Query 003388
Match_columns 824
No_of_seqs 415 out of 2511
Neff 7.7
Searched_HMMs 46136
Date Thu Mar 28 22:31:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003388.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003388hhsearch_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 2.6E-87 5.7E-92 732.2 41.9 574 50-754 228-839 (935)
2 KOG1803 DNA helicase [Replicat 100.0 2.1E-83 4.4E-88 704.7 32.6 566 62-754 3-631 (649)
3 TIGR00376 DNA helicase, putati 100.0 3.5E-77 7.6E-82 700.9 53.6 520 99-756 36-635 (637)
4 KOG1805 DNA replication helica 100.0 3E-67 6.4E-72 598.4 27.9 418 223-755 637-1079(1100)
5 KOG1807 Helicases [Replication 100.0 1.3E-53 2.7E-58 474.1 34.5 284 456-755 693-980 (1025)
6 KOG1801 tRNA-splicing endonucl 100.0 4.6E-53 1E-57 507.6 18.6 296 461-757 514-815 (827)
7 COG1112 Superfamily I DNA and 100.0 1.8E-46 3.8E-51 459.2 30.9 289 455-756 462-754 (767)
8 KOG1804 RNA helicase [RNA proc 100.0 1.2E-40 2.5E-45 385.6 13.2 397 251-758 306-726 (775)
9 PF13087 AAA_12: AAA domain; P 100.0 1.3E-37 2.7E-42 318.3 7.5 197 534-731 1-200 (200)
10 PF13086 AAA_11: AAA domain; P 100.0 5.6E-35 1.2E-39 304.8 16.3 205 256-527 1-236 (236)
11 KOG1806 DEAD box containing he 100.0 3.8E-31 8.2E-36 302.3 7.0 283 457-747 963-1264(1320)
12 PRK11054 helD DNA helicase IV; 99.9 8E-26 1.7E-30 267.5 18.7 223 482-749 429-676 (684)
13 TIGR01447 recD exodeoxyribonuc 99.9 1.6E-24 3.6E-29 252.3 21.4 54 675-733 521-574 (586)
14 PRK10875 recD exonuclease V su 99.9 7.4E-24 1.6E-28 247.0 21.1 54 675-733 539-592 (615)
15 PRK11773 uvrD DNA-dependent he 99.9 1.7E-24 3.7E-29 261.3 15.7 88 479-573 209-300 (721)
16 TIGR01448 recD_rel helicase, p 99.9 1.8E-23 3.9E-28 250.2 21.7 171 254-568 321-496 (720)
17 TIGR01075 uvrD DNA helicase II 99.9 5.9E-24 1.3E-28 256.8 17.4 87 480-573 205-295 (715)
18 TIGR01073 pcrA ATP-dependent D 99.9 5.1E-24 1.1E-28 258.0 15.3 87 480-573 206-296 (726)
19 PRK10919 ATP-dependent DNA hel 99.9 3.9E-23 8.5E-28 246.7 20.7 86 480-572 204-293 (672)
20 TIGR02768 TraA_Ti Ti-type conj 99.9 1.1E-21 2.3E-26 235.8 22.6 300 255-744 351-724 (744)
21 TIGR01074 rep ATP-dependent DN 99.9 3.3E-21 7.1E-26 232.0 19.1 86 480-572 203-292 (664)
22 PRK13889 conjugal transfer rel 99.8 8E-20 1.7E-24 221.4 21.3 168 256-574 346-516 (988)
23 PRK13826 Dtr system oriT relax 99.8 1.6E-19 3.4E-24 219.7 23.6 169 255-574 380-551 (1102)
24 PF13604 AAA_30: AAA domain; P 99.8 2E-19 4.2E-24 183.2 8.8 172 256-574 1-177 (196)
25 TIGR02785 addA_Gpos recombinat 99.8 1.9E-18 4E-23 218.7 18.3 86 480-572 385-482 (1232)
26 TIGR00609 recB exodeoxyribonuc 99.8 1.1E-17 2.4E-22 209.4 21.1 177 476-664 289-490 (1087)
27 COG0210 UvrD Superfamily I DNA 99.8 3.4E-18 7.4E-23 205.7 13.9 158 478-664 208-370 (655)
28 PRK14712 conjugal transfer nic 99.7 2.8E-16 6.2E-21 196.2 20.0 171 255-568 834-1009(1623)
29 PRK13709 conjugal transfer nic 99.7 3.5E-16 7.5E-21 198.1 21.0 176 255-574 966-1146(1747)
30 TIGR02760 TraI_TIGR conjugativ 99.6 1E-14 2.3E-19 189.8 16.0 166 255-565 1018-1190(1960)
31 PF01443 Viral_helicase1: Vira 99.6 1.4E-14 3.1E-19 151.6 11.6 49 676-727 184-233 (234)
32 COG1074 RecB ATP-dependent exo 99.6 1.6E-14 3.4E-19 181.5 13.5 187 473-666 368-577 (1139)
33 PRK13909 putative recombinatio 99.5 5.1E-14 1.1E-18 174.2 15.6 159 477-664 322-492 (910)
34 COG3973 Superfamily I DNA and 99.5 8.5E-14 1.8E-18 154.9 15.3 205 482-729 527-745 (747)
35 TIGR02784 addA_alphas double-s 99.4 1.1E-12 2.4E-17 166.5 17.8 90 476-572 384-496 (1141)
36 PF00580 UvrD-helicase: UvrD/R 99.4 5.1E-13 1.1E-17 145.8 11.2 57 481-544 254-312 (315)
37 PRK10876 recB exonuclease V su 99.4 1.2E-12 2.6E-17 164.8 15.3 177 476-664 370-572 (1181)
38 PF09848 DUF2075: Uncharacteri 99.3 5.2E-12 1.1E-16 140.6 12.9 87 481-574 81-183 (352)
39 PF13245 AAA_19: Part of AAA d 99.3 4.6E-12 9.9E-17 108.2 7.1 36 263-298 1-36 (76)
40 TIGR02760 TraI_TIGR conjugativ 99.3 6.7E-11 1.4E-15 154.8 20.8 168 255-561 428-600 (1960)
41 COG0507 RecD ATP-dependent exo 99.2 1.8E-11 3.9E-16 148.4 7.7 55 675-735 622-676 (696)
42 PF05970 PIF1: PIF1-like helic 99.2 2.6E-11 5.7E-16 135.4 7.1 41 256-296 1-46 (364)
43 KOG1804 RNA helicase [RNA proc 99.0 1.5E-10 3.2E-15 136.0 3.8 283 457-753 239-544 (775)
44 PF02562 PhoH: PhoH-like prote 98.8 7.6E-09 1.7E-13 105.1 7.5 42 256-298 4-45 (205)
45 PRK10536 hypothetical protein; 98.8 1.2E-07 2.6E-12 99.0 16.1 42 255-297 58-99 (262)
46 COG3972 Superfamily I DNA and 98.7 1.4E-07 3E-12 103.7 12.5 244 482-745 294-585 (660)
47 smart00487 DEXDc DEAD-like hel 98.7 2.6E-07 5.6E-12 92.7 13.9 43 255-297 7-49 (201)
48 PF13361 UvrD_C: UvrD-like hel 98.6 1.7E-08 3.6E-13 111.5 4.2 59 672-730 285-350 (351)
49 cd00046 DEXDc DEAD-like helica 98.6 3.8E-07 8.2E-12 86.0 12.1 25 274-298 2-26 (144)
50 PF00270 DEAD: DEAD/DEAH box h 98.5 2.7E-06 5.8E-11 84.0 14.6 39 258-297 1-39 (169)
51 PF04851 ResIII: Type III rest 98.4 6.7E-07 1.4E-11 89.3 8.0 42 256-297 3-50 (184)
52 cd00268 DEADc DEAD-box helicas 98.2 2.7E-05 5.8E-10 79.6 14.8 41 255-296 20-61 (203)
53 PF13538 UvrD_C_2: UvrD-like h 98.1 3.7E-07 7.9E-12 83.0 -1.0 50 674-727 55-104 (104)
54 PRK11192 ATP-dependent RNA hel 98.1 3.4E-05 7.4E-10 88.7 14.9 34 256-290 23-56 (434)
55 PRK05580 primosome assembly pr 98.1 2.5E-05 5.5E-10 94.2 14.3 43 255-297 143-187 (679)
56 PTZ00424 helicase 45; Provisio 98.0 5.6E-05 1.2E-09 85.9 14.3 36 256-292 50-85 (401)
57 PHA02558 uvsW UvsW helicase; P 98.0 5.1E-05 1.1E-09 88.8 13.8 41 256-297 114-154 (501)
58 PRK10590 ATP-dependent RNA hel 97.9 0.00016 3.5E-09 83.7 15.0 36 255-291 22-57 (456)
59 PRK02362 ski2-like helicase; P 97.9 7.2E-05 1.6E-09 91.7 12.4 47 245-291 8-58 (737)
60 PRK11634 ATP-dependent RNA hel 97.9 0.00014 3E-09 87.0 14.3 35 255-290 27-61 (629)
61 PRK10917 ATP-dependent DNA hel 97.9 6.8E-05 1.5E-09 90.8 11.4 43 251-293 256-303 (681)
62 TIGR00643 recG ATP-dependent D 97.8 8.7E-05 1.9E-09 89.2 11.9 40 252-291 231-275 (630)
63 PRK04837 ATP-dependent RNA hel 97.8 0.00024 5.2E-09 81.4 15.1 35 255-290 29-63 (423)
64 PRK11776 ATP-dependent RNA hel 97.8 0.00017 3.6E-09 83.6 13.9 34 255-289 25-58 (460)
65 COG1061 SSL2 DNA or RNA helica 97.8 0.00011 2.4E-09 84.4 12.0 42 255-296 35-79 (442)
66 PRK00254 ski2-like helicase; P 97.8 0.00019 4.1E-09 87.8 13.9 36 255-290 22-57 (720)
67 PRK04537 ATP-dependent RNA hel 97.8 0.00027 5.8E-09 83.9 14.7 36 255-291 30-65 (572)
68 PF07652 Flavi_DEAD: Flaviviru 97.8 0.00014 3E-09 69.2 9.5 22 373-394 33-54 (148)
69 PRK11448 hsdR type I restricti 97.7 0.00015 3.3E-09 91.3 12.3 43 256-298 413-459 (1123)
70 PRK01172 ski2-like helicase; P 97.7 9.9E-05 2.1E-09 89.7 10.1 45 245-290 8-55 (674)
71 COG1875 NYN ribonuclease and A 97.7 0.00019 4E-09 77.4 10.7 41 255-297 227-268 (436)
72 TIGR01054 rgy reverse gyrase. 97.7 0.00031 6.7E-09 89.2 14.3 35 255-290 77-111 (1171)
73 PTZ00110 helicase; Provisional 97.7 0.00064 1.4E-08 80.3 16.0 45 244-289 136-184 (545)
74 TIGR02773 addB_Gpos ATP-depend 97.7 0.00024 5.2E-09 91.3 12.6 151 483-665 196-359 (1158)
75 TIGR01970 DEAH_box_HrpB ATP-de 97.7 0.00026 5.5E-09 86.7 12.0 34 260-293 5-38 (819)
76 PRK09401 reverse gyrase; Revie 97.7 0.0004 8.7E-09 88.1 14.0 35 255-290 79-113 (1176)
77 TIGR00580 mfd transcription-re 97.6 0.00036 7.9E-09 86.4 12.9 40 253-292 448-492 (926)
78 PRK11664 ATP-dependent RNA hel 97.6 0.00026 5.5E-09 86.8 11.3 32 260-291 8-39 (812)
79 TIGR00614 recQ_fam ATP-depende 97.6 0.00065 1.4E-08 78.9 14.0 33 255-288 10-42 (470)
80 TIGR00603 rad25 DNA repair hel 97.6 0.00086 1.9E-08 80.3 14.7 39 256-294 255-295 (732)
81 PRK08181 transposase; Validate 97.6 0.00053 1.2E-08 73.2 11.7 44 255-298 86-132 (269)
82 PRK13766 Hef nuclease; Provisi 97.5 0.0007 1.5E-08 83.7 13.7 128 258-499 17-147 (773)
83 COG4096 HsdR Type I site-speci 97.5 0.00047 1E-08 81.3 11.3 42 257-298 166-211 (875)
84 TIGR00595 priA primosomal prot 97.5 0.0005 1.1E-08 80.2 11.1 23 373-395 25-47 (505)
85 TIGR00348 hsdR type I site-spe 97.5 0.00089 1.9E-08 80.9 13.5 42 257-298 239-289 (667)
86 COG1198 PriA Primosomal protei 97.5 0.00042 9.1E-09 82.8 10.1 44 255-298 197-243 (730)
87 PRK14701 reverse gyrase; Provi 97.4 0.0014 2.9E-08 85.5 15.0 32 256-288 79-110 (1638)
88 PLN00206 DEAD-box ATP-dependen 97.4 0.0016 3.4E-08 76.6 14.3 44 244-288 127-174 (518)
89 PRK10689 transcription-repair 97.4 0.0011 2.4E-08 84.0 13.4 41 253-293 597-642 (1147)
90 PRK01297 ATP-dependent RNA hel 97.4 0.0018 3.9E-08 75.4 14.2 44 245-289 94-141 (475)
91 PF05127 Helicase_RecD: Helica 97.4 2.2E-05 4.8E-10 78.0 -1.8 31 482-513 89-119 (177)
92 TIGR03817 DECH_helic helicase/ 97.4 0.0014 3E-08 80.1 13.2 44 245-289 21-68 (742)
93 TIGR01389 recQ ATP-dependent D 97.3 0.0027 5.9E-08 76.0 14.5 34 255-289 12-45 (591)
94 KOG2108 3'-5' DNA helicase [Re 97.2 0.0003 6.4E-09 83.1 5.2 83 483-570 229-313 (853)
95 PRK13767 ATP-dependent helicas 97.2 0.002 4.3E-08 80.3 12.6 34 256-290 32-65 (876)
96 PHA02653 RNA helicase NPH-II; 97.2 0.0013 2.9E-08 78.7 10.5 34 259-293 167-200 (675)
97 PRK04296 thymidine kinase; Pro 97.2 0.00078 1.7E-08 68.4 7.2 25 273-297 3-27 (190)
98 PRK14974 cell division protein 97.2 0.0034 7.4E-08 69.1 12.2 26 272-297 140-165 (336)
99 KOG0989 Replication factor C, 97.1 0.00045 9.9E-09 73.0 4.5 26 272-297 57-82 (346)
100 TIGR01967 DEAH_box_HrpA ATP-de 97.1 0.002 4.4E-08 81.4 10.8 32 261-292 71-102 (1283)
101 COG1110 Reverse gyrase [DNA re 97.1 0.0045 9.7E-08 74.6 13.0 130 256-493 82-213 (1187)
102 TIGR00604 rad3 DNA repair heli 97.1 0.0058 1.2E-07 74.7 14.4 114 620-748 504-632 (705)
103 PRK11057 ATP-dependent DNA hel 97.0 0.0069 1.5E-07 72.7 13.8 33 255-288 24-56 (607)
104 PF00176 SNF2_N: SNF2 family N 97.0 0.0022 4.7E-08 69.4 8.7 58 459-519 105-174 (299)
105 cd00009 AAA The AAA+ (ATPases 97.0 0.001 2.2E-08 63.0 5.4 40 258-297 3-44 (151)
106 PRK14712 conjugal transfer nic 96.9 0.005 1.1E-07 79.3 12.3 41 255-295 280-322 (1623)
107 KOG0354 DEAD-box like helicase 96.9 0.0045 9.8E-08 73.3 10.5 41 256-298 62-102 (746)
108 COG1204 Superfamily II helicas 96.9 0.0049 1.1E-07 75.0 11.2 36 256-291 31-66 (766)
109 TIGR03158 cas3_cyano CRISPR-as 96.9 0.0053 1.2E-07 68.7 10.5 29 261-289 2-31 (357)
110 PRK11131 ATP-dependent RNA hel 96.8 0.0064 1.4E-07 76.9 11.6 32 261-292 78-109 (1294)
111 COG1111 MPH1 ERCC4-like helica 96.8 0.0073 1.6E-07 67.9 10.5 128 259-500 18-148 (542)
112 TIGR03117 cas_csf4 CRISPR-asso 96.8 0.015 3.3E-07 69.1 13.8 27 263-289 7-33 (636)
113 TIGR01587 cas3_core CRISPR-ass 96.8 0.0046 9.9E-08 69.1 9.0 23 373-395 29-51 (358)
114 TIGR02621 cas3_GSU0051 CRISPR- 96.7 0.005 1.1E-07 74.8 9.7 35 256-290 15-49 (844)
115 COG4098 comFA Superfamily II D 96.7 0.0097 2.1E-07 63.8 10.5 45 254-298 95-142 (441)
116 PRK07994 DNA polymerase III su 96.7 0.0054 1.2E-07 73.0 9.6 46 482-527 118-169 (647)
117 PRK14958 DNA polymerase III su 96.7 0.0068 1.5E-07 70.8 10.4 46 482-527 118-169 (509)
118 KOG0952 DNA/RNA helicase MER3/ 96.7 0.006 1.3E-07 73.6 9.7 43 255-297 109-151 (1230)
119 PRK10876 recB exonuclease V su 96.7 0.0028 6.2E-08 81.0 7.1 54 673-726 734-815 (1181)
120 PRK12323 DNA polymerase III su 96.6 0.0075 1.6E-07 71.0 9.7 46 482-527 123-174 (700)
121 PRK14960 DNA polymerase III su 96.6 0.007 1.5E-07 71.4 9.3 45 482-526 117-167 (702)
122 PF02399 Herpes_ori_bp: Origin 96.6 0.0028 6.1E-08 75.5 5.9 26 373-398 78-103 (824)
123 KOG0991 Replication factor C, 96.6 0.0016 3.5E-08 66.1 3.3 27 272-298 48-74 (333)
124 PRK13709 conjugal transfer nic 96.5 0.022 4.8E-07 74.5 14.0 55 485-552 502-559 (1747)
125 COG1702 PhoH Phosphate starvat 96.5 0.0081 1.8E-07 64.9 8.4 41 256-297 128-168 (348)
126 PRK00771 signal recognition pa 96.5 0.023 5E-07 64.9 12.5 25 272-296 95-119 (437)
127 PRK07952 DNA replication prote 96.5 0.0078 1.7E-07 63.4 8.0 41 258-298 78-125 (244)
128 PF00004 AAA: ATPase family as 96.5 0.0019 4.1E-08 60.7 3.0 22 275-296 1-22 (132)
129 smart00382 AAA ATPases associa 96.5 0.0019 4.1E-08 60.4 3.0 25 272-296 2-26 (148)
130 PLN03137 ATP-dependent DNA hel 96.5 0.028 6E-07 70.0 13.5 33 255-288 459-491 (1195)
131 PRK12723 flagellar biosynthesi 96.4 0.027 5.9E-07 63.3 12.2 26 272-297 174-199 (388)
132 TIGR02784 addA_alphas double-s 96.4 0.005 1.1E-07 79.3 7.1 75 673-747 774-892 (1141)
133 KOG0744 AAA+-type ATPase [Post 96.4 0.0023 4.9E-08 68.1 3.1 26 271-296 176-201 (423)
134 COG1200 RecG RecG-like helicas 96.4 0.22 4.9E-06 58.5 19.5 259 251-665 257-531 (677)
135 COG1643 HrpA HrpA-like helicas 96.4 0.021 4.5E-07 69.7 11.5 34 260-293 53-86 (845)
136 PRK07003 DNA polymerase III su 96.3 0.021 4.5E-07 68.3 11.1 46 482-527 118-169 (830)
137 cd01124 KaiC KaiC is a circadi 96.3 0.0075 1.6E-07 60.6 6.6 24 274-297 1-24 (187)
138 TIGR01650 PD_CobS cobaltochela 96.3 0.0046 1E-07 67.4 5.2 41 256-296 48-88 (327)
139 PRK12377 putative replication 96.3 0.0056 1.2E-07 64.7 5.3 41 258-298 80-127 (248)
140 PRK12899 secA preprotein trans 96.3 0.022 4.8E-07 69.4 10.8 34 257-291 93-126 (970)
141 PLN03025 replication factor C 96.3 0.0055 1.2E-07 67.5 5.5 40 258-297 18-59 (319)
142 cd01129 PulE-GspE PulE/GspE Th 96.3 0.0057 1.2E-07 65.4 5.4 42 256-297 63-105 (264)
143 PF13191 AAA_16: AAA ATPase do 96.2 0.0051 1.1E-07 61.4 4.7 40 259-298 6-50 (185)
144 PRK07246 bifunctional ATP-depe 96.2 0.021 4.6E-07 70.6 10.8 34 256-289 245-281 (820)
145 PRK13833 conjugal transfer pro 96.2 0.0063 1.4E-07 66.6 5.5 42 256-297 128-169 (323)
146 PRK05703 flhF flagellar biosyn 96.2 0.097 2.1E-06 59.9 15.3 26 272-297 221-246 (424)
147 PLN03142 Probable chromatin-re 96.1 0.076 1.7E-06 66.5 15.0 59 461-519 269-331 (1033)
148 cd01130 VirB11-like_ATPase Typ 96.1 0.0072 1.6E-07 61.1 5.1 41 255-295 8-48 (186)
149 TIGR03714 secA2 accessory Sec 96.1 0.034 7.5E-07 67.0 11.4 52 460-518 163-223 (762)
150 COG1201 Lhr Lhr-like helicases 96.1 0.048 1E-06 66.2 12.6 51 246-297 9-63 (814)
151 PRK06526 transposase; Provisio 96.1 0.0078 1.7E-07 64.0 5.2 44 255-298 79-124 (254)
152 PRK06851 hypothetical protein; 96.0 0.0024 5.3E-08 70.8 1.3 27 272-298 30-56 (367)
153 KOG0987 DNA helicase PIF1/RRM3 96.0 0.018 3.9E-07 67.8 8.2 43 253-296 114-161 (540)
154 PRK12402 replication factor C 96.0 0.0091 2E-07 66.0 5.5 40 258-297 20-61 (337)
155 TIGR02928 orc1/cdc6 family rep 95.9 0.009 1.9E-07 67.0 5.4 40 258-297 20-65 (365)
156 KOG2108 3'-5' DNA helicase [Re 95.9 0.0018 3.8E-08 76.8 -0.3 55 675-729 675-742 (853)
157 COG1074 RecB ATP-dependent exo 95.9 0.0089 1.9E-07 76.5 5.9 78 672-749 741-872 (1139)
158 PRK13894 conjugal transfer ATP 95.9 0.01 2.2E-07 65.2 5.5 42 256-297 132-173 (319)
159 COG4889 Predicted helicase [Ge 95.9 0.044 9.6E-07 65.0 10.5 42 255-297 160-205 (1518)
160 PRK13909 putative recombinatio 95.8 0.011 2.4E-07 74.1 6.1 62 671-732 604-704 (910)
161 COG2805 PilT Tfp pilus assembl 95.8 0.013 2.7E-07 62.2 5.4 27 271-297 124-150 (353)
162 KOG0743 AAA+-type ATPase [Post 95.8 0.0047 1E-07 68.9 2.3 23 274-296 237-259 (457)
163 TIGR02782 TrbB_P P-type conjug 95.8 0.012 2.7E-07 64.0 5.5 43 255-297 115-157 (299)
164 PRK11889 flhF flagellar biosyn 95.8 0.041 8.9E-07 61.4 9.5 26 272-297 241-266 (436)
165 TIGR02533 type_II_gspE general 95.8 0.0097 2.1E-07 69.1 4.9 42 255-296 224-266 (486)
166 TIGR02881 spore_V_K stage V sp 95.7 0.0079 1.7E-07 64.2 3.5 24 273-296 43-66 (261)
167 PRK10436 hypothetical protein; 95.7 0.013 2.9E-07 67.3 5.5 41 256-296 201-242 (462)
168 PF05496 RuvB_N: Holliday junc 95.7 0.0073 1.6E-07 62.1 2.9 24 273-297 51-74 (233)
169 PRK09183 transposase/IS protei 95.6 0.015 3.3E-07 61.9 5.4 43 255-297 83-127 (259)
170 PF06745 KaiC: KaiC; InterPro 95.6 0.02 4.3E-07 59.7 6.1 31 268-298 15-45 (226)
171 PF13207 AAA_17: AAA domain; P 95.6 0.0099 2.2E-07 55.1 3.5 23 274-296 1-23 (121)
172 PF13401 AAA_22: AAA domain; P 95.6 0.0089 1.9E-07 56.2 3.2 27 272-298 4-30 (131)
173 PRK06893 DNA replication initi 95.6 0.011 2.3E-07 62.0 4.0 27 272-298 39-65 (229)
174 PRK11331 5-methylcytosine-spec 95.6 0.015 3.2E-07 66.0 5.4 39 257-295 179-217 (459)
175 cd01131 PilT Pilus retraction 95.6 0.0099 2.2E-07 60.7 3.7 26 272-297 1-26 (198)
176 PRK05973 replicative DNA helic 95.6 0.03 6.5E-07 58.7 7.2 34 264-297 56-89 (237)
177 PF07728 AAA_5: AAA domain (dy 95.6 0.0096 2.1E-07 56.8 3.3 22 275-296 2-23 (139)
178 PRK12898 secA preprotein trans 95.5 0.064 1.4E-06 63.9 10.2 36 254-292 101-136 (656)
179 TIGR02640 gas_vesic_GvpN gas v 95.5 0.015 3.3E-07 62.1 4.7 24 271-294 20-43 (262)
180 PF01695 IstB_IS21: IstB-like 95.5 0.012 2.5E-07 59.1 3.5 27 272-298 47-73 (178)
181 PF01078 Mg_chelatase: Magnesi 95.4 0.016 3.6E-07 58.9 4.5 35 259-293 9-43 (206)
182 TIGR02538 type_IV_pilB type IV 95.4 0.018 3.9E-07 68.4 5.4 42 255-296 298-340 (564)
183 PRK08116 hypothetical protein; 95.4 0.023 5E-07 60.9 5.7 25 274-298 116-140 (268)
184 PRK08084 DNA replication initi 95.4 0.029 6.2E-07 59.0 6.3 41 257-297 28-70 (235)
185 smart00489 DEXDc3 DEAD-like he 95.4 0.048 1E-06 59.2 8.1 36 258-293 10-48 (289)
186 smart00488 DEXDc2 DEAD-like he 95.4 0.048 1E-06 59.2 8.1 36 258-293 10-48 (289)
187 PHA03333 putative ATPase subun 95.3 0.15 3.3E-06 60.3 12.4 38 259-297 175-212 (752)
188 COG0513 SrmB Superfamily II DN 95.3 0.17 3.7E-06 59.5 12.9 31 256-287 51-81 (513)
189 TIGR03877 thermo_KaiC_1 KaiC d 95.3 0.035 7.7E-07 58.4 6.6 31 267-297 16-46 (237)
190 PHA03311 helicase-primase subu 95.3 0.078 1.7E-06 62.6 9.8 20 274-293 73-92 (828)
191 KOG2028 ATPase related to the 95.3 0.013 2.9E-07 63.2 3.3 46 247-292 135-182 (554)
192 PRK08533 flagellar accessory p 95.3 0.04 8.7E-07 57.7 6.9 29 269-297 21-49 (230)
193 COG2804 PulE Type II secretory 95.3 0.025 5.3E-07 64.4 5.5 44 255-298 240-284 (500)
194 TIGR02525 plasmid_TraJ plasmid 95.2 0.029 6.2E-07 62.8 5.9 40 256-298 136-175 (372)
195 PRK08903 DnaA regulatory inact 95.2 0.038 8.3E-07 57.6 6.5 42 256-297 23-67 (227)
196 TIGR02880 cbbX_cfxQ probable R 95.2 0.015 3.3E-07 62.9 3.4 23 274-296 60-82 (284)
197 PF13671 AAA_33: AAA domain; P 95.1 0.014 3.1E-07 55.8 2.8 21 274-294 1-21 (143)
198 PF00448 SRP54: SRP54-type pro 95.1 0.041 8.9E-07 56.1 6.2 24 274-297 3-26 (196)
199 PRK04195 replication factor C 95.1 0.024 5.2E-07 66.1 5.0 40 257-296 18-63 (482)
200 PRK00411 cdc6 cell division co 95.1 0.028 6.1E-07 63.7 5.5 25 273-297 56-80 (394)
201 TIGR03420 DnaA_homol_Hda DnaA 95.1 0.041 8.9E-07 57.1 6.3 41 257-297 21-63 (226)
202 PRK03992 proteasome-activating 95.1 0.026 5.7E-07 63.9 5.2 23 273-295 166-188 (389)
203 PRK04914 ATP-dependent helicas 95.1 0.25 5.4E-06 61.8 13.9 42 256-297 152-194 (956)
204 PHA00729 NTP-binding motif con 95.1 0.018 3.9E-07 59.6 3.4 24 274-297 19-42 (226)
205 PF05729 NACHT: NACHT domain 95.0 0.022 4.8E-07 55.5 3.9 25 274-298 2-26 (166)
206 PF00437 T2SE: Type II/IV secr 95.0 0.018 3.8E-07 61.8 3.4 40 257-296 112-151 (270)
207 cd00561 CobA_CobO_BtuR ATP:cor 95.0 0.49 1.1E-05 46.4 13.1 26 272-297 2-27 (159)
208 PRK08769 DNA polymerase III su 94.9 0.072 1.6E-06 58.5 7.9 46 482-527 112-163 (319)
209 PRK14962 DNA polymerase III su 94.9 0.03 6.5E-07 64.8 5.1 36 262-297 23-61 (472)
210 TIGR00635 ruvB Holliday juncti 94.9 0.032 6.8E-07 60.9 5.0 23 273-295 31-53 (305)
211 TIGR00064 ftsY signal recognit 94.9 0.07 1.5E-06 57.3 7.4 25 273-297 73-97 (272)
212 COG2256 MGS1 ATPase related to 94.9 0.019 4.1E-07 63.2 3.1 22 273-295 49-70 (436)
213 PRK00080 ruvB Holliday junctio 94.8 0.028 6.1E-07 62.2 4.5 23 273-295 52-74 (328)
214 TIGR01242 26Sp45 26S proteasom 94.8 0.032 6.9E-07 62.6 5.0 22 274-295 158-179 (364)
215 cd01120 RecA-like_NTPases RecA 94.8 0.022 4.8E-07 55.1 3.3 24 274-297 1-24 (165)
216 PRK06067 flagellar accessory p 94.8 0.068 1.5E-06 56.0 7.1 31 267-297 20-50 (234)
217 PRK13531 regulatory ATPase Rav 94.8 0.033 7E-07 63.8 5.0 35 261-295 28-62 (498)
218 TIGR03689 pup_AAA proteasome A 94.8 0.032 6.9E-07 64.8 4.9 25 272-296 216-240 (512)
219 TIGR03880 KaiC_arch_3 KaiC dom 94.8 0.07 1.5E-06 55.5 7.0 29 269-297 13-41 (224)
220 PF00910 RNA_helicase: RNA hel 94.8 0.024 5.2E-07 51.8 3.1 24 276-299 2-25 (107)
221 PTZ00112 origin recognition co 94.7 0.032 7E-07 67.3 4.8 39 259-297 761-806 (1164)
222 PRK14873 primosome assembly pr 94.7 0.13 2.9E-06 61.8 10.1 23 373-395 188-210 (665)
223 PF13481 AAA_25: AAA domain; P 94.7 0.071 1.5E-06 53.8 6.8 28 271-298 31-58 (193)
224 PHA02244 ATPase-like protein 94.7 0.036 7.8E-07 61.3 4.8 32 264-295 111-142 (383)
225 TIGR03878 thermo_KaiC_2 KaiC d 94.7 0.054 1.2E-06 57.8 6.1 29 268-296 32-60 (259)
226 PRK10416 signal recognition pa 94.7 0.077 1.7E-06 58.3 7.4 25 272-296 114-138 (318)
227 PTZ00361 26 proteosome regulat 94.7 0.037 8.1E-07 63.2 5.1 24 272-295 217-240 (438)
228 PF07726 AAA_3: ATPase family 94.7 0.014 3E-07 54.7 1.3 21 275-295 2-22 (131)
229 PF13238 AAA_18: AAA domain; P 94.7 0.027 5.9E-07 52.4 3.3 22 275-296 1-22 (129)
230 CHL00181 cbbX CbbX; Provisiona 94.6 0.027 5.9E-07 61.0 3.6 23 274-296 61-83 (287)
231 TIGR02524 dot_icm_DotB Dot/Icm 94.6 0.048 1E-06 60.8 5.6 28 271-298 133-160 (358)
232 PF13555 AAA_29: P-loop contai 94.6 0.038 8.3E-07 45.0 3.5 25 274-298 25-49 (62)
233 PRK00440 rfc replication facto 94.5 0.046 1E-06 59.8 5.3 40 258-297 22-63 (319)
234 COG1474 CDC6 Cdc6-related prot 94.5 0.039 8.4E-07 61.8 4.6 40 259-298 23-68 (366)
235 cd03115 SRP The signal recogni 94.5 0.049 1.1E-06 54.1 4.9 24 274-297 2-25 (173)
236 TIGR00150 HI0065_YjeE ATPase, 94.4 0.049 1.1E-06 51.8 4.4 30 267-296 17-46 (133)
237 KOG0922 DEAH-box RNA helicase 94.4 0.25 5.4E-06 57.7 10.9 33 261-293 55-87 (674)
238 COG1484 DnaC DNA replication p 94.4 0.055 1.2E-06 57.5 5.3 27 272-298 105-131 (254)
239 COG0714 MoxR-like ATPases [Gen 94.4 0.047 1E-06 60.4 4.9 39 258-296 29-67 (329)
240 PRK06835 DNA replication prote 94.3 0.061 1.3E-06 59.3 5.6 27 272-298 183-209 (329)
241 PRK14722 flhF flagellar biosyn 94.3 0.04 8.8E-07 61.5 4.1 28 270-297 135-162 (374)
242 PRK13851 type IV secretion sys 94.3 0.042 9.1E-07 60.9 4.2 39 258-296 148-186 (344)
243 PRK04328 hypothetical protein; 94.3 0.097 2.1E-06 55.5 6.7 29 269-297 20-48 (249)
244 TIGR03015 pepcterm_ATPase puta 94.2 0.047 1E-06 58.3 4.4 24 272-295 43-66 (269)
245 TIGR01420 pilT_fam pilus retra 94.2 0.045 9.7E-07 60.9 4.3 26 271-296 121-146 (343)
246 PF03266 NTPase_1: NTPase; In 94.2 0.039 8.5E-07 54.8 3.4 23 275-297 2-24 (168)
247 TIGR03881 KaiC_arch_4 KaiC dom 94.2 0.11 2.4E-06 54.2 6.9 30 268-297 16-45 (229)
248 PRK06921 hypothetical protein; 94.2 0.043 9.3E-07 58.8 3.8 27 272-298 117-143 (266)
249 PRK13900 type IV secretion sys 94.1 0.05 1.1E-06 60.1 4.4 36 261-296 149-184 (332)
250 COG0552 FtsY Signal recognitio 94.1 0.29 6.2E-06 53.2 9.9 27 272-298 139-165 (340)
251 cd01122 GP4d_helicase GP4d_hel 94.1 0.099 2.1E-06 56.0 6.5 31 267-297 25-55 (271)
252 COG1205 Distinct helicase fami 94.1 0.38 8.2E-06 59.7 12.3 46 251-297 65-111 (851)
253 TIGR01360 aden_kin_iso1 adenyl 94.1 0.044 9.4E-07 55.0 3.5 24 272-295 3-26 (188)
254 PRK10867 signal recognition pa 94.1 0.11 2.3E-06 59.4 7.0 26 272-297 100-125 (433)
255 COG0467 RAD55 RecA-superfamily 94.1 0.074 1.6E-06 56.7 5.4 32 267-298 18-49 (260)
256 cd02019 NK Nucleoside/nucleoti 94.0 0.052 1.1E-06 45.3 3.3 22 275-296 2-23 (69)
257 PHA02544 44 clamp loader, smal 94.0 0.052 1.1E-06 59.5 4.2 39 257-295 25-66 (316)
258 PRK09361 radB DNA repair and r 93.9 0.053 1.2E-06 56.4 4.0 32 267-298 18-49 (225)
259 PF03215 Rad17: Rad17 cell cyc 93.9 0.056 1.2E-06 63.1 4.4 25 272-296 45-69 (519)
260 TIGR02655 circ_KaiC circadian 93.9 0.11 2.5E-06 60.5 6.9 30 268-297 259-288 (484)
261 smart00763 AAA_PrkA PrkA AAA d 93.9 0.053 1.2E-06 59.9 3.9 25 272-296 78-102 (361)
262 TIGR01359 UMP_CMP_kin_fam UMP- 93.8 0.045 9.8E-07 54.8 3.1 21 274-294 1-21 (183)
263 PRK14956 DNA polymerase III su 93.8 0.058 1.3E-06 61.9 4.3 24 274-297 42-65 (484)
264 COG1202 Superfamily II helicas 93.8 0.17 3.7E-06 57.9 7.8 45 243-287 199-247 (830)
265 COG2255 RuvB Holliday junction 93.8 0.064 1.4E-06 56.6 4.1 51 246-297 22-76 (332)
266 KOG4284 DEAD box protein [Tran 93.8 0.14 3E-06 59.2 7.0 32 258-290 49-80 (980)
267 COG1222 RPT1 ATP-dependent 26S 93.8 0.04 8.6E-07 59.9 2.7 18 275-292 188-205 (406)
268 PRK09694 helicase Cas3; Provis 93.8 0.18 3.8E-06 62.5 8.5 41 256-297 286-326 (878)
269 PRK08074 bifunctional ATP-depe 93.8 0.13 2.9E-06 64.7 7.7 41 256-298 257-300 (928)
270 CHL00195 ycf46 Ycf46; Provisio 93.7 0.054 1.2E-06 62.9 3.9 28 268-295 255-282 (489)
271 KOG0335 ATP-dependent RNA heli 93.7 0.28 6.2E-06 55.7 9.4 42 256-298 96-138 (482)
272 PF00308 Bac_DnaA: Bacterial d 93.6 0.1 2.2E-06 54.3 5.3 43 256-298 14-60 (219)
273 PRK14963 DNA polymerase III su 93.6 0.074 1.6E-06 62.1 4.7 24 274-297 38-61 (504)
274 PRK06620 hypothetical protein; 93.6 0.1 2.3E-06 53.9 5.3 20 273-292 45-64 (214)
275 PHA02624 large T antigen; Prov 93.6 0.071 1.5E-06 62.3 4.4 26 271-296 430-455 (647)
276 KOG0651 26S proteasome regulat 93.6 0.057 1.2E-06 57.5 3.3 22 271-292 165-186 (388)
277 PTZ00454 26S protease regulato 93.6 0.055 1.2E-06 61.3 3.5 23 272-294 179-201 (398)
278 PRK06547 hypothetical protein; 93.5 0.092 2E-06 52.4 4.7 26 270-295 13-38 (172)
279 TIGR02237 recomb_radB DNA repa 93.5 0.067 1.5E-06 54.9 3.8 30 269-298 9-38 (209)
280 COG1223 Predicted ATPase (AAA+ 93.5 0.047 1E-06 56.7 2.5 22 272-293 151-172 (368)
281 PF12775 AAA_7: P-loop contain 93.5 0.053 1.1E-06 58.3 3.0 27 267-293 28-54 (272)
282 PLN00020 ribulose bisphosphate 93.5 0.06 1.3E-06 59.4 3.4 26 270-295 146-171 (413)
283 PRK09200 preprotein translocas 93.5 0.35 7.6E-06 59.0 10.2 45 460-504 167-220 (790)
284 TIGR02397 dnaX_nterm DNA polym 93.5 0.082 1.8E-06 58.9 4.7 40 258-297 19-61 (355)
285 PRK14961 DNA polymerase III su 93.4 0.093 2E-06 58.9 5.0 24 274-297 40-63 (363)
286 cd01394 radB RadB. The archaea 93.4 0.071 1.5E-06 55.1 3.8 31 268-298 15-45 (218)
287 PRK13407 bchI magnesium chelat 93.4 0.094 2E-06 57.9 4.8 21 273-293 30-50 (334)
288 PRK08727 hypothetical protein; 93.3 0.15 3.2E-06 53.6 6.0 26 273-298 42-67 (233)
289 TIGR01425 SRP54_euk signal rec 93.3 0.099 2.1E-06 59.4 5.0 25 272-296 100-124 (429)
290 KOG1132 Helicase of the DEAD s 93.3 0.59 1.3E-05 56.3 11.3 37 373-417 110-146 (945)
291 PRK08233 hypothetical protein; 93.3 0.061 1.3E-06 53.6 2.9 24 273-296 4-27 (182)
292 PF13173 AAA_14: AAA domain 93.2 0.086 1.9E-06 49.7 3.8 26 272-297 2-27 (128)
293 COG1102 Cmk Cytidylate kinase 93.2 0.072 1.6E-06 51.7 3.1 20 274-293 2-21 (179)
294 cd00984 DnaB_C DnaB helicase C 93.2 0.089 1.9E-06 55.2 4.2 31 268-298 9-39 (242)
295 KOG0330 ATP-dependent RNA heli 93.2 0.73 1.6E-05 50.7 11.0 42 256-298 83-125 (476)
296 TIGR03499 FlhF flagellar biosy 93.2 0.079 1.7E-06 57.3 3.8 26 272-297 194-219 (282)
297 COG1936 Predicted nucleotide k 93.2 0.066 1.4E-06 52.6 2.9 20 274-294 2-21 (180)
298 PRK05642 DNA replication initi 93.2 0.084 1.8E-06 55.5 3.9 25 273-297 46-70 (234)
299 PRK00131 aroK shikimate kinase 93.2 0.087 1.9E-06 52.0 3.9 24 272-295 4-27 (175)
300 PRK08939 primosomal protein Dn 93.1 0.075 1.6E-06 58.1 3.6 25 274-298 158-182 (306)
301 KOG0920 ATP-dependent RNA heli 93.1 0.4 8.7E-06 58.8 10.0 35 259-293 175-209 (924)
302 PF05673 DUF815: Protein of un 93.1 0.11 2.4E-06 54.2 4.5 40 259-298 33-78 (249)
303 TIGR02012 tigrfam_recA protein 93.1 0.23 4.9E-06 54.5 7.2 30 268-297 51-80 (321)
304 PRK14527 adenylate kinase; Pro 93.1 0.087 1.9E-06 53.4 3.8 24 271-294 5-28 (191)
305 PRK13342 recombination factor 93.0 0.075 1.6E-06 60.8 3.6 22 273-294 37-58 (413)
306 PRK14957 DNA polymerase III su 93.0 0.11 2.4E-06 61.0 4.9 24 274-297 40-63 (546)
307 PRK14955 DNA polymerase III su 93.0 0.11 2.4E-06 59.1 4.8 24 274-297 40-63 (397)
308 PRK13341 recombination factor 93.0 0.099 2.1E-06 63.6 4.7 23 273-295 53-75 (725)
309 PRK08118 topology modulation p 92.9 0.084 1.8E-06 52.4 3.3 19 275-293 4-22 (167)
310 cd02021 GntK Gluconate kinase 92.9 0.076 1.6E-06 51.3 2.9 21 274-294 1-21 (150)
311 PRK06645 DNA polymerase III su 92.9 0.13 2.8E-06 60.0 5.2 25 273-297 44-68 (507)
312 TIGR01241 FtsH_fam ATP-depende 92.8 0.072 1.6E-06 62.4 3.1 22 274-295 90-111 (495)
313 cd01393 recA_like RecA is a b 92.8 0.095 2.1E-06 54.4 3.7 31 267-297 14-44 (226)
314 PF12774 AAA_6: Hydrolytic ATP 92.8 0.096 2.1E-06 54.8 3.6 39 258-296 18-56 (231)
315 TIGR00963 secA preprotein tran 92.8 0.48 1E-05 57.2 9.8 45 461-505 145-198 (745)
316 TIGR02655 circ_KaiC circadian 92.7 0.19 4.1E-06 58.7 6.4 28 268-295 17-44 (484)
317 KOG1131 RNA polymerase II tran 92.7 0.32 7E-06 55.0 7.7 40 259-298 19-61 (755)
318 KOG0951 RNA helicase BRR2, DEA 92.7 0.43 9.3E-06 59.3 9.3 36 255-290 308-343 (1674)
319 cd01121 Sms Sms (bacterial rad 92.7 0.25 5.3E-06 55.5 6.9 30 268-297 78-107 (372)
320 PRK14088 dnaA chromosomal repl 92.6 0.15 3.3E-06 58.7 5.4 25 274-298 132-156 (440)
321 KOG0923 mRNA splicing factor A 92.6 0.2 4.4E-06 58.2 6.1 27 265-291 273-299 (902)
322 PRK00149 dnaA chromosomal repl 92.6 0.17 3.7E-06 58.6 5.8 26 273-298 149-174 (450)
323 TIGR01407 dinG_rel DnaQ family 92.6 0.3 6.4E-06 61.2 8.3 33 256-288 245-280 (850)
324 PRK11823 DNA repair protein Ra 92.6 0.24 5.1E-06 57.2 6.8 30 268-297 76-105 (446)
325 COG1618 Predicted nucleotide k 92.6 0.11 2.3E-06 50.6 3.3 24 275-298 8-31 (179)
326 PRK04040 adenylate kinase; Pro 92.6 0.1 2.2E-06 52.8 3.4 24 273-296 3-26 (188)
327 PF13521 AAA_28: AAA domain; P 92.5 0.079 1.7E-06 52.1 2.5 21 275-295 2-22 (163)
328 KOG0733 Nuclear AAA ATPase (VC 92.5 0.073 1.6E-06 61.3 2.5 23 274-296 225-247 (802)
329 PRK09302 circadian clock prote 92.5 0.24 5.3E-06 58.2 7.0 30 268-297 269-298 (509)
330 TIGR02322 phosphon_PhnN phosph 92.5 0.11 2.3E-06 51.9 3.4 23 273-295 2-24 (179)
331 PRK09751 putative ATP-dependen 92.5 0.47 1E-05 61.7 9.8 22 373-394 37-58 (1490)
332 PRK11747 dinG ATP-dependent DN 92.4 0.27 5.8E-06 60.0 7.4 39 258-298 27-73 (697)
333 PF02492 cobW: CobW/HypB/UreG, 92.4 0.095 2.1E-06 52.5 3.0 22 273-294 1-22 (178)
334 PRK13764 ATPase; Provisional 92.4 0.14 3E-06 60.7 4.7 27 271-297 256-282 (602)
335 PRK03839 putative kinase; Prov 92.4 0.11 2.5E-06 51.9 3.5 22 274-295 2-23 (180)
336 PRK14531 adenylate kinase; Pro 92.3 0.11 2.4E-06 52.2 3.4 22 274-295 4-25 (183)
337 PRK06762 hypothetical protein; 92.3 0.12 2.6E-06 50.9 3.5 23 273-295 3-25 (166)
338 PF14532 Sigma54_activ_2: Sigm 92.3 0.14 3.1E-06 48.9 3.8 20 271-290 20-39 (138)
339 TIGR00959 ffh signal recogniti 92.3 0.33 7.2E-06 55.4 7.4 26 272-297 99-124 (428)
340 TIGR00678 holB DNA polymerase 92.3 0.15 3.3E-06 51.4 4.2 26 273-298 15-40 (188)
341 TIGR00362 DnaA chromosomal rep 92.3 0.12 2.6E-06 59.0 3.8 26 273-298 137-162 (405)
342 PRK13104 secA preprotein trans 92.2 0.36 7.7E-06 59.2 7.9 44 461-504 171-223 (896)
343 TIGR01618 phage_P_loop phage n 92.2 0.092 2E-06 54.4 2.6 21 272-292 12-32 (220)
344 COG1199 DinG Rad3-related DNA 92.2 0.31 6.8E-06 59.2 7.7 113 621-751 462-579 (654)
345 PRK13765 ATP-dependent proteas 92.2 0.19 4E-06 60.2 5.4 34 262-295 40-73 (637)
346 TIGR00750 lao LAO/AO transport 92.2 0.19 4.1E-06 54.9 5.1 26 272-297 34-59 (300)
347 PRK14970 DNA polymerase III su 92.2 0.18 4E-06 56.6 5.2 39 258-296 22-63 (367)
348 COG1224 TIP49 DNA helicase TIP 92.2 0.12 2.5E-06 56.3 3.3 25 273-297 66-90 (450)
349 COG0470 HolB ATPase involved i 92.2 0.18 3.9E-06 55.2 5.0 25 274-298 26-50 (325)
350 cd01428 ADK Adenylate kinase ( 92.1 0.11 2.4E-06 52.3 3.1 20 275-294 2-21 (194)
351 COG3911 Predicted ATPase [Gene 92.1 0.12 2.6E-06 49.4 3.0 22 272-293 9-30 (183)
352 PRK05896 DNA polymerase III su 92.1 0.16 3.5E-06 60.0 4.7 24 274-297 40-63 (605)
353 COG0606 Predicted ATPase with 92.1 0.12 2.6E-06 58.5 3.4 34 260-293 186-219 (490)
354 PRK14530 adenylate kinase; Pro 92.1 0.14 3E-06 53.0 3.7 22 273-294 4-25 (215)
355 COG5192 BMS1 GTP-binding prote 92.0 0.12 2.6E-06 58.6 3.4 26 273-298 69-95 (1077)
356 PF00931 NB-ARC: NB-ARC domain 92.0 0.16 3.4E-06 54.7 4.2 35 260-294 3-41 (287)
357 cd00983 recA RecA is a bacter 92.0 0.29 6.2E-06 53.8 6.2 30 268-297 51-80 (325)
358 PLN02200 adenylate kinase fami 92.0 0.13 2.8E-06 54.0 3.5 22 273-294 44-65 (234)
359 PF03796 DnaB_C: DnaB-like hel 92.0 1.5 3.3E-05 46.6 11.7 34 265-298 12-45 (259)
360 PRK14964 DNA polymerase III su 91.9 0.2 4.4E-06 58.0 5.2 24 274-297 37-60 (491)
361 KOG0738 AAA+-type ATPase [Post 91.9 0.11 2.3E-06 57.1 2.8 22 272-293 245-266 (491)
362 PRK14532 adenylate kinase; Pro 91.9 0.12 2.6E-06 52.1 3.0 20 275-294 3-22 (188)
363 PRK05541 adenylylsulfate kinas 91.9 0.17 3.6E-06 50.5 4.0 25 272-296 7-31 (176)
364 TIGR01313 therm_gnt_kin carboh 91.8 0.12 2.5E-06 50.9 2.7 18 276-293 2-19 (163)
365 PF00485 PRK: Phosphoribulokin 91.8 0.15 3.1E-06 51.9 3.5 23 274-296 1-23 (194)
366 PF13476 AAA_23: AAA domain; P 91.8 0.13 2.9E-06 51.7 3.2 25 272-296 19-43 (202)
367 PRK13768 GTPase; Provisional 91.8 0.2 4.4E-06 53.2 4.7 24 274-297 4-27 (253)
368 COG4088 Predicted nucleotide k 91.8 0.15 3.3E-06 51.4 3.4 25 273-297 2-26 (261)
369 PRK14949 DNA polymerase III su 91.7 0.16 3.4E-06 62.2 4.1 24 274-297 40-63 (944)
370 PF06309 Torsin: Torsin; Inte 91.7 0.17 3.8E-06 47.4 3.6 27 272-298 52-79 (127)
371 PRK14528 adenylate kinase; Pro 91.7 0.15 3.1E-06 51.6 3.4 20 274-293 3-22 (186)
372 PF04665 Pox_A32: Poxvirus A32 91.7 0.21 4.5E-06 52.4 4.5 25 272-296 12-37 (241)
373 PRK07261 topology modulation p 91.7 0.14 3.1E-06 50.9 3.2 19 275-293 3-21 (171)
374 KOG0348 ATP-dependent RNA heli 91.7 0.97 2.1E-05 51.6 9.8 34 255-289 158-191 (708)
375 PRK02496 adk adenylate kinase; 91.7 0.15 3.2E-06 51.2 3.3 20 275-294 4-23 (184)
376 PF01637 Arch_ATPase: Archaeal 91.6 0.16 3.4E-06 52.4 3.6 36 261-296 7-44 (234)
377 cd02020 CMPK Cytidine monophos 91.6 0.16 3.4E-06 48.6 3.3 22 274-295 1-22 (147)
378 TIGR00602 rad24 checkpoint pro 91.6 0.22 4.9E-06 59.4 5.2 40 257-296 88-134 (637)
379 PHA03368 DNA packaging termina 91.5 0.85 1.9E-05 54.0 9.7 27 272-298 254-280 (738)
380 cd01123 Rad51_DMC1_radA Rad51_ 91.5 0.13 2.8E-06 53.8 2.8 28 268-295 15-42 (235)
381 cd00227 CPT Chloramphenicol (C 91.5 0.18 4E-06 50.2 3.8 23 273-295 3-25 (175)
382 PRK12726 flagellar biosynthesi 91.5 0.26 5.7E-06 54.9 5.3 27 271-297 205-231 (407)
383 PF00406 ADK: Adenylate kinase 91.5 0.14 3E-06 49.7 2.8 19 277-295 1-19 (151)
384 TIGR00764 lon_rel lon-related 91.5 0.18 3.8E-06 60.4 4.3 34 263-296 28-61 (608)
385 KOG3347 Predicted nucleotide k 91.5 0.17 3.7E-06 48.4 3.2 22 272-293 7-28 (176)
386 TIGR00416 sms DNA repair prote 91.4 0.39 8.5E-06 55.5 6.8 30 268-297 90-119 (454)
387 TIGR02788 VirB11 P-type DNA tr 91.4 0.2 4.3E-06 54.9 4.2 35 260-294 132-166 (308)
388 KOG0385 Chromatin remodeling c 91.4 1.7 3.6E-05 51.8 11.7 69 451-519 255-329 (971)
389 KOG0731 AAA+-type ATPase conta 91.4 0.14 3E-06 61.4 3.2 35 257-293 331-365 (774)
390 PRK05480 uridine/cytidine kina 91.4 0.17 3.7E-06 52.0 3.5 26 271-296 5-30 (209)
391 COG3854 SpoIIIAA ncharacterize 91.3 0.16 3.6E-06 52.0 3.2 21 275-295 140-160 (308)
392 TIGR03819 heli_sec_ATPase heli 91.3 0.23 5E-06 55.1 4.6 39 256-294 162-200 (340)
393 PRK07667 uridine kinase; Provi 91.3 0.24 5.2E-06 50.3 4.5 25 272-296 17-41 (193)
394 PRK14952 DNA polymerase III su 91.3 0.23 5E-06 58.9 4.9 24 274-297 37-60 (584)
395 cd00544 CobU Adenosylcobinamid 91.3 0.27 5.9E-06 48.8 4.8 20 274-293 1-20 (169)
396 PF01580 FtsK_SpoIIIE: FtsK/Sp 91.3 0.18 4E-06 51.5 3.6 27 272-298 38-64 (205)
397 PF06068 TIP49: TIP49 C-termin 91.2 0.13 2.7E-06 56.7 2.4 26 272-297 50-75 (398)
398 PRK14969 DNA polymerase III su 91.2 0.23 5.1E-06 58.4 4.8 45 482-526 118-168 (527)
399 PRK15455 PrkA family serine pr 91.1 0.23 4.9E-06 58.0 4.5 28 271-299 102-129 (644)
400 PF02689 Herpes_Helicase: Heli 91.1 1.6 3.5E-05 52.1 11.4 21 273-293 60-80 (818)
401 cd02023 UMPK Uridine monophosp 91.1 0.18 3.8E-06 51.3 3.3 23 274-296 1-23 (198)
402 CHL00176 ftsH cell division pr 91.1 0.16 3.4E-06 61.0 3.3 22 274-295 218-239 (638)
403 PRK12724 flagellar biosynthesi 91.1 0.19 4.2E-06 56.7 3.8 25 272-296 223-247 (432)
404 PRK01184 hypothetical protein; 91.0 0.17 3.7E-06 50.7 3.1 15 274-288 3-17 (184)
405 PRK14950 DNA polymerase III su 91.0 0.23 5E-06 59.3 4.7 37 261-297 24-63 (585)
406 KOG1970 Checkpoint RAD17-RFC c 91.0 0.19 4.1E-06 57.5 3.6 25 272-296 110-134 (634)
407 cd02027 APSK Adenosine 5'-phos 91.0 0.2 4.3E-06 48.7 3.4 23 274-296 1-23 (149)
408 TIGR02236 recomb_radA DNA repa 90.9 0.26 5.7E-06 54.0 4.6 33 263-295 86-118 (310)
409 PRK13947 shikimate kinase; Pro 90.9 0.19 4.2E-06 49.6 3.3 20 275-294 4-23 (171)
410 TIGR01243 CDC48 AAA family ATP 90.9 0.28 6.2E-06 60.3 5.4 22 273-294 213-234 (733)
411 PF06414 Zeta_toxin: Zeta toxi 90.9 0.18 3.8E-06 51.5 3.0 26 271-296 14-39 (199)
412 TIGR00763 lon ATP-dependent pr 90.9 0.24 5.2E-06 61.3 4.7 25 272-296 347-371 (775)
413 KOG0727 26S proteasome regulat 90.9 0.17 3.6E-06 52.4 2.7 20 273-292 190-209 (408)
414 TIGR02030 BchI-ChlI magnesium 90.8 0.33 7.1E-06 53.8 5.2 23 272-294 25-47 (337)
415 PRK09087 hypothetical protein; 90.8 0.21 4.5E-06 52.2 3.5 22 272-293 44-65 (226)
416 cd02025 PanK Pantothenate kina 90.8 0.19 4.2E-06 52.2 3.2 23 274-296 1-23 (220)
417 PRK05800 cobU adenosylcobinami 90.8 0.3 6.6E-06 48.6 4.5 20 274-293 3-22 (170)
418 PRK09435 membrane ATPase/prote 90.8 0.43 9.4E-06 52.6 6.1 26 272-297 56-81 (332)
419 PF13479 AAA_24: AAA domain 90.7 0.14 3E-06 53.0 2.1 19 274-292 5-23 (213)
420 PRK06851 hypothetical protein; 90.7 0.22 4.7E-06 55.5 3.7 27 272-298 214-240 (367)
421 PRK00279 adk adenylate kinase; 90.7 0.21 4.5E-06 51.7 3.3 19 275-293 3-21 (215)
422 PRK14948 DNA polymerase III su 90.7 0.25 5.5E-06 59.2 4.5 26 273-298 39-64 (620)
423 TIGR00176 mobB molybdopterin-g 90.6 0.23 4.9E-06 48.7 3.4 24 274-297 1-24 (155)
424 PHA02774 E1; Provisional 90.6 0.27 5.8E-06 57.4 4.5 25 272-296 434-458 (613)
425 TIGR01351 adk adenylate kinase 90.6 0.2 4.2E-06 51.6 3.1 19 275-293 2-20 (210)
426 PRK12422 chromosomal replicati 90.5 0.36 7.9E-06 55.6 5.5 26 273-298 142-167 (445)
427 PRK05342 clpX ATP-dependent pr 90.5 0.23 4.9E-06 56.6 3.7 21 273-293 109-129 (412)
428 COG5008 PilU Tfp pilus assembl 90.5 0.19 4.2E-06 52.4 2.8 28 268-295 123-150 (375)
429 COG0563 Adk Adenylate kinase a 90.4 0.23 4.9E-06 49.9 3.3 21 275-295 3-23 (178)
430 PRK10463 hydrogenase nickel in 90.4 0.34 7.4E-06 52.2 4.8 40 258-297 88-129 (290)
431 CHL00081 chlI Mg-protoporyphyr 90.4 0.37 8.1E-06 53.5 5.2 36 261-296 25-62 (350)
432 PF12846 AAA_10: AAA-like doma 90.4 0.25 5.3E-06 53.2 3.8 26 273-298 2-27 (304)
433 PRK06995 flhF flagellar biosyn 90.4 0.25 5.4E-06 57.1 4.0 27 272-298 256-282 (484)
434 PF03308 ArgK: ArgK protein; 90.4 0.29 6.2E-06 51.5 4.0 26 273-298 30-55 (266)
435 PRK04301 radA DNA repair and r 90.4 0.23 5E-06 54.6 3.6 30 267-296 97-126 (317)
436 PTZ00301 uridine kinase; Provi 90.3 0.26 5.7E-06 50.8 3.7 26 273-298 4-29 (210)
437 PRK07133 DNA polymerase III su 90.3 0.29 6.3E-06 59.0 4.5 38 261-298 26-66 (725)
438 TIGR03574 selen_PSTK L-seryl-t 90.3 0.23 4.9E-06 52.6 3.3 23 274-296 1-23 (249)
439 PRK06696 uridine kinase; Valid 90.2 0.33 7.2E-06 50.5 4.4 25 272-296 22-46 (223)
440 PRK06647 DNA polymerase III su 90.2 0.3 6.5E-06 57.9 4.5 26 273-298 39-64 (563)
441 PRK08691 DNA polymerase III su 90.2 0.34 7.3E-06 58.1 4.9 37 261-297 24-63 (709)
442 KOG1533 Predicted GTPase [Gene 90.2 0.18 3.9E-06 51.8 2.2 23 275-298 5-27 (290)
443 TIGR00390 hslU ATP-dependent p 90.1 0.36 7.7E-06 54.5 4.7 22 273-294 48-69 (441)
444 PRK05986 cob(I)alamin adenolsy 90.1 0.78 1.7E-05 46.4 6.7 37 261-297 11-47 (191)
445 COG0464 SpoVK ATPases of the A 90.0 0.24 5.1E-06 58.1 3.5 24 271-294 275-298 (494)
446 PRK14951 DNA polymerase III su 90.0 0.35 7.7E-06 57.7 4.9 46 482-527 123-174 (618)
447 PF03205 MobB: Molybdopterin g 90.0 0.31 6.7E-06 46.9 3.7 26 273-298 1-26 (140)
448 PRK09302 circadian clock prote 90.0 0.56 1.2E-05 55.2 6.6 30 268-297 27-56 (509)
449 PF00158 Sigma54_activat: Sigm 90.0 0.37 8.1E-06 47.8 4.4 23 270-292 20-42 (168)
450 PRK09111 DNA polymerase III su 90.0 0.34 7.4E-06 57.8 4.8 41 258-298 29-72 (598)
451 cd02028 UMPK_like Uridine mono 90.0 0.26 5.7E-06 49.4 3.4 23 274-296 1-23 (179)
452 KOG1942 DNA helicase, TBP-inte 90.0 0.25 5.4E-06 52.3 3.1 25 272-296 64-88 (456)
453 PRK08451 DNA polymerase III su 89.9 0.33 7.2E-06 56.8 4.5 25 274-298 38-62 (535)
454 PRK08154 anaerobic benzoate ca 89.9 0.47 1E-05 52.0 5.5 40 254-293 105-154 (309)
455 PRK14954 DNA polymerase III su 89.9 0.31 6.8E-06 58.2 4.4 25 274-298 40-64 (620)
456 COG0378 HypB Ni2+-binding GTPa 89.9 0.23 5E-06 49.9 2.7 25 274-298 15-39 (202)
457 PRK06761 hypothetical protein; 89.8 0.26 5.6E-06 53.0 3.3 24 273-296 4-27 (282)
458 PRK07940 DNA polymerase III su 89.8 0.36 7.7E-06 54.7 4.6 25 274-298 38-62 (394)
459 PRK14965 DNA polymerase III su 89.8 0.36 7.8E-06 57.6 4.8 38 260-297 23-63 (576)
460 cd00464 SK Shikimate kinase (S 89.8 0.29 6.3E-06 47.2 3.3 20 275-294 2-21 (154)
461 COG1444 Predicted P-loop ATPas 89.7 1.7 3.6E-05 52.6 10.1 36 255-290 210-249 (758)
462 COG1419 FlhF Flagellar GTP-bin 89.7 0.48 1E-05 52.9 5.3 26 272-297 203-228 (407)
463 KOG0926 DEAH-box RNA helicase 89.7 1.3 2.8E-05 52.9 8.8 29 265-293 264-292 (1172)
464 TIGR00235 udk uridine kinase. 89.6 0.3 6.5E-06 50.1 3.5 22 273-294 7-28 (207)
465 PRK10078 ribose 1,5-bisphospho 89.6 0.25 5.5E-06 49.7 2.9 21 273-293 3-23 (186)
466 KOG0331 ATP-dependent RNA heli 89.6 2.6 5.7E-05 48.8 11.3 40 256-298 113-152 (519)
467 TIGR03263 guanyl_kin guanylate 89.6 0.27 5.8E-06 49.0 3.1 21 273-293 2-22 (180)
468 PRK00889 adenylylsulfate kinas 89.6 0.32 6.9E-06 48.4 3.6 24 273-296 5-28 (175)
469 COG4962 CpaF Flp pilus assembl 89.6 0.46 1E-05 51.9 4.9 48 249-296 149-197 (355)
470 TIGR00041 DTMP_kinase thymidyl 89.5 0.32 6.9E-06 49.2 3.6 24 273-296 4-27 (195)
471 KOG0343 RNA Helicase [RNA proc 89.5 1.9 4.1E-05 49.5 9.7 32 256-288 91-122 (758)
472 PF01745 IPT: Isopentenyl tran 89.5 0.35 7.5E-06 49.4 3.6 23 274-296 3-25 (233)
473 PRK10751 molybdopterin-guanine 89.4 0.35 7.6E-06 48.2 3.6 26 272-297 6-31 (173)
474 TIGR00382 clpX endopeptidase C 89.4 0.28 6.1E-06 55.6 3.4 21 273-293 117-137 (413)
475 PRK09354 recA recombinase A; P 89.4 0.35 7.6E-06 53.6 4.0 31 268-298 56-86 (349)
476 KOG0652 26S proteasome regulat 89.4 0.27 5.9E-06 51.1 2.9 19 274-292 207-225 (424)
477 PRK13949 shikimate kinase; Pro 89.4 0.29 6.3E-06 48.6 3.1 19 275-293 4-22 (169)
478 cd03114 ArgK-like The function 89.4 0.53 1.1E-05 45.7 4.8 23 275-297 2-24 (148)
479 PRK06305 DNA polymerase III su 89.4 0.35 7.6E-06 55.9 4.1 26 273-298 40-65 (451)
480 PHA02530 pseT polynucleotide k 89.3 0.26 5.7E-06 53.5 3.0 22 273-294 3-24 (300)
481 PRK14087 dnaA chromosomal repl 89.2 0.53 1.2E-05 54.4 5.4 26 273-298 142-167 (450)
482 cd01983 Fer4_NifH The Fer4_Nif 89.1 0.38 8.3E-06 41.8 3.4 25 274-298 1-25 (99)
483 PTZ00088 adenylate kinase 1; P 89.1 0.33 7.2E-06 50.8 3.3 20 275-294 9-28 (229)
484 PRK14526 adenylate kinase; Pro 89.1 0.33 7.1E-06 50.1 3.3 19 275-293 3-21 (211)
485 PHA03372 DNA packaging termina 89.0 4 8.7E-05 48.0 12.2 27 272-298 202-228 (668)
486 PRK12608 transcription termina 89.0 0.32 7E-06 54.1 3.4 25 274-298 135-159 (380)
487 PRK14959 DNA polymerase III su 89.0 0.45 9.8E-06 56.5 4.8 25 273-297 39-63 (624)
488 KOG0390 DNA repair protein, SN 88.9 5 0.00011 48.8 13.3 48 253-300 235-291 (776)
489 COG0466 Lon ATP-dependent Lon 88.9 0.42 9.1E-06 56.6 4.3 25 272-296 350-374 (782)
490 PRK14737 gmk guanylate kinase; 88.9 0.33 7.2E-06 49.0 3.2 24 272-295 4-27 (186)
491 KOG0990 Replication factor C, 88.9 0.17 3.8E-06 54.3 1.1 26 272-297 62-87 (360)
492 cd03112 CobW_like The function 88.9 0.34 7.5E-06 47.5 3.2 22 273-294 1-22 (158)
493 cd02024 NRK1 Nicotinamide ribo 88.9 0.31 6.7E-06 49.3 2.9 22 274-295 1-22 (187)
494 PRK14738 gmk guanylate kinase; 88.9 0.32 6.9E-06 50.0 3.0 22 272-293 13-34 (206)
495 PF08477 Miro: Miro-like prote 88.8 0.37 8E-06 44.2 3.2 20 275-294 2-21 (119)
496 cd00820 PEPCK_HprK Phosphoenol 88.8 0.35 7.6E-06 44.1 2.9 23 271-293 14-36 (107)
497 KOG0742 AAA+-type ATPase [Post 88.8 0.26 5.6E-06 54.4 2.4 19 275-293 387-405 (630)
498 PRK13975 thymidylate kinase; P 88.8 0.38 8.2E-06 48.7 3.5 23 273-295 3-25 (196)
499 PRK08356 hypothetical protein; 88.8 0.32 6.9E-06 49.5 2.9 20 273-292 6-25 (195)
500 PRK09112 DNA polymerase III su 88.8 0.53 1.2E-05 52.5 4.9 40 259-298 29-71 (351)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=2.6e-87 Score=732.23 Aligned_cols=574 Identities=30% Similarity=0.445 Sum_probs=431.5
Q ss_pred cccccccccCCHHHHHHHchHHHHHHHHHHHHHhhhhc-----cccceeeeEeeeecccCCeEEEEEEeec-CcccCCCC
Q 003388 50 GLREVKDTYKDVDDYLATFEPLLFEEVKAQIIQKKDEE-----EVQEWKLRLVMECGEADGFHLPSVTYEA-DEVESISP 123 (824)
Q Consensus 50 ~~~~Vp~~F~s~~~Y~~~f~pLlleE~~aql~~~~~~~-----~~~~~~~~~v~~~~~~~~f~~~~~~~~~-~~~~~~~~ 123 (824)
+...|-.+|.+..+|.++|-||+-.|+...- ...+. ....|...+ +.-+.-.|.... .....+..
