQVEDLFK-HRVV 246 (775)
T ss_pred ccccccccceeecccccccCCcee--eee-eeccc-----------------------hhhh---ccchhhhhcc-ccee
Confidence 111 133322221111100000 000 00000 0000 0000112233 5666
Q ss_pred eecccccC---CccccCCCCCEEEEEcCCCCChhhhhhhhhc--CCCeEEEEeCCCCCCceeechHHHHhccchhHHHHH
Q 004009 536 CCTCVGAG---DPRLANFRFRQVLIDESTQATEPECLIPLVL--GAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERL 610 (779)
Q Consensus 536 ~~T~~~a~---~~~L~~~~Fd~VIIDEAsQatEpe~LipL~~--~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRL 610 (779)
+.|...+. ...+....|.+++.|||.++.+.+.+.|+.+ ...+++|+||+.||-|.+.+.......+. .+..++
T Consensus 247 ~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~~~~~~-~~~~~~ 325 (775)
T KOG1804|consen 247 VVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVAREEQALH-LLLCRL 325 (775)
T ss_pred EeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchhhhhhhhhhhh-hccccc
Confidence 66655443 2334455789999999999999999999764 45799999999999999887665544443 333333
Q ss_pred HHC----CCccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCcceeccCCCCC
Q 004009 611 VLL----GLKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSY 686 (779)
Q Consensus 611 i~~----g~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~ 686 (779)
... +.+.+-...|||.+-.|..|.+..||........+..+. +-.....|..|....+.+....+...+
T Consensus 326 ~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~-------~~~rl~~p~~~~~~~~~~~~~~~~~~~ 398 (775)
T KOG1804|consen 326 PEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQ-------PAHRLHYPLTFSTARGEDVRAKSSTAW 398 (775)
T ss_pred ccccccccCCCcCCccchHHHHHHHHhcchHHHhhccccccccccc-------ccccccccccccccccccccccchhHH
Confidence 322 334456899999999999999999998644332222111 111124677888777777666667788
Q ss_pred CCHHHHHHHHHHHHHHHHC-----CC-CCCeEEEEcccHHHHHHHHHHHH
Q 004009 687 LNRTEAANVEKIVTTFLRS-----GV-VPSQIGVITPYEGQRAYIVNYMS 730 (779)
Q Consensus 687 ~N~~EA~~V~~iV~~Ll~~-----gv-~~~~IgIITPY~~Qv~~L~~~L~ 730 (779)
+|..|...++.-++.+.+. ++ ....+|++++|-.|+..++..|.
T Consensus 399 ~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~ 448 (775)
T KOG1804|consen 399 YNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILV 448 (775)
T ss_pred hhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeee
Confidence 8988998888888877643 12 23478999999999999988874
No 54
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=98.38 E-value=3.3e-06 Score=85.73 Aligned_cols=69 Identities=23% Similarity=0.216 Sum_probs=56.8
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHH-HHHHHHHHHh---CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQ---GQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tl-a~iI~~L~~~---~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..+++.|.+|+...+...-.+|.+|+|+|||.+. ..++..+... ++.++++++|+..-+.++.+.+...
T Consensus 20 ~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~ 92 (203)
T cd00268 20 EKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKL 92 (203)
T ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 4688999999999998788999999999999884 4555555554 3458999999999999998887654
No 55
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.36 E-value=4.5e-05 Score=87.81 Aligned_cols=70 Identities=23% Similarity=0.246 Sum_probs=55.1
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHh--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~--~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
+..+++-|.+|+..++...-.+++||.|||||.+..-.+.+.+.. ...++||++||...++++.+.+...
T Consensus 24 ~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~ 95 (460)
T PRK11776 24 YTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRL 95 (460)
T ss_pred CCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHH
Confidence 456889999999999988889999999999997754433333332 2337999999999999999877653
No 56
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.29 E-value=8.1e-06 Score=98.21 Aligned_cols=75 Identities=31% Similarity=0.382 Sum_probs=62.4
Q ss_pred CCCCHHHHHHHHHhhc---CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc-CCeEEEe
Q 004009 389 PELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GLKVVRL 464 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~---~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~-~l~vvRl 464 (779)
..|++.|.+|+..++. ....+++||.|||||.+...++...+..+ .++|+++|+..-++++.+++.+. +.++..+
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g-~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~ 221 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQG-KQALVLVPEIALTPQMLARFRARFGAPVAVL 221 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcC-CeEEEEeCcHHHHHHHHHHHHHHhCCCEEEE
Confidence 4699999999999886 36799999999999999888887777665 49999999999999999999763 4444433
No 57
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.23 E-value=9.7e-06 Score=92.54 Aligned_cols=70 Identities=24% Similarity=0.275 Sum_probs=55.0
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHH-HHHHHHh-----CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAI-VYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~i-I~~L~~~-----~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
...+++-|.+|+..++...-.++++|+|||||.+.... +.++... +..++|+++||...+.++.+.+...
T Consensus 21 ~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l 96 (434)
T PRK11192 21 YTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQAREL 96 (434)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHH
Confidence 34578899999999998777999999999999876443 3334332 2358999999999999998877653
No 58
>PTZ00424 helicase 45; Provisional
Probab=98.21 E-value=9e-06 Score=91.54 Aligned_cols=70 Identities=24% Similarity=0.265 Sum_probs=56.4
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHh--CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~--~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
+..+++-|.+|+..++...-.+|++|+|||||.+....+.+.+.. ...++|+++|+..-+.++.+.+...
T Consensus 48 ~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 48 FEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHH
Confidence 356899999999999987778899999999998766555554432 3458999999999999988777654
No 59
>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=98.20 E-value=3.2e-05 Score=95.52 Aligned_cols=67 Identities=24% Similarity=0.288 Sum_probs=55.6
Q ss_pred CCCHHHHHHHHHhhcC------CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.+++.|.+||..++.. .-.||+||.|||||.+....+...+..+ .+++|++||..-+.+..+.+.+.
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g-~qvlvLvPT~~LA~Q~~~~f~~~ 523 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG-KQVAVLVPTTLLAQQHFETFKER 523 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC-CeEEEEeCcHHHHHHHHHHHHHH
Confidence 5799999999998762 2469999999999998876666655555 59999999999999999888753
No 60
>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=98.16 E-value=9.4e-06 Score=78.16 Aligned_cols=53 Identities=28% Similarity=0.426 Sum_probs=42.7
Q ss_pred CCeEEEEcCCCChHHH-HHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004009 405 RPISLIQGPPGTGKTV-TSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~-tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (779)
..+.+|.=.||+|||+ ++.+++.+-++.+. |+||++||...++++.+.|....
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~-rvLvL~PTRvva~em~~aL~~~~ 57 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKRRL-RVLVLAPTRVVAEEMYEALKGLP 57 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHTT---EEEEESSHHHHHHHHHHTTTSS
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHccC-eEEEecccHHHHHHHHHHHhcCC
Confidence 3578899999999998 68899988888765 99999999999999999997553
No 61
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.13 E-value=2.9e-05 Score=92.87 Aligned_cols=67 Identities=30% Similarity=0.401 Sum_probs=55.6
Q ss_pred CCCHHHHHHHHHhhcC---C---eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQR---P---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~---~---l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.|++.|++|+..++.. + ..||+||.|||||.+....+...+..+ .++++++||..-+.++.+.+.+.
T Consensus 235 ~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g-~qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 235 KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAG-YQVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcC-CcEEEECCHHHHHHHHHHHHHHH
Confidence 6999999999998752 2 369999999999998876666666554 49999999999999999888754
No 62
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.13 E-value=2.9e-05 Score=93.73 Aligned_cols=67 Identities=30% Similarity=0.380 Sum_probs=56.6
Q ss_pred CCCHHHHHHHHHhhcC------CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.|++.|.+|+..++.. .-.||+||.|||||.+....+.+.+..+ .++|+++||..-+.++.+++.+.
T Consensus 261 ~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g-~q~lilaPT~~LA~Q~~~~l~~l 333 (681)
T PRK10917 261 ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAG-YQAALMAPTEILAEQHYENLKKL 333 (681)
T ss_pred CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcC-CeEEEEeccHHHHHHHHHHHHHH
Confidence 6999999999988753 2479999999999999887776666554 49999999999999999988764
No 63
>PRK02362 ski2-like helicase; Provisional
Probab=98.10 E-value=7.4e-06 Score=99.74 Aligned_cols=70 Identities=23% Similarity=0.265 Sum_probs=56.4
Q ss_pred CCCCCCHHHHHHHHHh-hcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 387 GLPELNASQVFAVKSV-LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 387 ~~~~LN~sQ~~AV~~a-L~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
++..|++.|.+|+... +...-.+|.+|.|+|||.+....+.+.+.. +.++++++|+..-+++..+++.+.
T Consensus 20 g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~-~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 20 GIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIAR-GGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred CCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhc-CCcEEEEeChHHHHHHHHHHHHHh
Confidence 3467999999999884 456788999999999999876544444443 459999999999999999988754
No 64
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.09 E-value=6.1e-05 Score=95.03 Aligned_cols=66 Identities=24% Similarity=0.292 Sum_probs=55.1
Q ss_pred CCCHHHHHHHHHhhcC------CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 390 ELNASQVFAVKSVLQR------PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~------~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
.+++.|.+|+..++.. .-.||+||.|+|||.+....+...+..+ .++||++||..-+.++.+.+.+
T Consensus 600 ~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g-~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 600 ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENH-KQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcC-CeEEEEeCcHHHHHHHHHHHHH
Confidence 6899999999998863 3479999999999998776665555544 5999999999999999888765
No 65
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.09 E-value=1.2e-05 Score=92.02 Aligned_cols=66 Identities=29% Similarity=0.346 Sum_probs=57.8
Q ss_pred CCCCCHHHHHHHHHhhc----CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 388 LPELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~----~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
...|.+.|.+|+..... ..-.+|.-|+|+|||.+.++++..+. .++||++|+...+++..+++...
T Consensus 34 ~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~----~~~Lvlv~~~~L~~Qw~~~~~~~ 103 (442)
T COG1061 34 EFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK----RSTLVLVPTKELLDQWAEALKKF 103 (442)
T ss_pred CCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc----CCEEEEECcHHHHHHHHHHHHHh
Confidence 35689999999999987 78899999999999999999887653 25999999999999999888654
No 66
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.05 E-value=3.6e-05 Score=88.66 Aligned_cols=70 Identities=20% Similarity=0.237 Sum_probs=54.9
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHH-HHHhC-------CCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYH-MAKQG-------QGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~-L~~~~-------~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
+..+++-|.+|+..++...-.++++|.|||||.+..--+.+ +.... ..++||++||...+.++.+.+...
T Consensus 21 ~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~ 98 (456)
T PRK10590 21 YREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDY 98 (456)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 34678999999999998777999999999999876544333 33221 126999999999999999888754
No 67
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.05 E-value=1.7e-05 Score=90.26 Aligned_cols=69 Identities=20% Similarity=0.186 Sum_probs=54.1
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHH-HHHHHh--------CCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIV-YHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI-~~L~~~--------~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+..+++-|.+|+..++...-.++++|.|||||.+....+ ..+... ...++||++||...+.++.+.+..
T Consensus 28 ~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~ 105 (423)
T PRK04837 28 FHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEP 105 (423)
T ss_pred CCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHH
Confidence 456789999999999988888999999999998764333 334332 124799999999999998876654
No 68
>PRK00254 ski2-like helicase; Provisional
Probab=98.01 E-value=3.1e-05 Score=94.08 Aligned_cols=69 Identities=23% Similarity=0.362 Sum_probs=55.5
Q ss_pred CCCCCCHHHHHHHHH-hhcCCeEEEEcCCCChHHHHHH-HHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 387 GLPELNASQVFAVKS-VLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 387 ~~~~LN~sQ~~AV~~-aL~~~l~LIqGPPGTGKT~tla-~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
....||+-|.+|+.. .+...-.+|.+|.|+|||.+.. .++..+.. .+.++++++|+..-+++..+++..
T Consensus 20 g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~-~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 20 GIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLR-EGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred CCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHh-cCCeEEEEeChHHHHHHHHHHHHH
Confidence 345799999999986 5567789999999999999874 44444444 346999999999999999988764
No 69
>PRK01172 ski2-like helicase; Provisional
Probab=98.00 E-value=2.7e-05 Score=93.96 Aligned_cols=66 Identities=20% Similarity=0.263 Sum_probs=55.2
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
.|++.|.+|+...+.....+|.+|.|+|||.+....+...+..+ .++++++|+..-+++..+.+.+
T Consensus 22 ~l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~~-~k~v~i~P~raLa~q~~~~~~~ 87 (674)
T PRK01172 22 ELYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLAG-LKSIYIVPLRSLAMEKYEELSR 87 (674)
T ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHhC-CcEEEEechHHHHHHHHHHHHH
Confidence 58999999999988888899999999999998765555545444 5899999999999999887764
No 70
>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=97.99 E-value=6e-05 Score=90.23 Aligned_cols=65 Identities=18% Similarity=0.272 Sum_probs=54.9
Q ss_pred CCCCHHHHHHHHHhhcC---CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 389 PELNASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~---~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..|=+.|.+|+...+.+ +-.+|.-|+|+|||.+.+.++..+ .+++||++|+...+++..+.+.+.
T Consensus 254 ~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l----~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 254 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV----KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred CCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh----CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 35778999999998854 357999999999999998777654 358999999999999999998764
No 71
>PRK13766 Hef nuclease; Provisional
Probab=97.93 E-value=6.2e-05 Score=92.26 Aligned_cols=67 Identities=27% Similarity=0.351 Sum_probs=56.1
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
++-+.|..++..++.. -.||..|.|+|||.+...++..++....+++|+++||...+++..+.+.+.
T Consensus 15 ~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~ 81 (773)
T PRK13766 15 EARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKF 81 (773)
T ss_pred CccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 4456899999888876 679999999999998887777776656679999999999999998888754
No 72
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.85 E-value=0.00012 Score=86.54 Aligned_cols=70 Identities=17% Similarity=0.185 Sum_probs=56.0
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHH-HHHHHHHhC--------CCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~-iI~~L~~~~--------~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
+..+++-|.++|-.++...-.++++|.|||||.+... ++.++++.. ..++||++||...+.++.+.+.+.
T Consensus 29 ~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~l 107 (572)
T PRK04537 29 FTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKF 107 (572)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 3467899999999999887899999999999987654 344444321 248999999999999999887654
No 73
>PTZ00110 helicase; Provisional
Probab=97.84 E-value=0.00019 Score=84.53 Aligned_cols=71 Identities=25% Similarity=0.257 Sum_probs=55.4
Q ss_pred CCCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHH-HHHHHHHHhC------CCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 387 GLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG------QGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 387 ~~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla-~iI~~L~~~~------~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.+..+++-|.+|+-.++...-.++.+|.|||||.+.. -++.++..++ ...+||++||...+.++.+.+.+.
T Consensus 149 g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~ 226 (545)
T PTZ00110 149 GFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKF 226 (545)
T ss_pred CCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHH
Confidence 3567899999999999987778899999999998743 3344444321 236999999999999998888764
No 74
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.83 E-value=6.8e-05 Score=94.30 Aligned_cols=68 Identities=25% Similarity=0.274 Sum_probs=57.7
Q ss_pred CCCHHHHHHHHHhhc-----CCeEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~-----~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.|-+.|.+||..+.. .+-.||+.|.|||||.|++.++..|++.+ ..|||++++++.-+++..+.+...
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhc
Confidence 577899999987652 34689999999999999999999888763 469999999999999999988765
No 75
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.78 E-value=0.00033 Score=75.99 Aligned_cols=65 Identities=17% Similarity=0.287 Sum_probs=46.1
Q ss_pred CHHHHHHHHH---hhc-CCeEEEEcCCCChHHHHHHHHH-HHHHHhCCC----cEEEEcCcHHHHHHHHHHHHh
Q 004009 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 392 N~sQ~~AV~~---aL~-~~l~LIqGPPGTGKT~tla~iI-~~L~~~~~~----rILV~ApSN~AVD~L~erL~~ 456 (779)
-+.|.+-+.. ++. .+..+|.+|.|||||..+...+ ..+...+.. +|++++.|+.-.+.....+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 5678874433 443 6788999999999997765444 344443332 899999999988887766654
No 76
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.78 E-value=0.00033 Score=75.99 Aligned_cols=65 Identities=17% Similarity=0.287 Sum_probs=46.1
Q ss_pred CHHHHHHHHH---hhc-CCeEEEEcCCCChHHHHHHHHH-HHHHHhCCC----cEEEEcCcHHHHHHHHHHHHh
Q 004009 392 NASQVFAVKS---VLQ-RPISLIQGPPGTGKTVTSAAIV-YHMAKQGQG----QVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 392 N~sQ~~AV~~---aL~-~~l~LIqGPPGTGKT~tla~iI-~~L~~~~~~----rILV~ApSN~AVD~L~erL~~ 456 (779)
-+.|.+-+.. ++. .+..+|.+|.|||||..+...+ ..+...+.. +|++++.|+.-.+.....+.+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 5678874433 443 6788999999999997765444 344443332 899999999988887766654
No 77
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.77 E-value=0.00016 Score=83.68 Aligned_cols=70 Identities=23% Similarity=0.279 Sum_probs=55.9
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHH-HHHHHHHHhC--------CCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG--------QGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla-~iI~~L~~~~--------~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
+..+++-|.+|+..++...-.+|.+|.|||||.+.. -++..+++.+ ..++|+++||...+.++.+.+...
T Consensus 107 ~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~l 185 (475)
T PRK01297 107 FPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAAL 185 (475)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHHh
Confidence 456899999999999987778899999999997643 3444555432 358999999999999998887654
No 78
>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=97.77 E-value=0.00017 Score=87.71 Aligned_cols=71 Identities=11% Similarity=0.118 Sum_probs=58.5
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHH-HHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~-iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (779)
+..|++-|.+|+..++...-.++..|.|||||....- ++..+.+.+..++|+++||..-+.++..++.+.+
T Consensus 34 ~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l~ 105 (742)
T TIGR03817 34 IHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVRELT 105 (742)
T ss_pred CCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHhc
Confidence 4568899999999999888899999999999987543 3444545455689999999999999999987753
No 79
>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=97.76 E-value=0.00015 Score=87.27 Aligned_cols=67 Identities=21% Similarity=0.150 Sum_probs=56.2
Q ss_pred CHHHHHHHHHhhc----------CCeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004009 392 NASQVFAVKSVLQ----------RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATG 458 (779)
Q Consensus 392 N~sQ~~AV~~aL~----------~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~ 458 (779)
-..|..||..++. .+-.+|+-|.|||||.|++.++..|++. +..+||++++...-++++.+.+...+
T Consensus 240 r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 240 RYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred HHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 4679999988753 2468999999999999999999888754 45689999999999999999987754
No 80
>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=97.75 E-value=0.00012 Score=92.81 Aligned_cols=67 Identities=33% Similarity=0.350 Sum_probs=55.4
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.+.+-|+.++..++...-+++++|.|||||..+.-++..+... +.++||++||..-+.++.+++.+.
T Consensus 78 ~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~f~l~~~~~l~~~-g~~vLIL~PTreLa~Qi~~~l~~l 144 (1171)
T TIGR01054 78 EPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFGLAMSLFLAKK-GKRCYIILPTTLLVIQVAEKISSL 144 (1171)
T ss_pred CCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEEeCHHHHHHHHHHHHHHH
Confidence 4678999999999988888999999999998665444444443 459999999999999999988764
No 81
>PRK09401 reverse gyrase; Reviewed
Probab=97.75 E-value=0.00014 Score=91.91 Aligned_cols=68 Identities=25% Similarity=0.270 Sum_probs=56.2
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (779)
.+++-|+.++..++...-+++++|.|||||..+.-++..+.. .+.++||++||..-+.++.+++...+
T Consensus 80 ~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~f~l~~~~~l~~-~g~~alIL~PTreLa~Qi~~~l~~l~ 147 (1176)
T PRK09401 80 KPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFGLVMSLYLAK-KGKKSYIIFPTRLLVEQVVEKLEKFG 147 (1176)
T ss_pred CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHHHHHHHHHHHHh-cCCeEEEEeccHHHHHHHHHHHHHHh
Confidence 468899999999998888899999999999765544444433 34699999999999999999998753
No 82
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=97.74 E-value=8.9e-05 Score=89.85 Aligned_cols=133 Identities=28% Similarity=0.343 Sum_probs=93.2
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEecccc
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCAKS 468 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~~s 468 (779)
..++++|..|+..++..+.++|.|+||||||+++..++..+. .....+++.+++-.|+-.+.+.-..
T Consensus 318 ~~~~~~q~~a~~vl~~de~smlt~~~~~~~~~~~~~~~~l~~-~~~~~~l~aa~tG~a~~~l~e~tg~------------ 384 (696)
T COG0507 318 LRLSLEQKEALDVLVVDEVSMLTGGPGTGKTTAIKAIARLIK-EGDGDQLLAAPTGKAAKRLNESTGL------------ 384 (696)
T ss_pred CCcCcccHHHHHHHhcCCeeEEeccCCcchHHHHHHHHHHHH-hcCCcEEeechhhHHHHHHHHhhCc------------
Confidence 468899999999999999999999999999999888775544 4445799999999999887765210
Q ss_pred ccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCcccc
Q 004009 469 REAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRLA 548 (779)
Q Consensus 469 re~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L~ 548 (779)
.-.++|........ .+ ....
T Consensus 385 --------~a~ti~~~~~~~~~---------------~~-------------------------------------~~~~ 404 (696)
T COG0507 385 --------EARTIHRLLGLWEK---------------TG-------------------------------------NNEE 404 (696)
T ss_pred --------chhHHHHHHhcccc---------------CC-------------------------------------CCCC
Confidence 01122222111100 00 0112
Q ss_pred CCCCCEEEEEcCCCCChhhhhhhhh---cCCCeEEEEeCCCCCCceeech
Q 004009 549 NFRFRQVLIDESTQATEPECLIPLV---LGAKQVVLVGDHCQLGPVIMCK 595 (779)
Q Consensus 549 ~~~Fd~VIIDEAsQatEpe~LipL~---~~~~~lILVGD~~QLpPvv~s~ 595 (779)
....|.+||||+++... ....-+. ....++|++||..||+++..+.
T Consensus 405 ~~~~d~~iiDe~~ml~~-~~~~~l~~~i~~~a~~i~vGD~~ql~~v~~g~ 453 (696)
T COG0507 405 PLDGDLLIIDEASMLDT-SLAFGLLSAIGKLAKVILVGDVDQLPSVGAGA 453 (696)
T ss_pred ccccceeEEehhhhHHH-HHhhhhhcccccCCeEEEeCCHHhcCCCCCCc
Confidence 23679999999999887 4222221 2357999999999999997665
No 83
>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=97.74 E-value=0.0004 Score=82.40 Aligned_cols=59 Identities=15% Similarity=0.346 Sum_probs=42.4
Q ss_pred HHHHHhhc-CCeEEEEcCCCChHHHHHHH-HHHHHHHhCCCcEEEEcCcHHHHHHHHHHHH
Q 004009 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAA-IVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (779)
Q Consensus 397 ~AV~~aL~-~~l~LIqGPPGTGKT~tla~-iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (779)
++|..++. ....+|.+|.|||||..-.. .+..+......+|+|+++|..-.+++.+.+.
T Consensus 7 ~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~ 67 (636)
T TIGR03117 7 LNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELE 67 (636)
T ss_pred HHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHH
Confidence 34455554 56789999999999966443 3333333345699999999999999997554
No 84
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.73 E-value=0.00054 Score=85.02 Aligned_cols=68 Identities=18% Similarity=0.310 Sum_probs=54.2
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHH-HHHHHHHh-------CCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAA-IVYHMAKQ-------GQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~-iI~~L~~~-------~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..|++-|.+|+..++...-.+|++|.|||||....- ++.++... +..++|+++|+..-+.++..++.+
T Consensus 31 ~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~ 106 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEE 106 (876)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHH
Confidence 458999999999998888899999999999987653 44445432 123699999999999998887753
No 85
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=97.73 E-value=0.00013 Score=79.12 Aligned_cols=55 Identities=22% Similarity=0.309 Sum_probs=46.7
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEEEcC
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAP 442 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~Ap 442 (779)
..-.++.|..-+.++..+.+.+=.||.|||||+..+......++.+ -.||+++=|
T Consensus 126 I~~kt~~Q~~y~eai~~~di~fGiGpAGTGKTyLava~av~al~~~~v~rIiLtRP 181 (348)
T COG1702 126 IIPKTPGQNMYPEAIEEHDIVFGIGPAGTGKTYLAVAKAVDALGAGQVRRIILTRP 181 (348)
T ss_pred eEecChhHHHHHHHHHhcCeeeeecccccCChhhhHHhHhhhhhhcccceeeecCc
Confidence 3457899999999999999999999999999999988877777664 357888877
No 86
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.72 E-value=0.0004 Score=80.35 Aligned_cols=74 Identities=20% Similarity=0.307 Sum_probs=58.1
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEec
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~ 465 (779)
+..+.+-|.+||..++...-.+|.+|.|+|||.+-. +-.+. . ....||++|+..-+.+..+++...++.+.-++
T Consensus 9 ~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~--lp~l~-~-~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~ 82 (470)
T TIGR00614 9 LSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQ--LPALC-S-DGITLVISPLISLMEDQVLQLKASGIPATFLN 82 (470)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHH--HHHHH-c-CCcEEEEecHHHHHHHHHHHHHHcCCcEEEEe
Confidence 457889999999999987788999999999996532 22222 2 34899999999999988999988777665544
No 87
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.68 E-value=0.00016 Score=87.63 Aligned_cols=77 Identities=27% Similarity=0.343 Sum_probs=62.7
Q ss_pred CCCCCHHHHHHHHHhhcC-CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHH---hcCCeEEE
Q 004009 388 LPELNASQVFAVKSVLQR-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS---ATGLKVVR 463 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~-~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~---~~~l~vvR 463 (779)
..+|.+.|+.||...+.. ...||..|-|+|||.++--.+..-+..++.|++.++|++.-+.+..+++. ..|+++.-
T Consensus 29 ~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~ 108 (766)
T COG1204 29 IDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRVGI 108 (766)
T ss_pred hHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEE
Confidence 347888999999887764 88999999999999988766666565556799999999999999999887 55666654
Q ss_pred e
Q 004009 464 L 464 (779)
Q Consensus 464 l 464 (779)
.
T Consensus 109 ~ 109 (766)
T COG1204 109 S 109 (766)
T ss_pred e
Confidence 4
No 88
>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=97.67 E-value=0.00021 Score=83.36 Aligned_cols=48 Identities=25% Similarity=0.360 Sum_probs=42.3
Q ss_pred EEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
||+||.|+|||.+...++...+..+. ++|+++|+..-+.++.+++.+.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~-~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGK-SVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCC-eEEEEeCcHHHHHHHHHHHHHH
Confidence 68999999999998888877777654 8999999999999999999764
No 89
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.63 E-value=0.00035 Score=81.86 Aligned_cols=68 Identities=18% Similarity=0.209 Sum_probs=53.0
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHH-HHHHHHHHHh--------CCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQ--------GQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tl-a~iI~~L~~~--------~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..+++-|.+|+..++...-.++.+|.|||||.+- .-++.++... ...++||++||..-+.++.+.+..
T Consensus 142 ~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~ 218 (518)
T PLN00206 142 EFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKV 218 (518)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHH
Confidence 4678999999999998888999999999999764 3344444321 234799999999999888776654
No 90
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=97.61 E-value=0.00022 Score=77.80 Aligned_cols=56 Identities=29% Similarity=0.414 Sum_probs=40.3
Q ss_pred CCCCCCHHHHHHHHHhhcC--CeEEEEcCCCChHHHHH-HHHHHHHHHhC-CCcEEEEcC
Q 004009 387 GLPELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTS-AAIVYHMAKQG-QGQVLVCAP 442 (779)
Q Consensus 387 ~~~~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKT~tl-a~iI~~L~~~~-~~rILV~Ap 442 (779)
.+...|.+|+-|+...+.. +++-+.|.+|||||-.+ ++-+.+.+.++ ..+|+|.=|
T Consensus 225 Gi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp 284 (436)
T COG1875 225 GIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRP 284 (436)
T ss_pred ccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecC
Confidence 3567899999999998875 57778999999999765 34445554443 335666544
No 91
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.61 E-value=0.00043 Score=82.97 Aligned_cols=69 Identities=16% Similarity=0.213 Sum_probs=51.1
Q ss_pred CCCCC-HHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHH---------HHH----h-CCCcEEEEcCcHHHHHHHHH
Q 004009 388 LPELN-ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYH---------MAK----Q-GQGQVLVCAPSNVAVDQLAE 452 (779)
Q Consensus 388 ~~~LN-~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~---------L~~----~-~~~rILV~ApSN~AVD~L~e 452 (779)
+..|- .-|.+++..++.+...+++|+.|||||+.+-..+.. .+. . ...+|+|++|+..+|.++.+
T Consensus 161 l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~ 240 (675)
T PHA02653 161 LASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSI 240 (675)
T ss_pred CCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHH
Confidence 33443 467888888888889999999999999876444321 111 1 23489999999999999998
Q ss_pred HHHh
Q 004009 453 KISA 456 (779)
Q Consensus 453 rL~~ 456 (779)
++.+
T Consensus 241 ~i~~ 244 (675)
T PHA02653 241 TLLK 244 (675)
T ss_pred HHHH
Confidence 8865
No 92
>PRK14974 cell division protein FtsY; Provisional
Probab=97.58 E-value=0.00047 Score=76.11 Aligned_cols=56 Identities=36% Similarity=0.542 Sum_probs=40.9
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc-Cc--HHHHHHHHHHHHhcCCeEE
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PS--NVAVDQLAEKISATGLKVV 462 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A-pS--N~AVD~L~erL~~~~l~vv 462 (779)
.+.++.||||+|||||++.++..+...+. +|++++ .+ ..|++++.......+++++
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~~l~~~g~-~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~ 199 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAYYLKKNGF-SVVIAAGDTFRAGAIEQLEEHAERLGVKVI 199 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHcCC-eEEEecCCcCcHHHHHHHHHHHHHcCCcee
Confidence 36789999999999999999987766554 776554 33 5677777666666665554
No 93
>PRK14701 reverse gyrase; Provisional
Probab=97.57 E-value=0.00052 Score=89.17 Aligned_cols=67 Identities=27% Similarity=0.290 Sum_probs=54.3
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.+.+-|+.++..++...-+++++|.|||||....-++..+.. .+.++||++||..-+.++.+++...
T Consensus 79 ~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~-~g~~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLAL-KGKKCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHh-cCCeEEEEECHHHHHHHHHHHHHHH
Confidence 467899999999999888899999999999954433333333 3358999999999999999999764
No 94
>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=97.57 E-value=0.00017 Score=88.15 Aligned_cols=61 Identities=20% Similarity=0.456 Sum_probs=47.9
Q ss_pred HHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 395 QVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 395 Q~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
.+..|..++. ++.++|+||+|||||+.+...+..... ...+|+|+.|+..|+.++++|+.+
T Consensus 6 ~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~-~~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 6 VLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPG-IGGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred HHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc-cCCeEEEEeCcHHHHHHHHHHHHH
Confidence 4455555554 688999999999999998766554432 345999999999999999999964
No 95
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=97.54 E-value=0.00096 Score=79.42 Aligned_cols=74 Identities=20% Similarity=0.286 Sum_probs=58.8
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEec
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~ 465 (779)
...+++-|.+||..++...-+++..|.|+|||.+.. +-.++ . .+.++|++|+..-+.+..+++...++.+..+.
T Consensus 11 ~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~--lpal~-~-~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~~ 84 (591)
T TIGR01389 11 YDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQ--VPALL-L-KGLTVVISPLISLMKDQVDQLRAAGVAAAYLN 84 (591)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHH--HHHHH-c-CCcEEEEcCCHHHHHHHHHHHHHcCCcEEEEe
Confidence 456899999999999987778999999999998753 22233 2 34789999999999888899988877665554
No 96
>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=97.54 E-value=0.00043 Score=84.03 Aligned_cols=66 Identities=14% Similarity=0.289 Sum_probs=48.3
Q ss_pred CHHHHHHHHHhh---c-CCeEEEEcCCCChHHHHHHHHHHHHHH-hC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 392 NASQVFAVKSVL---Q-RPISLIQGPPGTGKTVTSAAIVYHMAK-QG-QGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 392 N~sQ~~AV~~aL---~-~~l~LIqGPPGTGKT~tla~iI~~L~~-~~-~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
=+.|++.+..+. . .+..++.+|.|||||..+...+..... .+ ..+|..|+.|+.-..++.+-|.+.
T Consensus 12 y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~ 83 (705)
T TIGR00604 12 YPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKL 83 (705)
T ss_pred CHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhh
Confidence 357887666654 3 578999999999999665444333333 32 259999999999999998888763
No 97
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=97.53 E-value=2.6e-05 Score=78.13 Aligned_cols=47 Identities=26% Similarity=0.358 Sum_probs=31.9
Q ss_pred EEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHH
Q 004009 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (779)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (779)
+|.|+.|.|||+++...+.+++..+..+|+||||+-.++..+.+.+.
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~ 47 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAE 47 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC-
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHH
Confidence 58999999999999988888887776799999999999999987654
No 98
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.53 E-value=0.0004 Score=83.19 Aligned_cols=68 Identities=32% Similarity=0.395 Sum_probs=60.9
Q ss_pred CCCCCHHHHHHHHHhhcC----CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 388 LPELNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
.+.||..|..|+..+... ..+|++|.+|+|||-+-.++|...++.|+ .+|++.|--.-..++.+|+..
T Consensus 196 ~~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~Gk-qvLvLVPEI~Ltpq~~~rf~~ 267 (730)
T COG1198 196 WLALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGK-QVLVLVPEIALTPQLLARFKA 267 (730)
T ss_pred ccccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcCC-EEEEEeccccchHHHHHHHHH
Confidence 468999999999998764 67999999999999999999999999885 999999988888899988875
No 99
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.49 E-value=0.00035 Score=84.15 Aligned_cols=67 Identities=24% Similarity=0.309 Sum_probs=59.4
Q ss_pred CCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004009 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (779)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (779)
+-..|+-=.+..+....+-|.+|+|+||||..+.+...+...+ +|++++-||..-|.+..+||.+..