T Consensus 228 ~~~hv~~ry~da~~y~~vf~pliklea~ydk--~~Kes~~q~~~tvRW~~gL-------nkk~~a~f~~~k~~~e~kl~~ 298 (935)
T KOG1802|consen 228 EPPHVQLRYEDAYEYQNVFSPLIKLEADYDK--RLKESQTQENGTVRWDIGL-------NKKRLAYFTLPKLDSELKLAI 298 (935)
T ss_pred CCCcccccccchHHHhhhcchhhhhhhhhhh--hhhhhcccccceEEeeecc-------ccceEEEEecCCCcchhcccc
Confidence 4566888999999999999999999987554 11111 122343332 111222222222 23456678
Q ss_pred CcEEEEeccCccCCCCCCceEEEEEEEeecC---ceEEEEEeeccccccccccccchhhhhhhhhccccccccccceEEE
Q 003388 124 NDLLLLSKEEFKEGSTFPTTYAFALVEHCQA---NLLRLRMYLAGEVIHINKDAVKSQRLLNIHSLITSSVSAVEKRLFS 200 (824)
Q Consensus 124 gDlvlls~~~~~~~~~~~~~~~~~~v~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~ 200 (824)
||-+.|..+.-.. ++ -..+|.|-...+ +.+.+.+..... + ++ .....+-+
T Consensus 299 GdE~~L~y~~~~~---~~-w~~~g~v~~~pd~~~dE~~lEl~~~~~--------~---p~------------e~~~~Ftv 351 (935)
T KOG1802|consen 299 GDEIRLTYSGGLV---LP-WNGIGSVLKIPDNNGDEVKLELEFSQD--------P---PI------------EVTHGFTV 351 (935)
T ss_pred CCeeEEEecCCcC---Cc-ccccceEEecCCCCcceeEEEeecCCC--------C---Cc------------ccccceEE
Confidence 8888887644211 11 222455554443 222222211111 0 10 01223445
Q ss_pred EEecChhhHHHHHHHHHhcCC-------CCccccccccccCCCCCCCCCcccCcchhhhhccCCCHHHHHHHHHhhcCCC
Q 003388 201 LKICSLSTIAREYLALRSVGS-------LPFKDLILSASEKSSGSQDQSWKIPGLLHEYIKENHNASQLEAIHEGLLRKA 273 (824)
Q Consensus 201 ~~l~~~~t~~Re~~aL~~~~~-------~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~lN~sQ~~AI~~~l~~~~ 273 (824)
-.+-+-+++.|++.||..|.. +-+..++..+.+. ......+|..+...-...||.||..||.++|.+ +
T Consensus 352 d~vwk~ts~drm~~alk~la~D~~~vs~y~y~klLgh~~~~----~~~k~~LP~~~s~~~lpkLN~SQ~~AV~~VL~r-p 426 (935)
T KOG1802|consen 352 DFVWKSTSFDRMQLALKLLAVDEKKVSGYLYHKLLGHPVED----SSLKKLLPRRFSVPNLPKLNASQSNAVKHVLQR-P 426 (935)
T ss_pred EEEEcCccHHHHHHHHHHhhhccccchhhhhhHHhcCcchh----hhhcccCchhhcCCCchhhchHHHHHHHHHHcC-C
Confidence 556688899999999988742 1122222222211 111223444332222357999999999999985 7
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCCcccCCCCCCCCCCCCCCCCC
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASPWLVGANPRDNIMPIDGDDGF 353 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 353 (824)
++|||||||||||.|++.||..+...
T Consensus 427 lsLIQGPPGTGKTvtsa~IVyhl~~~------------------------------------------------------ 452 (935)
T KOG1802|consen 427 LSLIQGPPGTGKTVTSATIVYHLARQ------------------------------------------------------ 452 (935)
T ss_pred ceeeecCCCCCceehhHHHHHHHHHh------------------------------------------------------
Confidence 99999999999999999999888651
Q ss_pred CcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEEecCCC----cccccccHHHH
Q 003388 354 FPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRIGLKAH----HSVNSVAIDHL 429 (824)
Q Consensus 354 ~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRig~~~~----~~~~~~sld~l 429 (824)
...+||||||||.|||+|++++.+.|+ +|||+-.+.+ .++..++++++
T Consensus 453 ------------------~~~~VLvcApSNiAVDqLaeKIh~tgL----------KVvRl~aksRE~~~S~vs~L~lh~~ 504 (935)
T KOG1802|consen 453 ------------------HAGPVLVCAPSNIAVDQLAEKIHKTGL----------KVVRLCAKSREDIESDVSFLSLHEQ 504 (935)
T ss_pred ------------------cCCceEEEcccchhHHHHHHHHHhcCc----------eEeeeehhhhhhccCCccHHHHHHH
Confidence 235899999999999999999999986 6999987654 34555666666
Q ss_pred HHH-------HHhhhHHHhhh-----cCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEcCCCCCCc
Q 003388 430 VEQ-------KRDDSAADKQK-----HGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAAQAVE 497 (824)
Q Consensus 430 ~~~-------~l~~~~~~~~~-----~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAsq~~e 497 (824)
+.. ++.+....... ............+++|.+|+||||||.++|...+.. .+|.+|+||||.|++|
T Consensus 505 ~~~~~~pELq~l~klkde~gelS~sD~~k~~~lk~~~e~ell~~AdVIccTcv~Agd~rl~~--~kfr~VLiDEaTQatE 582 (935)
T KOG1802|consen 505 LRNMDKPELQKLLKLKDEGGELSSSDEKKYRKLKRAAEKELLNQADVICCTCVGAGDRRLSK--FKFRTVLIDEATQATE 582 (935)
T ss_pred HhccCcHHHHHHHhhhhhcccccchhhHHHHHHHHHHHHHHHhhcCEEEEecccccchhhcc--ccccEEEEecccccCC
Confidence 542 11111000000 001112334566889999999999999999988876 4799999999999999
Q ss_pred hhhHhhhhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcCCCCcccccccccChhhhhccchhhccccccC
Q 003388 498 PATLVPLATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAGYPVKMLKTQYRMHPEVRSFPSREFYDEALED 577 (824)
Q Consensus 498 ~~~lipL~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~~~~~~L~~qYRm~p~I~~f~s~~fY~~~L~~ 577 (824)
|++||||..+++++||||||+||.|++..+.+...|+.+|||+||...|...++|.+||||||.|++|||..||+|.|++
T Consensus 583 pe~LiPlvlG~kq~VlVGDh~QLgpvi~~kK~a~Agl~qsLferli~lg~~P~~L~vQYRmhP~lSefpsn~fY~G~Lqn 662 (935)
T KOG1802|consen 583 PECLIPLVLGAKQLVLVGDHKQLGPVIMCKKAATAGLSQSLFERLISLGIKPIRLQVQYRMHPALSEFPSNMFYEGELQN 662 (935)
T ss_pred cchhhhhhhcceeEEEeccccccCceeeeHHHHHhHHHHHHHHHHHhccCCceEEEEeeeeChhhhhcchhhhccchhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccccc----cCcCccCCCCCeEEEEcCCCcccccCCCCCcccHHHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCcH
Q 003388 578 GSDVEDYTT----RDWHEYRCFGPFSFFDIHEGKESQPAGSGSWINIDEVDFVLLLFHKLISMYPQLKSSSQLAIISPYR 653 (824)
Q Consensus 578 ~~~~~~~~~----~~~~~~~~~~p~~f~dv~~g~e~~~~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~~IgIItpY~ 653 (824)
+.....+.. .+|+... .|+.|+.. .|.|+....++|+.|..||..+..++..|++.+ ..+..|||||||.
T Consensus 663 GVT~~~R~~~g~~~pwp~p~--~pl~fy~~-~g~eeisasGtSf~Nr~Ea~~~ekii~~l~~~g---v~~~qIGVITpYe 736 (935)
T KOG1802|consen 663 GVTEIERSPLGVDFPWPQPD--KPLFFYVC-YGQEEISASGTSFLNRTEAANCEKIITKLLKSG---VKPSQIGVITPYE 736 (935)
T ss_pred CcchhhhccCCCCCCCCCCC--CccceEEe-ccceeeeccccceecHHHHHHHHHHHHHHHHcC---CCHHHeeeecccc
Confidence 987665442 3444433 38888888 999988888899999999999999999999876 5678999999999
Q ss_pred HHHHHHHHHHhhh--hCCCCCcceEEecCCCCCCccccEEEEEeeecCCCCcccccCCCCeeEeeeecccceEEEEecCc
Q 003388 654 HQVKQFQERFKET--FGVESQKVVDITTVDGCQGREKDVAIFSCVRASDKKSIGFLADYRRMNVGITRAKSSILVVGCAS 731 (824)
Q Consensus 654 ~Q~~~i~~~l~~~--~~~~~~~~v~V~TVd~fQG~E~diVIlS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~ 731 (824)
+|...|-+.+... +.......|+|.|||+|||+|+|+||+||||+|...+|||++|+|||||||||||++|+||||+.
T Consensus 737 gQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGrEKdfIIlSCVRsn~~qgIGFl~d~RRlNVaLTRaK~glvivGN~~ 816 (935)
T KOG1802|consen 737 GQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGREKDFIILSCVRSNEHQGIGFLNDPRRLNVALTRAKYGLVIVGNPK 816 (935)
T ss_pred hhHHHHHHHHHhcCccccchhheeEEEeeccccCcccceEEEEEeecccccccccccCchhhhhhhhhcccceEEecCHH
Confidence 9999999988632 11222356899999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCchHHHHHHHHHHcCcEEE
Q 003388 732 TLREDKHWNNLVKSAEKQDCLFR 754 (824)
Q Consensus 732 ~L~~~~~w~~li~~~~~~~~~~~ 754 (824)
.|++++.|.++|.+++++++++.
T Consensus 817 ~L~k~~LW~~li~h~~eke~l~e 839 (935)
T KOG1802|consen 817 VLRKHPLWGHLITHYKEKEVLVE 839 (935)
T ss_pred HhhhchHHHHHHHHhhcccceee
Confidence 99999999999999999999986
No 2
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=2.1e-83 Score=704.66 Aligned_cols=566 Identities=31% Similarity=0.454 Sum_probs=413.8
Q ss_pred HHHHHHchHHHHHHHHHHHHHhhhhcc-----------ccceeeeEeeeecccCCeEEEEEEeecC--cccCCCCCcEEE
Q 003388 62 DDYLATFEPLLFEEVKAQIIQKKDEEE-----------VQEWKLRLVMECGEADGFHLPSVTYEAD--EVESISPNDLLL 128 (824)
Q Consensus 62 ~~Y~~~f~pLlleE~~aql~~~~~~~~-----------~~~~~~~~v~~~~~~~~f~~~~~~~~~~--~~~~~~~gDlvl 128 (824)
+++...+.+||=+|.++++.-...... ...+....+..++.-.+.+.+.|....+ ....+.+||+|.
T Consensus 3 ~~f~sk~~~ll~~er~~ei~~t~~~~~~~~ie~l~~~g~~i~nl~~v~~~tGl~g~~li~f~~~~~~lp~~~~~~gd~v~ 82 (649)
T KOG1803|consen 3 EEFVSKMSELLDHERKAEISVTEKSLDNVPIEALQRKGLAILNLWLVSVRTGLGGKSLIVFSKNREVLPSNSFGPGDVVW 82 (649)
T ss_pred hHHHHHHHHHHHhhhhcchhhhhHhhhcCCHHHHHhccceeeeEEEEEEeecccceEEEEeccCccccCcCCCCCCcEEE
Confidence 677888889998888887732221111 1112222333334445556666655432 246789999999
Q ss_pred EeccCccCCCCCCceEEEEEEEeecCceEEEEEeeccccccccccccchhhhhhhhhccccccccccceEEEEEecChhh
Q 003388 129 LSKEEFKEGSTFPTTYAFALVEHCQANLLRLRMYLAGEVIHINKDAVKSQRLLNIHSLITSSVSAVEKRLFSLKICSLST 208 (824)
Q Consensus 129 ls~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~~~t 208 (824)
|.......+. +..+-|.|.+.....+.+.+. +.... . ...+...+.++.|-.|
T Consensus 83 lr~~~~~~~~---~~~~~GvV~~~~~~~i~~a~e-----------e~~d~--------~-----~~~~~l~l~kl~n~vt 135 (649)
T KOG1803|consen 83 LRTDKLNNKS---KPCTEGVVYRVAEDSIDVAFE-----------EEVDK--------P-----LTLSSLRLLKLENKVT 135 (649)
T ss_pred EEcccccccC---cccccceeEeeccchhhHhHH-----------hhhcc--------c-----chhhHHHHHHhhhhhh
Confidence 9843322221 223346666655433222210 00000 0 0111345567888899
Q ss_pred HHHHHHHHHhcCC--CC--cccc---ccccccCCCCCCCCCcccCcchhhhhccCCCHHHHHHHHHhhcCCCeEEEEcCC
Q 003388 209 IAREYLALRSVGS--LP--FKDL---ILSASEKSSGSQDQSWKIPGLLHEYIKENHNASQLEAIHEGLLRKAFVLIQGPP 281 (824)
Q Consensus 209 ~~Re~~aL~~~~~--~~--~~~~---il~~~~~~~~~~~~~~~~~~~~~~~~~~~lN~sQ~~AI~~~l~~~~~~LIqGPP 281 (824)
++|+..++..+.. .| -.+. +.....+. .. .+.-.....++..+||+||+.||..+++.+.+++|||||
T Consensus 136 y~R~~~~~i~l~~~~~~~~~~~vv~~l~~~~~~~-~~----~~~~~~~~~~~~~~ln~SQk~Av~~~~~~k~l~~I~GPP 210 (649)
T KOG1803|consen 136 YRRMKDTMICLSKFSNPGPSSDVVETLFGDRKPI-PS----PNIEIKKITFFNKNLNSSQKAAVSFAINNKDLLIIHGPP 210 (649)
T ss_pred heecHHHHhhHhhhcCccchhhhHHHHhccccCC-CC----chhhhcccccCCccccHHHHHHHHHHhccCCceEeeCCC
Confidence 9999998877653 11 1121 22211111 00 000111235677899999999999999988999999999
Q ss_pred CCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCCcccCCCCCCCCCCCCCCCCCCcCCCCCC
Q 003388 282 GTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASPWLVGANPRDNIMPIDGDDGFFPTTGNEL 361 (824)
Q Consensus 282 GTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~ 361 (824)
|||||+|++++|.+++.
T Consensus 211 GTGKT~TlvEiI~qlvk--------------------------------------------------------------- 227 (649)
T KOG1803|consen 211 GTGKTRTLVEIISQLVK--------------------------------------------------------------- 227 (649)
T ss_pred CCCceeeHHHHHHHHHH---------------------------------------------------------------
Confidence 99999999999999875
Q ss_pred CccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEEecCCC--cccccccHHHHHHHHHh----
Q 003388 362 KPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRIGLKAH--HSVNSVAIDHLVEQKRD---- 435 (824)
Q Consensus 362 ~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRig~~~~--~~~~~~sld~l~~~~l~---- 435 (824)
.+++||||||||.|||+|++||...+. +++|+|.+++ ..+...+++.+......
T Consensus 228 ----------~~k~VLVcaPSn~AVdNiverl~~~~~----------~l~R~g~paRl~~~~~~~sld~~~~t~d~~~~~ 287 (649)
T KOG1803|consen 228 ----------QKKRVLVCAPSNVAVDNIVERLTHLKL----------NLVRVGHPARLLESVADHSLDLLSNTKDNSQNA 287 (649)
T ss_pred ----------cCCeEEEEcCchHHHHHHHHHhccccc----------chhhcCchhhhhhhhhhhHHHHHHhcCchhhhh
Confidence 247999999999999999999975543 6999999864 45666667766644311
Q ss_pred -------hhHHHhhhcCC-----------ChhhHHHHH-------HHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEc
Q 003388 436 -------DSAADKQKHGA-----------TRKDRDSIR-------SAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIID 490 (824)
Q Consensus 436 -------~~~~~~~~~~~-----------~~~~~~~~~-------~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIID 490 (824)
+...+...... ...-+..++ ..++.+++|||+|+.++....+.. ..||+||||
T Consensus 288 ~~~sk~~d~~~~~~~~tk~~~~~~~~~~~i~~lrkdl~kre~~~v~eii~n~~VVfaTl~ga~~~~~~~--~~fD~vIID 365 (649)
T KOG1803|consen 288 KDISKDIDILFQKNTKTKNDKLRKGIRKEIKLLRKDLRKRERKTVKEIISNSRVVFATLGGALDRLLRK--RTFDLVIID 365 (649)
T ss_pred hhhHHHHHHHhhhhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccceEEEeccchhhhhhcc--cCCCEEEEe
Confidence 00000000000 001122233 478899999999998887754443 579999999
Q ss_pred CCCCCCchhhHhhhhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc--CCCCcccccccccChhhhhccch
Q 003388 491 EAAQAVEPATLVPLATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA--GYPVKMLKTQYRMHPEVRSFPSR 568 (824)
Q Consensus 491 EAsq~~e~~~lipL~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~--~~~~~~L~~qYRm~p~I~~f~s~ 568 (824)
||+|+.||++|||+. ..++|||+|||+||||+|.|..+...|+..|+|+|+... +....+|++|||||..|+.|+|.
T Consensus 366 EaaQamE~~cWipvl-k~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~wsn~ 444 (649)
T KOG1803|consen 366 EAAQAMEPQCWIPVL-KGKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWSNE 444 (649)
T ss_pred hhhhhccchhhhHHh-cCCceEEeCCcccCCcccccchhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhCcHh
Confidence 999999999999999 457999999999999999999999999999999999874 24568999999999999999999
Q ss_pred hhccccccCCCCcccccccCcCcc----CCCCCeEEEEcCCCcccccCC-----CCCcccHHHHHHHHHHHHHHHHhCCC
Q 003388 569 EFYDEALEDGSDVEDYTTRDWHEY----RCFGPFSFFDIHEGKESQPAG-----SGSWINIDEVDFVLLLFHKLISMYPQ 639 (824)
Q Consensus 569 ~fY~~~L~~~~~~~~~~~~~~~~~----~~~~p~~f~dv~~g~e~~~~~-----~~S~~N~~Ea~~v~~lv~~L~~~~~~ 639 (824)
.||+|+|+.+..+......+.+.. ..+.|++|+|+ .|.+..+.. .+|++|..||+.|...+..|+..+
T Consensus 445 ~fY~~qlka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT-~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~g-- 521 (649)
T KOG1803|consen 445 VFYNGQLKAASSVASHLLRDLPNVLATESTKSPLVLVDT-QGEKDEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEAG-- 521 (649)
T ss_pred hhcCCeeeecchhhhhhhhcccCCCCccccCCcEEEEec-ccchhhhhccchhhccccCCHHHHHHHHHHHHHHHHcC--
Confidence 999999999998887665543322 24569999999 554433221 258999999999999999999876
Q ss_pred CCCCCeEEEEcCcHHHHHHHHHHHhhhhCCCCCcceEEecCCCCCCccccEEEEEeeecCCCCcccccCCCCeeEeeeec
Q 003388 640 LKSSSQLAIISPYRHQVKQFQERFKETFGVESQKVVDITTVDGCQGREKDVAIFSCVRASDKKSIGFLADYRRMNVGITR 719 (824)
Q Consensus 640 ~~~~~~IgIItpY~~Q~~~i~~~l~~~~~~~~~~~v~V~TVd~fQG~E~diVIlS~vrs~~~~~igfl~d~rrlNVAlTR 719 (824)
..+.+|||||||++|+.+||+... .....++|+|||+|||+|+|+||||+||+|..+.+||+.|.||||||+||
T Consensus 522 -V~p~dIaVIsPY~aQv~llR~~~~-----~~~~~veV~TVD~fQGrEkdvVIfsmVRSN~k~evGFL~e~RRLNVAiTR 595 (649)
T KOG1803|consen 522 -VQPSDIAVISPYNAQVSLLREEDE-----EDFRDVEVGTVDGFQGREKDVVIFSLVRSNDKGEVGFLGETRRLNVAITR 595 (649)
T ss_pred -CChhHeEEeccchHHHHHHhhccc-----ccCccceeecccccccceeeEEEEEEEeecCcccccccCCcceeeEEEEe
Confidence 568899999999999999993222 23456999999999999999999999999999999999999999999999
Q ss_pred ccceEEEEecCcccc-CCchHHHHHHHHHHcCcEEE
Q 003388 720 AKSSILVVGCASTLR-EDKHWNNLVKSAEKQDCLFR 754 (824)
Q Consensus 720 Ak~~LiIvG~~~~L~-~~~~w~~li~~~~~~~~~~~ 754 (824)
||+++.||||..+++ .+..+..+++++.+++.++.
T Consensus 596 aRRh~~vIgds~tl~~~~~~l~k~~~f~~~~~~~~~ 631 (649)
T KOG1803|consen 596 ARRHFVVIGDSRTLKEGNEFLKKLVEFLEENKLVFG 631 (649)
T ss_pred ccceEEEEcCcHHHHhhHHHHHHHHHHhhhcceecc
Confidence 999999999999999 89999999999999999873
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=3.5e-77 Score=700.89 Aligned_cols=520 Identities=32% Similarity=0.455 Sum_probs=400.7
Q ss_pred eecccCCeEEEEEEeecCcccCCCCCcEEEEeccCccCCCCCCceEEEEEEEeecCceEEEEEeeccccccccccccchh
Q 003388 99 ECGEADGFHLPSVTYEADEVESISPNDLLLLSKEEFKEGSTFPTTYAFALVEHCQANLLRLRMYLAGEVIHINKDAVKSQ 178 (824)
Q Consensus 99 ~~~~~~~f~~~~~~~~~~~~~~~~~gDlvlls~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (824)
......+.+.++|.........|..||+|+|+...+.. ..+-|+|..+.+..+.|.+. ... +
T Consensus 36 ~~~~~~g~~~~~f~~~~~~~~~~~~GD~v~i~~~~~~~------~~~~g~V~~v~~~~i~v~~~--~~~-------~--- 97 (637)
T TIGR00376 36 IRGGLLGFLLVRFGRRKAIATEISVGDIVLVSRGNPLQ------SDLTGVVTRVGKRFITVALE--ESV-------P--- 97 (637)
T ss_pred EEeCCCCeEEEEEecCCCCCCcCCCCCEEEEecCCCCC------CCcEEEEEEEcCcEEEEEEC--CCC-------C---
Confidence 34445678999998665556789999999999755432 23468888888776666552 100 0
Q ss_pred hhhhhhhccccccccccceEEEEEecChhhHHHHHHHHHhcCCC--CccccccccccCCCCCCCCCcccCcchhhhhccC
Q 003388 179 RLLNIHSLITSSVSAVEKRLFSLKICSLSTIAREYLALRSVGSL--PFKDLILSASEKSSGSQDQSWKIPGLLHEYIKEN 256 (824)
Q Consensus 179 r~~~~~~~~~~~~~~~~~~~~~~~l~~~~t~~Re~~aL~~~~~~--~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~ 256 (824)
. .....|++.++.|-+|+.|++.||..+... ++.++||+...+...... ....++...
T Consensus 98 --------~-----~~~~~~~i~~~~~~~t~~rm~~aL~~l~~~~~~l~~~llg~~~p~~~~~~-------~~~~~~~~~ 157 (637)
T TIGR00376 98 --------Q-----WSLKRVRIDLYANDVTFKRMKEALRALTENHSRLLEFILGREAPSKASEI-------HDFQFFDPN 157 (637)
T ss_pred --------c-----ccCceEEEEEecCccHHHHHHHHHHHHHhchhhHHHHHhCCCCCCccccc-------ccccccCCC
Confidence 0 012348899999999999999999998643 466788876433321111 112234568
Q ss_pred CCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCCccc
Q 003388 257 HNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASPWLV 336 (824)
Q Consensus 257 lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 (824)
||++|+.||..++...++++|+||||||||+|+++++..++.
T Consensus 158 ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~-------------------------------------- 199 (637)
T TIGR00376 158 LNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLVK-------------------------------------- 199 (637)
T ss_pred CCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHH--------------------------------------
Confidence 999999999999987789999999999999999999988764
Q ss_pred CCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEEecC
Q 003388 337 GANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRIGLK 416 (824)
Q Consensus 337 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRig~~ 416 (824)
.+.+||+|||||.|||++++||.+.+ .+++|+|..
T Consensus 200 -----------------------------------~g~~VLv~a~sn~Avd~l~e~l~~~~----------~~vvRlg~~ 234 (637)
T TIGR00376 200 -----------------------------------RGLRVLVTAPSNIAVDNLLERLALCD----------QKIVRLGHP 234 (637)
T ss_pred -----------------------------------cCCCEEEEcCcHHHHHHHHHHHHhCC----------CcEEEeCCc
Confidence 13599999999999999999997653 369999987
Q ss_pred CC--cccccccHHHHHHHH------------HhhhHHH----------------------h---hh--cC----------
Q 003388 417 AH--HSVNSVAIDHLVEQK------------RDDSAAD----------------------K---QK--HG---------- 445 (824)
Q Consensus 417 ~~--~~~~~~sld~l~~~~------------l~~~~~~----------------------~---~~--~~---------- 445 (824)
.. ..+...++++++... +...... + .+ ..
T Consensus 235 ~r~~~~~~~~sl~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~~~ 314 (637)
T TIGR00376 235 ARLLKSNKQHSLDYLIENHPKYQIVADIREKIDELIEERNKKLKPSPQKRRGLSDIKILRKALKKREARGIESLKIASMA 314 (637)
T ss_pred hhcchhHHhccHHHHHhcChhHHHHHHHHHHHHHHHHHHHhhccchHhHhhccchHHHHHHHHhhhhhcccchhhhHHHH
Confidence 53 345666777655321 0000000 0 00 00
Q ss_pred --------------CChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEcCCCCCCchhhHhhhhccCceE
Q 003388 446 --------------ATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAAQAVEPATLVPLATGCKQV 511 (824)
Q Consensus 446 --------------~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAsq~~e~~~lipL~~~~~k~ 511 (824)
.......++...++.+|+++|+|+ ++..+.. ..||+||||||+|++||++|+||.. ++++
T Consensus 315 ~~~~~~~~~~~~~~~~~~~~~~~~~~il~~a~v~~st~---~~~~l~~--~~Fd~vIIDEAsQ~~ep~~lipl~~-~~~~ 388 (637)
T TIGR00376 315 EWIETNKSIDRLLKLLPEIEERIENEILAESDVVQSTN---SSAGLKG--WEFDVAVIDEASQAMEPSCLIPLLK-ARKL 388 (637)
T ss_pred HHHHhhhhhHHHHHHHHHHHHHHHHHHHhhCCEEEecc---CcHhhcc--CCCCEEEEECccccchHHHHHHHhh-CCeE
Confidence 000112345567899999998885 4455543 5899999999999999999999984 5799
Q ss_pred EEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc-CCCCcccccccccChhhhhccchhhccccccCCCCcccccccCcC
Q 003388 512 FLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA-GYPVKMLKTQYRMHPEVRSFPSREFYDEALEDGSDVEDYTTRDWH 590 (824)
Q Consensus 512 VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~-~~~~~~L~~qYRm~p~I~~f~s~~fY~~~L~~~~~~~~~~~~~~~ 590 (824)
||||||+||||+|.+.. ..+++.|||+||... +....+|++||||||+|+.|+|..||+|+|++++.+.......++
T Consensus 389 vLvGD~~QLpP~v~s~~--~~~l~~SlferL~~~~~~~~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~l~~~~ 466 (637)
T TIGR00376 389 ILAGDHKQLPPTILSHD--AEELELTLFERLIKEYPERSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANILLRDLP 466 (637)
T ss_pred EEecChhhcCCcccccc--ccccchhHHHHHHHhCCCceeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhhhhhcc
Confidence 99999999999998865 457899999999875 334789999999999999999999999999988766544322111
Q ss_pred c---------cCCCCCeEEEEcCCCccc---ccCCCCCcccHHHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCcHHHHHH
Q 003388 591 E---------YRCFGPFSFFDIHEGKES---QPAGSGSWINIDEVDFVLLLFHKLISMYPQLKSSSQLAIISPYRHQVKQ 658 (824)
Q Consensus 591 ~---------~~~~~p~~f~dv~~g~e~---~~~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~~IgIItpY~~Q~~~ 658 (824)
. .....|+.|+|+ .|.+. ....++|++|..||..|..++..|...+ ....+|||||||++|+.+
T Consensus 467 ~~~~~~~~~~~~~~~p~~fidt-~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g---~~~~~IgVItPY~aQv~~ 542 (637)
T TIGR00376 467 KVEATDSEDDLETEIPLLFIDT-SGCELFELKEADSTSKYNPGEAELVSEIIQALVKMG---VPANDIGVITPYDAQVDL 542 (637)
T ss_pred cccccccccccCCCCCEEEEEC-CCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcC---CCcceEEEEcccHHHHHH
Confidence 1 112348999999 66543 3345679999999999999999998754 357899999999999999
Q ss_pred HHHHHhhhhCCCCCcceEEecCCCCCCccccEEEEEeeecCCCCcccccCCCCeeEeeeecccceEEEEecCccccCCch
Q 003388 659 FQERFKETFGVESQKVVDITTVDGCQGREKDVAIFSCVRASDKKSIGFLADYRRMNVGITRAKSSILVVGCASTLREDKH 738 (824)
Q Consensus 659 i~~~l~~~~~~~~~~~v~V~TVd~fQG~E~diVIlS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L~~~~~ 738 (824)
|++.|.... ..+.|+|||+|||+|+|+||+|+||++....+||+.|.|||||||||||++||||||..+|+.++.
T Consensus 543 L~~~l~~~~-----~~i~v~TVd~fQG~E~DvIi~S~vrsn~~~~~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~~~~ 617 (637)
T TIGR00376 543 LRQLLEHRH-----IDIEVSSVDGFQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKF 617 (637)
T ss_pred HHHHHHhhC-----CCeEEccccccCCccccEEEEEEEecCCCCCcccccCcceeeeehhhhhCceEEEECHHHhccChH
Confidence 999996532 348999999999999999999999999888899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHcCcEEEcC
Q 003388 739 WNNLVKSAEKQDCLFRVS 756 (824)
Q Consensus 739 w~~li~~~~~~~~~~~~~ 756 (824)
|+.|+++++++|++..+.
T Consensus 618 ~~~li~~~~~~~~~~~~~ 635 (637)
T TIGR00376 618 YKRLIEWCKQHGEVREAF 635 (637)
T ss_pred HHHHHHHHHHCCCEEcCC
Confidence 999999999999997653
No 4
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=3e-67 Score=598.36 Aligned_cols=418 Identities=32% Similarity=0.456 Sum_probs=336.4
Q ss_pred CccccccccccCCCCCCCCCcccCcchhhhhccCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHhhCcc
Q 003388 223 PFKDLILSASEKSSGSQDQSWKIPGLLHEYIKENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILHATPA 302 (824)
Q Consensus 223 ~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~ 302 (824)
-+.++|..-.+|.+.......-+|.. ...+...||..|++|+..+|....+.||.|-|||||||||+.+|..|+.
T Consensus 637 ~lRdlivd~~pP~f~~~~~~~~~p~~-~~~~~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~---- 711 (1100)
T KOG1805|consen 637 ILRDLIVDLKPPKFVDALSKVLIPKI-KKIILLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKILVA---- 711 (1100)
T ss_pred hHHHHhhhcCCchhhcccccccCchh-hHHHHhhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHHHHHHH----
Confidence 35677766544444332222223332 2225568999999999999999999999999999999999999988864
Q ss_pred ccccCCCccccccCCCCCcccccccccCCCCcccCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCc
Q 003388 303 RVHSKGGLREIKRGPELPMHEKYNHWGRASPWLVGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPS 382 (824)
Q Consensus 303 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApS 382 (824)
.+++||++|+|
T Consensus 712 ---------------------------------------------------------------------~gkkVLLtsyT 722 (1100)
T KOG1805|consen 712 ---------------------------------------------------------------------LGKKVLLTSYT 722 (1100)
T ss_pred ---------------------------------------------------------------------cCCeEEEEehh
Confidence 14799999999
Q ss_pred hhHHHHHHHHHHhcCCCccccccCCCcEEEEecC--CCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhc
Q 003388 383 NSALDEIVLRLLNTGIRDENIRSYTPKIVRIGLK--AHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILN 460 (824)
Q Consensus 383 N~AvDei~~Rl~~~g~~~~~~~~~~~~ivRig~~--~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~ 460 (824)
|.|||||+.||...++ .++|+|.. .|+.++++++..- ........-+..++
T Consensus 723 hsAVDNILiKL~~~~i----------~~lRLG~~~kih~~v~e~~~~~~-----------------~s~ks~~~l~~~~~ 775 (1100)
T KOG1805|consen 723 HSAVDNILIKLKGFGI----------YILRLGSEEKIHPDVEEFTLTNE-----------------TSEKSYADLKKFLD 775 (1100)
T ss_pred hHHHHHHHHHHhccCc----------ceeecCCccccchHHHHHhcccc-----------------cchhhHHHHHHHhC
Confidence 9999999999987665 49999985 4666766654110 00111122356788
Q ss_pred CCcEEEEcCccchhhHHhhcCCCcCEEEEcCCCCCCchhhHhhhhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHH
Q 003388 461 EAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAAQAVEPATLVPLATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFK 540 (824)
Q Consensus 461 ~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAsq~~e~~~lipL~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLfe 540 (824)
+..||.|||-+.++.+|.. +.||++|||||+|+..|-+|.||.. +.|+||||||.||||.|.|..++..|++.|||+
T Consensus 776 ~~~IVa~TClgi~~plf~~--R~FD~cIiDEASQI~lP~~LgPL~~-s~kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFk 852 (1100)
T KOG1805|consen 776 QTSIVACTCLGINHPLFVN--RQFDYCIIDEASQILLPLCLGPLSF-SNKFVLVGDHYQLPPLVRSSEARQEGLSESLFK 852 (1100)
T ss_pred CCcEEEEEccCCCchhhhc--cccCEEEEccccccccchhhhhhhh-cceEEEecccccCCccccchhhhhcCcchHHHH
Confidence 9999999999999888874 5799999999999999999999995 689999999999999999999999999999999
Q ss_pred HHHHcC-CCCcccccccccChhhhhccchhhccccccCCCCccccc-----------------ccCcCc--cCCCCCeEE
Q 003388 541 RLQRAG-YPVKMLKTQYRMHPEVRSFPSREFYDEALEDGSDVEDYT-----------------TRDWHE--YRCFGPFSF 600 (824)
Q Consensus 541 rl~~~~-~~~~~L~~qYRm~p~I~~f~s~~fY~~~L~~~~~~~~~~-----------------~~~~~~--~~~~~p~~f 600 (824)
||...+ ..+..|+.||||+.+|+.+.|.+||+|+|+++.....+. ..+|.. .....+++|
T Consensus 853 rL~e~hpeaV~~Lt~QYRMn~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p~~~v~f 932 (1100)
T KOG1805|consen 853 RLSEKHPEAVSSLTLQYRMNREIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEPTRDVCF 932 (1100)
T ss_pred HHhhhCchHHHhHHHHHhhcchHHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcCCccceE
Confidence 998853 457899999999999999999999999999987544320 112222 112235667
Q ss_pred EEcC--CCcccccCCCCCcccHHHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCcHHHHHHHHHHHhhhhCCCCCcceEEe
Q 003388 601 FDIH--EGKESQPAGSGSWINIDEVDFVLLLFHKLISMYPQLKSSSQLAIISPYRHQVKQFQERFKETFGVESQKVVDIT 678 (824)
Q Consensus 601 ~dv~--~g~e~~~~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~~IgIItpY~~Q~~~i~~~l~~~~~~~~~~~v~V~ 678 (824)
+++. .+-+++ ...+...|..||..|.+++..++..+ ....+|||||||++|+.+|+..+... .++|+
T Consensus 933 ~~~D~~~~ie~~-~e~~~i~N~~EA~li~~~~~~fv~sG---v~~~dIGIis~YraQv~Li~~~l~~~-------~lEin 1001 (1100)
T KOG1805|consen 933 VNTDTCSTIESQ-GEKGGITNHGEAKLISELVEDFVKSG---VKPSDIGIISPYRAQVELIRKILSSA-------VLEIN 1001 (1100)
T ss_pred EecCcccchhhh-ccccCcCchhHHHHHHHHHHHHHHcC---CCHHHeeeeehHHHHHHHHHhhcccc-------ceeee
Confidence 6651 222332 22345679999999999999999986 56899999999999999999988642 39999
Q ss_pred cCCCCCCccccEEEEEeeecCCCCccc-ccCCCCeeEeeeecccceEEEEecCccccCCchHHHHHHHHHHcCcEEEc
Q 003388 679 TVDGCQGREKDVAIFSCVRASDKKSIG-FLADYRRMNVGITRAKSSILVVGCASTLREDKHWNNLVKSAEKQDCLFRV 755 (824)
Q Consensus 679 TVd~fQG~E~diVIlS~vrs~~~~~ig-fl~d~rrlNVAlTRAk~~LiIvG~~~~L~~~~~w~~li~~~~~~~~~~~~ 755 (824)
|||+|||+++|+||+|+||+|.....| .|.|+||+||||||||+.||+||+..+|.+.+.+++|+++..++..++..
T Consensus 1002 TVD~yQGRDKd~IivSfvrsn~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~l~~~~~~~~l~~~l~~~~~l~~~ 1079 (1100)
T KOG1805|consen 1002 TVDRYQGRDKDCIIVSFVRSNKKSKVGELLKDWRRLNVALTRAKKKLILVGSKSTLESYPPFRQLLKLLENRIELLTL 1079 (1100)
T ss_pred ehhhhcCCCCCEEEEEEEecCCcccHHHHHHhhHHHHHHHHhhhceEEEEecccccccCchHHHHHhhhhhhhhHHHH
Confidence 999999999999999999999776666 78999999999999999999999999999999999999999888776543
No 5
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=1.3e-53 Score=474.08 Aligned_cols=284 Identities=27% Similarity=0.421 Sum_probs=245.1
Q ss_pred HHHhcCCcEEEEcCccchhh--HHhhcCCCcCEEEEcCCCCCCchhhHhhhhccCceEEEEcCCCCCCceeeC-hhhhhc
Q 003388 456 SAILNEAVIVCSTLSFSGSA--LLSKLNHGFDVVIIDEAAQAVEPATLVPLATGCKQVFLVGDPVQLPATVIS-PVAEHL 532 (824)
Q Consensus 456 ~~il~~a~IV~sTls~s~~~--~~~~~~~~fd~vIIDEAsq~~e~~~lipL~~~~~k~VLVGD~~QLpP~v~s-~~~~~~ 532 (824)
..+++.|+||..|+.+++.. .+... ...+|||.||+.+.|...+..+...+.++||||||+||.|.--. ..+..+
T Consensus 693 a~llR~a~vigmTTTgaaryr~ilekv--~pkivivEEAAEVlEahiIaal~p~~EhviLIGDHKQLrP~~~vy~L~q~f 770 (1025)
T KOG1807|consen 693 AFLLREADVIGMTTTGAARYRFILEKV--QPKIVIVEEAAEVLEAHIIAALTPHTEHVILIGDHKQLRPFSGVYKLPQIF 770 (1025)
T ss_pred HHHhhccceeeeechhHHHHHHHHHHh--CCcEEEEhhHhHHhhcchhhhhcccceeEEEecchhhcCCCcchhhHhHhc
Confidence 46789999999999877653 34443 57999999999999999998999999999999999999996433 346678
Q ss_pred CCcCcHHHHHHHcCCCCcccccccccChhhhhccchhhccccccCCCCcccccccCcCccCCCCCeEEEEcCCCcccccC
Q 003388 533 GYGTSLFKRLQRAGYPVKMLKTQYRMHPEVRSFPSREFYDEALEDGSDVEDYTTRDWHEYRCFGPFSFFDIHEGKESQPA 612 (824)
Q Consensus 533 ~~~~SLferl~~~~~~~~~L~~qYRm~p~I~~f~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~p~~f~dv~~g~e~~~~ 612 (824)
++..||||||...|.|...|+.||||+|.|+++....||++ |.+++++.. |+..+..+...||-.+...+....
T Consensus 771 nL~iSlFERLVe~glpfsrLn~QhRM~p~IsrllvpsiYdd-l~d~esvk~-----yedI~gms~nlfFv~hnspee~~d 844 (1025)
T KOG1807|consen 771 NLSISLFERLVEAGLPFSRLNLQHRMRPCISRLLVPSIYDD-LLDSESVKE-----YEDIRGMSKNLFFVQHNSPEECMD 844 (1025)
T ss_pred chhHHHHHHHHHcCCChhhhhHHhhhchHHHHHhhHHHhhh-hhcchhhcc-----ccccccccceeeEEecCCcccCcc
Confidence 99999999999999999999999999999999999999986 666666544 555555554455544355554433
Q ss_pred CCCCcccHHHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCcHHHHHHHHHHHhhhhCCCCCcceEEecCCCCCCccccEEE
Q 003388 613 GSGSWINIDEVDFVLLLFHKLISMYPQLKSSSQLAIISPYRHQVKQFQERFKETFGVESQKVVDITTVDGCQGREKDVAI 692 (824)
Q Consensus 613 ~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~~IgIItpY~~Q~~~i~~~l~~~~~~~~~~~v~V~TVd~fQG~E~diVI 692 (824)
..|+.|..||.+++++++.|++.. ..+.+|.|+|+|.+|..+|++.+.+.++. .|.|.|||+|||.|.|||+
T Consensus 845 -e~S~~NlhEa~mlv~l~kyli~q~---y~psdIviLttY~gQk~ci~rllp~~~~s----tv~VatVDsfQGeEndIVL 916 (1025)
T KOG1807|consen 845 -EMSIGNLHEAGMLVKLTKYLIQQQ---YKPSDIVILTTYNGQKECIKRLLPQNYRS----TVQVATVDSFQGEENDIVL 916 (1025)
T ss_pred -hhhhhhHHHHHHHHHHHHHHHhcC---CCccceEEEeechhHHHHHHHHhHHHhcC----cceEEEeccccCccccEEE
Confidence 489999999999999999999864 46899999999999999999999987754 4999999999999999999
Q ss_pred EEeeecCCCCcccccCCCCeeEeeeecccceEEEEecCccccC-CchHHHHHHHHHHcCcEEEc
Q 003388 693 FSCVRASDKKSIGFLADYRRMNVGITRAKSSILVVGCASTLRE-DKHWNNLVKSAEKQDCLFRV 755 (824)
Q Consensus 693 lS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L~~-~~~w~~li~~~~~~~~~~~~ 755 (824)
+|+||+|..+.+|||...+|++|||||||++|+||||...+.. .+.|..++.-.++++.+-..
T Consensus 917 lSLVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~Ig~~ 980 (1025)
T KOG1807|consen 917 LSLVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAIGEA 980 (1025)
T ss_pred EEEEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhccccccc
Confidence 9999999999999999999999999999999999999999987 88999999999999888543
No 6
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=4.6e-53 Score=507.59 Aligned_cols=296 Identities=40% Similarity=0.636 Sum_probs=273.6
Q ss_pred CCcEEEEcCccchhhHHhhcCCCcCEEEEcCCCCCCchhhHhhhhc-cCceEEEEcCCCCCCceeeChhhhhcCCcCcHH
Q 003388 461 EAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAAQAVEPATLVPLAT-GCKQVFLVGDPVQLPATVISPVAEHLGYGTSLF 539 (824)
Q Consensus 461 ~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAsq~~e~~~lipL~~-~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLf 539 (824)
++.+||+|+++++.........+|+.++||||+|+.|+..++||.. +.++++++||+.|||++|.+..+..+++.+|+|
T Consensus 514 ~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~slf 593 (827)
T KOG1801|consen 514 EAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATVHSSPAGCFKYMTSLF 593 (827)
T ss_pred cceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccccCChhhccchhccccchhhHH
Confidence 8999999999888866666667899999999999999999999987 889999999999999999999999999999999
Q ss_pred HHHHHcCCCCcccccccccChhhhhccchhhccccccCCCCcc-cccccCcCccCCCCCeEEEEcCCCcccccCCCCCcc
Q 003388 540 KRLQRAGYPVKMLKTQYRMHPEVRSFPSREFYDEALEDGSDVE-DYTTRDWHEYRCFGPFSFFDIHEGKESQPAGSGSWI 618 (824)
Q Consensus 540 erl~~~~~~~~~L~~qYRm~p~I~~f~s~~fY~~~L~~~~~~~-~~~~~~~~~~~~~~p~~f~dv~~g~e~~~~~~~S~~ 618 (824)
+|+...+.+..+|++||||||+|+.|||+.||+++|.+.+.+. ......|+....++||.|++++.|.+.... +.|..
T Consensus 594 ~rl~l~~~~~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~~~~~~~y~f~~v~~g~e~~~~-~~s~~ 672 (827)
T KOG1801|consen 594 ERLELAGHKTLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHSGETFGPYPFFNVHYGKERAGG-GKSPV 672 (827)
T ss_pred HHHHHccCccceecceeecCCccccCccccccccccccCcccchhhccccCcCCCccCceEEEEecccccccCC-CCCcc
Confidence 9999999999999999999999999999999999999999888 455788999999999999999889988754 48999
Q ss_pred cHHHHHHHHHHHHHHHHhCCCCCC-CCeEEEEcCcHHHHHHHHHHHhhhhCCCCC--cceEEecCCCCCCccccEEEEEe
Q 003388 619 NIDEVDFVLLLFHKLISMYPQLKS-SSQLAIISPYRHQVKQFQERFKETFGVESQ--KVVDITTVDGCQGREKDVAIFSC 695 (824)
Q Consensus 619 N~~Ea~~v~~lv~~L~~~~~~~~~-~~~IgIItpY~~Q~~~i~~~l~~~~~~~~~--~~v~V~TVd~fQG~E~diVIlS~ 695 (824)
|..|+.++..++..+.+..+.... ...+|||+||+.|+..+++++...++.... ..+.|.|||+|||.|+||+|+||
T Consensus 673 n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fqg~e~diii~s~ 752 (827)
T KOG1801|consen 673 NNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQGGERDIIIIST 752 (827)
T ss_pred cHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEecccccCCCCceeEEEE
Confidence 999999999999999998876655 789999999999999999999988774433 47999999999999999999999
Q ss_pred eecCCCCcccccCCCCeeEeeeecccceEEEEecCccccCCch-HHHHHHHHHHcCcEEEcCC
Q 003388 696 VRASDKKSIGFLADYRRMNVGITRAKSSILVVGCASTLREDKH-WNNLVKSAEKQDCLFRVSK 757 (824)
Q Consensus 696 vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L~~~~~-w~~li~~~~~~~~~~~~~~ 757 (824)
||++..+.+||+.+.||+|||+||||.++|++||..+|..+.. |..++..++.++|++....
T Consensus 753 vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~~~~ 815 (827)
T KOG1801|consen 753 VRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMDRAA 815 (827)
T ss_pred EEecccCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhccccccccccc
Confidence 9999989999999999999999999999999999999998666 9999999999999987755
No 7
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.8e-46 Score=459.18 Aligned_cols=289 Identities=41% Similarity=0.591 Sum_probs=254.7
Q ss_pred HHHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEcCCCCCCchhhHhhhhccCceEEEEcCCCCCCceeeChhhhhcCC
Q 003388 455 RSAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAAQAVEPATLVPLATGCKQVFLVGDPVQLPATVISPVAEHLGY 534 (824)
Q Consensus 455 ~~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAsq~~e~~~lipL~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~ 534 (824)
...+...+++||+|++.++...+..+ .||+||||||+|++++.+++|+.. ++++|++|||+||||++.+......++
T Consensus 462 ~~~i~~~~~~~~~~~~~a~~~~~~~~--~fd~viiDEAsQ~~~~~~~~~l~~-~~~~il~GD~kQL~p~~~~~~~~~~~~ 538 (767)
T COG1112 462 VTKILEAADVVLSTLSIAGFSILKKY--EFDYVIIDEASQATEPSALIALSR-AKKVILVGDHKQLPPTVFFKESSPEGL 538 (767)
T ss_pred HHHHHHhcCeEEEeccchhHHHhccc--ccCEEEEcchhcccchhHHHhHhh-cCeEEEecCCccCCCeecchhhcccch
Confidence 35667777899999999999888765 799999999999999999999997 999999999999999998876677789
Q ss_pred cCcHHHHHHHcCC-CCcccccccccChhhhhccchhhccccccCCCCcccccccCcCccCC--CCCeEEEEcCCCccccc
Q 003388 535 GTSLFKRLQRAGY-PVKMLKTQYRMHPEVRSFPSREFYDEALEDGSDVEDYTTRDWHEYRC--FGPFSFFDIHEGKESQP 611 (824)
Q Consensus 535 ~~SLferl~~~~~-~~~~L~~qYRm~p~I~~f~s~~fY~~~L~~~~~~~~~~~~~~~~~~~--~~p~~f~dv~~g~e~~~ 611 (824)
..++|+++...+. ...+|+.||||||.|+.|+|..||+++|..+..........+..... ..|+.|+++ .+.+. .
T Consensus 539 ~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~-~ 616 (767)
T COG1112 539 SASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVVISNPLEFYDT-LGAEE-F 616 (767)
T ss_pred hHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhccccccccccCceEEEEe-cCccc-c
Confidence 9999999999875 78999999999999999999999999999988776655444333322 458999999 55444 3
Q ss_pred CCCCCcccHHHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCcHHHHHHHHHHHhhhhCCCCCcceEEecCCCCCCccccEE
Q 003388 612 AGSGSWINIDEVDFVLLLFHKLISMYPQLKSSSQLAIISPYRHQVKQFQERFKETFGVESQKVVDITTVDGCQGREKDVA 691 (824)
Q Consensus 612 ~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~~IgIItpY~~Q~~~i~~~l~~~~~~~~~~~v~V~TVd~fQG~E~diV 691 (824)
..+.+..|..||..+..++..+..... ...+|||||||++|+.+|++.+.... ..+.|+|||+|||+|+|+|
T Consensus 617 ~~~~~~~n~~e~~~~~~~~~~~~~~~~---~~~~igvis~y~~q~~~i~~~~~~~~-----~~v~v~tvd~fQG~EkdvI 688 (767)
T COG1112 617 FESKSKLNELEAEIVKVIVDELLKDGL---EENDIGVISPYRAQVSLIRRLLNEAG-----KGVEVGTVDGFQGREKDVI 688 (767)
T ss_pred cCccceecHHHHHHHHHHHHHHHHcCC---cHHHcceecccHHHHHHHHHHHHhcC-----CceEEeeccccCCccCcEE
Confidence 457899999999999999999998763 34559999999999999999997643 4699999999999999999
Q ss_pred EEEeeecCCC-CcccccCCCCeeEeeeecccceEEEEecCccccCCchHHHHHHHHHHcCcEEEcC
Q 003388 692 IFSCVRASDK-KSIGFLADYRRMNVGITRAKSSILVVGCASTLREDKHWNNLVKSAEKQDCLFRVS 756 (824)
Q Consensus 692 IlS~vrs~~~-~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L~~~~~w~~li~~~~~~~~~~~~~ 756 (824)
|+|+||++.. +.+||+.|.||||||+||||+.|||||+..++..++.|..++.+++.++.+....
T Consensus 689 i~S~v~s~~~~~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 754 (767)
T COG1112 689 ILSLVRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLESDPLYKRLINDLKRKGLLAELN 754 (767)
T ss_pred EEEEEeecCCCccccccCchhhhhhhhhcccceEEEEcChhHhhhchhHHHHHHHHHhcCcEeecc
Confidence 9999999987 6999999999999999999999999999999999999999999999999998765
No 8
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.2e-40 Score=385.60 Aligned_cols=397 Identities=23% Similarity=0.290 Sum_probs=296.3
Q ss_pred hhhccCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccC
Q 003388 251 EYIKENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGR 330 (824)
Q Consensus 251 ~~~~~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 330 (824)
.++....+..|..++ ..........+.||||||||.|+.+.+..+--.
T Consensus 306 ~~l~s~~~~~~~~~~-~~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~------------------------------- 353 (775)
T KOG1804|consen 306 PFLNSVAREEQALHL-LLCRLPEPYIVFGPPGTGKTENYREAIAIVSFT------------------------------- 353 (775)
T ss_pred cchhhhhhhhhhhhh-cccccccccccccCCCcCCccchHHHHHHHHhc-------------------------------
Confidence 344444556666662 222235679999999999999988776554321
Q ss_pred CCCcccCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcE
Q 003388 331 ASPWLVGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKI 410 (824)
Q Consensus 331 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~i 410 (824)
.+..+|++|||+|+|.|....|+... . .+...
T Consensus 354 ----------------------------------------~~~~~il~~~p~~a~~k~~~~rl~~p-~------~~~~~- 385 (775)
T KOG1804|consen 354 ----------------------------------------SPHFYILVCAPSNASGKQPAHRLHYP-L------TFSTA- 385 (775)
T ss_pred ----------------------------------------chHHHhhccccccccccccccccccc-c------ccccc-
Confidence 12369999999999999999988321 1 11100
Q ss_pred EEEecCCCcccccccH--HHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhc-CCCcCEE
Q 003388 411 VRIGLKAHHSVNSVAI--DHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKL-NHGFDVV 487 (824)
Q Consensus 411 vRig~~~~~~~~~~sl--d~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~-~~~fd~v 487 (824)
.| ..+.+.+. ++...+... .. ...+.++ .+....|+.+|++++|.-.-... -.+|.++
T Consensus 386 --~~----~~~~~~~~~~~~~~~~v~~----~~-------~~~e~~~--~~~~~~i~i~t~~sag~~~~~g~~v~~f~hi 446 (775)
T KOG1804|consen 386 --RG----EDVRAKSSTAWYNNAEVSE----VV-------EKVEELR--KVWPYRWGITTCTSAGCVTSYGFQVGHFRHI 446 (775)
T ss_pred --cc----ccccccchhHHhhhHHHHH----HH-------HHHHHHh--hccceEEEEeeccceeeeecccccccceeee
Confidence 01 11111111 111000000 00 0111111 45677899999987765332221 2579999
Q ss_pred EEcCCCCCCchhhHhhhhc--cCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcC------------CCCcccc
Q 003388 488 IIDEAAQAVEPATLVPLAT--GCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAG------------YPVKMLK 553 (824)
Q Consensus 488 IIDEAsq~~e~~~lipL~~--~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~------------~~~~~L~ 553 (824)
++|||++++||++++|+.. ...++||.|||+||+|++.|..+..+|++.|||+|+.... .-...|-
T Consensus 447 l~DeAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~ 526 (775)
T KOG1804|consen 447 LVDEAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLC 526 (775)
T ss_pred eecccccccCcccccccccccceeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhH
Confidence 9999999999999999973 2348999999999999999999999999999999997531 1247789
Q ss_pred cccccChhhhhccchhhccccccCCCCccccc-ccCcCccCCCCCeEEEEcCCCcccccCCCCCcccHHHHHHHHHHHHH
Q 003388 554 TQYRMHPEVRSFPSREFYDEALEDGSDVEDYT-TRDWHEYRCFGPFSFFDIHEGKESQPAGSGSWINIDEVDFVLLLFHK 632 (824)
Q Consensus 554 ~qYRm~p~I~~f~s~~fY~~~L~~~~~~~~~~-~~~~~~~~~~~p~~f~dv~~g~e~~~~~~~S~~N~~Ea~~v~~lv~~ 632 (824)
.+||+||.|...+|+.||.+.|.......... ...|.. .+.|..+ .|..+....+.|++|+.||..|..++..
T Consensus 527 rnyrshp~il~l~~~l~y~~eL~~~~~~~~v~~~~~w~~-----liif~g~-~G~~~r~~~s~S~~n~~Ea~~V~~~~k~ 600 (775)
T KOG1804|consen 527 RNYRSHPIILCLENRLYYLGELTAEASEVDVRGLELWSG-----LILFYGA-PGFTERAGNSPSWLNLEEAAVVVRMTKA 600 (775)
T ss_pred HHHhhhhHhhhcccccccccceeeeccHHHHHHHHhccc-----ceecccc-ccccccccCChhhccHHHHHHHHHHHhc
Confidence 99999999999999999999998765544322 344554 3677777 8887777778899999999999888877
Q ss_pred HHHhCCCCCCCCeEEEEcCcHHHHHHHHHHHhhhhCCCCCcceEEecCCCCCCccccEEEEEeeecCCC------Ccccc
Q 003388 633 LISMYPQLKSSSQLAIISPYRHQVKQFQERFKETFGVESQKVVDITTVDGCQGREKDVAIFSCVRASDK------KSIGF 706 (824)
Q Consensus 633 L~~~~~~~~~~~~IgIItpY~~Q~~~i~~~l~~~~~~~~~~~v~V~TVd~fQG~E~diVIlS~vrs~~~------~~igf 706 (824)
+..... ....+|||||||++|+..|+..++.. ....+.|++|..|||+|+.+||+|+||+... ...+|
T Consensus 601 l~~~~~--~~~~DIgvitpy~aq~~~i~~~l~~~----~~~~~~vgsVe~fqGqE~~viiiStVrS~~~~~~~~~~~~~f 674 (775)
T KOG1804|consen 601 LPLGEV--AQPQDIGVITPYTAQVSEIRKALRRL----GVPGVKVGSVEEFQGQEPWVILGSTVRSFALPLLDDRYFGLF 674 (775)
T ss_pred cCCCCc--cccccceeeCcHHHHHHHHHHHhccc----CCCCCcccceeeeccccceeeEeecccccCCCccccccccee
Confidence 765432 23459999999999999999999753 3456899999999999999999999999832 22348
Q ss_pred cCCCCeeEeeeecccceEEEEecCccccCCchHHHHHHHHHHcCcEEEcCCc
Q 003388 707 LADYRRMNVGITRAKSSILVVGCASTLREDKHWNNLVKSAEKQDCLFRVSKP 758 (824)
Q Consensus 707 l~d~rrlNVAlTRAk~~LiIvG~~~~L~~~~~w~~li~~~~~~~~~~~~~~~ 758 (824)
+++++++|||+|||+..++++|++..+..++.|+.++..+..+|.|..++.+
T Consensus 675 ls~pk~l~v~V~rp~~l~i~~~~~h~~~~~~~~~~~l~~~~~n~~y~~c~~~ 726 (775)
T KOG1804|consen 675 LSRPKRLLVAVGRPRALLINLGNPHLLGGDPPWGLLLLLRVENGRYPGCDFP 726 (775)
T ss_pred ecCcccceeeccCccccccccCCcccccCCCChhhheeeeecCCcccCCCCC
Confidence 9999999999999999999999999999999999999999999999988655
No 9
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=100.00 E-value=1.3e-37 Score=318.32 Aligned_cols=197 Identities=37% Similarity=0.616 Sum_probs=139.2
Q ss_pred CcCcHHHHHHHcC-CCCcccccccccChhhhhccchhhccccccCCCCccccccc-CcCccCCCCCeEEEEcCCCccccc
Q 003388 534 YGTSLFKRLQRAG-YPVKMLKTQYRMHPEVRSFPSREFYDEALEDGSDVEDYTTR-DWHEYRCFGPFSFFDIHEGKESQP 611 (824)
Q Consensus 534 ~~~SLferl~~~~-~~~~~L~~qYRm~p~I~~f~s~~fY~~~L~~~~~~~~~~~~-~~~~~~~~~p~~f~dv~~g~e~~~ 611 (824)
|+.|||+|+...+ .++++|++||||||+|++|+|..||+|+|.+++........ .-.......|+.|+++ .+.+...
T Consensus 1 ~~~Slferl~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~v-~~~~~~~ 79 (200)
T PF13087_consen 1 LDRSLFERLIKNGSVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAPLLKLLPSPQNPIVFIDV-SGSESSS 79 (200)
T ss_dssp TTS-HHHHHHHCT----EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T-----SSTTSSEEEEE-----EEEE
T ss_pred CCccHHHHHHHcCCCCceecccccCCCHHHHHHHHHHHhchhcccCcccccccccccccccCCCCceEEEec-ccccccc
Confidence 5789999999998 99999999999999999999999999999998866553322 1112234568999999 5555444
Q ss_pred CCC-CCcccHHHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCcHHHHHHHHHHHhhhhCCCCCcceEEecCCCCCCccccE
Q 003388 612 AGS-GSWINIDEVDFVLLLFHKLISMYPQLKSSSQLAIISPYRHQVKQFQERFKETFGVESQKVVDITTVDGCQGREKDV 690 (824)
Q Consensus 612 ~~~-~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~~IgIItpY~~Q~~~i~~~l~~~~~~~~~~~v~V~TVd~fQG~E~di 690 (824)
... +|++|..||++|+.++..|....+......+|||||||++|+.+|++.|...........+.|+|||+|||+|+|+
T Consensus 80 ~~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~~~~~v~Tvd~~QG~E~di 159 (200)
T PF13087_consen 80 ESSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPIKDIKVSTVDSFQGQEADI 159 (200)
T ss_dssp TTC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHHHCSEEEEHHHHTT--EEE
T ss_pred cccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccccceEEEecHHHhccccceE
Confidence 333 8999999999999999999987643212478999999999999999999875433211228999999999999999
Q ss_pred EEEEeeecCCCCcccccCCCCeeEeeeecccceEEEEecCc
Q 003388 691 AIFSCVRASDKKSIGFLADYRRMNVGITRAKSSILVVGCAS 731 (824)
Q Consensus 691 VIlS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~ 731 (824)
||+|+|+++....+||+.+.+|+|||+||||.+||||||++
T Consensus 160 Vi~s~v~~~~~~~~~f~~~~~r~nVA~SRAk~~liiig~~~ 200 (200)
T PF13087_consen 160 VIVSLVRTNSSSNIGFLNDPNRLNVALSRAKSGLIIIGNPE 200 (200)
T ss_dssp EEEEE---STTS-SGGGC-HHHHHHHHTSEEEEEEEEE-H-
T ss_pred EEEEeccCCccccccccCCcCeeeeeHHHHhcCEEEEecCC
Confidence 99999999877789999999999999999999999999963
No 10
>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=5.6e-35 Score=304.81 Aligned_cols=205 Identities=40% Similarity=0.631 Sum_probs=127.7
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCCcc
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASPWL 335 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 335 (824)
+||++|++||..++++..+++||||||||||+|++.++..++.....
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~--------------------------------- 47 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKS--------------------------------- 47 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH---------------------------------------
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhh---------------------------------
Confidence 48999999999999876679999999999999999999877420000
Q ss_pred cCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEEec
Q 003388 336 VGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRIGL 415 (824)
Q Consensus 336 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRig~ 415 (824)
.....+.+||+||+||.|||+++.|+.+ +.+..+..+.+.++|+|.
T Consensus 48 --------------------------------~~~~~~~~il~~~~sN~avd~~~~~l~~--~~~~~~~~~~~~~ir~~~ 93 (236)
T PF13086_consen 48 --------------------------------RSADRGKKILVVSPSNAAVDNILERLKK--LLDEDGKVYKPKIIRLGS 93 (236)
T ss_dssp ---------------------------------HCCCSS-EEEEESSHHHHHHHHHHHHC----------TT--EEE---
T ss_pred --------------------------------hhhhccccceeecCCchhHHHHHHHHHh--hccccccccccchhhhcc
Confidence 0011357999999999999999999987 445556677789999998
Q ss_pred CC---CcccccccHHHHHHHHHhh------------------hHH-Hhhhc---------CCChhhHHHHHHHHhcCCcE
Q 003388 416 KA---HHSVNSVAIDHLVEQKRDD------------------SAA-DKQKH---------GATRKDRDSIRSAILNEAVI 464 (824)
Q Consensus 416 ~~---~~~~~~~sld~l~~~~l~~------------------~~~-~~~~~---------~~~~~~~~~~~~~il~~a~I 464 (824)
.. +..+..++++..+...... ... ..... ......++.+...+++.++|
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~v 173 (236)
T PF13086_consen 94 EEEKIHEDLQKFSLESKLEQRFESKLKRLREQLEELQQKIRLSELKEEKKKLKKSIKRLRKELEKIREELRRFILKEADV 173 (236)
T ss_dssp GGTTS--TTGGGBHHHHHHTTT-----------THHHCHHHHHHHHHHHCCSSCHHHHHHHHHHHHHHHHHHHHHHT-SE
T ss_pred cccccccccccccccccccccccccchhhhHHHHHHHHhhhhhhhhhhhhhcchhcccccccccccccchhhhhcccccc
Confidence 76 5667788877766554310 000 00000 00112335566889999999
Q ss_pred EEEcCccchhhHHhhcCCCcCEEEEcCCCCCCchhhHhhhhccCceEEEEcCCCCCCceeeCh
Q 003388 465 VCSTLSFSGSALLSKLNHGFDVVIIDEAAQAVEPATLVPLATGCKQVFLVGDPVQLPATVISP 527 (824)
Q Consensus 465 V~sTls~s~~~~~~~~~~~fd~vIIDEAsq~~e~~~lipL~~~~~k~VLVGD~~QLpP~v~s~ 527 (824)
|+||+++++...+......||+||||||+|++|+++|+||...++++||||||+||||++.|.
T Consensus 174 i~~T~~~~~~~~~~~~~~~~d~vIvDEAsq~~e~~~l~~l~~~~~~~vlvGD~~QLpP~v~s~ 236 (236)
T PF13086_consen 174 IFTTLSSAASPFLSNFKEKFDVVIVDEASQITEPEALIPLSRAPKRIVLVGDPKQLPPVVKSE 236 (236)
T ss_dssp EEEETCGGG-CCGTT-----SEEEETTGGGS-HHHHHHHHTTTBSEEEEEE-TTS-----S--
T ss_pred cccccccchhhHhhhhcccCCEEEEeCCCCcchHHHHHHHHHhCCEEEEECChhhcCCeeCCC
Confidence 999999887766666555899999999999999999999988889999999999999999763
No 11
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.97 E-value=3.8e-31 Score=302.31 Aligned_cols=283 Identities=25% Similarity=0.398 Sum_probs=220.4
Q ss_pred HHhcCCcEEEEcCccchhh--HHhhcCCCcCEEEEcCCCCCCchhhHhhhhcc--------CceEEEEcCCCCCCceeeC
Q 003388 457 AILNEAVIVCSTLSFSGSA--LLSKLNHGFDVVIIDEAAQAVEPATLVPLATG--------CKQVFLVGDPVQLPATVIS 526 (824)
Q Consensus 457 ~il~~a~IV~sTls~s~~~--~~~~~~~~fd~vIIDEAsq~~e~~~lipL~~~--------~~k~VLVGD~~QLpP~v~s 526 (824)
...++|.||.+||..+.-. .+..+...||-+++.|++|+.|.++.+|+... -+++|++|||.|+||++..
T Consensus 963 ll~kqakiiamtcthaalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n 1042 (1320)
T KOG1806|consen 963 LLVKQAKIIAMTCTHAALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKN 1042 (1320)
T ss_pred cCcccceeeecccCChhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccc
Confidence 3457899999999765432 23344568999999999999999999999732 4689999999999999966
Q ss_pred hh-hhhcCCcCcHHHHHHHcCCCCcccccccccChhhhhccchhhccccccCCCCcccccccCcCccCCCCCeEEEEcC-
Q 003388 527 PV-AEHLGYGTSLFKRLQRAGYPVKMLKTQYRMHPEVRSFPSREFYDEALEDGSDVEDYTTRDWHEYRCFGPFSFFDIH- 604 (824)
Q Consensus 527 ~~-~~~~~~~~SLferl~~~~~~~~~L~~qYRm~p~I~~f~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~p~~f~dv~- 604 (824)
.. ......++|+|.|+.+.+.|.+-|+.|+|..+.|+++.+..+-. |...+.+.........+.....++.|+++.
T Consensus 1043 ~afqkysnm~qslf~r~vRl~ip~i~lnaqgrar~sI~~Ly~wry~l--Lg~l~~v~~lp~f~~aNagf~~~~qlinv~D 1120 (1320)
T KOG1806|consen 1043 QAFQKYSNMEQSLFTRLVRLGVPIIDLNAQGRARASIASLYNWRYPL--LGNLPHVSPLPRFQYANAGFAYEFQFINVPD 1120 (1320)
T ss_pred hHHHHHhcchhhhhhcceecccceecchhhhhHHHHHHHHHHhhhcc--cccCcCCccchhhhccccCceeeEEEecchh
Confidence 54 44456779999999999999999999999999999999885432 333333332111111112222478899986
Q ss_pred -CCcccccCCCCCcccHHHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCcHHHHHHHHHHHhhhhCCCC--CcceEEecCC
Q 003388 605 -EGKESQPAGSGSWINIDEVDFVLLLFHKLISMYPQLKSSSQLAIISPYRHQVKQFQERFKETFGVES--QKVVDITTVD 681 (824)
Q Consensus 605 -~g~e~~~~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~~IgIItpY~~Q~~~i~~~l~~~~~~~~--~~~v~V~TVd 681 (824)
.|..+..+..+-+.|..||+.++.++..+...+ .+..+|.|.|.|++|+.+|++.+..+..... ...-.|.|||
T Consensus 1121 f~g~gEt~p~p~fyQnlgeaey~vAly~YMr~Lg---ypa~Kisilttyngq~~lirdii~rrc~~nPfig~pAkv~tvd 1197 (1320)
T KOG1806|consen 1121 FKGSGETEPSPGFYQNLGEAEYAVALFQYMRLLG---YPANKISILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVD 1197 (1320)
T ss_pred hccccccCCCcccccCCchhhhHHHHHHHHHHhC---CchhHeeEEEeecchHHHHHHHHHHhccCCCccCCcccCCccc
Confidence 344444555677899999999999998887765 4578999999999999999999876544322 3346799999
Q ss_pred CCCCccccEEEEEeeecCCCCcccccCCCCeeEeeeecccceEEEEecCccccC----CchHHHHHHHHH
Q 003388 682 GCQGREKDVAIFSCVRASDKKSIGFLADYRRMNVGITRAKSSILVVGCASTLRE----DKHWNNLVKSAE 747 (824)
Q Consensus 682 ~fQG~E~diVIlS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L~~----~~~w~~li~~~~ 747 (824)
.|||+..|.||+|+|++ +.+|.+.|.||+.||++||+.+++|++....+++ -+.|+.|.+.-.
T Consensus 1198 k~qgqqndfiIlslv~t---r~~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eLtp~~~~l~k~p~ 1264 (1320)
T KOG1806|consen 1198 KFQGQQNDFIILSLVRT---REVGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCRELTPAFNELEKRPD 1264 (1320)
T ss_pred cccccccceEEeeehhh---hhhhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhccHHHHHHhhCcc
Confidence 99999999999999998 5688899999999999999999999999987764 467777766543
No 12
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.93 E-value=8e-26 Score=267.55 Aligned_cols=223 Identities=16% Similarity=0.222 Sum_probs=137.2
Q ss_pred CCcCEEEEcCCCCCCchhh-Hh-hhhc--cCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc-C-CCCcccccc
Q 003388 482 HGFDVVIIDEAAQAVEPAT-LV-PLAT--GCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA-G-YPVKMLKTQ 555 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~~-li-pL~~--~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~-~-~~~~~L~~q 555 (824)
..|++|+|||+++++..+. |+ .|.. ...++++|||+.| .++ ...|-+..++..+... + ...+.|+++
T Consensus 429 ~~~~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~Q---sIY----~frGa~~~~~~~f~~~f~~~~~~~L~~n 501 (684)
T PRK11054 429 SPWKHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQ---AIY----RFSGADLSLTTAFHERFGEGDRCHLDTT 501 (684)
T ss_pred hcccEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCc---ccc----ccCCCChHHHHHHHhhcCCCeEEEeCCC
Confidence 3599999999999876652 22 2322 2358999999999 232 2344455666666542 1 235789999
Q ss_pred cccChhhhhccchhhccccccCCCCcccccccCcCccCCCCCeEEEEcCCCcccccCCCCCcccHHHHHHHHHHHHHHHH
Q 003388 556 YRMHPEVRSFPSREFYDEALEDGSDVEDYTTRDWHEYRCFGPFSFFDIHEGKESQPAGSGSWINIDEVDFVLLLFHKLIS 635 (824)
Q Consensus 556 YRm~p~I~~f~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~p~~f~dv~~g~e~~~~~~~S~~N~~Ea~~v~~lv~~L~~ 635 (824)
||+++.|.+++|..+=.+.-........ ......|.+.+-. ..+.+.++..+..+..
T Consensus 502 YRs~~~I~~~An~~i~~n~~~~~k~l~s-------~~~g~~p~v~~~~----------------~~~~~~il~~l~~~~~ 558 (684)
T PRK11054 502 YRFNSRIGEVANRFIQQNPHQLKKPLNS-------LTKGDKKAVTLLP----------------EDQLEALLDKLSGYAK 558 (684)
T ss_pred CCCCHHHHHHHHHHHHhCccccCCcccc-------cCCCCCceEEEeC----------------CHHHHHHHHHHHHhhc
Confidence 9999999999999653221000000000 0011112222111 1244444444444432
Q ss_pred hCCCCCCCCeEEEEcCcHHHHHHHHHHHhhhhCCCCCcceEEecCCCCCCccccEEEEEeeecCCC----C---------
Q 003388 636 MYPQLKSSSQLAIISPYRHQVKQFQERFKETFGVESQKVVDITTVDGCQGREKDVAIFSCVRASDK----K--------- 702 (824)
Q Consensus 636 ~~~~~~~~~~IgIItpY~~Q~~~i~~~l~~~~~~~~~~~v~V~TVd~fQG~E~diVIlS~vrs~~~----~--------- 702 (824)
...+|+||++|+.+...+.+.+...++ ...|.+.|+|.++|+|+|+||+..+..... .
T Consensus 559 ------~~~~I~IL~R~~~~~~~~l~~~~~~~~---~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~~ 629 (684)
T PRK11054 559 ------PDERILLLARYHHLRPALLDKAATRWP---KLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEEA 629 (684)
T ss_pred ------CCCcEEEEEechhhHHHHHHHHHhhcc---cCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhhc
Confidence 257999999999887665555544332 236999999999999999999976643210 0
Q ss_pred ----cccc--cCCCCeeEeeeecccceEEEEecCccccCCchHHHHHHHHHHc
Q 003388 703 ----SIGF--LADYRRMNVGITRAKSSILVVGCASTLREDKHWNNLVKSAEKQ 749 (824)
Q Consensus 703 ----~igf--l~d~rrlNVAlTRAk~~LiIvG~~~~L~~~~~w~~li~~~~~~ 749 (824)
.-.| -.++|.+|||+||||+.|+|+.+.. ..+.|+....+.
T Consensus 630 ~~~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~~------~~S~fv~el~~~ 676 (684)
T PRK11054 630 LLPPPEDFPDAEERRLLYVALTRAKHRVWLLFNKG------NPSPFVEELKNL 676 (684)
T ss_pred ccccccccccHHHHHHHHHHhhhhhcEEEEEEcCC------CCCHHHHHHhhC
Confidence 0011 2357889999999999999998743 234555555543
No 13
>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=99.92 E-value=1.6e-24 Score=252.29 Aligned_cols=54 Identities=30% Similarity=0.239 Sum_probs=43.9
Q ss_pred eEEecCCCCCCccccEEEEEeeecCCCCcccccCCCCeeEeeeecccceEEEEecCccc
Q 003388 675 VDITTVDGCQGREKDVAIFSCVRASDKKSIGFLADYRRMNVGITRAKSSILVVGCASTL 733 (824)
Q Consensus 675 v~V~TVd~fQG~E~diVIlS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L 733 (824)
....|||++||+|+|.||+...... .-+-+++.+|||+||||+.++|+|+...|
T Consensus 521 ayA~TvHKSQGsef~~Vi~~l~~~~-----~~~l~r~llYTaiTRAk~~l~i~~~~~~l 574 (586)
T TIGR01447 521 AFAMTVHKSQGSEFDHVILILPNGN-----SPVLTRELLYTGITRAKDQLSVWSDKETL 574 (586)
T ss_pred EEEEEeeHhcCCcCCeEEEECCCCC-----CcccccceeEEEeeehhCeEEEEECHHHH
Confidence 4478999999999999999765331 12456789999999999999999988644
No 14
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.91 E-value=7.4e-24 Score=247.03 Aligned_cols=54 Identities=20% Similarity=0.114 Sum_probs=43.1
Q ss_pred eEEecCCCCCCccccEEEEEeeecCCCCcccccCCCCeeEeeeecccceEEEEecCccc
Q 003388 675 VDITTVDGCQGREKDVAIFSCVRASDKKSIGFLADYRRMNVGITRAKSSILVVGCASTL 733 (824)
Q Consensus 675 v~V~TVd~fQG~E~diVIlS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L 733 (824)
....|||++||+|++.||+...... ..+-+++.+|||+||||+.++|+|+...|
T Consensus 539 ayA~TVHKSQGsEf~~Vilvlp~~~-----~~~l~R~LlYTaiTRAk~~l~l~~~~~~l 592 (615)
T PRK10875 539 AWAMTVHKSQGSEFDHTALVLPNQF-----TPVVTRELVYTAITRARRRLSLYADERVL 592 (615)
T ss_pred EEEEehhhhcCCCCCeEEEECCCcc-----chhhhhhhHHhhhhhhhceEEEEeCHHHH
Confidence 3468999999999999988653221 12346788999999999999999998865
No 15
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.91 E-value=1.7e-24 Score=261.30 Aligned_cols=88 Identities=18% Similarity=0.254 Sum_probs=64.9
Q ss_pred hcCCCcCEEEEcCCCCCCchh-hHh-hhhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc--CCCCccccc
Q 003388 479 KLNHGFDVVIIDEAAQAVEPA-TLV-PLATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA--GYPVKMLKT 554 (824)
Q Consensus 479 ~~~~~fd~vIIDEAsq~~e~~-~li-pL~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~--~~~~~~L~~ 554 (824)
.+...|++|+|||++++...+ .|+ .|.....++++|||++| ......|-+...|.++... +...+.|..
T Consensus 209 ~~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~dQ-------sIY~fRGA~~~~~~~f~~~~~~~~~i~L~~ 281 (721)
T PRK11773 209 HYQERFTHILVDEFQDTNAIQYAWIRLLAGDTGKVMIVGDDDQ-------SIYGWRGAQVENIQRFLNDFPGAETIRLEQ 281 (721)
T ss_pred HHHHhCCEEEEEchhcCCHHHHHHHHHHhCCCCeEEEEecCcc-------cccccCCCChHHHHHHHHhCCCCeEEECCc
Confidence 344679999999999987766 333 33344678999999999 3334455566666666553 234688999
Q ss_pred ccccChhhhhccchhhccc
Q 003388 555 QYRMHPEVRSFPSREFYDE 573 (824)
Q Consensus 555 qYRm~p~I~~f~s~~fY~~ 573 (824)
|||++++|.+++|..|-.+
T Consensus 282 NyRSt~~Il~~an~li~~n 300 (721)
T PRK11773 282 NYRSTANILKAANALIANN 300 (721)
T ss_pred CCCCCHHHHHHHHHHHHhc
Confidence 9999999999999988554
No 16
>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=99.91 E-value=1.8e-23 Score=250.21 Aligned_cols=171 Identities=22% Similarity=0.312 Sum_probs=113.8
Q ss_pred ccCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCC
Q 003388 254 KENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASP 333 (824)
Q Consensus 254 ~~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 333 (824)
...||+.|++||..++. .++++|+|+||||||+++..++..+-..
T Consensus 321 ~~~l~~~Q~~Ai~~~~~-~~~~iitGgpGTGKTt~l~~i~~~~~~~---------------------------------- 365 (720)
T TIGR01448 321 RKGLSEEQKQALDTAIQ-HKVVILTGGPGTGKTTITRAIIELAEEL---------------------------------- 365 (720)
T ss_pred CCCCCHHHHHHHHHHHh-CCeEEEECCCCCCHHHHHHHHHHHHHHc----------------------------------
Confidence 35799999999999876 4699999999999999998887654320
Q ss_pred cccCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEE
Q 003388 334 WLVGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRI 413 (824)
Q Consensus 334 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRi 413 (824)
....+|++||||+.|++.|.+.. |.
T Consensus 366 -------------------------------------~~~~~v~l~ApTg~AA~~L~e~~---g~--------------- 390 (720)
T TIGR01448 366 -------------------------------------GGLLPVGLAAPTGRAAKRLGEVT---GL--------------- 390 (720)
T ss_pred -------------------------------------CCCceEEEEeCchHHHHHHHHhc---CC---------------
Confidence 00158999999999998665421 21
Q ss_pred ecCCCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEcCCC
Q 003388 414 GLKAHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAA 493 (824)
Q Consensus 414 g~~~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAs 493 (824)
...+++.++.... .. . ..... ......|+||||||+
T Consensus 391 --------~a~Tih~lL~~~~--------------------------~~------~---~~~~~-~~~~~~~llIvDEaS 426 (720)
T TIGR01448 391 --------TASTIHRLLGYGP--------------------------DT------F---RHNHL-EDPIDCDLLIVDESS 426 (720)
T ss_pred --------ccccHHHHhhccC--------------------------Cc------c---chhhh-hccccCCEEEEeccc
Confidence 1234444332100 00 0 00000 112357999999999
Q ss_pred CCCchhh--HhhhhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcC-CCCcccccccccC--hhhhhccch
Q 003388 494 QAVEPAT--LVPLATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAG-YPVKMLKTQYRMH--PEVRSFPSR 568 (824)
Q Consensus 494 q~~e~~~--lipL~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~-~~~~~L~~qYRm~--p~I~~f~s~ 568 (824)
|+..... |+.......++|||||+.||||+-- + ..|.-+...+ .++..|++.||.. ..|..++..
T Consensus 427 Mvd~~~~~~Ll~~~~~~~rlilvGD~~QLpsV~~---------G-~v~~dl~~~~~~~~~~L~~i~RQ~~~s~i~~~a~~ 496 (720)
T TIGR01448 427 MMDTWLALSLLAALPDHARLLLVGDTDQLPSVGP---------G-QVLKDLILSQAIPVTRLTKVYRQAAGSPIITLAHG 496 (720)
T ss_pred cCCHHHHHHHHHhCCCCCEEEEECccccccCCCC---------C-chHHHHHhcCCCCEEEeCeeeccCCCcHHHHHHHH
Confidence 9865532 2222234579999999999999732 2 3455555544 7889999999986 457777655
No 17
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.91 E-value=5.9e-24 Score=256.81 Aligned_cols=87 Identities=17% Similarity=0.259 Sum_probs=63.9
Q ss_pred cCCCcCEEEEcCCCCCCchhh-Hhh-hhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc--CCCCcccccc
Q 003388 480 LNHGFDVVIIDEAAQAVEPAT-LVP-LATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA--GYPVKMLKTQ 555 (824)
Q Consensus 480 ~~~~fd~vIIDEAsq~~e~~~-lip-L~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~--~~~~~~L~~q 555 (824)
+...|++|+|||++++...+. |+- |...++++++|||++| ......|-+...|.++... +...+.|++|
T Consensus 205 ~~~~~~~ilVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~~Q-------sIY~fRGA~~~~i~~f~~~~~~~~~~~L~~N 277 (715)
T TIGR01075 205 YQERFTHILVDEFQDTNKIQYAWIRLLAGNTGNVMIVGDDDQ-------SIYGWRGAQVENIQKFLKDFPGAETIRLEQN 277 (715)
T ss_pred HHHhCCEEEEEccccCCHHHHHHHHHHhCCCCeEEEEeCCcc-------cccccCCCCHHHHHHHHHhCCCCeEEECccc
Confidence 345799999999999877663 333 3345678999999999 3333445556666666543 1236889999
Q ss_pred cccChhhhhccchhhccc
Q 003388 556 YRMHPEVRSFPSREFYDE 573 (824)
Q Consensus 556 YRm~p~I~~f~s~~fY~~ 573 (824)
||++++|..++|.+|-.+
T Consensus 278 yRS~~~Il~~an~li~~~ 295 (715)
T TIGR01075 278 YRSTANILAAANALIANN 295 (715)
T ss_pred CCCCHHHHHHHHHHHHhc
Confidence 999999999999988554
No 18
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.91 E-value=5.1e-24 Score=257.95 Aligned_cols=87 Identities=17% Similarity=0.249 Sum_probs=63.7
Q ss_pred cCCCcCEEEEcCCCCCCchhh-Hh-hhhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc--CCCCcccccc
Q 003388 480 LNHGFDVVIIDEAAQAVEPAT-LV-PLATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA--GYPVKMLKTQ 555 (824)
Q Consensus 480 ~~~~fd~vIIDEAsq~~e~~~-li-pL~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~--~~~~~~L~~q 555 (824)
+...|++|+|||+++....+. ++ .|....+++++|||++| ......|-+...|.++... +..++.|.+|
T Consensus 206 ~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~~Q-------sIY~fRgA~~~~~~~f~~~~~~~~~i~L~~N 278 (726)
T TIGR01073 206 YQRKFQYIHVDEYQDTNRAQYTLVRLLASRFRNLCVVGDADQ-------SIYGWRGADIQNILSFEKDYPNATTILLEQN 278 (726)
T ss_pred HHHhCCEEEEEccccCCHHHHHHHHHHhCCCCEEEEEeCCCc-------cccccCCCChHHHHHHHHhCCCCeEEECccC
Confidence 345799999999999887773 33 33444678999999999 2333445555666665543 2335789999
Q ss_pred cccChhhhhccchhhccc
Q 003388 556 YRMHPEVRSFPSREFYDE 573 (824)
Q Consensus 556 YRm~p~I~~f~s~~fY~~ 573 (824)
||+++.|..++|.++-.+
T Consensus 279 yRS~~~Il~~an~li~~~ 296 (726)
T TIGR01073 279 YRSTKNILQAANEVIEHN 296 (726)
T ss_pred CCCCHHHHHHHHHHHHhc
Confidence 999999999999987544
No 19
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.90 E-value=3.9e-23 Score=246.70 Aligned_cols=86 Identities=17% Similarity=0.186 Sum_probs=64.7
Q ss_pred cCCCcCEEEEcCCCCCCchhh-Hhh-hhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc--CCCCcccccc
Q 003388 480 LNHGFDVVIIDEAAQAVEPAT-LVP-LATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA--GYPVKMLKTQ 555 (824)
Q Consensus 480 ~~~~fd~vIIDEAsq~~e~~~-lip-L~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~--~~~~~~L~~q 555 (824)
+...|++|+|||++++...+. |+- |.....++++|||++| ......|-+...|.++... +..++.|.+|
T Consensus 204 ~~~~~~~ilVDE~QDtn~~Q~~ll~~l~~~~~~l~~VGD~~Q-------sIY~frGA~~~~~~~f~~~~~~~~~~~L~~N 276 (672)
T PRK10919 204 WQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVVGDDDQ-------SIYSWRGARPQNLVLLSQDFPALQVIKLEQN 276 (672)
T ss_pred HHhcCCEEEEEchhcCCHHHHHHHHHHHcCCCEEEEEcCCcc-------cccccCCCChHHHHHHHHhCCCCcEEECCCC
Confidence 345799999999999887763 333 3334568999999999 3344556677777776553 2346789999
Q ss_pred cccChhhhhccchhhcc
Q 003388 556 YRMHPEVRSFPSREFYD 572 (824)
Q Consensus 556 YRm~p~I~~f~s~~fY~ 572 (824)
||+++.|..+.|..+-.
T Consensus 277 yRs~~~I~~~an~li~~ 293 (672)
T PRK10919 277 YRSSGRILKAANILIAN 293 (672)
T ss_pred CCCcHHHHHHHHHHHhh
Confidence 99999999999998744
No 20
>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=99.88 E-value=1.1e-21 Score=235.77 Aligned_cols=300 Identities=21% Similarity=0.220 Sum_probs=178.8
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCCc
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASPW 334 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 (824)
..||+.|++||..++...++++|+||||||||+++.+++..+-.
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~i~~~~~~------------------------------------ 394 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEA------------------------------------ 394 (744)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHHHHHHh------------------------------------
Confidence 46999999999998876679999999999999999887654421
Q ss_pred ccCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEEe
Q 003388 335 LVGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRIG 414 (824)
Q Consensus 335 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRig 414 (824)
.+.+|++||||+.|+..+... .|+
T Consensus 395 -------------------------------------~g~~V~~~ApTg~Aa~~L~~~---~g~---------------- 418 (744)
T TIGR02768 395 -------------------------------------AGYRVIGAALSGKAAEGLQAE---SGI---------------- 418 (744)
T ss_pred -------------------------------------CCCeEEEEeCcHHHHHHHHhc---cCC----------------
Confidence 135899999999999887642 222
Q ss_pred cCCCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEcCCCC
Q 003388 415 LKAHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAAQ 494 (824)
Q Consensus 415 ~~~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAsq 494 (824)
...+++.+... . . .+. ......++||||||+|
T Consensus 419 -------~a~Ti~~~~~~-------------------------~-~-----------~~~----~~~~~~~llIvDEasM 450 (744)
T TIGR02768 419 -------ESRTLASLEYA-------------------------W-A-----------NGR----DLLSDKDVLVIDEAGM 450 (744)
T ss_pred -------ceeeHHHHHhh-------------------------h-c-----------cCc----ccCCCCcEEEEECccc
Confidence 11233322100 0 0 000 0113679999999999
Q ss_pred CCchh--hHhhhh-ccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcCCCCcccccccccChhhhhccchhhc
Q 003388 495 AVEPA--TLVPLA-TGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAGYPVKMLKTQYRMHPEVRSFPSREFY 571 (824)
Q Consensus 495 ~~e~~--~lipL~-~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~~~~~~L~~qYRm~p~I~~f~s~~fY 571 (824)
+.... .|+-.. ....++|||||+.||||+.-. ..|.-|.. ..++..|+..||....-..-....+-
T Consensus 451 v~~~~~~~Ll~~~~~~~~kliLVGD~~QLpsVgaG----------~~f~~l~~-~~~~~~Lt~I~RQ~~~~~~~aa~~i~ 519 (744)
T TIGR02768 451 VGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAG----------AAFRAIAE-RIGYAELETIRRQREAWARQASLELA 519 (744)
T ss_pred CCHHHHHHHHHHHHhcCCEEEEECChHHccccccC----------cHHHHHHH-hhCeEEeeeEEecCCHHHHHHHHHHH
Confidence 86544 233222 245689999999999998532 35655554 36788999999985442222333343
Q ss_pred cccccCCCCcccccccCcCccCCCCCeEEEEcCCCcccccCCCCCcccHHH-HHHHHHHHHHHHHhCCCCCCCCeE-EEE
Q 003388 572 DEALEDGSDVEDYTTRDWHEYRCFGPFSFFDIHEGKESQPAGSGSWINIDE-VDFVLLLFHKLISMYPQLKSSSQL-AII 649 (824)
Q Consensus 572 ~~~L~~~~~~~~~~~~~~~~~~~~~p~~f~dv~~g~e~~~~~~~S~~N~~E-a~~v~~lv~~L~~~~~~~~~~~~I-gII 649 (824)
.|.....- . .....+.+.+. . +..+ ...++..+....... ...+. .||
T Consensus 520 ~G~~~~~l--~--------~~~~~~~i~~~---~-------------~~~~~~~~i~~~~~~~~~~~----~~~~~~lIl 569 (744)
T TIGR02768 520 RGDVEKAL--A--------AYRDHGHITIH---D-------------TREEAIEQVVADWKQDLREA----NPAGSQIML 569 (744)
T ss_pred cCCHHHHH--H--------HHhhCCCEeec---C-------------CHHHHHHHHHHHHHHhhhhc----CcccceEEE
Confidence 33221100 0 00000011110 0 1111 122222222221111 12233 577
Q ss_pred cCcHHHHHHHHHHHhhhhCC--------------------------------------------------------C---
Q 003388 650 SPYRHQVKQFQERFKETFGV--------------------------------------------------------E--- 670 (824)
Q Consensus 650 tpY~~Q~~~i~~~l~~~~~~--------------------------------------------------------~--- 670 (824)
+|.+..+..|...+++.+.. .
T Consensus 570 a~tn~~v~~LN~~ir~~L~~~g~l~~~~~~~~~~g~~~~~~GDrV~~~~N~~~~gv~NGd~g~V~~i~~~~i~v~~~~G~ 649 (744)
T TIGR02768 570 AHTRKDVRALNEAAREALIERGELGESILFQTARGERKFAAGDRIVFLENNRDLGVKNGMLGTVEEIEDGRLVVQLDSGE 649 (744)
T ss_pred cCchHhHHHHHHHHHHHHHhcCccCcCceeeccCCCceecCCCEEEEEecccccCCcCCCEEEEEEecCCeEEEEECCCC
Confidence 77777766666555432210 0
Q ss_pred ----------CCcceEEecCCCCCCccccEEEEEeeecCCCCcccccCCCCeeEeeeecccceEEEEecCccccCCchHH
Q 003388 671 ----------SQKVVDITTVDGCQGREKDVAIFSCVRASDKKSIGFLADYRRMNVGITRAKSSILVVGCASTLREDKHWN 740 (824)
Q Consensus 671 ----------~~~~v~V~TVd~fQG~E~diVIlS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L~~~~~w~ 740 (824)
....-...|||++||+|+|.||+.. ....+.+.+|||+||||..++|+|+...+.....|.
T Consensus 650 ~v~~~~~~~~~l~laYA~TvHKsQGst~~~viv~~---------~~~l~r~llYvAiTRar~~~~l~~~~~~~~~~~~l~ 720 (744)
T TIGR02768 650 LVIIPQAEYDALDHGYATTIHKSQGVTVDRAFVLA---------SKSMDRHLAYVAMTRHRESVQLYAGKEDFTDRGALV 720 (744)
T ss_pred EEEECHHHhCccCceEEeccccccCCccCcEEEec---------CCccccchhhhhhhcccceeEEEEchhhccChHHHH
Confidence 0001124699999999999998852 123567899999999999999999998887655444
Q ss_pred HHHH
Q 003388 741 NLVK 744 (824)
Q Consensus 741 ~li~ 744 (824)
.=+.
T Consensus 721 ~~~~ 724 (744)
T TIGR02768 721 KTLS 724 (744)
T ss_pred HHhh
Confidence 4333
No 21
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.86 E-value=3.3e-21 Score=232.05 Aligned_cols=86 Identities=15% Similarity=0.148 Sum_probs=60.3
Q ss_pred cCCCcCEEEEcCCCCCCchhh--HhhhhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc--CCCCcccccc
Q 003388 480 LNHGFDVVIIDEAAQAVEPAT--LVPLATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA--GYPVKMLKTQ 555 (824)
Q Consensus 480 ~~~~fd~vIIDEAsq~~e~~~--lipL~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~--~~~~~~L~~q 555 (824)
+...|++|+|||+++++..+. +-.|......+++|||++| . .....|-+...|.++... +...+.|.+|
T Consensus 203 ~~~~~~~ilVDEfQD~~~~Q~~ll~~L~~~~~~l~~vGD~~Q---s----IY~frga~~~~~~~~~~~~~~~~~~~L~~N 275 (664)
T TIGR01074 203 WQNKIRYLLVDEYQDTNTSQYELVKLLVGDRARFTVVGDDDQ---S----IYSWRGARPENLVLLKEDFPQLKVIKLEQN 275 (664)
T ss_pred HHHhCCEEEEeehccCCHHHHHHHHHHhcCCCeEEEEcCCcc---c----ccCCCCCCHHHHHHHHHhCCCCeEEECCCC
Confidence 345799999999999887663 3233334468999999999 2 222334445555555442 2345789999
Q ss_pred cccChhhhhccchhhcc
Q 003388 556 YRMHPEVRSFPSREFYD 572 (824)
Q Consensus 556 YRm~p~I~~f~s~~fY~ 572 (824)
||++++|..+.|..|-.
T Consensus 276 yRs~~~Il~~~n~l~~~ 292 (664)
T TIGR01074 276 YRSTGRILKAANILIAN 292 (664)
T ss_pred CCChHHHHHHHHHHHhc
Confidence 99999999999996643
No 22
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.84 E-value=8e-20 Score=221.44 Aligned_cols=168 Identities=23% Similarity=0.199 Sum_probs=111.1
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCCcc
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASPWL 335 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 335 (824)
.||+.|++||..+++..++++|+|+||||||+++..++..+ ..
T Consensus 346 ~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~~~~~~~-e~------------------------------------ 388 (988)
T PRK13889 346 VLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAW-EA------------------------------------ 388 (988)
T ss_pred CCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHH-HH------------------------------------
Confidence 59999999999999877899999999999999876654332 20
Q ss_pred cCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEEec
Q 003388 336 VGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRIGL 415 (824)
Q Consensus 336 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRig~ 415 (824)
.+.+|++||||+.|+..|-. ..|+
T Consensus 389 ------------------------------------~G~~V~~~ApTGkAA~~L~e---~tGi----------------- 412 (988)
T PRK13889 389 ------------------------------------AGYEVRGAALSGIAAENLEG---GSGI----------------- 412 (988)
T ss_pred ------------------------------------cCCeEEEecCcHHHHHHHhh---ccCc-----------------
Confidence 14589999999999987753 1222
Q ss_pred CCCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEcCCCCC
Q 003388 416 KAHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAAQA 495 (824)
Q Consensus 416 ~~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAsq~ 495 (824)
...+++.+.... . .+. ......++||||||+|+
T Consensus 413 ------~a~TI~sll~~~--------------------------~-----------~~~----~~l~~~~vlIVDEASMv 445 (988)
T PRK13889 413 ------ASRTIASLEHGW--------------------------G-----------QGR----DLLTSRDVLVIDEAGMV 445 (988)
T ss_pred ------chhhHHHHHhhh--------------------------c-----------ccc----cccccCcEEEEECcccC
Confidence 112333321000 0 000 01235799999999998
Q ss_pred CchhhHhhhh---ccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcCCCCcccccccccChhhhhccchhhcc
Q 003388 496 VEPATLVPLA---TGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAGYPVKMLKTQYRMHPEVRSFPSREFYD 572 (824)
Q Consensus 496 ~e~~~lipL~---~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~~~~~~L~~qYRm~p~I~~f~s~~fY~ 572 (824)
......-.|. ....++|||||+.||||+-- ...|.-|... .+...|++.+|.......-....+..