T Consensus 83 ~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~kg-kr~yii~PT~~Lv~Q~~~kl~~~~ 149 (1187)
T COG1110 83 PWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKKG-KRVYIIVPTTTLVRQVYERLKKFA 149 (1187)
T ss_pred chHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhcC-CeEEEEecCHHHHHHHHHHHHHHH
Confidence 3457998889999888899999999999999998888888777 599999999999999999998763
No 100
>PRK04296 thymidine kinase; Provisional
Probab=97.47 E-value=0.00036 Score=70.92 Aligned_cols=36 Identities=28% Similarity=0.480 Sum_probs=29.9
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
.+.+|.||||+|||+.+..++..+...+ .+|++..+
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~~g-~~v~i~k~ 38 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEERG-MKVLVFKP 38 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHcC-CeEEEEec
Confidence 3679999999999999999988887765 48888744
No 101
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.43 E-value=0.00013 Score=86.50 Aligned_cols=66 Identities=30% Similarity=0.384 Sum_probs=52.3
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCC---CcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQ---GQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~---~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.||.+|..++..- .+..-+|.| ||+|||.++.+.+.+++..+. .-|++.+.+|.|+|.+.+++...
T Consensus 13 ~l~~~q~~~~~~~-~~~~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~i 81 (853)
T KOG2108|consen 13 LLNKSQRFSALSP-LRRKRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIAI 81 (853)
T ss_pred hhhhhhhhhhcCC-Ccccceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHHH
Confidence 4777888766542 144557777 999999999999999887643 35999999999999999999753
No 102
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.42 E-value=0.00041 Score=82.34 Aligned_cols=68 Identities=31% Similarity=0.358 Sum_probs=57.3
Q ss_pred CCCHHHHHHHHHhhc-----CCeEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~-----~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.+-.-|..||.+... ++=.||+=.+|||||.|+.++|..|.+.+ .+|||.+|..|.-+++..+.....
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHh
Confidence 456789999988653 34488888999999999999999999885 468999999999999999876654
No 103
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.42 E-value=0.00056 Score=82.54 Aligned_cols=69 Identities=23% Similarity=0.319 Sum_probs=59.2
Q ss_pred CCCCCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHh---------CCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~---------~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+..||.-|..+...|.. +..+||.+|-|+|||.++.-.|.++++. +.-||..+||+.+-|-+++++..+
T Consensus 108 f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~k 186 (1230)
T KOG0952|consen 108 FEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSK 186 (1230)
T ss_pred HHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhh
Confidence 46799999999999886 6789999999999999988777777775 456899999999999998887754
No 104
>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=97.41 E-value=0.00028 Score=75.52 Aligned_cols=140 Identities=24% Similarity=0.290 Sum_probs=79.4
Q ss_pred HHHHHHHhhc-------------CCeEEEEcCCCChHHHHHHHHHHHHHHhCCC----cEEEEcCcHHHHHHHHHHHHhc
Q 004009 395 QVFAVKSVLQ-------------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQG----QVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 395 Q~~AV~~aL~-------------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~----rILV~ApSN~AVD~L~erL~~~ 457 (779)
|.+||...+. ..-.++.-.+|+|||.++..++..+...... ++||++|+ ..+.+....+.+.
T Consensus 2 Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~ 80 (299)
T PF00176_consen 2 QLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKW 80 (299)
T ss_dssp HHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhccc
Confidence 7777777643 2346778899999999999998877765432 49999999 6667777766654
Q ss_pred C----CeEEEeccccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccc
Q 004009 458 G----LKVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSAD 533 (779)
Q Consensus 458 ~----l~vvRl~~~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~ 533 (779)
. ++++.+...... ...........+
T Consensus 81 ~~~~~~~v~~~~~~~~~---------------------------------------------------~~~~~~~~~~~~ 109 (299)
T PF00176_consen 81 FDPDSLRVIIYDGDSER---------------------------------------------------RRLSKNQLPKYD 109 (299)
T ss_dssp SGT-TS-EEEESSSCHH---------------------------------------------------HHTTSSSCCCSS
T ss_pred ccccccccccccccccc---------------------------------------------------ccccccccccce
Confidence 2 344444322100 000001233455
Q ss_pred cceecccccC-------CccccCCCCCEEEEEcCCCCChhh-----hhhhhhcCCCeEEEEeCCCC
Q 004009 534 VICCTCVGAG-------DPRLANFRFRQVLIDESTQATEPE-----CLIPLVLGAKQVVLVGDHCQ 587 (779)
Q Consensus 534 VI~~T~~~a~-------~~~L~~~~Fd~VIIDEAsQatEpe-----~LipL~~~~~~lILVGD~~Q 587 (779)
++++|..... ...+...+|+.||||||..+.... .+..+ ....+++|-|-|-+
T Consensus 110 vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~~s~~~~~l~~l-~~~~~~lLSgTP~~ 174 (299)
T PF00176_consen 110 VVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNKDSKRYKALRKL-RARYRWLLSGTPIQ 174 (299)
T ss_dssp EEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTTTSHHHHHHHCC-CECEEEEE-SS-SS
T ss_pred eeeccccccccccccccccccccccceeEEEeccccccccccccccccccc-ccceEEeecccccc
Confidence 6666544333 123455679999999998874332 12222 23567888999877
No 105
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.40 E-value=0.00076 Score=82.70 Aligned_cols=62 Identities=18% Similarity=0.385 Sum_probs=46.4
Q ss_pred HHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+.+..|..++. ++..+|+||+|||||+.+...+..-.. ...+|+|+.|+..|+.++++++.+
T Consensus 8 ~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~-~~~~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 8 AVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGG-INGKIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCC-cCCeEEEECChHHHHHHHHHHHHH
Confidence 34555666664 678999999999999987644432211 235899999999999999999864
No 106
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=97.39 E-value=0.00065 Score=80.54 Aligned_cols=70 Identities=29% Similarity=0.293 Sum_probs=60.0
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGL 459 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~l 459 (779)
-.|-..|.+.+..|| ...++|..|-|.|||.+++.++...++- +.+||+++||+.--|.+-..++...+.
T Consensus 61 ~~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~ 131 (746)
T KOG0354|consen 61 LELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLI 131 (746)
T ss_pred ccccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccC
Confidence 457789999999999 7889999999999999999888876654 668999999999999888877765543
No 107
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.39 E-value=0.0017 Score=77.62 Aligned_cols=73 Identities=21% Similarity=0.311 Sum_probs=57.0
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEe
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRL 464 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl 464 (779)
...+.+.|.+|+..++...-.+|.+|.|+|||.+.. +-.+.. .+.+||++|+..-+.+..+++...++...-+
T Consensus 23 ~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~--lpal~~--~g~tlVisPl~sL~~dqv~~l~~~gi~~~~~ 95 (607)
T PRK11057 23 YQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQ--IPALVL--DGLTLVVSPLISLMKDQVDQLLANGVAAACL 95 (607)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHH--HHHHHc--CCCEEEEecHHHHHHHHHHHHHHcCCcEEEE
Confidence 346788999999999988888999999999996532 323333 3489999999999999999988777655433
No 108
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.39 E-value=0.0015 Score=84.08 Aligned_cols=64 Identities=19% Similarity=0.214 Sum_probs=50.3
Q ss_pred CCCCHHHHHHHHHhhcC--CeEEEEcCCC-ChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHH
Q 004009 389 PELNASQVFAVKSVLQR--PISLIQGPPG-TGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~--~l~LIqGPPG-TGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (779)
..++..|..|+..++.. .+.+|.|.-| ||||+++.+++..+-. .+.+|.++||++.|+..|.+.
T Consensus 280 ~~~~~~q~~Av~~il~dr~~v~iv~~~GgAtGKtt~l~~l~~~a~~-~G~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 280 VPRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMARE-QGREVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred cccchhHHHHHHHHhcCCCceEEEEecccccccHHHHHHHHHHHHh-CCcEEEEEeCCHHHHHHHHhc
Confidence 34788999999999974 4666666666 9999999977655444 455999999999999988754
No 109
>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=97.38 E-value=0.00082 Score=74.60 Aligned_cols=50 Identities=20% Similarity=0.397 Sum_probs=42.0
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.+|+||.|+|||.+....+...+.. ...++++++|+...++++.+++...
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHH
Confidence 6899999999999877666555433 4569999999999999999999875
No 110
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=97.37 E-value=0.00073 Score=72.93 Aligned_cols=76 Identities=20% Similarity=0.216 Sum_probs=62.6
Q ss_pred CCCHHHHHHHHHhhc----CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc--CCeEEE
Q 004009 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT--GLKVVR 463 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~----~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~--~l~vvR 463 (779)
.|++-|+.|-..+++ ..-+|||+--|+|||..+-..|.+.+++|. +|.+.+|--.-+-+|..||.+. +.++.-
T Consensus 97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~-~vciASPRvDVclEl~~Rlk~aF~~~~I~~ 175 (441)
T COG4098 97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGG-RVCIASPRVDVCLELYPRLKQAFSNCDIDL 175 (441)
T ss_pred ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcCC-eEEEecCcccchHHHHHHHHHhhccCCeee
Confidence 688999988777664 567999999999999999999988888875 9999999999999999999865 234554
Q ss_pred ecc
Q 004009 464 LCA 466 (779)
Q Consensus 464 l~~ 466 (779)
+.+
T Consensus 176 Lyg 178 (441)
T COG4098 176 LYG 178 (441)
T ss_pred Eec
Confidence 444
No 111
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=97.36 E-value=0.00085 Score=75.82 Aligned_cols=123 Identities=23% Similarity=0.236 Sum_probs=86.1
Q ss_pred CHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc-CC---eEEEeccc
Q 004009 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT-GL---KVVRLCAK 467 (779)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~-~l---~vvRl~~~ 467 (779)
-..|...+..++.. .+||.=|-|=|||.+++.++...+...+++||++|||.--|.+=++.+.+. ++ +++-+
T Consensus 17 R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~l--- 92 (542)
T COG1111 17 RLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAAL--- 92 (542)
T ss_pred HHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeee---
Confidence 35788888888755 789999999999999888777555443349999999999999988888653 11 11111
Q ss_pred cccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccccCCccc
Q 004009 468 SREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGAGDPRL 547 (779)
Q Consensus 468 sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a~~~~L 547 (779)
.|+.+... ..+....++|+++|....-+..+
T Consensus 93 --------------------------------------tGev~p~~-----------R~~~w~~~kVfvaTPQvveNDl~ 123 (542)
T COG1111 93 --------------------------------------TGEVRPEE-----------REELWAKKKVFVATPQVVENDLK 123 (542)
T ss_pred --------------------------------------cCCCChHH-----------HHHHHhhCCEEEeccHHHHhHHh
Confidence 11221111 12346788999999877655433
Q ss_pred ----cCCCCCEEEEEcCCCCChhh
Q 004009 548 ----ANFRFRQVLIDESTQATEPE 567 (779)
Q Consensus 548 ----~~~~Fd~VIIDEAsQatEpe 567 (779)
.-..|.++|+|||..++---
T Consensus 124 ~Grid~~dv~~lifDEAHRAvGny 147 (542)
T COG1111 124 AGRIDLDDVSLLIFDEAHRAVGNY 147 (542)
T ss_pred cCccChHHceEEEechhhhccCcc
Confidence 33479999999999988543
No 112
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=97.31 E-value=0.00085 Score=72.99 Aligned_cols=97 Identities=20% Similarity=0.310 Sum_probs=64.1
Q ss_pred EEeccccCCchHHHHHHHhhh-----cCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCcceeccCCCCCCCHHHH
Q 004009 618 IRLQVQYRMHPSLSEFPSNSF-----YEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTEA 692 (779)
Q Consensus 618 ~~L~~QYRmhp~I~~f~S~~F-----Y~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~EA 692 (779)
+.|++|||+++.|+++.|..| ....-........ .-...+.++.++...+ ...|+
T Consensus 1 i~L~~NyRS~~~Iv~~~N~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~------------~~~e~ 60 (351)
T PF13361_consen 1 ITLTTNYRSSPNIVDFANRLFENILPNDNKDRYEKEIQS--------AENSEDGKISIIEFDN------------EEEEA 60 (351)
T ss_dssp EEE-EESSS-HHHHHHHHHHHCC---TTSSSSCCCEEEE--------SSTCEESSEEEEEESS------------HHHHH
T ss_pred CCCCCCcCcCHHHHHHHHHHHHhhhhhhccchhhhhhcc--------ccccccCCceeeccCC------------HHHHH
Confidence 579999999999999999998 2211110000000 0001112333333322 23589
Q ss_pred HHHHHHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCC
Q 004009 693 ANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGA 734 (779)
Q Consensus 693 ~~V~~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~ 734 (779)
+.|.+.+.++...|+++++|+||++.+.|...|.+.|...+.
T Consensus 61 ~~i~~~I~~l~~~~~~~~diAVL~R~~~~~~~i~~~L~~~gI 102 (351)
T PF13361_consen 61 EYIAEEIKELIRNGIPPSDIAVLVRTNSQIKEIEDALKEAGI 102 (351)
T ss_dssp HHHHHHHHHHHHTTS-GGGEEEEESSGGHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHhhcCCCcccEEEEEECchhHHHHHHHHhhhcc
Confidence 999999999988899999999999999999999999988663
No 113
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.28 E-value=0.027 Score=66.35 Aligned_cols=250 Identities=20% Similarity=0.253 Sum_probs=146.4
Q ss_pred CCCHHHHHHHHHhhc---CC---eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc----CC
Q 004009 390 ELNASQVFAVKSVLQ---RP---ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT----GL 459 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~---l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~----~l 459 (779)
.|+..|+++++.+.. .+ .-||||-=|||||.+++-.++..+..|. ++.+.|||..-+.+-.+.+.+. ++
T Consensus 262 ~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~-Q~ALMAPTEILA~QH~~~~~~~l~~~~i 340 (677)
T COG1200 262 KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGY-QAALMAPTEILAEQHYESLRKWLEPLGI 340 (677)
T ss_pred CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCC-eeEEeccHHHHHHHHHHHHHHHhhhcCC
Confidence 699999999999875 22 2489999999999999888878787765 9999999999998888877653 44
Q ss_pred eEEEeccccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecc
Q 004009 460 KVVRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTC 539 (779)
Q Consensus 460 ~vvRl~~~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~ 539 (779)
.|.-+...-+ . .. .+...++-.-.+.++|+.|-
T Consensus 341 ~V~lLtG~~k--------------------g--k~-------------------------r~~~l~~l~~G~~~ivVGTH 373 (677)
T COG1200 341 RVALLTGSLK--------------------G--KA-------------------------RKEILEQLASGEIDIVVGTH 373 (677)
T ss_pred eEEEeecccc--------------------h--hH-------------------------HHHHHHHHhCCCCCEEEEcc
Confidence 4443322111 0 00 00111112234578898886
Q ss_pred cccCCccccCCCCCEEEEEcCCCCChhhhhhhhhcCCCeEEEEeCCCCCCceeechHHHHhccchhHHHHHHH-------
Q 004009 540 VGAGDPRLANFRFRQVLIDESTQATEPECLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGLAQSLFERLVL------- 612 (779)
Q Consensus 540 ~~a~~~~L~~~~Fd~VIIDEAsQatEpe~LipL~~~~~~lILVGD~~QLpPvv~s~~a~~~gl~~SLFeRLi~------- 612 (779)
.-..+.. .-.+.-+|||||=...--.+-+....+|.. -|.|| +++.-+-...|..+.|..|--
T Consensus 374 ALiQd~V-~F~~LgLVIiDEQHRFGV~QR~~L~~KG~~------~Ph~L---vMTATPIPRTLAlt~fgDldvS~IdElP 443 (677)
T COG1200 374 ALIQDKV-EFHNLGLVIIDEQHRFGVHQRLALREKGEQ------NPHVL---VMTATPIPRTLALTAFGDLDVSIIDELP 443 (677)
T ss_pred hhhhcce-eecceeEEEEeccccccHHHHHHHHHhCCC------CCcEE---EEeCCCchHHHHHHHhccccchhhccCC
Confidence 5433321 122577999999666666664444444432 23331 222111112233333333311
Q ss_pred CC-CccEEeccccCCchHHHHHHHhhhcCCcccccCccccccCCCCCCCCCCCCCCeEEEEeCCcceeccCCCCCCCHHH
Q 004009 613 LG-LKPIRLQVQYRMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPWPVPNRPMFFYVQMGQEEISASGTSYLNRTE 691 (779)
Q Consensus 613 ~g-~~~~~L~~QYRmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~p~~~~P~~f~~~~g~ee~~~~~~S~~N~~E 691 (779)
.| -+..+..+.....+.+.++..+..-+|+ -++|+..- -||.+ .-|
T Consensus 444 ~GRkpI~T~~i~~~~~~~v~e~i~~ei~~Gr------------------------QaY~VcPL-IeESE--------~l~ 490 (677)
T COG1200 444 PGRKPITTVVIPHERRPEVYERIREEIAKGR------------------------QAYVVCPL-IEESE--------KLE 490 (677)
T ss_pred CCCCceEEEEeccccHHHHHHHHHHHHHcCC------------------------EEEEEecc-ccccc--------cch
Confidence 13 2334566677888999998877664432 22333221 11111 124
Q ss_pred HHHHHHHHHHHHHCCCCCCeEEEEccc--HHHHHHHHHHHHH
Q 004009 692 AANVEKIVTTFLRSGVVPSQIGVITPY--EGQRAYIVNYMSR 731 (779)
Q Consensus 692 A~~V~~iV~~Ll~~gv~~~~IgIITPY--~~Qv~~L~~~L~~ 731 (779)
+..+......|. .-++.-.||++--- .++++.+.+.++.
T Consensus 491 l~~a~~~~~~L~-~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~ 531 (677)
T COG1200 491 LQAAEELYEELK-SFLPELKVGLVHGRMKPAEKDAVMEAFKE 531 (677)
T ss_pred hhhHHHHHHHHH-HHcccceeEEEecCCChHHHHHHHHHHHc
Confidence 555666666665 32445569999874 5688888877764
No 114
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.25 E-value=0.0018 Score=79.69 Aligned_cols=62 Identities=27% Similarity=0.358 Sum_probs=45.2
Q ss_pred CCCHHHHH---HHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHH
Q 004009 390 ELNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (779)
Q Consensus 390 ~LN~sQ~~---AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (779)
+.-+.|.+ +|..++. ....+|++|+|||||..-.-- .+......+|+|.|+|..-.+++..+
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp--~l~~~~~~~vvI~t~T~~Lq~Ql~~~ 310 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLP--LLAQSDQRQIIVSVPTKILQDQIMAE 310 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHH--HHHhcCCCcEEEEeCcHHHHHHHHHH
Confidence 34567877 7877776 457789999999999753322 22222346999999999999999643
No 115
>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=97.21 E-value=0.00037 Score=88.99 Aligned_cols=51 Identities=16% Similarity=0.287 Sum_probs=44.6
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhC--CCcEEEEcCcHHHHHHHHHHHHh
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~--~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..++|.+++|||||++++..+..++..+ ..+||++|+||.|+.+|.+||.+
T Consensus 11 ~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~ 63 (1141)
T TIGR02784 11 TSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFD 63 (1141)
T ss_pred CCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHH
Confidence 4578999999999999999888887653 46899999999999999999864
No 116
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=97.19 E-value=0.00077 Score=85.20 Aligned_cols=64 Identities=19% Similarity=0.379 Sum_probs=47.8
Q ss_pred HHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
+.+..|..++. ++.++|.|+||+||||-+-.++...-....++|+++-|-..|+-.+++|+.+.
T Consensus 70 ~~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~e 134 (1283)
T TIGR01967 70 AKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEE 134 (1283)
T ss_pred HHHHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHH
Confidence 34466666664 68999999999999997765554322112347898999999999999999763
No 117
>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=97.11 E-value=0.0016 Score=60.89 Aligned_cols=55 Identities=27% Similarity=0.399 Sum_probs=38.4
Q ss_pred HHHHHHHHHhhc---CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHH
Q 004009 393 ASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (779)
Q Consensus 393 ~sQ~~AV~~aL~---~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD 448 (779)
+.+..++...+. ....+|.||||||||+++..++.++... ..+++.+..+..+..
T Consensus 4 ~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~-~~~v~~~~~~~~~~~ 61 (151)
T cd00009 4 EEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP-GAPFLYLNASDLLEG 61 (151)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcC-CCCeEEEehhhhhhh
Confidence 455666666554 4678999999999999888888777643 346777766554443
No 118
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.10 E-value=0.0018 Score=80.91 Aligned_cols=62 Identities=26% Similarity=0.253 Sum_probs=44.7
Q ss_pred CHHHHH---HHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHH
Q 004009 392 NASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (779)
Q Consensus 392 N~sQ~~---AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (779)
-+.|.+ +|..++. ....+|.+|+|||||..=.--+.......+++|+|.|+|..--++|..+
T Consensus 259 R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 259 REGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHh
Confidence 357776 6777776 4677899999999997532212222333456999999999999999875
No 119
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=97.08 E-value=0.0062 Score=73.87 Aligned_cols=60 Identities=25% Similarity=0.292 Sum_probs=43.7
Q ss_pred HHHHH---HHHHhhcC------CeEEEEcCCCChHHHH-HHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHH
Q 004009 393 ASQVF---AVKSVLQR------PISLIQGPPGTGKTVT-SAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (779)
Q Consensus 393 ~sQ~~---AV~~aL~~------~l~LIqGPPGTGKT~t-la~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (779)
+.|.+ +|..++.. ...+|.+|.|||||.- ++-.++. ....+++|+|.|.|..--++|..+
T Consensus 28 ~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~-A~~~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 28 AGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPI-ARAEKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred HHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHH-HHHcCCeEEEEcCCHHHHHHHHhh
Confidence 57776 77777765 6789999999999964 1222222 233456999999999999999765
No 120
>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=97.07 E-value=0.0018 Score=80.28 Aligned_cols=62 Identities=31% Similarity=0.318 Sum_probs=44.3
Q ss_pred CCHHHHH---HHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHH
Q 004009 391 LNASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (779)
Q Consensus 391 LN~sQ~~---AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (779)
..+.|.+ +|..++. ....+|.+|+|||||..-..-+...+. .+.+|+|.|+|..-.+++..+
T Consensus 246 ~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 246 YRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-TEKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred cCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-CCCeEEEEeCcHHHHHHHHHH
Confidence 4568886 5555554 467889999999999764333223333 456999999999988898764
No 121
>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=97.05 E-value=0.001 Score=66.54 Aligned_cols=52 Identities=27% Similarity=0.422 Sum_probs=40.9
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~ 460 (779)
.++|.||||||||+.+..+++..++.+. ++++.+.. ...+++.+++...|.+
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~-~v~~~s~e-~~~~~~~~~~~~~g~~ 52 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLARGE-PGLYVTLE-ESPEELIENAESLGWD 52 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHCCC-cEEEEECC-CCHHHHHHHHHHcCCC
Confidence 3689999999999999999998887764 88888764 4567777777665543
No 122
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=97.05 E-value=0.0043 Score=70.93 Aligned_cols=53 Identities=30% Similarity=0.403 Sum_probs=35.4
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE-cCcH--HHHHHHHHHHHhcCCe
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC-APSN--VAVDQLAEKISATGLK 460 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~-ApSN--~AVD~L~erL~~~~l~ 460 (779)
+.++.|+||+|||||++.++.++.+.+. +|+++ +.+. .|.+++..-....++.
T Consensus 97 vI~lvG~~GsGKTTtaakLA~~L~~~g~-kV~lV~~D~~R~aa~eQL~~la~~~gvp 152 (437)
T PRK00771 97 TIMLVGLQGSGKTTTAAKLARYFKKKGL-KVGLVAADTYRPAAYDQLKQLAEKIGVP 152 (437)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEecCCCCCHHHHHHHHHHHHHcCCc
Confidence 5788999999999999999988876654 66554 4432 3445554433333333
No 123
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=97.04 E-value=0.003 Score=68.24 Aligned_cols=36 Identities=28% Similarity=0.472 Sum_probs=29.6
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcC
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~Ap 442 (779)
+.+|.||.|+|||||++.++..+... +..+|.+++-
T Consensus 196 vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 67899999999999999999888776 5457766653
No 124
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.02 E-value=0.0031 Score=70.51 Aligned_cols=48 Identities=25% Similarity=0.364 Sum_probs=34.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcH---HHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSN---VAVDQLAE 452 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN---~AVD~L~e 452 (779)
..++++.||+|+|||||++.++..++.. +..+|.+++.-. .|++++..
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~ 188 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRI 188 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHH
Confidence 3588999999999999999999887654 445776665322 25555543
No 125
>PRK12377 putative replication protein; Provisional
Probab=97.00 E-value=0.0022 Score=68.00 Aligned_cols=49 Identities=31% Similarity=0.439 Sum_probs=35.9
Q ss_pred CHHHHHHHHHhhc--------CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 392 NASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 392 N~sQ~~AV~~aL~--------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
++.|..|+..+.. ....+|+||||||||+.+.+++..+.+.+. +|++++
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~-~v~~i~ 136 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGR-SVIVVT 136 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCC-CeEEEE
Confidence 4567666654431 246789999999999999999998887654 665553
No 126
>PRK08181 transposase; Validated
Probab=97.00 E-value=0.0027 Score=68.14 Aligned_cols=62 Identities=31% Similarity=0.463 Sum_probs=46.7
Q ss_pred CCCCCHHHHHHHHHhh----cCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHH
Q 004009 388 LPELNASQVFAVKSVL----QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL----~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (779)
.+.++..|..++..+- .....+|.||||||||+.+..+..++++.+ .+|+.+. +.++.+.|.
T Consensus 85 ~~~~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g-~~v~f~~-----~~~L~~~l~ 150 (269)
T PRK08181 85 VPMVSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIENG-WRVLFTR-----TTDLVQKLQ 150 (269)
T ss_pred CCCCCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcC-Cceeeee-----HHHHHHHHH
Confidence 4678999999987652 245689999999999999999998888775 4777665 244555553
No 127
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.99 E-value=0.0032 Score=70.87 Aligned_cols=55 Identities=20% Similarity=0.225 Sum_probs=36.9
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHh---CCCcEE-EEcCc--HHHHHHHHHHHHhcCCe
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVL-VCAPS--NVAVDQLAEKISATGLK 460 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rIL-V~ApS--N~AVD~L~erL~~~~l~ 460 (779)
.+.++.||+|+|||||++.++.++... .+.+|+ +.+.+ ..|++++.......+++
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvp 235 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIP 235 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcc
Confidence 468899999999999999999877643 234665 44555 55666644433334444
No 128
>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=96.98 E-value=0.0019 Score=66.09 Aligned_cols=57 Identities=30% Similarity=0.411 Sum_probs=41.6
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcE-EEEcCcH--HHHHHHHHHHHhcCCeEEEe
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV-LVCAPSN--VAVDQLAEKISATGLKVVRL 464 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rI-LV~ApSN--~AVD~L~erL~~~~l~vvRl 464 (779)
+.++.||+|+|||||++.+++++..++ .+| |+++.+. .|+++|..-....++++...
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~~-~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~ 62 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLKG-KKVALISADTYRIGAVEQLKTYAEILGVPFYVA 62 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEEESTSSTHHHHHHHHHHHHHTEEEEES
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhcc-ccceeecCCCCCccHHHHHHHHHHHhccccchh
Confidence 568899999999999999999998884 465 5555554 67888766555556665543
No 129
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.96 E-value=0.0039 Score=69.82 Aligned_cols=54 Identities=24% Similarity=0.399 Sum_probs=38.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEE-EcCcHH--HHHHHHHHHHhcCCe
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV-CAPSNV--AVDQLAEKISATGLK 460 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV-~ApSN~--AVD~L~erL~~~~l~ 460 (779)
...+|.||+|+||||+++.++..+...+. +|++ .+.+.. |++++.......++.
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~Gk-kVglI~aDt~RiaAvEQLk~yae~lgip 298 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKK-TVGFITTDHSRIGTVQQLQDYVKTIGFE 298 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCC-cEEEEecCCcchHHHHHHHHHhhhcCCc
Confidence 46789999999999999999998876654 6654 444543 777777654444443
No 130
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=96.94 E-value=0.007 Score=67.63 Aligned_cols=59 Identities=22% Similarity=0.385 Sum_probs=46.4
Q ss_pred HHHHHHHhhcC--CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 395 QVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 395 Q~~AV~~aL~~--~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
|.+|+..+... +..+|.+|+|+|||......+. . ...+.++++|++..+++..+++.+.
T Consensus 2 Q~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l---~-~~~~~~~~~P~~aL~~~~~~~~~~~ 62 (357)
T TIGR03158 2 QVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLL---H-GENDTIALYPTNALIEDQTEAIKEF 62 (357)
T ss_pred HHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHH---H-cCCCEEEEeChHHHHHHHHHHHHHH
Confidence 88899888864 4689999999999987543222 2 2348899999999999999988764
No 131
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.92 E-value=0.0022 Score=67.77 Aligned_cols=59 Identities=27% Similarity=0.380 Sum_probs=43.4
Q ss_pred CCHHHHHHHHHhhc------C--CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHH
Q 004009 391 LNASQVFAVKSVLQ------R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (779)
Q Consensus 391 LN~sQ~~AV~~aL~------~--~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (779)
.++.|+.|+..+.. . ..+++.||||||||+.+..++.++.+.+. +|++++ +.++..++.
T Consensus 77 ~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~-~v~~it-----~~~l~~~l~ 143 (244)
T PRK07952 77 ECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGK-SVLIIT-----VADIMSAMK 143 (244)
T ss_pred CCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCC-eEEEEE-----HHHHHHHHH
Confidence 35678777766543 1 46899999999999999999999888754 787773 344555553
No 132
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=96.92 E-value=0.0031 Score=76.70 Aligned_cols=68 Identities=19% Similarity=0.166 Sum_probs=49.2
Q ss_pred CCHHHHHHHHHhhcCC-eEEEEcCCCChHHHHHHHHHHHHHHh--CCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004009 391 LNASQVFAVKSVLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISATG 458 (779)
Q Consensus 391 LN~sQ~~AV~~aL~~~-l~LIqGPPGTGKT~tla~iI~~L~~~--~~~rILV~ApSN~AVD~L~erL~~~~ 458 (779)
.++-|.+++..++... ..+++.|.|||||.+++.-+..+... ...++++++|+..-|+++.+.+.+.+
T Consensus 16 PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~ 86 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIG 86 (844)
T ss_pred CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHHH
Confidence 4678999999998754 68889999999998654222222111 22356668899999999999887653
No 133
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=96.83 E-value=0.013 Score=72.97 Aligned_cols=72 Identities=24% Similarity=0.374 Sum_probs=53.3
Q ss_pred CCCCHHHHHHHHHhhcC--CeEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEEEcCcHHHHHHHHHHH-HhcCCeE
Q 004009 389 PELNASQVFAVKSVLQR--PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKI-SATGLKV 461 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~--~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL-~~~~l~v 461 (779)
..|-+.|..++..++.. +-+||-=..|.|||..+..++.+++..+ .++|||++|+.- +.+-...+ .+.++.+
T Consensus 151 ~~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL-~~QW~~El~~kF~l~~ 226 (956)
T PRK04914 151 ASLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETL-QHQWLVEMLRRFNLRF 226 (956)
T ss_pred CCCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHH-HHHHHHHHHHHhCCCe
Confidence 35788999999887753 4578999999999999988888877665 369999999854 44544444 3344443
No 134
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.82 E-value=0.0069 Score=73.91 Aligned_cols=66 Identities=17% Similarity=0.189 Sum_probs=49.6
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
++.+.|.+++-.++...=.+.+.+.|||||.+.+--++.-+..+ ..++|++||..-+.+..+-+..
T Consensus 92 ~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g-~~v~IVTpTrELA~Qdae~m~~ 157 (970)
T PRK12899 92 DMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTG-KPVHLVTVNDYLAQRDCEWVGS 157 (970)
T ss_pred CCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhc-CCeEEEeCCHHHHHHHHHHHHH
Confidence 47889999888777655578999999999988765444322233 3699999999888887776654
No 135
>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=96.80 E-value=0.0013 Score=78.61 Aligned_cols=55 Identities=29% Similarity=0.409 Sum_probs=49.2
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l 459 (779)
+++.+|.+|=|||||+.+...+.+.+..+..+||+++.-+.-+.++++|+...++
T Consensus 49 ~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~l 103 (824)
T PF02399_consen 49 RGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAGL 103 (824)
T ss_pred CCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcCC
Confidence 6889999999999999988888777767778999999999999999999987765
No 136
>COG4889 Predicted helicase [General function prediction only]
Probab=96.78 E-value=0.0072 Score=71.92 Aligned_cols=62 Identities=27% Similarity=0.258 Sum_probs=47.6
Q ss_pred CCCCHHHHHHHHHhhc----C-CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHH
Q 004009 389 PELNASQVFAVKSVLQ----R-PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~----~-~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL 454 (779)
..+-+.|..|+..++. + +=-||.+ +|||||+|+..|...|.+ .+||.++||=.-.-+-+...
T Consensus 160 kk~R~hQq~Aid~a~~~F~~n~RGkLIMA-cGTGKTfTsLkisEala~---~~iL~LvPSIsLLsQTlrew 226 (1518)
T COG4889 160 KKPRPHQQTAIDAAKEGFSDNDRGKLIMA-CGTGKTFTSLKISEALAA---ARILFLVPSISLLSQTLREW 226 (1518)
T ss_pred CCCChhHHHHHHHHHhhcccccCCcEEEe-cCCCccchHHHHHHHHhh---hheEeecchHHHHHHHHHHH
Confidence 4678899999999874 1 2235554 799999999998888776 69999999987766655444
No 137
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.77 E-value=0.0069 Score=69.18 Aligned_cols=47 Identities=32% Similarity=0.414 Sum_probs=32.9
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHH-HhCCCcEEEE-cCcHH--HHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVC-APSNV--AVDQLAE 452 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~-~~~~~rILV~-ApSN~--AVD~L~e 452 (779)
.+.++.||+|+|||||++.++..+. ..++.+|+++ +.+.. |++++..
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~ 272 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKT 272 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHH
Confidence 3678899999999999999998887 4444566554 44433 4444443
No 138
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=96.74 E-value=0.012 Score=68.85 Aligned_cols=70 Identities=26% Similarity=0.277 Sum_probs=53.9
Q ss_pred CCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHH-HHHHHHHHH--hCCCc-EEEEcCcHHHHHHHHHHHHhc
Q 004009 388 LPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAK--QGQGQ-VLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tl-a~iI~~L~~--~~~~r-ILV~ApSN~AVD~L~erL~~~ 457 (779)
+...++-|..||-.+|...-.+++++.|||||..- .-++..+.. ..... .||++||...+.++.+-+...
T Consensus 49 f~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~ 122 (513)
T COG0513 49 FEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKL 122 (513)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHH
Confidence 34568899999999999888899999999997553 344555442 22222 899999999999999888654
No 139
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=96.74 E-value=0.01 Score=71.63 Aligned_cols=67 Identities=22% Similarity=0.238 Sum_probs=49.5
Q ss_pred CCHHHHHHHH---HhhcCC-eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 391 LNASQVFAVK---SVLQRP-ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 391 LN~sQ~~AV~---~aL~~~-l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.-+.|++.+. .++.++ ..+|++|.|||||......+.......+.+|++++.|+..-+++.++....