T Consensus 446 ~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~a----------G~~f~~L~~~-~~~a~LteI~RQ~~~~~r~aa~~i~~ 514 (988)
T PRK13889 446 GTRQLERVLSHAADAGAKVVLVGDPQQLQAIEA----------GAAFRSIHER-HGGAEIGEVRRQREDWQRDATRDLAT 514 (988)
T ss_pred CHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCC----------CchHHHHHHh-cCeEEeceeecCCCHHHHHHHHHHHc
Confidence 6554322221 34579999999999999732 2456655543 66789999999965544334444555
Q ss_pred cc
Q 003388 573 EA 574 (824)
Q Consensus 573 ~~ 574 (824)
|+
T Consensus 515 G~ 516 (988)
T PRK13889 515 GR 516 (988)
T ss_pred CC
Confidence 53
No 23
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.83 E-value=1.6e-19 Score=219.65 Aligned_cols=169 Identities=21% Similarity=0.216 Sum_probs=113.3
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCCc
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASPW 334 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 (824)
..||+.|++||...++..++++|+|+||||||+++..++..+-.
T Consensus 380 ~~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~~~~~~~e~------------------------------------ 423 (1102)
T PRK13826 380 ARLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAREAWEA------------------------------------ 423 (1102)
T ss_pred CCCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHHHHHHHHHH------------------------------------
Confidence 36999999999987777789999999999999999887654321
Q ss_pred ccCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEEe
Q 003388 335 LVGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRIG 414 (824)
Q Consensus 335 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRig 414 (824)
.+.+|+.||||+.|+..|-+. .|+.
T Consensus 424 -------------------------------------~G~~V~g~ApTgkAA~~L~e~---~Gi~--------------- 448 (1102)
T PRK13826 424 -------------------------------------AGYRVVGGALAGKAAEGLEKE---AGIQ--------------- 448 (1102)
T ss_pred -------------------------------------cCCeEEEEcCcHHHHHHHHHh---hCCC---------------
Confidence 145899999999999887542 2321
Q ss_pred cCCCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEcCCCC
Q 003388 415 LKAHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAAQ 494 (824)
Q Consensus 415 ~~~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAsq 494 (824)
..+++.+.... .. +. ..+ ..-++||||||+|
T Consensus 449 --------a~TIas~ll~~--------------------------~~-----------~~---~~l-~~~~vlVIDEAsM 479 (1102)
T PRK13826 449 --------SRTLSSWELRW--------------------------NQ-----------GR---DQL-DNKTVFVLDEAGM 479 (1102)
T ss_pred --------eeeHHHHHhhh--------------------------cc-----------Cc---cCC-CCCcEEEEECccc
Confidence 12333221000 00 00 011 2358999999999
Q ss_pred CCchhhHhhh--h-ccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcCCCCcccccccccChhhhhccchhhc
Q 003388 495 AVEPATLVPL--A-TGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAGYPVKMLKTQYRMHPEVRSFPSREFY 571 (824)
Q Consensus 495 ~~e~~~lipL--~-~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~~~~~~L~~qYRm~p~I~~f~s~~fY 571 (824)
+......-.| . ....++|||||+.||||+-.. ..|..|.. ..++..|++.||...+-..-.+..+-
T Consensus 480 v~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG----------~~f~~l~~-~i~~a~LteI~RQ~~~~~r~Aa~~i~ 548 (1102)
T PRK13826 480 VASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAG----------AAFRAIAD-RIGYAELETIYRQREQWMRDASLDLA 548 (1102)
T ss_pred CCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCC----------cHHHHHHh-hcCEEEeeeeeecCChHHHHHHHHHH
Confidence 8665533222 2 245799999999999998432 35666664 46788999999986552223344454
Q ss_pred ccc
Q 003388 572 DEA 574 (824)
Q Consensus 572 ~~~ 574 (824)
.|+
T Consensus 549 ~G~ 551 (1102)
T PRK13826 549 RGN 551 (1102)
T ss_pred cCC
Confidence 443
No 24
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.79 E-value=2e-19 Score=183.22 Aligned_cols=172 Identities=30% Similarity=0.331 Sum_probs=106.9
Q ss_pred CCCHHHHHHHHHhhcC-CCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCCc
Q 003388 256 NHNASQLEAIHEGLLR-KAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASPW 334 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~-~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 (824)
+||+.|++|+..++.+ ..+++|+||||||||+++..++..+..
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~------------------------------------ 44 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEA------------------------------------ 44 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHH------------------------------------
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHh------------------------------------
Confidence 4899999999999754 469999999999999999887765543
Q ss_pred ccCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEEe
Q 003388 335 LVGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRIG 414 (824)
Q Consensus 335 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRig 414 (824)
.+.+|++|||||.|++++..+. |+
T Consensus 45 -------------------------------------~g~~v~~~apT~~Aa~~L~~~~---~~---------------- 68 (196)
T PF13604_consen 45 -------------------------------------AGKRVIGLAPTNKAAKELREKT---GI---------------- 68 (196)
T ss_dssp -------------------------------------TT--EEEEESSHHHHHHHHHHH---TS----------------
T ss_pred -------------------------------------CCCeEEEECCcHHHHHHHHHhh---Cc----------------
Confidence 1369999999999999988764 11
Q ss_pred cCCCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEcCCCC
Q 003388 415 LKAHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAAQ 494 (824)
Q Consensus 415 ~~~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAsq 494 (824)
...+++.+...... --..+ .. .....++||||||+|
T Consensus 69 -------~a~Ti~~~l~~~~~----------------------------~~~~~-----~~----~~~~~~vliVDEasm 104 (196)
T PF13604_consen 69 -------EAQTIHSFLYRIPN----------------------------GDDEG-----RP----ELPKKDVLIVDEASM 104 (196)
T ss_dssp --------EEEHHHHTTEECC----------------------------EECCS-----SC----C-TSTSEEEESSGGG
T ss_pred -------chhhHHHHHhcCCc----------------------------ccccc-----cc----cCCcccEEEEecccc
Confidence 12233332111000 00000 00 023578999999999
Q ss_pred CCchhhHh--hhhc-cCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcCCCCcccccccccC-hhhhhccchhh
Q 003388 495 AVEPATLV--PLAT-GCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAGYPVKMLKTQYRMH-PEVRSFPSREF 570 (824)
Q Consensus 495 ~~e~~~li--pL~~-~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~~~~~~L~~qYRm~-p~I~~f~s~~f 570 (824)
+....... .+.. ...++|+||||+||||+. ..+.|.-+...+.....|++.+|.. +.+. -....+
T Consensus 105 v~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~----------~g~~~~~l~~~~~~~~~L~~i~Rq~~~~~~-~~~~~~ 173 (196)
T PF13604_consen 105 VDSRQLARLLRLAKKSGAKLILVGDPNQLPPVG----------AGSPFADLQESGGITVELTEIRRQKDPELR-EAAKAI 173 (196)
T ss_dssp -BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCS----------TTCHHHHHCGCSTTEEEE---SCCCCTHHH-HHHHHH
T ss_pred cCHHHHHHHHHHHHhcCCEEEEECCcchhcCCc----------CCcHHHHHHhcCCCeEEeChhhcCCChHHH-HHHHHH
Confidence 87555322 2222 246899999999999974 2466777777655588999999996 5555 444545
Q ss_pred cccc
Q 003388 571 YDEA 574 (824)
Q Consensus 571 Y~~~ 574 (824)
.+|.
T Consensus 174 ~~g~ 177 (196)
T PF13604_consen 174 REGD 177 (196)
T ss_dssp CTT-
T ss_pred HcCC
Confidence 5554
No 25
>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=99.78 E-value=1.9e-18 Score=218.67 Aligned_cols=86 Identities=21% Similarity=0.208 Sum_probs=66.9
Q ss_pred cCCCcCEEEEcCCCCCCchh-hHhhhhcc----CceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc-------CC
Q 003388 480 LNHGFDVVIIDEAAQAVEPA-TLVPLATG----CKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA-------GY 547 (824)
Q Consensus 480 ~~~~fd~vIIDEAsq~~e~~-~lipL~~~----~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~-------~~ 547 (824)
+...|++|+|||++++...+ .++.+..+ ...+++|||++| ......|-+.++|.++... ..
T Consensus 385 l~~rf~~ILVDEfQDTn~lQ~~Il~~L~~~~~~~~nLf~VGD~KQ-------SIY~FRGAdp~lf~~~~~~f~~~~~~~~ 457 (1232)
T TIGR02785 385 YREKFKEVLVDEYQDTNLLQESILQLLKRGEEDEGNLFMVGDVKQ-------SIYRFRQADPSLFLEKYHRFAQEGNEHG 457 (1232)
T ss_pred HHhCCCEEEEECCcCCCHHHHHHHHHHhccCCCCCeEEEEcCCcc-------hhhhhcCCChHHHHHHHHHhhhhccCCc
Confidence 34579999999999988777 45555433 268999999999 5666777788888765432 12
Q ss_pred CCcccccccccChhhhhccchhhcc
Q 003388 548 PVKMLKTQYRMHPEVRSFPSREFYD 572 (824)
Q Consensus 548 ~~~~L~~qYRm~p~I~~f~s~~fY~ 572 (824)
..+.|.+|||++++|..+.|..|..
T Consensus 458 ~~i~L~~NfRS~~~Il~~~N~lF~~ 482 (1232)
T TIGR02785 458 KRIDLAENFRSRKEVLDTTNYLFKQ 482 (1232)
T ss_pred eEEECCcCCCCcHHHHHHHHHHHHH
Confidence 3578999999999999999999954
No 26
>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=99.76 E-value=1.1e-17 Score=209.43 Aligned_cols=177 Identities=16% Similarity=0.141 Sum_probs=103.8
Q ss_pred HHhhcCCCcCEEEEcCCCCCCchhh--HhhhhccCc--eEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcCCCCcc
Q 003388 476 LLSKLNHGFDVVIIDEAAQAVEPAT--LVPLATGCK--QVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAGYPVKM 551 (824)
Q Consensus 476 ~~~~~~~~fd~vIIDEAsq~~e~~~--lipL~~~~~--k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~~~~~~ 551 (824)
....+...|++|+|||++++...+. +-.|..... .+++||||+| ......|-+...|.+........+.
T Consensus 289 l~~~lr~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQ-------SIY~FRGAD~~~~~~~~~~~~~~~~ 361 (1087)
T TIGR00609 289 LAQAIREQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQ-------AIYSFRGADIFTYLQAKSKADARYT 361 (1087)
T ss_pred HHHHHHhCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCcc-------ccccCCCCCHHHHHHHHHhcCcEEE
Confidence 3444557899999999999876663 223332222 7999999999 3444556666667666543335679
Q ss_pred cccccccChhhhhccchhhcccccc-----CCCCcccccc---c-CcCccCCCCCeEEEEcCCCcccccCCCCCcccHHH
Q 003388 552 LKTQYRMHPEVRSFPSREFYDEALE-----DGSDVEDYTT---R-DWHEYRCFGPFSFFDIHEGKESQPAGSGSWINIDE 622 (824)
Q Consensus 552 L~~qYRm~p~I~~f~s~~fY~~~L~-----~~~~~~~~~~---~-~~~~~~~~~p~~f~dv~~g~e~~~~~~~S~~N~~E 622 (824)
|.+|||++|.|.++.|..|-...-. +...+..... . .........++.++.. .... . .... .-..+
T Consensus 362 L~~NyRS~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~-~~~~-~--~~~~-~~~~~ 436 (1087)
T TIGR00609 362 LGTNWRSTPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTT-EVES-E--GVDD-YRQTI 436 (1087)
T ss_pred CCCCCCCcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeec-CCcc-c--ccch-HHHHH
Confidence 9999999999999999988532110 0000100000 0 0001111235555544 2111 0 0011 12345
Q ss_pred HHHHHHHHHHHHHhC------------CCCCCCCeEEEEcCcHHHHHHHHHHHh
Q 003388 623 VDFVLLLFHKLISMY------------PQLKSSSQLAIISPYRHQVKQFQERFK 664 (824)
Q Consensus 623 a~~v~~lv~~L~~~~------------~~~~~~~~IgIItpY~~Q~~~i~~~l~ 664 (824)
|+.+..-+..++... ......++|+|++.-+.|...|++.|.
T Consensus 437 a~~~a~~I~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~ 490 (1087)
T TIGR00609 437 AQKCAREIALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALK 490 (1087)
T ss_pred HHHHHHHHHHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHH
Confidence 566666666655432 012346799999999988888888876
No 27
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.76 E-value=3.4e-18 Score=205.71 Aligned_cols=158 Identities=18% Similarity=0.190 Sum_probs=99.5
Q ss_pred hhcCCCcCEEEEcCCCCCCchhh-Hh-hhhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcC--CCCcccc
Q 003388 478 SKLNHGFDVVIIDEAAQAVEPAT-LV-PLATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAG--YPVKMLK 553 (824)
Q Consensus 478 ~~~~~~fd~vIIDEAsq~~e~~~-li-pL~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~--~~~~~L~ 553 (824)
..+..+|++|+|||+++....+. |+ .|......+++|||+.| ......|-....+.++.+.- .+++.|.
T Consensus 208 ~~~~~rf~~iLvDE~QDtn~~Q~~ll~~la~~~~~l~~VGD~dQ-------sIY~frGA~~~ni~~f~~df~~~~~i~Le 280 (655)
T COG0210 208 EALQARFRYILVDEFQDTNPLQYELLKLLAGNAANLFVVGDDDQ-------SIYGFRGADPENILDFEKDFPAAKVIKLE 280 (655)
T ss_pred HHHHhhCCEEEEeCcCCCCHHHHHHHHHHhCCCCCEEEEcCCcc-------ccceeCCCChHHHHHHHhhCCCCcEEEec
Confidence 33346899999999999766552 33 33444467889999999 33346677777777777653 3689999
Q ss_pred cccccChhhhhccchhhccccccCCCCcccccccCcCc-cCCCCCeEEEEcCCCcccccCCCCCcccHHHHHHHHHHHHH
Q 003388 554 TQYRMHPEVRSFPSREFYDEALEDGSDVEDYTTRDWHE-YRCFGPFSFFDIHEGKESQPAGSGSWINIDEVDFVLLLFHK 632 (824)
Q Consensus 554 ~qYRm~p~I~~f~s~~fY~~~L~~~~~~~~~~~~~~~~-~~~~~p~~f~dv~~g~e~~~~~~~S~~N~~Ea~~v~~lv~~ 632 (824)
.|||+.+.|....|...=.+.-.. ....|.. ........++.. .....||..+...+..
T Consensus 281 ~NyRSt~~Il~~An~~i~~n~~r~-------~k~l~~~~~~~~~~~~~~~~-------------~~~~~ea~~i~~~I~~ 340 (655)
T COG0210 281 QNYRSTPNILAAANKVIANNKKRQ-------AKTLRTEVEGSGEKVVLLLA-------------NDEEDEARWIASEIDA 340 (655)
T ss_pred CCCCCcHHHHHHHHHHHhcCCccC-------CCcceeccCCCCCCceEEeC-------------CChHHHHHHHHHHHHH
Confidence 999999999999999775221111 1112222 111112222222 2356688888888888
Q ss_pred HHHhCCCCCCCCeEEEEcCcHHHHHHHHHHHh
Q 003388 633 LISMYPQLKSSSQLAIISPYRHQVKQFQERFK 664 (824)
Q Consensus 633 L~~~~~~~~~~~~IgIItpY~~Q~~~i~~~l~ 664 (824)
+...++ ....+++|+...+.|...+...|.
T Consensus 341 l~~~~~--~~~~d~aiL~R~n~~s~~~e~~l~ 370 (655)
T COG0210 341 LIEIGK--VNYSDIAILYRTNAQSRLIEEALR 370 (655)
T ss_pred HHHcCC--CChhhEEEEEecCcchHHHHHHHH
Confidence 877653 234566666665555555555443
No 28
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.70 E-value=2.8e-16 Score=196.19 Aligned_cols=171 Identities=23% Similarity=0.289 Sum_probs=117.7
Q ss_pred cCCCHHHHHHHHHhhc-CCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCC
Q 003388 255 ENHNASQLEAIHEGLL-RKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASP 333 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~-~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 333 (824)
..||+.|++||..+|. .+.|++|+|+||||||+++..++..+-...
T Consensus 834 ~~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~--------------------------------- 880 (1623)
T PRK14712 834 EKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLP--------------------------------- 880 (1623)
T ss_pred cccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHh---------------------------------
Confidence 4799999999999986 467999999999999999988876653210
Q ss_pred cccCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEE
Q 003388 334 WLVGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRI 413 (824)
Q Consensus 334 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRi 413 (824)
...+.+|+.+|||+.|+.+|.. .|+
T Consensus 881 ------------------------------------e~~g~~V~glAPTgkAa~~L~e----~Gi--------------- 905 (1623)
T PRK14712 881 ------------------------------------ESERPRVVGLGPTHRAVGEMRS----AGV--------------- 905 (1623)
T ss_pred ------------------------------------hccCceEEEEechHHHHHHHHH----hCc---------------
Confidence 0013589999999999998843 233
Q ss_pred ecCCCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEcCCC
Q 003388 414 GLKAHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAA 493 (824)
Q Consensus 414 g~~~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAs 493 (824)
...+++.++... . .+. ..+. ......+++||||||
T Consensus 906 --------~A~TIasfL~~~-----------------------------~-~~~---~~~~----~~~~~~~llIVDEAS 940 (1623)
T PRK14712 906 --------DAQTLASFLHDT-----------------------------Q-LQQ---RSGE----TPDFSNTLFLLDESS 940 (1623)
T ss_pred --------hHhhHHHHhccc-----------------------------c-chh---hccc----CCCCCCcEEEEEccc
Confidence 122333332110 0 000 0000 001246999999999
Q ss_pred CCCchhh--Hhhhhc-cCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc-CCCCcccccccccChhhhhccch
Q 003388 494 QAVEPAT--LVPLAT-GCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA-GYPVKMLKTQYRMHPEVRSFPSR 568 (824)
Q Consensus 494 q~~e~~~--lipL~~-~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~-~~~~~~L~~qYRm~p~I~~f~s~ 568 (824)
|+..... |+-+.. ...++|||||+.||||+- ..+.|.-|+.. +.++..|++.+|-.+++...+..
T Consensus 941 MV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~----------aG~~F~~lq~~~~~~ta~L~eI~RQ~~elr~AV~~ 1009 (1623)
T PRK14712 941 MVGNTDMARAYALIAAGGGRAVASGDTDQLQAIA----------PGQPFRLQQTRSAADVVIMKEIVRQTPELREAVYS 1009 (1623)
T ss_pred cccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCC----------CCHHHHHHHHcCCCCeEEeCeeecCCHHHHHHHHH
Confidence 9876553 333332 347899999999999973 34678888876 67899999999998886666544
No 29
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.70 E-value=3.5e-16 Score=198.08 Aligned_cols=176 Identities=22% Similarity=0.306 Sum_probs=116.9
Q ss_pred cCCCHHHHHHHHHhhcC-CCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCC
Q 003388 255 ENHNASQLEAIHEGLLR-KAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASP 333 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~-~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 333 (824)
..||+.|++||..++.. ..+++|+|+||||||+++..++..+-...
T Consensus 966 ~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~--------------------------------- 1012 (1747)
T PRK13709 966 EGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLP--------------------------------- 1012 (1747)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhh---------------------------------
Confidence 46999999999999974 57999999999999999988876653210
Q ss_pred cccCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEE
Q 003388 334 WLVGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRI 413 (824)
Q Consensus 334 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRi 413 (824)
...+.+|+.||||+.|+.+|.+ .|+
T Consensus 1013 ------------------------------------~~~~~~V~glAPTgrAAk~L~e----~Gi--------------- 1037 (1747)
T PRK13709 1013 ------------------------------------ESERPRVVGLGPTHRAVGEMRS----AGV--------------- 1037 (1747)
T ss_pred ------------------------------------cccCceEEEECCcHHHHHHHHh----cCc---------------
Confidence 0013589999999999987643 333
Q ss_pred ecCCCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEcCCC
Q 003388 414 GLKAHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAA 493 (824)
Q Consensus 414 g~~~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAs 493 (824)
...+++.++.. ... +. ..+. ......+++||||||
T Consensus 1038 --------~A~TI~s~L~~-----------------------------~~~-~~---~~~~----~~~~~~~llIVDEaS 1072 (1747)
T PRK13709 1038 --------DAQTLASFLHD-----------------------------TQL-QQ---RSGE----TPDFSNTLFLLDESS 1072 (1747)
T ss_pred --------chhhHHHHhcc-----------------------------ccc-cc---cccc----CCCCCCcEEEEEccc
Confidence 12344433211 000 00 0000 011245999999999
Q ss_pred CCCchhh--Hhhhhc-cCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHH-cCCCCcccccccccChhhhhccchh
Q 003388 494 QAVEPAT--LVPLAT-GCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQR-AGYPVKMLKTQYRMHPEVRSFPSRE 569 (824)
Q Consensus 494 q~~e~~~--lipL~~-~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~-~~~~~~~L~~qYRm~p~I~~f~s~~ 569 (824)
|+..... |+-+.. ...++|||||+.||||+- ....|.-|+. .+.++..|++.+|-.+.+... ...
T Consensus 1073 Mv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~----------aG~~f~~l~~~~~i~~~~L~eI~RQ~~~lr~A-v~~ 1141 (1747)
T PRK13709 1073 MVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIA----------PGQPFRLMQTRSAADVAIMKEIVRQTPELREA-VYS 1141 (1747)
T ss_pred cccHHHHHHHHHhhhcCCCEEEEecchHhcCCCC----------CChHHHHHHHhCCCCeEEeCeEEcCcHHHHHH-HHH
Confidence 9865543 333232 346899999999999973 2267888876 468899999999998743333 334
Q ss_pred hcccc
Q 003388 570 FYDEA 574 (824)
Q Consensus 570 fY~~~ 574 (824)
+..|+
T Consensus 1142 ~~~g~ 1146 (1747)
T PRK13709 1142 LINRD 1146 (1747)
T ss_pred HHccC
Confidence 55443
No 30
>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=99.58 E-value=1e-14 Score=189.80 Aligned_cols=166 Identities=22% Similarity=0.288 Sum_probs=110.3
Q ss_pred cCCCHHHHHHHHHhhc-CCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCC
Q 003388 255 ENHNASQLEAIHEGLL-RKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASP 333 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~-~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 333 (824)
..||+.|++||..++. ...+++|+|+||||||+++..++..+....
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~--------------------------------- 1064 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAF--------------------------------- 1064 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHH---------------------------------
Confidence 4699999999999885 457999999999999999987776665421
Q ss_pred cccCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEE
Q 003388 334 WLVGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRI 413 (824)
Q Consensus 334 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRi 413 (824)
...+.+|+.+|||+.|+.+|.. .|+.
T Consensus 1065 ------------------------------------~~~g~~v~glApT~~Aa~~L~~----~g~~-------------- 1090 (1960)
T TIGR02760 1065 ------------------------------------ESEQLQVIGLAPTHEAVGELKS----AGVQ-------------- 1090 (1960)
T ss_pred ------------------------------------HhcCCeEEEEeChHHHHHHHHh----cCCc--------------
Confidence 0013589999999999998853 3431
Q ss_pred ecCCCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhcCCCcCEEEEcCCC
Q 003388 414 GLKAHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAA 493 (824)
Q Consensus 414 g~~~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAs 493 (824)
..+++.++.. ... +. ...-....+++|||||+
T Consensus 1091 ---------a~Ti~s~l~~-----------------------------~~~--------~~--~~~~~~~~~v~ivDEas 1122 (1960)
T TIGR02760 1091 ---------AQTLDSFLTD-----------------------------ISL--------YR--NSGGDFRNTLFILDESS 1122 (1960)
T ss_pred ---------hHhHHHHhcC-----------------------------ccc--------cc--ccCCCCcccEEEEEccc
Confidence 1233332110 000 00 00001246899999999
Q ss_pred CCCchhh--Hhhhh-ccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcC-CCCcccccccccC--hhhhhc
Q 003388 494 QAVEPAT--LVPLA-TGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAG-YPVKMLKTQYRMH--PEVRSF 565 (824)
Q Consensus 494 q~~e~~~--lipL~-~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~-~~~~~L~~qYRm~--p~I~~f 565 (824)
++..... |+-+. ....++|||||+.||||+- .+ ..|+-++..+ .+...|+..+|-. |.+...
T Consensus 1123 Mv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~---------aG-~~f~~~~~~~~~~~~~L~~I~RQ~~~~~l~~a 1190 (1960)
T TIGR02760 1123 MVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLA---------AG-KPFELAITFDIIDTAIMKEIVRQNNSAELKAA 1190 (1960)
T ss_pred cccHHHHHHHHHhccCCCCEEEEeCChhhcCCCC---------CC-cCHHHHHhcCCCCeEEeeeEecCCCCHHHHHH
Confidence 9866543 33222 3447899999999999962 22 3455565544 7889999999993 555443
No 31
>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=99.56 E-value=1.4e-14 Score=151.62 Aligned_cols=49 Identities=18% Similarity=0.268 Sum_probs=38.0
Q ss_pred EEecCCCCCCccccEEEEEeeecCCCCccccc-CCCCeeEeeeecccceEEEE
Q 003388 676 DITTVDGCQGREKDVAIFSCVRASDKKSIGFL-ADYRRMNVGITRAKSSILVV 727 (824)
Q Consensus 676 ~V~TVd~fQG~E~diVIlS~vrs~~~~~igfl-~d~rrlNVAlTRAk~~LiIv 727 (824)
.+.|++.+||.|+|.|++-..... ..... .++++++|||||||+.|+|+
T Consensus 184 ~~~T~~e~qG~tf~~V~l~~~~~~---~~~~~~~~~~~~~VALTR~~~~l~i~ 233 (234)
T PF01443_consen 184 RVFTVHESQGLTFDNVTLVLLSDT---DNELYSESRNHLYVALTRHTKSLVIL 233 (234)
T ss_pred ceechHHcceEEeCCEEEEECCCc---ccccccCCcccEEEEccccccEEEEE
Confidence 599999999999999887443221 12223 36899999999999999986
No 32
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.55 E-value=1.6e-14 Score=181.51 Aligned_cols=187 Identities=19% Similarity=0.214 Sum_probs=116.1
Q ss_pred hhhHHhhcCCCcCEEEEcCCCCCCchh--hHhhhhcc----CceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHH--
Q 003388 473 GSALLSKLNHGFDVVIIDEAAQAVEPA--TLVPLATG----CKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQR-- 544 (824)
Q Consensus 473 ~~~~~~~~~~~fd~vIIDEAsq~~e~~--~lipL~~~----~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~-- 544 (824)
+..+...+...|++|+|||+++....+ .+-.|... ...++||||||| ......|-+..+|.....
T Consensus 368 ~~~l~~~lr~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQ-------SIY~FRgAD~~~f~~a~~~~ 440 (1139)
T COG1074 368 GEELAESLREQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQ-------SIYRFRGADIFTFLEAASSE 440 (1139)
T ss_pred cHHHHHHHHhcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchH-------HhhhhcCCChHHHHHHhhcc
Confidence 455666677889999999999965444 33344433 348999999999 667778888899988887
Q ss_pred cCCCCcccccccccChhhhhccchhhcccc-ccC----CCCccccc---ccCcCccCCCCCeE-EEEcC-CCcccccCCC
Q 003388 545 AGYPVKMLKTQYRMHPEVRSFPSREFYDEA-LED----GSDVEDYT---TRDWHEYRCFGPFS-FFDIH-EGKESQPAGS 614 (824)
Q Consensus 545 ~~~~~~~L~~qYRm~p~I~~f~s~~fY~~~-L~~----~~~~~~~~---~~~~~~~~~~~p~~-f~dv~-~g~e~~~~~~ 614 (824)
.....+.|.+|||+.|++.++.|..|-.-. ... ........ ..++.......|.. +.... ++........
T Consensus 441 ~~~~~~~L~~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~ 520 (1139)
T COG1074 441 KAFARITLETNYRSTPELLNAVNALFKQAMFAYPGEIDYDPVAELGARNGSPGSVNGEPLPALKFWEEEDDWTAPENEED 520 (1139)
T ss_pred ccCceeecccccCCcHHHHHHHHHHHhhhhhhcCCCCCCchhhhhhcccCCCCCCCcccchhhhhhcCcccccCCCCchh
Confidence 456778999999999999999999985311 111 00111100 01111111111111 11110 0000000001
Q ss_pred CCcccHHHHHHHHHHHHHHHHhCC-----CCCCCCeEEEEcCcHHHHHHHHHHHhhh
Q 003388 615 GSWINIDEVDFVLLLFHKLISMYP-----QLKSSSQLAIISPYRHQVKQFQERFKET 666 (824)
Q Consensus 615 ~S~~N~~Ea~~v~~lv~~L~~~~~-----~~~~~~~IgIItpY~~Q~~~i~~~l~~~ 666 (824)
.......||..|...+..+..... .....++|+|++.-+.+...|+++|++.
T Consensus 521 ~~~~~~~~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~~~ 577 (1139)
T COG1074 521 EREIADLEARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALKKA 577 (1139)
T ss_pred HHHHHHHHHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHHhc
Confidence 134456677788887777775321 2345789999999999999999988754
No 33
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.54 E-value=5.1e-14 Score=174.19 Aligned_cols=159 Identities=19% Similarity=0.265 Sum_probs=100.2
Q ss_pred HhhcCCCcCEEEEcCCCCCCchh--hHhhhhc----c-----CceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc
Q 003388 477 LSKLNHGFDVVIIDEAAQAVEPA--TLVPLAT----G-----CKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA 545 (824)
Q Consensus 477 ~~~~~~~fd~vIIDEAsq~~e~~--~lipL~~----~-----~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~ 545 (824)
...+...|++|+|||++++...+ .+.+|.. + .+.+++|||++| ......|-+..+|.++...
T Consensus 322 ~~~l~~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQ-------SIY~FRGA~~~~f~~~~~~ 394 (910)
T PRK13909 322 YFRLDSKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQ-------SIYRFRGGKKELFDKVSKD 394 (910)
T ss_pred HHHHhcCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchh-------hhhhhcCCChHHHHHHHHH
Confidence 34456789999999999987766 3455531 1 357999999999 4555666677889888653
Q ss_pred C-CCCcccccccccChhhhhccchhhccccccCCCCcccccccCcCccCCCCCeEEEEcCCCcccccCCCCCcccHHHHH
Q 003388 546 G-YPVKMLKTQYRMHPEVRSFPSREFYDEALEDGSDVEDYTTRDWHEYRCFGPFSFFDIHEGKESQPAGSGSWINIDEVD 624 (824)
Q Consensus 546 ~-~~~~~L~~qYRm~p~I~~f~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~p~~f~dv~~g~e~~~~~~~S~~N~~Ea~ 624 (824)
- .....|++|||++|.|.+|.|..|-.. ......... . .....+.+.+... .. ....+++
T Consensus 395 ~~~~~~~L~~NyRS~~~Iv~~~N~~f~~~-~~~~~~~~~--~----~~~~~g~v~i~~~-~~-----------~~~~~a~ 455 (910)
T PRK13909 395 FKQKVDNLDTNYRSAPLIVDFVNEVFKKK-YKNYKTQYA--E----QHKSGGYVEVVEV-AD-----------ESEELLE 455 (910)
T ss_pred hhhhhcccccCCCCChHHHHHHHHHHHHH-HHhhhhhhc--c----cccCCCcEEEEEC-CC-----------ccHHHHH
Confidence 1 146789999999999999999988431 110000000 0 0001122222221 10 1233577
Q ss_pred HHHHHHHHHHHhCCCCCCCCeEEEEcCcHHHHHHHHHHHh
Q 003388 625 FVLLLFHKLISMYPQLKSSSQLAIISPYRHQVKQFQERFK 664 (824)
Q Consensus 625 ~v~~lv~~L~~~~~~~~~~~~IgIItpY~~Q~~~i~~~l~ 664 (824)
.++..+..++..+ ...++|+|+++.+.|...+.+.|.
T Consensus 456 ~ia~~I~~l~~~g---~~~~dIaILvR~~~~~~~l~~~L~ 492 (910)
T PRK13909 456 QLLQEIQFLLEKG---IDPDDIAILCWTNDDALEIKEFLQ 492 (910)
T ss_pred HHHHHHHHHHHcC---CCcCCEEEEEecCccHHHHHHHHH
Confidence 7788777777653 346789999887766666655554
No 34
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.53 E-value=8.5e-14 Score=154.90 Aligned_cols=205 Identities=20% Similarity=0.170 Sum_probs=134.7
Q ss_pred CCcCEEEEcCCCCCCchhhHhhhh--ccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc----CCCCcccccc
Q 003388 482 HGFDVVIIDEAAQAVEPATLVPLA--TGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA----GYPVKMLKTQ 555 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~~lipL~--~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~----~~~~~~L~~q 555 (824)
..+.++|||||++.. +..+..+. ..|..+..|||-.|- +. ..+. ..+.++|+... .+..+.|..+
T Consensus 527 ~~~kh~vIDeaqdys-~~q~~~~r~l~~~as~tivgd~gq~---i~-~~~~----e~~~~e~~~~~fed~~~e~v~l~~s 597 (747)
T COG3973 527 RRLKHTVIDEAQDYS-RFQFTDNRTLAERASMTIVGDYGQV---IY-DEAQ----ELSPMERMDVFFEDPSFEYVGLIAS 597 (747)
T ss_pred ccccceeechhhhcc-hhhhHHHhhhhhhccceEeccCCce---eh-hhhc----ccCHHHHHHHHHhCCCchhhhhhhh
Confidence 468899999999864 44444443 356789999999992 21 1111 23556665432 2557889999
Q ss_pred cccChhhhhccchhhccccccCCCCcccccccCcCccCCCCCeEEEEcCCCcccccCCCCCcccHHHHHHHHHHHHHHHH
Q 003388 556 YRMHPEVRSFPSREFYDEALEDGSDVEDYTTRDWHEYRCFGPFSFFDIHEGKESQPAGSGSWINIDEVDFVLLLFHKLIS 635 (824)
Q Consensus 556 YRm~p~I~~f~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~p~~f~dv~~g~e~~~~~~~S~~N~~Ea~~v~~lv~~L~~ 635 (824)
||+..+|.+|+|.+.-+ ..+.. |... ..-.|.... +..|..=.+.+-+++..|.+
T Consensus 598 yrSt~eI~efan~~l~d--~~~~~--------p~~r-sge~p~~i~--------------~~~ne~l~qr~~~ii~~mkk 652 (747)
T COG3973 598 YRSTAEIDEFANSLLPD--RFRIH--------PLTR-SGEKPAVIM--------------SVANEELVQRNPDIIPRMKK 652 (747)
T ss_pred hcChHHHHHHHHHhccC--CCccc--------hhhc-CCCCceeee--------------ccchHHHHHhhHHHHHHHHh
Confidence 99999999999986532 11100 0000 001122221 22355445556666777776
Q ss_pred hCCCCCCCCeEEEEcCcHHHHHHHHHHHhhh--------hCCCCCcceEEecCCCCCCccccEEEEEeeecCCCCccccc
Q 003388 636 MYPQLKSSSQLAIISPYRHQVKQFQERFKET--------FGVESQKVVDITTVDGCQGREKDVAIFSCVRASDKKSIGFL 707 (824)
Q Consensus 636 ~~~~~~~~~~IgIItpY~~Q~~~i~~~l~~~--------~~~~~~~~v~V~TVd~fQG~E~diVIlS~vrs~~~~~igfl 707 (824)
.+ .+.|||||+-..|+..+-..|+.. .+..-..+..|--|+-.+|.|+|.||+--.- .. . .--
T Consensus 653 ~~-----~etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s-~~-e--~te 723 (747)
T COG3973 653 RG-----SETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPS-IV-E--ETE 723 (747)
T ss_pred cC-----CCceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecch-hh-c--ccc
Confidence 64 578999999999999999988743 1122245677899999999999988873221 10 0 113
Q ss_pred CCCCeeEeeeecccceEEEEec
Q 003388 708 ADYRRMNVGITRAKSSILVVGC 729 (824)
Q Consensus 708 ~d~rrlNVAlTRAk~~LiIvG~ 729 (824)
.+.|.||||+|||-+.|+|+|-
T Consensus 724 ~~~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 724 QDLRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred cchhhHHHHHHHHHHHHHHhhc
Confidence 4678999999999999999875
No 35
>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=99.44 E-value=1.1e-12 Score=166.51 Aligned_cols=90 Identities=26% Similarity=0.383 Sum_probs=68.2
Q ss_pred HHhhcCCCcCEEEEcCCCCCCchh--hHhhhhcc-----------CceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHH
Q 003388 476 LLSKLNHGFDVVIIDEAAQAVEPA--TLVPLATG-----------CKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRL 542 (824)
Q Consensus 476 ~~~~~~~~fd~vIIDEAsq~~e~~--~lipL~~~-----------~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl 542 (824)
....+...|++|+|||++++...+ .+.+|... .+.+++|||++| ......|-+..+|.++
T Consensus 384 v~~~l~~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQ-------SIY~FRGAd~~~f~~~ 456 (1141)
T TIGR02784 384 VHYKLDRGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQ-------SIYSFQGADPDRFAEE 456 (1141)
T ss_pred HHHHHHcCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcc-------cCccccCCCHHHHHHH
Confidence 344556789999999999987766 44455431 367999999999 4555667778888776
Q ss_pred HHc----------CCCCcccccccccChhhhhccchhhcc
Q 003388 543 QRA----------GYPVKMLKTQYRMHPEVRSFPSREFYD 572 (824)
Q Consensus 543 ~~~----------~~~~~~L~~qYRm~p~I~~f~s~~fY~ 572 (824)
... ......|++|||++++|.++.|..|-.
T Consensus 457 ~~~~~~~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~ 496 (1141)
T TIGR02784 457 RREFNRKVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFAD 496 (1141)
T ss_pred HHHHHHhhhhccCCceEeeCCcCCCChHHHHHHHHHHHhC
Confidence 431 123578999999999999999999965
No 36
>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=99.42 E-value=5.1e-13 Score=145.78 Aligned_cols=57 Identities=26% Similarity=0.450 Sum_probs=39.6
Q ss_pred CCCcCEEEEcCCCCCCchhh--HhhhhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHH
Q 003388 481 NHGFDVVIIDEAAQAVEPAT--LVPLATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQR 544 (824)
Q Consensus 481 ~~~fd~vIIDEAsq~~e~~~--lipL~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~ 544 (824)
...|++|+||||++.+..+. |-.|.....++++|||++| ......|-+.++|..+.+
T Consensus 254 ~~~~~~i~IDE~QD~s~~Q~~il~~l~~~~~~~~~vGD~~Q-------sIY~frga~~~~~~~~~~ 312 (315)
T PF00580_consen 254 RQRYDHILIDEFQDTSPLQLRILKKLFKNPENLFIVGDPNQ-------SIYGFRGADPELFEEFKE 312 (315)
T ss_dssp HHHSSEEEESSGGG-BHHHHHHHHHHHTTTTTEEEEE-GGG---------GGGGTB-THHHHHHHH
T ss_pred HhhCCeEEeEccccCCHHHHHHHHHHHHhhceeEEeCCCCc-------ceeecCCCCHHHHHHHHh
Confidence 35799999999999887763 3334445557999999999 455677788888887764
No 37
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.42 E-value=1.2e-12 Score=164.82 Aligned_cols=177 Identities=12% Similarity=0.133 Sum_probs=101.9
Q ss_pred HHhhcCCCcCEEEEcCCCCCCchhh--Hhhhhc--cCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcCCCCcc
Q 003388 476 LLSKLNHGFDVVIIDEAAQAVEPAT--LVPLAT--GCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAGYPVKM 551 (824)
Q Consensus 476 ~~~~~~~~fd~vIIDEAsq~~e~~~--lipL~~--~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~~~~~~ 551 (824)
+...+...|++|+|||++++...+. +..|.. ....+++||||+| .|+ ...|-+...|-.........+.
T Consensus 370 ~~~~~~~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQ---sIY----~FRGAd~~~~l~~~~~~~~~~~ 442 (1181)
T PRK10876 370 LAAAIRTRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQ---AIY----AFRGADIFTYMKARSEVSAHYT 442 (1181)
T ss_pred HHHHHHhCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCcc---ccc----cCCCCCchHHHHHHhccCCeeE
Confidence 4445567899999999999877662 333432 2357999999999 332 3344444334333322234578
Q ss_pred cccccccChhhhhccchhhcccccc------CCCCcccc--cc-cCcC-ccCCCCCeEEEEcCCCcccccCCCCCcccHH
Q 003388 552 LKTQYRMHPEVRSFPSREFYDEALE------DGSDVEDY--TT-RDWH-EYRCFGPFSFFDIHEGKESQPAGSGSWINID 621 (824)
Q Consensus 552 L~~qYRm~p~I~~f~s~~fY~~~L~------~~~~~~~~--~~-~~~~-~~~~~~p~~f~dv~~g~e~~~~~~~S~~N~~ 621 (824)
|.+|||++++|.++.|.+|-...-. +...+... .. ..+. ......++.++.. .+.. .+.......
T Consensus 443 L~~NyRS~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~-~~~~----~~~~~~~~~ 517 (1181)
T PRK10876 443 LDTNWRSAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLM-EGEG----VGVGDYQQT 517 (1181)
T ss_pred CCCCcCcCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeec-CCCc----cCcchHHHH
Confidence 9999999999999999988643210 00000000 00 0000 0000112333322 2211 011223456
Q ss_pred HHHHHHHHHHHHHHhCC------------CCCCCCeEEEEcCcHHHHHHHHHHHh
Q 003388 622 EVDFVLLLFHKLISMYP------------QLKSSSQLAIISPYRHQVKQFQERFK 664 (824)
Q Consensus 622 Ea~~v~~lv~~L~~~~~------------~~~~~~~IgIItpY~~Q~~~i~~~l~ 664 (824)
||..++..+..++..+. .....++|+|+++.+.|...|++.|.
T Consensus 518 eA~~iA~~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~ 572 (1181)
T PRK10876 518 MAQQCAAQIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALT 572 (1181)
T ss_pred HHHHHHHHHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHH
Confidence 78888888877775421 11345799999999888888888775
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=99.35 E-value=5.2e-12 Score=140.63 Aligned_cols=87 Identities=23% Similarity=0.298 Sum_probs=59.2
Q ss_pred CCCcCEEEEcCCCCCCc----------hhhHhhhhccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHc-CCCC
Q 003388 481 NHGFDVVIIDEAAQAVE----------PATLVPLATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRA-GYPV 549 (824)
Q Consensus 481 ~~~fd~vIIDEAsq~~e----------~~~lipL~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~-~~~~ 549 (824)
...||+||||||+.+.+ ...|.-+....+.+|++-|+.| ++.... . .+...++.+... +...
T Consensus 81 ~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q---~i~~~e---~-~~~~~l~~~~~~~~~~~ 153 (352)
T PF09848_consen 81 KNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQ---SIRPSE---I-GTLENLEEIAENLGIEV 153 (352)
T ss_pred CCcCCEEEEehhHhhhhccccccccccHHHHHHHHhcCCEEEEEEcccc---Eeeccc---C-CCHHHHHHHHHhcCCcc
Confidence 35799999999999876 2345555556778999999999 332211 0 112335544432 3222
Q ss_pred ---ccccccccc--Chhhhhccchhhcccc
Q 003388 550 ---KMLKTQYRM--HPEVRSFPSREFYDEA 574 (824)
Q Consensus 550 ---~~L~~qYRm--~p~I~~f~s~~fY~~~ 574 (824)
+.|++|||| .+++.+|+..+++...
T Consensus 154 ~~~~~L~~q~R~~~~~~~~~wI~~ll~~~~ 183 (352)
T PF09848_consen 154 RHFFELKTQFRCHGSKEYIDWIDNLLDNKN 183 (352)
T ss_pred ccCcCcCcceecCCCHHHHHHHHHHHhccc
Confidence 389999999 8999999999887653
No 39
>PF13245 AAA_19: Part of AAA domain
Probab=99.30 E-value=4.6e-12 Score=108.22 Aligned_cols=36 Identities=39% Similarity=0.722 Sum_probs=30.8
Q ss_pred HHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 263 EAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 263 ~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+||..++...++++|+||||||||+|++.++..++.
T Consensus 1 ~av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~ 36 (76)
T PF13245_consen 1 EAVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLA 36 (76)
T ss_pred CHHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 367767765689999999999999999999988874
No 40
>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=99.30 E-value=6.7e-11 Score=154.76 Aligned_cols=168 Identities=16% Similarity=0.128 Sum_probs=109.2
Q ss_pred cCCCHHHHHHHHHhhcC-CCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCC
Q 003388 255 ENHNASQLEAIHEGLLR-KAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASP 333 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~-~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 333 (824)
..||+.|++||..++.. +.+.+|+|+||||||+++..++..+-.
T Consensus 428 ~~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~~~~~~----------------------------------- 472 (1960)
T TIGR02760 428 FALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLLHLASE----------------------------------- 472 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHHHHHHh-----------------------------------
Confidence 36999999999998864 689999999999999999988754311
Q ss_pred cccCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEE
Q 003388 334 WLVGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRI 413 (824)
Q Consensus 334 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRi 413 (824)
.+.+|.+||||+.|+..|.+.. |+
T Consensus 473 --------------------------------------~G~~V~~lAPTgrAA~~L~e~~---g~--------------- 496 (1960)
T TIGR02760 473 --------------------------------------QGYEIQIITAGSLSAQELRQKI---PR--------------- 496 (1960)
T ss_pred --------------------------------------cCCeEEEEeCCHHHHHHHHHHh---cc---------------
Confidence 2469999999999998887632 22
Q ss_pred ecCCCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhcC-CCcCEEEEcCC
Q 003388 414 GLKAHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKLN-HGFDVVIIDEA 492 (824)
Q Consensus 414 g~~~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~~-~~fd~vIIDEA 492 (824)
...+++.+...... . .-..|..+... .... ..-++||||||
T Consensus 497 --------~A~Ti~~~l~~l~~--------------------------~-~~~~tv~~fl~---~~~~l~~~~vlIVDEA 538 (1960)
T TIGR02760 497 --------LASTFITWVKNLFN--------------------------D-DQDHTVQGLLD---KSSPFSNKDIFVVDEA 538 (1960)
T ss_pred --------hhhhHHHHHHhhcc--------------------------c-ccchhHHHhhc---ccCCCCCCCEEEEECC
Confidence 11233333211000 0 00011100000 0011 24699999999
Q ss_pred CCCCchhhHhhh--h-ccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcCCCCcccccccccChh
Q 003388 493 AQAVEPATLVPL--A-TGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAGYPVKMLKTQYRMHPE 561 (824)
Q Consensus 493 sq~~e~~~lipL--~-~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~~~~~~L~~qYRm~p~ 561 (824)
+++....+.-.+ . ....++|||||+.|||++- ..+.|.-|...|.+++.|+..-|....
T Consensus 539 sMl~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~----------aG~~f~~L~~~gv~t~~l~~i~rq~~~ 600 (1960)
T TIGR02760 539 NKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMS----------AGSAIDLLKEGGVTTYAWVDTKQQKAS 600 (1960)
T ss_pred CCCCHHHHHHHHHHHhhcCCEEEEEcChhhcCccc----------cchHHHHHHHCCCcEEEeecccccCcc
Confidence 998766543333 2 3457999999999999863 235677777778887777765554333
No 41
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.20 E-value=1.8e-11 Score=148.39 Aligned_cols=55 Identities=20% Similarity=0.225 Sum_probs=45.8
Q ss_pred eEEecCCCCCCccccEEEEEeeecCCCCcccccCCCCeeEeeeecccceEEEEecCccccC
Q 003388 675 VDITTVDGCQGREKDVAIFSCVRASDKKSIGFLADYRRMNVGITRAKSSILVVGCASTLRE 735 (824)
Q Consensus 675 v~V~TVd~fQG~E~diVIlS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L~~ 735 (824)
-.+.|||++||+|+|.||+...+ .. -+-++..+|||+||||..++++|+...|+.
T Consensus 622 ayA~TIHKsQGSef~~v~v~l~~-~~-----~~l~r~l~YtAiTRar~~l~l~~~~~~~~~ 676 (696)
T COG0507 622 AYAMTIHKSQGSEFDRVIVLLPS-HS-----PMLSRELLYTAITRARDRLILYGDEKAFAA 676 (696)
T ss_pred heeeeEecccCCCCCeEEEEcCC-Cc-----hhhhhhHHHHHhhhhheeEEEEcChHHHHH
Confidence 34789999999999999998876 21 134678899999999999999999987753
No 42
>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=99.18 E-value=2.6e-11 Score=135.39 Aligned_cols=41 Identities=22% Similarity=0.345 Sum_probs=33.1
Q ss_pred CCCHHHHHHHHHhh-----cCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGL-----LRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l-----~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.||+.|++++..++ .......|.||+|||||++|..++..+
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~ 46 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYL 46 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHh
Confidence 48999999987663 234678999999999999999887554
No 43
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=99.01 E-value=1.5e-10 Score=136.03 Aligned_cols=283 Identities=23% Similarity=0.261 Sum_probs=189.8
Q ss_pred HHhcCCcEEEEcCccchhh-HHhhcCCCcCEEEEcCCCCCCchhhHhhhhc--cCceEEEEcCCCCCCceeeChhhhhcC
Q 003388 457 AILNEAVIVCSTLSFSGSA-LLSKLNHGFDVVIIDEAAQAVEPATLVPLAT--GCKQVFLVGDPVQLPATVISPVAEHLG 533 (824)
Q Consensus 457 ~il~~a~IV~sTls~s~~~-~~~~~~~~fd~vIIDEAsq~~e~~~lipL~~--~~~k~VLVGD~~QLpP~v~s~~~~~~~ 533 (824)
.+.+ .+|++.|.+.+... .+......|.+++.|||++++++..+.||+. ..++++|.||+.||-|.+.+.......
T Consensus 239 ~~~~-Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~~~~ 317 (775)
T KOG1804|consen 239 DLFK-HRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVAREEQA 317 (775)
T ss_pred hhcc-cceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchhhhhhhhhh
Confidence 3444 77888887655432 2333456789999999999999999999763 557999999999999988776655443
Q ss_pred CcCcHHHHHHH----cCCCCcccccccccChhhhhccchhhccccccCCCCcccccccCcCccCCCCCeEEEEcCCCccc
Q 003388 534 YGTSLFKRLQR----AGYPVKMLKTQYRMHPEVRSFPSREFYDEALEDGSDVEDYTTRDWHEYRCFGPFSFFDIHEGKES 609 (824)
Q Consensus 534 ~~~SLferl~~----~~~~~~~L~~qYRm~p~I~~f~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~p~~f~dv~~g~e~ 609 (824)
+. .+..++.. .+-+-+-.+.|||++-.|..|.+..||...........+.. ..+.+.|..|... .+...
T Consensus 318 ~~-~~~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~-----~~rl~~p~~~~~~-~~~~~ 390 (775)
T KOG1804|consen 318 LH-LLLCRLPEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQP-----AHRLHYPLTFSTA-RGEDV 390 (775)
T ss_pred hh-hcccccccccccccCCCcCCccchHHHHHHHHhcchHHHhhcccccccccccc-----ccccccccccccc-ccccc
Confidence 33 22222221 23345778999999999999999999975433322221111 1122457777777 66666
Q ss_pred ccCCCCCcccHHHHHHHHHHHHHHHHhCCCC---CCCCeEEEEcCcHHHHHHHHHHHhhhhCCCCCcceEEecCCCCCCc
Q 003388 610 QPAGSGSWINIDEVDFVLLLFHKLISMYPQL---KSSSQLAIISPYRHQVKQFQERFKETFGVESQKVVDITTVDGCQGR 686 (824)
Q Consensus 610 ~~~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~---~~~~~IgIItpY~~Q~~~i~~~l~~~~~~~~~~~v~V~TVd~fQG~ 686 (824)
....+..++|..|+..++.-++.+.+.++-. .....+|++++|..|+..++..|.+.-|... .-.--.+|.
T Consensus 391 ~~~~~~~~~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~st------Epe~lv~i~ 464 (775)
T KOG1804|consen 391 RAKSSTAWYNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVST------EPELLVPGK 464 (775)
T ss_pred cccchhHHhhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeeccccccc------Ccccccccc
Confidence 6666677888899888888888777554321 1345789999999999999998865433221 111112222
Q ss_pred ccc---EEEEEeeecCC------CCcccccCCCCeeEeeeecccceEEEEecCccccC----CchHHHHHHHHHHcCcEE
Q 003388 687 EKD---VAIFSCVRASD------KKSIGFLADYRRMNVGITRAKSSILVVGCASTLRE----DKHWNNLVKSAEKQDCLF 753 (824)
Q Consensus 687 E~d---iVIlS~vrs~~------~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L~~----~~~w~~li~~~~~~~~~~ 753 (824)
..- .|++++...-- ...-.+--+...+|-|+|||...+-.+|+...+.. ...|.+.+-.+..+..|+
T Consensus 465 ~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y 544 (775)
T KOG1804|consen 465 QFRQPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYY 544 (775)
T ss_pred cccceeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhccccccc
Confidence 222 56665543220 00111222467899999999999999999998865 467888888888877764
No 44
>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=98.81 E-value=7.6e-09 Score=105.05 Aligned_cols=42 Identities=31% Similarity=0.410 Sum_probs=31.8
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..|..|..++.+.+. .+++.+.||+|||||...++....++.
T Consensus 4 p~~~~Q~~~~~al~~-~~~v~~~G~AGTGKT~LA~a~Al~~v~ 45 (205)
T PF02562_consen 4 PKNEEQKFALDALLN-NDLVIVNGPAGTGKTFLALAAALELVK 45 (205)
T ss_dssp --SHHHHHHHHHHHH--SEEEEE--TTSSTTHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHh-CCeEEEECCCCCcHHHHHHHHHHHHHH
Confidence 579999999999884 579999999999999988877655554
No 45
>PRK10536 hypothetical protein; Provisional
Probab=98.80 E-value=1.2e-07 Score=98.98 Aligned_cols=42 Identities=21% Similarity=0.203 Sum_probs=34.7
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
...|..|..++....+ ..+++|.||+|||||++++++....+
T Consensus 58 ~p~n~~Q~~~l~al~~-~~lV~i~G~aGTGKT~La~a~a~~~l 99 (262)
T PRK10536 58 LARNEAQAHYLKAIES-KQLIFATGEAGCGKTWISAAKAAEAL 99 (262)
T ss_pred cCCCHHHHHHHHHHhc-CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 4689999999986655 57999999999999999988766433
No 46
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=98.68 E-value=1.4e-07 Score=103.74 Aligned_cols=244 Identities=18% Similarity=0.219 Sum_probs=124.0
Q ss_pred CCcCEEEEcCCCCCCchhhHhhhh----ccCceEEEEcCCCCC-CceeeChhhhhcCCcCcH--HHHHHHcCCCCccccc
Q 003388 482 HGFDVVIIDEAAQAVEPATLVPLA----TGCKQVFLVGDPVQL-PATVISPVAEHLGYGTSL--FKRLQRAGYPVKMLKT 554 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~~lipL~----~~~~k~VLVGD~~QL-pP~v~s~~~~~~~~~~SL--ferl~~~~~~~~~L~~ 554 (824)
.-+|+|+|||+++- |+.++-|+ ...+++|.++|.-|= .-+-+-+.+.-+|-...- -..|.+..-.-..|..
T Consensus 294 ~~yD~ilIDE~QDF--P~~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~ppe~iFg~d~dg~P~V~l~radr~DiVL~k 371 (660)
T COG3972 294 KAYDYILIDESQDF--PQSFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRPPEEIFGPDSDGEPRVNLARADRNDIVLKK 371 (660)
T ss_pred ccccEEEecccccC--CHHHHHHHHHHhcCcceEEEehHhhhcccccCCCCHHHhcCcCCCCCcccccccCccccchHHH
Confidence 46899999999985 77666554 356899999999992 111000111111111000 0000011111267888
Q ss_pred ccccChhhhhccch---hhccccccCCCCcccccccCcCcc-------------------CCCCCeEEEEcCCCcccccC
Q 003388 555 QYRMHPEVRSFPSR---EFYDEALEDGSDVEDYTTRDWHEY-------------------RCFGPFSFFDIHEGKESQPA 612 (824)
Q Consensus 555 qYRm~p~I~~f~s~---~fY~~~L~~~~~~~~~~~~~~~~~-------------------~~~~p~~f~dv~~g~e~~~~ 612 (824)
-||..|...-++-. -.|.+-++--.. ...|... .......|++. .+......