T Consensus 16 ~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 16 PRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcch
Confidence 3457766554 455544 599999999999987655544444444579999999999999999987653
No 140
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=96.74 E-value=0.0044 Score=68.75 Aligned_cols=42 Identities=17% Similarity=0.298 Sum_probs=32.1
Q ss_pred CCEEEEEcCCCCChhh--hhhhhhcCCCeEEEEeCCCCCCceeec
Q 004009 552 FRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVIMC 594 (779)
Q Consensus 552 Fd~VIIDEAsQatEpe--~LipL~~~~~~lILVGD~~QLpPvv~s 594 (779)
=.+++|||.....-.+ .++|..- ...++|||=.-.=|.+..+
T Consensus 105 ~tiLflDEIHRfnK~QQD~lLp~vE-~G~iilIGATTENPsF~ln 148 (436)
T COG2256 105 RTILFLDEIHRFNKAQQDALLPHVE-NGTIILIGATTENPSFELN 148 (436)
T ss_pred ceEEEEehhhhcChhhhhhhhhhhc-CCeEEEEeccCCCCCeeec
Confidence 3468999998888766 7888764 5789999998886665443
No 141
>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=96.74 E-value=0.0081 Score=72.49 Aligned_cols=64 Identities=17% Similarity=0.287 Sum_probs=44.4
Q ss_pred CCHHHHHHHHHhh-cCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 391 LNASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 391 LN~sQ~~AV~~aL-~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+-+.|.+++.... ..+ .+++-+.|+|||.|.+--++.....+ ..|+|+||+..-+.+.++.+..
T Consensus 69 lrpydVQlig~l~l~~G-~Iaem~TGeGKTLta~Lpa~l~aL~g-~~V~VVTpn~yLA~Rdae~m~~ 133 (762)
T TIGR03714 69 MFPYDVQVLGAIVLHQG-NIAEMKTGEGKTLTATMPLYLNALTG-KGAMLVTTNDYLAKRDAEEMGP 133 (762)
T ss_pred CCccHHHHHHHHHhcCC-ceeEecCCcchHHHHHHHHHHHhhcC-CceEEeCCCHHHHHHHHHHHHH
Confidence 4445555554433 345 69999999999998765544333334 4899999999888888877643
No 142
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=96.74 E-value=0.009 Score=71.17 Aligned_cols=63 Identities=22% Similarity=0.160 Sum_probs=50.3
Q ss_pred CCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..+-|..++-.++... +.+...|+|||.+.+-.++.....+ ..++|+|||..-+.+..+-+..
T Consensus 104 p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~G-~~v~VvTptreLA~qdae~~~~ 166 (656)
T PRK12898 104 HFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALAG-LPVHVITVNDYLAERDAELMRP 166 (656)
T ss_pred CChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhcC-CeEEEEcCcHHHHHHHHHHHHH
Confidence 4578999988887666 8899999999998876665544444 5999999999999888877654
No 143
>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=96.74 E-value=0.0011 Score=61.28 Aligned_cols=43 Identities=30% Similarity=0.570 Sum_probs=31.0
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD 448 (779)
....+|.||||||||+++..++..+.... ..+++++.+.....
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~~~~~~~~~ 44 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG-GGVIYIDGEDILEE 44 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCC-CCEEEECCEEcccc
Confidence 35689999999999999988887765443 25666666554433
No 144
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.74 E-value=0.0031 Score=79.72 Aligned_cols=63 Identities=17% Similarity=0.361 Sum_probs=45.4
Q ss_pred HHHHHHHHhh-cCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 394 SQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 394 sQ~~AV~~aL-~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..++.|..++ .+++++|.|++||||||.+-.++..+-....++|.++-|-..|+-.++.|+.+
T Consensus 77 ~~r~~Il~ai~~~~VviI~GeTGSGKTTqlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~ 140 (1294)
T PRK11131 77 QKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAE 140 (1294)
T ss_pred HHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHH
Confidence 3345555555 47899999999999999765554432111234688888999999999999875
No 145
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=96.70 E-value=0.0017 Score=69.54 Aligned_cols=27 Identities=44% Similarity=0.615 Sum_probs=23.2
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
-+.+|.+||||||||.|+....++|.-
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 368999999999999999888887753
No 146
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=96.67 E-value=0.0033 Score=68.58 Aligned_cols=28 Identities=39% Similarity=0.647 Sum_probs=19.1
Q ss_pred HHHHHHHhhc---CCeEEEEcCCCChHHHHH
Q 004009 395 QVFAVKSVLQ---RPISLIQGPPGTGKTVTS 422 (779)
Q Consensus 395 Q~~AV~~aL~---~~l~LIqGPPGTGKT~tl 422 (779)
|.-.++..+. -+..++|||||||||+.+
T Consensus 149 q~gllrs~ieq~~ipSmIlWGppG~GKTtlA 179 (554)
T KOG2028|consen 149 QDGLLRSLIEQNRIPSMILWGPPGTGKTTLA 179 (554)
T ss_pred cchHHHHHHHcCCCCceEEecCCCCchHHHH
Confidence 3344444443 256788999999999854
No 147
>PRK06526 transposase; Provisional
Probab=96.67 E-value=0.004 Score=66.33 Aligned_cols=52 Identities=23% Similarity=0.400 Sum_probs=38.8
Q ss_pred CCCCCHHHHHHHHHh---hcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 388 LPELNASQVFAVKSV---LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~a---L~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
.+.++..|...+... -.....+|.||||||||+++..+...+++.+. +|++.
T Consensus 78 ~~~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~-~v~f~ 132 (254)
T PRK06526 78 QRSLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQAGH-RVLFA 132 (254)
T ss_pred CCCcchHHHHHHhcCchhhcCceEEEEeCCCCchHHHHHHHHHHHHHCCC-chhhh
Confidence 356888777665432 12456899999999999999999988887654 66553
No 148
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.66 E-value=0.0051 Score=71.83 Aligned_cols=46 Identities=24% Similarity=0.345 Sum_probs=29.7
Q ss_pred CCCCEEEEEcCCCCChhh--hhhhhh-cC--CCeEEEE-eCCCCCCceeech
Q 004009 550 FRFRQVLIDESTQATEPE--CLIPLV-LG--AKQVVLV-GDHCQLGPVIMCK 595 (779)
Q Consensus 550 ~~Fd~VIIDEAsQatEpe--~LipL~-~~--~~~lILV-GD~~QLpPvv~s~ 595 (779)
.+|+++||||+.+.+... .|+-.. .. ...+||+ -|+..+++++.+.
T Consensus 118 ~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SR 169 (509)
T PRK14958 118 GRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSR 169 (509)
T ss_pred CCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHH
Confidence 378999999999988644 233322 12 2345554 5888888887653
No 149
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=96.65 E-value=0.021 Score=74.72 Aligned_cols=62 Identities=23% Similarity=0.292 Sum_probs=46.5
Q ss_pred CCHHHHHHHHHhhcC--CeEEEEcCCCC-hHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHH
Q 004009 391 LNASQVFAVKSVLQR--PISLIQGPPGT-GKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (779)
Q Consensus 391 LN~sQ~~AV~~aL~~--~l~LIqGPPGT-GKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (779)
.+..|.+|+..+++. .+.+|+|+.|. |+++++.+++ .++...+.+|.++|||+.|+..|.+.
T Consensus 414 ~~~~~~~av~~~~q~~~~~~il~g~~G~aG~g~~l~~l~-~~a~~~G~~V~glAPt~~a~~~L~~~ 478 (1747)
T PRK13709 414 RTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELV-MMAREQGREVQILAADRRSQMNLKQD 478 (1747)
T ss_pred cchhhhHHHHHHhcccCcEEEEEcCCcchHHHHHHHHHH-HHHHhCCcEEEEEeCcHHHHHHHHHh
Confidence 356888999988764 57889988884 6665555544 44455556999999999999988754
No 150
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=96.56 E-value=0.0085 Score=70.89 Aligned_cols=44 Identities=25% Similarity=0.499 Sum_probs=38.4
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (779)
...+|.|-+|||||+.+..+...+ +.+|+++|.+|+.|+-.+|.
T Consensus 72 s~~~itG~AGsGKst~i~~l~~~l------~cvitg~T~vAAqN~~~~L~ 115 (828)
T PHA03311 72 SVYLITGTAGAGKSTSIQTLNENL------DCVITGATRVAAQNLSAKLS 115 (828)
T ss_pred EEEEEecCCCCChHHHHHHHHHhc------CEEEEcchHHHHHhhhcccc
Confidence 457999999999999887776554 78899999999999998886
No 151
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.55 E-value=0.0072 Score=69.48 Aligned_cols=24 Identities=25% Similarity=0.469 Sum_probs=19.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
.+|+.||||||||+++..++..+.
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~Ln 65 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKRLN 65 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcC
Confidence 469999999999998877776653
No 152
>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=96.52 E-value=0.0053 Score=63.75 Aligned_cols=54 Identities=31% Similarity=0.569 Sum_probs=40.9
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK 460 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~l~ 460 (779)
..++||.||||||||+.+...++.-+++ +. +++.++.... .+++.+++.+.+.+
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge-~vlyvs~ee~-~~~l~~~~~s~g~d 73 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGE-KVLYVSFEEP-PEELIENMKSFGWD 73 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT---EEEEESSS--HHHHHHHHHTTTS-
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCC-cEEEEEecCC-HHHHHHHHHHcCCc
Confidence 4679999999999999999999888777 65 8888886444 47888888776543
No 153
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=96.49 E-value=0.0073 Score=64.98 Aligned_cols=56 Identities=36% Similarity=0.518 Sum_probs=39.7
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc-C--cHHHHHHHHHHHHhcCCeEE
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-P--SNVAVDQLAEKISATGLKVV 462 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A-p--SN~AVD~L~erL~~~~l~vv 462 (779)
.+.++.||||+|||||++.++..+.+.+. +|++++ . ...|++++.......++.++
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~~g~-~V~li~~D~~r~~a~~ql~~~~~~~~i~~~ 131 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKKQGK-SVLLAAGDTFRAAAIEQLEEWAKRLGVDVI 131 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCC-EEEEEeCCCCCHHHHHHHHHHHHhCCeEEE
Confidence 35667799999999999999988876654 776654 3 34456777665555555544
No 154
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=96.48 E-value=0.0069 Score=72.22 Aligned_cols=45 Identities=24% Similarity=0.335 Sum_probs=29.5
Q ss_pred CCCEEEEEcCCCCChhh--hhhhhh-cCCCeEEEEe---CCCCCCceeech
Q 004009 551 RFRQVLIDESTQATEPE--CLIPLV-LGAKQVVLVG---DHCQLGPVIMCK 595 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~-~~~~~lILVG---D~~QLpPvv~s~ 595 (779)
+|.++||||+.+++... .|+... ....+++++. |+..|+|+|.|.
T Consensus 119 ~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SR 169 (647)
T PRK07994 119 RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR 169 (647)
T ss_pred CCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhh
Confidence 78999999999988754 333332 2234444444 666788887753
No 155
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=96.43 E-value=0.011 Score=71.01 Aligned_cols=45 Identities=18% Similarity=0.322 Sum_probs=28.7
Q ss_pred CCCEEEEEcCCCCChhh--hhhhhhc---CCCeEEEEe-CCCCCCceeech
Q 004009 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVG-DHCQLGPVIMCK 595 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~---~~~~lILVG-D~~QLpPvv~s~ 595 (779)
+|+++||||+..++... .|+-... ...++||+. |..+++++|.|.
T Consensus 119 r~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSR 169 (830)
T PRK07003 119 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSR 169 (830)
T ss_pred CceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhh
Confidence 68999999999988643 3333321 123566654 555688887653
No 156
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=96.43 E-value=0.0032 Score=59.00 Aligned_cols=52 Identities=27% Similarity=0.464 Sum_probs=33.2
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHh-----CCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~-----~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+...+|.||||+|||+++..++..+... ...-+.+.++.......+...+..
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 60 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILE 60 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHH
Confidence 4678999999999999999999887653 232344455544445666665543
No 157
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=96.37 E-value=0.022 Score=57.11 Aligned_cols=37 Identities=24% Similarity=0.326 Sum_probs=32.0
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
.++..|.+++|.|||+.+..++.+.+..+. +|+++=+
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~-~v~ivQF 41 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGK-KVGVIQF 41 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCC-eEEEEEE
Confidence 578999999999999999999998888775 9988733
No 158
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.36 E-value=0.03 Score=69.88 Aligned_cols=73 Identities=15% Similarity=0.196 Sum_probs=56.6
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEec
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~ 465 (779)
..|.+-|.+||..++...-+++..|.|+|||.+-. +-.|+ .+ +..||++|+...+.+...+|...+++...+.
T Consensus 459 ~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQ--LPAL~-~~-GiTLVISPLiSLmqDQV~~L~~~GI~Aa~L~ 531 (1195)
T PLN03137 459 HSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQ--LPALI-CP-GITLVISPLVSLIQDQIMNLLQANIPAASLS 531 (1195)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHH--HHHHH-cC-CcEEEEeCHHHHHHHHHHHHHhCCCeEEEEE
Confidence 46889999999999988889999999999996532 22222 23 4899999999998777777877777665553
No 159
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.36 E-value=0.0098 Score=70.40 Aligned_cols=45 Identities=18% Similarity=0.328 Sum_probs=29.9
Q ss_pred CCCEEEEEcCCCCChhh--hhhhhh-c--CCCeEEEEe-CCCCCCceeech
Q 004009 551 RFRQVLIDESTQATEPE--CLIPLV-L--GAKQVVLVG-DHCQLGPVIMCK 595 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~-~--~~~~lILVG-D~~QLpPvv~s~ 595 (779)
+|.++||||+.+++... .|+-.. . +.-.+||+. |+.+|+|+|.|.
T Consensus 124 r~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSR 174 (700)
T PRK12323 124 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR 174 (700)
T ss_pred CceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHH
Confidence 68999999999988654 222222 1 223677765 456788888764
No 160
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.33 E-value=0.0063 Score=64.80 Aligned_cols=51 Identities=27% Similarity=0.341 Sum_probs=37.4
Q ss_pred CCHHHHHHHHHhhc-------CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 391 LNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 391 LN~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
.+..++.|+..+.. ..-.++.||||||||+.++++...+++.+. +|++++.
T Consensus 84 ~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~-sv~f~~~ 141 (254)
T COG1484 84 QPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELLKAGI-SVLFITA 141 (254)
T ss_pred CcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEEEH
Confidence 34456666655532 346789999999999999999999995444 7776653
No 161
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=96.27 E-value=0.048 Score=53.97 Aligned_cols=59 Identities=15% Similarity=0.197 Sum_probs=42.7
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC----cHHHHHHHHHHHHhcCCeEEEecc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP----SNVAVDQLAEKISATGLKVVRLCA 466 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap----SN~AVD~L~erL~~~~l~vvRl~~ 466 (779)
.++..|.+++|+|||+.+..+..+.+.++. +|+++=+ ....=.++++++ .++.+.|++.
T Consensus 2 ~G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~-~v~~vQFlKg~~~~gE~~~l~~l--~~v~~~~~g~ 64 (159)
T cd00561 2 KGLIQVYTGNGKGKTTAALGLALRALGHGY-RVGVVQFLKGGWKYGELKALERL--PNIEIHRMGR 64 (159)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEEEeCCCCccCHHHHHHhC--CCcEEEECCC
Confidence 467889999999999999999888888765 8888432 123334555555 2577777765
No 162
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.26 E-value=0.0076 Score=73.52 Aligned_cols=25 Identities=24% Similarity=0.308 Sum_probs=20.5
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
..+|+.||||||||+++..++..|.
T Consensus 39 HAyLFtGPpGtGKTTLARiLAk~Ln 63 (944)
T PRK14949 39 HAYLFTGTRGVGKTSLARLFAKGLN 63 (944)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhcc
Confidence 3568999999999998877776664
No 163
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=96.26 E-value=0.011 Score=65.10 Aligned_cols=55 Identities=31% Similarity=0.453 Sum_probs=38.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc-Cc--HHHHHHHHHHHHhcCCeEE
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA-PS--NVAVDQLAEKISATGLKVV 462 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A-pS--N~AVD~L~erL~~~~l~vv 462 (779)
+.++.||||+|||||++.++..+...+. +|++++ .+ ..|++++.......++.++
T Consensus 116 vi~lvGpnGsGKTTt~~kLA~~l~~~g~-~V~Li~~D~~r~~a~eql~~~a~~~~i~~~ 173 (318)
T PRK10416 116 VILVVGVNGVGKTTTIGKLAHKYKAQGK-KVLLAAGDTFRAAAIEQLQVWGERVGVPVI 173 (318)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHhcCC-eEEEEecCccchhhHHHHHHHHHHcCceEE
Confidence 6778999999999999999988876654 777654 44 3456776655444455443
No 164
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=96.24 E-value=0.032 Score=64.19 Aligned_cols=36 Identities=22% Similarity=0.171 Sum_probs=28.4
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcC
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~Ap 442 (779)
..+|.||||+|||+.+..+...+.+. +..+|+.++.
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 57999999999999998888887765 3446776653
No 165
>PRK08116 hypothetical protein; Validated
Probab=96.19 E-value=0.017 Score=62.07 Aligned_cols=34 Identities=32% Similarity=0.419 Sum_probs=28.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
..+|+|+||||||+.+..++..+.+.+ .+|+++.
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~~-~~v~~~~ 149 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEKG-VPVIFVN 149 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcC-CeEEEEE
Confidence 478999999999999999999988774 4676664
No 166
>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=96.19 E-value=0.0061 Score=62.35 Aligned_cols=37 Identities=32% Similarity=0.562 Sum_probs=28.6
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
+++.+|.||+|+||||++..++..+......+|+..-
T Consensus 1 ~GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 1 RGLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 4789999999999999998888777654444665543
No 167
>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=96.19 E-value=0.0071 Score=63.58 Aligned_cols=54 Identities=24% Similarity=0.385 Sum_probs=42.5
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~ 460 (779)
..+++|.||||||||+.+..+++..++++ .++++++.. ...+++.+++...+.+
T Consensus 21 gs~~lI~G~pGsGKT~la~~~l~~~~~~g-e~~lyvs~e-e~~~~i~~~~~~~g~~ 74 (237)
T TIGR03877 21 RNVVLLSGGPGTGKSIFSQQFLWNGLQMG-EPGIYVALE-EHPVQVRRNMAQFGWD 74 (237)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcC-CcEEEEEee-CCHHHHHHHHHHhCCC
Confidence 45789999999999999999888777665 488888854 5677788887766543
No 168
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.16 E-value=0.055 Score=67.85 Aligned_cols=149 Identities=17% Similarity=0.267 Sum_probs=91.4
Q ss_pred CCCHHHHHHHHHhhc---CC-eEEEEcCCCChHHHHHHHHHHHHHHh--CCCcEEEEcCcHHHHHHHHHHHHhcC--CeE
Q 004009 390 ELNASQVFAVKSVLQ---RP-ISLIQGPPGTGKTVTSAAIVYHMAKQ--GQGQVLVCAPSNVAVDQLAEKISATG--LKV 461 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~-l~LIqGPPGTGKT~tla~iI~~L~~~--~~~rILV~ApSN~AVD~L~erL~~~~--l~v 461 (779)
.|=+.|..++..++. ++ -.++-=..|.|||..+..++..+... ..+++||++|... +.+...-+.+.. +++
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~Sl-L~nW~~Ei~kw~p~l~v 247 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKST-LGNWMNEIRRFCPVLRA 247 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHH-HHHHHHHHHHHCCCCce
Confidence 577899999998763 33 35677789999999988888777553 2458999999754 566666665432 233
Q ss_pred EEeccccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceecccc
Q 004009 462 VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVG 541 (779)
Q Consensus 462 vRl~~~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~ 541 (779)
+.+.....+ ...+. . ........+||++|-..
T Consensus 248 ~~~~G~~~e-------------------------R~~~~---------------------~--~~~~~~~~dVvITSYe~ 279 (1033)
T PLN03142 248 VKFHGNPEE-------------------------RAHQR---------------------E--ELLVAGKFDVCVTSFEM 279 (1033)
T ss_pred EEEeCCHHH-------------------------HHHHH---------------------H--HHhcccCCCcceecHHH
Confidence 333221100 00000 0 00001245666666544
Q ss_pred cCC--ccccCCCCCEEEEEcCCCCChhhhhhhh----hcCCCeEEEEeCCCC
Q 004009 542 AGD--PRLANFRFRQVLIDESTQATEPECLIPL----VLGAKQVVLVGDHCQ 587 (779)
Q Consensus 542 a~~--~~L~~~~Fd~VIIDEAsQatEpe~LipL----~~~~~~lILVGD~~Q 587 (779)
+.. ..+..+.|++||||||..+--+...+.- .....+++|.|=|-|
T Consensus 280 l~~e~~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlq 331 (1033)
T PLN03142 280 AIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQ 331 (1033)
T ss_pred HHHHHHHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCC
Confidence 322 2366778999999999887765532221 124568999999988
No 169
>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=96.16 E-value=0.0037 Score=58.27 Aligned_cols=22 Identities=45% Similarity=0.800 Sum_probs=18.5
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
.||.||||||||+++..++.++
T Consensus 1 ill~G~~G~GKT~l~~~la~~l 22 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL 22 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT
T ss_pred CEEECcCCCCeeHHHHHHHhhc
Confidence 4899999999999887777664
No 170
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.16 E-value=0.014 Score=69.23 Aligned_cols=24 Identities=29% Similarity=0.526 Sum_probs=20.3
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
.+|+.||||||||+++..++..|.
T Consensus 37 a~Lf~Gp~G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 37 AYLFSGPRGCGKTSSARILARSLN 60 (584)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 478999999999998887776664
No 171
>PRK05973 replicative DNA helicase; Provisional
Probab=96.14 E-value=0.0093 Score=62.80 Aligned_cols=53 Identities=19% Similarity=0.327 Sum_probs=42.9
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l 459 (779)
..+++|.|+||+|||+.+..+++..++++ .++++.+.--. .+++.+|+...++
T Consensus 64 Gsl~LIaG~PG~GKT~lalqfa~~~a~~G-e~vlyfSlEes-~~~i~~R~~s~g~ 116 (237)
T PRK05973 64 GDLVLLGARPGHGKTLLGLELAVEAMKSG-RTGVFFTLEYT-EQDVRDRLRALGA 116 (237)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHHhcC-CeEEEEEEeCC-HHHHHHHHHHcCC
Confidence 45899999999999999999998888775 48888776544 5888888877654
No 172
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.11 E-value=0.017 Score=60.78 Aligned_cols=52 Identities=17% Similarity=0.166 Sum_probs=37.5
Q ss_pred CCCHHHHHHHHHhhc---CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 390 ELNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
.-|.....++..... .+..+|+||||||||+.+..+..++.+.+ .+++.+..
T Consensus 27 ~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~-~~v~y~~~ 81 (235)
T PRK08084 27 GDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRG-RAVGYVPL 81 (235)
T ss_pred CccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC-CeEEEEEH
Confidence 456666777766543 35789999999999999888777766554 46666544
No 173
>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=96.11 E-value=0.0071 Score=60.91 Aligned_cols=44 Identities=32% Similarity=0.540 Sum_probs=32.7
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (779)
.-.+|.||||||||+.++.++..++..+. +|+.+.. .+|.++|.
T Consensus 48 ~~l~l~G~~G~GKThLa~ai~~~~~~~g~-~v~f~~~-----~~L~~~l~ 91 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVAIANEAIRKGY-SVLFITA-----SDLLDELK 91 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEEH-----HHHHHHHH
T ss_pred eEEEEEhhHhHHHHHHHHHHHHHhccCCc-ceeEeec-----Cceecccc
Confidence 45789999999999999999999988654 7777653 44666654
No 174
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.10 E-value=0.0036 Score=67.44 Aligned_cols=26 Identities=38% Similarity=0.732 Sum_probs=22.8
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
+++.|++||||||||+...+++..|.
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLS 202 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLS 202 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhhe
Confidence 78999999999999998888777664
No 175
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=96.07 E-value=0.05 Score=62.76 Aligned_cols=37 Identities=22% Similarity=0.133 Sum_probs=27.0
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcC
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~Ap 442 (779)
+..+|.||+|||||+.+.++...+.+. ++.+|+.++.
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 357899999999999988777766653 4446665443
No 176
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=96.06 E-value=0.01 Score=62.31 Aligned_cols=53 Identities=21% Similarity=0.378 Sum_probs=39.9
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l 459 (779)
..+++|.||||||||+.+..+++.+++.+ .+++.++... ..+++.+.+.+.+.
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g-~~~~yi~~e~-~~~~~~~~~~~~g~ 76 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFLQNG-YSVSYVSTQL-TTTEFIKQMMSLGY 76 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhCC-CcEEEEeCCC-CHHHHHHHHHHhCC
Confidence 46899999999999999999998888766 4777777444 44666666655443
No 177
>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=96.05 E-value=0.015 Score=57.81 Aligned_cols=34 Identities=38% Similarity=0.630 Sum_probs=27.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
+.++.||||+|||+++..++..+.+.+. +|+++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~-~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGK-KVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC-cEEEEE
Confidence 4688999999999999999988877654 766544
No 178
>PRK09183 transposase/IS protein; Provisional
Probab=96.04 E-value=0.015 Score=62.17 Aligned_cols=53 Identities=23% Similarity=0.362 Sum_probs=39.2
Q ss_pred CCCCCHHHHHHHHHh--h-cCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 388 LPELNASQVFAVKSV--L-QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~a--L-~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
.+.+|..|...+... + .....+|.||||||||+.+..+...+...+ .+|+.+.
T Consensus 82 ~~~~~~~~i~~L~~~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G-~~v~~~~ 137 (259)
T PRK09183 82 ATGAPQKQLQSLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEAVRAG-IKVRFTT 137 (259)
T ss_pred CCCCCHHHHHHHhcCCchhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcC-CeEEEEe
Confidence 467888888777553 2 245688999999999999998877666654 4777664
No 179
>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=96.04 E-value=0.01 Score=63.53 Aligned_cols=50 Identities=22% Similarity=0.419 Sum_probs=38.4
Q ss_pred CCCHHHHHHHHHhhc--CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
.+.+.|.+++..++. .++.+|.||+|+||||++..++..+.. ...+|+.+
T Consensus 63 g~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~~-~~~~iiti 114 (264)
T cd01129 63 GLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELNT-PEKNIITV 114 (264)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhCC-CCCeEEEE
Confidence 367789998888775 579999999999999999888877643 23355544
No 180
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=96.03 E-value=0.015 Score=57.60 Aligned_cols=42 Identities=24% Similarity=0.418 Sum_probs=29.0
Q ss_pred HHHHHHHHHhhc------CCeEEEEcCCCChHHHHHHHHHHHHHHhCC
Q 004009 393 ASQVFAVKSVLQ------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQ 434 (779)
Q Consensus 393 ~sQ~~AV~~aL~------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~ 434 (779)
++|.+.+...+. .+..+|.|+||+|||+++.++..++.+.+.
T Consensus 6 ~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~ 53 (185)
T PF13191_consen 6 EEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGG 53 (185)
T ss_dssp HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCC
Confidence 356677777761 467899999999999999998888877643
No 181
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=96.03 E-value=0.036 Score=68.49 Aligned_cols=68 Identities=22% Similarity=0.329 Sum_probs=59.2
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHH-HHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~t-la~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.|=..|.+|++.+.....++|.-|.|||||-. +.-|+.++++.+..+-|++-|||+-+..-++|+.+.
T Consensus 70 ~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~ 138 (851)
T COG1205 70 RLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLREL 138 (851)
T ss_pred cccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHH
Confidence 36678999999998888999999999999976 456777888888889999999999999999999764
No 182
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=96.01 E-value=0.016 Score=68.46 Aligned_cols=25 Identities=32% Similarity=0.469 Sum_probs=20.4
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
..+|+.||||||||+++..++..+.
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAkal~ 63 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKAVN 63 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3578899999999998877776654
No 183
>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=95.99 E-value=0.011 Score=56.84 Aligned_cols=40 Identities=28% Similarity=0.514 Sum_probs=31.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AV 447 (779)
+++|.||||+|||+++..++..+...+ .+|++........
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~-~~v~~~~~e~~~~ 40 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKG-GKVVYVDIEEEIE 40 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcC-CEEEEEECCcchH
Confidence 368999999999999999998887754 4788877655443
No 184
>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=95.98 E-value=0.012 Score=60.98 Aligned_cols=54 Identities=20% Similarity=0.319 Sum_probs=44.0
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~ 460 (779)
..+++|.|+||+|||+.+..+++..++++ .+++.++... ..+++.+++...+..
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g-~~~~y~s~e~-~~~~l~~~~~~~~~~ 69 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNG-EKAMYISLEE-REERILGYAKSKGWD 69 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCC-CeEEEEECCC-CHHHHHHHHHHcCCC
Confidence 45789999999999999999988877775 4888887765 678899888776544
No 185
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.93 E-value=0.03 Score=65.04 Aligned_cols=37 Identities=30% Similarity=0.418 Sum_probs=28.8
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEEEc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~A 441 (779)
.++..|.||.|+||||++..++..+...+ ..+|.+++
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 35788899999999999999998877653 34675554
No 186
>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=95.90 E-value=0.012 Score=62.96 Aligned_cols=48 Identities=19% Similarity=0.275 Sum_probs=36.3
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL 454 (779)
..+++|.||||||||+.+..++++.++++ .+++.++.-. ..+.+.+++
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~G-e~vlyis~Ee-~~~~~~~~l 83 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRG-NPVLFVTVES-PANFVYTSL 83 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCC-CcEEEEEecC-CchHHHHHH
Confidence 46799999999999999999988887765 4888887653 334444443
No 187
>PRK06893 DNA replication initiation factor; Validated
Probab=95.90 E-value=0.01 Score=62.13 Aligned_cols=36 Identities=19% Similarity=0.263 Sum_probs=28.5
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
++..+|+||||||||+.+..+...+.+.+. ++.++.
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~-~~~y~~ 74 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQR-TAIYIP 74 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCC-CeEEee
Confidence 466799999999999999999888877654 555444
No 188
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.89 E-value=0.019 Score=62.59 Aligned_cols=58 Identities=28% Similarity=0.347 Sum_probs=44.2
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcH--HHHHHHHHHHHhcCCeEEEe
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN--VAVDQLAEKISATGLKVVRL 464 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN--~AVD~L~erL~~~~l~vvRl 464 (779)
+.|+.|..|+|||||++.+++++.+++.+-+|+.+.|= .|+++|..--.+.|.+++.-
T Consensus 141 Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~ 200 (340)
T COG0552 141 VILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISG 200 (340)
T ss_pred EEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEcc
Confidence 46899999999999999999999887763344444444 46788877666777887764
No 189
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.89 E-value=0.021 Score=68.34 Aligned_cols=26 Identities=35% Similarity=0.579 Sum_probs=21.3
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
+.+|+.||||||||+++..++..|.-
T Consensus 39 ~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 39 PAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred ceEEEECCCCCChHHHHHHHHHHhcC
Confidence 45699999999999998887776643
No 190
>PRK10867 signal recognition particle protein; Provisional
Probab=95.88 E-value=0.017 Score=65.95 Aligned_cols=56 Identities=29% Similarity=0.395 Sum_probs=39.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEE-EEcCcHH--HHHHHHHHHHhcCCeEEE
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVL-VCAPSNV--AVDQLAEKISATGLKVVR 463 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rIL-V~ApSN~--AVD~L~erL~~~~l~vvR 463 (779)
+.++.||||+|||||++.++.++.+. +. +|+ |.+.+.. |++++.......++.++.
T Consensus 102 vI~~vG~~GsGKTTtaakLA~~l~~~~G~-kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~ 161 (433)
T PRK10867 102 VIMMVGLQGAGKTTTAGKLAKYLKKKKKK-KVLLVAADVYRPAAIEQLKTLGEQIGVPVFP 161 (433)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhcCC-cEEEEEccccchHHHHHHHHHHhhcCCeEEe
Confidence 56789999999999999999998887 54 654 5555444 455665444445665543
No 191
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.85 E-value=0.012 Score=63.24 Aligned_cols=35 Identities=34% Similarity=0.600 Sum_probs=28.8
Q ss_pred cCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEE
Q 004009 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL 438 (779)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rIL 438 (779)
.+++.||.||-|||||||++++|-++-+.....||
T Consensus 124 ~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIl 158 (353)
T COG2805 124 PRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHIL 158 (353)
T ss_pred CCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceE
Confidence 37899999999999999999999887665443443
No 192
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.85 E-value=0.029 Score=65.93 Aligned_cols=44 Identities=16% Similarity=0.321 Sum_probs=28.4
Q ss_pred CCCEEEEEcCCCCChhh--hhhhhh-c--CCCeEEEEe-CCCCCCceeec
Q 004009 551 RFRQVLIDESTQATEPE--CLIPLV-L--GAKQVVLVG-DHCQLGPVIMC 594 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~-~--~~~~lILVG-D~~QLpPvv~s 594 (779)
++.++||||+..++... .|+-.. . ....+||+. |+..+++++.+
T Consensus 119 ~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~S 168 (527)
T PRK14969 119 RFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLS 168 (527)
T ss_pred CceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHH
Confidence 68899999998888643 333332 2 223567766 66667777654
No 193
>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=95.85 E-value=0.025 Score=58.41 Aligned_cols=50 Identities=18% Similarity=0.218 Sum_probs=34.3
Q ss_pred CCHHHHHHHHHhhc---CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 391 LNASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 391 LN~sQ~~AV~~aL~---~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
-|.+-.++++..+. .+..+|.||||||||+++..+..++...+ .+++.+.
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~-~~~~~i~ 73 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERG-KSAIYLP 73 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcC-CcEEEEe
Confidence 34555556665432 46789999999999999988887766543 3555544
No 194
>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=95.84 E-value=0.019 Score=63.71 Aligned_cols=26 Identities=23% Similarity=0.420 Sum_probs=21.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
+.+.++.||||||||+.+..++..|-
T Consensus 78 r~il~L~GPPGsGKStla~~La~~l~ 103 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGLE 103 (361)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHh
Confidence 46889999999999998777776653
No 195
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=95.84 E-value=0.052 Score=66.21 Aligned_cols=62 Identities=19% Similarity=0.215 Sum_probs=43.5
Q ss_pred CHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
.+-|..+.-..+ .+- +.+...|+|||.+.+-.++.....+ .+++|+|||..-+.+..+.+..
T Consensus 80 ~~vQl~~~~~l~-~G~-Iaem~TGeGKTL~a~lp~~l~al~G-~~v~VvTpt~~LA~qd~e~~~~ 141 (790)
T PRK09200 80 YDVQLIGALVLH-EGN-IAEMQTGEGKTLTATMPLYLNALEG-KGVHLITVNDYLAKRDAEEMGQ 141 (790)
T ss_pred chHHHHhHHHHc-CCc-eeeecCCCcchHHHHHHHHHHHHcC-CCeEEEeCCHHHHHHHHHHHHH
Confidence 345665554333 333 8999999999998765554333334 5999999999988888877654
No 196
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.82 E-value=0.018 Score=68.45 Aligned_cols=44 Identities=20% Similarity=0.314 Sum_probs=28.9
Q ss_pred CCCEEEEEcCCCCChhh--hhhhhh-c--CCCeEEEE-eCCCCCCceeec
Q 004009 551 RFRQVLIDESTQATEPE--CLIPLV-L--GAKQVVLV-GDHCQLGPVIMC 594 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~-~--~~~~lILV-GD~~QLpPvv~s 594 (779)
+|+++||||+.+++... .|+-.. . ..-.+||+ .|+..+++++.+
T Consensus 124 ~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlS 173 (618)
T PRK14951 124 RFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLS 173 (618)
T ss_pred CceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHH
Confidence 68999999999988754 222221 1 12356654 588888887654
No 197
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=95.82 E-value=0.022 Score=67.11 Aligned_cols=57 Identities=25% Similarity=0.276 Sum_probs=44.2
Q ss_pred CCCCHHHHHHHHHhh----c--CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHH
Q 004009 389 PELNASQVFAVKSVL----Q--RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL----~--~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AV 447 (779)
..||++|+.....++ + .+++. .|++|||||+..-+++..+... +..++.+|.|..|.
T Consensus 116 ~~l~~eqk~v~d~~~~~v~~~~g~~ff-~g~~gtgKt~l~~t~~~~~~~~-g~~~~~v~~s~ia~ 178 (540)
T KOG0987|consen 116 KKLTPEQKRVYDAILEAVENNLGGVFF-YGFGGTGKTYLLKTLIAALRSR-GKIVLNVASSGIAA 178 (540)
T ss_pred hhcCHHHHHHHHHHHHHHhccccceee-eccCCccceeeHHHHHHHHhcC-CceEEEeeecchhh
Confidence 468999997766332 2 34556 9999999999999999888776 45888888888776
No 198
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=95.78 E-value=0.14 Score=52.25 Aligned_cols=60 Identities=15% Similarity=0.204 Sum_probs=42.3
Q ss_pred cCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHH----HHHHHHHHHHhcCCeEEEecc
Q 004009 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV----AVDQLAEKISATGLKVVRLCA 466 (779)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~----AVD~L~erL~~~~l~vvRl~~ 466 (779)
..+..+|.+++|+|||+.+..++...+..+. +|+++=+-.- .=.++++++. ++.+.+.+.
T Consensus 21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~-~V~ivQFlKg~~~~GE~~~l~~l~--~v~~~~~g~ 84 (191)
T PRK05986 21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGK-KVGVVQFIKGAWSTGERNLLEFGG--GVEFHVMGT 84 (191)
T ss_pred cCCeEEEECCCCCChHHHHHHHHHHHHHCCC-eEEEEEEecCCCccCHHHHHhcCC--CcEEEECCC
Confidence 4789999999999999999999988888775 9988855322 2233333331 455665543
No 199
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=95.76 E-value=0.02 Score=63.04 Aligned_cols=53 Identities=26% Similarity=0.324 Sum_probs=39.7
Q ss_pred CCCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcC
Q 004009 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~Ap 442 (779)
.+++.|.+.+..++. +...+|.||+||||||++.+++..+... +..+|+++-.
T Consensus 132 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd 186 (319)
T PRK13894 132 IMTAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIED 186 (319)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcC
Confidence 367788888887765 5788999999999999998888776543 3446665443
No 200
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=95.73 E-value=0.02 Score=63.00 Aligned_cols=50 Identities=20% Similarity=0.401 Sum_probs=38.6
Q ss_pred CCCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEE
Q 004009 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLV 439 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV 439 (779)
.+++.|.+.+..++. +...+|.||+||||||++.+++..+... +..||++
T Consensus 128 ~~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivt 179 (323)
T PRK13833 128 IMTEAQASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVI 179 (323)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEE
Confidence 467888888888776 4578999999999999999888777654 3345554
No 201
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=95.73 E-value=0.018 Score=60.24 Aligned_cols=54 Identities=31% Similarity=0.487 Sum_probs=43.1
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~ 460 (779)
..+++|.||||||||+.+..+++..++++ .+++.++..+. .+.+.+++.+.+..
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g-~~~~y~~~e~~-~~~~~~~~~~~g~~ 78 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQG-KKVYVITTENT-SKSYLKQMESVKID 78 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhCC-CEEEEEEcCCC-HHHHHHHHHHCCCC
Confidence 45789999999999999999988877765 48888888754 56788877776644
No 202
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=95.73 E-value=0.023 Score=64.72 Aligned_cols=55 Identities=27% Similarity=0.451 Sum_probs=37.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEE-EEcCcH--HHHHHHHHHHHhcCCeEE
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL-VCAPSN--VAVDQLAEKISATGLKVV 462 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rIL-V~ApSN--~AVD~L~erL~~~~l~vv 462 (779)
+.++.||+|+|||||++.++..+.+.+. +|+ |.+.+. .|++++..--...++.++
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~l~~~G~-kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~ 159 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYYYQRKGF-KPCLVCADTFRAGAFDQLKQNATKARIPFY 159 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC-CEEEEcCcccchhHHHHHHHHhhccCCeEE
Confidence 6789999999999999999988776655 655 555454 466666433333444444
No 203
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=95.70 E-value=0.018 Score=57.81 Aligned_cols=52 Identities=31% Similarity=0.520 Sum_probs=38.8
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHh---------CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ---------GQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~---------~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..+++|.||||+|||+.+..++.+++.. ...+||++..-+. ...+..|+...
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~ 92 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRAL 92 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHH
Confidence 5689999999999999999999988752 2458999988776 55677777653
No 204
>PRK06851 hypothetical protein; Provisional
Probab=95.70 E-value=0.0087 Score=66.80 Aligned_cols=48 Identities=27% Similarity=0.441 Sum_probs=40.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCC-CcEEEEcCcHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQ-GQVLVCAPSNVAVDQLAE 452 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~-~rILV~ApSN~AVD~L~e 452 (779)
..+++|.||||||||+++.+++..+.+.+. -..+.|+..|.++|-+.-
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvii 78 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVII 78 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEEe
Confidence 678999999999999999999998887653 137889999999987763
No 205
>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.
Probab=95.70 E-value=0.14 Score=65.18 Aligned_cols=155 Identities=11% Similarity=0.033 Sum_probs=97.0
Q ss_pred CCCEEEEEcCCCCChhh--hhhhhhcCCCeEEEEeCCCCCCceeechHHHHhcc-c---hhHHHHHHHCCCccEEecccc
Q 004009 551 RFRQVLIDESTQATEPE--CLIPLVLGAKQVVLVGDHCQLGPVIMCKKAARAGL-A---QSLFERLVLLGLKPIRLQVQY 624 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~~~~~lILVGD~~QLpPvv~s~~a~~~gl-~---~SLFeRLi~~g~~~~~L~~QY 624 (779)
+-..|+|||+++.+..+ ++-.|...++++.+++|..|..+. ... ...++ . ..|.+.....+.+...+..+|
T Consensus 185 ~~~~i~IDgF~~FTp~Q~~vIe~L~~~~~~v~v~l~~D~~~~~-~~~--~~~~LF~~s~~~L~~la~~~~i~v~~~~~~~ 261 (1076)
T TIGR02774 185 KNTVLVIDGFTRFSAEEEALVSLLHGKGVEIIIGAYASQKAYK-SSF--SEGNLYQASVKFLHDLAQKYQTKAEFISSTH 261 (1076)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCEEEEEEEcCccccc-cCC--CcccchHHHHHHHHHHHHHcCCCcccCcccc
Confidence 55689999999999887 444555678999999998884420 000 00011 1 222222223455555666889
Q ss_pred CCchHHHHHHHhhhcCCcccccCccccccCCCCCCCC--CCC-CCCeEEEEeCCcceeccCCCCCCCHHHHHHHHHHHHH
Q 004009 625 RMHPSLSEFPSNSFYEGTLQNGVTINERQSSGIDFPW--PVP-NRPMFFYVQMGQEEISASGTSYLNRTEAANVEKIVTT 701 (779)
Q Consensus 625 Rmhp~I~~f~S~~FY~g~L~~~~s~~~r~~~~~~~~~--p~~-~~P~~f~~~~g~ee~~~~~~S~~N~~EA~~V~~iV~~ 701 (779)
|.+|+|..+.+..+-..... . .+| +.. +..+-++...+. ..|++.|.+.+.+
T Consensus 262 R~~~~L~~Le~~~~~~~~~~-~------------~~~~~~~~~~~~I~i~~a~n~------------~~Eve~va~~I~~ 316 (1076)
T TIGR02774 262 ESKDSFDKLSRLLEASHDFS-E------------LALDLDDKDKDNLTIWSCLTQ------------KEEVEHVARSIRQ 316 (1076)
T ss_pred ccCHHHHHHHHHHhhcccCC-c------------ccccCCCCCCCceEEEEcCCH------------HHHHHHHHHHHHH
Confidence 99999998876333110000 0 011 111 012333332221 3699999999999
Q ss_pred HHHCCCCCCeEEEEcccHHH-HHHHHHHHHHcC
Q 004009 702 FLRSGVVPSQIGVITPYEGQ-RAYIVNYMSRNG 733 (779)
Q Consensus 702 Ll~~gv~~~~IgIITPY~~Q-v~~L~~~L~~~~ 733 (779)
|++.|+.+.+|+|+++-..+ ..+|...+...+
T Consensus 317 lv~~g~ry~DIaVl~rd~~~Y~~~i~~iF~~~~ 349 (1076)
T TIGR02774 317 KLYEGYRYKDILVLLGDVDSYQLQLGKIFDQYD 349 (1076)
T ss_pred HHHcCCChhheEEEcCCHHHHHHHHHHHHhhcC
Confidence 99889999999999998887 788888887654
No 206
>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=95.67 E-value=0.02 Score=63.70 Aligned_cols=41 Identities=22% Similarity=0.347 Sum_probs=31.3
Q ss_pred CHHHHHHHHHhhc-------CCeEEEEcCCCChHHHHHHHHHHHHHHh
Q 004009 392 NASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (779)
Q Consensus 392 N~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (779)
-+.|.+.+...+. .+..+|.||||||||+++..+..++...
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~ 67 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEA 67 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHH
Confidence 3567766666653 2578999999999999998888877543
No 207
>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=95.67 E-value=0.057 Score=65.11 Aligned_cols=61 Identities=21% Similarity=0.220 Sum_probs=41.8
Q ss_pred HHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 393 ~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+-|..+.... ..+. +.+.+.|+|||.+.+-.++.....+ .+|+|+|||..-+.+.++.+..
T Consensus 59 ~vQlig~~~l-~~G~-Iaem~TGeGKTLva~lpa~l~aL~G-~~V~VvTpt~~LA~qdae~~~~ 119 (745)
T TIGR00963 59 DVQLIGGIAL-HKGK-IAEMKTGEGKTLTATLPAYLNALTG-KGVHVVTVNDYLAQRDAEWMGQ 119 (745)
T ss_pred chHHhhhhhh-cCCc-eeeecCCCccHHHHHHHHHHHHHhC-CCEEEEcCCHHHHHHHHHHHHH
Confidence 3565554433 3443 8899999999987654443222234 4899999999988888877654
No 208
>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=95.66 E-value=0.022 Score=62.17 Aligned_cols=52 Identities=25% Similarity=0.378 Sum_probs=39.5
Q ss_pred CCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcC
Q 004009 391 LNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (779)
Q Consensus 391 LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~Ap 442 (779)
+++.|...+..++. +...+|.||+|+||||++..++..+... +..||+++-.
T Consensus 117 ~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd 170 (299)
T TIGR02782 117 MTAAQRDVLREAVLARKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIED 170 (299)
T ss_pred CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECC
Confidence 56777777877775 5688999999999999998888776553 3457766543
No 209
>PRK09694 helicase Cas3; Provisional
Probab=95.66 E-value=0.036 Score=68.57 Aligned_cols=67 Identities=19% Similarity=0.371 Sum_probs=55.4
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..++-|..+.......++++|.+|.|+|||..+...+..++.. +..+|+++.||...+++|.+|+.+
T Consensus 286 ~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~ 353 (878)
T PRK09694 286 QPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEA 353 (878)
T ss_pred CChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHH
Confidence 4678898775444457899999999999999988777777665 346999999999999999999975
No 210
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=95.65 E-value=0.036 Score=61.87 Aligned_cols=36 Identities=19% Similarity=0.330 Sum_probs=26.7
Q ss_pred HHHHHHhhcC----CeEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 396 VFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 396 ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
.+.+..++.. ...||.||+|+|||+++-.++..|+.
T Consensus 32 ~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc 71 (351)
T PRK09112 32 EAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILS 71 (351)
T ss_pred HHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence 3444444442 25899999999999999888887765
No 211
>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=95.64 E-value=0.01 Score=54.97 Aligned_cols=22 Identities=32% Similarity=0.748 Sum_probs=18.8
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+|.||||+||||++..+...+
T Consensus 2 I~I~G~~gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAERL 23 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 6899999999999888777654
No 212
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=95.61 E-value=0.027 Score=64.29 Aligned_cols=56 Identities=34% Similarity=0.490 Sum_probs=38.6
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHH-hCCCcE-EEEcCcHH--HHHHHHHHHHhcCCeEEE
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQV-LVCAPSNV--AVDQLAEKISATGLKVVR 463 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~-~~~~rI-LV~ApSN~--AVD~L~erL~~~~l~vvR 463 (779)
+.++.||||+|||||++.++..+.. .+. +| ||.+.+.. |.+++.......++++..
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~~g~-kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~ 160 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKKQGK-KVLLVACDLYRPAAIEQLKVLGQQVGVPVFA 160 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhCCC-eEEEEeccccchHHHHHHHHHHHhcCCceEe
Confidence 5789999999999999999998764 444 55 55555554 456555544445555544
No 213
>PRK08727 hypothetical protein; Validated
Probab=95.61 E-value=0.058 Score=56.62 Aligned_cols=36 Identities=25% Similarity=0.347 Sum_probs=29.3
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
....+|.||+|||||+.+..+..++.+.+. ++..++
T Consensus 41 ~~~l~l~G~~G~GKThL~~a~~~~~~~~~~-~~~y~~ 76 (233)
T PRK08727 41 SDWLYLSGPAGTGKTHLALALCAAAEQAGR-SSAYLP 76 (233)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEEe
Confidence 346899999999999999998888777654 777665
No 214
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.58 E-value=0.044 Score=60.47 Aligned_cols=69 Identities=22% Similarity=0.177 Sum_probs=57.4
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHH-HHHHHHHHHhCC-CcEEEEcCcHHHHHHHHHHHHhc
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQGQ-GQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tl-a~iI~~L~~~~~-~rILV~ApSN~AVD~L~erL~~~ 457 (779)
...+.-|++||=.+|...-++.-+--|+|||-+- .-|+..|+..+. ...||+|||..-+-+|.+-....
T Consensus 82 ~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~L 152 (476)
T KOG0330|consen 82 KKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEAL 152 (476)
T ss_pred CCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHh
Confidence 3457889999999999888999999999999764 456777777643 46999999999999999888765
No 215
>PRK04328 hypothetical protein; Provisional
Probab=95.57 E-value=0.021 Score=60.65 Aligned_cols=53 Identities=25% Similarity=0.407 Sum_probs=40.5
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l 459 (779)
..+++|.||||||||+.+..+++.-++.+. ++++++... ..+.+.+++.+.+.
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge-~~lyis~ee-~~~~i~~~~~~~g~ 75 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGE-PGVYVALEE-HPVQVRRNMRQFGW 75 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcCC-cEEEEEeeC-CHHHHHHHHHHcCC
Confidence 457899999999999999999888777754 888887655 34457777766554
No 216
>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=95.56 E-value=0.023 Score=60.58 Aligned_cols=51 Identities=16% Similarity=0.159 Sum_probs=41.3
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..+++|.||||+|||+.+..++.+++...+.+|++.+.-. ..++++.|+..
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~-~~~~~~~r~~~ 80 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE-PVVRTARRLLG 80 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc-CHHHHHHHHHH
Confidence 4689999999999999999999888776345999988755 45667777754
No 217
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.54 E-value=0.038 Score=57.40 Aligned_cols=50 Identities=18% Similarity=0.214 Sum_probs=35.4
Q ss_pred CCCHHHHHHHHHhhc----CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 390 ELNASQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~----~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
.-|.....+++.... .+..+|.||||||||+.+..+..++...+. ++.++
T Consensus 23 ~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~-~~~~i 76 (227)
T PRK08903 23 GENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGR-NARYL 76 (227)
T ss_pred CCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEE
Confidence 456666666666533 357899999999999998888877665543 44444
No 218
>PF05729 NACHT: NACHT domain
Probab=95.54 E-value=0.012 Score=56.94 Aligned_cols=28 Identities=25% Similarity=0.501 Sum_probs=24.7
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhC
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (779)
++.+|.|+||+|||+++..++..+....
T Consensus 1 r~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred CEEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 3678999999999999999999888764
No 219
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=95.50 E-value=0.032 Score=68.22 Aligned_cols=47 Identities=17% Similarity=0.224 Sum_probs=35.9
Q ss_pred EEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+.+.+.|+|||.+.+--++.-+..+ ..|+|+|||..-+.+..+.+..
T Consensus 99 Iaem~TGeGKTL~a~Lpa~~~al~G-~~V~VvTpn~yLA~qd~e~m~~ 145 (896)
T PRK13104 99 IAEMRTGEGKTLVATLPAYLNAISG-RGVHIVTVNDYLAKRDSQWMKP 145 (896)
T ss_pred cccccCCCCchHHHHHHHHHHHhcC-CCEEEEcCCHHHHHHHHHHHHH
Confidence 5788999999998765555333344 4899999999988888877654
No 220
>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=95.49 E-value=0.02 Score=54.26 Aligned_cols=29 Identities=41% Similarity=0.666 Sum_probs=24.3
Q ss_pred CCeEE-EEcCCCChHHHHHHHHHHHHHHhC
Q 004009 405 RPISL-IQGPPGTGKTVTSAAIVYHMAKQG 433 (779)
Q Consensus 405 ~~l~L-IqGPPGTGKT~tla~iI~~L~~~~ 433 (779)
+|++| .+||||||||.+.--|+.+|.+.+
T Consensus 52 KpLVlSfHG~tGtGKn~v~~liA~~ly~~G 81 (127)
T PF06309_consen 52 KPLVLSFHGWTGTGKNFVSRLIAEHLYKSG 81 (127)
T ss_pred CCEEEEeecCCCCcHHHHHHHHHHHHHhcc
Confidence 45554 799999999999999998888775
No 221
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.48 E-value=0.029 Score=62.05 Aligned_cols=37 Identities=30% Similarity=0.404 Sum_probs=30.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
....++.||||||||+.+..++..++..+. +|+.++.
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~-~V~y~t~ 219 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELLDRGK-SVIYRTA 219 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHCCC-eEEEEEH
Confidence 367899999999999999999998887754 7766653
No 222
>PRK10436 hypothetical protein; Provisional
Probab=95.48 E-value=0.02 Score=66.04 Aligned_cols=41 Identities=29% Similarity=0.510 Sum_probs=34.3
Q ss_pred CCCHHHHHHHHHhhc--CCeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
.+.+.|.+.+..++. .++.||.||.|+|||||+..++..+.
T Consensus 201 G~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~ 243 (462)
T PRK10436 201 GMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLN 243 (462)
T ss_pred CcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhC
Confidence 467788888888764 68999999999999999988776653
No 223
>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=95.46 E-value=0.02 Score=66.59 Aligned_cols=54 Identities=19% Similarity=0.238 Sum_probs=43.3
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l 459 (779)
...+||.||||||||+.+...+++-++++..++|.++.- ...+++.+...+.|.
T Consensus 21 g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~~~G~ 74 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNARSFGW 74 (484)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHHHcCC
Confidence 457999999999999999999887766644588888875 666788888777665
No 224
>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=95.46 E-value=0.019 Score=66.92 Aligned_cols=54 Identities=22% Similarity=0.311 Sum_probs=44.2
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~ 460 (779)
..++||.||||||||+.+...++..++++. +++++++ ....+++..+....|++
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~~ge-~~~y~s~-eEs~~~i~~~~~~lg~~ 316 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACANKE-RAILFAY-EESRAQLLRNAYSWGID 316 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEEe-eCCHHHHHHHHHHcCCC
Confidence 357899999999999999999999888764 8888884 56677888888776653
No 225
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=95.44 E-value=0.02 Score=59.35 Aligned_cols=27 Identities=37% Similarity=0.645 Sum_probs=23.2
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
-|..+|.|||||||||.+..++..|+-
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~LLG 74 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLARELLG 74 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHHhC
Confidence 467899999999999999888877764
No 226
>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=95.42 E-value=0.019 Score=66.84 Aligned_cols=41 Identities=24% Similarity=0.434 Sum_probs=34.3
Q ss_pred CCCHHHHHHHHHhhc--CCeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
.+.+.|.+.+..++. .++.+|.||+|+|||||+..++..+.
T Consensus 225 g~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~ 267 (486)
T TIGR02533 225 GMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLN 267 (486)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccC
Confidence 467889999988775 57999999999999999987776553
No 227
>PRK06921 hypothetical protein; Provisional
Probab=95.40 E-value=0.045 Score=58.73 Aligned_cols=38 Identities=24% Similarity=0.275 Sum_probs=30.5
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
....++.||||||||+.+.+++..+.+..+..|+.++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence 35689999999999999999999888762347776664
No 228
>PLN03025 replication factor C subunit; Provisional
Probab=95.39 E-value=0.02 Score=62.84 Aligned_cols=40 Identities=30% Similarity=0.520 Sum_probs=28.4
Q ss_pred CHHHHHHHHHhhc---CCeEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 392 NASQVFAVKSVLQ---RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 392 N~sQ~~AV~~aL~---~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
|+.....++..+. -+..+++||||||||+++..++..+..
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~ 60 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG 60 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhc
Confidence 3445555555443 245789999999999998888877643
No 229
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.38 E-value=0.033 Score=63.48 Aligned_cols=68 Identities=19% Similarity=0.262 Sum_probs=53.6
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHH-HHHHHHHHHHhC-----------CCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAKQG-----------QGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~t-la~iI~~L~~~~-----------~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..++-|+.+|..+....=.++.|+-|+|||.. +.=++.++++.+ ..++|++|||+.-|+++.++-.+.
T Consensus 96 ~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~ 175 (482)
T KOG0335|consen 96 KPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKF 175 (482)
T ss_pred CCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhh
Confidence 45778888888877766668999999999975 345666666652 247999999999999999988764
No 230
>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=95.34 E-value=0.033 Score=59.57 Aligned_cols=23 Identities=30% Similarity=0.440 Sum_probs=19.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVY 427 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~ 427 (779)
....+|.||||||||+++..+..
T Consensus 21 g~~vLL~G~~GtGKT~lA~~la~ 43 (262)
T TIGR02640 21 GYPVHLRGPAGTGKTTLAMHVAR 43 (262)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHH
Confidence 56788999999999998776664
No 231
>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=95.31 E-value=0.014 Score=62.17 Aligned_cols=26 Identities=27% Similarity=0.408 Sum_probs=20.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
...++.||||||||+++..+...+..
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~ 68 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKE 68 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 34689999999999988777766544
No 232
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=95.29 E-value=0.026 Score=60.03 Aligned_cols=43 Identities=35% Similarity=0.635 Sum_probs=35.9
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD 448 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD 448 (779)
...+||.|+||||||..+...++..++.+ .+++.++..-.+.+
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~g-e~vlyvs~~e~~~~ 65 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGAREG-EPVLYVSTEESPEE 65 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhcC-CcEEEEEecCCHHH
Confidence 56899999999999999999999998885 48888877655543
No 233
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=95.27 E-value=0.039 Score=62.07 Aligned_cols=41 Identities=32% Similarity=0.432 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhc-------CCeEEEEcCCCChHHHHHHHHHHHHHHhC
Q 004009 393 ASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (779)
Q Consensus 393 ~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (779)
+.|.+.+...+. .+..+|.||||||||+++..+...+....
T Consensus 36 e~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~ 83 (394)
T PRK00411 36 EEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIA 83 (394)
T ss_pred HHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence 455555655542 25689999999999999988888776543
No 234
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=95.24 E-value=0.057 Score=64.66 Aligned_cols=44 Identities=11% Similarity=0.292 Sum_probs=28.8
Q ss_pred CCCEEEEEcCCCCChhh--hhhhhhc---CCCeEEEEe-CCCCCCceeec
Q 004009 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVG-DHCQLGPVIMC 594 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~---~~~~lILVG-D~~QLpPvv~s 594 (779)
++++|||||+..++... .|+-..- ....+||+. |...+++++.+
T Consensus 119 k~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrS 168 (709)
T PRK08691 119 KYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLS 168 (709)
T ss_pred CcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHH
Confidence 67899999998887643 2333221 234567665 77778887764
No 235
>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=95.24 E-value=0.03 Score=57.30 Aligned_cols=39 Identities=33% Similarity=0.568 Sum_probs=31.2
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN 444 (779)
..+++|.||||||||+.+..++....+.+. +++.++..+
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~-~v~yi~~e~ 50 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQGK-KVVYIDTEG 50 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCC-eEEEEECCC
Confidence 457899999999999999999888877654 666665543
No 236
>PF02689 Herpes_Helicase: Helicase; InterPro: IPR003840 This entry consists of DNA helicases from a number of different organisms.; GO: 0004386 helicase activity, 0005524 ATP binding
Probab=95.19 E-value=0.06 Score=64.08 Aligned_cols=48 Identities=25% Similarity=0.458 Sum_probs=40.0
Q ss_pred hcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 403 LQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 403 L~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
|.-..+||.|-+|+|||+.+..+...| .-||+..|.+|+.||-.+|..
T Consensus 57 lPF~~ylITGtAGaGKStsIq~L~~~l------dCviTGaT~vAaQNls~~L~~ 104 (818)
T PF02689_consen 57 LPFSVYLITGTAGAGKSTSIQTLAENL------DCVITGATVVAAQNLSSKLSR 104 (818)
T ss_pred cceEEEEEeccCCCCccchHHHHHhhh------CeEEecchhhhHhHHHHHhcc
Confidence 444568999999999999877665433 789999999999999999974
No 237
>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=95.19 E-value=0.025 Score=58.36 Aligned_cols=36 Identities=33% Similarity=0.546 Sum_probs=29.9
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
..+++|.||||||||+.+..++..+.+.+. ++++.+
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~-~v~yi~ 54 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAGQGK-KVAYID 54 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhcCC-eEEEEE
Confidence 357899999999999999999988877654 776664
No 238
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=95.18 E-value=0.11 Score=61.08 Aligned_cols=53 Identities=19% Similarity=0.384 Sum_probs=41.1
Q ss_pred cCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
.+.+.+|.|.-|+||||=+-..++..--...++|.++=|-..|+-.++.|+..
T Consensus 65 ~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAe 117 (674)
T KOG0922|consen 65 DNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAE 117 (674)
T ss_pred HCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHH
Confidence 47899999999999999765544322111334699999999999999999975
No 239
>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=95.18 E-value=0.023 Score=54.12 Aligned_cols=22 Identities=41% Similarity=0.732 Sum_probs=18.8
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+|.||||||||+++..+...+
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~ 23 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL 23 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6899999999999887777665
No 240
>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=95.18 E-value=0.034 Score=57.82 Aligned_cols=53 Identities=21% Similarity=0.409 Sum_probs=37.9
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l 459 (779)
..+++|.||||||||+.+..++.+.++.+. +++.++. ....+++.++....+.
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~-~~~~is~-e~~~~~i~~~~~~~g~ 72 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLRDGD-PVIYVTT-EESRESIIRQAAQFGM 72 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHhcCC-eEEEEEc-cCCHHHHHHHHHHhCC
Confidence 457899999999999999988877776654 6666654 3334666666555443
No 241
>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=95.17 E-value=0.035 Score=58.05 Aligned_cols=50 Identities=24% Similarity=0.284 Sum_probs=39.6
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (779)
..+++|.|+||+|||+.+..++.+++...+.++|.++.-..+. ++..|+.
T Consensus 13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~-~~~~r~~ 62 (242)
T cd00984 13 GDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKE-QLLQRLL 62 (242)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHH-HHHHHHH
Confidence 3589999999999999999999999887455999998766443 5555553
No 242
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=95.17 E-value=0.24 Score=58.97 Aligned_cols=65 Identities=15% Similarity=0.098 Sum_probs=53.1
Q ss_pred HHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 393 ASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 393 ~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..+.+++-..+.+..+++..|=|.|||.++..++..++...+.+|+++|+.-..+.++.+++...
T Consensus 175 ~~~id~~~~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~~ 239 (752)
T PHA03333 175 LREIDRIFDEYGKCYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVETV 239 (752)
T ss_pred HHHHHHHHHHHhhcceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHHH
Confidence 35667777777789999999999999999987776666533469999999999999999887653
No 243
>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=95.12 E-value=0.03 Score=61.55 Aligned_cols=40 Identities=20% Similarity=0.259 Sum_probs=32.0
Q ss_pred CCCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.++++-..+|...+. ++..+|.||||||||+++..++..+
T Consensus 48 ~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 48 LFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred cCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHH
Confidence 577888888877775 6678999999999999877766554
No 244
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.11 E-value=0.22 Score=56.19 Aligned_cols=58 Identities=28% Similarity=0.438 Sum_probs=41.3
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCc--HHHHHHHHHHHHhcCCeEEEe
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS--NVAVDQLAEKISATGLKVVRL 464 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApS--N~AVD~L~erL~~~~l~vvRl 464 (779)
+.+..|==|+|||||++.++.+|.+.+.+..||+|.+ -.|+|+|..--.+.++.+...
T Consensus 102 vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~ 161 (451)
T COG0541 102 VILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGS 161 (451)
T ss_pred EEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecC
Confidence 3577899999999999999999999666445555554 456777765555555555433
No 245
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.10 E-value=0.04 Score=61.71 Aligned_cols=55 Identities=24% Similarity=0.332 Sum_probs=40.2
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcE-EEEcCcH--HHHHHHHHHHHhcCCe
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQV-LVCAPSN--VAVDQLAEKISATGLK 460 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rI-LV~ApSN--~AVD~L~erL~~~~l~ 460 (779)
..+.+|.||.|+|||||++.+...+..++. +| +|.+.+- .|++++.......++.
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~-~V~lItaDtyR~gAveQLk~yae~lgvp 263 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNR-TVGFITTDTFRSGAVEQFQGYADKLDVE 263 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEEeCCccCccHHHHHHHHhhcCCCC
Confidence 357889999999999999999988877664 66 4555555 3577777665544443
No 246
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.09 E-value=0.055 Score=61.40 Aligned_cols=36 Identities=22% Similarity=0.326 Sum_probs=27.2
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
.+.+|.||+|+|||||++.++.++....+.+|++++
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit 259 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYT 259 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEec
Confidence 457899999999999999999876433334775554
No 247
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.09 E-value=0.062 Score=63.90 Aligned_cols=37 Identities=19% Similarity=0.281 Sum_probs=26.0
Q ss_pred HHHHHHHHhhc----CCeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 394 SQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 394 sQ~~AV~~aL~----~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
...+.+..++. ...+|+.||||||||+++..++..+.
T Consensus 23 ~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~ 63 (576)
T PRK14965 23 HVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALN 63 (576)
T ss_pred HHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc
Confidence 34444555543 23578999999999999877776654
No 248
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=95.08 E-value=0.015 Score=55.30 Aligned_cols=21 Identities=29% Similarity=0.714 Sum_probs=17.2
Q ss_pred eEEEEcCCCChHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVY 427 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~ 427 (779)
+.++.|||||||||.+..+..
T Consensus 1 lii~~G~pgsGKSt~a~~l~~ 21 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAK 21 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 478999999999998666553
No 249
>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=95.03 E-value=0.016 Score=60.33 Aligned_cols=34 Identities=18% Similarity=0.391 Sum_probs=20.5
Q ss_pred CCCEEEEEcCCCCChhh--hhhhhhcCCCeE-EEEeCC
Q 004009 551 RFRQVLIDESTQATEPE--CLIPLVLGAKQV-VLVGDH 585 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~~~~~l-ILVGD~ 585 (779)
.-++++|||....+-.. .|.|..- ..++ |++|--
T Consensus 101 ~~~ILFIDEIHRlnk~~qe~LlpamE-d~~idiiiG~g 137 (233)
T PF05496_consen 101 EGDILFIDEIHRLNKAQQEILLPAME-DGKIDIIIGKG 137 (233)
T ss_dssp TT-EEEECTCCC--HHHHHHHHHHHH-CSEEEEEBSSS
T ss_pred CCcEEEEechhhccHHHHHHHHHHhc-cCeEEEEeccc
Confidence 35688999999888764 6777654 3444 566653
No 250
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.98 E-value=0.013 Score=66.02 Aligned_cols=24 Identities=42% Similarity=0.578 Sum_probs=20.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
+=+|+.||||||||+.+++++.+|
T Consensus 236 RGYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 236 RGYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred ccceeeCCCCCCHHHHHHHHHhhc
Confidence 347999999999999999888765
No 251
>PRK05642 DNA replication initiation factor; Validated
Probab=94.95 E-value=0.077 Score=55.78 Aligned_cols=35 Identities=14% Similarity=0.293 Sum_probs=27.1
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
+..+|+||+|||||+.+..+..++...+ .+++.++
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~-~~v~y~~ 80 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRG-EPAVYLP 80 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCC-CcEEEee
Confidence 4678999999999999888877766554 4666654
No 252
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=94.93 E-value=0.033 Score=57.77 Aligned_cols=38 Identities=34% Similarity=0.569 Sum_probs=30.5
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApS 443 (779)
..+++|.||||||||+.+..++...++.+. +++.+..-
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~~~~-~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAKNGK-KVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEECC
Confidence 358899999999999999999988887654 66666543
No 253
>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=94.92 E-value=0.036 Score=65.72 Aligned_cols=40 Identities=23% Similarity=0.395 Sum_probs=33.8
Q ss_pred CCCHHHHHHHHHhhc--CCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+.+.|.+.+..++. .++.||.||.|+|||||+..++..+
T Consensus 299 g~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 299 GFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred CCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 467888888888765 6899999999999999998877665
No 254
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.90 E-value=0.039 Score=63.28 Aligned_cols=42 Identities=26% Similarity=0.425 Sum_probs=35.5
Q ss_pred CCCHHHHHHHHHhhc--CCeEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 390 ELNASQVFAVKSVLQ--RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~--~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
.+++.|...+..++. .++.|+.||-|+|||||+-..+..+..