T Consensus 372 CYRnsp~nLvaAHaLGfG~ysnlVqlfd~-----p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl~e-~~~p~~i~ 445 (660)
T COG3972 372 CYRNSPKNLVAAHALGFGLYSNLVQLFDK-----PPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFLPE-NHKPTAIH 445 (660)
T ss_pred HhcCCchhhhHHhhccchhhhHHHHHhcC-----chhhhhcCceeecccccCCCceeeccCcccCcccccc-cCChhhhh
Confidence 99987765444322 123332111000 0111110 00011123322 11111000
Q ss_pred C-CCCcccHHHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCcH----HHHHHHHHHHhhh----h--CC--------CCCc
Q 003388 613 G-SGSWINIDEVDFVLLLFHKLISMYPQLKSSSQLAIISPYR----HQVKQFQERFKET----F--GV--------ESQK 673 (824)
Q Consensus 613 ~-~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~~IgIItpY~----~Q~~~i~~~l~~~----~--~~--------~~~~ 673 (824)
. -++-.-+.|+..|+.-+..+... ++ ...+|.||.+-. .-...|.+.|..+ . +. ....
T Consensus 446 ~fi~fd~~~deivwi~~qI~~~~ed--eL-e~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~dg 522 (660)
T COG3972 446 LFIGFDNGPDEIVWIIIQIKEFRED--EL-EQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQDG 522 (660)
T ss_pred eeeccCCcchhhHHHHHHHHHhccc--cc-ccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccccCc
Confidence 0 01111245777766655553332 23 468899988632 2333333334321 1 10 0112
Q ss_pred ceEEecCCCCCCccccEEEEEeeecCCCCcccccCCCCeeEeeeecccceEEEEecCccccCCchHHHHHHH
Q 003388 674 VVDITTVDGCQGREKDVAIFSCVRASDKKSIGFLADYRRMNVGITRAKSSILVVGCASTLREDKHWNNLVKS 745 (824)
Q Consensus 674 ~v~V~TVd~fQG~E~diVIlS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L~~~~~w~~li~~ 745 (824)
.|.+.+|-+.+|.|+.+|+.-.+..- +.|.-..++-+.+|+||.|.=+=|+|- ++.-.+++..
T Consensus 523 kvtis~IyrAKGnEapfV~aL~a~~l---s~~la~~RN~LfTamTRSkawvrv~gl------gpqmqrLi~e 585 (660)
T COG3972 523 KVTISRIYRAKGNEAPFVYALGAAYL---STGLADWRNILFTAMTRSKAWVRVVGL------GPQMQRLITE 585 (660)
T ss_pred eEEeeeehhccCCCCcEEEEehhhhh---CccchhHHhHHHHHHhhhhhhhhhhcc------ChHHHHHHHH
Confidence 68899999999999999998655432 245455566899999999998888883 4445566554
No 47
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.68 E-value=2.6e-07 Score=92.69 Aligned_cols=43 Identities=33% Similarity=0.254 Sum_probs=35.8
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+++.|.+++...+......+|.||+|||||.+++..+...+
T Consensus 7 ~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~ 49 (201)
T smart00487 7 EPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEAL 49 (201)
T ss_pred CCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHh
Confidence 3589999999999886535899999999999998887766554
No 48
>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=98.64 E-value=1.7e-08 Score=111.55 Aligned_cols=59 Identities=20% Similarity=0.218 Sum_probs=44.0
Q ss_pred CcceEEecCCCCCCccccEEEEEeeecCCCC-------cccccCCCCeeEeeeecccceEEEEecC
Q 003388 672 QKVVDITTVDGCQGREKDVAIFSCVRASDKK-------SIGFLADYRRMNVGITRAKSSILVVGCA 730 (824)
Q Consensus 672 ~~~v~V~TVd~fQG~E~diVIlS~vrs~~~~-------~igfl~d~rrlNVAlTRAk~~LiIvG~~ 730 (824)
...|.|.|||+.+|.|+|+||+..+..+.-. .-.+-++.|.+|||+||||+.|+|++..
T Consensus 285 ~~~V~i~TiH~sKGLEf~~V~v~~~~~~~~p~~~~~~~~~~~~Ee~rl~YVA~TRAk~~L~l~~~~ 350 (351)
T PF13361_consen 285 DDGVQIMTIHKSKGLEFDIVFVPGLNEGTFPSYRSIEDRQELEEERRLFYVAMTRAKERLYLSYPK 350 (351)
T ss_dssp CGSEEEEECGGGTT--EEEEEEETTBTBTTTCHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEEC
T ss_pred ccCcEEeeheeccccCCCeEEEecccCCcChHHHHHhhHhhhHHHHhHheEecchhhceEEEEEec
Confidence 3579999999999999999999776443111 1123356788999999999999999864
No 49
>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=98.61 E-value=3.8e-07 Score=85.96 Aligned_cols=25 Identities=36% Similarity=0.501 Sum_probs=21.5
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..+|.||||||||+++..++..++.
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~ 26 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLD 26 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHh
Confidence 4789999999999999998877653
No 50
>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=98.48 E-value=2.7e-06 Score=83.98 Aligned_cols=39 Identities=33% Similarity=0.296 Sum_probs=31.1
Q ss_pred CHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 258 NASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 258 N~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
++-|.+|+..+++. .-++|.||+|+|||..+...+...+
T Consensus 1 t~~Q~~~~~~i~~~-~~~li~aptGsGKT~~~~~~~l~~~ 39 (169)
T PF00270_consen 1 TPLQQEAIEAIISG-KNVLISAPTGSGKTLAYILPALNRL 39 (169)
T ss_dssp -HHHHHHHHHHHTT-SEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHcC-CCEEEECCCCCccHHHHHHHHHhhh
Confidence 47899999998854 4699999999999998876555444
No 51
>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=98.40 E-value=6.7e-07 Score=89.31 Aligned_cols=42 Identities=31% Similarity=0.385 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHHhhc------CCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGLL------RKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~------~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+|.+.|.+|+..++. ..+..||++|+|||||.+++.++..+.
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~ 50 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA 50 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc
Confidence 578999999998774 257899999999999999998776653
No 52
>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=98.21 E-value=2.7e-05 Score=79.62 Aligned_cols=41 Identities=29% Similarity=0.307 Sum_probs=32.1
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHH-HHHHHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTI-LGLLSAI 296 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti-~~li~~l 296 (824)
..+++.|.+|+...+.. .-++|.+|+|+|||.++ +.++..+
T Consensus 20 ~~~~~~Q~~~~~~~~~~-~~~li~~~TG~GKT~~~~~~~l~~~ 61 (203)
T cd00268 20 EKPTPIQARAIPPLLSG-RDVIGQAQTGSGKTAAFLIPILEKL 61 (203)
T ss_pred CCCCHHHHHHHHHHhcC-CcEEEECCCCCcHHHHHHHHHHHHH
Confidence 35899999999998875 45899999999999874 4444433
No 53
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.12 E-value=3.7e-07 Score=82.96 Aligned_cols=50 Identities=28% Similarity=0.219 Sum_probs=38.3
Q ss_pred ceEEecCCCCCCccccEEEEEeeecCCCCcccccCCCCeeEeeeecccceEEEE
Q 003388 674 VVDITTVDGCQGREKDVAIFSCVRASDKKSIGFLADYRRMNVGITRAKSSILVV 727 (824)
Q Consensus 674 ~v~V~TVd~fQG~E~diVIlS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIv 727 (824)
.+.+.|+|++||.|+|.||+....... .-....|++|||+||||+.|+||
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~~----~~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSSN----FDELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGGS----GCGCHHHHHHHHHTTEEEEEEEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCccc----CCchhhccEEeeHhHhhhhhCCC
Confidence 578999999999999999997765430 11234577999999999999997
No 54
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.12 E-value=3.4e-05 Score=88.68 Aligned_cols=34 Identities=44% Similarity=0.493 Sum_probs=29.2
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~ 290 (824)
.+++-|.+||..++..+. +++++|+|||||.+.+
T Consensus 23 ~p~~iQ~~ai~~~~~g~d-~l~~apTGsGKT~~~~ 56 (434)
T PRK11192 23 RPTAIQAEAIPPALDGRD-VLGSAPTGTGKTAAFL 56 (434)
T ss_pred CCCHHHHHHHHHHhCCCC-EEEECCCCChHHHHHH
Confidence 578999999999997654 9999999999998743
No 55
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.12 E-value=2.5e-05 Score=94.23 Aligned_cols=43 Identities=26% Similarity=0.329 Sum_probs=35.2
Q ss_pred cCCCHHHHHHHHHhhcC--CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLLR--KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~--~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..|++.|.+|+...+.. ...+|++||+|+|||.+.+.++...+
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l 187 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVL 187 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHH
Confidence 36999999999998763 45699999999999998877665554
No 56
>PTZ00424 helicase 45; Provisional
Probab=98.03 E-value=5.6e-05 Score=85.88 Aligned_cols=36 Identities=31% Similarity=0.205 Sum_probs=30.0
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~l 292 (824)
.+|+.|.+||..++.... ++|++|+|||||.+....
T Consensus 50 ~~~~~Q~~ai~~i~~~~d-~ii~apTGsGKT~~~~l~ 85 (401)
T PTZ00424 50 KPSAIQQRGIKPILDGYD-TIGQAQSGTGKTATFVIA 85 (401)
T ss_pred CCCHHHHHHHHHHhCCCC-EEEECCCCChHHHHHHHH
Confidence 589999999999987654 679999999999765443
No 57
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.01 E-value=5.1e-05 Score=88.76 Aligned_cols=41 Identities=27% Similarity=0.242 Sum_probs=33.1
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+.+.|.+||..++... -.+++.|.|+|||.+++.++..++
T Consensus 114 ~~r~~Q~~av~~~l~~~-~~il~apTGsGKT~i~~~l~~~~~ 154 (501)
T PHA02558 114 EPHWYQYDAVYEGLKNN-RRLLNLPTSAGKSLIQYLLSRYYL 154 (501)
T ss_pred CCCHHHHHHHHHHHhcC-ceEEEeCCCCCHHHHHHHHHHHHH
Confidence 68899999999988754 468899999999998776654433
No 58
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=97.90 E-value=0.00016 Score=83.68 Aligned_cols=36 Identities=25% Similarity=0.246 Sum_probs=30.4
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILG 291 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~ 291 (824)
..+++-|.+||..++..+. +++++|.|||||.+.+-
T Consensus 22 ~~pt~iQ~~ai~~il~g~d-vlv~apTGsGKTla~~l 57 (456)
T PRK10590 22 REPTPIQQQAIPAVLEGRD-LMASAQTGTGKTAGFTL 57 (456)
T ss_pred CCCCHHHHHHHHHHhCCCC-EEEECCCCCcHHHHHHH
Confidence 4689999999999987654 89999999999987543
No 59
>PRK02362 ski2-like helicase; Provisional
Probab=97.88 E-value=7.2e-05 Score=91.68 Aligned_cols=47 Identities=30% Similarity=0.347 Sum_probs=34.7
Q ss_pred cCcchhhhhc----cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHH
Q 003388 245 IPGLLHEYIK----ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILG 291 (824)
Q Consensus 245 ~~~~~~~~~~----~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~ 291 (824)
+|+.+.+.+. ..|++.|.+|+...+....-++|+.|.|+|||.+...
T Consensus 8 lp~~~~~~l~~~g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~l 58 (737)
T PRK02362 8 LPEGVIEFYEAEGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAEL 58 (737)
T ss_pred CCHHHHHHHHhCCCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHH
Confidence 4444444433 3699999999998665555799999999999987543
No 60
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=97.88 E-value=0.00014 Score=87.01 Aligned_cols=35 Identities=31% Similarity=0.263 Sum_probs=29.7
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~ 290 (824)
..+++-|.+||...+..+ -+|+++|+|||||.+..
T Consensus 27 ~~ptpiQ~~ai~~ll~g~-dvl~~ApTGsGKT~af~ 61 (629)
T PRK11634 27 EKPSPIQAECIPHLLNGR-DVLGMAQTGSGKTAAFS 61 (629)
T ss_pred CCCCHHHHHHHHHHHcCC-CEEEEcCCCCcHHHHHH
Confidence 358899999999988754 59999999999998743
No 61
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.86 E-value=6.8e-05 Score=90.81 Aligned_cols=43 Identities=23% Similarity=0.156 Sum_probs=32.9
Q ss_pred hhhccCCCHHHHHHHHHhhcC-----CCeEEEEcCCCCChhhHHHHHH
Q 003388 251 EYIKENHNASQLEAIHEGLLR-----KAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 251 ~~~~~~lN~sQ~~AI~~~l~~-----~~~~LIqGPPGTGKT~ti~~li 293 (824)
..+...|++.|.+||..++.. ..-.|||||.|||||-+.+..+
T Consensus 256 ~~l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~i 303 (681)
T PRK10917 256 ASLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAA 303 (681)
T ss_pred HhCCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHH
Confidence 334567999999999987653 1248999999999998766543
No 62
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.84 E-value=8.7e-05 Score=89.19 Aligned_cols=40 Identities=25% Similarity=0.190 Sum_probs=31.1
Q ss_pred hhccCCCHHHHHHHHHhhcC--C---CeEEEEcCCCCChhhHHHH
Q 003388 252 YIKENHNASQLEAIHEGLLR--K---AFVLIQGPPGTGKTQTILG 291 (824)
Q Consensus 252 ~~~~~lN~sQ~~AI~~~l~~--~---~~~LIqGPPGTGKT~ti~~ 291 (824)
.+...|++.|.+||...+.. . .-.|||||.|||||.+.+.
T Consensus 231 ~lpf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l 275 (630)
T TIGR00643 231 SLPFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAAL 275 (630)
T ss_pred hCCCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHH
Confidence 34568999999999987653 1 1379999999999987654
No 63
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.84 E-value=0.00024 Score=81.41 Aligned_cols=35 Identities=34% Similarity=0.265 Sum_probs=29.6
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~ 290 (824)
..+++-|.+||..++..+ =.++++|.|||||.+.+
T Consensus 29 ~~pt~iQ~~aip~il~g~-dvi~~ApTGsGKTla~l 63 (423)
T PRK04837 29 HNCTPIQALALPLTLAGR-DVAGQAQTGTGKTMAFL 63 (423)
T ss_pred CCCCHHHHHHHHHHhCCC-cEEEECCCCchHHHHHH
Confidence 357999999999999765 48889999999998754
No 64
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=97.84 E-value=0.00017 Score=83.64 Aligned_cols=34 Identities=26% Similarity=0.300 Sum_probs=29.1
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTI 289 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti 289 (824)
..+++-|.+||...+..+ -.++++|.|||||.+.
T Consensus 25 ~~~t~iQ~~ai~~~l~g~-dvi~~a~TGsGKT~a~ 58 (460)
T PRK11776 25 TEMTPIQAQSLPAILAGK-DVIAQAKTGSGKTAAF 58 (460)
T ss_pred CCCCHHHHHHHHHHhcCC-CEEEECCCCCcHHHHH
Confidence 358999999999998764 5999999999999653
No 65
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=97.83 E-value=0.00011 Score=84.44 Aligned_cols=42 Identities=21% Similarity=0.168 Sum_probs=35.7
Q ss_pred cCCCHHHHHHHHHhhcC---CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLLR---KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~---~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..|.+.|.+|+.+.... ..-.+|.-|+|+|||.+.+.++..+
T Consensus 35 ~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~ 79 (442)
T COG1061 35 FELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAEL 79 (442)
T ss_pred CCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHh
Confidence 46899999999998774 6689999999999999999887543
No 66
>PRK00254 ski2-like helicase; Provisional
Probab=97.79 E-value=0.00019 Score=87.80 Aligned_cols=36 Identities=28% Similarity=0.369 Sum_probs=29.6
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~ 290 (824)
..||+.|.+|+...+....-++|++|.|+|||.+..
T Consensus 22 ~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~ 57 (720)
T PRK00254 22 EELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAE 57 (720)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHH
Confidence 469999999998754444569999999999998763
No 67
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.79 E-value=0.00027 Score=83.89 Aligned_cols=36 Identities=28% Similarity=0.184 Sum_probs=30.4
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILG 291 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~ 291 (824)
..+++-|.+||-.++..+. +++++|.|||||.+.+.
T Consensus 30 ~~ptpiQ~~~ip~~l~G~D-vi~~ApTGSGKTlafll 65 (572)
T PRK04537 30 TRCTPIQALTLPVALPGGD-VAGQAQTGTGKTLAFLV 65 (572)
T ss_pred CCCCHHHHHHHHHHhCCCC-EEEEcCCCCcHHHHHHH
Confidence 3589999999999997654 88899999999987544
No 68
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=97.77 E-value=0.00014 Score=69.20 Aligned_cols=22 Identities=41% Similarity=0.552 Sum_probs=18.1
Q ss_pred ccEEEEEcCchhHHHHHHHHHH
Q 003388 373 RVRVLVCAPSNSALDEIVLRLL 394 (824)
Q Consensus 373 ~~rILv~ApSN~AvDei~~Rl~ 394 (824)
+.|+||++||...++|+.+-|.
T Consensus 33 ~~rvLvL~PTRvva~em~~aL~ 54 (148)
T PF07652_consen 33 RLRVLVLAPTRVVAEEMYEALK 54 (148)
T ss_dssp T--EEEEESSHHHHHHHHHHTT
T ss_pred cCeEEEecccHHHHHHHHHHHh
Confidence 4699999999999999998774
No 69
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.75 E-value=0.00015 Score=91.32 Aligned_cols=43 Identities=28% Similarity=0.303 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHhhc----CCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 256 NHNASQLEAIHEGLL----RKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~----~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.+-+.|.+||.+... ...=.||+.|.|||||.|++.++..++.
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~ 459 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLK 459 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHh
Confidence 467899999977552 2335899999999999999998887764
No 70
>PRK01172 ski2-like helicase; Provisional
Probab=97.73 E-value=9.9e-05 Score=89.65 Aligned_cols=45 Identities=18% Similarity=0.077 Sum_probs=33.3
Q ss_pred cCcchhhhh---ccCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH
Q 003388 245 IPGLLHEYI---KENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 245 ~~~~~~~~~---~~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~ 290 (824)
+|+.+.+.+ ...|++.|.+|+...++. .-++|++|.|+|||....
T Consensus 8 l~~~~~~~~~~~~~~l~~~Q~~ai~~l~~~-~nvlv~apTGSGKTl~a~ 55 (674)
T PRK01172 8 YDDEFLNLFTGNDFELYDHQRMAIEQLRKG-ENVIVSVPTAAGKTLIAY 55 (674)
T ss_pred CCHHHHHHHhhCCCCCCHHHHHHHHHHhcC-CcEEEECCCCchHHHHHH
Confidence 444444443 235899999999987654 469999999999998654
No 71
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=97.73 E-value=0.00019 Score=77.40 Aligned_cols=41 Identities=34% Similarity=0.334 Sum_probs=32.1
Q ss_pred cCCCHHHHHHHHHhhcC-CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLLR-KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~-~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
...|..|.-|+...|.. -+++-+-|+.|||||- +++.+.+.
T Consensus 227 ~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTl--LALaAgle 268 (436)
T COG1875 227 RPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTL--LALAAGLE 268 (436)
T ss_pred CcccHHHHHHHHHhcCCCCCeEEeeccCCccHhH--HHHHHHHH
Confidence 56899999999988764 4688899999999984 44444544
No 72
>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=97.71 E-value=0.00031 Score=89.19 Aligned_cols=35 Identities=26% Similarity=0.112 Sum_probs=28.8
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~ 290 (824)
..+.+-|..++..++... -+++++|+|||||..++
T Consensus 77 ~~p~~iQ~~~i~~il~G~-d~vi~ApTGsGKT~f~l 111 (1171)
T TIGR01054 77 SEPWSIQKMWAKRVLRGD-SFAIIAPTGVGKTTFGL 111 (1171)
T ss_pred CCCcHHHHHHHHHHhCCC-eEEEECCCCCCHHHHHH
Confidence 357899999999998865 46689999999997554
No 73
>PTZ00110 helicase; Provisional
Probab=97.70 E-value=0.00064 Score=80.34 Aligned_cols=45 Identities=18% Similarity=0.276 Sum_probs=34.5
Q ss_pred ccCcchhhhhc----cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHH
Q 003388 244 KIPGLLHEYIK----ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTI 289 (824)
Q Consensus 244 ~~~~~~~~~~~----~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti 289 (824)
.+|+.+.+.+. ..+++-|.+|+-.+++.+. +++++|.|||||.+.
T Consensus 136 ~l~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~d-vI~~ApTGSGKTlay 184 (545)
T PTZ00110 136 SFPDYILKSLKNAGFTEPTPIQVQGWPIALSGRD-MIGIAETGSGKTLAF 184 (545)
T ss_pred CCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCC-EEEEeCCCChHHHHH
Confidence 45655555553 3589999999999998654 678899999999763
No 74
>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=97.66 E-value=0.00024 Score=91.30 Aligned_cols=151 Identities=15% Similarity=0.069 Sum_probs=83.2
Q ss_pred CcCEEEEcCCCCCCchh--hHhhhhccCceEEEEcCCCCCCceeeCh-hhhhcCCcCcHHHHHHH----cCCC---Cccc
Q 003388 483 GFDVVIIDEAAQAVEPA--TLVPLATGCKQVFLVGDPVQLPATVISP-VAEHLGYGTSLFKRLQR----AGYP---VKML 552 (824)
Q Consensus 483 ~fd~vIIDEAsq~~e~~--~lipL~~~~~k~VLVGD~~QLpP~v~s~-~~~~~~~~~SLferl~~----~~~~---~~~L 552 (824)
.+.+|+|||+++.+..+ .+-.|...++.+++|||..|-. ... ...-+.+....|.++.. .+++ ...+
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 35799999999988766 3334455678899999999951 000 00001111223333332 2222 1233
Q ss_pred cccccc--ChhhhhccchhhccccccCCCCcccccccCcCccCCCCCeEEEEcCCCcccccCCCCCcccHHHHHHHHHHH
Q 003388 553 KTQYRM--HPEVRSFPSREFYDEALEDGSDVEDYTTRDWHEYRCFGPFSFFDIHEGKESQPAGSGSWINIDEVDFVLLLF 630 (824)
Q Consensus 553 ~~qYRm--~p~I~~f~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~p~~f~dv~~g~e~~~~~~~S~~N~~Ea~~v~~lv 630 (824)
..+++. ++.+..+....| ..... .+.. ...++.++.. . .-..|++.|+..+
T Consensus 273 ~~~~~~~~~~~l~~Lek~l~-~~~~~-----------~~~~--~~~~I~i~~~-~------------~~~~Eae~va~~I 325 (1158)
T TIGR02773 273 NEYRPNKKNKELAHLEKQFD-ARPFN-----------AYIE--EDGSISIFEA-N------------NRRAEVEGVARQI 325 (1158)
T ss_pred ccccCCCCCHHHHHHHHHHh-hCCCC-----------CCCC--CCCCeEEEEc-C------------CHHHHHHHHHHHH
Confidence 444442 455555443333 11000 0000 0112333332 1 1246999999999
Q ss_pred HHHHHhCCCCCCCCeEEEEcCc-HHHHHHHHHHHhh
Q 003388 631 HKLISMYPQLKSSSQLAIISPY-RHQVKQFQERFKE 665 (824)
Q Consensus 631 ~~L~~~~~~~~~~~~IgIItpY-~~Q~~~i~~~l~~ 665 (824)
.+++... ....++|+|+++- +.+...|...|.+
T Consensus 326 ~~l~~~~--g~~~~DIAVL~R~~~~y~~~i~~~f~~ 359 (1158)
T TIGR02773 326 LRLTRDK--QYRYQDIAILTRDLEDYAKLVEAVFSD 359 (1158)
T ss_pred HHHHHcC--CCChhheEEEeCCHHHHHHHHHHHHHh
Confidence 8887642 2456899999998 8889999988864
No 75
>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=97.66 E-value=0.00026 Score=86.72 Aligned_cols=34 Identities=29% Similarity=0.553 Sum_probs=27.4
Q ss_pred HHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 260 SQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 260 sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
..+..|..++..+..++|+||||||||+.+.-.+
T Consensus 5 ~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~l 38 (819)
T TIGR01970 5 AVLPALRDALAAHPQVVLEAPPGAGKSTAVPLAL 38 (819)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHH
Confidence 3566777777777899999999999999877543
No 76
>PRK09401 reverse gyrase; Reviewed
Probab=97.65 E-value=0.0004 Score=88.09 Aligned_cols=35 Identities=29% Similarity=0.180 Sum_probs=28.6
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~ 290 (824)
..+++.|..++..++..+ -++|++|.|||||..++
T Consensus 79 ~~pt~iQ~~~i~~il~g~-dv~i~ApTGsGKT~f~l 113 (1176)
T PRK09401 79 SKPWSLQRTWAKRLLLGE-SFAIIAPTGVGKTTFGL 113 (1176)
T ss_pred CCCcHHHHHHHHHHHCCC-cEEEEcCCCCCHHHHHH
Confidence 357899999999988764 57889999999996443
No 77
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=97.63 E-value=0.00036 Score=86.36 Aligned_cols=40 Identities=28% Similarity=0.239 Sum_probs=31.0
Q ss_pred hccCCCHHHHHHHHHhhcC-----CCeEEEEcCCCCChhhHHHHH
Q 003388 253 IKENHNASQLEAIHEGLLR-----KAFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 253 ~~~~lN~sQ~~AI~~~l~~-----~~~~LIqGPPGTGKT~ti~~l 292 (824)
+...+++.|.+||..++.. ..-.||+||.|||||-+.+..
T Consensus 448 ~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a 492 (926)
T TIGR00580 448 FPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRA 492 (926)
T ss_pred CCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHH
Confidence 3456899999999988752 123799999999999876544
No 78
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.62 E-value=0.00026 Score=86.84 Aligned_cols=32 Identities=25% Similarity=0.360 Sum_probs=25.7
Q ss_pred HHHHHHHHhhcCCCeEEEEcCCCCChhhHHHH
Q 003388 260 SQLEAIHEGLLRKAFVLIQGPPGTGKTQTILG 291 (824)
Q Consensus 260 sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~ 291 (824)
+.+..|..++.++..++|+||||||||+.+.-
T Consensus 8 ~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl 39 (812)
T PRK11664 8 AVLPELLTALKTAPQVLLKAPTGAGKSTWLPL 39 (812)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHH
Confidence 35566777776677899999999999998864
No 79
>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=97.60 E-value=0.00065 Score=78.92 Aligned_cols=33 Identities=30% Similarity=0.411 Sum_probs=28.5
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQT 288 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~t 288 (824)
..+++.|.+||..++..+ -++|+.|.|||||.+
T Consensus 10 ~~~r~~Q~~ai~~~l~g~-dvlv~apTGsGKTl~ 42 (470)
T TIGR00614 10 SSFRPVQLEVINAVLLGR-DCFVVMPTGGGKSLC 42 (470)
T ss_pred CCCCHHHHHHHHHHHcCC-CEEEEcCCCCcHhHH
Confidence 468999999999999866 488899999999953
No 80
>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=97.58 E-value=0.00086 Score=80.30 Aligned_cols=39 Identities=15% Similarity=0.054 Sum_probs=31.3
Q ss_pred CCCHHHHHHHHHhhcCC--CeEEEEcCCCCChhhHHHHHHH
Q 003388 256 NHNASQLEAIHEGLLRK--AFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~--~~~LIqGPPGTGKT~ti~~li~ 294 (824)
.|=+.|.+||...+... .-.+|.-|+|+|||.+.+.++.
T Consensus 255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~ 295 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAAC 295 (732)
T ss_pred CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHH
Confidence 56789999999877532 3578999999999999887653
No 81
>PRK08181 transposase; Validated
Probab=97.58 E-value=0.00053 Score=73.25 Aligned_cols=44 Identities=30% Similarity=0.418 Sum_probs=34.4
Q ss_pred cCCCHHHHHHHHHhh---cCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 255 ENHNASQLEAIHEGL---LRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l---~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..++..|..|+..+- ....-.+|+||||||||+.+.++...++.
T Consensus 86 ~~~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~ 132 (269)
T PRK08181 86 PMVSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIE 132 (269)
T ss_pred CCCCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHH
Confidence 458899999987652 33445999999999999999988766653
No 82
>PRK13766 Hef nuclease; Provisional
Probab=97.53 E-value=0.0007 Score=83.69 Aligned_cols=128 Identities=23% Similarity=0.240 Sum_probs=82.5
Q ss_pred CHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCCcccC
Q 003388 258 NASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASPWLVG 337 (824)
Q Consensus 258 N~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 337 (824)
-+.|.+++..++.. -+||..|.|+|||.+.+.++..+++.
T Consensus 17 r~yQ~~~~~~~l~~--n~lv~~ptG~GKT~~a~~~i~~~l~~-------------------------------------- 56 (773)
T PRK13766 17 RLYQQLLAATALKK--NTLVVLPTGLGKTAIALLVIAERLHK-------------------------------------- 56 (773)
T ss_pred cHHHHHHHHHHhcC--CeEEEcCCCccHHHHHHHHHHHHHHh--------------------------------------
Confidence 46799999988876 48999999999998766665554420
Q ss_pred CCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhc-CCCccccccCCCcEEEEecC
Q 003388 338 ANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNT-GIRDENIRSYTPKIVRIGLK 416 (824)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~-g~~~~~~~~~~~~ivRig~~ 416 (824)
++.++|+++||..-+......+.+. ++. ..+++.+...
T Consensus 57 ----------------------------------~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~-------~~~v~~~~g~ 95 (773)
T PRK13766 57 ----------------------------------KGGKVLILAPTKPLVEQHAEFFRKFLNIP-------EEKIVVFTGE 95 (773)
T ss_pred ----------------------------------CCCeEEEEeCcHHHHHHHHHHHHHHhCCC-------CceEEEEeCC
Confidence 2359999999999888887776542 110 0123333221
Q ss_pred CCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhc--CCCcCEEEEcCCCC
Q 003388 417 AHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKL--NHGFDVVIIDEAAQ 494 (824)
Q Consensus 417 ~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~--~~~fd~vIIDEAsq 494 (824)
. +. .-+..+...++||++|.......++... ...|++||||||-.
T Consensus 96 ~-------~~--------------------------~~r~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~ 142 (773)
T PRK13766 96 V-------SP--------------------------EKRAELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHR 142 (773)
T ss_pred C-------CH--------------------------HHHHHHHhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCcc
Confidence 1 00 0123456678999999754333332221 24689999999998
Q ss_pred CCchh
Q 003388 495 AVEPA 499 (824)
Q Consensus 495 ~~e~~ 499 (824)
+....
T Consensus 143 ~~~~~ 147 (773)
T PRK13766 143 AVGNY 147 (773)
T ss_pred ccccc
Confidence 76543
No 83
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.53 E-value=0.00047 Score=81.28 Aligned_cols=42 Identities=24% Similarity=0.326 Sum_probs=34.4
Q ss_pred CCHHHHHHHHHhhc----CCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 257 HNASQLEAIHEGLL----RKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 257 lN~sQ~~AI~~~l~----~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+-..|..||..... .+.=.||+=.+|||||+|+.+++..|+.
T Consensus 166 ~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r 211 (875)
T COG4096 166 PRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIK 211 (875)
T ss_pred chHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHh
Confidence 45779999987543 2334999999999999999999999986
No 84
>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=97.50 E-value=0.0005 Score=80.23 Aligned_cols=23 Identities=22% Similarity=0.267 Sum_probs=20.3
Q ss_pred ccEEEEEcCchhHHHHHHHHHHh
Q 003388 373 RVRVLVCAPSNSALDEIVLRLLN 395 (824)
Q Consensus 373 ~~rILv~ApSN~AvDei~~Rl~~ 395 (824)
++++|+++|+.+-+.++..|+.+
T Consensus 25 g~~vLvlvP~i~L~~Q~~~~l~~ 47 (505)
T TIGR00595 25 GKSVLVLVPEIALTPQMIQRFKY 47 (505)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHH
Confidence 35899999999999999999865
No 85
>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=97.50 E-value=0.00089 Score=80.91 Aligned_cols=42 Identities=26% Similarity=0.174 Sum_probs=32.9
Q ss_pred CCHHHHHHHHHhhcC---------CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 257 HNASQLEAIHEGLLR---------KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 257 lN~sQ~~AI~~~l~~---------~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.-..|..||.+++.+ ..-.|||-|.|||||.|++.++..++.
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~ 289 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALE 289 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHh
Confidence 346798999876432 246899999999999999999877763
No 86
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.47 E-value=0.00042 Score=82.75 Aligned_cols=44 Identities=30% Similarity=0.336 Sum_probs=38.5
Q ss_pred cCCCHHHHHHHHHhhcC---CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 255 ENHNASQLEAIHEGLLR---KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~---~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..||..|..|+...... ...+|++|.+|+|||-+-+.+|...|.
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~ 243 (730)
T COG1198 197 LALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLA 243 (730)
T ss_pred cccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHH
Confidence 46999999999987765 467999999999999999999988875
No 87
>PRK14701 reverse gyrase; Provisional
Probab=97.45 E-value=0.0014 Score=85.47 Aligned_cols=32 Identities=25% Similarity=0.149 Sum_probs=28.2
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQT 288 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~t 288 (824)
.+++-|..+|..++..+ -+++++|.|||||.+
T Consensus 79 ~pt~iQ~~~i~~il~G~-d~li~APTGsGKTl~ 110 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGK-SFSIVAPTGMGKSTF 110 (1638)
T ss_pred CCCHHHHHHHHHHHcCC-CEEEEEcCCCCHHHH
Confidence 68899999999999875 468899999999984
No 88
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.43 E-value=0.0016 Score=76.63 Aligned_cols=44 Identities=27% Similarity=0.383 Sum_probs=34.6
Q ss_pred ccCcchhhhhc----cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhH
Q 003388 244 KIPGLLHEYIK----ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQT 288 (824)
Q Consensus 244 ~~~~~~~~~~~----~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~t 288 (824)
.+|+.+.+.+. ..+++-|.+||..++..+ =+++++|.|||||.+
T Consensus 127 ~l~~~l~~~L~~~g~~~ptpiQ~~aip~il~g~-dviv~ApTGSGKTla 174 (518)
T PLN00206 127 GLPPKLLLNLETAGYEFPTPIQMQAIPAALSGR-SLLVSADTGSGKTAS 174 (518)
T ss_pred CCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCC-CEEEEecCCCCccHH
Confidence 35665555553 368999999999999754 589999999999975
No 89
>PRK10689 transcription-repair coupling factor; Provisional
Probab=97.41 E-value=0.0011 Score=83.96 Aligned_cols=41 Identities=24% Similarity=0.211 Sum_probs=32.0
Q ss_pred hccCCCHHHHHHHHHhhcC-----CCeEEEEcCCCCChhhHHHHHH
Q 003388 253 IKENHNASQLEAIHEGLLR-----KAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 253 ~~~~lN~sQ~~AI~~~l~~-----~~~~LIqGPPGTGKT~ti~~li 293 (824)
+...+++.|.+||..++.. ..-.||+||.|||||-+....+
T Consensus 597 ~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa 642 (1147)
T PRK10689 597 FPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAA 642 (1147)
T ss_pred CCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHH
Confidence 4457999999999987763 1238999999999998765443
No 90
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.40 E-value=0.0018 Score=75.39 Aligned_cols=44 Identities=20% Similarity=0.168 Sum_probs=32.9
Q ss_pred cCcchhhhhc----cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHH
Q 003388 245 IPGLLHEYIK----ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTI 289 (824)
Q Consensus 245 ~~~~~~~~~~----~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti 289 (824)
+++.+.+.+. ..+++-|.+|+..++..+ =++|++|.|||||.+.
T Consensus 94 l~~~l~~~l~~~g~~~~~~iQ~~ai~~~~~G~-dvi~~apTGSGKTlay 141 (475)
T PRK01297 94 LAPELMHAIHDLGFPYCTPIQAQVLGYTLAGH-DAIGRAQTGTGKTAAF 141 (475)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCC-CEEEECCCCChHHHHH
Confidence 4444444442 358999999999988765 4778999999999653
No 91
>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=97.38 E-value=2.2e-05 Score=77.97 Aligned_cols=31 Identities=29% Similarity=0.295 Sum_probs=21.9
Q ss_pred CCcCEEEEcCCCCCCchhhHhhhhccCceEEE
Q 003388 482 HGFDVVIIDEAAQAVEPATLVPLATGCKQVFL 513 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~~lipL~~~~~k~VL 513 (824)
...|++|||||+.+. +..|.-+.....++|+
T Consensus 89 ~~~DlliVDEAAaIp-~p~L~~ll~~~~~vv~ 119 (177)
T PF05127_consen 89 PQADLLIVDEAAAIP-LPLLKQLLRRFPRVVF 119 (177)
T ss_dssp ---SCEEECTGGGS--HHHHHHHHCCSSEEEE
T ss_pred CCCCEEEEechhcCC-HHHHHHHHhhCCEEEE
Confidence 356999999999974 5566666667788887
No 92
>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=97.37 E-value=0.0014 Score=80.09 Aligned_cols=44 Identities=11% Similarity=0.055 Sum_probs=33.2
Q ss_pred cCcchhhhhc----cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHH
Q 003388 245 IPGLLHEYIK----ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTI 289 (824)
Q Consensus 245 ~~~~~~~~~~----~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti 289 (824)
+++.+.+.+. ..+++-|.+||..++..+ =++++.|.|||||-+-
T Consensus 21 l~~~l~~~L~~~g~~~p~~~Q~~ai~~il~G~-nvvv~apTGSGKTla~ 68 (742)
T TIGR03817 21 AHPDVVAALEAAGIHRPWQHQARAAELAHAGR-HVVVATGTASGKSLAY 68 (742)
T ss_pred CCHHHHHHHHHcCCCcCCHHHHHHHHHHHCCC-CEEEECCCCCcHHHHH
Confidence 3444444443 359999999999998764 4889999999999653
No 93
>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=97.30 E-value=0.0027 Score=75.98 Aligned_cols=34 Identities=29% Similarity=0.333 Sum_probs=29.2
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTI 289 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti 289 (824)
..|++-|.+||.+++..+ -+++..|.|+|||.+.
T Consensus 12 ~~fr~~Q~~~i~~il~g~-dvlv~~PTG~GKTl~y 45 (591)
T TIGR01389 12 DDFRPGQEEIISHVLDGR-DVLVVMPTGGGKSLCY 45 (591)
T ss_pred CCCCHHHHHHHHHHHcCC-CEEEEcCCCccHhHHH
Confidence 468999999999999865 4788999999999654
No 94
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.25 E-value=0.0003 Score=83.14 Aligned_cols=83 Identities=18% Similarity=0.182 Sum_probs=49.9
Q ss_pred CcCEEEEcCCCCCCchhhHhhh-hccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHH-cCCCCcccccccccCh
Q 003388 483 GFDVVIIDEAAQAVEPATLVPL-ATGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQR-AGYPVKMLKTQYRMHP 560 (824)
Q Consensus 483 ~fd~vIIDEAsq~~e~~~lipL-~~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~-~~~~~~~L~~qYRm~p 560 (824)
...+++|||.+++...+ |.|+ ....+.+..+||+.| .+. ..+....-...++.++.. .+..+.+|-.+||..+
T Consensus 229 ~~t~vLvdEfqd~~~~q-L~p~~~~k~~~~a~tGdt~q---sIy-~fa~~~a~~~~l~~~f~~~~~~~~~~lf~n~rs~~ 303 (853)
T KOG2108|consen 229 KITHVLVDEFQDILKIQ-LEPLQVLKIKAFAGTGDTDQ---SIY-KFAGKWAEIRILYVTFNKFIATQAERLFPNNRSCK 303 (853)
T ss_pred CcceEEeeccccccccc-cchHHHHhhhhheeecCchH---HHH-HHhhhhhhHHHHHHhhCcHHHHHHHHHhhcccccH
Confidence 45699999998876544 3344 334567889999998 111 111111112334444332 1234678889999999
Q ss_pred hhhhccchhh
Q 003388 561 EVRSFPSREF 570 (824)
Q Consensus 561 ~I~~f~s~~f 570 (824)
.|...+....
T Consensus 304 ~ih~la~~~I 313 (853)
T KOG2108|consen 304 TIHSLAYGAI 313 (853)
T ss_pred HHHHHHHHHH
Confidence 8877765544
No 95
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.23 E-value=0.002 Score=80.31 Aligned_cols=34 Identities=35% Similarity=0.316 Sum_probs=29.2
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~ 290 (824)
.+++-|.+|+..++..+ -+||++|.|||||.+..
T Consensus 32 ~~tpiQ~~Ai~~il~g~-nvli~APTGSGKTlaa~ 65 (876)
T PRK13767 32 TFTPPQRYAIPLIHEGK-NVLISSPTGSGKTLAAF 65 (876)
T ss_pred CCCHHHHHHHHHHHcCC-CEEEECCCCCcHHHHHH
Confidence 59999999999987654 69999999999998643
No 96
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.22 E-value=0.0013 Score=78.69 Aligned_cols=34 Identities=32% Similarity=0.435 Sum_probs=26.1
Q ss_pred HHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 259 ASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 259 ~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
.-|.+++...++. ..++++|+.|||||+.+-.++
T Consensus 167 ~iQ~qil~~i~~g-kdvIv~A~TGSGKTtqvPq~l 200 (675)
T PHA02653 167 DVQLKIFEAWISR-KPVVLTGGTGVGKTSQVPKLL 200 (675)
T ss_pred HHHHHHHHHHHhC-CCEEEECCCCCCchhHHHHHH
Confidence 4577777776654 578999999999998776544
No 97
>PRK04296 thymidine kinase; Provisional
Probab=97.21 E-value=0.00078 Score=68.40 Aligned_cols=25 Identities=20% Similarity=0.246 Sum_probs=21.6
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+.+|.||||+|||+.+..++..+.
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~ 27 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYE 27 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHH
Confidence 3789999999999999998876654
No 98
>PRK14974 cell division protein FtsY; Provisional
Probab=97.17 E-value=0.0034 Score=69.13 Aligned_cols=26 Identities=35% Similarity=0.423 Sum_probs=22.3
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+.++.||||+|||||+..+...+.
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l~ 165 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYLK 165 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 45899999999999999999886553
No 99
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=97.12 E-value=0.00045 Score=72.97 Aligned_cols=26 Identities=46% Similarity=0.676 Sum_probs=23.2
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
-+..|.+||||||||+|+..+..+|.
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L~ 82 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARALN 82 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHhc
Confidence 47899999999999999999887774
No 100
>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=97.10 E-value=0.002 Score=81.44 Aligned_cols=32 Identities=31% Similarity=0.536 Sum_probs=26.4
Q ss_pred HHHHHHHhhcCCCeEEEEcCCCCChhhHHHHH
Q 003388 261 QLEAIHEGLLRKAFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 261 Q~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~l 292 (824)
.+..|..++..+.+++|+||||+||||-+-.+
T Consensus 71 ~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~ 102 (1283)
T TIGR01967 71 KREDIAEAIAENQVVIIAGETGSGKTTQLPKI 102 (1283)
T ss_pred HHHHHHHHHHhCceEEEeCCCCCCcHHHHHHH
Confidence 45677777877889999999999999977554
No 101
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.10 E-value=0.0045 Score=74.59 Aligned_cols=130 Identities=21% Similarity=0.246 Sum_probs=82.4
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCCcc
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASPWL 335 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 335 (824)
.+-..|+-=....+..+.|+ |.+|+|+||||..+.+...+.+
T Consensus 82 ~~ws~QR~WakR~~rg~SFa-iiAPTGvGKTTfg~~~sl~~a~------------------------------------- 123 (1187)
T COG1110 82 RPWSAQRVWAKRLVRGKSFA-IIAPTGVGKTTFGLLMSLYLAK------------------------------------- 123 (1187)
T ss_pred CchHHHHHHHHHHHcCCceE-EEcCCCCchhHHHHHHHHHHHh-------------------------------------
Confidence 45577888888888776655 5699999999988765433321
Q ss_pred cCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEEec
Q 003388 336 VGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRIGL 415 (824)
Q Consensus 336 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRig~ 415 (824)
.++|+++.-||-.-|.+.++||.+.+- ..+ .+ -+|+.
T Consensus 124 ------------------------------------kgkr~yii~PT~~Lv~Q~~~kl~~~~e--~~~-~~---~~~~~- 160 (1187)
T COG1110 124 ------------------------------------KGKRVYIIVPTTTLVRQVYERLKKFAE--DAG-SL---DVLVV- 160 (1187)
T ss_pred ------------------------------------cCCeEEEEecCHHHHHHHHHHHHHHHh--hcC-Cc---ceeee-
Confidence 247999999999999999999976432 111 11 12222
Q ss_pred CCCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhc-CCcEEEEcCccchhhHHhhc-CCCcCEEEEcCCC
Q 003388 416 KAHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILN-EAVIVCSTLSFSGSALLSKL-NHGFDVVIIDEAA 493 (824)
Q Consensus 416 ~~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~-~a~IV~sTls~s~~~~~~~~-~~~fd~vIIDEAs 493 (824)
.|..+.. ++++++...|-+ ..+|+++|..+.... +..+ +.+||.|+||..-
T Consensus 161 -yh~~l~~-------------------------~ekee~le~i~~gdfdIlitTs~FL~k~-~e~L~~~kFdfifVDDVD 213 (1187)
T COG1110 161 -YHSALPT-------------------------KEKEEALERIESGDFDILITTSQFLSKR-FEELSKLKFDFIFVDDVD 213 (1187)
T ss_pred -eccccch-------------------------HHHHHHHHHHhcCCccEEEEeHHHHHhh-HHHhcccCCCEEEEccHH
Confidence 2221111 223333344443 689999997654433 2333 3489999999953
No 102
>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=97.08 E-value=0.0058 Score=74.66 Aligned_cols=114 Identities=13% Similarity=0.181 Sum_probs=63.9
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCcHHHHHHHHHHHhhhhC---CCCCcceEEec---------CCCCCCc-
Q 003388 620 IDEVDFVLLLFHKLISMYPQLKSSSQLAIISPYRHQVKQFQERFKETFG---VESQKVVDITT---------VDGCQGR- 686 (824)
Q Consensus 620 ~~Ea~~v~~lv~~L~~~~~~~~~~~~IgIItpY~~Q~~~i~~~l~~~~~---~~~~~~v~V~T---------Vd~fQG~- 686 (824)
+.....+.+.+..+.+.. +..+.|..|-......+.+.+..... ......+.+-+ ++.|+..
T Consensus 504 ~~~~~~l~~~i~~~~~~~-----pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~~~~~~~~~l~~f~~~~ 578 (705)
T TIGR00604 504 PSLVRNLGELLVEFSKII-----PDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQETSDALERYKQAV 578 (705)
T ss_pred HHHHHHHHHHHHHHhhcC-----CCcEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCCCcchHHHHHHHHHHHH
Confidence 344555666666666543 45677887866666666665543100 00011222222 2344321
Q ss_pred --cccEEEEEeeecCCCCcccccCCCCeeEeeeecccceEEEEecCccccCCchHHHHHHHHHH
Q 003388 687 --EKDVAIFSCVRASDKKSIGFLADYRRMNVGITRAKSSILVVGCASTLREDKHWNNLVKSAEK 748 (824)
Q Consensus 687 --E~diVIlS~vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L~~~~~w~~li~~~~~ 748 (824)
....|+|+.+|..-..++.|-.+.- ++++|+|=|-.-..++.++...++.++
T Consensus 579 ~~~~gavL~av~gGk~sEGIDf~~~~~----------r~ViivGlPf~~~~~~~~~~~~~~~~~ 632 (705)
T TIGR00604 579 SEGRGAVLLSVAGGKVSEGIDFCDDLG----------RAVIMVGIPYEYTESRILLARLEFLRD 632 (705)
T ss_pred hcCCceEEEEecCCcccCccccCCCCC----------cEEEEEccCCCCCCCHHHHHHHHHHHh
Confidence 2356888888877778888887753 377788877644445555555555443
No 103
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.00 E-value=0.0069 Score=72.67 Aligned_cols=33 Identities=27% Similarity=0.324 Sum_probs=27.8
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQT 288 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~t 288 (824)
..+.+.|.+||.+++..+ -+++.+|.|+|||.+
T Consensus 24 ~~~r~~Q~~ai~~il~g~-dvlv~apTGsGKTl~ 56 (607)
T PRK11057 24 QQFRPGQQEIIDAVLSGR-DCLVVMPTGGGKSLC 56 (607)
T ss_pred CCCCHHHHHHHHHHHcCC-CEEEEcCCCchHHHH
Confidence 368899999999998765 478889999999954
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=97.00 E-value=0.0022 Score=69.37 Aligned_cols=58 Identities=28% Similarity=0.312 Sum_probs=35.2
Q ss_pred hcCCcEEEEcCccch-----h--hHHhhcCCCcCEEEEcCCCCCCchhh-----HhhhhccCceEEEEcCCCC
Q 003388 459 LNEAVIVCSTLSFSG-----S--ALLSKLNHGFDVVIIDEAAQAVEPAT-----LVPLATGCKQVFLVGDPVQ 519 (824)
Q Consensus 459 l~~a~IV~sTls~s~-----~--~~~~~~~~~fd~vIIDEAsq~~e~~~-----lipL~~~~~k~VLVGD~~Q 519 (824)
....+++++|..... . ..+.. ..|++||||||..+....+ +..+ ....+++|.|-|-+
T Consensus 105 ~~~~~vvi~ty~~~~~~~~~~~~~~l~~--~~~~~vIvDEaH~~k~~~s~~~~~l~~l-~~~~~~lLSgTP~~ 174 (299)
T PF00176_consen 105 LPKYDVVITTYETLRKARKKKDKEDLKQ--IKWDRVIVDEAHRLKNKDSKRYKALRKL-RARYRWLLSGTPIQ 174 (299)
T ss_dssp CCCSSEEEEEHHHHH--TSTHTTHHHHT--SEEEEEEETTGGGGTTTTSHHHHHHHCC-CECEEEEE-SS-SS
T ss_pred cccceeeecccccccccccccccccccc--ccceeEEEeccccccccccccccccccc-ccceEEeecccccc
Confidence 456788888875444 1 12222 3599999999988733322 2222 35568889999877
No 105
>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=96.99 E-value=0.001 Score=62.99 Aligned_cols=40 Identities=33% Similarity=0.546 Sum_probs=30.4
Q ss_pred CHHHHHHHHHhhcC--CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 258 NASQLEAIHEGLLR--KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 258 N~sQ~~AI~~~l~~--~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
++.+..++...+.. ....+|.||||||||+++..+...+.
T Consensus 3 ~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~ 44 (151)
T cd00009 3 QEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF 44 (151)
T ss_pred hHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhh
Confidence 35566777766654 67899999999999998887766553
No 106
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=96.94 E-value=0.005 Score=79.26 Aligned_cols=41 Identities=15% Similarity=0.252 Sum_probs=32.4
Q ss_pred cCCCHHHHHHHHHhhcC-CCeEEEEcCCC-CChhhHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLLR-KAFVLIQGPPG-TGKTQTILGLLSA 295 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~-~~~~LIqGPPG-TGKT~ti~~li~~ 295 (824)
..+|..|..|+...+.. +.|.+|.|.-| ||||+++..++..
T Consensus 280 ~~~~~~q~~Av~~il~dr~~v~iv~~~GgAtGKtt~l~~l~~~ 322 (1623)
T PRK14712 280 VPRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMM 322 (1623)
T ss_pred cccchhHHHHHHHHhcCCCceEEEEecccccccHHHHHHHHHH
Confidence 34788999999998864 46777777777 9999999977644
No 107
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=96.90 E-value=0.0045 Score=73.25 Aligned_cols=41 Identities=22% Similarity=0.248 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.|=..|.+.++-||.+ -+||.-|-|.|||..++.++...+.
T Consensus 62 ~lR~YQ~eivq~ALgk--Ntii~lPTG~GKTfIAa~Vm~nh~r 102 (746)
T KOG0354|consen 62 ELRNYQEELVQPALGK--NTIIALPTGSGKTFIAAVIMKNHFE 102 (746)
T ss_pred cccHHHHHHhHHhhcC--CeEEEeecCCCccchHHHHHHHHHh
Confidence 4678899999999944 4999999999999988877655543
No 108
>COG1204 Superfamily II helicase [General function prediction only]
Probab=96.89 E-value=0.0049 Score=75.02 Aligned_cols=36 Identities=42% Similarity=0.523 Sum_probs=30.2
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILG 291 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~ 291 (824)
.|+++|++||...+..+.=+||..|-|+|||-+..-
T Consensus 31 el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~l 66 (766)
T COG1204 31 ELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALL 66 (766)
T ss_pred HhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHH
Confidence 588999999998876666799999999999975443
No 109
>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=96.86 E-value=0.0053 Score=68.70 Aligned_cols=29 Identities=21% Similarity=0.340 Sum_probs=24.6
Q ss_pred HHHHHHHhhcCC-CeEEEEcCCCCChhhHH
Q 003388 261 QLEAIHEGLLRK-AFVLIQGPPGTGKTQTI 289 (824)
Q Consensus 261 Q~~AI~~~l~~~-~~~LIqGPPGTGKT~ti 289 (824)
|.+|+.+....+ +.++|.+|+|+|||...
T Consensus 2 Q~~~~~~~~~~~~~~~~i~apTGsGKT~~~ 31 (357)
T TIGR03158 2 QVATFEALQSKDADIIFNTAPTGAGKTLAW 31 (357)
T ss_pred HHHHHHHHHcCCCCEEEEECCCCCCHHHHH
Confidence 889999888765 57999999999999754
No 110
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=96.81 E-value=0.0064 Score=76.87 Aligned_cols=32 Identities=25% Similarity=0.477 Sum_probs=25.4
Q ss_pred HHHHHHHhhcCCCeEEEEcCCCCChhhHHHHH
Q 003388 261 QLEAIHEGLLRKAFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 261 Q~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~l 292 (824)
.++.|..++..+.+++|.|++||||||.|-.+
T Consensus 78 ~r~~Il~ai~~~~VviI~GeTGSGKTTqlPq~ 109 (1294)
T PRK11131 78 KKQDILEAIRDHQVVIVAGETGSGKTTQLPKI 109 (1294)
T ss_pred HHHHHHHHHHhCCeEEEECCCCCCHHHHHHHH
Confidence 44566677767789999999999999976544
No 111
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=96.78 E-value=0.0073 Score=67.91 Aligned_cols=128 Identities=21% Similarity=0.238 Sum_probs=86.5
Q ss_pred HHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCcccccccccCCCCcccCC
Q 003388 259 ASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKYNHWGRASPWLVGA 338 (824)
Q Consensus 259 ~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 338 (824)
..|......|+.. -+||.=|-|=|||...+.++...|.-
T Consensus 18 ~YQ~~i~a~al~~--NtLvvlPTGLGKT~IA~~V~~~~l~~--------------------------------------- 56 (542)
T COG1111 18 LYQLNIAAKALFK--NTLVVLPTGLGKTFIAAMVIANRLRW--------------------------------------- 56 (542)
T ss_pred HHHHHHHHHHhhc--CeEEEecCCccHHHHHHHHHHHHHHh---------------------------------------
Confidence 6688888898875 49999999999998777666555531
Q ss_pred CCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhc-CCCccccccCCCcEEEEecCC
Q 003388 339 NPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNT-GIRDENIRSYTPKIVRIGLKA 417 (824)
Q Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~-g~~~~~~~~~~~~ivRig~~~ 417 (824)
.+.+||++|||.--|..-...+.+. |+... .++-+-
T Consensus 57 ---------------------------------~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~-------~i~~lt--- 93 (542)
T COG1111 57 ---------------------------------FGGKVLFLAPTKPLVLQHAEFCRKVTGIPED-------EIAALT--- 93 (542)
T ss_pred ---------------------------------cCCeEEEecCCchHHHHHHHHHHHHhCCChh-------heeeec---
Confidence 1249999999999998877776542 22110 111111
Q ss_pred CcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhcCCcEEEEcCccchhhHHhhc--CCCcCEEEEcCCCCC
Q 003388 418 HHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILNEAVIVCSTLSFSGSALLSKL--NHGFDVVIIDEAAQA 495 (824)
Q Consensus 418 ~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~~a~IV~sTls~s~~~~~~~~--~~~fd~vIIDEAsq~ 495 (824)
|.-+..-|..+...++|+++|.-..-.++.... ...|++||+|||-.+
T Consensus 94 ------------------------------Gev~p~~R~~~w~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRA 143 (542)
T COG1111 94 ------------------------------GEVRPEEREELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRA 143 (542)
T ss_pred ------------------------------CCCChHHHHHHHhhCCEEEeccHHHHhHHhcCccChHHceEEEechhhhc
Confidence 111222345677889999999866555555432 146899999999998
Q ss_pred Cchhh
Q 003388 496 VEPAT 500 (824)
Q Consensus 496 ~e~~~ 500 (824)
+--.+
T Consensus 144 vGnyA 148 (542)
T COG1111 144 VGNYA 148 (542)
T ss_pred cCcch
Confidence 75443
No 112
>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=96.78 E-value=0.015 Score=69.09 Aligned_cols=27 Identities=22% Similarity=0.329 Sum_probs=21.8
Q ss_pred HHHHHhhcCCCeEEEEcCCCCChhhHH
Q 003388 263 EAIHEGLLRKAFVLIQGPPGTGKTQTI 289 (824)
Q Consensus 263 ~AI~~~l~~~~~~LIqGPPGTGKT~ti 289 (824)
++|..++......+|++|.|||||...