T Consensus 241 g~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~ 284 (500)
T COG2804 241 GMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNT 284 (500)
T ss_pred CCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcC
Confidence 347889999999887 579999999999999999888876644
No 255
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=94.88 E-value=0.21 Score=62.40 Aligned_cols=66 Identities=27% Similarity=0.328 Sum_probs=52.8
Q ss_pred CCCHHHHHHHHHhhc---C-Ce--EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 390 ELNASQVFAVKSVLQ---R-PI--SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~-~l--~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
.-++.|..||..+.. . .+ -||+|--|-|||-+++..+...+..| ++|.|++||-.-+.+=.+.+.+
T Consensus 594 eET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~G-KQVAvLVPTTlLA~QHy~tFke 665 (1139)
T COG1197 594 EETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDG-KQVAVLVPTTLLAQQHYETFKE 665 (1139)
T ss_pred cCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCC-CeEEEEcccHHhHHHHHHHHHH
Confidence 578999999999874 2 22 49999999999999988887766666 5999999999988765555543
No 256
>PF13173 AAA_14: AAA domain
Probab=94.88 E-value=0.045 Score=51.70 Aligned_cols=41 Identities=22% Similarity=0.320 Sum_probs=32.3
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAV 447 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AV 447 (779)
+++.+|.||.|+|||+++..++..+. ...+++.+.......
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi~~~~~~~ 42 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL--PPENILYINFDDPRD 42 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc--ccccceeeccCCHHH
Confidence 57889999999999999988887776 345777776655544
No 257
>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=94.86 E-value=0.027 Score=62.68 Aligned_cols=36 Identities=31% Similarity=0.634 Sum_probs=28.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
.++.+|.||+|+||||++..++..+.+....+|+.+
T Consensus 122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~ti 157 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITI 157 (343)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEE
Confidence 689999999999999999988877654434466654
No 258
>PRK14873 primosome assembly protein PriA; Provisional
Probab=94.83 E-value=0.12 Score=62.42 Aligned_cols=48 Identities=27% Similarity=0.333 Sum_probs=42.3
Q ss_pred EEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
++.+.||+|||.+...+|...+..|+ ++||+.|.-.-+.++.+++.+.
T Consensus 164 i~~~~~GSGKTevyl~~i~~~l~~Gk-~vLvLvPEi~lt~q~~~rl~~~ 211 (665)
T PRK14873 164 VWQALPGEDWARRLAAAAAATLRAGR-GALVVVPDQRDVDRLEAALRAL 211 (665)
T ss_pred HhhcCCCCcHHHHHHHHHHHHHHcCC-eEEEEecchhhHHHHHHHHHHH
Confidence 34555799999999999999988875 8999999999999999999864
No 259
>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=94.79 E-value=0.025 Score=61.28 Aligned_cols=27 Identities=30% Similarity=0.466 Sum_probs=21.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhC
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (779)
..++.||||||||+++..+...+.+.+
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g 86 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLG 86 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 478999999999998877776665543
No 260
>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=94.77 E-value=0.026 Score=52.30 Aligned_cols=22 Identities=32% Similarity=0.511 Sum_probs=19.2
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+|.|+|||||||++.++...+
T Consensus 1 I~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHHH
Confidence 3799999999999988888776
No 261
>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=94.74 E-value=0.063 Score=60.30 Aligned_cols=47 Identities=19% Similarity=0.333 Sum_probs=33.0
Q ss_pred CCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEE
Q 004009 391 LNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLV 439 (779)
Q Consensus 391 LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV 439 (779)
|.+...+.+.. ..++.+|.||+|+||||++..++.++.... ..+|+.
T Consensus 137 l~~~~~~~l~~--~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivt 184 (372)
T TIGR02525 137 IEPDLFNSLLP--AAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVT 184 (372)
T ss_pred CCHHHHHHHHh--cCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEE
Confidence 33444443332 378999999999999999999988877643 335544
No 262
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=94.69 E-value=0.042 Score=60.28 Aligned_cols=41 Identities=29% Similarity=0.497 Sum_probs=29.5
Q ss_pred CHHHHHHHHHhhcC---CeEEEEcCCCChHHHHHHHHHHHHHHh
Q 004009 392 NASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (779)
Q Consensus 392 N~sQ~~AV~~aL~~---~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (779)
++...+.+..++.. +..++.||||||||+++..++..+...
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 34555555555543 368999999999999988887766543
No 263
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=94.69 E-value=0.13 Score=57.81 Aligned_cols=36 Identities=22% Similarity=0.305 Sum_probs=27.1
Q ss_pred HHHHHhhcC----CeEEEEcCCCChHHHHHHHHHHHHHHh
Q 004009 397 FAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (779)
Q Consensus 397 ~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (779)
+.+..++.+ ...|+.||+|+||++++..++..|+-.
T Consensus 29 ~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~ 68 (365)
T PRK07471 29 AALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLAT 68 (365)
T ss_pred HHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCC
Confidence 444455543 258999999999999998888887644
No 264
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=94.62 E-value=0.047 Score=55.17 Aligned_cols=39 Identities=26% Similarity=0.286 Sum_probs=32.4
Q ss_pred CCCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHH
Q 004009 390 ELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~ 428 (779)
.+++.|.+.+..++. ....+|.||+|+||||++..++..
T Consensus 9 ~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~ 48 (186)
T cd01130 9 TFSPLQAAYLWLAVEARKNILISGGTGSGKTTLLNALLAF 48 (186)
T ss_pred CCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhh
Confidence 467889999988886 568899999999999998776643
No 265
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=94.62 E-value=0.083 Score=68.41 Aligned_cols=47 Identities=17% Similarity=0.399 Sum_probs=36.3
Q ss_pred EEcCCCChHHHHHHH-HHHHHHHhC-----------CCcEEEEcCcHHHHHHHHHHHHh
Q 004009 410 IQGPPGTGKTVTSAA-IVYHMAKQG-----------QGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 410 IqGPPGTGKT~tla~-iI~~L~~~~-----------~~rILV~ApSN~AVD~L~erL~~ 456 (779)
|.+|.|||||.+..- ++..++..+ ..++|+++|+..-+.++.++|..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~ 59 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQI 59 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHH
Confidence 578999999988654 566666531 35799999999999988888753
No 266
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=94.60 E-value=0.055 Score=47.02 Aligned_cols=33 Identities=33% Similarity=0.535 Sum_probs=28.1
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
.++.|.+|+|||+++..++..+.+.+ .+++++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g-~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRG-KRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCC-CeEEEEC
Confidence 57889999999999999999888755 4888876
No 267
>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=94.59 E-value=0.045 Score=59.43 Aligned_cols=23 Identities=39% Similarity=0.592 Sum_probs=18.7
Q ss_pred CeEEEEcCCCChHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (779)
+..+|.||||||||+.+..+...
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~ 53 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANE 53 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 35899999999999987766544
No 268
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=94.55 E-value=0.079 Score=59.47 Aligned_cols=65 Identities=23% Similarity=0.269 Sum_probs=44.8
Q ss_pred CHHHHHHHHHhhc-------CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCc--EEEEcCcHHHHHHHHHHHHh
Q 004009 392 NASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQ--VLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 392 N~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~r--ILV~ApSN~AVD~L~erL~~ 456 (779)
=++|.+.+..++. ....+|-||||||||.|+..+..++....... +-|=|..+....++..+|..
T Consensus 22 Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~ 95 (366)
T COG1474 22 REEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILN 95 (366)
T ss_pred cHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHH
Confidence 3577777776663 23488999999999999999988876653222 45555666666666666654
No 269
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.52 E-value=0.22 Score=53.51 Aligned_cols=52 Identities=25% Similarity=0.387 Sum_probs=36.2
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC-cH--HHHHHHHHHHHhcC
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP-SN--VAVDQLAEKISATG 458 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap-SN--~AVD~L~erL~~~~ 458 (779)
+..++.||+|+|||+++..+...+...+. ++.+++. +. .+++++.......+
T Consensus 76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~-~v~~i~~D~~ri~~~~ql~~~~~~~~ 130 (270)
T PRK06731 76 QTIALIGPTGVGKTTTLAKMAWQFHGKKK-TVGFITTDHSRIGTVQQLQDYVKTIG 130 (270)
T ss_pred CEEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEEecCCCCHHHHHHHHHHhhhcC
Confidence 57899999999999999988887765543 6655443 33 36666665544333
No 270
>PRK11823 DNA repair protein RadA; Provisional
Probab=94.45 E-value=0.064 Score=61.83 Aligned_cols=53 Identities=28% Similarity=0.486 Sum_probs=40.7
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGL 459 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l 459 (779)
..+++|.|+||+|||+.+..++..+.+.+ .++|.++.-. ..+++..|....+.
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g-~~vlYvs~Ee-s~~qi~~ra~rlg~ 132 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAG-GKVLYVSGEE-SASQIKLRAERLGL 132 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEEEccc-cHHHHHHHHHHcCC
Confidence 35789999999999999999998887654 4888887643 45677777655543
No 271
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=94.44 E-value=0.13 Score=56.92 Aligned_cols=45 Identities=20% Similarity=0.330 Sum_probs=30.4
Q ss_pred CCCEEEEEcCCCCChhh--hhhhhhc---CCCeEEEEe-CCCCCCceeech
Q 004009 551 RFRQVLIDESTQATEPE--CLIPLVL---GAKQVVLVG-DHCQLGPVIMCK 595 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe--~LipL~~---~~~~lILVG-D~~QLpPvv~s~ 595 (779)
.+++||||||..+++.. .|+-..- +...+||+- ++.+|.|+|.|.
T Consensus 106 ~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SR 156 (328)
T PRK05707 106 GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSR 156 (328)
T ss_pred CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhh
Confidence 68899999999988865 3333332 224566655 456899998764
No 272
>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=94.42 E-value=0.068 Score=58.79 Aligned_cols=39 Identities=23% Similarity=0.293 Sum_probs=31.4
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV 445 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~ 445 (779)
.+++|.||||||||+.+..++....+.+. +++.+..-+.
T Consensus 56 ~iteI~G~~GsGKTtLaL~~~~~~~~~g~-~v~yId~E~~ 94 (321)
T TIGR02012 56 RIIEIYGPESSGKTTLALHAIAEAQKAGG-TAAFIDAEHA 94 (321)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEEcccch
Confidence 48999999999999999999888877754 7776655443
No 273
>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=94.41 E-value=0.072 Score=56.47 Aligned_cols=38 Identities=21% Similarity=0.263 Sum_probs=27.1
Q ss_pred CHHHHHHHHHhh---c--CCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 392 NASQVFAVKSVL---Q--RPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 392 N~sQ~~AV~~aL---~--~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
...+.+|+.... . .++.+|.||||+|||+++..+...+
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l 67 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRL 67 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhc
Confidence 445566665542 2 4588999999999999888776544
No 274
>PRK08939 primosomal protein DnaI; Reviewed
Probab=94.40 E-value=0.04 Score=60.29 Aligned_cols=34 Identities=29% Similarity=0.299 Sum_probs=28.2
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
-.+|.||||||||+.+.+++..+.+.+. +++++.
T Consensus 158 gl~L~G~~G~GKThLa~Aia~~l~~~g~-~v~~~~ 191 (306)
T PRK08939 158 GLYLYGDFGVGKSYLLAAIANELAKKGV-SSTLLH 191 (306)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCC-CEEEEE
Confidence 5789999999999999999999987664 555553
No 275
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=94.38 E-value=0.085 Score=52.90 Aligned_cols=57 Identities=28% Similarity=0.425 Sum_probs=34.9
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC--cHHHHHHHHHHHHhcCCeEEEecc
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP--SNVAVDQLAEKISATGLKVVRLCA 466 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap--SN~AVD~L~erL~~~~l~vvRl~~ 466 (779)
|+++|.|..|+||||++..++. ......|+.|+.. -...+|. +.+.+.+..++.+.+
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~--~~~~~~~~~vI~ne~g~~~iD~--~~l~~~~~~v~~l~~ 59 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK--RNRQGERVAVIVNEFGEVNIDA--ELLQEDGVPVVELNN 59 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH--HHTTTS-EEEEECSTTSTHHHH--HHHHTTT-EEEEECT
T ss_pred CEEEEEcCCCCCHHHHHHHHHH--HhcCCceeEEEEccccccccch--hhhcccceEEEEecC
Confidence 5789999999999999888886 3334557777643 2223332 233444566666644
No 276
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.38 E-value=0.15 Score=57.90 Aligned_cols=46 Identities=35% Similarity=0.444 Sum_probs=35.2
Q ss_pred CCe-EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc---CcHHHHHHHH
Q 004009 405 RPI-SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA---PSNVAVDQLA 451 (779)
Q Consensus 405 ~~l-~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A---pSN~AVD~L~ 451 (779)
+|+ ..+.|-.|.||+|.++.|.++|+.++ -|||+.| +---||++|.
T Consensus 377 rPYVi~fvGVNGVGKSTNLAKIayWLlqNk-frVLIAACDTFRsGAvEQLr 426 (587)
T KOG0781|consen 377 RPYVISFVGVNGVGKSTNLAKIAYWLLQNK-FRVLIAACDTFRSGAVEQLR 426 (587)
T ss_pred CCeEEEEEeecCccccchHHHHHHHHHhCC-ceEEEEeccchhhhHHHHHH
Confidence 344 45799999999999999999998875 4998875 3344666664
No 277
>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=94.35 E-value=0.045 Score=58.42 Aligned_cols=47 Identities=23% Similarity=0.384 Sum_probs=32.3
Q ss_pred HHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
...+.+..++. .+..+|.||+||||||++..++..+-.. ..+|+++-
T Consensus 115 ~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~-~~~iv~iE 162 (270)
T PF00437_consen 115 EIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE-DERIVTIE 162 (270)
T ss_dssp HHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT-TSEEEEEE
T ss_pred HHHHHHhhccccceEEEEECCCccccchHHHHHhhhcccc-ccceEEec
Confidence 33444444433 6789999999999999998887654433 34666654
No 278
>PHA00729 NTP-binding motif containing protein
Probab=94.32 E-value=0.035 Score=57.98 Aligned_cols=24 Identities=25% Similarity=0.382 Sum_probs=20.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
..+|.|+||||||+.+..+...+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 478999999999999888887654
No 279
>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=94.32 E-value=0.074 Score=59.83 Aligned_cols=52 Identities=29% Similarity=0.502 Sum_probs=39.8
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (779)
..+++|.|+||+|||+.+..++..+.+.+ .+||+++... ..+++..|....+
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g-~~VlYvs~EE-s~~qi~~Ra~rlg 133 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRG-GKVLYVSGEE-SPEQIKLRADRLG 133 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcC-CeEEEEECCc-CHHHHHHHHHHcC
Confidence 46789999999999999999998887765 4898887643 3566766665443
No 280
>CHL00181 cbbX CbbX; Provisional
Probab=94.32 E-value=0.038 Score=59.99 Aligned_cols=26 Identities=31% Similarity=0.394 Sum_probs=20.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHh
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (779)
..++.||||||||+++..+...+...
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 36889999999999887777665543
No 281
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.30 E-value=0.066 Score=62.75 Aligned_cols=54 Identities=26% Similarity=0.409 Sum_probs=43.5
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~ 460 (779)
..+++|.||||||||+.+..++...++.+. ++++++.... .+++.+++...|.+
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g~-~~~yis~e~~-~~~i~~~~~~~g~~ 326 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRGE-RCLLFAFEES-RAQLIRNARSWGID 326 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCC-cEEEEEecCC-HHHHHHHHHHcCCC
Confidence 457899999999999999999988887764 8888887654 67788877766544
No 282
>PRK04195 replication factor C large subunit; Provisional
Probab=94.29 E-value=0.051 Score=63.25 Aligned_cols=39 Identities=26% Similarity=0.405 Sum_probs=27.3
Q ss_pred CCHHHHHHHHHhhc-------CCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 391 LNASQVFAVKSVLQ-------RPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 391 LN~sQ~~AV~~aL~-------~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.++.+.+.+...+. .+..||.||||||||+++..++..+
T Consensus 18 g~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred CCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence 34555555555442 4578999999999999887666543
No 283
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=94.26 E-value=0.071 Score=44.92 Aligned_cols=22 Identities=23% Similarity=0.460 Sum_probs=19.0
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
..|.|+||+|||+.+..+...+
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 4689999999999888888776
No 284
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=94.21 E-value=0.11 Score=57.27 Aligned_cols=39 Identities=26% Similarity=0.309 Sum_probs=31.7
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV 445 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~ 445 (779)
.++.|.||||||||+.+..+++...+.+. +++.+..-+.
T Consensus 56 ~iteI~Gp~GsGKTtLal~~~~~~~~~g~-~~vyId~E~~ 94 (325)
T cd00983 56 RIIEIYGPESSGKTTLALHAIAEAQKLGG-TVAFIDAEHA 94 (325)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC-CEEEECcccc
Confidence 48999999999999999999888877754 7777765443
No 285
>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=94.17 E-value=0.26 Score=51.27 Aligned_cols=35 Identities=31% Similarity=0.354 Sum_probs=27.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~A 441 (779)
..+|+||+|+|||+.+.++...+.+. ++.+|+.+.
T Consensus 36 ~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~ 71 (219)
T PF00308_consen 36 PLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS 71 (219)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE
T ss_pred ceEEECCCCCCHHHHHHHHHHHHHhccccccceeec
Confidence 57899999999999999988888775 445666654
No 286
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=94.17 E-value=0.16 Score=62.62 Aligned_cols=24 Identities=29% Similarity=0.526 Sum_probs=20.4
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
.+|+.||||+|||+++..++..|.
T Consensus 39 a~Lf~Gp~G~GKTt~A~~lAr~L~ 62 (824)
T PRK07764 39 AYLFSGPRGCGKTSSARILARSLN 62 (824)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhC
Confidence 478999999999998887777664
No 287
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=94.17 E-value=0.059 Score=53.85 Aligned_cols=46 Identities=26% Similarity=0.338 Sum_probs=35.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+++|.||||||||+.+..++.. ...+++.++-....-+++.+|+..
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~----~~~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE----LGGPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh----cCCCeEEEEccCcCCHHHHHHHHH
Confidence 4789999999999987776644 335888887776666778888754
No 288
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=94.17 E-value=0.066 Score=65.15 Aligned_cols=39 Identities=31% Similarity=0.488 Sum_probs=29.3
Q ss_pred HHHHHHHHHhhc-----C---CeEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 393 ASQVFAVKSVLQ-----R---PISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 393 ~sQ~~AV~~aL~-----~---~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
+.|.+.|...|. . .+.+|.|+||||||.|+..++.+|..
T Consensus 761 EeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 761 EKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 577777776653 1 23569999999999999988877643
No 289
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=94.14 E-value=0.12 Score=63.39 Aligned_cols=64 Identities=17% Similarity=0.301 Sum_probs=50.9
Q ss_pred HHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..+..|..++. +...+|.||||+||||-+-..++..--.+.++|.++=|-..|+-.+++|+.+.
T Consensus 53 ~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAee 117 (845)
T COG1643 53 AVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEE 117 (845)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHH
Confidence 34555666664 78999999999999998877766544344568999999999999999999863
No 290
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.11 E-value=0.083 Score=61.89 Aligned_cols=55 Identities=16% Similarity=0.257 Sum_probs=43.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCe
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLK 460 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~ 460 (779)
..++||.|+||||||+.+..++++.+++.+.++|.++... ..+++.+++...+.+
T Consensus 31 Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee-~~~~i~~~~~~~g~d 85 (509)
T PRK09302 31 GRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEE-SPEDIIRNVASFGWD 85 (509)
T ss_pred CcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccC-CHHHHHHHHHHcCCC
Confidence 4688999999999999999999887777345888887655 566777777776654
No 291
>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=94.07 E-value=0.095 Score=58.68 Aligned_cols=29 Identities=38% Similarity=0.578 Sum_probs=25.3
Q ss_pred cCCeEEEEcCCCChHHHHHHHHHHHHHHh
Q 004009 404 QRPISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (779)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (779)
..++.+|.||.|+||||++..++..+...
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~ 161 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAEA 161 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence 36899999999999999999988877654
No 292
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.06 E-value=0.12 Score=60.43 Aligned_cols=52 Identities=23% Similarity=0.421 Sum_probs=39.9
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHH-HHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHM-AKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L-~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+.+.+|.|-+|+||||-+=.-++.- +..++++|-++-|-.+|+-.++.|+.+
T Consensus 280 ~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~ 332 (902)
T KOG0923|consen 280 HQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAE 332 (902)
T ss_pred CcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHH
Confidence 6889999999999999764433221 122444699999999999999999975
No 293
>PRK13768 GTPase; Provisional
Probab=94.05 E-value=0.065 Score=57.05 Aligned_cols=34 Identities=29% Similarity=0.488 Sum_probs=28.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
..+|.||+|+||||++..++..+...+. +|+++.
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~~g~-~v~~i~ 37 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEEQGY-DVAIVN 37 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHhcCC-ceEEEE
Confidence 5689999999999999999988876654 777764
No 294
>PF12846 AAA_10: AAA-like domain
Probab=94.04 E-value=0.07 Score=56.94 Aligned_cols=57 Identities=25% Similarity=0.423 Sum_probs=41.8
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEecc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLCA 466 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~~ 466 (779)
++-++|.|++|+|||+++..++.+++..+. +|++.=+...-.+ +++. .+..++.+..
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l~~~~~~~g~-~~~i~D~~g~~~~-~~~~---~~~~~i~~~~ 57 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNLLEQLIRRGP-RVVIFDPKGDYSP-LARA---LGGQYIDIDP 57 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHcCC-CEEEEcCCchHHH-HHHh---cCceEEEeec
Confidence 356899999999999999999999988875 8888877644444 3322 4555665543
No 295
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=94.03 E-value=0.04 Score=54.97 Aligned_cols=22 Identities=36% Similarity=0.652 Sum_probs=17.9
Q ss_pred eEEEEcCCCChHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (779)
+.+|.|||||||||.+..++..
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~ 22 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVEN 22 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 3689999999999987776543
No 296
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.03 E-value=0.13 Score=56.90 Aligned_cols=57 Identities=30% Similarity=0.465 Sum_probs=44.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHH--HHHHHHHHHHhcCCeEE
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV--AVDQLAEKISATGLKVV 462 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~--AVD~L~erL~~~~l~vv 462 (779)
.+.++.|--|+|||||+..+++++-+.+.+.-||||.|=. |-|+|..--.+.+++++
T Consensus 102 sVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~y 160 (483)
T KOG0780|consen 102 SVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFY 160 (483)
T ss_pred cEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCeeE
Confidence 4678899999999999999999999988878899998866 55777655444444443
No 297
>PRK06851 hypothetical protein; Provisional
Probab=94.00 E-value=0.064 Score=60.00 Aligned_cols=45 Identities=24% Similarity=0.401 Sum_probs=33.2
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEE--EEcCcHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVL--VCAPSNVAVDQL 450 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rIL--V~ApSN~AVD~L 450 (779)
...++|.||||||||+++..++..+.++|- +|. -|+.-+..+|.+
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~-~v~~~hC~~dPdslD~v 260 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGF-DVEVYHCGFDPDSLDMV 260 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhCCC-eEEEEeCCCCCCCcceE
Confidence 578999999999999999999998888764 443 344444444433
No 298
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=94.00 E-value=0.17 Score=58.35 Aligned_cols=37 Identities=24% Similarity=0.227 Sum_probs=28.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEEEcC
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAP 442 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~Ap 442 (779)
+..+|.||||||||+.+..+...+.+.. ..+|+.+..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~ 186 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS 186 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 4578999999999999998888887763 446666543
No 299
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=94.00 E-value=0.068 Score=58.92 Aligned_cols=24 Identities=42% Similarity=0.649 Sum_probs=19.5
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
+..+|.||||||||+++..++..+
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHHh
Confidence 468999999999999887665543
No 300
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=93.97 E-value=0.13 Score=56.21 Aligned_cols=39 Identities=31% Similarity=0.453 Sum_probs=27.1
Q ss_pred CCHHHHHHHHHhhcC----CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 391 LNASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 391 LN~sQ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.++...+.+...+.+ .+.++.||||||||+.+..+..++
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~ 67 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV 67 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence 455666666665542 356779999999999877765543
No 301
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=93.96 E-value=0.67 Score=53.19 Aligned_cols=63 Identities=21% Similarity=0.369 Sum_probs=44.8
Q ss_pred HHHHH---HHHHhhc-CCeEEEEcCCCChHHHHHHHHHHH-HHHhC--CCcEEEEcCcHHHHHHHHHHHH
Q 004009 393 ASQVF---AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH-MAKQG--QGQVLVCAPSNVAVDQLAEKIS 455 (779)
Q Consensus 393 ~sQ~~---AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~-L~~~~--~~rILV~ApSN~AVD~L~erL~ 455 (779)
++|.+ -++.+|. .+..|+.=|.|||||..+..++.. .+..+ ..+++.|+.|-.-++..++-|.
T Consensus 19 PEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El~ 88 (755)
T KOG1131|consen 19 PEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEELK 88 (755)
T ss_pred HHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHHH
Confidence 46654 4555665 689999999999999988765543 33333 4589999999877776665553
No 302
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=93.95 E-value=0.062 Score=59.10 Aligned_cols=19 Identities=53% Similarity=0.948 Sum_probs=15.5
Q ss_pred EEEEcCCCChHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIV 426 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI 426 (779)
.|+.||||||||..+.+.+
T Consensus 188 VLLYGPPGTGKTLLAkAVA 206 (406)
T COG1222 188 VLLYGPPGTGKTLLAKAVA 206 (406)
T ss_pred eEeeCCCCCcHHHHHHHHH
Confidence 7899999999998655444
No 303
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=93.94 E-value=0.055 Score=60.69 Aligned_cols=37 Identities=24% Similarity=0.407 Sum_probs=30.3
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHH-HhCCCcEEEEc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMA-KQGQGQVLVCA 441 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~-~~~~~rILV~A 441 (779)
.++..+.||-|.|||||+|.++++.. ..++.+|-+++
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiIT 240 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIIT 240 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEE
Confidence 57889999999999999999998887 44556775554
No 304
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=93.92 E-value=0.048 Score=54.38 Aligned_cols=25 Identities=36% Similarity=0.509 Sum_probs=20.5
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.++.+|.||||+||||++..++..+
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 3678999999999999887776543
No 305
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=93.86 E-value=0.066 Score=59.94 Aligned_cols=21 Identities=48% Similarity=0.830 Sum_probs=17.7
Q ss_pred EEEEcCCCChHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (779)
.||.||||||||+++..+...
T Consensus 159 vLL~GppGtGKT~lakaia~~ 179 (364)
T TIGR01242 159 VLLYGPPGTGKTLLAKAVAHE 179 (364)
T ss_pred EEEECCCCCCHHHHHHHHHHh
Confidence 789999999999987776554
No 306
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=93.85 E-value=0.045 Score=53.97 Aligned_cols=22 Identities=36% Similarity=0.650 Sum_probs=18.4
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
..|.|||||||||++..+..++
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 4689999999999988777654
No 307
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=93.79 E-value=0.076 Score=60.10 Aligned_cols=22 Identities=45% Similarity=0.724 Sum_probs=18.0
Q ss_pred eEEEEcCCCChHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (779)
-.|+.||||||||+++..+...
T Consensus 167 gvLL~GppGtGKT~lAkaia~~ 188 (389)
T PRK03992 167 GVLLYGPPGTGKTLLAKAVAHE 188 (389)
T ss_pred ceEEECCCCCChHHHHHHHHHH
Confidence 3789999999999987766554
No 308
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=93.78 E-value=0.066 Score=56.79 Aligned_cols=33 Identities=36% Similarity=0.633 Sum_probs=24.9
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
.=|.||||.||+|.+-+++..+.+.+. +|-|+|
T Consensus 32 iGiTG~PGaGKSTli~~l~~~~~~~g~-~VaVlA 64 (266)
T PF03308_consen 32 IGITGPPGAGKSTLIDALIRELRERGK-RVAVLA 64 (266)
T ss_dssp EEEEE-TTSSHHHHHHHHHHHHHHTT---EEEEE
T ss_pred EEeeCCCCCcHHHHHHHHHHHHhhcCC-ceEEEE
Confidence 348999999999999999999988754 765554
No 309
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=93.76 E-value=0.093 Score=50.77 Aligned_cols=35 Identities=26% Similarity=0.528 Sum_probs=27.4
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
+...|.||.||||||.+..++..|.+++. ++.++-
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~-~v~~ik 35 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGY-RVAVIK 35 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEE
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCC-ceEEEE
Confidence 46789999999999999999999988764 666543
No 310
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=93.76 E-value=0.064 Score=53.57 Aligned_cols=25 Identities=36% Similarity=0.689 Sum_probs=20.7
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHh
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~ 432 (779)
.+|.|+||+||||.+..++..+.+.
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~~ 26 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKKK 26 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHHT
T ss_pred EEEECcCCCCHHHHHHHHHHHhhcc
Confidence 5899999999999999988777654
No 311
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.67 E-value=0.08 Score=61.28 Aligned_cols=36 Identities=28% Similarity=0.468 Sum_probs=28.5
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEc
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~A 441 (779)
.++++.||.|+|||||++.+...+... +..+|.+++
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 578899999999999999999887544 444775554
No 312
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=93.66 E-value=0.12 Score=59.83 Aligned_cols=52 Identities=25% Similarity=0.415 Sum_probs=40.2
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcC
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATG 458 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~ 458 (779)
..+++|.|+||+|||+.+..++..+.+.+. +||.++.-. ..+++..|....+
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g~-kvlYvs~EE-s~~qi~~ra~rlg 145 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKNQM-KVLYVSGEE-SLQQIKMRAIRLG 145 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhcCC-cEEEEECcC-CHHHHHHHHHHcC
Confidence 467899999999999999999888877654 888877643 4567776665544
No 313
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=93.66 E-value=0.087 Score=60.24 Aligned_cols=38 Identities=26% Similarity=0.524 Sum_probs=27.7
Q ss_pred CHHHHHHHHHhh-cCCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 392 NASQVFAVKSVL-QRPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 392 N~sQ~~AV~~aL-~~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+...+.+..++ ..+..++.||||||||+++..+...+
T Consensus 180 ~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l 218 (459)
T PRK11331 180 PETTIETILKRLTIKKNIILQGPPGVGKTFVARRLAYLL 218 (459)
T ss_pred CHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHh
Confidence 445555555555 46788999999999999887666554
No 314
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=93.63 E-value=0.25 Score=59.33 Aligned_cols=63 Identities=16% Similarity=0.219 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCCccccc-----------------CCCeEEccCCCCCCCc
Q 004009 693 ANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQL-----------------YKEIEVASVDSFQGRE 755 (779)
Q Consensus 693 ~~V~~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~-----------------~~~V~V~TVD~FQGrE 755 (779)
..|++-+.++.+.|-+ |-|.|.+-.+...|.++|.+.+..+..+ ...|.|+| +.-||=
T Consensus 414 ~Aii~ei~~~~~~GrP---VLVgt~sI~~SE~ls~~L~~~gI~h~vLNAk~~~~EA~IIa~AG~~gaVTIAT--NMAGRG 488 (764)
T PRK12326 414 DAIVEHIAEVHETGQP---VLVGTHDVAESEELAERLRAAGVPAVVLNAKNDAEEARIIAEAGKYGAVTVST--QMAGRG 488 (764)
T ss_pred HHHHHHHHHHHHcCCC---EEEEeCCHHHHHHHHHHHHhCCCcceeeccCchHhHHHHHHhcCCCCcEEEEe--cCCCCc
Confidence 4456666666666654 9999999999999999998876432211 12467777 666776
Q ss_pred CCEEE
Q 004009 756 KDYII 760 (779)
Q Consensus 756 kDvII 760 (779)
-||.+
T Consensus 489 TDIkL 493 (764)
T PRK12326 489 TDIRL 493 (764)
T ss_pred cCeec
Confidence 66653
No 315
>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=93.61 E-value=0.081 Score=61.71 Aligned_cols=24 Identities=42% Similarity=0.707 Sum_probs=19.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
-.|+.||||||||+++..++..+.
T Consensus 218 GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred ceEEECCCCCcHHHHHHHHHHhhc
Confidence 478999999999998777766653
No 316
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=93.61 E-value=0.066 Score=49.11 Aligned_cols=24 Identities=33% Similarity=0.657 Sum_probs=20.9
Q ss_pred EEEcCCCChHHHHHHHHHHHHHHh
Q 004009 409 LIQGPPGTGKTVTSAAIVYHMAKQ 432 (779)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~ 432 (779)
.|.||||+|||+.+..++..+++.
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~~ 25 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLKH 25 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHH
Confidence 689999999999998888877764
No 317
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=93.60 E-value=0.24 Score=60.53 Aligned_cols=68 Identities=19% Similarity=0.330 Sum_probs=56.5
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHH-HHHHHHHHhC-C-----CcEEEEcCcHHHHHHHHHHHHh
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSA-AIVYHMAKQG-Q-----GQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla-~iI~~L~~~~-~-----~rILV~ApSN~AVD~L~erL~~ 456 (779)
..+++-|+.|+..+.....+||.+|-|||||-++. -++..|++.+ . -.+|.++|=.+-...|..||..
T Consensus 21 ~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~ 95 (814)
T COG1201 21 TSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEE 95 (814)
T ss_pred CCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 56899999999999988899999999999998874 5566677762 1 2479999999988889888864
No 318
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.59 E-value=0.12 Score=62.72 Aligned_cols=56 Identities=29% Similarity=0.360 Sum_probs=39.6
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHH-hCCCcEEEE-cCcHH--HHHHHHHHHHhcCCeE
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAK-QGQGQVLVC-APSNV--AVDQLAEKISATGLKV 461 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~-~~~~rILV~-ApSN~--AVD~L~erL~~~~l~v 461 (779)
.++++.||.|+|||||++.+...+.. .+.++|.++ +.+-. |++++..--...++.+
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv 245 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPV 245 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCc
Confidence 47889999999999999999987754 444577554 44444 7777766555455544
No 319
>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=93.57 E-value=0.088 Score=54.19 Aligned_cols=34 Identities=29% Similarity=0.396 Sum_probs=21.6
Q ss_pred HHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHH
Q 004009 393 ASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIV 426 (779)
Q Consensus 393 ~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI 426 (779)
+.-++|+.-+.. ..-.|+.||||||||+.+..+.
T Consensus 9 e~aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~ 43 (206)
T PF01078_consen 9 EEAKRALEIAAAGGHHLLLIGPPGTGKTMLARRLP 43 (206)
T ss_dssp HHHHHHHHHHHHCC--EEEES-CCCTHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHH
Confidence 345566655543 5678999999999999655444
No 320
>PRK13531 regulatory ATPase RavA; Provisional
Probab=93.53 E-value=0.078 Score=61.13 Aligned_cols=30 Identities=20% Similarity=0.482 Sum_probs=23.5
Q ss_pred HHhhcCCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 400 KSVLQRPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 400 ~~aL~~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
..++..+..||.||||||||+++..+...+
T Consensus 34 ~aalag~hVLL~GpPGTGKT~LAraLa~~~ 63 (498)
T PRK13531 34 LAALSGESVFLLGPPGIAKSLIARRLKFAF 63 (498)
T ss_pred HHHccCCCEEEECCCChhHHHHHHHHHHHh
Confidence 334568899999999999999877666544
No 321
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=93.49 E-value=0.096 Score=60.10 Aligned_cols=22 Identities=41% Similarity=0.718 Sum_probs=18.2
Q ss_pred eEEEEcCCCChHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (779)
-.|+.||||||||+++..+...
T Consensus 219 gVLL~GPPGTGKT~LAraIA~e 240 (438)
T PTZ00361 219 GVILYGPPGTGKTLLAKAVANE 240 (438)
T ss_pred EEEEECCCCCCHHHHHHHHHHh
Confidence 4789999999999987776654
No 322
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=93.48 E-value=1.3 Score=53.67 Aligned_cols=67 Identities=19% Similarity=0.237 Sum_probs=51.7
Q ss_pred CCCHHHHHHHHHhh---c--CCeEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEEEcCcHHHHHHHHHHHHh
Q 004009 390 ELNASQVFAVKSVL---Q--RPISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL---~--~~l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~ApSN~AVD~L~erL~~ 456 (779)
.++..|.+|+.... . ....+|.+.=|=|||..+--.++.+.... ..+|+|+|||-.||+.+.+.+.+
T Consensus 211 ~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~ 283 (758)
T COG1444 211 CLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIALAAAARLAGSVRIIVTAPTPANVQTLFEFAGK 283 (758)
T ss_pred hcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHhHHHHHHHHhcCCceEEEeCCCHHHHHHHHHHHHH
Confidence 46788888776643 2 34789999999999998875555444444 35999999999999999987754
No 323
>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=93.45 E-value=0.15 Score=58.04 Aligned_cols=35 Identities=26% Similarity=0.266 Sum_probs=28.0
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhC-CCcEEEEc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG-QGQVLVCA 441 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~-~~rILV~A 441 (779)
..+|.||||||||+.+..+...+.+.. ..+|+.+.
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS 173 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE
Confidence 578999999999999988888877653 44677664
No 324
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=93.44 E-value=0.098 Score=57.06 Aligned_cols=36 Identities=31% Similarity=0.399 Sum_probs=29.1
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
..+..|.||||+|||+++..++..+.+.+ .+|.+++
T Consensus 34 ~~~i~i~G~~G~GKttl~~~l~~~~~~~~-~~v~~i~ 69 (300)
T TIGR00750 34 AHRVGITGTPGAGKSTLLEALGMELRRRG-LKVAVIA 69 (300)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHCC-CeEEEEe
Confidence 35678899999999999999998877765 4777765
No 325
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=93.40 E-value=0.82 Score=54.48 Aligned_cols=55 Identities=16% Similarity=0.109 Sum_probs=44.8
Q ss_pred hhcCCeEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 402 VLQRPISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 402 aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
...+..+++.-|=-.|||..++.++..++.. .+.+|+++|+....++.+.+++..
T Consensus 251 ~fkqk~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~ 306 (738)
T PHA03368 251 HFRQRATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGA 306 (738)
T ss_pred HhhccceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHH
Confidence 3457888999999999999888666655544 566999999999999999888865
No 326
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=93.39 E-value=0.087 Score=43.79 Aligned_cols=26 Identities=35% Similarity=0.532 Sum_probs=22.2
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
+.++|.||.|+||||++-++...|.-
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~ 49 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYG 49 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 37999999999999999888776653
No 327
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=93.38 E-value=0.11 Score=56.36 Aligned_cols=38 Identities=37% Similarity=0.556 Sum_probs=27.8
Q ss_pred HHHHHHHHHhhcC---CeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 393 ASQVFAVKSVLQR---PISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 393 ~sQ~~AV~~aL~~---~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
+.+.+.+...+.. +..+|.||||||||+++..+...+.
T Consensus 23 ~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~ 63 (319)
T PRK00440 23 EEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY 63 (319)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc
Confidence 4555566655542 4579999999999999887776664
No 328
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=93.36 E-value=0.31 Score=51.45 Aligned_cols=60 Identities=22% Similarity=0.367 Sum_probs=40.0
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcH-HHHHHHHHHHHhcCCeEEEec
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN-VAVDQLAEKISATGLKVVRLC 465 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN-~AVD~L~erL~~~~l~vvRl~ 465 (779)
...+|++|+.|||||.++.+++..+...+- |++=+.... .....|.+.|.....+++-++
T Consensus 52 annvLL~G~rGtGKSSlVkall~~y~~~GL-RlIev~k~~L~~l~~l~~~l~~~~~kFIlf~ 112 (249)
T PF05673_consen 52 ANNVLLWGARGTGKSSLVKALLNEYADQGL-RLIEVSKEDLGDLPELLDLLRDRPYKFILFC 112 (249)
T ss_pred CcceEEecCCCCCHHHHHHHHHHHHhhcCc-eEEEECHHHhccHHHHHHHHhcCCCCEEEEe
Confidence 346899999999999999888877776663 655554444 244555566655555555443
No 329
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=93.26 E-value=0.063 Score=51.79 Aligned_cols=22 Identities=27% Similarity=0.514 Sum_probs=18.0
Q ss_pred eEEEEcCCCChHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (779)
+.+|.|+||+||||++..+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 4689999999999987776554
No 330
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=93.26 E-value=0.12 Score=50.90 Aligned_cols=35 Identities=26% Similarity=0.324 Sum_probs=28.8
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCc
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS 443 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApS 443 (779)
..|.|++|+|||+++..++..|..++ .+|.++-+.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G-~~V~viK~~ 36 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARG-YRVATIKHD 36 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEEecc
Confidence 56889999999999999999887654 488887654
No 331
>PRK08233 hypothetical protein; Provisional
Probab=93.20 E-value=0.063 Score=53.25 Aligned_cols=24 Identities=25% Similarity=0.343 Sum_probs=19.4
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+..|.|+|||||||.+..++.++
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 456789999999999887776554
No 332
>PRK13342 recombination factor protein RarA; Reviewed
Probab=93.19 E-value=0.13 Score=58.60 Aligned_cols=22 Identities=41% Similarity=0.634 Sum_probs=17.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVY 427 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~ 427 (779)
+..+|+||||||||+++..+..
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~ 58 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAG 58 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 4578899999999998766554
No 333
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=93.19 E-value=3.1 Score=51.74 Aligned_cols=58 Identities=26% Similarity=0.485 Sum_probs=46.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHH---HHHHHHHhcC---CeEEEec
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATG---LKVVRLC 465 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD---~L~erL~~~~---l~vvRl~ 465 (779)
+-+|-|-.|||||+.+.+-+...++.+ ++|..++|+-..-. ++++++...| +.|.|+.
T Consensus 3 m~~lyg~~gtgkT~~l~~e~~~~~~~g-kpviyIvP~q~sFe~E~~~L~~~~~~g~~~i~V~~F~ 66 (1108)
T COG3857 3 MQLLYGRAGTGKTEILTEEIQEELEKG-KPVIYIVPSQMSFEKEKEILERLRQGGSFRIQVTRFK 66 (1108)
T ss_pred eeeehhhccccHHHHHHHHHHHHHHcC-CcEEEEcccchhHHHHHHHHhCcccCCeeeEEEEEHH
Confidence 347889999999999999999888887 59999999887665 6777777666 5566653
No 334
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.16 E-value=0.091 Score=60.93 Aligned_cols=24 Identities=29% Similarity=0.534 Sum_probs=19.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
..|++||||||||+++..++..+.
T Consensus 38 ~~Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 38 AYIFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 368999999999998877766553
No 335
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=93.15 E-value=0.13 Score=50.18 Aligned_cols=33 Identities=33% Similarity=0.509 Sum_probs=27.0
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
..+.|++|+|||+++..+...+...+. +++++.
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g~-~v~ii~ 34 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARGK-RVAVLA 34 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCC-EEEEEE
Confidence 467899999999999999888777654 777765
No 336
>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=93.13 E-value=0.13 Score=54.10 Aligned_cols=50 Identities=22% Similarity=0.385 Sum_probs=36.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHH-----------hCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAK-----------QGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~-----------~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
+.+|.||||+|||+.+..++..+.. ....+||+++--+. .+++.+|+...
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~-~~~i~~Rl~~i 63 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDP-REEIHRRLEAI 63 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCC-HHHHHHHHHHH
Confidence 6799999999999999988877652 13457888875443 34677777654
No 337
>PRK08118 topology modulation protein; Reviewed
Probab=93.13 E-value=0.075 Score=52.90 Aligned_cols=21 Identities=19% Similarity=0.368 Sum_probs=16.5
Q ss_pred EEEEcCCCChHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (779)
.+|.||||+||||.+..+...
T Consensus 4 I~I~G~~GsGKSTlak~L~~~ 24 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEK 24 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999866555543
No 338
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=93.10 E-value=0.21 Score=57.71 Aligned_cols=78 Identities=29% Similarity=0.398 Sum_probs=58.1
Q ss_pred CCCCCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHH-HHHHHHHHhCCCcEEEEcC----cHHHHHHHHHHHHhcCCeE
Q 004009 388 LPELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSA-AIVYHMAKQGQGQVLVCAP----SNVAVDQLAEKISATGLKV 461 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla-~iI~~L~~~~~~rILV~Ap----SN~AVD~L~erL~~~~l~v 461 (779)
...|-+-|..||.+.|- ..-.+|..+.+||||.+.- +-|..++..+ ++.|.+.| -|.--+++.+|..+.|+++
T Consensus 214 ~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g-~KmlfLvPLVALANQKy~dF~~rYs~Lglkv 292 (830)
T COG1202 214 IEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSGG-KKMLFLVPLVALANQKYEDFKERYSKLGLKV 292 (830)
T ss_pred cceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhCC-CeEEEEehhHHhhcchHHHHHHHhhcccceE
Confidence 45788999999999875 4567888899999998642 2344555544 58887777 5556677888988888887
Q ss_pred -EEecc
Q 004009 462 -VRLCA 466 (779)
Q Consensus 462 -vRl~~ 466 (779)
+|+|.
T Consensus 293 airVG~ 298 (830)
T COG1202 293 AIRVGM 298 (830)
T ss_pred EEEech
Confidence 88876
No 339
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=93.10 E-value=0.11 Score=59.06 Aligned_cols=22 Identities=45% Similarity=0.702 Sum_probs=17.7
Q ss_pred CeEEEEcCCCChHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVY 427 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~ 427 (779)
.-.|+.||||||||+++..++.
T Consensus 180 kgvLL~GppGTGKT~LAkalA~ 201 (398)
T PTZ00454 180 RGVLLYGPPGTGKTMLAKAVAH 201 (398)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 3478999999999998766554
No 340
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=93.01 E-value=0.088 Score=53.89 Aligned_cols=28 Identities=25% Similarity=0.552 Sum_probs=23.5
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhC
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (779)
++.++.|+||+|||+.+.+++..|-+.+
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i 29 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEI 29 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhh
Confidence 5788999999999999999887766543
No 341
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=92.98 E-value=0.12 Score=59.38 Aligned_cols=25 Identities=40% Similarity=0.695 Sum_probs=21.5
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHh
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQ 432 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~ 432 (779)
+.|.|||||||||.+..+|..+.+.
T Consensus 72 vavvGPpGtGKsTLirSlVrr~tk~ 96 (1077)
T COG5192 72 VAVVGPPGTGKSTLIRSLVRRFTKQ 96 (1077)
T ss_pred EEeecCCCCChhHHHHHHHHHHHHh
Confidence 4489999999999999999887654
No 342
>PRK05541 adenylylsulfate kinase; Provisional
Probab=92.98 E-value=0.13 Score=51.13 Aligned_cols=29 Identities=24% Similarity=0.307 Sum_probs=23.1
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCC
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQ 434 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~ 434 (779)
.+.+|.|+||+||||++..+...+...+.
T Consensus 8 ~~I~i~G~~GsGKst~a~~l~~~l~~~~~ 36 (176)
T PRK05541 8 YVIWITGLAGSGKTTIAKALYERLKLKYS 36 (176)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence 46789999999999998888877755433
No 343
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=92.97 E-value=0.11 Score=51.93 Aligned_cols=46 Identities=24% Similarity=0.294 Sum_probs=33.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..+|.||||||||+.+..++..+ +.+++.++.....-+++.+|+..
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~----~~~~~~iat~~~~~~e~~~ri~~ 48 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS----GLQVLYIATAQPFDDEMAARIAH 48 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc----CCCcEeCcCCCCChHHHHHHHHH
Confidence 57999999999999877665432 23666666656666778888754
No 344
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.96 E-value=0.11 Score=58.35 Aligned_cols=24 Identities=25% Similarity=0.409 Sum_probs=19.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
..|+.||||||||+++-.++..+.
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhc
Confidence 468999999999998877776654
No 345
>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=92.95 E-value=0.062 Score=51.24 Aligned_cols=21 Identities=38% Similarity=0.659 Sum_probs=14.1
Q ss_pred EEEEcCCCChHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (779)
.||+|+||+|||+++..++..
T Consensus 2 vLleg~PG~GKT~la~~lA~~ 22 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARS 22 (131)
T ss_dssp EEEES---HHHHHHHHHHHHH
T ss_pred EeeECCCccHHHHHHHHHHHH
Confidence 589999999999987665543
No 346
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=92.94 E-value=0.27 Score=61.37 Aligned_cols=79 Identities=20% Similarity=0.314 Sum_probs=61.8
Q ss_pred CCCCHHHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhC----------CCcEEEEcCcHHHHHHHHH----H
Q 004009 389 PELNASQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQG----------QGQVLVCAPSNVAVDQLAE----K 453 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~----------~~rILV~ApSN~AVD~L~e----r 453 (779)
..||..|-....+++. ....|+.||.|.|||-+++.-|.+-+..+ ..+|...||.-.-|+++.. |
T Consensus 308 ~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkR 387 (1674)
T KOG0951|consen 308 QSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKR 387 (1674)
T ss_pred hhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhh
Confidence 4699999998888886 57899999999999999875555554442 3489999999999988876 5
Q ss_pred HHhcCCeEEEeccc
Q 004009 454 ISATGLKVVRLCAK 467 (779)
Q Consensus 454 L~~~~l~vvRl~~~ 467 (779)
+...|++|..+...
T Consensus 388 la~~GI~V~ElTgD 401 (1674)
T KOG0951|consen 388 LAPLGITVLELTGD 401 (1674)
T ss_pred ccccCcEEEEeccc
Confidence 55668887766544
No 347
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=92.94 E-value=0.14 Score=52.83 Aligned_cols=40 Identities=25% Similarity=0.331 Sum_probs=30.1
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhC-----CCcEEEEcCcH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~-----~~rILV~ApSN 444 (779)
..++.|.||||+|||+.+..++...+..+ ..+++.++..+
T Consensus 19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence 46899999999999999999887766554 14666655543
No 348
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=92.92 E-value=0.13 Score=56.93 Aligned_cols=35 Identities=37% Similarity=0.446 Sum_probs=27.9
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
..-|.||||+||||++..++..+...+ .+|.|++-
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~~g-~~v~vi~~ 92 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIEQG-HKVAVLAV 92 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCC-CeEEEEEe
Confidence 456999999999999999988887654 47776653
No 349
>PRK00131 aroK shikimate kinase; Reviewed
Probab=92.90 E-value=0.091 Score=51.53 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=20.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
....+|.||||||||+++..+...+
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 3567899999999999887776654
No 350
>PRK09354 recA recombinase A; Provisional
Probab=92.83 E-value=0.18 Score=56.14 Aligned_cols=39 Identities=23% Similarity=0.300 Sum_probs=31.2
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNV 445 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~ 445 (779)
.+++|.||||||||+.+..++....+.+. +++.+..-+.
T Consensus 61 ~IteI~G~~GsGKTtLal~~~~~~~~~G~-~~~yId~E~s 99 (349)
T PRK09354 61 RIVEIYGPESSGKTTLALHAIAEAQKAGG-TAAFIDAEHA 99 (349)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEECCccc
Confidence 48999999999999999999888777654 6666655443
No 351
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=92.81 E-value=0.54 Score=56.19 Aligned_cols=147 Identities=23% Similarity=0.320 Sum_probs=92.1
Q ss_pred CCCHHHHHHHHHhhc---CCe-EEEEcCCCChHHHHHHHHHHHHHH-hC-CCcEEEEcCcHHHHHHHHHHHHhc--CCeE
Q 004009 390 ELNASQVFAVKSVLQ---RPI-SLIQGPPGTGKTVTSAAIVYHMAK-QG-QGQVLVCAPSNVAVDQLAEKISAT--GLKV 461 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~---~~l-~LIqGPPGTGKT~tla~iI~~L~~-~~-~~rILV~ApSN~AVD~L~erL~~~--~l~v 461 (779)
.|-+.|.+-+....+ +++ .++---=|=|||.-.+.++.+|.. .+ .++-||++|- ...+|....+.+. ++++
T Consensus 167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~-StL~NW~~Ef~rf~P~l~~ 245 (971)
T KOG0385|consen 167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPK-STLDNWMNEFKRFTPSLNV 245 (971)
T ss_pred ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeH-hhHHHHHHHHHHhCCCcce
Confidence 567788888877654 554 344556799999766666656654 22 5699999994 4456666666654 3455
Q ss_pred EEeccccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhh--ccccceecc
Q 004009 462 VRLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQ--SADVICCTC 539 (779)
Q Consensus 462 vRl~~~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~--~a~VI~~T~ 539 (779)
+.+.+...+ .. ...+.++. ..+|+++|-
T Consensus 246 ~~~~Gdk~e-------------------------R~-------------------------~~~r~~~~~~~fdV~iTsY 275 (971)
T KOG0385|consen 246 VVYHGDKEE-------------------------RA-------------------------ALRRDIMLPGRFDVCITSY 275 (971)
T ss_pred EEEeCCHHH-------------------------HH-------------------------HHHHHhhccCCCceEeehH
Confidence 555432110 00 01111121 456666654
Q ss_pred cccCC--ccccCCCCCEEEEEcCCCCChhhhhhhhh----cCCCeEEEEeCCCC
Q 004009 540 VGAGD--PRLANFRFRQVLIDESTQATEPECLIPLV----LGAKQVVLVGDHCQ 587 (779)
Q Consensus 540 ~~a~~--~~L~~~~Fd~VIIDEAsQatEpe~LipL~----~~~~~lILVGD~~Q 587 (779)
-.+-. ..|..+.+.++|||||..+--..+++.-. ....++.+.|=|-|
T Consensus 276 Ei~i~dk~~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQ 329 (971)
T KOG0385|consen 276 EIAIKDKSFLKKFNWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQ 329 (971)
T ss_pred HHHHhhHHHHhcCCceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCccc
Confidence 43332 34778899999999999988777554422 24579999999999
No 352
>PRK14531 adenylate kinase; Provisional
Probab=92.74 E-value=0.092 Score=52.82 Aligned_cols=22 Identities=36% Similarity=0.596 Sum_probs=17.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (779)
-.+|.|||||||||.+..++..
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~ 25 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAA 25 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4689999999999987666544
No 353
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.70 E-value=0.33 Score=55.77 Aligned_cols=69 Identities=22% Similarity=0.257 Sum_probs=53.2
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHH-HHHHHHHHHhCC-------CcEEEEcCcHHHHHHHHHHHHhc
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQGQ-------GQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tl-a~iI~~L~~~~~-------~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..++.-|+++|=.+|...=+||.++-|||||..= .-+|..|..+.. .=-||++||..-+-++.+-+.+.
T Consensus 158 ~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKL 234 (708)
T KOG0348|consen 158 SAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKL 234 (708)
T ss_pred CccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHH
Confidence 3567789999999998888999999999999763 455655655422 12599999999999888776654
No 354
>PRK14530 adenylate kinase; Provisional
Probab=92.69 E-value=0.1 Score=53.88 Aligned_cols=25 Identities=32% Similarity=0.610 Sum_probs=19.6
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+..+|.||||+||||.+..+...+
T Consensus 3 ~~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 3 QPRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHh
Confidence 3457899999999999877766543
No 355
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=92.69 E-value=0.09 Score=54.70 Aligned_cols=32 Identities=28% Similarity=0.600 Sum_probs=23.1
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
-+|.||||+||||-....-.-+...++ ++.++
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr-~~~vV 36 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGR-PVAVV 36 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCC-ceEEE
Confidence 379999999999988776655555443 55554
No 356
>PRK03839 putative kinase; Provisional
Probab=92.68 E-value=0.099 Score=52.23 Aligned_cols=22 Identities=36% Similarity=0.582 Sum_probs=17.4
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+|.|+||+||||+...+...+
T Consensus 3 I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6789999999999766665443
No 357
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=92.68 E-value=0.14 Score=53.32 Aligned_cols=37 Identities=27% Similarity=0.334 Sum_probs=27.8
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHh----CCCcEEEEcCcH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQ----GQGQVLVCAPSN 444 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~----~~~rILV~ApSN 444 (779)
+||.||||+||||.+-.+++.+... ..+||.++-.+|
T Consensus 140 tLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred eEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 7999999999999999888766543 344666665544
No 358
>PRK06762 hypothetical protein; Provisional
Probab=92.64 E-value=0.1 Score=51.25 Aligned_cols=24 Identities=25% Similarity=0.526 Sum_probs=19.7
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+.+|.|+||+||||.+..+...+
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~l 26 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQERL 26 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 467899999999999887776655
No 359
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=92.62 E-value=0.22 Score=57.46 Aligned_cols=36 Identities=31% Similarity=0.466 Sum_probs=28.6
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
...+|.||||+|||+.+..+...+...+ .+|+.+..
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~-~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESG-GKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcC-CCEEEeeH
Confidence 3578999999999999998888777654 47777653
No 360
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=92.61 E-value=0.16 Score=51.07 Aligned_cols=33 Identities=27% Similarity=0.439 Sum_probs=24.0
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
+..|.|+|||||||++..++..+...+. ++.++
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l~~~~~-~~~~i 33 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLRVNGI-GPVVI 33 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHcCC-CEEEE
Confidence 3579999999999998877776654443 44443
No 361
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=92.60 E-value=0.12 Score=55.75 Aligned_cols=34 Identities=32% Similarity=0.490 Sum_probs=28.3
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
..=|.|+||.||+|.+-+++.+|...+. ||-|+|
T Consensus 53 viGITG~PGaGKSTli~~L~~~l~~~G~-rVaVlA 86 (323)
T COG1703 53 VIGITGVPGAGKSTLIEALGRELRERGH-RVAVLA 86 (323)
T ss_pred EEEecCCCCCchHHHHHHHHHHHHHCCc-EEEEEE
Confidence 4459999999999999999999988775 766654
No 362
>PTZ00301 uridine kinase; Provisional
Probab=92.58 E-value=0.17 Score=52.40 Aligned_cols=27 Identities=30% Similarity=0.457 Sum_probs=22.3
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHh
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (779)
-+..|.||||+||||.+..++.+|...
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l~~~ 30 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSELMAH 30 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHHHhh
Confidence 356799999999999988888777554
No 363
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=92.58 E-value=0.12 Score=50.99 Aligned_cols=26 Identities=35% Similarity=0.590 Sum_probs=21.7
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHhC
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQG 433 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (779)
..|.|+||+||||.+..++..|...+
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g 33 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKG 33 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcC
Confidence 57999999999999888887776654
No 364
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=92.55 E-value=0.28 Score=61.14 Aligned_cols=66 Identities=24% Similarity=0.300 Sum_probs=56.8
Q ss_pred CCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 390 ELNASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+|++.|++|+.......-.+|.+|-|+|||.+.-..|+.-++.+. |+..++|..+-.++....+..
T Consensus 119 ~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~~q-rviYTsPIKALsNQKyrdl~~ 184 (1041)
T COG4581 119 ELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALRDGQ-RVIYTSPIKALSNQKYRDLLA 184 (1041)
T ss_pred CcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHHcCC-ceEeccchhhhhhhHHHHHHH
Confidence 699999999998877889999999999999998888877777765 799999988888777776654
No 365
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=92.52 E-value=0.1 Score=51.16 Aligned_cols=21 Identities=38% Similarity=0.515 Sum_probs=15.3
Q ss_pred EEEEcCCCChHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (779)
.+|.|+|||||||++..+..+
T Consensus 2 I~i~G~~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 2 IVITGGPSTGKTTLIEALAAR 22 (163)
T ss_dssp EEEE--TTSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHc
Confidence 479999999999987766654
No 366
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=92.50 E-value=0.19 Score=55.66 Aligned_cols=42 Identities=17% Similarity=0.233 Sum_probs=29.0
Q ss_pred HHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 397 FAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 397 ~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
..+..++. ....+|.||+||||||++.+++..+- ...||+++
T Consensus 151 ~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~ip--~~~ri~ti 193 (332)
T PRK13900 151 EFLEHAVISKKNIIISGGTSTGKTTFTNAALREIP--AIERLITV 193 (332)
T ss_pred HHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhCC--CCCeEEEe
Confidence 44444443 67899999999999999988775542 23466553
No 367
>PHA02244 ATPase-like protein
Probab=92.49 E-value=0.17 Score=56.48 Aligned_cols=31 Identities=16% Similarity=0.336 Sum_probs=22.4
Q ss_pred HHHHhhc-CCeEEEEcCCCChHHHHHHHHHHH
Q 004009 398 AVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 398 AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~ 428 (779)
.+..++. ....+|.||||||||+.+..+...
T Consensus 111 ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 111 DIAKIVNANIPVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred HHHHHHhcCCCEEEECCCCCCHHHHHHHHHHH
Confidence 3344444 456789999999999987776654
No 368
>PRK00889 adenylylsulfate kinase; Provisional
Probab=92.47 E-value=0.18 Score=50.09 Aligned_cols=34 Identities=26% Similarity=0.318 Sum_probs=25.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
.+.+|.|+||+||||++..+...+...+ .++.++
T Consensus 5 ~~i~~~G~~GsGKST~a~~la~~l~~~g-~~v~~i 38 (175)
T PRK00889 5 VTVWFTGLSGAGKTTIARALAEKLREAG-YPVEVL 38 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcC-CeEEEE
Confidence 4678999999999999888887775443 356554
No 369
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=92.47 E-value=0.097 Score=52.53 Aligned_cols=21 Identities=33% Similarity=0.697 Sum_probs=17.0
Q ss_pred EEEEcCCCChHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (779)
.+|.||||||||+++..+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999977666543
No 370
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=92.44 E-value=0.1 Score=61.18 Aligned_cols=24 Identities=38% Similarity=0.639 Sum_probs=19.9
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+.|+.||||+|||+|+..+...|
T Consensus 46 ~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 46 RILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 478999999999999987666554
No 371
>PRK12608 transcription termination factor Rho; Provisional
Probab=92.43 E-value=0.18 Score=56.55 Aligned_cols=50 Identities=26% Similarity=0.326 Sum_probs=37.4
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCC---cEEEEcCcHHHHHHHHHHHHh
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQG---QVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~---rILV~ApSN~AVD~L~erL~~ 456 (779)
-.+|.||||||||+.+..++..+..+... -++++.....-+.++.+.+..
T Consensus 135 R~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~ 187 (380)
T PRK12608 135 RGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKG 187 (380)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhh
Confidence 46999999999999999988888765321 355666666677777777654
No 372
>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=92.41 E-value=0.19 Score=57.59 Aligned_cols=52 Identities=19% Similarity=0.245 Sum_probs=40.7
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..+++|-|+||+|||+.+..++.+++...+.+|++.+.-. ..+++..|+...
T Consensus 195 G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm-~~~~i~~R~~~~ 246 (434)
T TIGR00665 195 SDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEM-SAEQLAMRMLSS 246 (434)
T ss_pred CeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcC-CHHHHHHHHHHH
Confidence 3589999999999999999999988765445898887755 445677777543
No 373
>PRK14532 adenylate kinase; Provisional
Probab=92.40 E-value=0.096 Score=52.64 Aligned_cols=20 Identities=30% Similarity=0.602 Sum_probs=16.6
Q ss_pred EEEEcCCCChHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVY 427 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~ 427 (779)
.+|.|||||||||.+..++.
T Consensus 3 i~~~G~pGsGKsT~a~~la~ 22 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVE 22 (188)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57899999999998766653
No 374
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=92.36 E-value=0.21 Score=46.80 Aligned_cols=45 Identities=33% Similarity=0.505 Sum_probs=32.2
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
.+++|.+|+|||++...+...+.+.+. +|+++---. +.+.+++..
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~-~V~~id~D~---~~~~~~~~~ 46 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGK-PVLAIDADP---DDLPERLSV 46 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC-cEEEEECCc---hhhHHHHhh
Confidence 578999999999999888888877554 666543222 566666543
No 375
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=92.36 E-value=0.098 Score=55.21 Aligned_cols=29 Identities=28% Similarity=0.564 Sum_probs=19.4
Q ss_pred EEcCCCChHHHHHHHHHHHHHHhCCCcEEE
Q 004009 410 IQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (779)
Q Consensus 410 IqGPPGTGKT~tla~iI~~L~~~~~~rILV 439 (779)
|.||||+||||-...+..++...+ .++.+
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~-~~~~~ 29 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNG-RDVYI 29 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT--S-EEE
T ss_pred CCCCCCCCHHHHHHHHHHHHHhcc-CCceE
Confidence 689999999998888776664443 24443
No 376
>PRK06620 hypothetical protein; Validated
Probab=92.34 E-value=0.1 Score=54.18 Aligned_cols=19 Identities=37% Similarity=0.522 Sum_probs=16.0
Q ss_pred CeEEEEcCCCChHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAA 424 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~ 424 (779)
+..+|+||||+|||+.+..
T Consensus 45 ~~l~l~Gp~G~GKThLl~a 63 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKI 63 (214)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3479999999999997764
No 377
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=92.33 E-value=0.14 Score=53.95 Aligned_cols=40 Identities=25% Similarity=0.560 Sum_probs=30.8
Q ss_pred hhcCCe-EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 402 VLQRPI-SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 402 aL~~~l-~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
++..++ .+|.||+|||||+.+..+++.+...- ..|.++++
T Consensus 9 l~~~~fr~viIG~sGSGKT~li~~lL~~~~~~f-~~I~l~t~ 49 (241)
T PF04665_consen 9 LLKDPFRMVIIGKSGSGKTTLIKSLLYYLRHKF-DHIFLITP 49 (241)
T ss_pred hcCCCceEEEECCCCCCHHHHHHHHHHhhcccC-CEEEEEec
Confidence 344553 67999999999999999998766554 47777776
No 378
>PRK07667 uridine kinase; Provisional
Probab=92.32 E-value=0.19 Score=51.15 Aligned_cols=35 Identities=26% Similarity=0.260 Sum_probs=25.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
+..|.|+||+||||++..+...|-+.+. ++.++..
T Consensus 19 iIgI~G~~gsGKStla~~L~~~l~~~~~-~~~~i~~ 53 (193)
T PRK07667 19 ILGIDGLSRSGKTTFVANLKENMKQEGI-PFHIFHI 53 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCC-cEEEEEc
Confidence 5679999999999998877776655443 5555543
No 379
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=92.32 E-value=0.14 Score=52.01 Aligned_cols=51 Identities=18% Similarity=0.372 Sum_probs=35.9
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC---cHHHHHHHHHHHHh-cCCeEEEe
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP---SNVAVDQLAEKISA-TGLKVVRL 464 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap---SN~AVD~L~erL~~-~~l~vvRl 464 (779)
.-|-||||+|||+.+..++..|... .++.|++. |+.-+ +++.+ .+.+++-+
T Consensus 16 i~v~Gp~GSGKTaLie~~~~~L~~~--~~~aVI~~Di~t~~Da----~~l~~~~g~~i~~v 70 (202)
T COG0378 16 IGVGGPPGSGKTALIEKTLRALKDE--YKIAVITGDIYTKEDA----DRLRKLPGEPIIGV 70 (202)
T ss_pred EEecCCCCcCHHHHHHHHHHHHHhh--CCeEEEeceeechhhH----HHHHhCCCCeeEEe
Confidence 4579999999999999999888765 57777754 43333 44444 56665544
No 380
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=92.32 E-value=0.16 Score=53.57 Aligned_cols=33 Identities=21% Similarity=0.492 Sum_probs=24.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
+.++.|+||+||||.+..+..++-..+ .++.++
T Consensus 1 LIvl~G~pGSGKST~a~~La~~l~~~~-~~v~~i 33 (249)
T TIGR03574 1 LIILTGLPGVGKSTFSKELAKKLSEKN-IDVIIL 33 (249)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcC-CceEEE
Confidence 468999999999999988887765443 354444
No 381
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=92.28 E-value=0.087 Score=51.62 Aligned_cols=21 Identities=24% Similarity=0.575 Sum_probs=16.9
Q ss_pred EEEcCCCChHHHHHHHHHHHH
Q 004009 409 LIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L 429 (779)
+|.||||+||||++..+...+
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 688999999998777766554
No 382
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=92.26 E-value=0.17 Score=51.37 Aligned_cols=33 Identities=30% Similarity=0.528 Sum_probs=23.2
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
+..|.||+|+||||++..+...+ +..++.++..
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l---~~~~~~v~~~ 33 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL---GNPKVVIISQ 33 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh---CCCCeEEEEe
Confidence 35799999999999987776555 2335555443
No 383
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=92.23 E-value=0.16 Score=56.05 Aligned_cols=36 Identities=28% Similarity=0.431 Sum_probs=25.2
Q ss_pred HHHHHHHHh-hcCCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 394 SQVFAVKSV-LQRPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 394 sQ~~AV~~a-L~~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
+...++..+ +..+..++.||||||||+.+..++..+
T Consensus 31 ~~~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l 67 (329)
T COG0714 31 EVIELALLALLAGGHVLLEGPPGVGKTLLARALARAL 67 (329)
T ss_pred HHHHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHh
Confidence 444443333 457889999999999999776666543
No 384
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=92.23 E-value=0.1 Score=52.01 Aligned_cols=19 Identities=37% Similarity=0.672 Sum_probs=15.4
Q ss_pred eEEEEcCCCChHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAI 425 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~i 425 (779)
..+|.|.|||||||+...+
T Consensus 2 ~I~ITGTPGvGKTT~~~~L 20 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLL 20 (180)
T ss_pred eEEEeCCCCCchHHHHHHH
Confidence 4689999999999975443
No 385
>PRK14527 adenylate kinase; Provisional
Probab=92.18 E-value=0.13 Score=52.10 Aligned_cols=24 Identities=25% Similarity=0.609 Sum_probs=19.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~ 428 (779)
..+.+|.||||+||||.+..++..