T Consensus 7 ~~i~~al~~~~~lliEA~TGtGKTlAY 33 (636)
T TIGR03117 7 LNCLTSLRQKRIGMLEASTGVGKTLAM 33 (636)
T ss_pred HHHHHHHhcCCeEEEEcCCCCcHHHHH
Confidence 456667777889999999999998543
No 113
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=96.75 E-value=0.0046 Score=69.14 Aligned_cols=23 Identities=17% Similarity=0.398 Sum_probs=20.6
Q ss_pred ccEEEEEcCchhHHHHHHHHHHh
Q 003388 373 RVRVLVCAPSNSALDEIVLRLLN 395 (824)
Q Consensus 373 ~~rILv~ApSN~AvDei~~Rl~~ 395 (824)
+.++++++|+.+.++++..++..
T Consensus 29 ~~~ii~v~P~~~L~~q~~~~l~~ 51 (358)
T TIGR01587 29 ADRVIIALPTRATINAMYRRAKE 51 (358)
T ss_pred CCeEEEEeehHHHHHHHHHHHHH
Confidence 35999999999999999999865
No 114
>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=96.75 E-value=0.005 Score=74.76 Aligned_cols=35 Identities=23% Similarity=0.131 Sum_probs=29.7
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~ 290 (824)
..++-|.++|..++......+++.|.|||||.+++
T Consensus 15 ~PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~a 49 (844)
T TIGR02621 15 SPFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIA 49 (844)
T ss_pred CCCHHHHHHHHHHHcCCCcceEecCCCCcccHHHH
Confidence 47899999999998765578999999999997653
No 115
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=96.74 E-value=0.0097 Score=63.77 Aligned_cols=45 Identities=24% Similarity=0.265 Sum_probs=36.5
Q ss_pred ccCCCHHHHHHHHHhhc---CCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 254 KENHNASQLEAIHEGLL---RKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 254 ~~~lN~sQ~~AI~~~l~---~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
...|++.|+.|-...+. .+.-+|||+--|+|||-.|-..|...+.
T Consensus 95 ~G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~ 142 (441)
T COG4098 95 KGTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALN 142 (441)
T ss_pred ccccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHh
Confidence 46799999998876553 4567999999999999998887776654
No 116
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=96.73 E-value=0.0054 Score=72.95 Aligned_cols=46 Identities=28% Similarity=0.386 Sum_probs=30.8
Q ss_pred CCcCEEEEcCCCCCCchh--hHhhhh-ccCceEEEEc---CCCCCCceeeCh
Q 003388 482 HGFDVVIIDEAAQAVEPA--TLVPLA-TGCKQVFLVG---DPVQLPATVISP 527 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~--~lipL~-~~~~k~VLVG---D~~QLpP~v~s~ 527 (824)
+.+.++|||||.+++... .|+... -...+++++. |+..|+|++.|.
T Consensus 118 g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SR 169 (647)
T PRK07994 118 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSR 169 (647)
T ss_pred CCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhh
Confidence 468999999999987543 344333 2234444444 777788888775
No 117
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.73 E-value=0.0068 Score=70.76 Aligned_cols=46 Identities=28% Similarity=0.355 Sum_probs=30.0
Q ss_pred CCcCEEEEcCCCCCCchh--hHhhhh-c--cCceEEEE-cCCCCCCceeeCh
Q 003388 482 HGFDVVIIDEAAQAVEPA--TLVPLA-T--GCKQVFLV-GDPVQLPATVISP 527 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~--~lipL~-~--~~~k~VLV-GD~~QLpP~v~s~ 527 (824)
.+|.++|||||.+++... .|+... . ....+||+ .|+..++|++.|.
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 468999999999987533 333332 1 22344443 6898999887654
No 118
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=96.71 E-value=0.006 Score=73.55 Aligned_cols=43 Identities=26% Similarity=0.233 Sum_probs=35.5
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..||.-|..+.-.|..++.-.||.+|-|+|||-+..--|-..+
T Consensus 109 ~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~i 151 (1230)
T KOG0952|consen 109 EEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTI 151 (1230)
T ss_pred HHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHH
Confidence 4699999999999999888899999999999986554443444
No 119
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=96.65 E-value=0.0028 Score=81.04 Aligned_cols=54 Identities=20% Similarity=0.298 Sum_probs=40.8
Q ss_pred cceEEecCCCCCCccccEEEEEeeecC--CC------C-cc-------------------cccCCCCeeEeeeecccceE
Q 003388 673 KVVDITTVDGCQGREKDVAIFSCVRAS--DK------K-SI-------------------GFLADYRRMNVGITRAKSSI 724 (824)
Q Consensus 673 ~~v~V~TVd~fQG~E~diVIlS~vrs~--~~------~-~i-------------------gfl~d~rrlNVAlTRAk~~L 724 (824)
..|.|.|||+++|.|+++|++..+... .. . .. .+-++.|.+||||||||+.|
T Consensus 734 ~~V~ImTIH~SKGLEfPvVflp~l~~~~~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~E~l~Ee~RLlYVAlTRAk~~l 813 (1181)
T PRK10876 734 HLVQIVTIHKSKGLEYPLVWLPFITNFRVQDQAFYHDRHSFEAVLDLNAAEESVALAEEERLAEDLRLLYVALTRSVWHC 813 (1181)
T ss_pred CcEEEEEEeccCCcCCCEEEecccccccCCccceeecCCCCeeEeecCCcHHHHHHHHHHHHHHHHHHHHHHhhhHhhhh
Confidence 569999999999999999998776411 00 0 00 01245788999999999999
Q ss_pred EE
Q 003388 725 LV 726 (824)
Q Consensus 725 iI 726 (824)
+|
T Consensus 814 ~l 815 (1181)
T PRK10876 814 SL 815 (1181)
T ss_pred ee
Confidence 98
No 120
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.63 E-value=0.0075 Score=70.96 Aligned_cols=46 Identities=28% Similarity=0.424 Sum_probs=30.3
Q ss_pred CCcCEEEEcCCCCCCchh--hHhhhh---ccCceEEEEc-CCCCCCceeeCh
Q 003388 482 HGFDVVIIDEAAQAVEPA--TLVPLA---TGCKQVFLVG-DPVQLPATVISP 527 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~--~lipL~---~~~~k~VLVG-D~~QLpP~v~s~ 527 (824)
..|.++||||+.+++... .|+..+ .....+||+. ++.+|+||+.|.
T Consensus 123 gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSR 174 (700)
T PRK12323 123 GRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR 174 (700)
T ss_pred CCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHH
Confidence 468999999999987543 333322 1223556555 677889998765
No 121
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.61 E-value=0.007 Score=71.35 Aligned_cols=45 Identities=31% Similarity=0.428 Sum_probs=28.9
Q ss_pred CCcCEEEEcCCCCCCchh--hHhhhh-c--cCceEEEEc-CCCCCCceeeC
Q 003388 482 HGFDVVIIDEAAQAVEPA--TLVPLA-T--GCKQVFLVG-DPVQLPATVIS 526 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~--~lipL~-~--~~~k~VLVG-D~~QLpP~v~s 526 (824)
.++.++|||||.+++... .|+... . ....+||+. |+..+++++.|
T Consensus 117 gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlS 167 (702)
T PRK14960 117 GRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVIS 167 (702)
T ss_pred CCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHH
Confidence 468999999999986433 344333 1 223566655 67778777654
No 122
>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=96.59 E-value=0.0028 Score=75.51 Aligned_cols=26 Identities=23% Similarity=0.317 Sum_probs=22.8
Q ss_pred ccEEEEEcCchhHHHHHHHHHHhcCC
Q 003388 373 RVRVLVCAPSNSALDEIVLRLLNTGI 398 (824)
Q Consensus 373 ~~rILv~ApSN~AvDei~~Rl~~~g~ 398 (824)
..+||++++-.+=+.++..|+...|+
T Consensus 78 ~~~VLvVShRrSL~~sL~~rf~~~~l 103 (824)
T PF02399_consen 78 DKSVLVVSHRRSLTKSLAERFKKAGL 103 (824)
T ss_pred CCeEEEEEhHHHHHHHHHHHHhhcCC
Confidence 46999999999999999999977655
No 123
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=96.57 E-value=0.0016 Score=66.12 Aligned_cols=27 Identities=48% Similarity=0.781 Sum_probs=24.0
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
-|-.+|.|||||||||+|..+...||-
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~LLG 74 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLARELLG 74 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHHhC
Confidence 467999999999999999999888873
No 124
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=96.54 E-value=0.022 Score=74.54 Aligned_cols=55 Identities=22% Similarity=0.189 Sum_probs=38.7
Q ss_pred CEEEEcCCCCCCchhhHhhhh---ccCceEEEEcCCCCCCceeeChhhhhcCCcCcHHHHHHHcCCCCccc
Q 003388 485 DVVIIDEAAQAVEPATLVPLA---TGCKQVFLVGDPVQLPATVISPVAEHLGYGTSLFKRLQRAGYPVKML 552 (824)
Q Consensus 485 d~vIIDEAsq~~e~~~lipL~---~~~~k~VLVGD~~QLpP~v~s~~~~~~~~~~SLferl~~~~~~~~~L 552 (824)
+++|||||+++.--+..-.|. ....|+||+||.+|+. ..+.|.-|+..|.+.+.+
T Consensus 502 ~ilIVDEAg~lsar~m~~Ll~~A~~~~arvVllgd~~Q~a-------------AG~pf~~Lq~aG~~t~~~ 559 (1747)
T PRK13709 502 STLIVDQAEKLSLKETLTLLDGAARHNVQVLILDSGQRTG-------------TGSALMVLKDAGVNTYRW 559 (1747)
T ss_pred cEEEEECCCcCCHHHHHHHHHHHHHhCCEEEEECCccccc-------------ccCHHHHHHHcCCcEEEE
Confidence 699999999987655443332 2447999999999952 135577777777655444
No 125
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=96.53 E-value=0.0081 Score=64.92 Aligned_cols=41 Identities=24% Similarity=0.144 Sum_probs=33.1
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..++.|..-+.++... .+++=.||.|||||...+......+
T Consensus 128 ~kt~~Q~~y~eai~~~-di~fGiGpAGTGKTyLava~av~al 168 (348)
T COG1702 128 PKTPGQNMYPEAIEEH-DIVFGIGPAGTGKTYLAVAKAVDAL 168 (348)
T ss_pred ecChhHHHHHHHHHhc-CeeeeecccccCChhhhHHhHhhhh
Confidence 4789999999887764 6899999999999998777654444
No 126
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.51 E-value=0.023 Score=64.86 Aligned_cols=25 Identities=28% Similarity=0.395 Sum_probs=21.7
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+.+.++.||||+|||||++.+...+
T Consensus 95 p~vI~lvG~~GsGKTTtaakLA~~L 119 (437)
T PRK00771 95 PQTIMLVGLQGSGKTTTAAKLARYF 119 (437)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHH
Confidence 4578999999999999999988655
No 127
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.50 E-value=0.0078 Score=63.42 Aligned_cols=41 Identities=24% Similarity=0.383 Sum_probs=30.7
Q ss_pred CHHHHHHHHHhhc------C-CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 258 NASQLEAIHEGLL------R-KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 258 N~sQ~~AI~~~l~------~-~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
++.|..|+..+.. . ...+++.||||||||+.+.++...+..
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~ 125 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLL 125 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHh
Confidence 4667777765442 1 246899999999999999999877753
No 128
>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=96.49 E-value=0.0019 Score=60.65 Aligned_cols=22 Identities=45% Similarity=0.819 Sum_probs=18.5
Q ss_pred EEEEcCCCCChhhHHHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~l 296 (824)
.||.||||||||+++..+...+
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 4899999999999888776553
No 129
>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=96.48 E-value=0.0019 Score=60.38 Aligned_cols=25 Identities=40% Similarity=0.699 Sum_probs=21.0
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
....+|.||||||||+++..++..+
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~ 26 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALAREL 26 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhcc
Confidence 3579999999999999998886554
No 130
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.47 E-value=0.028 Score=70.00 Aligned_cols=33 Identities=27% Similarity=0.325 Sum_probs=28.6
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQT 288 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~t 288 (824)
..|.+.|.+||..++... =+|+..|.|+|||-+
T Consensus 459 ~sFRp~Q~eaI~aiL~Gr-DVLVimPTGSGKSLc 491 (1195)
T PLN03137 459 HSFRPNQREIINATMSGY-DVFVLMPTGGGKSLT 491 (1195)
T ss_pred CCCCHHHHHHHHHHHcCC-CEEEEcCCCccHHHH
Confidence 579999999999999765 489999999999843
No 131
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.43 E-value=0.027 Score=63.31 Aligned_cols=26 Identities=38% Similarity=0.543 Sum_probs=22.4
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+.++.||+|+|||||++.+...+.
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~ 199 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYG 199 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 46899999999999999999876553
No 132
>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=96.41 E-value=0.005 Score=79.25 Aligned_cols=75 Identities=25% Similarity=0.336 Sum_probs=51.6
Q ss_pred cceEEecCCCCCCccccEEEEEeeec---CCCC----------ccc------------------------------ccCC
Q 003388 673 KVVDITTVDGCQGREKDVAIFSCVRA---SDKK----------SIG------------------------------FLAD 709 (824)
Q Consensus 673 ~~v~V~TVd~fQG~E~diVIlS~vrs---~~~~----------~ig------------------------------fl~d 709 (824)
..|.|.|||+++|.|+++||+...-. +... +.| ..++
T Consensus 774 daV~ImTIH~SKGLEfpvV~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~ 853 (1141)
T TIGR02784 774 DEVRVMTVHGAKGLEAPVVFLVDTGSAPFASQHAPKLLFTGGSGEASDGKAPLWRPPSAFDPALSAAARERLKERAEDEY 853 (1141)
T ss_pred CeEEEEeccccCCCCCCEEEEeCCCCCCCCccccccccccccCCCccccccccccccccCCCHHHHHHHHHHHHHHHHHH
Confidence 45899999999999999999965421 1100 101 0123
Q ss_pred CCeeEeeeecccceEEEEecCccccC-CchHHHHHHHHH
Q 003388 710 YRRMNVGITRAKSSILVVGCASTLRE-DKHWNNLVKSAE 747 (824)
Q Consensus 710 ~rrlNVAlTRAk~~LiIvG~~~~L~~-~~~w~~li~~~~ 747 (824)
.|.||||+||||..|+|+|...--.. ...|..++...-
T Consensus 854 ~RLLYVAlTRA~~~L~l~g~~~~~~~~~~~w~~~~~~~l 892 (1141)
T TIGR02784 854 RRLLYVAMTRAEDRLIVCGYRGKRTSPKDTWYALVKRAL 892 (1141)
T ss_pred hhHHHHhhhhhhheeEEEeecCCCccchhhHHHHHHHHH
Confidence 58899999999999999998642221 235988877643
No 133
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.38 E-value=0.0023 Score=68.11 Aligned_cols=26 Identities=38% Similarity=0.724 Sum_probs=21.5
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+.+.|++||||||||+...++...|
T Consensus 176 ~NRliLlhGPPGTGKTSLCKaLaQkL 201 (423)
T KOG0744|consen 176 WNRLILLHGPPGTGKTSLCKALAQKL 201 (423)
T ss_pred eeeEEEEeCCCCCChhHHHHHHHHhh
Confidence 46799999999999999887776444
No 134
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=96.38 E-value=0.22 Score=58.55 Aligned_cols=259 Identities=21% Similarity=0.212 Sum_probs=142.8
Q ss_pred hhhccCCCHHHHHHHHHhhcC-----CCeEEEEcCCCCChhhHHHHHHHHHHhhCccccccCCCccccccCCCCCccccc
Q 003388 251 EYIKENHNASQLEAIHEGLLR-----KAFVLIQGPPGTGKTQTILGLLSAILHATPARVHSKGGLREIKRGPELPMHEKY 325 (824)
Q Consensus 251 ~~~~~~lN~sQ~~AI~~~l~~-----~~~~LIqGPPGTGKT~ti~~li~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 325 (824)
..+...|+..|+++|..+... .--=||||--|+|||-+++..+...+.
T Consensus 257 ~~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~--------------------------- 309 (677)
T COG1200 257 AALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIE--------------------------- 309 (677)
T ss_pred HhCCCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHH---------------------------
Confidence 445678999999999987641 123699999999998665443322221
Q ss_pred ccccCCCCcccCCCCCCCCCCCCCCCCCCcCCCCCCCccccccccccccEEEEEcCchhHHHHHHHHHHhcCCCcccccc
Q 003388 326 NHWGRASPWLVGANPRDNIMPIDGDDGFFPTTGNELKPEVVNSSRRYRVRVLVCAPSNSALDEIVLRLLNTGIRDENIRS 405 (824)
Q Consensus 326 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~ 405 (824)
.|.+..+.|||---+......+.+. +
T Consensus 310 ----------------------------------------------~G~Q~ALMAPTEILA~QH~~~~~~~-l------- 335 (677)
T COG1200 310 ----------------------------------------------AGYQAALMAPTEILAEQHYESLRKW-L------- 335 (677)
T ss_pred ----------------------------------------------cCCeeEEeccHHHHHHHHHHHHHHH-h-------
Confidence 2458899999987666555544321 0
Q ss_pred CCCcEEEEecCCCcccccccHHHHHHHHHhhhHHHhhhcCCChhhHHHHHHHHhc-CCcEEEEcCccchhhHHhh-cC-C
Q 003388 406 YTPKIVRIGLKAHHSVNSVAIDHLVEQKRDDSAADKQKHGATRKDRDSIRSAILN-EAVIVCSTLSFSGSALLSK-LN-H 482 (824)
Q Consensus 406 ~~~~ivRig~~~~~~~~~~sld~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~il~-~a~IV~sTls~s~~~~~~~-~~-~ 482 (824)
.+-=+|++.-+ . ...+..++.+...+.+ +++||+.|-. ++.. .. .
T Consensus 336 -~~~~i~V~lLt-G-------------------------~~kgk~r~~~l~~l~~G~~~ivVGTHA-----LiQd~V~F~ 383 (677)
T COG1200 336 -EPLGIRVALLT-G-------------------------SLKGKARKEILEQLASGEIDIVVGTHA-----LIQDKVEFH 383 (677)
T ss_pred -hhcCCeEEEee-c-------------------------ccchhHHHHHHHHHhCCCCCEEEEcch-----hhhcceeec
Confidence 00012332211 0 0112444555555554 5899999953 2221 11 3
Q ss_pred CcCEEEEcCCCCCCchhhHhhhhccCceEEEEcCCCCC----CceeeCh-hhhhcCCcCcHHHHHHHcCCCCcccccccc
Q 003388 483 GFDVVIIDEAAQAVEPATLVPLATGCKQVFLVGDPVQL----PATVISP-VAEHLGYGTSLFKRLQRAGYPVKMLKTQYR 557 (824)
Q Consensus 483 ~fd~vIIDEAsq~~e~~~lipL~~~~~k~VLVGD~~QL----pP~v~s~-~~~~~~~~~SLferl~~~~~~~~~L~~qYR 557 (824)
..-+|||||=-.-=--+-+.....+.. -|++| -|+-.+- ......++.|...-|-...-|+........
T Consensus 384 ~LgLVIiDEQHRFGV~QR~~L~~KG~~------~Ph~LvMTATPIPRTLAlt~fgDldvS~IdElP~GRkpI~T~~i~~~ 457 (677)
T COG1200 384 NLGLVIIDEQHRFGVHQRLALREKGEQ------NPHVLVMTATPIPRTLALTAFGDLDVSIIDELPPGRKPITTVVIPHE 457 (677)
T ss_pred ceeEEEEeccccccHHHHHHHHHhCCC------CCcEEEEeCCCchHHHHHHHhccccchhhccCCCCCCceEEEEeccc
Confidence 468999999555322233322222221 34554 1211111 112223567766666544467777777777
Q ss_pred cChhhhhccchhhccccccCCCCcccccccCcCccCCCCCeEEEEc-CCCcccccCCCCCcccHHHHHHHHHHHHHHHHh
Q 003388 558 MHPEVRSFPSREFYDEALEDGSDVEDYTTRDWHEYRCFGPFSFFDI-HEGKESQPAGSGSWINIDEVDFVLLLFHKLISM 636 (824)
Q Consensus 558 m~p~I~~f~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~p~~f~dv-~~g~e~~~~~~~S~~N~~Ea~~v~~lv~~L~~~ 636 (824)
.-+.+.++.....-.|+ ...|+.. -+..| .-|+..+.+++..|...
T Consensus 458 ~~~~v~e~i~~ei~~Gr----------------------QaY~VcPLIeESE-----------~l~l~~a~~~~~~L~~~ 504 (677)
T COG1200 458 RRPEVYERIREEIAKGR----------------------QAYVVCPLIEESE-----------KLELQAAEELYEELKSF 504 (677)
T ss_pred cHHHHHHHHHHHHHcCC----------------------EEEEEeccccccc-----------cchhhhHHHHHHHHHHH
Confidence 88888888777554331 1122221 01111 12456667777777755
Q ss_pred CCCCCCCCeEEEEcC--cHHHHHHHHHHHhh
Q 003388 637 YPQLKSSSQLAIISP--YRHQVKQFQERFKE 665 (824)
Q Consensus 637 ~~~~~~~~~IgIItp--Y~~Q~~~i~~~l~~ 665 (824)
++ ...||++.. -.++.+.+-++|++
T Consensus 505 ~~----~~~vgL~HGrm~~~eKd~vM~~Fk~ 531 (677)
T COG1200 505 LP----ELKVGLVHGRMKPAEKDAVMEAFKE 531 (677)
T ss_pred cc----cceeEEEecCCChHHHHHHHHHHHc
Confidence 53 456999986 34577777777764
No 135
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=96.36 E-value=0.021 Score=69.67 Aligned_cols=34 Identities=26% Similarity=0.461 Sum_probs=28.5
Q ss_pred HHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 260 SQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 260 sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
..+..|..++..+.+++|.||||+||||-+-..+
T Consensus 53 ~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~l 86 (845)
T COG1643 53 AVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFL 86 (845)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHH
Confidence 4566777778778999999999999999887754
No 136
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=96.35 E-value=0.021 Score=68.32 Aligned_cols=46 Identities=28% Similarity=0.420 Sum_probs=29.7
Q ss_pred CCcCEEEEcCCCCCCchh--hHhhhhc---cCceEEE-EcCCCCCCceeeCh
Q 003388 482 HGFDVVIIDEAAQAVEPA--TLVPLAT---GCKQVFL-VGDPVQLPATVISP 527 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~--~lipL~~---~~~k~VL-VGD~~QLpP~v~s~ 527 (824)
.+|.++||||+.+++... .|+-.+- ...++|| .-|+.+|++++.|.
T Consensus 118 gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSR 169 (830)
T PRK07003 118 ARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSR 169 (830)
T ss_pred CCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhh
Confidence 468999999999987533 3444331 2234444 44677788887764
No 137
>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=96.34 E-value=0.0075 Score=60.55 Aligned_cols=24 Identities=50% Similarity=0.614 Sum_probs=20.3
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+||.||||||||+....++...+
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~ 24 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGL 24 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHH
Confidence 379999999999999988876654
No 138
>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=96.32 E-value=0.0046 Score=67.37 Aligned_cols=41 Identities=27% Similarity=0.381 Sum_probs=34.9
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.++++-..+|..++...+..||.||||||||+++..+...+
T Consensus 48 ~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 48 LFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred cCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHH
Confidence 58888889999988777789999999999999887776544
No 139
>PRK12377 putative replication protein; Provisional
Probab=96.27 E-value=0.0056 Score=64.70 Aligned_cols=41 Identities=24% Similarity=0.314 Sum_probs=30.0
Q ss_pred CHHHHHHHHHhh-------cCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 258 NASQLEAIHEGL-------LRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 258 N~sQ~~AI~~~l-------~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
++.|..|+..+. ......+|+||||||||+.+.++...++.
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~ 127 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLA 127 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 456666655432 12346899999999999999999888764
No 140
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.25 E-value=0.022 Score=69.36 Aligned_cols=34 Identities=18% Similarity=0.187 Sum_probs=28.2
Q ss_pred CCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHH
Q 003388 257 HNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILG 291 (824)
Q Consensus 257 lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~ 291 (824)
+.+.|.++|-.++...+ .+.+.+.|||||.+.+-
T Consensus 93 ~tp~qvQ~I~~i~l~~g-vIAeaqTGeGKTLAf~L 126 (970)
T PRK12899 93 MVPYDVQILGAIAMHKG-FITEMQTGEGKTLTAVM 126 (970)
T ss_pred CChHHHHHhhhhhcCCC-eEEEeCCCCChHHHHHH
Confidence 78899999988777666 88899999999986553
No 141
>PLN03025 replication factor C subunit; Provisional
Probab=96.25 E-value=0.0055 Score=67.51 Aligned_cols=40 Identities=33% Similarity=0.546 Sum_probs=29.5
Q ss_pred CHHHHHHHHHhhcC--CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 258 NASQLEAIHEGLLR--KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 258 N~sQ~~AI~~~l~~--~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
|+...+.+...+.. -+..|++||||||||+++..+...++
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~ 59 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL 59 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence 45555555554443 35689999999999999999887765
No 142
>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=96.25 E-value=0.0057 Score=65.41 Aligned_cols=42 Identities=31% Similarity=0.505 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHHhhc-CCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGLL-RKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~-~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+.+.|.+++..++. ..++++|.||+|+|||||+.+++..+.
T Consensus 63 g~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~ 105 (264)
T cd01129 63 GLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELN 105 (264)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhC
Confidence 578899999987775 468999999999999999998877653
No 143
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=96.24 E-value=0.0051 Score=61.42 Aligned_cols=40 Identities=25% Similarity=0.417 Sum_probs=26.9
Q ss_pred HHHHHHHHHhh-----cCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 259 ASQLEAIHEGL-----LRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 259 ~sQ~~AI~~~l-----~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
++|.+.+...+ ......+|.||||+|||+++..+...+..
T Consensus 6 ~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~ 50 (185)
T PF13191_consen 6 EEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAE 50 (185)
T ss_dssp HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 45777777766 23568999999999999999988777654
No 144
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.22 E-value=0.021 Score=70.55 Aligned_cols=34 Identities=21% Similarity=0.246 Sum_probs=29.5
Q ss_pred CCCHHHHH---HHHHhhcCCCeEEEEcCCCCChhhHH
Q 003388 256 NHNASQLE---AIHEGLLRKAFVLIQGPPGTGKTQTI 289 (824)
Q Consensus 256 ~lN~sQ~~---AI~~~l~~~~~~LIqGPPGTGKT~ti 289 (824)
...+.|.+ +|..++......+|++|+|||||..-
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ay 281 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGY 281 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHH
Confidence 57789998 88888988889999999999998643
No 145
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.21 E-value=0.0063 Score=66.63 Aligned_cols=42 Identities=21% Similarity=0.343 Sum_probs=37.1
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+++.|.+.+..++....-.||.||+||||||++.+++..+.
T Consensus 128 ~~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~ 169 (323)
T PRK13833 128 IMTEAQASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIV 169 (323)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHh
Confidence 488899999999888777899999999999999999887764
No 146
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.20 E-value=0.097 Score=59.86 Aligned_cols=26 Identities=35% Similarity=0.521 Sum_probs=22.2
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..++++.||+|+|||||++.+...+.
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~ 246 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYA 246 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 35788999999999999999887664
No 147
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.13 E-value=0.076 Score=66.49 Aligned_cols=59 Identities=17% Similarity=0.294 Sum_probs=38.4
Q ss_pred CCcEEEEcCccchhhHHhhcCCCcCEEEEcCCCCCCchhhHhh----hhccCceEEEEcCCCC
Q 003388 461 EAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAAQAVEPATLVP----LATGCKQVFLVGDPVQ 519 (824)
Q Consensus 461 ~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAsq~~e~~~lip----L~~~~~k~VLVGD~~Q 519 (824)
..+||++|..........-....|++||||||..+--+.+.+. ......+++|.|=|-|
T Consensus 269 ~~dVvITSYe~l~~e~~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlq 331 (1033)
T PLN03142 269 KFDVCVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQ 331 (1033)
T ss_pred CCCcceecHHHHHHHHHHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCC
Confidence 4678888865443322111235799999999988766543221 1234568999999998
No 148
>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=96.12 E-value=0.0072 Score=61.10 Aligned_cols=41 Identities=24% Similarity=0.310 Sum_probs=35.9
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
..+++.|.+.+..++.....++|.||+|+||||++..++..
T Consensus 8 g~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~ 48 (186)
T cd01130 8 GTFSPLQAAYLWLAVEARKNILISGGTGSGKTTLLNALLAF 48 (186)
T ss_pred CCCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhh
Confidence 35789999999999988889999999999999998876643
No 149
>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=96.10 E-value=0.034 Score=67.01 Aligned_cols=52 Identities=27% Similarity=0.362 Sum_probs=34.0
Q ss_pred cCCcEEEEcCccchhhHHhh---------cCCCcCEEEEcCCCCCCchhhHhhhhccCceEEEEcCCC
Q 003388 460 NEAVIVCSTLSFSGSALLSK---------LNHGFDVVIIDEAAQAVEPATLVPLATGCKQVFLVGDPV 518 (824)
Q Consensus 460 ~~a~IV~sTls~s~~~~~~~---------~~~~fd~vIIDEAsq~~e~~~lipL~~~~~k~VLVGD~~ 518 (824)
..++|+++|.+..+...+.. ....+.++|||||-.+..-++-.| +|+.|.+.
T Consensus 163 y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiDeartp-------liisg~~~ 223 (762)
T TIGR03714 163 YNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLDSAQTP-------LVISGAPR 223 (762)
T ss_pred CCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhccCcCC-------eeeeCCCc
Confidence 56999999998776554422 124689999999977644443333 45556544
No 150
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=96.09 E-value=0.048 Score=66.20 Aligned_cols=51 Identities=29% Similarity=0.369 Sum_probs=37.2
Q ss_pred Ccchhhhhc---cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH-HHHHHHH
Q 003388 246 PGLLHEYIK---ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL-GLLSAIL 297 (824)
Q Consensus 246 ~~~~~~~~~---~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~-~li~~ll 297 (824)
++.+.+++. ..+++.|..|+..+.+. .-+||..|-|+|||-+.. .++..|+
T Consensus 9 ~~~v~~~~~~~~~~~t~~Q~~a~~~i~~G-~nvLiiAPTGsGKTeAAfLpil~~l~ 63 (814)
T COG1201 9 DPRVREWFKRKFTSLTPPQRYAIPEIHSG-ENVLIIAPTGSGKTEAAFLPVINELL 63 (814)
T ss_pred CHHHHHHHHHhcCCCCHHHHHHHHHHhCC-CceEEEcCCCCChHHHHHHHHHHHHH
Confidence 444555554 46999999999999864 469999999999997643 3344443
No 151
>PRK06526 transposase; Provisional
Probab=96.06 E-value=0.0078 Score=63.95 Aligned_cols=44 Identities=27% Similarity=0.388 Sum_probs=32.0
Q ss_pred cCCCHHHHHHHHHh--hcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 255 ENHNASQLEAIHEG--LLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~--l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..+|..|...+..+ +....-.+|.||||||||+++.++...+..
T Consensus 79 ~~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~ 124 (254)
T PRK06526 79 RSLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQ 124 (254)
T ss_pred CCcchHHHHHHhcCchhhcCceEEEEeCCCCchHHHHHHHHHHHHH
Confidence 35777776665432 223456899999999999999998877654
No 152
>PRK06851 hypothetical protein; Provisional
Probab=96.04 E-value=0.0024 Score=70.84 Aligned_cols=27 Identities=26% Similarity=0.537 Sum_probs=23.6
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..+++|.||||||||+++..++..+..
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~ 56 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLE 56 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 468999999999999999998877754
No 153
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=95.97 E-value=0.018 Score=67.84 Aligned_cols=43 Identities=21% Similarity=0.215 Sum_probs=30.7
Q ss_pred hccCCCHHHHHHHHH----hhcC-CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 253 IKENHNASQLEAIHE----GLLR-KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 253 ~~~~lN~sQ~~AI~~----~l~~-~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+...||++|+..... +.+. .+++. .|++|||||...-.+++++
T Consensus 114 ~~~~l~~eqk~v~d~~~~~v~~~~g~~ff-~g~~gtgKt~l~~t~~~~~ 161 (540)
T KOG0987|consen 114 LPKKLTPEQKRVYDAILEAVENNLGGVFF-YGFGGTGKTYLLKTLIAAL 161 (540)
T ss_pred hhhhcCHHHHHHHHHHHHHHhccccceee-eccCCccceeeHHHHHHHH
Confidence 345799999966652 2222 34555 9999999999888887665
No 154
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=95.96 E-value=0.0091 Score=66.02 Aligned_cols=40 Identities=28% Similarity=0.547 Sum_probs=30.1
Q ss_pred CHHHHHHHHHhhcCC--CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 258 NASQLEAIHEGLLRK--AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 258 N~sQ~~AI~~~l~~~--~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
++...+.+..++... +..+|.||||||||+++..+...+.
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY 61 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence 455666666666543 3789999999999999988876653
No 155
>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=95.95 E-value=0.009 Score=66.96 Aligned_cols=40 Identities=30% Similarity=0.417 Sum_probs=30.1
Q ss_pred CHHHHHHHHHhhc------CCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 258 NASQLEAIHEGLL------RKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 258 N~sQ~~AI~~~l~------~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
-+.|.++|...+. ..+..+|.||||||||+++..++..+-
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~ 65 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELE 65 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHH
Confidence 3667766665543 235799999999999999988887664
No 156
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=95.95 E-value=0.0018 Score=76.83 Aligned_cols=55 Identities=20% Similarity=0.240 Sum_probs=41.2
Q ss_pred eEEecCCCCCCccccEEEEEeeecCCCCccc------------cc-CCCCeeEeeeecccceEEEEec
Q 003388 675 VDITTVDGCQGREKDVAIFSCVRASDKKSIG------------FL-ADYRRMNVGITRAKSSILVVGC 729 (824)
Q Consensus 675 v~V~TVd~fQG~E~diVIlS~vrs~~~~~ig------------fl-~d~rrlNVAlTRAk~~LiIvG~ 729 (824)
+..+|+|...|.|+|+|-+.+.+....+... +. ..++-+|||+||||+++|..-.
T Consensus 675 ~~l~Tih~akglefd~v~~~n~~~~~~~s~~~~~r~~~~r~~t~~~~e~n~lyV~vtRakkrl~~~k~ 742 (853)
T KOG2108|consen 675 VILGTIHQAKGLEFDNVHLQNDFVKVFGSVSNFERLPSFRVETYNEDEWNFLYVAVTRAKKRLIMCKS 742 (853)
T ss_pred hhhHHHHhccCcccceeecccCcccccccccchhhcchhhhhhhhhhhhhheeeeecchhhhcccccc
Confidence 5679999999999999999887765322221 11 2357899999999998776543
No 157
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=95.94 E-value=0.0089 Score=76.50 Aligned_cols=78 Identities=22% Similarity=0.413 Sum_probs=57.9
Q ss_pred CcceEEecCCCCCCccccEEEEEeeecCCCC-----------ccc--c------------------------cCCCCeeE
Q 003388 672 QKVVDITTVDGCQGREKDVAIFSCVRASDKK-----------SIG--F------------------------LADYRRMN 714 (824)
Q Consensus 672 ~~~v~V~TVd~fQG~E~diVIlS~vrs~~~~-----------~ig--f------------------------l~d~rrlN 714 (824)
...|.|.|||+++|.|+++|+++..-+.... +.+ + -.+.|.||
T Consensus 741 ~~~VrImTIHkSKGLEfPiVflp~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~k~~~~~e~~~E~~RLLY 820 (1139)
T COG1074 741 RDLVRIMTIHKSKGLEFPIVFLPFILSKRFNDSDVPLLVYYDGLRFELFDDLKSYPTPESQANKELAEEEALAEELRLLY 820 (1139)
T ss_pred cCeEEEEEEeccCCCCCCEEEecCCCCcccccccccceeecCCCceeeEeccccCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3669999999999999999999874432110 000 0 12368899
Q ss_pred eeeecccceEEEEecCccccCCc-----------------hHHHHHHHHHHc
Q 003388 715 VGITRAKSSILVVGCASTLREDK-----------------HWNNLVKSAEKQ 749 (824)
Q Consensus 715 VAlTRAk~~LiIvG~~~~L~~~~-----------------~w~~li~~~~~~ 749 (824)
|||||||..|||+|-...-.... .|...+......
T Consensus 821 VAlTRAk~~L~l~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 872 (1139)
T COG1074 821 VALTRAKEQLILIGAPSKREKSSALAPLDLGQRVQVGGTQDWEGLLAIALKL 872 (1139)
T ss_pred HHHHHHHHheEEEeeccccccccccchhhhhhhcccCCcccHHHHHHHHHhc
Confidence 99999999999999987665543 688888777653
No 158
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=95.93 E-value=0.01 Score=65.16 Aligned_cols=42 Identities=26% Similarity=0.386 Sum_probs=36.5
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+++.|.+.+..++......+|.||+||||||++.+++..+.
T Consensus 132 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~ 173 (319)
T PRK13894 132 IMTAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMV 173 (319)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhh
Confidence 478889999998888788999999999999999988886654
No 159
>COG4889 Predicted helicase [General function prediction only]
Probab=95.88 E-value=0.044 Score=65.02 Aligned_cols=42 Identities=31% Similarity=0.227 Sum_probs=31.1
Q ss_pred cCCCHHHHHHHHHhhcC----CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLLR----KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~----~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+.+-+.|..||.+++.. ..=-||-+ ||||||.|.+.+..++.
T Consensus 160 kk~R~hQq~Aid~a~~~F~~n~RGkLIMA-cGTGKTfTsLkisEala 205 (1518)
T COG4889 160 KKPRPHQQTAIDAAKEGFSDNDRGKLIMA-CGTGKTFTSLKISEALA 205 (1518)
T ss_pred CCCChhHHHHHHHHHhhcccccCCcEEEe-cCCCccchHHHHHHHHh
Confidence 46889999999998752 12245554 79999999998876653
No 160
>PRK13909 putative recombination protein RecB; Provisional
Probab=95.84 E-value=0.011 Score=74.13 Aligned_cols=62 Identities=27% Similarity=0.288 Sum_probs=44.9
Q ss_pred CCcceEEecCCCCCCccccEEEEEeeecCC--C--------Ccccc-----------------------------cCCCC
Q 003388 671 SQKVVDITTVDGCQGREKDVAIFSCVRASD--K--------KSIGF-----------------------------LADYR 711 (824)
Q Consensus 671 ~~~~v~V~TVd~fQG~E~diVIlS~vrs~~--~--------~~igf-----------------------------l~d~r 711 (824)
....|.|.|||+++|.|+++||+...-... . .++|. ....|
T Consensus 604 ~~daV~imTIHkSKGLEfpvVil~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~~r 683 (910)
T PRK13909 604 ESKGVQIMTVHKSKGLEFEHVIVCDRLGKPNSDSSNLLFEYDGIELWQIYYRIKGRENFDKDYARALEKEKALKYEEEIN 683 (910)
T ss_pred ccCceEEEEeeccCCCCCcEEEEccCccCCCCCCCcEEEccCCCCcceeccchhhhhcCcHHHHHHHHHHHHHHHHHHHh
Confidence 356799999999999999999995431110 0 01110 02357
Q ss_pred eeEeeeecccceEEEEecCcc
Q 003388 712 RMNVGITRAKSSILVVGCAST 732 (824)
Q Consensus 712 rlNVAlTRAk~~LiIvG~~~~ 732 (824)
.||||+||||..|+|+|....
T Consensus 684 lLYVAlTRA~~~L~i~~~~~~ 704 (910)
T PRK13909 684 VLYVAFTRAKNSLIVVKKDES 704 (910)
T ss_pred hHheeccchhhceEEEecccc
Confidence 899999999999999998654
No 161
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.82 E-value=0.013 Score=62.23 Aligned_cols=27 Identities=30% Similarity=0.712 Sum_probs=25.0
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..|+.||.||-|+|||||++++|..+=
T Consensus 124 ~~GLILVTGpTGSGKSTTlAamId~iN 150 (353)
T COG2805 124 PRGLILVTGPTGSGKSTTLAAMIDYIN 150 (353)
T ss_pred CCceEEEeCCCCCcHHHHHHHHHHHHh
Confidence 579999999999999999999998874
No 162
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.81 E-value=0.0047 Score=68.88 Aligned_cols=23 Identities=39% Similarity=0.658 Sum_probs=20.2
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
=.|+.||||||||+.|+++...|
T Consensus 237 GYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 237 GYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred cceeeCCCCCCHHHHHHHHHhhc
Confidence 38899999999999999987655
No 163
>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=95.80 E-value=0.012 Score=63.98 Aligned_cols=43 Identities=30% Similarity=0.434 Sum_probs=36.5
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+++.|.+.+..++...+..||.||+|+||||++.+++..+-
T Consensus 115 g~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~ 157 (299)
T TIGR02782 115 GIMTAAQRDVLREAVLARKNILVVGGTGSGKTTLANALLAEIA 157 (299)
T ss_pred CCCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhh
Confidence 3478888899988888778899999999999999988876553
No 164
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.79 E-value=0.041 Score=61.35 Aligned_cols=26 Identities=27% Similarity=0.413 Sum_probs=22.3
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+.+|.||+|+|||||++.|...+.
T Consensus 241 ~~vI~LVGptGvGKTTTiaKLA~~L~ 266 (436)
T PRK11889 241 VQTIALIGPTGVGKTTTLAKMAWQFH 266 (436)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHH
Confidence 46889999999999999999876653
No 165
>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=95.79 E-value=0.0097 Score=69.09 Aligned_cols=42 Identities=26% Similarity=0.452 Sum_probs=35.8
Q ss_pred cCCCHHHHHHHHHhhc-CCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLL-RKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~-~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
-.+.+.|.+++..++. ..|++||.||+|+|||||+.+++..+
T Consensus 224 Lg~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l 266 (486)
T TIGR02533 224 LGMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRL 266 (486)
T ss_pred cCCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhcc
Confidence 3689999999988775 47899999999999999998877654
No 166
>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=95.71 E-value=0.0079 Score=64.24 Aligned_cols=24 Identities=33% Similarity=0.450 Sum_probs=19.8
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
...|+.||||||||+++..+...+
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l 66 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLF 66 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHH
Confidence 457899999999999887776554
No 167
>PRK10436 hypothetical protein; Provisional
Probab=95.69 E-value=0.013 Score=67.31 Aligned_cols=41 Identities=29% Similarity=0.588 Sum_probs=35.6
Q ss_pred CCCHHHHHHHHHhhc-CCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGLL-RKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~-~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+.+.|.+.+..++. ..|+.||.||.|+|||||+.+++..+
T Consensus 201 G~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~ 242 (462)
T PRK10436 201 GMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTL 242 (462)
T ss_pred CcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhh
Confidence 588899999987764 57999999999999999998887665
No 168
>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=95.69 E-value=0.0073 Score=62.06 Aligned_cols=24 Identities=38% Similarity=0.725 Sum_probs=17.4
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+.+|.+||||+|||| ++.+|+.-+
T Consensus 51 ~h~lf~GPPG~GKTT-LA~IIA~e~ 74 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTT-LARIIANEL 74 (233)
T ss_dssp -EEEEESSTTSSHHH-HHHHHHHHC
T ss_pred ceEEEECCCccchhH-HHHHHHhcc
Confidence 469999999999986 555554433
No 169
>PRK09183 transposase/IS protein; Provisional
Probab=95.65 E-value=0.015 Score=61.95 Aligned_cols=43 Identities=23% Similarity=0.391 Sum_probs=31.8
Q ss_pred cCCCHHHHHHHHHh--hcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 255 ENHNASQLEAIHEG--LLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~--l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+|..|...+..+ +.....++|.||||||||+.+.++...+.
T Consensus 83 ~~~~~~~i~~L~~~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a~ 127 (259)
T PRK09183 83 TGAPQKQLQSLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEAV 127 (259)
T ss_pred CCCCHHHHHHHhcCCchhcCCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence 45777777777543 33455788999999999999988865543
No 170
>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=95.65 E-value=0.02 Score=59.69 Aligned_cols=31 Identities=45% Similarity=0.737 Sum_probs=24.6
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.+-....+||.||||||||.....++..-+.
T Consensus 15 Gip~gs~~li~G~~GsGKT~l~~q~l~~~~~ 45 (226)
T PF06745_consen 15 GIPKGSVVLISGPPGSGKTTLALQFLYNGLK 45 (226)
T ss_dssp SEETTSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred CCCCCcEEEEEeCCCCCcHHHHHHHHHHhhh
Confidence 3445678999999999999998887765543
No 171
>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=0.0099 Score=55.14 Aligned_cols=23 Identities=35% Similarity=0.748 Sum_probs=18.8
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+.+|.||||+||||+...|...+
T Consensus 1 vI~I~G~~gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAERL 23 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHH
Confidence 46899999999999888776543
No 172
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.63 E-value=0.0089 Score=56.17 Aligned_cols=27 Identities=37% Similarity=0.653 Sum_probs=20.6
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+++.+|.||||+|||+++..++..+..
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~ 30 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNA 30 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHH
Confidence 578999999999999999999877653
No 173
>PRK06893 DNA replication initiation factor; Validated
Probab=95.63 E-value=0.011 Score=62.01 Aligned_cols=27 Identities=22% Similarity=0.373 Sum_probs=23.2
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.+..+|+||||||||+.+.++...+..
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~~~ 65 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHYLL 65 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 467899999999999999998877654
No 174
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=95.63 E-value=0.015 Score=66.00 Aligned_cols=39 Identities=33% Similarity=0.453 Sum_probs=31.5
Q ss_pred CCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 257 HNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 257 lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
..+...+.+..++...+..++.||||||||+++..+...
T Consensus 179 i~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~ 217 (459)
T PRK11331 179 IPETTIETILKRLTIKKNIILQGPPGVGKTFVARRLAYL 217 (459)
T ss_pred CCHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHH
Confidence 467777788888877788999999999999988766543
No 175
>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=95.62 E-value=0.0099 Score=60.73 Aligned_cols=26 Identities=35% Similarity=0.755 Sum_probs=22.4
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+|+.+|.||+|+||||++..++..+.
T Consensus 1 ~GlilI~GptGSGKTTll~~ll~~~~ 26 (198)
T cd01131 1 RGLVLVTGPTGSGKSTTLAAMIDYIN 26 (198)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHhh
Confidence 47899999999999999988876653
No 176
>PRK05973 replicative DNA helicase; Provisional
Probab=95.61 E-value=0.03 Score=58.68 Aligned_cols=34 Identities=29% Similarity=0.375 Sum_probs=27.3
Q ss_pred HHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 264 AIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 264 AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+..++.+..++||.|+||+|||+....++...+
T Consensus 56 ~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a 89 (237)
T PRK05973 56 ELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAM 89 (237)
T ss_pred HhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 3556676777999999999999999888775543
No 177
>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=95.58 E-value=0.0096 Score=56.85 Aligned_cols=22 Identities=50% Similarity=0.792 Sum_probs=18.7
Q ss_pred EEEEcCCCCChhhHHHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~l 296 (824)
+||.||||||||+++..+...+
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 6899999999999888776554
No 178
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=95.49 E-value=0.064 Score=63.89 Aligned_cols=36 Identities=28% Similarity=0.120 Sum_probs=28.4
Q ss_pred ccCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHH
Q 003388 254 KENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 254 ~~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~l 292 (824)
.....+-|..++...+..+ +.+...|+|||-+.+-.
T Consensus 101 g~~p~~VQ~~~~~~ll~G~---Iae~~TGeGKTla~~lp 136 (656)
T PRK12898 101 GQRHFDVQLMGGLALLSGR---LAEMQTGEGKTLTATLP 136 (656)
T ss_pred CCCCChHHHHHHHHHhCCC---eeeeeCCCCcHHHHHHH
Confidence 3456699999999988654 89999999999766543
No 179
>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=95.48 E-value=0.015 Score=62.12 Aligned_cols=24 Identities=33% Similarity=0.475 Sum_probs=19.7
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~ 294 (824)
.....||.||||||||+.+..+..
T Consensus 20 ~g~~vLL~G~~GtGKT~lA~~la~ 43 (262)
T TIGR02640 20 SGYPVHLRGPAGTGKTTLAMHVAR 43 (262)
T ss_pred cCCeEEEEcCCCCCHHHHHHHHHH
Confidence 456789999999999998877654
No 180
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=95.47 E-value=0.012 Score=59.15 Aligned_cols=27 Identities=30% Similarity=0.632 Sum_probs=22.7
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..-.+|+||||||||+.++++...++.
T Consensus 47 ~~~l~l~G~~G~GKThLa~ai~~~~~~ 73 (178)
T PF01695_consen 47 GENLILYGPPGTGKTHLAVAIANEAIR 73 (178)
T ss_dssp --EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred CeEEEEEhhHhHHHHHHHHHHHHHhcc
Confidence 345899999999999999999888775
No 181
>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=95.44 E-value=0.016 Score=58.92 Aligned_cols=35 Identities=31% Similarity=0.397 Sum_probs=23.3
Q ss_pred HHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 259 ASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 259 ~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
+.-+.|+.-|.....-.||.||||||||+.+..+-
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 44566666555555679999999999998766554
No 182
>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=95.43 E-value=0.018 Score=68.37 Aligned_cols=42 Identities=26% Similarity=0.461 Sum_probs=36.1
Q ss_pred cCCCHHHHHHHHHhhc-CCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 255 ENHNASQLEAIHEGLL-RKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~-~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
-.+.+.|.+.+..++. ..|+.||.||+|+|||||+.+++..+
T Consensus 298 lg~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 298 LGFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred cCCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 3678999999988765 57999999999999999998887665
No 183
>PRK08116 hypothetical protein; Validated
Probab=95.40 E-value=0.023 Score=60.89 Aligned_cols=25 Identities=28% Similarity=0.385 Sum_probs=22.6
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.++|+||||||||+.+.++...++.
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~ 140 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIE 140 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4899999999999999999888875
No 184
>PRK08084 DNA replication initiation factor; Provisional
Probab=95.39 E-value=0.029 Score=59.01 Aligned_cols=41 Identities=17% Similarity=0.367 Sum_probs=30.9
Q ss_pred CCHHHHHHHHHhhc--CCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 257 HNASQLEAIHEGLL--RKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 257 lN~sQ~~AI~~~l~--~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
-|.....++..... ..+..+|+|||||||||.+.++...+.
T Consensus 28 ~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~ 70 (235)
T PRK08084 28 DNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS 70 (235)
T ss_pred ccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 67777777766542 235789999999999999888776654
No 185
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=95.36 E-value=0.048 Score=59.17 Aligned_cols=36 Identities=33% Similarity=0.455 Sum_probs=27.7
Q ss_pred CHHHHH---HHHHhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 258 NASQLE---AIHEGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 258 N~sQ~~---AI~~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
-+.|.+ +|..++...+..+|.+|.|||||.+++..+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~a 48 (289)
T smart00489 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLT 48 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHH
Confidence 477887 455566677899999999999997665544
No 186
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=95.36 E-value=0.048 Score=59.17 Aligned_cols=36 Identities=33% Similarity=0.455 Sum_probs=27.7
Q ss_pred CHHHHH---HHHHhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 258 NASQLE---AIHEGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 258 N~sQ~~---AI~~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
-+.|.+ +|..++...+..+|.+|.|||||.+++..+
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~a 48 (289)
T smart00488 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLT 48 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHH
Confidence 477887 455566677899999999999997665544
No 187
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=95.35 E-value=0.15 Score=60.29 Aligned_cols=38 Identities=21% Similarity=0.347 Sum_probs=28.4
Q ss_pred HHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 259 ASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 259 ~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
-.+..++-..+. +.++++..|=|.|||.++..++..++
T Consensus 175 ~~~id~~~~~fk-q~~tV~taPRqrGKS~iVgi~l~~La 212 (752)
T PHA03333 175 LREIDRIFDEYG-KCYTAATVPRRCGKTTIMAIILAAMI 212 (752)
T ss_pred HHHHHHHHHHHh-hcceEEEeccCCCcHHHHHHHHHHHH
Confidence 345566655554 56999999999999998876766654
No 188
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=95.28 E-value=0.17 Score=59.50 Aligned_cols=31 Identities=42% Similarity=0.332 Sum_probs=26.6
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhh
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQ 287 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ 287 (824)
..++-|..||-.+|... =.+++++.|||||-
T Consensus 51 ~pt~IQ~~~IP~~l~g~-Dvi~~A~TGsGKT~ 81 (513)
T COG0513 51 EPTPIQLAAIPLILAGR-DVLGQAQTGTGKTA 81 (513)
T ss_pred CCCHHHHHHHHHHhCCC-CEEEECCCCChHHH
Confidence 46899999999999864 58899999999964
No 189
>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=95.28 E-value=0.035 Score=58.36 Aligned_cols=31 Identities=35% Similarity=0.495 Sum_probs=24.1
Q ss_pred HhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 267 EGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 267 ~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.++-+..++||.||||||||+....++..-+
T Consensus 16 GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~ 46 (237)
T TIGR03877 16 GGIPERNVVLLSGGPGTGKSIFSQQFLWNGL 46 (237)
T ss_pred CCCcCCeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 3444567899999999999998887765443
No 190
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=95.28 E-value=0.078 Score=62.65 Aligned_cols=20 Identities=40% Similarity=0.605 Sum_probs=17.5
Q ss_pred eEEEEcCCCCChhhHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li 293 (824)
..+|.|-.|||||+.|..+.
T Consensus 73 ~~~itG~AGsGKst~i~~l~ 92 (828)
T PHA03311 73 VYLITGTAGAGKSTSIQTLN 92 (828)
T ss_pred EEEEecCCCCChHHHHHHHH
Confidence 58999999999999887764
No 191
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=95.28 E-value=0.013 Score=63.20 Aligned_cols=46 Identities=26% Similarity=0.401 Sum_probs=26.3
Q ss_pred cchhhhhccCCCHHHHHHHHHhhcC--CCeEEEEcCCCCChhhHHHHH
Q 003388 247 GLLHEYIKENHNASQLEAIHEGLLR--KAFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 247 ~~~~~~~~~~lN~sQ~~AI~~~l~~--~~~~LIqGPPGTGKT~ti~~l 292 (824)
..+.+|.-+.-=-+|.--+.+.+.. -+-.++|||||||||+..--|
T Consensus 135 ktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArli 182 (554)
T KOG2028|consen 135 KTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLI 182 (554)
T ss_pred chHHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHH
Confidence 3455554322222344444444432 355889999999999855444
No 192
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.28 E-value=0.04 Score=57.68 Aligned_cols=29 Identities=28% Similarity=0.382 Sum_probs=23.7
Q ss_pred hcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 269 LLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 269 l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+....+++|.||||||||+....++..++
T Consensus 21 i~~g~~~~i~G~~G~GKTtl~~~~~~~~~ 49 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSILSQRLAYGFL 49 (230)
T ss_pred CCCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 44567999999999999999887776654
No 193
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.26 E-value=0.025 Score=64.44 Aligned_cols=44 Identities=30% Similarity=0.433 Sum_probs=38.1
Q ss_pred cCCCHHHHHHHHHhhc-CCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 255 ENHNASQLEAIHEGLL-RKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~-~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
-.+++.|...+...+. ..|+.|+.||-|+|||||+-.+++.+..
T Consensus 240 Lg~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~ 284 (500)
T COG2804 240 LGMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNT 284 (500)
T ss_pred hCCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcC
Confidence 3578999999998886 4799999999999999999999887653
No 194
>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=95.22 E-value=0.029 Score=62.84 Aligned_cols=40 Identities=15% Similarity=0.206 Sum_probs=30.2
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.+.+...+.+. ...+.+||.||+|+|||||+.+++..+..
T Consensus 136 gl~~~~~~~l~---~~~GlilI~G~TGSGKTT~l~al~~~i~~ 175 (372)
T TIGR02525 136 GIEPDLFNSLL---PAAGLGLICGETGSGKSTLAASIYQHCGE 175 (372)
T ss_pred CCCHHHHHHHH---hcCCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 34454444443 35789999999999999999999877754
No 195
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.20 E-value=0.038 Score=57.56 Aligned_cols=42 Identities=19% Similarity=0.351 Sum_probs=30.5
Q ss_pred CCCHHHHHHHHHhhc---CCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGLL---RKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~---~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.-|.....++..... ....++|.||||||||+.+.++.....
T Consensus 23 ~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~ 67 (227)
T PRK08903 23 GENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADAS 67 (227)
T ss_pred CCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 345666666665433 346799999999999998888776554
No 196
>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=95.15 E-value=0.015 Score=62.92 Aligned_cols=23 Identities=35% Similarity=0.596 Sum_probs=18.6
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..|+.||||||||+++..+...+
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l 82 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQIL 82 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHH
Confidence 58999999999998776665444
No 197
>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=95.14 E-value=0.014 Score=55.76 Aligned_cols=21 Identities=33% Similarity=0.749 Sum_probs=18.0
Q ss_pred eEEEEcCCCCChhhHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~ 294 (824)
++++.|||||||||.+..+..
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 478999999999998887753
No 198
>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=95.11 E-value=0.041 Score=56.13 Aligned_cols=24 Identities=38% Similarity=0.621 Sum_probs=21.3
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+.++.||+|+|||||++.+...+.
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~ 26 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLK 26 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHHHHHh
Confidence 678999999999999999987664
No 199
>PRK04195 replication factor C large subunit; Provisional
Probab=95.09 E-value=0.024 Score=66.15 Aligned_cols=40 Identities=33% Similarity=0.450 Sum_probs=28.4
Q ss_pred CCHHHHHHHHHhhcC------CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 257 HNASQLEAIHEGLLR------KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 257 lN~sQ~~AI~~~l~~------~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.|+.+.+.+...+.. ....||.||||||||+++..+...+
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 456666666554431 4679999999999999888775543
No 200
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=95.09 E-value=0.028 Score=63.71 Aligned_cols=25 Identities=48% Similarity=0.733 Sum_probs=21.5
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+..+|.||||||||+++..++..+-
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~~~l~ 80 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVFEELE 80 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHH
Confidence 5689999999999999998877653
No 201
>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=95.08 E-value=0.041 Score=57.06 Aligned_cols=41 Identities=24% Similarity=0.324 Sum_probs=28.6
Q ss_pred CCHHHHHHHHHhh--cCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 257 HNASQLEAIHEGL--LRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 257 lN~sQ~~AI~~~l--~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
-|.+-.+++...+ ...+..+|.||||||||+.+..+.....
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~ 63 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAE 63 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 3444444554432 2356899999999999999988776554
No 202
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=95.08 E-value=0.026 Score=63.86 Aligned_cols=23 Identities=43% Similarity=0.598 Sum_probs=18.7
Q ss_pred CeEEEEcCCCCChhhHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.-.|+.||||||||+++.++...
T Consensus 166 ~gvLL~GppGtGKT~lAkaia~~ 188 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLAKAVAHE 188 (389)
T ss_pred CceEEECCCCCChHHHHHHHHHH
Confidence 34899999999999988776543
No 203
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=95.07 E-value=0.25 Score=61.76 Aligned_cols=42 Identities=29% Similarity=0.175 Sum_probs=32.7
Q ss_pred CCCHHHHHHHHHhhcC-CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGLLR-KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~-~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+-+.|..++..++.. .+=+||-=..|.|||-....++..++
T Consensus 152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~ 194 (956)
T PRK04914 152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQL 194 (956)
T ss_pred CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHH
Confidence 5779999999887754 23478889999999988777766654
No 204
>PHA00729 NTP-binding motif containing protein
Probab=95.06 E-value=0.018 Score=59.64 Aligned_cols=24 Identities=29% Similarity=0.447 Sum_probs=20.9
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
-.+|.||||||||+....+...+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 489999999999999998887664
No 205
>PF05729 NACHT: NACHT domain
Probab=95.01 E-value=0.022 Score=55.47 Aligned_cols=25 Identities=28% Similarity=0.554 Sum_probs=22.4
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+.+|.|+||+|||+++..++..+..
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~ 26 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAE 26 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHh
Confidence 6899999999999999998887765
No 206
>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=95.01 E-value=0.018 Score=61.80 Aligned_cols=40 Identities=30% Similarity=0.462 Sum_probs=31.7
Q ss_pred CCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 257 HNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 257 lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+.+...+.+..++...+..+|.||+||||||++..++..+
T Consensus 112 ~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i 151 (270)
T PF00437_consen 112 IPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEI 151 (270)
T ss_dssp CHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHC
T ss_pred hHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhc
Confidence 3455666666666667899999999999999999887654
No 207
>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=95.00 E-value=0.49 Score=46.45 Aligned_cols=26 Identities=35% Similarity=0.484 Sum_probs=21.6
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.|...|.++||+|||+.+.++.....
T Consensus 2 ~G~i~vy~g~G~Gkt~~a~g~~~ra~ 27 (159)
T cd00561 2 KGLIQVYTGNGKGKTTAALGLALRAL 27 (159)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence 47889999999999999998865443
No 208
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=94.95 E-value=0.072 Score=58.45 Aligned_cols=46 Identities=30% Similarity=0.402 Sum_probs=33.5
Q ss_pred CCcCEEEEcCCCCCCchh--hHhhhh---ccCceEEEEcC-CCCCCceeeCh
Q 003388 482 HGFDVVIIDEAAQAVEPA--TLVPLA---TGCKQVFLVGD-PVQLPATVISP 527 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~--~lipL~---~~~~k~VLVGD-~~QLpP~v~s~ 527 (824)
..+.++|||+|..+++.. +|+-.. .....+||+.+ +.+|.||+.|.
T Consensus 112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSR 163 (319)
T PRK08769 112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSR 163 (319)
T ss_pred CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhh
Confidence 357999999999988755 344433 23456888887 78899998764
No 209
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.92 E-value=0.03 Score=64.82 Aligned_cols=36 Identities=28% Similarity=0.361 Sum_probs=24.6
Q ss_pred HHHHHHhhcCCC---eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 262 LEAIHEGLLRKA---FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 262 ~~AI~~~l~~~~---~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+.+..++..+. ..|++||||||||+++..+...+.
T Consensus 23 ~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 23 KKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 344444444332 369999999999998887766553
No 210
>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=94.87 E-value=0.032 Score=60.94 Aligned_cols=23 Identities=35% Similarity=0.579 Sum_probs=19.1
Q ss_pred CeEEEEcCCCCChhhHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
+..+|+||||||||+.+..+...
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~ 53 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANE 53 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 45899999999999988876544
No 211
>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=94.86 E-value=0.07 Score=57.34 Aligned_cols=25 Identities=36% Similarity=0.500 Sum_probs=20.7
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+.++.||||+|||||++.+...+.
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~ 97 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLK 97 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHH
Confidence 4677779999999999999986653
No 212
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=94.86 E-value=0.019 Score=63.23 Aligned_cols=22 Identities=41% Similarity=0.748 Sum_probs=16.4
Q ss_pred CeEEEEcCCCCChhhHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
+-.+.||||||||||.. .+|+.
T Consensus 49 ~SmIl~GPPG~GKTTlA-~liA~ 70 (436)
T COG2256 49 HSMILWGPPGTGKTTLA-RLIAG 70 (436)
T ss_pred ceeEEECCCCCCHHHHH-HHHHH
Confidence 34899999999999754 44443
No 213
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=94.83 E-value=0.028 Score=62.17 Aligned_cols=23 Identities=39% Similarity=0.586 Sum_probs=19.4
Q ss_pred CeEEEEcCCCCChhhHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
+..||.||||||||+++..+...
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~ 74 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANE 74 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHH
Confidence 46899999999999988876544
No 214
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=94.83 E-value=0.032 Score=62.65 Aligned_cols=22 Identities=45% Similarity=0.631 Sum_probs=18.3
Q ss_pred eEEEEcCCCCChhhHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ 295 (824)
-.||.||||||||+++.++...
T Consensus 158 gvLL~GppGtGKT~lakaia~~ 179 (364)
T TIGR01242 158 GVLLYGPPGTGKTLLAKAVAHE 179 (364)
T ss_pred eEEEECCCCCCHHHHHHHHHHh
Confidence 4899999999999988777543
No 215
>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=94.82 E-value=0.022 Score=55.13 Aligned_cols=24 Identities=42% Similarity=0.672 Sum_probs=20.7
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+++|.||||||||+++..++..+.
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~ 24 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIA 24 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHH
Confidence 478999999999999998877664
No 216
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=94.82 E-value=0.068 Score=56.03 Aligned_cols=31 Identities=29% Similarity=0.453 Sum_probs=24.3
Q ss_pred HhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 267 EGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 267 ~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+-...+++|.||||||||+....++...+
T Consensus 20 gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~ 50 (234)
T PRK06067 20 GGIPFPSLILIEGDHGTGKSVLSQQFVYGAL 50 (234)
T ss_pred CCCcCCcEEEEECCCCCChHHHHHHHHHHHH
Confidence 3444567999999999999999888765443
No 217
>PRK13531 regulatory ATPase RavA; Provisional
Probab=94.82 E-value=0.033 Score=63.82 Aligned_cols=35 Identities=26% Similarity=0.288 Sum_probs=25.6
Q ss_pred HHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 261 QLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 261 Q~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
-.+.+..++...+.+||.||||||||+++..+...
T Consensus 28 vI~lll~aalag~hVLL~GpPGTGKT~LAraLa~~ 62 (498)
T PRK13531 28 AIRLCLLAALSGESVFLLGPPGIAKSLIARRLKFA 62 (498)
T ss_pred HHHHHHHHHccCCCEEEECCCChhHHHHHHHHHHH
Confidence 33444444556788999999999999988776544
No 218
>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=94.80 E-value=0.032 Score=64.81 Aligned_cols=25 Identities=36% Similarity=0.578 Sum_probs=20.3
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..-.|+.||||||||+++.++...+
T Consensus 216 p~GILLyGPPGTGKT~LAKAlA~eL 240 (512)
T TIGR03689 216 PKGVLLYGPPGCGKTLIAKAVANSL 240 (512)
T ss_pred CcceEEECCCCCcHHHHHHHHHHhh
Confidence 3458999999999999888776655
No 219
>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=94.77 E-value=0.07 Score=55.47 Aligned_cols=29 Identities=31% Similarity=0.360 Sum_probs=22.9
Q ss_pred hcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 269 LLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 269 l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+-...+++|.||||+|||+....++...+
T Consensus 13 i~~g~~~li~G~~G~GKt~~~~~~~~~~~ 41 (224)
T TIGR03880 13 FPEGHVIVVIGEYGTGKTTFSLQFLYQGL 41 (224)
T ss_pred CCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 33456899999999999998888765543
No 220
>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=94.76 E-value=0.024 Score=51.78 Aligned_cols=24 Identities=38% Similarity=0.624 Sum_probs=21.6
Q ss_pred EEEcCCCCChhhHHHHHHHHHHhh
Q 003388 276 LIQGPPGTGKTQTILGLLSAILHA 299 (824)
Q Consensus 276 LIqGPPGTGKT~ti~~li~~ll~~ 299 (824)
.|+||||+|||+.+-.|+..++..
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~~ 25 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLKH 25 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHH
Confidence 689999999999999999888864
No 221
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=94.74 E-value=0.032 Score=67.25 Aligned_cols=39 Identities=28% Similarity=0.539 Sum_probs=27.5
Q ss_pred HHHHHHHHHhhc----C---CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 259 ASQLEAIHEGLL----R---KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 259 ~sQ~~AI~~~l~----~---~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+.|.+.|..+|. . ..+.+|.||||||||.|+..++..|-
T Consensus 761 EeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELq 806 (1164)
T PTZ00112 761 EKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQ 806 (1164)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence 456666655442 1 22456999999999999999887664
No 222
>PRK14873 primosome assembly protein PriA; Provisional
Probab=94.73 E-value=0.13 Score=61.82 Aligned_cols=23 Identities=22% Similarity=0.283 Sum_probs=20.5
Q ss_pred ccEEEEEcCchhHHHHHHHHHHh
Q 003388 373 RVRVLVCAPSNSALDEIVLRLLN 395 (824)
Q Consensus 373 ~~rILv~ApSN~AvDei~~Rl~~ 395 (824)
++.+||+.|.-+-+..+..|+.+
T Consensus 188 Gk~vLvLvPEi~lt~q~~~rl~~ 210 (665)
T PRK14873 188 GRGALVVVPDQRDVDRLEAALRA 210 (665)
T ss_pred CCeEEEEecchhhHHHHHHHHHH
Confidence 46899999999999999999864
No 223
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=94.72 E-value=0.071 Score=53.79 Aligned_cols=28 Identities=46% Similarity=0.763 Sum_probs=24.8
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
...+++|.||||+|||+.+..++..++.
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~ 58 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALAT 58 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 4579999999999999999999887764
No 224
>PHA02244 ATPase-like protein
Probab=94.72 E-value=0.036 Score=61.33 Aligned_cols=32 Identities=22% Similarity=0.289 Sum_probs=23.6
Q ss_pred HHHHhhcCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 264 AIHEGLLRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 264 AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.+...+.....+||.||||||||+.+.++...
T Consensus 111 ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 111 DIAKIVNANIPVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred HHHHHHhcCCCEEEECCCCCCHHHHHHHHHHH
Confidence 44444555556899999999999988776544
No 225
>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=94.70 E-value=0.054 Score=57.79 Aligned_cols=29 Identities=21% Similarity=0.282 Sum_probs=22.9
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
++-...+++|.||||||||+....++...
T Consensus 32 Gip~gs~~lI~G~pGtGKT~l~~qf~~~~ 60 (259)
T TIGR03878 32 GIPAYSVINITGVSDTGKSLMVEQFAVTQ 60 (259)
T ss_pred CeECCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence 33346789999999999999888876543
No 226
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.70 E-value=0.077 Score=58.31 Aligned_cols=25 Identities=36% Similarity=0.417 Sum_probs=21.5
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..+.++.||||+|||||+..+...+
T Consensus 114 ~~vi~lvGpnGsGKTTt~~kLA~~l 138 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTIGKLAHKY 138 (318)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHH
Confidence 4578899999999999999987655
No 227
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=94.70 E-value=0.037 Score=63.21 Aligned_cols=24 Identities=38% Similarity=0.563 Sum_probs=19.3
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
..-+|++||||||||+++.++...
T Consensus 217 p~gVLL~GPPGTGKT~LAraIA~e 240 (438)
T PTZ00361 217 PKGVILYGPPGTGKTLLAKAVANE 240 (438)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHh
Confidence 345889999999999988776543
No 228
>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=94.69 E-value=0.014 Score=54.74 Aligned_cols=21 Identities=43% Similarity=0.686 Sum_probs=14.8
Q ss_pred EEEEcCCCCChhhHHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~ 295 (824)
+||+|+||+|||+++..+...
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 799999999999988776544
No 229
>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=94.67 E-value=0.027 Score=52.42 Aligned_cols=22 Identities=36% Similarity=0.543 Sum_probs=19.0
Q ss_pred EEEEcCCCCChhhHHHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+|.|+|||||||++..|...+
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 4789999999999998887764
No 230
>CHL00181 cbbX CbbX; Provisional
Probab=94.61 E-value=0.027 Score=60.99 Aligned_cols=23 Identities=35% Similarity=0.618 Sum_probs=18.7
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..|+.||||||||+++..+...+
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~ 83 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADIL 83 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 47999999999999877765543
No 231
>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=94.60 E-value=0.048 Score=60.85 Aligned_cols=28 Identities=21% Similarity=0.574 Sum_probs=24.8
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..++++|.||+|+|||||+..++..+..
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~ 160 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAE 160 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 5799999999999999999998877653
No 232
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=94.60 E-value=0.038 Score=45.04 Aligned_cols=25 Identities=28% Similarity=0.574 Sum_probs=21.6
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+++|.||.|+|||+.+-++...|..
T Consensus 25 ~tli~G~nGsGKSTllDAi~~~L~~ 49 (62)
T PF13555_consen 25 VTLITGPNGSGKSTLLDAIQTVLYG 49 (62)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHcC
Confidence 8999999999999988888766653
No 233
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=94.53 E-value=0.046 Score=59.81 Aligned_cols=40 Identities=30% Similarity=0.516 Sum_probs=29.6
Q ss_pred CHHHHHHHHHhhcC--CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 258 NASQLEAIHEGLLR--KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 258 N~sQ~~AI~~~l~~--~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+.+.+.+...+.. .+..+|+||||||||+++..+...+.
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~ 63 (319)
T PRK00440 22 QEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY 63 (319)
T ss_pred cHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc
Confidence 35566666666543 24589999999999999988876654
No 234
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=94.52 E-value=0.039 Score=61.78 Aligned_cols=40 Identities=28% Similarity=0.455 Sum_probs=30.8
Q ss_pred HHHHHHHHHhhc------CCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 259 ASQLEAIHEGLL------RKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 259 ~sQ~~AI~~~l~------~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
++|.+.+..++. .+.-.+|.||||||||.|+..++..+-.
T Consensus 23 e~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~ 68 (366)
T COG1474 23 EEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEE 68 (366)
T ss_pred HHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHh
Confidence 677777766553 1233899999999999999999888765
No 235
>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=94.51 E-value=0.049 Score=54.11 Aligned_cols=24 Identities=33% Similarity=0.419 Sum_probs=20.5
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+.++.||||+|||+++..+...+.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~ 25 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLK 25 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 578999999999999988876653
No 236
>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=94.44 E-value=0.049 Score=51.78 Aligned_cols=30 Identities=37% Similarity=0.546 Sum_probs=24.5
Q ss_pred HhhcCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 267 EGLLRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 267 ~~l~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..+....+.++.|+.|+|||+.+.+++..+
T Consensus 17 ~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 17 KPLDFGTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred HhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 445556799999999999999998887654
No 237
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=94.43 E-value=0.25 Score=57.71 Aligned_cols=33 Identities=21% Similarity=0.345 Sum_probs=26.0
Q ss_pred HHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 261 QLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 261 Q~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
.+.-|..++.++.+++|.|.-|+||||-|-..+
T Consensus 55 ~r~~il~~ve~nqvlIviGeTGsGKSTQipQyL 87 (674)
T KOG0922|consen 55 YRDQILYAVEDNQVLIVIGETGSGKSTQIPQYL 87 (674)
T ss_pred HHHHHHHHHHHCCEEEEEcCCCCCccccHhHHH
Confidence 344566666678899999999999999887643
No 238
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=94.39 E-value=0.055 Score=57.50 Aligned_cols=27 Identities=30% Similarity=0.623 Sum_probs=23.7
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..-.++.||||||||+.++++...++.
T Consensus 105 ~~nl~l~G~~G~GKThLa~Ai~~~l~~ 131 (254)
T COG1484 105 GENLVLLGPPGVGKTHLAIAIGNELLK 131 (254)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Confidence 446889999999999999999988874
No 239
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=94.39 E-value=0.047 Score=60.44 Aligned_cols=39 Identities=36% Similarity=0.537 Sum_probs=29.6
Q ss_pred CHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 258 NASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 258 N~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+....++..++...+.+|+.||||||||+.+..+...+
T Consensus 29 ~~~~~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l 67 (329)
T COG0714 29 DEEVIELALLALLAGGHVLLEGPPGVGKTLLARALARAL 67 (329)
T ss_pred cHHHHHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHh
Confidence 455666666666678899999999999999777765443
No 240
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.33 E-value=0.061 Score=59.32 Aligned_cols=27 Identities=30% Similarity=0.350 Sum_probs=23.7
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..-.+++||||||||+.+.++...++.
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~~ 209 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELLD 209 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Confidence 356999999999999999999888875
No 241
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.30 E-value=0.04 Score=61.49 Aligned_cols=28 Identities=32% Similarity=0.464 Sum_probs=24.3
Q ss_pred cCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 270 LRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 270 ~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
...+++++.||+|+|||||++.|...+.
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~ 162 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCV 162 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 3467999999999999999999987764
No 242
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=94.29 E-value=0.042 Score=60.88 Aligned_cols=39 Identities=33% Similarity=0.491 Sum_probs=30.5
Q ss_pred CHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 258 NASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 258 N~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+......+..++....-.||.||+||||||++.+++..+
T Consensus 148 ~~~~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i 186 (344)
T PRK13851 148 NGDLEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAI 186 (344)
T ss_pred cHHHHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHccc
Confidence 455556666677677889999999999999998876543
No 243
>PRK04328 hypothetical protein; Provisional
Probab=94.25 E-value=0.097 Score=55.52 Aligned_cols=29 Identities=34% Similarity=0.463 Sum_probs=23.1
Q ss_pred hcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 269 LLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 269 l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+-...++||.||||||||+....++..-+
T Consensus 20 ip~gs~ili~G~pGsGKT~l~~~fl~~~~ 48 (249)
T PRK04328 20 IPERNVVLLSGGPGTGKSIFSQQFLWNGL 48 (249)
T ss_pred CcCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 43467899999999999998887765543
No 244
>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=94.25 E-value=0.047 Score=58.29 Aligned_cols=24 Identities=46% Similarity=0.722 Sum_probs=20.4
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.++.+|.||||+|||+++..+...
T Consensus 43 ~~~~~l~G~~G~GKTtl~~~l~~~ 66 (269)
T TIGR03015 43 EGFILITGEVGAGKTTLIRNLLKR 66 (269)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHh
Confidence 568999999999999988877544
No 245
>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=94.24 E-value=0.045 Score=60.93 Aligned_cols=26 Identities=31% Similarity=0.777 Sum_probs=23.0
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..++.+|.||+|+|||||+..++..+
T Consensus 121 ~~g~ili~G~tGSGKTT~l~al~~~i 146 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLASMIDYI 146 (343)
T ss_pred cCcEEEEECCCCCCHHHHHHHHHHhh
Confidence 46899999999999999999887655
No 246
>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=94.21 E-value=0.039 Score=54.82 Aligned_cols=23 Identities=35% Similarity=0.777 Sum_probs=19.2
Q ss_pred EEEEcCCCCChhhHHHHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+|.|+||+||||.+..++..+-
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~ 24 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELK 24 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHH
T ss_pred EEEECcCCCCHHHHHHHHHHHhh
Confidence 58999999999999999887663
No 247
>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=94.19 E-value=0.11 Score=54.18 Aligned_cols=30 Identities=43% Similarity=0.569 Sum_probs=23.9
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+....+++|.||||||||+....++...+
T Consensus 16 Gi~~G~~~~i~G~~G~GKT~l~~~~~~~~~ 45 (229)
T TIGR03881 16 GIPRGFFVAVTGEPGTGKTIFCLHFAYKGL 45 (229)
T ss_pred CCcCCeEEEEECCCCCChHHHHHHHHHHHH
Confidence 444567999999999999999888765544
No 248
>PRK06921 hypothetical protein; Provisional
Probab=94.16 E-value=0.043 Score=58.79 Aligned_cols=27 Identities=26% Similarity=0.546 Sum_probs=23.5
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
....+++||||||||+.+.+++..++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~ 143 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMR 143 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhh
Confidence 356899999999999999999888764
No 249
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=94.14 E-value=0.05 Score=60.13 Aligned_cols=36 Identities=28% Similarity=0.346 Sum_probs=28.3
Q ss_pred HHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 261 QLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 261 Q~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
....+..++....-.||.||+||||||++.+++..+
T Consensus 149 ~~~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~i 184 (332)
T PRK13900 149 IKEFLEHAVISKKNIIISGGTSTGKTTFTNAALREI 184 (332)
T ss_pred HHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhC
Confidence 445556666667889999999999999998876544
No 250
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=94.11 E-value=0.29 Score=53.17 Aligned_cols=27 Identities=33% Similarity=0.413 Sum_probs=22.8
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.-+.|+.|..||||||||.-+...+..
T Consensus 139 p~Vil~vGVNG~GKTTTIaKLA~~l~~ 165 (340)
T COG0552 139 PFVILFVGVNGVGKTTTIAKLAKYLKQ 165 (340)
T ss_pred cEEEEEEecCCCchHhHHHHHHHHHHH
Confidence 346899999999999999998876653
No 251
>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=94.09 E-value=0.099 Score=55.97 Aligned_cols=31 Identities=19% Similarity=0.425 Sum_probs=25.0
Q ss_pred HhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 267 EGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 267 ~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.++....+++|.||||+|||+.+..++..++
T Consensus 25 gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~ 55 (271)
T cd01122 25 KGLRKGELIILTAGTGVGKTTFLREYALDLI 55 (271)
T ss_pred EEEcCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 3455567999999999999999998876553
No 252
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=94.09 E-value=0.38 Score=59.75 Aligned_cols=46 Identities=24% Similarity=0.262 Sum_probs=33.3
Q ss_pred hhhccCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHH-HHHHHHHH
Q 003388 251 EYIKENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTI-LGLLSAIL 297 (824)
Q Consensus 251 ~~~~~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti-~~li~~ll 297 (824)
+....+|=..|.+|+..+.+. .-++|.-|.|+|||-+- +-++..++
T Consensus 65 ~~g~~~lY~HQ~~A~~~~~~G-~~vvVtTgTgSGKTe~FllPIld~~l 111 (851)
T COG1205 65 KAGIERLYSHQVDALRLIREG-RNVVVTTGTGSGKTESFLLPILDHLL 111 (851)
T ss_pred HhccccccHHHHHHHHHHHCC-CCEEEECCCCCchhHHHHHHHHHHHh
Confidence 334455889999999998765 36899999999999763 33444433
No 253
>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=94.08 E-value=0.044 Score=55.01 Aligned_cols=24 Identities=25% Similarity=0.476 Sum_probs=20.0
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.++.+|.||||+||||.+..+...
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~ 26 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEK 26 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHH
Confidence 468999999999999988777643
No 254
>PRK10867 signal recognition particle protein; Provisional
Probab=94.07 E-value=0.11 Score=59.38 Aligned_cols=26 Identities=27% Similarity=0.363 Sum_probs=22.1
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+.+.++.||||+|||||++.+...+.
T Consensus 100 p~vI~~vG~~GsGKTTtaakLA~~l~ 125 (433)
T PRK10867 100 PTVIMMVGLQGAGKTTTAGKLAKYLK 125 (433)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHH
Confidence 34788999999999999999987654
No 255
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=94.07 E-value=0.074 Score=56.74 Aligned_cols=32 Identities=50% Similarity=0.667 Sum_probs=26.0
Q ss_pred HhhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 267 EGLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 267 ~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.++-....+||.|+||||||......+...+.
T Consensus 18 GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~ 49 (260)
T COG0467 18 GGLPRGSVVLITGPPGTGKTIFALQFLYEGAR 49 (260)
T ss_pred CCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHh
Confidence 34555789999999999999999888766653
No 256
>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=94.04 E-value=0.052 Score=45.32 Aligned_cols=22 Identities=27% Similarity=0.490 Sum_probs=17.9
Q ss_pred EEEEcCCCCChhhHHHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~l 296 (824)
..|.||||+|||+....+...+
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5688999999998887776554
No 257
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=93.99 E-value=0.052 Score=59.52 Aligned_cols=39 Identities=26% Similarity=0.315 Sum_probs=27.4
Q ss_pred CCHHHHHHHHHhhcC---CCeEEEEcCCCCChhhHHHHHHHH
Q 003388 257 HNASQLEAIHEGLLR---KAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 257 lN~sQ~~AI~~~l~~---~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.++...+.+...+.. ....|+.||||||||+++..+...
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~ 66 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNE 66 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHH
Confidence 556666666655433 346777999999999988877544
No 258
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=93.93 E-value=0.053 Score=56.38 Aligned_cols=32 Identities=38% Similarity=0.579 Sum_probs=25.9
Q ss_pred HhhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 267 EGLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 267 ~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..+....+++|.||||||||+....++...+.
T Consensus 18 GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~ 49 (225)
T PRK09361 18 GGFERGTITQIYGPPGSGKTNICLQLAVEAAK 49 (225)
T ss_pred CCCCCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 34445669999999999999999998877654
No 259
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=93.90 E-value=0.056 Score=63.15 Aligned_cols=25 Identities=40% Similarity=0.682 Sum_probs=21.2
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..+.|+.||||+|||+||..+...+
T Consensus 45 ~~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 45 KRILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHh
Confidence 4589999999999999998776554
No 260
>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=93.87 E-value=0.11 Score=60.52 Aligned_cols=30 Identities=30% Similarity=0.569 Sum_probs=24.5
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+-+...+||.||||||||+.....+...+
T Consensus 259 G~~~gs~~li~G~~G~GKt~l~~~f~~~~~ 288 (484)
T TIGR02655 259 GFFKDSIILATGATGTGKTLLVSKFLENAC 288 (484)
T ss_pred CccCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 344567899999999999998888876654
No 261
>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=93.86 E-value=0.053 Score=59.93 Aligned_cols=25 Identities=28% Similarity=0.513 Sum_probs=20.8
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+.+.+|.||||||||+.+-.|...+
T Consensus 78 r~il~L~GPPGsGKStla~~La~~l 102 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGL 102 (361)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHH
Confidence 5789999999999998777766554
No 262
>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=93.85 E-value=0.045 Score=54.81 Aligned_cols=21 Identities=29% Similarity=0.601 Sum_probs=17.4
Q ss_pred eEEEEcCCCCChhhHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~ 294 (824)
+.+|.|||||||||....+..
T Consensus 1 ~i~i~G~pGsGKst~a~~la~ 21 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVE 21 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 468999999999998777654
No 263
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.84 E-value=0.058 Score=61.90 Aligned_cols=24 Identities=29% Similarity=0.335 Sum_probs=20.0
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..|++||||||||+++..+...+.
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~Ln 65 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKRLN 65 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcC
Confidence 369999999999998888776553
No 264
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=93.82 E-value=0.17 Score=57.86 Aligned_cols=45 Identities=29% Similarity=0.412 Sum_probs=35.6
Q ss_pred cccCcchhhhhc----cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhh
Q 003388 243 WKIPGLLHEYIK----ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQ 287 (824)
Q Consensus 243 ~~~~~~~~~~~~----~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ 287 (824)
..+|+.+...++ ..|-|-|.-||.++|-...=.+|..+.+||||-
T Consensus 199 Ldipe~fk~~lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTL 247 (830)
T COG1202 199 LDIPEKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTL 247 (830)
T ss_pred cCCcHHHHHHHHhcCcceecchhhhhhhhccccCCceEEEeccCCCcch
Confidence 456766666554 459999999999998765668888999999984
No 265
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=93.81 E-value=0.064 Score=56.63 Aligned_cols=51 Identities=33% Similarity=0.549 Sum_probs=29.2
Q ss_pred CcchhhhhccCCCHHHHHHHHHhh-cC---CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 246 PGLLHEYIKENHNASQLEAIHEGL-LR---KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 246 ~~~~~~~~~~~lN~sQ~~AI~~~l-~~---~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
|..+.+|+-+.==..|++....|- .+ -+.+|+.||||.|||| ++.+|+.=|
T Consensus 22 P~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTT-LA~IIA~Em 76 (332)
T COG2255 22 PKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTT-LAHIIANEL 76 (332)
T ss_pred cccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHH-HHHHHHHHh
Confidence 445556653322234554443332 22 3579999999999997 455554433
No 266
>KOG4284 consensus DEAD box protein [Transcription]
Probab=93.79 E-value=0.14 Score=59.23 Aligned_cols=32 Identities=28% Similarity=0.280 Sum_probs=25.6
Q ss_pred CHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH
Q 003388 258 NASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 258 N~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~ 290 (824)
++-|..||=+++..- =.+||.-.|||||-+-.
T Consensus 49 tkiQaaAIP~~~~km-DliVQaKSGTGKTlVfs 80 (980)
T KOG4284|consen 49 TKIQAAAIPAIFSKM-DLIVQAKSGTGKTLVFS 80 (980)
T ss_pred Cchhhhhhhhhhccc-ceEEEecCCCCceEEEE
Confidence 577999999988642 38999999999996543
No 267
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=93.78 E-value=0.04 Score=59.88 Aligned_cols=18 Identities=56% Similarity=0.892 Sum_probs=15.1
Q ss_pred EEEEcCCCCChhhHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~l 292 (824)
+|+.||||||||-.+.+.
T Consensus 188 VLLYGPPGTGKTLLAkAV 205 (406)
T COG1222 188 VLLYGPPGTGKTLLAKAV 205 (406)
T ss_pred eEeeCCCCCcHHHHHHHH
Confidence 889999999999765554
No 268
>PRK09694 helicase Cas3; Provisional
Probab=93.76 E-value=0.18 Score=62.55 Aligned_cols=41 Identities=22% Similarity=0.313 Sum_probs=31.5
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..++-|..+.... ..+++++|.+|.|+|||-..+.++..++
T Consensus 286 ~p~p~Q~~~~~~~-~~pgl~ileApTGsGKTEAAL~~A~~l~ 326 (878)
T PRK09694 286 QPRQLQTLVDALP-LQPGLTIIEAPTGSGKTEAALAYAWRLI 326 (878)
T ss_pred CChHHHHHHHhhc-cCCCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence 5688898775432 3468999999999999999877665554
No 269
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=93.75 E-value=0.13 Score=64.66 Aligned_cols=41 Identities=29% Similarity=0.343 Sum_probs=32.3
Q ss_pred CCCHHHHH---HHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 256 NHNASQLE---AIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 256 ~lN~sQ~~---AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..-+.|.+ +|..++......+|.+|+|||||. +.++-+++.
T Consensus 257 e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTl--aYLlpa~~~ 300 (928)
T PRK08074 257 EKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSL--AYLLPAAYF 300 (928)
T ss_pred cCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhH--HHHHHHHHH
Confidence 46688988 788888888899999999999985 445555543
No 270
>CHL00195 ycf46 Ycf46; Provisional
Probab=93.74 E-value=0.054 Score=62.88 Aligned_cols=28 Identities=32% Similarity=0.402 Sum_probs=20.7
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.+....-.|+.||||||||.++.++...
T Consensus 255 gl~~pkGILL~GPpGTGKTllAkaiA~e 282 (489)
T CHL00195 255 GLPTPRGLLLVGIQGTGKSLTAKAIAND 282 (489)
T ss_pred CCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence 3443445899999999999888776543
No 271
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.73 E-value=0.28 Score=55.70 Aligned_cols=42 Identities=19% Similarity=0.228 Sum_probs=32.8
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhH-HHHHHHHHHh
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQT-ILGLLSAILH 298 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~t-i~~li~~ll~ 298 (824)
..++-|+-+|.......+ .++.+|-|+|||.. +.-++..++.
T Consensus 96 ~ptpvQk~sip~i~~Grd-l~acAqTGsGKT~aFLiPii~~~~~ 138 (482)
T KOG0335|consen 96 KPTPVQKYSIPIISGGRD-LMACAQTGSGKTAAFLIPIISYLLD 138 (482)
T ss_pred CCCcceeeccceeecCCc-eEEEccCCCcchHHHHHHHHHHHHh
Confidence 578999999988777655 48899999999985 4556666655
No 272
>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=93.62 E-value=0.1 Score=54.27 Aligned_cols=43 Identities=19% Similarity=0.230 Sum_probs=29.3
Q ss_pred CCCHHHHHHHHHhhcC----CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 256 NHNASQLEAIHEGLLR----KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~----~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.-|..=..|+...... .....|+||+|+|||+.+.++...+..
T Consensus 14 ~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~ 60 (219)
T PF00308_consen 14 ESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQK 60 (219)
T ss_dssp TTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence 3454444444443322 235789999999999999998887765
No 273
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.59 E-value=0.074 Score=62.11 Aligned_cols=24 Identities=38% Similarity=0.443 Sum_probs=20.1
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..|+.||||||||+++..+...+.
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~ 61 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVN 61 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHh
Confidence 359999999999999888776654
No 274
>PRK06620 hypothetical protein; Validated
Probab=93.56 E-value=0.1 Score=53.93 Aligned_cols=20 Identities=35% Similarity=0.413 Sum_probs=16.8
Q ss_pred CeEEEEcCCCCChhhHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~l 292 (824)
+..+|+||||+||||.+..+
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~ 64 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIW 64 (214)
T ss_pred ceEEEECCCCCCHHHHHHHH
Confidence 34899999999999987753
No 275
>PHA02624 large T antigen; Provisional
Probab=93.56 E-value=0.071 Score=62.28 Aligned_cols=26 Identities=31% Similarity=0.562 Sum_probs=22.5
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+...||.||||||||+.+.+|+..+
T Consensus 430 Kk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 430 KRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 35689999999999999999888655
No 276
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=93.56 E-value=0.057 Score=57.53 Aligned_cols=22 Identities=41% Similarity=0.597 Sum_probs=17.0
Q ss_pred CCCeEEEEcCCCCChhhHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~l 292 (824)
.+-.++||||||||||...-.+
T Consensus 165 ~Pkg~ll~GppGtGKTlla~~V 186 (388)
T KOG0651|consen 165 PPKGLLLYGPPGTGKTLLARAV 186 (388)
T ss_pred CCceeEEeCCCCCchhHHHHHH
Confidence 3457999999999999754443
No 277
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=93.56 E-value=0.055 Score=61.30 Aligned_cols=23 Identities=43% Similarity=0.595 Sum_probs=18.6
Q ss_pred CCeEEEEcCCCCChhhHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~ 294 (824)
..-+|+.||||||||+++.++..
T Consensus 179 pkgvLL~GppGTGKT~LAkalA~ 201 (398)
T PTZ00454 179 PRGVLLYGPPGTGKTMLAKAVAH 201 (398)
T ss_pred CceEEEECCCCCCHHHHHHHHHH
Confidence 34589999999999998776653
No 278
>PRK06547 hypothetical protein; Provisional
Probab=93.55 E-value=0.092 Score=52.37 Aligned_cols=26 Identities=35% Similarity=0.339 Sum_probs=20.5
Q ss_pred cCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 270 LRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 270 ~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
....+.+|.||||+|||++...+...
T Consensus 13 ~~~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 13 GGMITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 34567888899999999988776544
No 279
>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=93.54 E-value=0.067 Score=54.87 Aligned_cols=30 Identities=33% Similarity=0.495 Sum_probs=24.2
Q ss_pred hcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 269 LLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 269 l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+-...+++|.||||||||+....++.....
T Consensus 9 i~~g~i~~i~G~~GsGKT~l~~~~~~~~~~ 38 (209)
T TIGR02237 9 VERGTITQIYGPPGSGKTNICMILAVNAAR 38 (209)
T ss_pred CCCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 344678999999999999999887766543
No 280
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=93.53 E-value=0.047 Score=56.74 Aligned_cols=22 Identities=50% Similarity=0.676 Sum_probs=18.4
Q ss_pred CCeEEEEcCCCCChhhHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li 293 (824)
+.-+|..||||||||.+..++.
T Consensus 151 PknVLFyGppGTGKTm~Akala 172 (368)
T COG1223 151 PKNVLFYGPPGTGKTMMAKALA 172 (368)
T ss_pred cceeEEECCCCccHHHHHHHHh
Confidence 3459999999999999887764
No 281
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=93.50 E-value=0.053 Score=58.28 Aligned_cols=27 Identities=44% Similarity=0.518 Sum_probs=21.6
Q ss_pred HhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 267 EGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 267 ~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
..+..+..+|+.||||||||.++...+
T Consensus 28 ~l~~~~~pvLl~G~~GtGKT~li~~~l 54 (272)
T PF12775_consen 28 LLLSNGRPVLLVGPSGTGKTSLIQNFL 54 (272)
T ss_dssp HHHHCTEEEEEESSTTSSHHHHHHHHH
T ss_pred HHHHcCCcEEEECCCCCchhHHHHhhh
Confidence 334456679999999999999888765
No 282
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=93.49 E-value=0.06 Score=59.39 Aligned_cols=26 Identities=19% Similarity=0.114 Sum_probs=20.5
Q ss_pred cCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 270 LRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 270 ~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
...-..+|+||||||||...-.+...
T Consensus 146 k~PlgllL~GPPGcGKTllAraiA~e 171 (413)
T PLN00020 146 KVPLILGIWGGKGQGKSFQCELVFKK 171 (413)
T ss_pred CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence 34567999999999999877666544
No 283
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=93.47 E-value=0.35 Score=59.04 Aligned_cols=45 Identities=29% Similarity=0.309 Sum_probs=29.6
Q ss_pred cCCcEEEEcCccchhhHHhh---------cCCCcCEEEEcCCCCCCchhhHhhh
Q 003388 460 NEAVIVCSTLSFSGSALLSK---------LNHGFDVVIIDEAAQAVEPATLVPL 504 (824)
Q Consensus 460 ~~a~IV~sTls~s~~~~~~~---------~~~~fd~vIIDEAsq~~e~~~lipL 504 (824)
..++|+++|.+-.|..++.. ....++++|||||-.+.--++-.||
T Consensus 167 y~~dIvygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDEaDsiLiDea~tpl 220 (790)
T PRK09200 167 YEADIIYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDEIDSILLDEAQTPL 220 (790)
T ss_pred cCCCEEEECCccccchhHHhccccchhhhcccccceEEEeccccceeccCCCce
Confidence 45899999987665543332 1256899999999776444443343
No 284
>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=93.47 E-value=0.082 Score=58.93 Aligned_cols=40 Identities=23% Similarity=0.326 Sum_probs=29.0
Q ss_pred CHHHHHHHHHhhcC---CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 258 NASQLEAIHEGLLR---KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 258 N~sQ~~AI~~~l~~---~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
++...+.+..++.. ....|+.||||+|||+++..+...++
T Consensus 19 ~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~ 61 (355)
T TIGR02397 19 QEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALN 61 (355)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 45556666655543 23579999999999998888877665
No 285
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.42 E-value=0.093 Score=58.90 Aligned_cols=24 Identities=29% Similarity=0.315 Sum_probs=20.3
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..|+.||||||||+++..+...+.
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhc
Confidence 469999999999999888876664
No 286
>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=93.40 E-value=0.071 Score=55.12 Aligned_cols=31 Identities=35% Similarity=0.566 Sum_probs=25.0
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
++....+++|.||||||||+....++..+..
T Consensus 15 Gi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~ 45 (218)
T cd01394 15 GVERGTVTQVYGPPGTGKTNIAIQLAVETAG 45 (218)
T ss_pred CccCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 3444678999999999999999998776643
No 287
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=93.37 E-value=0.094 Score=57.91 Aligned_cols=21 Identities=38% Similarity=0.531 Sum_probs=17.8
Q ss_pred CeEEEEcCCCCChhhHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li 293 (824)
+-+|+.||||||||+++..+.
T Consensus 30 ~~vLl~G~pG~gKT~lar~la 50 (334)
T PRK13407 30 GGVLVFGDRGTGKSTAVRALA 50 (334)
T ss_pred CcEEEEcCCCCCHHHHHHHHH
Confidence 579999999999998776654
No 288
>PRK08727 hypothetical protein; Validated
Probab=93.33 E-value=0.15 Score=53.58 Aligned_cols=26 Identities=38% Similarity=0.657 Sum_probs=22.1
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
...+|+||||||||+.+.++...+..
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~ 67 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQ 67 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 46999999999999999988776543
No 289
>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=93.32 E-value=0.099 Score=59.40 Aligned_cols=25 Identities=28% Similarity=0.377 Sum_probs=21.7
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..+.++.||||+|||||++.+...+
T Consensus 100 ~~vi~lvG~~GvGKTTtaaKLA~~l 124 (429)
T TIGR01425 100 QNVIMFVGLQGSGKTTTCTKLAYYY 124 (429)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHH
Confidence 4689999999999999999987654
No 290
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=93.28 E-value=0.59 Score=56.31 Aligned_cols=37 Identities=24% Similarity=0.424 Sum_probs=29.5
Q ss_pred ccEEEEEcCchhHHHHHHHHHHhcCCCccccccCCCcEEEEecCC
Q 003388 373 RVRVLVCAPSNSALDEIVLRLLNTGIRDENIRSYTPKIVRIGLKA 417 (824)
Q Consensus 373 ~~rILv~ApSN~AvDei~~Rl~~~g~~~~~~~~~~~~ivRig~~~ 417 (824)
..+|.+++.|++.+..+++-+.+++ |.++++-+|...
T Consensus 110 ipkIyyaSRTHsQltQvvrElrrT~--------Y~vkmtVLgSRe 146 (945)
T KOG1132|consen 110 IPKIYYASRTHSQLTQVVRELRRTG--------YRVKMTVLGSRE 146 (945)
T ss_pred CceEEEecchHHHHHHHHHHHhhcC--------CCCceEEeecch
Confidence 4699999999999999999887764 346677777653
No 291
>PRK08233 hypothetical protein; Provisional
Probab=93.27 E-value=0.061 Score=53.63 Aligned_cols=24 Identities=25% Similarity=0.311 Sum_probs=19.4
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+..|.||||+||||....+...+
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 478899999999999887766543
No 292
>PF13173 AAA_14: AAA domain
Probab=93.24 E-value=0.086 Score=49.68 Aligned_cols=26 Identities=31% Similarity=0.667 Sum_probs=22.8
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+++|.||.|+|||+++..++..+.
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~ 27 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL 27 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc
Confidence 46899999999999999998887665
No 293
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=93.21 E-value=0.072 Score=51.71 Aligned_cols=20 Identities=40% Similarity=0.624 Sum_probs=15.7
Q ss_pred eEEEEcCCCCChhhHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li 293 (824)
...|.|||||||||+...+.
T Consensus 2 ~ItIsG~pGsG~TTva~~lA 21 (179)
T COG1102 2 VITISGLPGSGKTTVARELA 21 (179)
T ss_pred EEEeccCCCCChhHHHHHHH
Confidence 35689999999998766554
No 294
>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=93.20 E-value=0.089 Score=55.23 Aligned_cols=31 Identities=29% Similarity=0.472 Sum_probs=26.0
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
++....+++|.||||||||+.+..++..++.
T Consensus 9 Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~ 39 (242)
T cd00984 9 GLQPGDLIIIAARPSMGKTAFALNIAENIAK 39 (242)
T ss_pred CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 5555569999999999999999998877664
No 295
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.20 E-value=0.73 Score=50.66 Aligned_cols=42 Identities=31% Similarity=0.312 Sum_probs=32.9
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhH-HHHHHHHHHh
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQT-ILGLLSAILH 298 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~t-i~~li~~ll~ 298 (824)
..++-|.+||=.+|... -+++-.--|+|||-+ ++-++..||+
T Consensus 83 ~PT~IQ~~aiP~~L~g~-dvIglAeTGSGKT~afaLPIl~~LL~ 125 (476)
T KOG0330|consen 83 KPTKIQSEAIPVALGGR-DVIGLAETGSGKTGAFALPILQRLLQ 125 (476)
T ss_pred CCchhhhhhcchhhCCC-cEEEEeccCCCchhhhHHHHHHHHHc
Confidence 56788999999999754 688889999999976 4455666654
No 296
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=93.20 E-value=0.079 Score=57.29 Aligned_cols=26 Identities=31% Similarity=0.578 Sum_probs=22.6
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+.+|.||+|+|||||++.+...+.
T Consensus 194 ~~vi~~vGptGvGKTTt~~kLa~~~~ 219 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLAKLAARFV 219 (282)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 34888999999999999999987765
No 297
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=93.18 E-value=0.066 Score=52.61 Aligned_cols=20 Identities=45% Similarity=0.778 Sum_probs=15.4
Q ss_pred eEEEEcCCCCChhhHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~ 294 (824)
..+|.|.|||||||+. .+++
T Consensus 2 ~I~ITGTPGvGKTT~~-~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVC-KLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHH-HHHH
Confidence 4789999999999754 4443
No 298
>PRK05642 DNA replication initiation factor; Validated
Probab=93.16 E-value=0.084 Score=55.45 Aligned_cols=25 Identities=12% Similarity=0.313 Sum_probs=20.9
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
...+|+||+|||||+.+.++...+.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~ 70 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFE 70 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHH
Confidence 4689999999999999888766554
No 299
>PRK00131 aroK shikimate kinase; Reviewed
Probab=93.16 E-value=0.087 Score=51.96 Aligned_cols=24 Identities=21% Similarity=0.160 Sum_probs=19.3
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
....+|.||||||||++...+...
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~ 27 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKR 27 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHH
Confidence 457899999999999977766544
No 300
>PRK08939 primosomal protein DnaI; Reviewed
Probab=93.12 E-value=0.075 Score=58.07 Aligned_cols=25 Identities=16% Similarity=0.288 Sum_probs=22.3
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
-.+|.||||||||+.+.++...+..
T Consensus 158 gl~L~G~~G~GKThLa~Aia~~l~~ 182 (306)
T PRK08939 158 GLYLYGDFGVGKSYLLAAIANELAK 182 (306)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4889999999999999999888764
No 301
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=93.12 E-value=0.4 Score=58.85 Aligned_cols=35 Identities=23% Similarity=0.411 Sum_probs=30.1
Q ss_pred HHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 259 ASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 259 ~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
-.++++|..++..+.+++|.|-+|+||||-+-..+
T Consensus 175 ~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfi 209 (924)
T KOG0920|consen 175 YKMRDTILDAIEENQVVVISGETGCGKTTQVPQFI 209 (924)
T ss_pred HHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHH
Confidence 45778888888888999999999999999887655
No 302
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=93.10 E-value=0.11 Score=54.23 Aligned_cols=40 Identities=33% Similarity=0.377 Sum_probs=28.6
Q ss_pred HHHHHHHHHhh----c--CCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 259 ASQLEAIHEGL----L--RKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 259 ~sQ~~AI~~~l----~--~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+.|++++..-. . ...-+|++|+.|||||+++.+++..+..
T Consensus 33 e~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~ 78 (249)
T PF05673_consen 33 ERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYAD 78 (249)
T ss_pred HHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhh
Confidence 55666665311 1 1245999999999999999998876643
No 303
>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=93.09 E-value=0.23 Score=54.48 Aligned_cols=30 Identities=33% Similarity=0.485 Sum_probs=24.9
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+-+..+++|.||||||||+....++....
T Consensus 51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~ 80 (321)
T TIGR02012 51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQ 80 (321)
T ss_pred CCcCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 555567999999999999999888776654
No 304
>PRK14527 adenylate kinase; Provisional
Probab=93.08 E-value=0.087 Score=53.37 Aligned_cols=24 Identities=33% Similarity=0.624 Sum_probs=19.6
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~ 294 (824)
...+.+|.||||+||||....+..
T Consensus 5 ~~~~i~i~G~pGsGKsT~a~~La~ 28 (191)
T PRK14527 5 KNKVVIFLGPPGAGKGTQAERLAQ 28 (191)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHH
Confidence 456899999999999987776643
No 305
>PRK13342 recombination factor protein RarA; Reviewed
Probab=93.04 E-value=0.075 Score=60.77 Aligned_cols=22 Identities=36% Similarity=0.594 Sum_probs=18.1
Q ss_pred CeEEEEcCCCCChhhHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~ 294 (824)
+..+|+||||||||+++..+..
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~ 58 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAG 58 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 4688899999999998876643
No 306
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.01 E-value=0.11 Score=61.03 Aligned_cols=24 Identities=29% Similarity=0.239 Sum_probs=20.2
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..|++||||||||+++..+...+.
T Consensus 40 a~Lf~Gp~GvGKTTlAr~lAk~L~ 63 (546)
T PRK14957 40 AYLFTGTRGVGKTTLGRLLAKCLN 63 (546)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhC
Confidence 478999999999998888776654
No 307
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.01 E-value=0.11 Score=59.11 Aligned_cols=24 Identities=25% Similarity=0.247 Sum_probs=20.2
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
-.|++||||+|||+++..+...++
T Consensus 40 a~lf~Gp~G~GKtt~A~~~a~~l~ 63 (397)
T PRK14955 40 GYIFSGLRGVGKTTAARVFAKAVN 63 (397)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 488999999999998888776664
No 308
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=93.00 E-value=0.099 Score=63.57 Aligned_cols=23 Identities=30% Similarity=0.537 Sum_probs=18.8
Q ss_pred CeEEEEcCCCCChhhHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
+..+|+||||||||+++..+...
T Consensus 53 ~slLL~GPpGtGKTTLA~aIA~~ 75 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARIIANH 75 (725)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 46899999999999887766543
No 309
>PRK08118 topology modulation protein; Reviewed
Probab=92.92 E-value=0.084 Score=52.38 Aligned_cols=19 Identities=26% Similarity=0.455 Sum_probs=15.1
Q ss_pred EEEEcCCCCChhhHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li 293 (824)
.+|.||||+||||....|.
T Consensus 4 I~I~G~~GsGKSTlak~L~ 22 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLG 22 (167)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6899999999997555543
No 310
>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=92.88 E-value=0.076 Score=51.33 Aligned_cols=21 Identities=24% Similarity=0.469 Sum_probs=16.9
Q ss_pred eEEEEcCCCCChhhHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~ 294 (824)
+.+|.||||+||||+...+..
T Consensus 1 li~l~G~~GsGKST~a~~l~~ 21 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAE 21 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHh
Confidence 468999999999987776543
No 311
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=92.87 E-value=0.13 Score=59.97 Aligned_cols=25 Identities=28% Similarity=0.284 Sum_probs=21.5
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+..|++||||||||+++..+...+.
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Ln 68 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVN 68 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhc
Confidence 4689999999999999988877664
No 312
>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=92.80 E-value=0.072 Score=62.38 Aligned_cols=22 Identities=45% Similarity=0.643 Sum_probs=18.5
Q ss_pred eEEEEcCCCCChhhHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ 295 (824)
-.|+.||||||||+++.++...