T Consensus 6 ~~~i~i~G~pGsGKsT~a~~La~~ 29 (191)
T PRK14527 6 NKVVIFLGPPGAGKGTQAERLAQE 29 (191)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHH
Confidence 357899999999999987776543
No 386
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=92.18 E-value=0.56 Score=59.13 Aligned_cols=51 Identities=20% Similarity=0.184 Sum_probs=43.2
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
-.+||=--|||||.|+..++..|++. ...+|++++.-+.--+++.+-+.+.
T Consensus 275 ~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~ 326 (962)
T COG0610 275 GGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSF 326 (962)
T ss_pred ceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechHHHHHHHHHHHHHH
Confidence 58999999999999999988888776 3458999999998888888877654
No 387
>PLN02200 adenylate kinase family protein
Probab=92.18 E-value=0.12 Score=54.46 Aligned_cols=23 Identities=35% Similarity=0.561 Sum_probs=18.7
Q ss_pred CeEEEEcCCCChHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (779)
-+.+|.|||||||||.+..++..
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~~ 66 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVET 66 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 36789999999999987777643
No 388
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=92.18 E-value=0.11 Score=50.43 Aligned_cols=19 Identities=37% Similarity=0.746 Sum_probs=15.8
Q ss_pred EEcCCCChHHHHHHHHHHH
Q 004009 410 IQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 410 IqGPPGTGKT~tla~iI~~ 428 (779)
|.||||+|||+.+..+...
T Consensus 1 i~G~PgsGK~t~~~~la~~ 19 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKR 19 (151)
T ss_dssp EEESTTSSHHHHHHHHHHH
T ss_pred CcCCCCCChHHHHHHHHHh
Confidence 6899999999987776654
No 389
>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=92.17 E-value=0.13 Score=53.40 Aligned_cols=40 Identities=20% Similarity=0.239 Sum_probs=28.5
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhC-----CCcEEEEcCcH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN 444 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~-----~~rILV~ApSN 444 (779)
..++.|.||||||||+.+..++......+ ..+++.++.-+
T Consensus 19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~ 63 (235)
T cd01123 19 GSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG 63 (235)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence 45789999999999999988887644332 24665555433
No 390
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=92.16 E-value=0.41 Score=51.90 Aligned_cols=71 Identities=20% Similarity=0.247 Sum_probs=44.1
Q ss_pred CHHHHHHHHHhhc-C--CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEEec
Q 004009 392 NASQVFAVKSVLQ-R--PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVRLC 465 (779)
Q Consensus 392 N~sQ~~AV~~aL~-~--~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvRl~ 465 (779)
|+...+..+..+. + .+.-|.|+||+||||++..++..|... .++.|+.--..... =++||...+..++-+.
T Consensus 88 n~~~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~--~~~~VI~gD~~t~~-Da~rI~~~g~pvvqi~ 161 (290)
T PRK10463 88 NNRLAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKDS--VPCAVIEGDQQTVN-DAARIRATGTPAIQVN 161 (290)
T ss_pred hHHHHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhccC--CCEEEECCCcCcHH-HHHHHHhcCCcEEEec
Confidence 4444444555443 2 245589999999999998888776543 35666543222221 2567777777776663
No 391
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.07 E-value=0.16 Score=59.40 Aligned_cols=24 Identities=38% Similarity=0.569 Sum_probs=20.4
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
.+|+.||||||||+++..++..+.
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~ 61 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVN 61 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHh
Confidence 459999999999999887777765
No 392
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=92.03 E-value=0.3 Score=56.17 Aligned_cols=60 Identities=25% Similarity=0.289 Sum_probs=50.0
Q ss_pred HHHHHHHHhhc-----CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 394 SQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 394 sQ~~AV~~aL~-----~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.|-+||+.... ...-.+.|--|||||+|++.+|..+ +.+-||+|+...-+-+|..-+.+.
T Consensus 16 DQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~----~rPtLV~AhNKTLAaQLy~Efk~f 80 (663)
T COG0556 16 DQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV----QRPTLVLAHNKTLAAQLYSEFKEF 80 (663)
T ss_pred CcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHh----CCCeEEEecchhHHHHHHHHHHHh
Confidence 58888887653 2456789999999999999988764 358999999999999999988875
No 393
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=92.02 E-value=0.16 Score=59.37 Aligned_cols=25 Identities=28% Similarity=0.328 Sum_probs=21.1
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
..+|++||||||||+++..++..+.
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Ln 68 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVN 68 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhc
Confidence 4689999999999999887777663
No 394
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=92.00 E-value=0.33 Score=57.99 Aligned_cols=149 Identities=21% Similarity=0.312 Sum_probs=90.7
Q ss_pred CCCHHHHHHHHHhh---cCCeE-EEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcCcHHHHHHHHHHHHhcCCe--EE
Q 004009 390 ELNASQVFAVKSVL---QRPIS-LIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAPSNVAVDQLAEKISATGLK--VV 462 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL---~~~l~-LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~ApSN~AVD~L~erL~~~~l~--vv 462 (779)
.|-+.|.--|...+ ..++. ++---=|=|||--+++..+.|.+. .+++-||++||- ..+|...-+.+.... |.
T Consensus 399 ~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsS-TleNWlrEf~kwCPsl~Ve 477 (941)
T KOG0389|consen 399 QLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSS-TLENWLREFAKWCPSLKVE 477 (941)
T ss_pred cccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecch-hHHHHHHHHHHhCCceEEE
Confidence 57889988887754 34554 445567999998777777666655 356889999975 456666555554322 21
Q ss_pred EeccccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceeccccc
Q 004009 463 RLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGA 542 (779)
Q Consensus 463 Rl~~~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a 542 (779)
-.++.. .+- +. ++..+.+. -...+|+++|-.-+
T Consensus 478 ~YyGSq-------------------------~ER------------------~~---lR~~i~~~-~~~ydVllTTY~la 510 (941)
T KOG0389|consen 478 PYYGSQ-------------------------DER------------------RE---LRERIKKN-KDDYDVLLTTYNLA 510 (941)
T ss_pred eccCcH-------------------------HHH------------------HH---HHHHHhcc-CCCccEEEEEeecc
Confidence 111100 000 00 11111111 12679999997665
Q ss_pred CC-----ccccCCCCCEEEEEcCCCCChh--h---hhhhhhcCCCeEEEEeCCCC
Q 004009 543 GD-----PRLANFRFRQVLIDESTQATEP--E---CLIPLVLGAKQVVLVGDHCQ 587 (779)
Q Consensus 543 ~~-----~~L~~~~Fd~VIIDEAsQatEp--e---~LipL~~~~~~lILVGD~~Q 587 (779)
+. ..|++.+|++||.||+...--. + -|+.+. +..|+.|.|=|-|
T Consensus 511 ~~~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~-An~RlLLTGTPLQ 564 (941)
T KOG0389|consen 511 ASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSIN-ANFRLLLTGTPLQ 564 (941)
T ss_pred cCChHHHHHHHhccccEEEecchhhhhccchHHHHHhcccc-ccceEEeeCCccc
Confidence 53 2478889999999998764321 1 233332 4579999999999
No 395
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=91.97 E-value=0.3 Score=49.19 Aligned_cols=34 Identities=26% Similarity=0.404 Sum_probs=25.6
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
.+.+|.|+||+||||.+..+..++-..|. +++++
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~-~v~~~ 37 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGY-DVLFT 37 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEE
Confidence 36789999999999998888777655443 55544
No 396
>PRK04040 adenylate kinase; Provisional
Probab=91.94 E-value=0.13 Score=52.16 Aligned_cols=23 Identities=26% Similarity=0.540 Sum_probs=19.3
Q ss_pred eEEEEcCCCChHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L 429 (779)
+.+|.|+||+||||++..+...+
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHh
Confidence 57899999999999887776654
No 397
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=91.92 E-value=0.14 Score=48.75 Aligned_cols=22 Identities=27% Similarity=0.599 Sum_probs=18.3
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+|.|+||||||+++..+...+
T Consensus 2 I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5799999999999887777553
No 398
>PRK06696 uridine kinase; Validated
Probab=91.92 E-value=0.22 Score=51.83 Aligned_cols=33 Identities=24% Similarity=0.353 Sum_probs=24.4
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
+..|.|++|+||||++..++..|-..+ .+++++
T Consensus 24 iI~I~G~sgsGKSTlA~~L~~~l~~~g-~~v~~~ 56 (223)
T PRK06696 24 RVAIDGITASGKTTFADELAEEIKKRG-RPVIRA 56 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcC-CeEEEe
Confidence 677999999999999888877664433 245443
No 399
>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=91.90 E-value=0.21 Score=55.27 Aligned_cols=39 Identities=26% Similarity=0.390 Sum_probs=27.9
Q ss_pred CHHHHHHHHHhhcC----CeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 392 NASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 392 N~sQ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
++...+.+...+.. ..+|+.||||+|||+++..++..+.
T Consensus 19 ~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~ 61 (355)
T TIGR02397 19 QEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALN 61 (355)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 44555555555542 3578999999999998877776664
No 400
>PRK02496 adk adenylate kinase; Provisional
Probab=91.87 E-value=0.14 Score=51.42 Aligned_cols=21 Identities=33% Similarity=0.719 Sum_probs=17.2
Q ss_pred EEEEcCCCChHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (779)
.+|.||||+|||+++..+...
T Consensus 4 i~i~G~pGsGKst~a~~la~~ 24 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEH 24 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 578999999999987766544
No 401
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=91.85 E-value=0.16 Score=50.69 Aligned_cols=24 Identities=21% Similarity=0.321 Sum_probs=19.5
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~ 428 (779)
..+.++.||||+||||.+.++...
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~ 25 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSV 25 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHh
Confidence 357899999999999987766544
No 402
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=91.82 E-value=0.14 Score=50.95 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=19.4
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+.+|.||||+||||++..+...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 367899999999999887665543
No 403
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=91.79 E-value=0.21 Score=51.97 Aligned_cols=35 Identities=17% Similarity=0.204 Sum_probs=23.8
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEcC
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCAP 442 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~Ap 442 (779)
.-|.||+|+||||++..++..+... ...+|.++.-
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~ 37 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITT 37 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEec
Confidence 4688999999999987777655431 2335655443
No 404
>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=91.78 E-value=0.27 Score=47.22 Aligned_cols=25 Identities=24% Similarity=0.466 Sum_probs=21.0
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
..+.++.|+.|+|||+.+..++..+
T Consensus 22 ~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 22 GTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 4588899999999999887777654
No 405
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=91.78 E-value=0.52 Score=53.70 Aligned_cols=71 Identities=20% Similarity=0.235 Sum_probs=52.8
Q ss_pred CCCCCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHHH-HHHHHHHHHh-----CCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 386 PGLPELNASQVFAVKSVLQRPISLIQGPPGTGKTVTS-AAIVYHMAKQ-----GQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 386 ~~~~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tl-a~iI~~L~~~-----~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..+..+++-|...+.-.|...=+|..+--|||||..- .-.+..+++. +.-.++|++||..-+-++..-+.+
T Consensus 100 ~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~ 176 (543)
T KOG0342|consen 100 MGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKE 176 (543)
T ss_pred cCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHH
Confidence 3456789999999988888778899999999999753 3344444443 223699999999988887765543
No 406
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=91.78 E-value=0.11 Score=62.43 Aligned_cols=34 Identities=38% Similarity=0.611 Sum_probs=21.4
Q ss_pred CHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHH
Q 004009 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIV 426 (779)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI 426 (779)
|+.|.+.+-.-+.++ .|+.||||||||..+.+++
T Consensus 332 NP~~Y~~lGAKiPkG-vLL~GPPGTGKTLLAKAiA 365 (774)
T KOG0731|consen 332 NPEQYQELGAKIPKG-VLLVGPPGTGKTLLAKAIA 365 (774)
T ss_pred CHHHHHHcCCcCcCc-eEEECCCCCcHHHHHHHHh
Confidence 444444433222223 6899999999998766554
No 407
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=91.75 E-value=1.3 Score=44.24 Aligned_cols=24 Identities=29% Similarity=0.520 Sum_probs=19.5
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
...+|.|-||+||||++......+
T Consensus 5 kvvvitGVpGvGKTTVl~~~~~~l 28 (189)
T COG2019 5 KVVVITGVPGVGKTTVLKIALKEL 28 (189)
T ss_pred eEEEEEcCCCCChHHHHHHHHHHH
Confidence 457899999999999887666555
No 408
>PRK07261 topology modulation protein; Provisional
Probab=91.74 E-value=0.14 Score=51.09 Aligned_cols=20 Identities=25% Similarity=0.356 Sum_probs=16.7
Q ss_pred EEEEcCCCChHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVY 427 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~ 427 (779)
.+|.|+||+||||.+..+..
T Consensus 3 i~i~G~~GsGKSTla~~l~~ 22 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQ 22 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 57999999999998877543
No 409
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=91.73 E-value=0.3 Score=51.21 Aligned_cols=58 Identities=19% Similarity=0.225 Sum_probs=40.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHH---HHHHHHHhcCCeEEEec
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD---QLAEKISATGLKVVRLC 465 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD---~L~erL~~~~l~vvRl~ 465 (779)
+.-|.|++|+|||+++..++.+|..++ .+|.++-+++.-.| .=..|+.+.|..++-+.
T Consensus 3 vi~ivG~~gsGKTtl~~~l~~~L~~~G-~~V~viK~~~~~~d~~~~Dt~r~~~aGA~~v~~~ 63 (229)
T PRK14494 3 AIGVIGFKDSGKTTLIEKILKNLKERG-YRVATAKHTHHEFDKPDTDTYRFKKAGAEVVVVS 63 (229)
T ss_pred EEEEECCCCChHHHHHHHHHHHHHhCC-CeEEEEEecccCCCCCCchHHHHHHcCCcEEEEe
Confidence 467899999999999999998887665 49999866554333 22234555555554443
No 410
>PRK13764 ATPase; Provisional
Probab=91.73 E-value=0.33 Score=57.70 Aligned_cols=27 Identities=33% Similarity=0.461 Sum_probs=23.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
....||.|||||||||++..++..+..
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~ 283 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYAD 283 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 567899999999999999998877654
No 411
>PRK14528 adenylate kinase; Provisional
Probab=91.72 E-value=0.14 Score=51.69 Aligned_cols=22 Identities=27% Similarity=0.554 Sum_probs=17.5
Q ss_pred eEEEEcCCCChHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (779)
..+|.||||+|||+++..+...
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~ 24 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCER 24 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3689999999999987665543
No 412
>PRK05480 uridine/cytidine kinase; Provisional
Probab=91.71 E-value=0.22 Score=51.07 Aligned_cols=24 Identities=33% Similarity=0.432 Sum_probs=19.6
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+..|.||+|+||||++..+...+
T Consensus 7 ~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 7 IIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 467899999999999887766654
No 413
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=91.70 E-value=0.49 Score=58.06 Aligned_cols=47 Identities=23% Similarity=0.251 Sum_probs=34.5
Q ss_pred EEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+.+-.-|+|||.+++-.++.....+ ..|-|+|||..-+.+-++.+..
T Consensus 98 Iaem~TGeGKTLva~lpa~l~aL~G-~~V~IvTpn~yLA~rd~e~~~~ 144 (830)
T PRK12904 98 IAEMKTGEGKTLVATLPAYLNALTG-KGVHVVTVNDYLAKRDAEWMGP 144 (830)
T ss_pred hhhhhcCCCcHHHHHHHHHHHHHcC-CCEEEEecCHHHHHHHHHHHHH
Confidence 6678999999998765554223334 4799999999888877776654
No 414
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=91.68 E-value=0.32 Score=59.26 Aligned_cols=23 Identities=39% Similarity=0.670 Sum_probs=18.5
Q ss_pred CeEEEEcCCCChHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (779)
+..+|.||||||||+++..+...
T Consensus 53 ~slLL~GPpGtGKTTLA~aIA~~ 75 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARIIANH 75 (725)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 46789999999999987666543
No 415
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=91.62 E-value=0.26 Score=52.88 Aligned_cols=22 Identities=45% Similarity=0.699 Sum_probs=17.1
Q ss_pred CeEEEEcCCCChHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (779)
+-+|+.||||.||||. +.+|+.
T Consensus 53 DHvLl~GPPGlGKTTL-A~IIA~ 74 (332)
T COG2255 53 DHVLLFGPPGLGKTTL-AHIIAN 74 (332)
T ss_pred CeEEeeCCCCCcHHHH-HHHHHH
Confidence 5689999999999985 444443
No 416
>PRK00279 adk adenylate kinase; Reviewed
Probab=91.59 E-value=0.15 Score=52.70 Aligned_cols=21 Identities=33% Similarity=0.635 Sum_probs=16.9
Q ss_pred EEEEcCCCChHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (779)
.+|.||||+||||++..+...
T Consensus 3 I~v~G~pGsGKsT~a~~la~~ 23 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAEK 23 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 689999999999986665543
No 417
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=91.56 E-value=0.064 Score=56.94 Aligned_cols=67 Identities=28% Similarity=0.303 Sum_probs=54.6
Q ss_pred CHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHHhC--CCcEEEEcCcHHHHHHHHHHHHhcC
Q 004009 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISATG 458 (779)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~~~--~~rILV~ApSN~AVD~L~erL~~~~ 458 (779)
..-|++||..++...-.+.|+-.|||||.+..--+.+-+..+ .-++||++||..-+-++.+-+...|
T Consensus 51 S~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg 119 (400)
T KOG0328|consen 51 SAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALG 119 (400)
T ss_pred hHHHhhhhhhhhcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhc
Confidence 457999999999888889999999999988765565555443 2479999999999999988887654
No 418
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=91.55 E-value=0.19 Score=55.90 Aligned_cols=45 Identities=22% Similarity=0.363 Sum_probs=30.4
Q ss_pred HHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
.....+..+.. +...+|.||+||||||++..++..+- ...+|+.+
T Consensus 150 ~~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i~--~~~rivti 195 (344)
T PRK13851 150 DLEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAIP--PQERLITI 195 (344)
T ss_pred HHHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHcccC--CCCCEEEE
Confidence 34444444443 67899999999999999988775542 23466553
No 419
>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=91.55 E-value=0.32 Score=55.55 Aligned_cols=51 Identities=25% Similarity=0.344 Sum_probs=40.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..+++|-|+||+|||+.+..++.++....+.+|++.+.= -..+++..|+..
T Consensus 194 g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlE-m~~~~l~~Rl~~ 244 (421)
T TIGR03600 194 GDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLE-MSAEQLGERLLA 244 (421)
T ss_pred CceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECC-CCHHHHHHHHHH
Confidence 468999999999999999999988864434589888754 366777888764
No 420
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=91.54 E-value=0.16 Score=51.47 Aligned_cols=27 Identities=37% Similarity=0.596 Sum_probs=21.4
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhC
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (779)
+.-|.||+|+||||++..+...|-+.+
T Consensus 1 IIgI~G~sgSGKTTla~~L~~~L~~~~ 27 (194)
T PF00485_consen 1 IIGIAGPSGSGKTTLAKRLAQILNKRG 27 (194)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTTCT
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCccC
Confidence 356999999999999888877665443
No 421
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=91.52 E-value=0.14 Score=57.07 Aligned_cols=24 Identities=29% Similarity=0.332 Sum_probs=18.5
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
...+|+||||||||..+..++..+
T Consensus 149 lgllL~GPPGcGKTllAraiA~el 172 (413)
T PLN00020 149 LILGIWGGKGQGKSFQCELVFKKM 172 (413)
T ss_pred eEEEeeCCCCCCHHHHHHHHHHHc
Confidence 357899999999999766665543
No 422
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=91.50 E-value=0.26 Score=47.97 Aligned_cols=27 Identities=22% Similarity=0.479 Sum_probs=21.3
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhC
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (779)
+.+|.|+||||||+.+..+...+...+
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g 27 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRG 27 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 367999999999998888877665443
No 423
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=91.44 E-value=0.44 Score=56.24 Aligned_cols=154 Identities=21% Similarity=0.312 Sum_probs=90.3
Q ss_pred CCHHHHHHHHHhhc---CCe-EEEEcCCCChHHHHHHHHHHHHHHhC--CCcEEEEcCcHHHHHHHHHHHHhc--CCeEE
Q 004009 391 LNASQVFAVKSVLQ---RPI-SLIQGPPGTGKTVTSAAIVYHMAKQG--QGQVLVCAPSNVAVDQLAEKISAT--GLKVV 462 (779)
Q Consensus 391 LN~sQ~~AV~~aL~---~~l-~LIqGPPGTGKT~tla~iI~~L~~~~--~~rILV~ApSN~AVD~L~erL~~~--~l~vv 462 (779)
|-+.|.+-+....+ .++ .++---=|-|||.-...++++|+... -++.||+||.- ..+|.+.-+.+. .++++
T Consensus 568 LKEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsisvlAhLaE~~nIwGPFLVVtpaS-tL~NWaqEisrFlP~~k~l 646 (1185)
T KOG0388|consen 568 LKEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSISVLAHLAETHNIWGPFLVVTPAS-TLHNWAQEISRFLPSFKVL 646 (1185)
T ss_pred hHHHhhccHHHHHHHHHccccceehhhhccchhHHHHHHHHHHHHhccCCCceEEeehHH-HHhHHHHHHHHhCccceee
Confidence 55677776665543 443 34556679999999999999998873 35899999964 345566555544 24455
Q ss_pred EeccccccccCCccchhhHHHHHhhccchhHHHHHHHHHhhhhhccCCchHHHHHHHHHHHHHHHHhhccccceeccccc
Q 004009 463 RLCAKSREAVSSPVEHLTLHYQVRHLDTSEKSELHKLQQLKDEQGELSSSDEKKYKALKRATEREISQSADVICCTCVGA 542 (779)
Q Consensus 463 Rl~~~sre~i~~~~~~l~l~~~v~~~~~~~~~~l~kl~~lk~~~~els~~d~k~~~~l~~~~~~~iL~~a~VI~~T~~~a 542 (779)
+..+...+ ...|+|+-.-+ .. ..--...+|++++-..+
T Consensus 647 pywGs~~e----------------------RkiLrKfw~rK------------------nm--Y~rna~fhVviTSYQlv 684 (1185)
T KOG0388|consen 647 PYWGSPSE----------------------RKILRKFWNRK------------------NM--YRRNAPFHVVITSYQLV 684 (1185)
T ss_pred cCcCChhh----------------------hHHHHHhcchh------------------hh--hccCCCceEEEEeeeee
Confidence 54432211 11122211000 00 01123456666664433
Q ss_pred C--CccccCCCCCEEEEEcCCCCChhh--hhhhh-hcCC-CeEEEEeCCCC
Q 004009 543 G--DPRLANFRFRQVLIDESTQATEPE--CLIPL-VLGA-KQVVLVGDHCQ 587 (779)
Q Consensus 543 ~--~~~L~~~~Fd~VIIDEAsQatEpe--~LipL-~~~~-~~lILVGD~~Q 587 (779)
- ...+.+.++.+.|+|||+-+-..+ -|-.| .+.| .++.|.|-|-|
T Consensus 685 VtDeky~qkvKWQYMILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPIQ 735 (1185)
T KOG0388|consen 685 VTDEKYLQKVKWQYMILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPIQ 735 (1185)
T ss_pred echHHHHHhhhhhheehhHHHHhhhhhhhHHHHHhhhhccceeeecCCccc
Confidence 2 234777899999999986543332 23222 2334 68999999988
No 424
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=91.43 E-value=0.25 Score=53.20 Aligned_cols=35 Identities=20% Similarity=0.416 Sum_probs=22.3
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
++.+|.|.||+|||+.+..+...+-. ...+|.++.
T Consensus 2 pLiil~G~P~SGKTt~a~~L~~~~~~-~~~~v~~i~ 36 (270)
T PF08433_consen 2 PLIILCGLPCSGKTTRAKELKKYLEE-KGKEVVIIS 36 (270)
T ss_dssp -EEEEE--TTSSHHHHHHHHHHHHHH-TT--EEEE-
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHHHh-cCCEEEEEc
Confidence 67899999999999887777776655 334565554
No 425
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=91.43 E-value=0.64 Score=57.27 Aligned_cols=62 Identities=18% Similarity=0.223 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHCCCCCCeEEEEcccHHHHHHHHHHHHHcCCccccc-----------------CCCeEEccCCCCCCCc
Q 004009 693 ANVEKIVTTFLRSGVVPSQIGVITPYEGQRAYIVNYMSRNGALRQQL-----------------YKEIEVASVDSFQGRE 755 (779)
Q Consensus 693 ~~V~~iV~~Ll~~gv~~~~IgIITPY~~Qv~~L~~~L~~~~~~~~~~-----------------~~~V~V~TVD~FQGrE 755 (779)
..|++-|..+.+.|-+ |-|.|..-.+...|.++|.+.+..+..+ ...|.|+| ++-||=
T Consensus 436 ~Ai~~ei~~~~~~GrP---VLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk~~~~EA~IIa~AG~~GaVTIAT--NMAGRG 510 (913)
T PRK13103 436 AAIITDIKECMALGRP---VLVGTATIETSEHMSNLLKKEGIEHKVLNAKYHEKEAEIIAQAGRPGALTIAT--NMAGRG 510 (913)
T ss_pred HHHHHHHHHHHhCCCC---EEEEeCCHHHHHHHHHHHHHcCCcHHHhccccchhHHHHHHcCCCCCcEEEec--cCCCCC
Confidence 4566667777777754 9999999999999999998876533211 23477887 777887
Q ss_pred CCEE
Q 004009 756 KDYI 759 (779)
Q Consensus 756 kDvI 759 (779)
-||.
T Consensus 511 TDIk 514 (913)
T PRK13103 511 TDIL 514 (913)
T ss_pred CCEe
Confidence 7765
No 426
>KOG4284 consensus DEAD box protein [Transcription]
Probab=91.42 E-value=0.19 Score=58.81 Aligned_cols=68 Identities=18% Similarity=0.264 Sum_probs=49.8
Q ss_pred CHHHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHHH-h-CCCcEEEEcCcHHHHHHHHHHHHhcCC
Q 004009 392 NASQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMAK-Q-GQGQVLVCAPSNVAVDQLAEKISATGL 459 (779)
Q Consensus 392 N~sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~~-~-~~~rILV~ApSN~AVD~L~erL~~~~l 459 (779)
++-|..||-.++..==.+||+-.|||||.+-..++.+-+. + ..-.++|++||..-+-++.+-+.+.+.
T Consensus 49 tkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~ 118 (980)
T KOG4284|consen 49 TKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAP 118 (980)
T ss_pred CchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhcc
Confidence 4579999988876555789999999999765444433222 2 344799999999988888887766544
No 427
>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]
Probab=91.41 E-value=0.26 Score=58.20 Aligned_cols=34 Identities=29% Similarity=0.309 Sum_probs=23.1
Q ss_pred CCCEEEEEcCCCCChhhhhhhhh---c---CCCeEEEEeC
Q 004009 551 RFRQVLIDESTQATEPECLIPLV---L---GAKQVVLVGD 584 (779)
Q Consensus 551 ~Fd~VIIDEAsQatEpe~LipL~---~---~~~~lILVGD 584 (779)
++++|++|||+.+..++.-..+. . ..-.+|-||-
T Consensus 533 kP~~v~LDEATsALDe~~e~~l~q~l~~~lp~~tvISV~H 572 (604)
T COG4178 533 KPKWVFLDEATSALDEETEDRLYQLLKEELPDATVISVGH 572 (604)
T ss_pred CCCEEEEecchhccChHHHHHHHHHHHhhCCCCEEEEecc
Confidence 89999999999998887443332 1 2235666664
No 428
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=91.35 E-value=0.12 Score=60.20 Aligned_cols=22 Identities=45% Similarity=0.779 Sum_probs=18.7
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
+|++||||+|||..+-+++.+|
T Consensus 226 vLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 226 VLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred eeeeCCCCccHHHHHHHHhhhc
Confidence 6999999999999877776654
No 429
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=91.35 E-value=0.15 Score=52.42 Aligned_cols=20 Identities=35% Similarity=0.684 Sum_probs=16.4
Q ss_pred EEEEcCCCChHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVY 427 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~ 427 (779)
.+|.||||+||||.+..+..
T Consensus 2 I~i~G~pGsGKsT~a~~La~ 21 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAE 21 (210)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57899999999998766553
No 430
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=91.28 E-value=0.17 Score=49.33 Aligned_cols=22 Identities=41% Similarity=0.782 Sum_probs=18.7
Q ss_pred CCeEEEEcCCCChHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIV 426 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI 426 (779)
.|-.||.|-|||||||+...++
T Consensus 7 ~PNILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 7 RPNILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CCCEEEeCCCCCCchhHHHHHH
Confidence 5778999999999999876655
No 431
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=91.28 E-value=0.26 Score=53.12 Aligned_cols=34 Identities=26% Similarity=0.302 Sum_probs=28.3
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
+..|.|++||||||++..++..|.+++ +|.++=.
T Consensus 3 ~i~i~G~~gSGKTTLi~~Li~~L~~~G--~V~~IKh 36 (274)
T PRK14493 3 VLSIVGYKATGKTTLVERLVDRLSGRG--RVGTVKH 36 (274)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCC--CEEEEEE
Confidence 567999999999999999999988775 6766644
No 432
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=91.27 E-value=0.26 Score=52.41 Aligned_cols=34 Identities=38% Similarity=0.561 Sum_probs=29.3
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
+.++.|.+|+|||++++.+...+.+.+. |||++.
T Consensus 2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~-~vLlvd 35 (254)
T cd00550 2 YIFFGGKGGVGKTTISAATAVRLAEQGK-KVLLVS 35 (254)
T ss_pred EEEEECCCCchHHHHHHHHHHHHHHCCC-CceEEe
Confidence 5788999999999999999998888775 787775
No 433
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=91.26 E-value=1.2 Score=54.02 Aligned_cols=64 Identities=23% Similarity=0.372 Sum_probs=46.2
Q ss_pred CCCHHHHHHHHHhhcC----------CeEEEEcCCCChHHHHHHHHHHHHHHh-CC-----CcEEEEcCcHHHHHHHHHH
Q 004009 390 ELNASQVFAVKSVLQR----------PISLIQGPPGTGKTVTSAAIVYHMAKQ-GQ-----GQVLVCAPSNVAVDQLAEK 453 (779)
Q Consensus 390 ~LN~sQ~~AV~~aL~~----------~l~LIqGPPGTGKT~tla~iI~~L~~~-~~-----~rILV~ApSN~AVD~L~er 453 (779)
.|=+.|++.++....+ +=.++-=-||+|||...+..++-++++ +. .+-||+||+- -+.+...-
T Consensus 238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~s-Lv~nWkkE 316 (776)
T KOG0390|consen 238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSS-LVNNWKKE 316 (776)
T ss_pred hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHH-HHHHHHHH
Confidence 4667899999885421 114566679999999999999999888 45 6899999975 34444443
Q ss_pred H
Q 004009 454 I 454 (779)
Q Consensus 454 L 454 (779)
+
T Consensus 317 F 317 (776)
T KOG0390|consen 317 F 317 (776)
T ss_pred H
Confidence 3
No 434
>CHL00195 ycf46 Ycf46; Provisional
Probab=91.25 E-value=0.16 Score=59.23 Aligned_cols=22 Identities=41% Similarity=0.507 Sum_probs=17.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (779)
-.|+.||||||||.++..++..
T Consensus 261 GILL~GPpGTGKTllAkaiA~e 282 (489)
T CHL00195 261 GLLLVGIQGTGKSLTAKAIAND 282 (489)
T ss_pred eEEEECCCCCcHHHHHHHHHHH
Confidence 4789999999999887666544
No 435
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=91.24 E-value=0.43 Score=47.25 Aligned_cols=59 Identities=19% Similarity=0.231 Sum_probs=38.0
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHH-----HHHHHHHhcCCeEEEecc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCA 466 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD-----~L~erL~~~~l~vvRl~~ 466 (779)
+..|.|++|+|||+++..++..|...+ .+|-++-+.+.-.+ .-..++.+.|...+-+..
T Consensus 3 vi~i~G~~gsGKTTli~~L~~~l~~~g-~~V~~iK~~~~~~~~d~~g~Ds~~~~~aGa~~v~~~~ 66 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIPALSARG-LRVAVIKHDHHDFDIDTPGKDSYRHREAGAEEVLVSS 66 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcC-CcEEEEEecCCcccccCccchHHHHHHcCCCEEEEec
Confidence 567999999999999999998776554 36766654433222 123345555655554443
No 436
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=91.20 E-value=0.27 Score=53.87 Aligned_cols=42 Identities=21% Similarity=0.334 Sum_probs=32.5
Q ss_pred CCCCCHHHHHHHHHhhc-----------CCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 388 LPELNASQVFAVKSVLQ-----------RPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 388 ~~~LN~sQ~~AV~~aL~-----------~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
+..|+++|++++...+. ....+|.|+||+|||++...+...|
T Consensus 105 l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L 157 (309)
T PRK08154 105 LEQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL 157 (309)
T ss_pred HhcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence 35789999988888763 3467899999999999877665443
No 437
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.19 E-value=0.22 Score=58.75 Aligned_cols=24 Identities=25% Similarity=0.367 Sum_probs=20.3
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
.+|++||||+|||+++..++..|.
T Consensus 40 a~Lf~Gp~GvGKTTlAr~lAk~L~ 63 (546)
T PRK14957 40 AYLFTGTRGVGKTTLGRLLAKCLN 63 (546)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhC
Confidence 478999999999998888777664
No 438
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=91.17 E-value=0.32 Score=52.77 Aligned_cols=26 Identities=35% Similarity=0.586 Sum_probs=22.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHh
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (779)
..|+.||||||||+++-.++..|.-.
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~ 51 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCE 51 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence 48999999999999998888887754
No 439
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=91.17 E-value=0.15 Score=55.22 Aligned_cols=22 Identities=45% Similarity=0.690 Sum_probs=16.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVY 427 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~ 427 (779)
...+|+||||||||...-.+..
T Consensus 167 kg~ll~GppGtGKTlla~~Vaa 188 (388)
T KOG0651|consen 167 KGLLLYGPPGTGKTLLARAVAA 188 (388)
T ss_pred ceeEEeCCCCCchhHHHHHHHH
Confidence 3578999999999986544443
No 440
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.16 E-value=0.44 Score=55.50 Aligned_cols=49 Identities=27% Similarity=0.384 Sum_probs=31.8
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHh-C-------------------CCc-EEEEcCcHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-G-------------------QGQ-VLVCAPSNVAVDQLAEKIS 455 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~-------------------~~r-ILV~ApSN~AVD~L~erL~ 455 (779)
.+|+.||||||||+++..++..|.-. + ... +-+=+.||..+|++.+-+.
T Consensus 37 a~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas~~~vddIR~Iie 106 (491)
T PRK14964 37 SILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDIKVILE 106 (491)
T ss_pred eEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEecccCCCHHHHHHHHH
Confidence 58999999999999876666544211 1 112 3444556777887766543
No 441
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=91.10 E-value=0.16 Score=58.63 Aligned_cols=28 Identities=32% Similarity=0.536 Sum_probs=22.1
Q ss_pred hhcCCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 402 VLQRPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 402 aL~~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
-+...+.||.||+|+|||||+-.+...+
T Consensus 107 ~l~~~iLLltGPsGcGKSTtvkvLskel 134 (634)
T KOG1970|consen 107 KLGSRILLLTGPSGCGKSTTVKVLSKEL 134 (634)
T ss_pred CCCceEEEEeCCCCCCchhHHHHHHHhh
Confidence 3346799999999999999987666443
No 442
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=91.10 E-value=0.32 Score=50.07 Aligned_cols=32 Identities=34% Similarity=0.469 Sum_probs=27.5
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
..|.|-.|+||||+.+.++..|.+.+. |||++
T Consensus 3 iav~gKGGvGKTt~~~nLA~~la~~G~-rvLli 34 (212)
T cd02117 3 IAIYGKGGIGKSTTSQNLSAALAEMGK-KVLQV 34 (212)
T ss_pred EEEECCCcCcHHHHHHHHHHHHHHCCC-cEEEE
Confidence 345599999999999999999998765 88887
No 443
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=91.08 E-value=0.32 Score=48.85 Aligned_cols=39 Identities=21% Similarity=0.235 Sum_probs=29.6
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN 444 (779)
.++..|.|++||||||.+..++..|...+ .+|-++-.+.
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~~g-~~vg~Ik~~~ 44 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCARG-IRPGLIKHTH 44 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhhcC-CeEEEEEEcC
Confidence 45778999999999999999988776544 3666665443
No 444
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=91.07 E-value=0.14 Score=56.77 Aligned_cols=47 Identities=38% Similarity=0.533 Sum_probs=30.8
Q ss_pred EEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhcCCeEEE
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISATGLKVVR 463 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~~l~vvR 463 (779)
+|..||||||||..+.+++.. .+ +++-|+..-.|..+.....-++||
T Consensus 248 vLm~GPPGTGKTlLAKAvATE---c~------tTFFNVSsstltSKwRGeSEKlvR 294 (491)
T KOG0738|consen 248 VLMVGPPGTGKTLLAKAVATE---CG------TTFFNVSSSTLTSKWRGESEKLVR 294 (491)
T ss_pred eeeeCCCCCcHHHHHHHHHHh---hc------CeEEEechhhhhhhhccchHHHHH
Confidence 689999999999865544422 12 677787777777666443333333
No 445
>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=91.07 E-value=0.15 Score=59.57 Aligned_cols=22 Identities=45% Similarity=0.700 Sum_probs=18.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~ 428 (779)
-.|+.||||||||+++..++..
T Consensus 90 giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred cEEEECCCCCCHHHHHHHHHHH
Confidence 3789999999999987776543
No 446
>PHA02624 large T antigen; Provisional
Probab=91.04 E-value=0.23 Score=58.54 Aligned_cols=36 Identities=28% Similarity=0.341 Sum_probs=26.5
Q ss_pred HHHHHHHHhhc----CCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 394 SQVFAVKSVLQ----RPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 394 sQ~~AV~~aL~----~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.=..+++..+. +...++.||||||||+.+..++..|
T Consensus 416 ~~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 416 VIYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 33445555543 4588999999999999888877654
No 447
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=91.02 E-value=0.67 Score=57.03 Aligned_cols=47 Identities=26% Similarity=0.242 Sum_probs=34.4
Q ss_pred EEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
+.+-+-|+|||.+++-.++.-+..+ ..|.|+|+|.--+...++.+..
T Consensus 99 IaEm~TGEGKTL~a~lp~~l~al~g-~~VhIvT~ndyLA~RD~e~m~~ 145 (908)
T PRK13107 99 IAEMRTGEGKTLTATLPAYLNALTG-KGVHVITVNDYLARRDAENNRP 145 (908)
T ss_pred cccccCCCCchHHHHHHHHHHHhcC-CCEEEEeCCHHHHHHHHHHHHH
Confidence 5677899999998765554434344 4799999999877777766543
No 448
>PRK13947 shikimate kinase; Provisional
Probab=91.00 E-value=0.19 Score=49.52 Aligned_cols=22 Identities=27% Similarity=0.394 Sum_probs=17.8
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+|.|+||||||++...+...|
T Consensus 4 I~l~G~~GsGKst~a~~La~~l 25 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVATTL 25 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 6889999999999876666543
No 449
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=90.99 E-value=0.31 Score=53.57 Aligned_cols=50 Identities=14% Similarity=0.262 Sum_probs=32.5
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhC-----CCcEEEEcCcH-HHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQG-----QGQVLVCAPSN-VAVDQLAEKI 454 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~-----~~rILV~ApSN-~AVD~L~erL 454 (779)
..+++|.||||||||+.+..+++.....+ +.+++.+..-+ --.+.|.+..
T Consensus 102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~ 157 (317)
T PRK04301 102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMA 157 (317)
T ss_pred CcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHH
Confidence 45789999999999999998887654321 23555555433 2344444444
No 450
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.98 E-value=0.65 Score=53.96 Aligned_cols=69 Identities=20% Similarity=0.176 Sum_probs=50.8
Q ss_pred CCCCHHHHHHHHHhhcCCeEEEEcCCCChHHHH-HHHHHHHHHH------hC-CCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 389 PELNASQVFAVKSVLQRPISLIQGPPGTGKTVT-SAAIVYHMAK------QG-QGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~~~l~LIqGPPGTGKT~t-la~iI~~L~~------~~-~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..+++-|....-.++...=.+..+--|||||.. +.=+|.+|.. .+ ..++||++||...+.++..-..+.
T Consensus 112 ~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~ 188 (519)
T KOG0331|consen 112 EKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREF 188 (519)
T ss_pred CCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHH
Confidence 456677888888888766678889999999964 2334444443 12 336999999999999998877665
No 451
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=90.93 E-value=0.64 Score=56.79 Aligned_cols=46 Identities=26% Similarity=0.286 Sum_probs=33.8
Q ss_pred EEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHH
Q 004009 409 LIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKIS 455 (779)
Q Consensus 409 LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~ 455 (779)
+.+=.-|.|||.|++-.++..+..| ..|-|+|+|..-+..=++.+.
T Consensus 97 iaEm~TGEGKTLvA~l~a~l~al~G-~~v~vvT~neyLA~Rd~e~~~ 142 (796)
T PRK12906 97 IAEMKTGEGKTLTATLPVYLNALTG-KGVHVVTVNEYLSSRDATEMG 142 (796)
T ss_pred cccccCCCCCcHHHHHHHHHHHHcC-CCeEEEeccHHHHHhhHHHHH
Confidence 5566799999999776666555555 499999999887765555543
No 452
>PRK05439 pantothenate kinase; Provisional
Probab=90.93 E-value=0.3 Score=53.56 Aligned_cols=35 Identities=20% Similarity=0.238 Sum_probs=24.1
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHh-CCCcEEEEc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQ-GQGQVLVCA 441 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~-~~~rILV~A 441 (779)
+..|.||||+||||++..+...+-+. ...+|.+++
T Consensus 88 iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~ 123 (311)
T PRK05439 88 IIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVT 123 (311)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEe
Confidence 45699999999999987776654333 233565554
No 453
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=90.88 E-value=0.42 Score=47.71 Aligned_cols=33 Identities=21% Similarity=0.405 Sum_probs=25.2
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
+..|.||+|+||||.+..+..++-..+. ++.++
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~-~v~~~ 34 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGY-EVVLT 34 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEE
Confidence 4679999999999998888877755443 55444
No 454
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=90.88 E-value=0.2 Score=50.61 Aligned_cols=21 Identities=38% Similarity=0.719 Sum_probs=17.9
Q ss_pred EEEEcCCCChHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~ 428 (779)
.+|.||||+||||.+..+...
T Consensus 3 iiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999987777655
No 455
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=90.86 E-value=0.98 Score=54.67 Aligned_cols=65 Identities=23% Similarity=0.234 Sum_probs=51.9
Q ss_pred CCCCHHHHHHHHHhhc---CC--eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 389 PELNASQVFAVKSVLQ---RP--ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 389 ~~LN~sQ~~AV~~aL~---~~--l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..++..|..++...+. .+ -.+|.|.+|+|||.+++.++.. .+.++||++++...++++.+.|...
T Consensus 11 ~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~~~----~~r~vLIVt~~~~~A~~l~~dL~~~ 80 (652)
T PRK05298 11 YKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVIAR----LQRPTLVLAHNKTLAAQLYSEFKEF 80 (652)
T ss_pred CCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHHHH----hCCCEEEEECCHHHHHHHHHHHHHh
Confidence 3578899988887653 22 4679999999999998765543 2458999999999999999999765
No 456
>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=90.82 E-value=0.2 Score=53.54 Aligned_cols=37 Identities=22% Similarity=0.275 Sum_probs=27.0
Q ss_pred HHHHHHHHhhc-----CCeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 394 SQVFAVKSVLQ-----RPISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 394 sQ~~AV~~aL~-----~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
++.+.|...|. ..+..|+|++|+|||+++..++....
T Consensus 3 ~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~ 44 (287)
T PF00931_consen 3 KEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLR 44 (287)
T ss_dssp HHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHH
T ss_pred HHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccc
Confidence 44555555553 35788999999999999888776543
No 457
>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=90.62 E-value=0.52 Score=50.02 Aligned_cols=51 Identities=27% Similarity=0.374 Sum_probs=40.2
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..+++|-|+||.|||+.+..++.+++..++.+||+.+.=... +++..|+..
T Consensus 19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~-~~l~~R~la 69 (259)
T PF03796_consen 19 GELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSE-EELAARLLA 69 (259)
T ss_dssp T-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-H-HHHHHHHHH
T ss_pred CcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCH-HHHHHHHHH
Confidence 359999999999999999999999998755699999875433 456666654
No 458
>PRK06547 hypothetical protein; Provisional
Probab=90.60 E-value=0.22 Score=49.88 Aligned_cols=23 Identities=35% Similarity=0.511 Sum_probs=18.4
Q ss_pred CeEEEEcCCCChHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~ 428 (779)
.+.+|.||+|||||+++..+...
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 35678899999999988766654
No 459
>PRK05748 replicative DNA helicase; Provisional
Probab=90.51 E-value=0.41 Score=55.19 Aligned_cols=51 Identities=16% Similarity=0.281 Sum_probs=39.9
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHh
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISA 456 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~ 456 (779)
..+++|-|+||+|||+.+..++.+.+...+.+|++.+.-. ..+++..|+..
T Consensus 203 G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEm-s~~~l~~R~l~ 253 (448)
T PRK05748 203 NDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEM-GAESLVMRMLC 253 (448)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCC-CHHHHHHHHHH
Confidence 4589999999999999999999988755445898887644 44577777753
No 460
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=90.50 E-value=0.19 Score=53.07 Aligned_cols=22 Identities=45% Similarity=0.730 Sum_probs=17.7
Q ss_pred CCeEEEEcCCCChHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIV 426 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI 426 (779)
....|..||||||||.++.+++
T Consensus 151 PknVLFyGppGTGKTm~Akala 172 (368)
T COG1223 151 PKNVLFYGPPGTGKTMMAKALA 172 (368)
T ss_pred cceeEEECCCCccHHHHHHHHh
Confidence 3567999999999999766554
No 461
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.46 E-value=0.33 Score=55.10 Aligned_cols=35 Identities=17% Similarity=0.242 Sum_probs=24.3
Q ss_pred HHHHHHhhcC----CeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 396 VFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 396 ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
.+.+..++.+ ..+|++||||+|||+++-.++..+.
T Consensus 25 ~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~ 63 (397)
T PRK14955 25 TRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVN 63 (397)
T ss_pred HHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhc
Confidence 3344444443 2478999999999998877766654
No 462
>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=90.45 E-value=0.3 Score=54.44 Aligned_cols=25 Identities=48% Similarity=0.711 Sum_probs=19.3
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
....||.||||||||..+..+...|
T Consensus 50 Gr~iLiaGppGtGKTAlA~~ia~eL 74 (398)
T PF06068_consen 50 GRAILIAGPPGTGKTALAMAIAKEL 74 (398)
T ss_dssp T-EEEEEE-TTSSHHHHHHHHHHHC
T ss_pred CcEEEEeCCCCCCchHHHHHHHHHh
Confidence 4678999999999999887777654
No 463
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=90.40 E-value=0.22 Score=54.82 Aligned_cols=24 Identities=46% Similarity=0.663 Sum_probs=20.4
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.-.||.||||||||-.+..+...|
T Consensus 66 rgiLi~GppgTGKTAlA~gIa~eL 89 (450)
T COG1224 66 RGILIVGPPGTGKTALAMGIAREL 89 (450)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHh
Confidence 468999999999999888777665
No 464
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=90.39 E-value=0.37 Score=52.76 Aligned_cols=45 Identities=31% Similarity=0.553 Sum_probs=33.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc--CcHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA--PSNVAVDQLA 451 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A--pSN~AVD~L~ 451 (779)
++.++.|.-|+||||++++.+.++.+.|. |+|+++ |.+.-.|-+-
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~-rtLlvS~Dpa~~L~d~l~ 48 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALALALARRGK-RTLLVSTDPAHSLSDVLG 48 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHTTS--EEEEESSTTTHHHHHHT
T ss_pred eEEEEecCCCCCcHHHHHHHHHHHhhCCC-CeeEeecCCCccHHHHhC
Confidence 46789999999999999999999988765 888874 3444444443
No 465
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=90.37 E-value=0.24 Score=47.59 Aligned_cols=22 Identities=23% Similarity=0.359 Sum_probs=18.0
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+|.||||+|||+.+..+...+
T Consensus 2 i~l~G~~GsGKstla~~la~~l 23 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKAL 23 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 4789999999999877776554
No 466
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=90.34 E-value=0.21 Score=50.72 Aligned_cols=26 Identities=35% Similarity=0.588 Sum_probs=18.5
Q ss_pred eEEEEcCCCChHHHHHHHH-HHHHHHh
Q 004009 407 ISLIQGPPGTGKTVTSAAI-VYHMAKQ 432 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~i-I~~L~~~ 432 (779)
+.+|.|.||+|||..++.. |...++.
T Consensus 2 I~~~~G~pGsGKS~~av~~~i~~~l~~ 28 (193)
T PF05707_consen 2 IYLITGKPGSGKSYYAVSYVIIPALKK 28 (193)
T ss_dssp EEEEE--TTSSHHHHHHHHHHH-GGGS
T ss_pred EEEEEcCCCCcHhHHHHHHHHHHHHhC
Confidence 5789999999999988877 6665554
No 467
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=90.34 E-value=0.23 Score=49.56 Aligned_cols=27 Identities=33% Similarity=0.620 Sum_probs=21.9
Q ss_pred cCCeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 404 QRPISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 404 ~~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
.+++.+|.||-|||||+++-++.+.|.
T Consensus 18 ~~g~~vi~G~Ng~GKStil~ai~~~L~ 44 (202)
T PF13476_consen 18 SPGLNVIYGPNGSGKSTILEAIRYALG 44 (202)
T ss_dssp -SEEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred CCCcEEEECCCCCCHHHHHHHHHHHHc
Confidence 368999999999999999866665553
No 468
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=90.33 E-value=0.2 Score=54.26 Aligned_cols=24 Identities=29% Similarity=0.412 Sum_probs=19.2
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+.++.|||||||||.+..+..++
T Consensus 3 ~liil~G~pGSGKSTla~~L~~~~ 26 (300)
T PHA02530 3 KIILTVGVPGSGKSTWAREFAAKN 26 (300)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHC
Confidence 367889999999999877766543
No 469
>PHA00547 hypothetical protein
Probab=90.33 E-value=0.43 Score=50.53 Aligned_cols=37 Identities=30% Similarity=0.393 Sum_probs=28.0
Q ss_pred HHHHHHHHhhcCCeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 394 SQVFAVKSVLQRPISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 394 sQ~~AV~~aL~~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
+|.+-|+.+-++|+++|+||=|||||..+..++.+.-
T Consensus 64 ~~~k~VK~ik~spis~i~G~LGsGKTlLMT~LA~~~K 100 (337)
T PHA00547 64 NAFRLVNFIWDNPLSVIIGKLGTGKTLLLTYLSQTMK 100 (337)
T ss_pred HHHHHHHHHhcCCceEEeccCCCchhHHHHHHHHHHH
Confidence 4555555566789999999999999997776665443
No 470
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=90.30 E-value=0.84 Score=55.20 Aligned_cols=62 Identities=23% Similarity=0.287 Sum_probs=49.7
Q ss_pred CHHHHHHHHHhhc---CC--eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 392 NASQVFAVKSVLQ---RP--ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 392 N~sQ~~AV~~aL~---~~--l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
.-.|..|+..... .+ ..++.|..|||||.|++.++..+ +.++||++++...+.++..-|...
T Consensus 11 ~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~~~~~----~~p~Lvi~~n~~~A~ql~~el~~f 77 (655)
T TIGR00631 11 AGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQV----NRPTLVIAHNKTLAAQLYNEFKEF 77 (655)
T ss_pred ChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHHHHHh----CCCEEEEECCHHHHHHHHHHHHHh
Confidence 4578888877643 22 55799999999999998877542 358999999999999999999775
No 471
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.27 E-value=0.38 Score=53.84 Aligned_cols=38 Identities=18% Similarity=0.324 Sum_probs=26.5
Q ss_pred HHHHHHHHHhhcC----CeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 393 ASQVFAVKSVLQR----PISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 393 ~sQ~~AV~~aL~~----~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
+...+.+...+.. +.+|+.||||+|||+++..++..+.
T Consensus 23 ~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~ 64 (367)
T PRK14970 23 SHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKIN 64 (367)
T ss_pred HHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 4455555555542 3688999999999988777755543
No 472
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=90.24 E-value=0.37 Score=52.66 Aligned_cols=26 Identities=23% Similarity=0.374 Sum_probs=22.0
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
..+++|.||||||||+.+..++....
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~ 120 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQ 120 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 45789999999999999988876654
No 473
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=90.23 E-value=0.35 Score=58.03 Aligned_cols=50 Identities=22% Similarity=0.365 Sum_probs=30.8
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL 454 (779)
++..+|.||||||||+++..+...+-...-..+++...+......+...+
T Consensus 50 ~~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~np~~~~~~~~~~v 99 (637)
T PRK13765 50 RRHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPNPEDPNNPKIRTV 99 (637)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeCCCcchHHHHHHH
Confidence 57899999999999998877665442222135555444433444444433
No 474
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=90.21 E-value=0.74 Score=51.75 Aligned_cols=61 Identities=21% Similarity=0.325 Sum_probs=45.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHH-----HHHHHHHhcCCeEEEeccc
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVD-----QLAEKISATGLKVVRLCAK 467 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD-----~L~erL~~~~l~vvRl~~~ 467 (779)
++.-|.|+||||||+.+..++..|.+.+- +|.++-.+....| .=..|+.+.|...+-+.+.
T Consensus 206 ~~~~~~g~~~~GKtt~~~~l~~~l~~~g~-~v~~iKh~~h~~~~d~~g~Ds~r~~~aGa~~v~~~~~ 271 (366)
T PRK14489 206 PLLGVVGYSGTGKTTLLEKLIPELIARGY-RIGLIKHSHHRVDIDKPGKDSHRLRAAGANPTMIVCP 271 (366)
T ss_pred cEEEEecCCCCCHHHHHHHHHHHHHHcCC-EEEEEEECCcccCCCCCCChhHHHHhCCCceEEEEcC
Confidence 46789999999999999999988877654 9999988776553 1256677777766655443
No 475
>PTZ00088 adenylate kinase 1; Provisional
Probab=90.21 E-value=0.24 Score=52.01 Aligned_cols=20 Identities=25% Similarity=0.464 Sum_probs=16.5
Q ss_pred EEEEcCCCChHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVY 427 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~ 427 (779)
.+|.||||+||||.+..++.
T Consensus 9 Ivl~G~PGsGK~T~a~~La~ 28 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSK 28 (229)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 78999999999997765554
No 476
>COG3911 Predicted ATPase [General function prediction only]
Probab=90.17 E-value=0.25 Score=48.18 Aligned_cols=21 Identities=38% Similarity=0.575 Sum_probs=18.0
Q ss_pred CeEEEEcCCCChHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIV 426 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI 426 (779)
..+++.|+||.|||+.++++.
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa 30 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALA 30 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHH
Confidence 478999999999999876654
No 477
>PRK01184 hypothetical protein; Provisional
Probab=90.13 E-value=0.23 Score=49.72 Aligned_cols=16 Identities=44% Similarity=0.544 Sum_probs=13.8
Q ss_pred eEEEEcCCCChHHHHH
Q 004009 407 ISLIQGPPGTGKTVTS 422 (779)
Q Consensus 407 l~LIqGPPGTGKT~tl 422 (779)
+.+|.|||||||||+.
T Consensus 3 ~i~l~G~~GsGKsT~a 18 (184)
T PRK01184 3 IIGVVGMPGSGKGEFS 18 (184)
T ss_pred EEEEECCCCCCHHHHH
Confidence 5689999999999953
No 478
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=90.12 E-value=0.49 Score=46.75 Aligned_cols=32 Identities=25% Similarity=0.447 Sum_probs=22.4
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEE
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLV 439 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV 439 (779)
+..|.|.||+||||++.++...|...+. ++.+
T Consensus 4 vIwltGlsGsGKtTlA~~L~~~L~~~g~-~~~~ 35 (156)
T PF01583_consen 4 VIWLTGLSGSGKTTLARALERRLFARGI-KVYL 35 (156)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS--EEE
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEE
Confidence 4578999999999877776666666543 4433
No 479
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=89.97 E-value=0.42 Score=56.74 Aligned_cols=24 Identities=25% Similarity=0.440 Sum_probs=20.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
.+|+.||||+|||+++..++..|.
T Consensus 40 A~Lf~GP~GvGKTTlA~~lAk~L~ 63 (605)
T PRK05896 40 AYIFSGPRGIGKTSIAKIFAKAIN 63 (605)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 578999999999999888877764
No 480
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=89.90 E-value=0.39 Score=53.33 Aligned_cols=38 Identities=16% Similarity=0.301 Sum_probs=29.2
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSN 444 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN 444 (779)
+.++.|+||+||||.+..+...|....+.+|.+++.-.
T Consensus 1 ~~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd 38 (340)
T TIGR03575 1 LCVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDD 38 (340)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcccc
Confidence 46789999999999988888777644445888876533
No 481
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=89.87 E-value=0.44 Score=57.10 Aligned_cols=50 Identities=18% Similarity=0.275 Sum_probs=31.7
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKI 454 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL 454 (779)
....++.||||||||+.+..++..+-...-..++++..++...+.+...+
T Consensus 37 ~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~~~~~~~v 86 (608)
T TIGR00764 37 KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPNMPRIVEV 86 (608)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCchHHHHHH
Confidence 56788999999999998877665543222135666655544444444333
No 482
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=89.87 E-value=0.39 Score=53.27 Aligned_cols=22 Identities=32% Similarity=0.379 Sum_probs=17.7
Q ss_pred CeEEEEcCCCChHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVY 427 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~ 427 (779)
+-.|+.||||||||+++..+..
T Consensus 30 ~~vLl~G~pG~gKT~lar~la~ 51 (334)
T PRK13407 30 GGVLVFGDRGTGKSTAVRALAA 51 (334)
T ss_pred CcEEEEcCCCCCHHHHHHHHHH
Confidence 4689999999999997655543
No 483
>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=89.83 E-value=0.36 Score=49.27 Aligned_cols=39 Identities=26% Similarity=0.458 Sum_probs=27.1
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHh---CCCcEEEEcCc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQ---GQGQVLVCAPS 443 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~---~~~rILV~ApS 443 (779)
.+-.+|.|++|+|||+++..++..++.. ...+|.++-+.
T Consensus 38 ~~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k 79 (205)
T PF01580_consen 38 NPHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPK 79 (205)
T ss_dssp S-SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TT
T ss_pred CceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCC
Confidence 4578999999999999999999998874 23345555443
No 484
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.81 E-value=0.35 Score=57.84 Aligned_cols=25 Identities=24% Similarity=0.361 Sum_probs=20.5
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
..+|+.||||||||+++..++..+.
T Consensus 38 HAyLF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 38 HAYLFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhC
Confidence 3579999999999998877776653
No 485
>PF13479 AAA_24: AAA domain
Probab=89.78 E-value=0.25 Score=51.06 Aligned_cols=27 Identities=41% Similarity=0.637 Sum_probs=20.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcC
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAP 442 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~Ap 442 (779)
-++|.|+||+|||+++..+ .++|++..
T Consensus 5 ~~lIyG~~G~GKTt~a~~~---------~k~l~id~ 31 (213)
T PF13479_consen 5 KILIYGPPGSGKTTLAASL---------PKPLFIDT 31 (213)
T ss_pred EEEEECCCCCCHHHHHHhC---------CCeEEEEe
Confidence 3689999999999987665 36666654
No 486
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=89.75 E-value=0.54 Score=46.28 Aligned_cols=40 Identities=25% Similarity=0.416 Sum_probs=26.9
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCc--HHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPS--NVAVD 448 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApS--N~AVD 448 (779)
|+++|.|+.|+|||+.+..++... ...++.++... ...+|
T Consensus 1 p~~~l~G~~GsGKTtl~~~l~~~~---~~~~~~~i~~~~G~~~~d 42 (158)
T cd03112 1 PVTVLTGFLGAGKTTLLNHILTEQ---HGRKIAVIENEFGEVGID 42 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHhcc---cCCcEEEEecCCCccchh
Confidence 578999999999999988766542 23466555433 34444
No 487
>PRK06217 hypothetical protein; Validated
Probab=89.62 E-value=0.26 Score=49.48 Aligned_cols=22 Identities=32% Similarity=0.492 Sum_probs=18.1
Q ss_pred EEEEcCCCChHHHHHHHHHHHH
Q 004009 408 SLIQGPPGTGKTVTSAAIVYHM 429 (779)
Q Consensus 408 ~LIqGPPGTGKT~tla~iI~~L 429 (779)
.+|.|+||+||||++..+...+
T Consensus 4 I~i~G~~GsGKSTla~~L~~~l 25 (183)
T PRK06217 4 IHITGASGSGTTTLGAALAERL 25 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 6899999999999877766543
No 488
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=89.56 E-value=0.23 Score=50.59 Aligned_cols=25 Identities=24% Similarity=0.594 Sum_probs=18.4
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMA 430 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~ 430 (779)
-+.+|-|+||+|||+++..+...+.
T Consensus 16 ~~~i~aG~~GsGKSt~~~~~~~~~~ 40 (199)
T PF06414_consen 16 TLIIIAGQPGSGKSTLARQLLEEFG 40 (199)
T ss_dssp EEEEEES-TTSTTHHHHHHHHHHT-
T ss_pred EEEEEeCCCCCCHHHHHHHhhhhcc
Confidence 3577889999999998887765543
No 489
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=89.54 E-value=0.29 Score=55.96 Aligned_cols=33 Identities=30% Similarity=0.423 Sum_probs=22.4
Q ss_pred HHHHHHHHhhc-CCeEEEEcCCCChHHHHHHHHH
Q 004009 394 SQVFAVKSVLQ-RPISLIQGPPGTGKTVTSAAIV 426 (779)
Q Consensus 394 sQ~~AV~~aL~-~~l~LIqGPPGTGKT~tla~iI 426 (779)
.=++|+.-+.. ..-.|+.||||||||.++..+-
T Consensus 186 ~AKrAleiAAAGgHnLl~~GpPGtGKTmla~Rl~ 219 (490)
T COG0606 186 QAKRALEIAAAGGHNLLLVGPPGTGKTMLASRLP 219 (490)
T ss_pred HHHHHHHHHHhcCCcEEEecCCCCchHHhhhhhc
Confidence 33455544433 4567899999999999766554
No 490
>PRK06761 hypothetical protein; Provisional
Probab=89.54 E-value=0.28 Score=53.09 Aligned_cols=26 Identities=27% Similarity=0.514 Sum_probs=22.1
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
.+.+|.||||+||||++..+...+..
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L~~ 29 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDILSQ 29 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhcCc
Confidence 57899999999999998888877643
No 491
>PRK08760 replicative DNA helicase; Provisional
Probab=89.54 E-value=0.54 Score=54.72 Aligned_cols=52 Identities=21% Similarity=0.238 Sum_probs=40.9
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..+++|-|.||.|||+.+..++..++...+.+|++.+.=.. .+++..|+...
T Consensus 229 G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs-~~ql~~Rl~a~ 280 (476)
T PRK08760 229 TDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMS-ASQLAMRLISS 280 (476)
T ss_pred CceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCC-HHHHHHHHHHh
Confidence 46899999999999999999998887554458988876443 46788888654
No 492
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=89.53 E-value=0.4 Score=54.45 Aligned_cols=25 Identities=32% Similarity=0.619 Sum_probs=20.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHH
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAK 431 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~ 431 (779)
.+|++||||+|||+++..++..+.-
T Consensus 38 a~Lf~Gp~G~GKt~lA~~lA~~l~c 62 (394)
T PRK07940 38 AWLFTGPPGSGRSVAARAFAAALQC 62 (394)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhCC
Confidence 4789999999999988887766543
No 493
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=89.46 E-value=0.69 Score=56.54 Aligned_cols=48 Identities=21% Similarity=0.227 Sum_probs=33.4
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEK 453 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~er 453 (779)
..+++|.||||||||+.+..++....+.+. +++.+..-+..-...+++
T Consensus 60 GsiteI~G~~GsGKTtLal~~~~~a~~~G~-~v~yId~E~t~~~~~A~~ 107 (790)
T PRK09519 60 GRVIEIYGPESSGKTTVALHAVANAQAAGG-VAAFIDAEHALDPDYAKK 107 (790)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-cEEEECCccchhHHHHHH
Confidence 457899999999999999888877666553 666665544443333333
No 494
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=89.45 E-value=0.36 Score=48.56 Aligned_cols=27 Identities=26% Similarity=0.425 Sum_probs=22.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHh
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQ 432 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~ 432 (779)
...|+.||||+|||+++..++..+...
T Consensus 15 ~~~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 15 HAYLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 468999999999999998888877643
No 495
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=89.40 E-value=0.49 Score=48.98 Aligned_cols=34 Identities=32% Similarity=0.588 Sum_probs=28.0
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEc
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCA 441 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~A 441 (779)
+.++.|.||+|||++.+.+...+.+.+. |+|++.
T Consensus 1 ~~~~~g~~g~Gkt~~~~~la~~~a~~g~-~~~l~~ 34 (217)
T cd02035 1 VIFFTGKGGVGKTTIAAATAVRLAEEGK-KVLLVS 34 (217)
T ss_pred CEEEeCCCCchHHHHHHHHHHHHHHCCC-cEEEEE
Confidence 3578999999999999999888888765 766654
No 496
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.37 E-value=0.46 Score=56.99 Aligned_cols=37 Identities=30% Similarity=0.486 Sum_probs=25.4
Q ss_pred CHHHHHHHHHhhc--------CCeEEEEcCCCChHHHHHHHHHHH
Q 004009 392 NASQVFAVKSVLQ--------RPISLIQGPPGTGKTVTSAAIVYH 428 (779)
Q Consensus 392 N~sQ~~AV~~aL~--------~~l~LIqGPPGTGKT~tla~iI~~ 428 (779)
++.+.+.|+..+. ..+.+|.||||||||+++..+...
T Consensus 89 ~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~ 133 (637)
T TIGR00602 89 HKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKE 133 (637)
T ss_pred cHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence 4455555555443 245899999999999987766544
No 497
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=89.32 E-value=0.31 Score=55.59 Aligned_cols=23 Identities=30% Similarity=0.598 Sum_probs=19.0
Q ss_pred CCeEEEEcCCCChHHHHHHHHHH
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVY 427 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~ 427 (779)
.+..|+.||||||||+++..+..
T Consensus 108 ~~~iLl~Gp~GtGKT~lAr~lA~ 130 (412)
T PRK05342 108 KSNILLIGPTGSGKTLLAQTLAR 130 (412)
T ss_pred CceEEEEcCCCCCHHHHHHHHHH
Confidence 56789999999999998766653
No 498
>PRK05595 replicative DNA helicase; Provisional
Probab=89.31 E-value=0.64 Score=53.61 Aligned_cols=52 Identities=25% Similarity=0.238 Sum_probs=40.7
Q ss_pred CCeEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEEcCcHHHHHHHHHHHHhc
Q 004009 405 RPISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVCAPSNVAVDQLAEKISAT 457 (779)
Q Consensus 405 ~~l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ApSN~AVD~L~erL~~~ 457 (779)
..+++|-|.||.|||+.+..++.++....+.+|++.+.=. ..++++.|+...
T Consensus 201 g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlEm-s~~~l~~R~~a~ 252 (444)
T PRK05595 201 GDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLEM-SKEQLAYKLLCS 252 (444)
T ss_pred CcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecCC-CHHHHHHHHHHH
Confidence 4589999999999999999999887644345898887643 667788887653
No 499
>PRK12678 transcription termination factor Rho; Provisional
Probab=89.29 E-value=0.43 Score=56.07 Aligned_cols=28 Identities=29% Similarity=0.414 Sum_probs=23.8
Q ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHhC
Q 004009 406 PISLIQGPPGTGKTVTSAAIVYHMAKQG 433 (779)
Q Consensus 406 ~l~LIqGPPGTGKT~tla~iI~~L~~~~ 433 (779)
.-.||.||||||||+++..|+.++.+.+
T Consensus 417 QR~LIvgpp~aGKTtLL~~IAn~i~~n~ 444 (672)
T PRK12678 417 QRGLIVSPPKAGKTTILQNIANAITTNN 444 (672)
T ss_pred CEeEEeCCCCCCHHHHHHHHHHHHhhcC
Confidence 3579999999999999999888887654
No 500
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=89.27 E-value=0.48 Score=46.78 Aligned_cols=33 Identities=27% Similarity=0.480 Sum_probs=27.7
Q ss_pred eEEEEcCCCChHHHHHHHHHHHHHHhCCCcEEEE
Q 004009 407 ISLIQGPPGTGKTVTSAAIVYHMAKQGQGQVLVC 440 (779)
Q Consensus 407 l~LIqGPPGTGKT~tla~iI~~L~~~~~~rILV~ 440 (779)
+.+..+-+|+|||++++.++..+.+.+. |||++
T Consensus 2 i~v~s~kgG~GKTt~a~~LA~~la~~g~-~vllv 34 (169)
T cd02037 2 IAVMSGKGGVGKSTVAVNLALALAKLGY-KVGLL 34 (169)
T ss_pred EEEecCCCcCChhHHHHHHHHHHHHcCC-cEEEE
Confidence 4577889999999999999998887765 88775
Done!