T Consensus 90 giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred cEEEECCCCCCHHHHHHHHHHH
Confidence 3899999999999988877543
No 313
>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=92.79 E-value=0.095 Score=54.40 Aligned_cols=31 Identities=32% Similarity=0.318 Sum_probs=25.2
Q ss_pred HhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 267 EGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 267 ~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+....++.|.||||+|||+.+..++...+
T Consensus 14 GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~ 44 (226)
T cd01393 14 GGIPTGRITEIFGEFGSGKTQLCLQLAVEAQ 44 (226)
T ss_pred CCCcCCcEEEEeCCCCCChhHHHHHHHHHhh
Confidence 3455567999999999999999998876654
No 314
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=92.78 E-value=0.096 Score=54.79 Aligned_cols=39 Identities=31% Similarity=0.382 Sum_probs=28.6
Q ss_pred CHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 258 NASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 258 N~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
++.=-.++..|++..-...+.||+|||||.|+..+...+
T Consensus 18 t~r~~~~l~~al~~~~~~~~~GpagtGKtetik~La~~l 56 (231)
T PF12774_consen 18 TDRCFLTLTQALSLNLGGALSGPAGTGKTETIKDLARAL 56 (231)
T ss_dssp HHHHHHHHHHHHCTTTEEEEESSTTSSHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHhccCCCCCCcCCCCCCchhHHHHHHHHh
Confidence 333344566667666677899999999999999876543
No 315
>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=92.75 E-value=0.48 Score=57.16 Aligned_cols=45 Identities=24% Similarity=0.232 Sum_probs=30.1
Q ss_pred CCcEEEEcCccchhhHHhhc---------CCCcCEEEEcCCCCCCchhhHhhhh
Q 003388 461 EAVIVCSTLSFSGSALLSKL---------NHGFDVVIIDEAAQAVEPATLVPLA 505 (824)
Q Consensus 461 ~a~IV~sTls~s~~~~~~~~---------~~~fd~vIIDEAsq~~e~~~lipL~ 505 (824)
.++|+++|.+-.|..++..- ...+.++|||||-.+.--+.-.||.
T Consensus 145 ~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs~LIDeaRtpLi 198 (745)
T TIGR00963 145 ACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDSILIDEARTPLI 198 (745)
T ss_pred CCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHHHHhHHhhhhHHh
Confidence 48999999976555444321 2568999999987765434444553
No 316
>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=92.75 E-value=0.19 Score=58.70 Aligned_cols=28 Identities=36% Similarity=0.444 Sum_probs=22.6
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.+-+...+||.||||||||+....++..
T Consensus 17 Glp~g~~~Li~G~pGsGKT~la~qfl~~ 44 (484)
T TIGR02655 17 GLPIGRSTLVSGTSGTGKTLFSIQFLYN 44 (484)
T ss_pred CCCCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence 3445678999999999999988887654
No 317
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=92.73 E-value=0.32 Score=55.03 Aligned_cols=40 Identities=35% Similarity=0.491 Sum_probs=31.9
Q ss_pred HHHHH---HHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 259 ASQLE---AIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 259 ~sQ~~---AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
|.|.+ -++.+|..+|..|+.=|.|||||-+++.++.+...
T Consensus 19 PEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~ 61 (755)
T KOG1131|consen 19 PEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQL 61 (755)
T ss_pred HHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHH
Confidence 45543 45678888999999999999999999888766544
No 318
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=92.71 E-value=0.43 Score=59.28 Aligned_cols=36 Identities=25% Similarity=0.351 Sum_probs=32.1
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~ 290 (824)
..||.-|-....+|+....-.|+.||.|.|||-+.+
T Consensus 308 ~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAv 343 (1674)
T KOG0951|consen 308 QSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAV 343 (1674)
T ss_pred hhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHH
Confidence 459999999999999888899999999999998654
No 319
>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=92.66 E-value=0.25 Score=55.53 Aligned_cols=30 Identities=33% Similarity=0.664 Sum_probs=24.3
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+....+++|.||||+|||+.+..+...+.
T Consensus 78 Gi~~GslvLI~G~pG~GKStLllq~a~~~a 107 (372)
T cd01121 78 GLVPGSVILIGGDPGIGKSTLLLQVAARLA 107 (372)
T ss_pred CccCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 444567999999999999999988876553
No 320
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=92.64 E-value=0.15 Score=58.65 Aligned_cols=25 Identities=24% Similarity=0.372 Sum_probs=21.9
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..+|+||||||||+.+.++...+..
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~ 156 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQ 156 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHH
Confidence 5899999999999999888877764
No 321
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=92.62 E-value=0.2 Score=58.17 Aligned_cols=27 Identities=26% Similarity=0.465 Sum_probs=21.0
Q ss_pred HHHhhcCCCeEEEEcCCCCChhhHHHH
Q 003388 265 IHEGLLRKAFVLIQGPPGTGKTQTILG 291 (824)
Q Consensus 265 I~~~l~~~~~~LIqGPPGTGKT~ti~~ 291 (824)
+..++....+.+|.|-+|+||||-|-.
T Consensus 273 ll~av~e~QVLiI~GeTGSGKTTQiPQ 299 (902)
T KOG0923|consen 273 LLKAVKEHQVLIIVGETGSGKTTQIPQ 299 (902)
T ss_pred HHHHHHhCcEEEEEcCCCCCccccccH
Confidence 334444567999999999999997764
No 322
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=92.62 E-value=0.17 Score=58.56 Aligned_cols=26 Identities=31% Similarity=0.381 Sum_probs=22.3
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+..+|+||||||||+.+.++...+..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~ 174 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILE 174 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 45899999999999999988877764
No 323
>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=92.60 E-value=0.3 Score=61.15 Aligned_cols=33 Identities=33% Similarity=0.454 Sum_probs=26.9
Q ss_pred CCCHHHHH---HHHHhhcCCCeEEEEcCCCCChhhH
Q 003388 256 NHNASQLE---AIHEGLLRKAFVLIQGPPGTGKTQT 288 (824)
Q Consensus 256 ~lN~sQ~~---AI~~~l~~~~~~LIqGPPGTGKT~t 288 (824)
...+.|.+ +|..++......+|++|+|||||-.
T Consensus 245 ~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~a 280 (850)
T TIGR01407 245 EYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLG 280 (850)
T ss_pred ccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHH
Confidence 46789997 6666777677899999999999864
No 324
>PRK11823 DNA repair protein RadA; Provisional
Probab=92.60 E-value=0.24 Score=57.19 Aligned_cols=30 Identities=37% Similarity=0.667 Sum_probs=24.3
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+....+++|.||||+|||+.+..++..+.
T Consensus 76 Gi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a 105 (446)
T PRK11823 76 GLVPGSVVLIGGDPGIGKSTLLLQVAARLA 105 (446)
T ss_pred CccCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence 455567999999999999999988876543
No 325
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=92.58 E-value=0.11 Score=50.56 Aligned_cols=24 Identities=33% Similarity=0.672 Sum_probs=20.2
Q ss_pred EEEEcCCCCChhhHHHHHHHHHHh
Q 003388 275 VLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..|.||||.||||.+.-++..|-.
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~ 31 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLRE 31 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHh
Confidence 689999999999998888766643
No 326
>PRK04040 adenylate kinase; Provisional
Probab=92.56 E-value=0.1 Score=52.84 Aligned_cols=24 Identities=33% Similarity=0.603 Sum_probs=19.6
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+.+|.|+||+||||.+..+...+
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHh
Confidence 368999999999999887776544
No 327
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=92.54 E-value=0.079 Score=52.10 Aligned_cols=21 Identities=43% Similarity=0.642 Sum_probs=15.3
Q ss_pred EEEEcCCCCChhhHHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~ 295 (824)
..|.|+|||||||++..|...
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 478999999999988776543
No 328
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=92.52 E-value=0.073 Score=61.34 Aligned_cols=23 Identities=39% Similarity=0.678 Sum_probs=18.7
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
=+|++||||+|||...-++...+
T Consensus 225 GvLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 225 GVLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred ceeeeCCCCccHHHHHHHHhhhc
Confidence 38999999999999777765543
No 329
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.49 E-value=0.24 Score=58.21 Aligned_cols=30 Identities=33% Similarity=0.548 Sum_probs=24.6
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+-...+++|.||||||||+....++...+
T Consensus 269 G~~~g~~~li~G~~G~GKT~l~~~~~~~~~ 298 (509)
T PRK09302 269 GFFRGSIILVSGATGTGKTLLASKFAEAAC 298 (509)
T ss_pred CCCCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 455567999999999999999988876554
No 330
>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=92.47 E-value=0.11 Score=51.95 Aligned_cols=23 Identities=22% Similarity=0.411 Sum_probs=18.8
Q ss_pred CeEEEEcCCCCChhhHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.+.+|.||||+||||++-.|...
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~ 24 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARAR 24 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 37899999999999988866543
No 331
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=92.45 E-value=0.47 Score=61.67 Aligned_cols=22 Identities=18% Similarity=0.250 Sum_probs=18.3
Q ss_pred ccEEEEEcCchhHHHHHHHHHH
Q 003388 373 RVRVLVCAPSNSALDEIVLRLL 394 (824)
Q Consensus 373 ~~rILv~ApSN~AvDei~~Rl~ 394 (824)
+.++|+++|+.+=+.++.++|.
T Consensus 37 ~~raLYISPLKALa~Dv~~~L~ 58 (1490)
T PRK09751 37 TSRILYISPIKALGTDVQRNLQ 58 (1490)
T ss_pred CCEEEEEeChHHHHHHHHHHHH
Confidence 4699999999998888887764
No 332
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=92.45 E-value=0.27 Score=60.02 Aligned_cols=39 Identities=28% Similarity=0.359 Sum_probs=29.5
Q ss_pred CHHHHH---HHHHhhcC-----CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 258 NASQLE---AIHEGLLR-----KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 258 N~sQ~~---AI~~~l~~-----~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
=+.|.+ +|..++.. +.+.+|.+|.||||| ++.|+-+++.
T Consensus 27 R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKT--laYLlPai~~ 73 (697)
T PRK11747 27 RAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKT--LSYLLAGIPI 73 (697)
T ss_pred CHHHHHHHHHHHHHHhcccccccceEEEECCCCcchh--HHHHHHHHHH
Confidence 366776 77777775 478999999999997 5666666654
No 333
>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=92.44 E-value=0.095 Score=52.52 Aligned_cols=22 Identities=41% Similarity=0.570 Sum_probs=19.7
Q ss_pred CeEEEEcCCCCChhhHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~ 294 (824)
|+++|.|..|+||||+|..++.
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~ 22 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK 22 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH
T ss_pred CEEEEEcCCCCCHHHHHHHHHH
Confidence 5899999999999999999886
No 334
>PRK13764 ATPase; Provisional
Probab=92.43 E-value=0.14 Score=60.68 Aligned_cols=27 Identities=33% Similarity=0.466 Sum_probs=22.7
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+..||.|||||||||++.+++..+.
T Consensus 256 ~~~~ILIsG~TGSGKTTll~AL~~~i~ 282 (602)
T PRK13764 256 RAEGILIAGAPGAGKSTFAQALAEFYA 282 (602)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHh
Confidence 356689999999999999999886653
No 335
>PRK03839 putative kinase; Provisional
Probab=92.38 E-value=0.11 Score=51.86 Aligned_cols=22 Identities=36% Similarity=0.522 Sum_probs=16.8
Q ss_pred eEEEEcCCCCChhhHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ 295 (824)
..+|.||||+||||....+...
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~ 23 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEK 23 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3678899999999876655443
No 336
>PRK14531 adenylate kinase; Provisional
Probab=92.34 E-value=0.11 Score=52.21 Aligned_cols=22 Identities=41% Similarity=0.647 Sum_probs=17.5
Q ss_pred eEEEEcCCCCChhhHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ 295 (824)
-.+|.|||||||||....+...
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~ 25 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAA 25 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4788999999999976665443
No 337
>PRK06762 hypothetical protein; Provisional
Probab=92.32 E-value=0.12 Score=50.88 Aligned_cols=23 Identities=30% Similarity=0.551 Sum_probs=18.7
Q ss_pred CeEEEEcCCCCChhhHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.+.+|.|+||+||||....+...
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~ 25 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQER 25 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 47899999999999877766544
No 338
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=92.28 E-value=0.14 Score=48.90 Aligned_cols=20 Identities=45% Similarity=0.614 Sum_probs=15.7
Q ss_pred CCCeEEEEcCCCCChhhHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~ 290 (824)
....++|+|+|||||+.++.
T Consensus 20 ~~~pvli~GE~GtGK~~~A~ 39 (138)
T PF14532_consen 20 SSSPVLITGEPGTGKSLLAR 39 (138)
T ss_dssp SSS-EEEECCTTSSHHHHHH
T ss_pred CCCcEEEEcCCCCCHHHHHH
Confidence 45679999999999998543
No 339
>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=92.27 E-value=0.33 Score=55.44 Aligned_cols=26 Identities=31% Similarity=0.360 Sum_probs=22.3
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+.+.++.||||+|||||++.+...+.
T Consensus 99 p~vi~~vG~~GsGKTTtaakLA~~l~ 124 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTCGKLAYYLK 124 (428)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHH
Confidence 34799999999999999999987653
No 340
>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=92.27 E-value=0.15 Score=51.41 Aligned_cols=26 Identities=38% Similarity=0.542 Sum_probs=22.5
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
...|+.||||+|||+++..++..++.
T Consensus 15 ~~~L~~G~~G~gkt~~a~~~~~~l~~ 40 (188)
T TIGR00678 15 HAYLFAGPEGVGKELLALALAKALLC 40 (188)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 46999999999999999988877763
No 341
>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=92.25 E-value=0.12 Score=59.00 Aligned_cols=26 Identities=31% Similarity=0.409 Sum_probs=22.2
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
...+|.||||||||+.+.++...+..
T Consensus 137 n~l~l~G~~G~GKThL~~ai~~~l~~ 162 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAIGNEILE 162 (405)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHH
Confidence 35789999999999999888877764
No 342
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=92.25 E-value=0.36 Score=59.20 Aligned_cols=44 Identities=25% Similarity=0.269 Sum_probs=30.8
Q ss_pred CCcEEEEcCccchhhHHhhc---------CCCcCEEEEcCCCCCCchhhHhhh
Q 003388 461 EAVIVCSTLSFSGSALLSKL---------NHGFDVVIIDEAAQAVEPATLVPL 504 (824)
Q Consensus 461 ~a~IV~sTls~s~~~~~~~~---------~~~fd~vIIDEAsq~~e~~~lipL 504 (824)
.++|+++|.+-.|..++..- ...+.++|||||-.+.--++-.||
T Consensus 171 ~~dIvygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsiLIDeArtPL 223 (896)
T PRK13104 171 KADIVYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSILIDEARTPL 223 (896)
T ss_pred CCCEEEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhhhhhccCCce
Confidence 68999999977666555432 147899999999876544444444
No 343
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=92.24 E-value=0.092 Score=54.42 Aligned_cols=21 Identities=57% Similarity=0.722 Sum_probs=17.8
Q ss_pred CCeEEEEcCCCCChhhHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~l 292 (824)
+..+||.|+||||||+++..+
T Consensus 12 ~~~~liyG~~G~GKtt~a~~~ 32 (220)
T TIGR01618 12 PNMYLIYGKPGTGKTSTIKYL 32 (220)
T ss_pred CcEEEEECCCCCCHHHHHHhc
Confidence 457999999999999977654
No 344
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=92.23 E-value=0.31 Score=59.19 Aligned_cols=113 Identities=10% Similarity=0.147 Sum_probs=64.7
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCCCeEEEEcCcHHHHHHHHHHHhhhhCC-----CCCcceEEecCCCCCCccccEEEEEe
Q 003388 621 DEVDFVLLLFHKLISMYPQLKSSSQLAIISPYRHQVKQFQERFKETFGV-----ESQKVVDITTVDGCQGREKDVAIFSC 695 (824)
Q Consensus 621 ~Ea~~v~~lv~~L~~~~~~~~~~~~IgIItpY~~Q~~~i~~~l~~~~~~-----~~~~~v~V~TVd~fQG~E~diVIlS~ 695 (824)
.....+...+..+.... +..+.|+.|-....+.+.+.+...... ....... ..+..|+-.... .+..
T Consensus 462 ~~~~~~~~~i~~~~~~~-----~~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~~~~-~~l~~f~~~~~~--~~lv 533 (654)
T COG1199 462 ELLAKLAAYLREILKAS-----PGGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGEDERE-ELLEKFKASGEG--LILV 533 (654)
T ss_pred HHHHHHHHHHHHHHhhc-----CCCEEEEeccHHHHHHHHHHHhhcCccceeeecCCCcHH-HHHHHHHHhcCC--eEEE
Confidence 45555666666666654 346888888777777777777653210 0000000 234444444333 2222
Q ss_pred eecCCCCcccccCCCCeeEeeeecccceEEEEecCccccCCchHHHHHHHHHHcCc
Q 003388 696 VRASDKKSIGFLADYRRMNVGITRAKSSILVVGCASTLREDKHWNNLVKSAEKQDC 751 (824)
Q Consensus 696 vrs~~~~~igfl~d~rrlNVAlTRAk~~LiIvG~~~~L~~~~~w~~li~~~~~~~~ 751 (824)
.+..-..++.|-.+. =++++|+|=+-.--.++.++.-..++++.|.
T Consensus 534 ~~gsf~EGVD~~g~~----------l~~vvI~~lPfp~p~dp~~~~r~~~~~~~g~ 579 (654)
T COG1199 534 GGGSFWEGVDFPGDA----------LRLVVIVGLPFPNPDDPLLKARLEFLKRLGG 579 (654)
T ss_pred eeccccCcccCCCCC----------eeEEEEEecCCCCCCCHHHHHHHHHHHHhcC
Confidence 333334566665543 2567788877665678888888888888765
No 345
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=92.18 E-value=0.19 Score=60.24 Aligned_cols=34 Identities=26% Similarity=0.488 Sum_probs=25.8
Q ss_pred HHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 262 LEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 262 ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.+++..++....+.+|.||||||||+++..+...
T Consensus 40 ~~~L~~~~~~~~~~l~~G~~G~GKttla~~l~~~ 73 (637)
T PRK13765 40 VEVIKKAAKQRRHVMMIGSPGTGKSMLAKAMAEL 73 (637)
T ss_pred HHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHH
Confidence 3345555555679999999999999988876644
No 346
>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=92.18 E-value=0.19 Score=54.87 Aligned_cols=26 Identities=31% Similarity=0.378 Sum_probs=22.3
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..++.|.||||+|||+++..++..+.
T Consensus 34 ~~~i~i~G~~G~GKttl~~~l~~~~~ 59 (300)
T TIGR00750 34 AHRVGITGTPGAGKSTLLEALGMELR 59 (300)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHH
Confidence 56889999999999999999887654
No 347
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.18 E-value=0.18 Score=56.59 Aligned_cols=39 Identities=23% Similarity=0.296 Sum_probs=27.7
Q ss_pred CHHHHHHHHHhhcC---CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 258 NASQLEAIHEGLLR---KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 258 N~sQ~~AI~~~l~~---~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
++...+.+...+.. .+..|++||||+|||+++..+...+
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l 63 (367)
T PRK14970 22 QSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKI 63 (367)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 45555666665543 2468999999999998888775444
No 348
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=92.15 E-value=0.12 Score=56.26 Aligned_cols=25 Identities=44% Similarity=0.719 Sum_probs=21.0
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.-.||-||||||||-.++++...|=
T Consensus 66 rgiLi~GppgTGKTAlA~gIa~eLG 90 (450)
T COG1224 66 RGILIVGPPGTGKTALAMGIARELG 90 (450)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHhC
Confidence 4689999999999998888876653
No 349
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=92.15 E-value=0.18 Score=55.23 Aligned_cols=25 Identities=44% Similarity=0.749 Sum_probs=22.4
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..|+.||||||||+++..+...++.
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~ 50 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLC 50 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhC
Confidence 4999999999999999999888764
No 350
>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=92.14 E-value=0.11 Score=52.33 Aligned_cols=20 Identities=40% Similarity=0.753 Sum_probs=16.1
Q ss_pred EEEEcCCCCChhhHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~ 294 (824)
.+|.||||||||+....|..
T Consensus 2 I~i~G~pGsGKst~a~~La~ 21 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAK 21 (194)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 58999999999987766543
No 351
>COG3911 Predicted ATPase [General function prediction only]
Probab=92.12 E-value=0.12 Score=49.37 Aligned_cols=22 Identities=32% Similarity=0.582 Sum_probs=19.0
Q ss_pred CCeEEEEcCCCCChhhHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li 293 (824)
..+++|.|.||.|||+.+.++-
T Consensus 9 ~~~fIltGgpGaGKTtLL~aLa 30 (183)
T COG3911 9 HKRFILTGGPGAGKTTLLAALA 30 (183)
T ss_pred ceEEEEeCCCCCcHHHHHHHHH
Confidence 4589999999999999887764
No 352
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=92.11 E-value=0.16 Score=59.96 Aligned_cols=24 Identities=33% Similarity=0.400 Sum_probs=20.8
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..|++||||||||+++..+...++
T Consensus 40 A~Lf~GP~GvGKTTlA~~lAk~L~ 63 (605)
T PRK05896 40 AYIFSGPRGIGKTSIAKIFAKAIN 63 (605)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 478999999999999888877765
No 353
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=92.07 E-value=0.12 Score=58.50 Aligned_cols=34 Identities=32% Similarity=0.385 Sum_probs=22.4
Q ss_pred HHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 260 SQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 260 sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
.=++|+.-|.....-.|+.||||||||.++..+-
T Consensus 186 ~AKrAleiAAAGgHnLl~~GpPGtGKTmla~Rl~ 219 (490)
T COG0606 186 QAKRALEIAAAGGHNLLLVGPPGTGKTMLASRLP 219 (490)
T ss_pred HHHHHHHHHHhcCCcEEEecCCCCchHHhhhhhc
Confidence 3345554443333457889999999998776553
No 354
>PRK14530 adenylate kinase; Provisional
Probab=92.07 E-value=0.14 Score=53.00 Aligned_cols=22 Identities=32% Similarity=0.536 Sum_probs=17.5
Q ss_pred CeEEEEcCCCCChhhHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~ 294 (824)
+..+|.||||+||||....|..
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La~ 25 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLAE 25 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHHH
Confidence 4688899999999987766543
No 355
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=92.04 E-value=0.12 Score=58.57 Aligned_cols=26 Identities=42% Similarity=0.763 Sum_probs=22.1
Q ss_pred Ce-EEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AF-VLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~-~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+| +.|.|||||||||.|..+|..+-+
T Consensus 69 PfIvavvGPpGtGKsTLirSlVrr~tk 95 (1077)
T COG5192 69 PFIVAVVGPPGTGKSTLIRSLVRRFTK 95 (1077)
T ss_pred CeEEEeecCCCCChhHHHHHHHHHHHH
Confidence 44 448999999999999999988765
No 356
>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=92.01 E-value=0.16 Score=54.74 Aligned_cols=35 Identities=29% Similarity=0.345 Sum_probs=26.1
Q ss_pred HHHHHHHHhhcC----CCeEEEEcCCCCChhhHHHHHHH
Q 003388 260 SQLEAIHEGLLR----KAFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 260 sQ~~AI~~~l~~----~~~~LIqGPPGTGKT~ti~~li~ 294 (824)
...+.|...|.. ..++.|+|+||+|||+.+..+..
T Consensus 3 ~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~ 41 (287)
T PF00931_consen 3 KEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVAR 41 (287)
T ss_dssp HHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHC
T ss_pred HHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccc
Confidence 445556555543 57899999999999998877653
No 357
>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=91.99 E-value=0.29 Score=53.75 Aligned_cols=30 Identities=27% Similarity=0.419 Sum_probs=24.3
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+-...+++|.||||||||+....++....
T Consensus 51 Glp~G~iteI~Gp~GsGKTtLal~~~~~~~ 80 (325)
T cd00983 51 GYPKGRIIEIYGPESSGKTTLALHAIAEAQ 80 (325)
T ss_pred CccCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 455567999999999999999888776543
No 358
>PLN02200 adenylate kinase family protein
Probab=91.99 E-value=0.13 Score=54.00 Aligned_cols=22 Identities=23% Similarity=0.477 Sum_probs=18.2
Q ss_pred CeEEEEcCCCCChhhHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~ 294 (824)
-+.+|.|||||||||....+..
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~ 65 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVE 65 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHH
Confidence 4689999999999997776654
No 359
>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=91.97 E-value=1.5 Score=46.62 Aligned_cols=34 Identities=26% Similarity=0.347 Sum_probs=26.2
Q ss_pred HHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 265 IHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 265 I~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+...+.+..+++|-|+||.|||+.+..++..++.
T Consensus 12 ~lgG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~ 45 (259)
T PF03796_consen 12 LLGGLRPGELTVIAARPGVGKTAFALQIALNAAL 45 (259)
T ss_dssp HHSSB-TT-EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred HhcCCCcCcEEEEEecccCCchHHHHHHHHHHHH
Confidence 3345556679999999999999999999877754
No 360
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.94 E-value=0.2 Score=58.04 Aligned_cols=24 Identities=25% Similarity=0.317 Sum_probs=19.7
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
-.|++||||||||+++..+...+.
T Consensus 37 a~Lf~Gp~G~GKTT~ArilAk~Ln 60 (491)
T PRK14964 37 SILLVGASGVGKTTCARIISLCLN 60 (491)
T ss_pred eEEEECCCCccHHHHHHHHHHHHc
Confidence 589999999999998776655554
No 361
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=91.93 E-value=0.11 Score=57.06 Aligned_cols=22 Identities=45% Similarity=0.573 Sum_probs=17.1
Q ss_pred CCeEEEEcCCCCChhhHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li 293 (824)
..=+|..||||||||....++.
T Consensus 245 WkgvLm~GPPGTGKTlLAKAvA 266 (491)
T KOG0738|consen 245 WKGVLMVGPPGTGKTLLAKAVA 266 (491)
T ss_pred cceeeeeCCCCCcHHHHHHHHH
Confidence 3348899999999998766653
No 362
>PRK14532 adenylate kinase; Provisional
Probab=91.89 E-value=0.12 Score=52.07 Aligned_cols=20 Identities=30% Similarity=0.642 Sum_probs=16.3
Q ss_pred EEEEcCCCCChhhHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~ 294 (824)
.+|.|||||||||....+..
T Consensus 3 i~~~G~pGsGKsT~a~~la~ 22 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVE 22 (188)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 67899999999997766643
No 363
>PRK05541 adenylylsulfate kinase; Provisional
Probab=91.89 E-value=0.17 Score=50.48 Aligned_cols=25 Identities=28% Similarity=0.422 Sum_probs=20.6
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..+.+|.||||+||||.+..+...+
T Consensus 7 ~~~I~i~G~~GsGKst~a~~l~~~l 31 (176)
T PRK05541 7 GYVIWITGLAGSGKTTIAKALYERL 31 (176)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence 4589999999999999887776555
No 364
>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=91.83 E-value=0.12 Score=50.86 Aligned_cols=18 Identities=28% Similarity=0.517 Sum_probs=14.3
Q ss_pred EEEcCCCCChhhHHHHHH
Q 003388 276 LIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 276 LIqGPPGTGKT~ti~~li 293 (824)
+|.||||+||||+...+.
T Consensus 2 ~l~G~~GsGKSTla~~l~ 19 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALA 19 (163)
T ss_pred EEECCCCCCHHHHHHHHH
Confidence 578999999997666554
No 365
>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=91.80 E-value=0.15 Score=51.89 Aligned_cols=23 Identities=35% Similarity=0.556 Sum_probs=18.8
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+.-|.||||+||||+...|...|
T Consensus 1 IIgI~G~sgSGKTTla~~L~~~L 23 (194)
T PF00485_consen 1 IIGIAGPSGSGKTTLAKRLAQIL 23 (194)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 46799999999999887776554
No 366
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=91.78 E-value=0.13 Score=51.69 Aligned_cols=25 Identities=28% Similarity=0.538 Sum_probs=21.3
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+++++|.||-|||||+++-++..+|
T Consensus 19 ~g~~vi~G~Ng~GKStil~ai~~~L 43 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKSTILEAIRYAL 43 (202)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHH
Confidence 5899999999999999887765554
No 367
>PRK13768 GTPase; Provisional
Probab=91.77 E-value=0.2 Score=53.22 Aligned_cols=24 Identities=29% Similarity=0.397 Sum_probs=21.1
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+.+|.||+|+||||++..+...+.
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~ 27 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLE 27 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHH
Confidence 688999999999999998887664
No 368
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=91.76 E-value=0.15 Score=51.41 Aligned_cols=25 Identities=28% Similarity=0.535 Sum_probs=21.5
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
++.++.|+||+|||+...+++..|-
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~ 26 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELR 26 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHH
Confidence 5789999999999999999886653
No 369
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.75 E-value=0.16 Score=62.23 Aligned_cols=24 Identities=25% Similarity=0.265 Sum_probs=20.3
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..|+.||||||||+++..+...|.
T Consensus 40 AyLFtGPpGtGKTTLARiLAk~Ln 63 (944)
T PRK14949 40 AYLFTGTRGVGKTSLARLFAKGLN 63 (944)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcc
Confidence 469999999999999888776664
No 370
>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=91.73 E-value=0.17 Score=47.35 Aligned_cols=27 Identities=22% Similarity=0.272 Sum_probs=21.2
Q ss_pred CCe-EEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAF-VLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~-~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+++ ...+||||||||.+.--|...|..
T Consensus 52 KpLVlSfHG~tGtGKn~v~~liA~~ly~ 79 (127)
T PF06309_consen 52 KPLVLSFHGWTGTGKNFVSRLIAEHLYK 79 (127)
T ss_pred CCEEEEeecCCCCcHHHHHHHHHHHHHh
Confidence 444 447999999999988887777664
No 371
>PRK14528 adenylate kinase; Provisional
Probab=91.73 E-value=0.15 Score=51.61 Aligned_cols=20 Identities=35% Similarity=0.594 Sum_probs=16.4
Q ss_pred eEEEEcCCCCChhhHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li 293 (824)
..+|.||||+|||++...+.
T Consensus 3 ~i~i~G~pGsGKtt~a~~la 22 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILC 22 (186)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 47899999999998776554
No 372
>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=91.67 E-value=0.21 Score=52.39 Aligned_cols=25 Identities=40% Similarity=0.638 Sum_probs=20.3
Q ss_pred CCe-EEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAF-VLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~-~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+| .+|.||+|||||+++..++..+
T Consensus 12 ~~fr~viIG~sGSGKT~li~~lL~~~ 37 (241)
T PF04665_consen 12 DPFRMVIIGKSGSGKTTLIKSLLYYL 37 (241)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHhh
Confidence 344 6699999999999999987544
No 373
>PRK07261 topology modulation protein; Provisional
Probab=91.67 E-value=0.14 Score=50.90 Aligned_cols=19 Identities=32% Similarity=0.419 Sum_probs=16.3
Q ss_pred EEEEcCCCCChhhHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li 293 (824)
.+|.||||+||||.+..+.
T Consensus 3 i~i~G~~GsGKSTla~~l~ 21 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLS 21 (171)
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 6899999999999877654
No 374
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.66 E-value=0.97 Score=51.59 Aligned_cols=34 Identities=26% Similarity=0.265 Sum_probs=28.1
Q ss_pred cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHH
Q 003388 255 ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTI 289 (824)
Q Consensus 255 ~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti 289 (824)
...+.-|..||=..|..+ =+||..+-|||||-.-
T Consensus 158 ~~pTsVQkq~IP~lL~gr-D~lV~aQTGSGKTLAY 191 (708)
T KOG0348|consen 158 SAPTSVQKQAIPVLLEGR-DALVRAQTGSGKTLAY 191 (708)
T ss_pred CccchHhhcchhhhhcCc-ceEEEcCCCCcccHHH
Confidence 457888999999888754 5899999999998653
No 375
>PRK02496 adk adenylate kinase; Provisional
Probab=91.65 E-value=0.15 Score=51.24 Aligned_cols=20 Identities=35% Similarity=0.707 Sum_probs=16.3
Q ss_pred EEEEcCCCCChhhHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~ 294 (824)
.+|.||||+|||++...+..
T Consensus 4 i~i~G~pGsGKst~a~~la~ 23 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAE 23 (184)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 68899999999987766543
No 376
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=91.62 E-value=0.16 Score=52.39 Aligned_cols=36 Identities=31% Similarity=0.570 Sum_probs=26.7
Q ss_pred HHHHHHHhhcC--CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 261 QLEAIHEGLLR--KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 261 Q~~AI~~~l~~--~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..+.|...+.+ ...++|.||.|+|||+.+..++..+
T Consensus 7 el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 7 ELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL 44 (234)
T ss_dssp HHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred HHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence 34455555543 4789999999999999888777554
No 377
>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=91.59 E-value=0.16 Score=48.61 Aligned_cols=22 Identities=32% Similarity=0.560 Sum_probs=17.6
Q ss_pred eEEEEcCCCCChhhHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ 295 (824)
+.+|.||||||||++...|...
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~ 22 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKK 22 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 3689999999999987766543
No 378
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.57 E-value=0.22 Score=59.43 Aligned_cols=40 Identities=33% Similarity=0.478 Sum_probs=27.5
Q ss_pred CCHHHHHHHHHhhc-------CCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 257 HNASQLEAIHEGLL-------RKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 257 lN~sQ~~AI~~~l~-------~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.++.+.+.+...+. ...+.+|.||||||||+++..+...+
T Consensus 88 ~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l 134 (637)
T TIGR00602 88 VHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL 134 (637)
T ss_pred CcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 45555555554442 23469999999999999888776543
No 379
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=91.55 E-value=0.85 Score=53.98 Aligned_cols=27 Identities=22% Similarity=0.266 Sum_probs=22.5
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+..+++.=|==.|||..+..++..++.
T Consensus 254 qk~tVflVPRR~GKTwivv~iI~~ll~ 280 (738)
T PHA03368 254 QRATVFLVPRRHGKTWFLVPLIALALA 280 (738)
T ss_pred ccceEEEecccCCchhhHHHHHHHHHH
Confidence 567899999999999999977776654
No 380
>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=91.55 E-value=0.13 Score=53.80 Aligned_cols=28 Identities=32% Similarity=0.341 Sum_probs=23.3
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
++....++.|.||||||||+.+..++..
T Consensus 15 Gi~~g~i~~i~G~~GsGKT~l~~~l~~~ 42 (235)
T cd01123 15 GIETGSITEIFGEFGSGKTQLCHQLAVT 42 (235)
T ss_pred CCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4555679999999999999999887654
No 381
>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=91.55 E-value=0.18 Score=50.23 Aligned_cols=23 Identities=22% Similarity=0.426 Sum_probs=19.2
Q ss_pred CeEEEEcCCCCChhhHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.+.++.||||+||||....+...
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~~ 25 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQSV 25 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHHh
Confidence 48899999999999988776544
No 382
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.52 E-value=0.26 Score=54.90 Aligned_cols=27 Identities=30% Similarity=0.464 Sum_probs=22.9
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
...+.+|.||.|+|||||++.+...+.
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~l~ 231 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQLL 231 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 356899999999999999999876553
No 383
>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=91.51 E-value=0.14 Score=49.71 Aligned_cols=19 Identities=42% Similarity=0.691 Sum_probs=15.4
Q ss_pred EEcCCCCChhhHHHHHHHH
Q 003388 277 IQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 277 IqGPPGTGKT~ti~~li~~ 295 (824)
|.||||+|||+....|...
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 6799999999987776544
No 384
>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=91.49 E-value=0.18 Score=60.42 Aligned_cols=34 Identities=29% Similarity=0.446 Sum_probs=25.4
Q ss_pred HHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 263 EAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 263 ~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+++..++......++.||||||||+.+..+...+
T Consensus 28 ~~l~~a~~~~~~~ll~G~pG~GKT~la~~la~~l 61 (608)
T TIGR00764 28 EIIKKAAKQKRNVLLIGEPGVGKSMLAKAMAELL 61 (608)
T ss_pred HHHHHHHHcCCCEEEECCCCCCHHHHHHHHHHHc
Confidence 3445555556789999999999999888766443
No 385
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=91.45 E-value=0.17 Score=48.41 Aligned_cols=22 Identities=36% Similarity=0.632 Sum_probs=18.6
Q ss_pred CCeEEEEcCCCCChhhHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li 293 (824)
.|-.||.|-||||||++...+.
T Consensus 7 ~PNILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 7 RPNILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CCCEEEeCCCCCCchhHHHHHH
Confidence 3568999999999999887765
No 386
>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=91.41 E-value=0.39 Score=55.48 Aligned_cols=30 Identities=30% Similarity=0.665 Sum_probs=24.2
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+-...+++|.|+||+|||+.+..++..+.
T Consensus 90 Gi~~GsvilI~G~pGsGKTTL~lq~a~~~a 119 (454)
T TIGR00416 90 GIVPGSLILIGGDPGIGKSTLLLQVACQLA 119 (454)
T ss_pred CccCCeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 444567999999999999999988766553
No 387
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=91.41 E-value=0.2 Score=54.94 Aligned_cols=35 Identities=23% Similarity=0.385 Sum_probs=28.0
Q ss_pred HHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHH
Q 003388 260 SQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 260 sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~ 294 (824)
.+.+.+..++......+|.||+|+||||++..++.
T Consensus 132 ~~~~~l~~~v~~~~~ili~G~tGsGKTTll~al~~ 166 (308)
T TIGR02788 132 DIKEFLRLAIASRKNIIISGGTGSGKTTFLKSLVD 166 (308)
T ss_pred HHHHHHHHHhhCCCEEEEECCCCCCHHHHHHHHHc
Confidence 35566666777778999999999999999877654
No 388
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=91.38 E-value=1.7 Score=51.79 Aligned_cols=69 Identities=16% Similarity=0.247 Sum_probs=44.4
Q ss_pred HHHHHHHHhc--CCcEEEEcCccchhhHHhhcCCCcCEEEEcCCCCCCchhhHh-hhh---ccCceEEEEcCCCC
Q 003388 451 RDSIRSAILN--EAVIVCSTLSFSGSALLSKLNHGFDVVIIDEAAQAVEPATLV-PLA---TGCKQVFLVGDPVQ 519 (824)
Q Consensus 451 ~~~~~~~il~--~a~IV~sTls~s~~~~~~~~~~~fd~vIIDEAsq~~e~~~li-pL~---~~~~k~VLVGD~~Q 519 (824)
+..+++.++. ..+|++||.-.+-...-.-....+.++|||||..+--..+.+ -.. ....++.+.|=|-|
T Consensus 255 R~~~~r~~~~~~~fdV~iTsYEi~i~dk~~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQ 329 (971)
T KOG0385|consen 255 RAALRRDIMLPGRFDVCITSYEIAIKDKSFLKKFNWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQ 329 (971)
T ss_pred HHHHHHHhhccCCCceEeehHHHHHhhHHHHhcCCceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCccc
Confidence 4444455554 467888887554333111123578999999999986555433 322 34579999999999
No 389
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=91.38 E-value=0.14 Score=61.39 Aligned_cols=35 Identities=37% Similarity=0.604 Sum_probs=25.0
Q ss_pred CCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 257 HNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 257 lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
=|+.|-...=+-+ .+| +|+.||||||||-.+.++.
T Consensus 331 KNP~~Y~~lGAKi-PkG-vLL~GPPGTGKTLLAKAiA 365 (774)
T KOG0731|consen 331 KNPEQYQELGAKI-PKG-VLLVGPPGTGKTLLAKAIA 365 (774)
T ss_pred cCHHHHHHcCCcC-cCc-eEEECCCCCcHHHHHHHHh
Confidence 3787777765433 223 8899999999998776654
No 390
>PRK05480 uridine/cytidine kinase; Provisional
Probab=91.37 E-value=0.17 Score=51.99 Aligned_cols=26 Identities=23% Similarity=0.417 Sum_probs=20.2
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+..+..|.||+|+||||++..|...+
T Consensus 5 ~~~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 5 KPIIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 34579999999999998776665443
No 391
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=91.35 E-value=0.16 Score=52.01 Aligned_cols=21 Identities=38% Similarity=0.616 Sum_probs=18.2
Q ss_pred EEEEcCCCCChhhHHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~ 295 (824)
+||.||||+||||.+-.+...
T Consensus 140 tLiigpP~~GKTTlLRdiaR~ 160 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIARL 160 (308)
T ss_pred eEEecCCCCChHHHHHHHHHH
Confidence 899999999999988877543
No 392
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=91.33 E-value=0.23 Score=55.14 Aligned_cols=39 Identities=23% Similarity=0.323 Sum_probs=33.1
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~ 294 (824)
.+++.+.+.+..++...+..+|.||+|+|||+++..++.
T Consensus 162 ~~~~~~~~~L~~~v~~~~~ili~G~tGsGKTTll~al~~ 200 (340)
T TIGR03819 162 TFPPGVARLLRAIVAARLAFLISGGTGSGKTTLLSALLA 200 (340)
T ss_pred CCCHHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHc
Confidence 477888888888887788999999999999998877654
No 393
>PRK07667 uridine kinase; Provisional
Probab=91.32 E-value=0.24 Score=50.30 Aligned_cols=25 Identities=24% Similarity=0.343 Sum_probs=20.0
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.-++.|.||||+||||+...+...+
T Consensus 17 ~~iIgI~G~~gsGKStla~~L~~~l 41 (193)
T PRK07667 17 RFILGIDGLSRSGKTTFVANLKENM 41 (193)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHH
Confidence 3478999999999999877666554
No 394
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.32 E-value=0.23 Score=58.93 Aligned_cols=24 Identities=33% Similarity=0.434 Sum_probs=20.6
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..|+.||||||||+++..+...+.
T Consensus 37 a~Lf~Gp~G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 37 AYLFSGPRGCGKTSSARILARSLN 60 (584)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 479999999999999888877665
No 395
>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=91.31 E-value=0.27 Score=48.84 Aligned_cols=20 Identities=25% Similarity=0.431 Sum_probs=17.2
Q ss_pred eEEEEcCCCCChhhHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li 293 (824)
++||.||||||||+....++
T Consensus 1 ~~li~G~~~sGKS~~a~~~~ 20 (169)
T cd00544 1 IILVTGGARSGKSRFAERLA 20 (169)
T ss_pred CEEEECCCCCCHHHHHHHHH
Confidence 47999999999999877664
No 396
>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=91.29 E-value=0.18 Score=51.52 Aligned_cols=27 Identities=30% Similarity=0.518 Sum_probs=21.8
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.+..||.|+||+|||+++..++..++.
T Consensus 38 ~~h~li~G~tgsGKS~~l~~ll~~l~~ 64 (205)
T PF01580_consen 38 NPHLLIAGATGSGKSTLLRTLLLSLAL 64 (205)
T ss_dssp S-SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred CceEEEEcCCCCCccHHHHHHHHHHHH
Confidence 457999999999999999999988875
No 397
>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=91.20 E-value=0.13 Score=56.74 Aligned_cols=26 Identities=38% Similarity=0.657 Sum_probs=20.1
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
....||-||||||||-.+.++...|=
T Consensus 50 Gr~iLiaGppGtGKTAlA~~ia~eLG 75 (398)
T PF06068_consen 50 GRAILIAGPPGTGKTALAMAIAKELG 75 (398)
T ss_dssp T-EEEEEE-TTSSHHHHHHHHHHHCT
T ss_pred CcEEEEeCCCCCCchHHHHHHHHHhC
Confidence 45799999999999999888876553
No 398
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.17 E-value=0.23 Score=58.44 Aligned_cols=45 Identities=31% Similarity=0.455 Sum_probs=28.6
Q ss_pred CCcCEEEEcCCCCCCchh--hHhhhh-c--cCceEEEEc-CCCCCCceeeC
Q 003388 482 HGFDVVIIDEAAQAVEPA--TLVPLA-T--GCKQVFLVG-DPVQLPATVIS 526 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~--~lipL~-~--~~~k~VLVG-D~~QLpP~v~s 526 (824)
..+.++|||||.+++... .|+... . ....+||+. |+..+++++.|
T Consensus 118 ~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~S 168 (527)
T PRK14969 118 GRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLS 168 (527)
T ss_pred CCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHH
Confidence 457899999998876532 333333 1 233566666 77778887654
No 399
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=91.14 E-value=0.23 Score=58.01 Aligned_cols=28 Identities=25% Similarity=0.496 Sum_probs=21.1
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHHHHHhh
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLSAILHA 299 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~~ll~~ 299 (824)
+..+.++.||||+|||+..-.|. ..+..
T Consensus 102 ~~~IL~LvGPpG~GKSsLa~~la-~~le~ 129 (644)
T PRK15455 102 KKQILYLLGPVGGGKSSLAERLK-SLMER 129 (644)
T ss_pred CCceEEEecCCCCCchHHHHHHH-HHHHh
Confidence 46799999999999998655554 44543
No 400
>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=91.11 E-value=1.6 Score=52.07 Aligned_cols=21 Identities=38% Similarity=0.623 Sum_probs=18.0
Q ss_pred CeEEEEcCCCCChhhHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li 293 (824)
...||.|-.|+|||+.|..|-
T Consensus 60 ~~ylITGtAGaGKStsIq~L~ 80 (818)
T PF02689_consen 60 SVYLITGTAGAGKSTSIQTLA 80 (818)
T ss_pred EEEEEeccCCCCccchHHHHH
Confidence 358999999999999988763
No 401
>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=91.10 E-value=0.18 Score=51.34 Aligned_cols=23 Identities=26% Similarity=0.484 Sum_probs=18.5
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
++.|.||+|+||||++..+...+
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l 23 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL 23 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 46799999999999887765543
No 402
>CHL00176 ftsH cell division protein; Validated
Probab=91.08 E-value=0.16 Score=60.98 Aligned_cols=22 Identities=45% Similarity=0.658 Sum_probs=18.6
Q ss_pred eEEEEcCCCCChhhHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ 295 (824)
-+|+.||||||||+++.++...
T Consensus 218 gVLL~GPpGTGKT~LAralA~e 239 (638)
T CHL00176 218 GVLLVGPPGTGKTLLAKAIAGE 239 (638)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4899999999999988877543
No 403
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.08 E-value=0.19 Score=56.71 Aligned_cols=25 Identities=36% Similarity=0.640 Sum_probs=21.7
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..+++|.||+|+|||||++.+...+
T Consensus 223 ~~vi~lvGptGvGKTTtaaKLA~~~ 247 (432)
T PRK12724 223 RKVVFFVGPTGSGKTTSIAKLAAKY 247 (432)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHH
Confidence 3578899999999999999998755
No 404
>PRK01184 hypothetical protein; Provisional
Probab=91.04 E-value=0.17 Score=50.74 Aligned_cols=15 Identities=33% Similarity=0.654 Sum_probs=13.6
Q ss_pred eEEEEcCCCCChhhH
Q 003388 274 FVLIQGPPGTGKTQT 288 (824)
Q Consensus 274 ~~LIqGPPGTGKT~t 288 (824)
+.+|.||||+||||+
T Consensus 3 ~i~l~G~~GsGKsT~ 17 (184)
T PRK01184 3 IIGVVGMPGSGKGEF 17 (184)
T ss_pred EEEEECCCCCCHHHH
Confidence 678999999999995
No 405
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.03 E-value=0.23 Score=59.33 Aligned_cols=37 Identities=27% Similarity=0.379 Sum_probs=25.7
Q ss_pred HHHHHHHhhcCC---CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 261 QLEAIHEGLLRK---AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 261 Q~~AI~~~l~~~---~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
-.+.+..++..+ ...|+.||||+|||+++..+...+.
T Consensus 24 ~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~ 63 (585)
T PRK14950 24 VVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN 63 (585)
T ss_pred HHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence 333444444432 2359999999999999988877664
No 406
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=91.01 E-value=0.19 Score=57.50 Aligned_cols=25 Identities=32% Similarity=0.615 Sum_probs=21.1
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..+.||.||+|+||||||-.|...+
T Consensus 110 ~~iLLltGPsGcGKSTtvkvLskel 134 (634)
T KOG1970|consen 110 SRILLLTGPSGCGKSTTVKVLSKEL 134 (634)
T ss_pred ceEEEEeCCCCCCchhHHHHHHHhh
Confidence 3599999999999999998776544
No 407
>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=91.00 E-value=0.2 Score=48.67 Aligned_cols=23 Identities=22% Similarity=0.437 Sum_probs=18.7
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+.+|.|+||+|||+.+..+...+
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l 23 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKL 23 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHH
Confidence 46899999999998777776654
No 408
>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=90.92 E-value=0.26 Score=54.00 Aligned_cols=33 Identities=30% Similarity=0.348 Sum_probs=25.2
Q ss_pred HHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 263 EAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 263 ~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
+++...+....+++|.||||||||+.+..++..
T Consensus 86 ~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~ 118 (310)
T TIGR02236 86 ELLGGGIETQAITEVFGEFGSGKTQICHQLAVN 118 (310)
T ss_pred HHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 333445555679999999999999998887544
No 409
>PRK13947 shikimate kinase; Provisional
Probab=90.91 E-value=0.19 Score=49.59 Aligned_cols=20 Identities=30% Similarity=0.370 Sum_probs=16.0
Q ss_pred EEEEcCCCCChhhHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~ 294 (824)
.+|.||||||||++...+..
T Consensus 4 I~l~G~~GsGKst~a~~La~ 23 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVAT 23 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 67899999999987665543
No 410
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=90.90 E-value=0.28 Score=60.32 Aligned_cols=22 Identities=45% Similarity=0.641 Sum_probs=17.8
Q ss_pred CeEEEEcCCCCChhhHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~ 294 (824)
.-.|+.||||||||+.+..+..
T Consensus 213 ~giLL~GppGtGKT~laraia~ 234 (733)
T TIGR01243 213 KGVLLYGPPGTGKTLLAKAVAN 234 (733)
T ss_pred ceEEEECCCCCChHHHHHHHHH
Confidence 4589999999999987666544
No 411
>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=90.86 E-value=0.18 Score=51.51 Aligned_cols=26 Identities=31% Similarity=0.663 Sum_probs=19.4
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+-+++|-||||+|||+++..++..+
T Consensus 14 ~P~~~i~aG~~GsGKSt~~~~~~~~~ 39 (199)
T PF06414_consen 14 KPTLIIIAGQPGSGKSTLARQLLEEF 39 (199)
T ss_dssp S-EEEEEES-TTSTTHHHHHHHHHHT
T ss_pred CCEEEEEeCCCCCCHHHHHHHhhhhc
Confidence 34578888999999999888776554
No 412
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=90.86 E-value=0.24 Score=61.26 Aligned_cols=25 Identities=32% Similarity=0.562 Sum_probs=20.5
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.++.|+.||||||||+++..+...+
T Consensus 347 ~~~lll~GppG~GKT~lAk~iA~~l 371 (775)
T TIGR00763 347 GPILCLVGPPGVGKTSLGKSIAKAL 371 (775)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh
Confidence 3579999999999998887776554
No 413
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=90.86 E-value=0.17 Score=52.41 Aligned_cols=20 Identities=50% Similarity=0.717 Sum_probs=16.3
Q ss_pred CeEEEEcCCCCChhhHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~l 292 (824)
.=+|+.||||||||..+.+.
T Consensus 190 rgvllygppg~gktml~kav 209 (408)
T KOG0727|consen 190 RGVLLYGPPGTGKTMLAKAV 209 (408)
T ss_pred cceEEeCCCCCcHHHHHHHH
Confidence 34899999999999876654
No 414
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=90.80 E-value=0.33 Score=53.77 Aligned_cols=23 Identities=30% Similarity=0.476 Sum_probs=19.0
Q ss_pred CCeEEEEcCCCCChhhHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~ 294 (824)
.+-++|.||||||||+++.++..
T Consensus 25 ~g~vli~G~~G~gKttl~r~~~~ 47 (337)
T TIGR02030 25 IGGVMVMGDRGTGKSTAVRALAA 47 (337)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHH
Confidence 46799999999999998776653
No 415
>PRK09087 hypothetical protein; Validated
Probab=90.80 E-value=0.21 Score=52.18 Aligned_cols=22 Identities=32% Similarity=0.466 Sum_probs=18.4
Q ss_pred CCeEEEEcCCCCChhhHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li 293 (824)
.+..+|+||+|+||||.+-.+.
T Consensus 44 ~~~l~l~G~~GsGKThLl~~~~ 65 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLASIWR 65 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHH
Confidence 4579999999999999877544
No 416
>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=90.79 E-value=0.19 Score=52.21 Aligned_cols=23 Identities=26% Similarity=0.317 Sum_probs=18.2
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
++-|.||+|+||||++..|...+
T Consensus 1 IigI~G~sGSGKTTla~~L~~~l 23 (220)
T cd02025 1 IIGIAGSVAVGKSTTARVLQALL 23 (220)
T ss_pred CEEeeCCCCCCHHHHHHHHHHHH
Confidence 35688999999999987766544
No 417
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=90.77 E-value=0.3 Score=48.57 Aligned_cols=20 Identities=25% Similarity=0.448 Sum_probs=17.1
Q ss_pred eEEEEcCCCCChhhHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li 293 (824)
+.+|.||||||||+....++
T Consensus 3 ~ili~G~~~sGKS~~a~~l~ 22 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLA 22 (170)
T ss_pred EEEEECCCCccHHHHHHHHH
Confidence 68999999999999876654
No 418
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=90.76 E-value=0.43 Score=52.63 Aligned_cols=26 Identities=31% Similarity=0.395 Sum_probs=21.8
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+.-|.||||+||||++..++..+-
T Consensus 56 ~~~igi~G~~GaGKSTl~~~l~~~l~ 81 (332)
T PRK09435 56 ALRIGITGVPGVGKSTFIEALGMHLI 81 (332)
T ss_pred cEEEEEECCCCCCHHHHHHHHHHHHH
Confidence 34688999999999999998876654
No 419
>PF13479 AAA_24: AAA domain
Probab=90.74 E-value=0.14 Score=52.99 Aligned_cols=19 Identities=53% Similarity=0.866 Sum_probs=16.3
Q ss_pred eEEEEcCCCCChhhHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~l 292 (824)
-++|.||||+|||+++..+
T Consensus 5 ~~lIyG~~G~GKTt~a~~~ 23 (213)
T PF13479_consen 5 KILIYGPPGSGKTTLAASL 23 (213)
T ss_pred EEEEECCCCCCHHHHHHhC
Confidence 4899999999999977654
No 420
>PRK06851 hypothetical protein; Provisional
Probab=90.67 E-value=0.22 Score=55.55 Aligned_cols=27 Identities=30% Similarity=0.476 Sum_probs=23.4
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
....+|.||||||||+++..++..+..
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~ 240 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEE 240 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHh
Confidence 357999999999999999998877754
No 421
>PRK00279 adk adenylate kinase; Reviewed
Probab=90.67 E-value=0.21 Score=51.68 Aligned_cols=19 Identities=32% Similarity=0.649 Sum_probs=15.6
Q ss_pred EEEEcCCCCChhhHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li 293 (824)
.+|.||||+||||....|.
T Consensus 3 I~v~G~pGsGKsT~a~~la 21 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIA 21 (215)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6899999999998766554
No 422
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.65 E-value=0.25 Score=59.18 Aligned_cols=26 Identities=35% Similarity=0.428 Sum_probs=21.9
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+-.|+.||||||||+++..+...++.
T Consensus 39 ~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 39 PAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred ceEEEECCCCCChHHHHHHHHHHhcC
Confidence 35799999999999999888877753
No 423
>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=90.65 E-value=0.23 Score=48.70 Aligned_cols=24 Identities=38% Similarity=0.535 Sum_probs=20.6
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+..|.||+|||||+++..++..+-
T Consensus 1 vi~i~G~~gsGKTtl~~~l~~~l~ 24 (155)
T TIGR00176 1 VLQIVGPKNSGKTTLIERLVKALK 24 (155)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHH
Confidence 356889999999999999988764
No 424
>PHA02774 E1; Provisional
Probab=90.64 E-value=0.27 Score=57.39 Aligned_cols=25 Identities=36% Similarity=0.667 Sum_probs=21.4
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+.-.+|+||||||||+...+|+..+
T Consensus 434 knciv~~GPP~TGKS~fa~sL~~~L 458 (613)
T PHA02774 434 KNCLVIYGPPDTGKSMFCMSLIKFL 458 (613)
T ss_pred ccEEEEECCCCCCHHHHHHHHHHHh
Confidence 3479999999999999998888664
No 425
>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=90.61 E-value=0.2 Score=51.64 Aligned_cols=19 Identities=32% Similarity=0.721 Sum_probs=15.6
Q ss_pred EEEEcCCCCChhhHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li 293 (824)
.+|.||||+||||....|.
T Consensus 2 I~i~G~pGsGKsT~a~~La 20 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIA 20 (210)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 5789999999998766654
No 426
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=90.52 E-value=0.36 Score=55.58 Aligned_cols=26 Identities=27% Similarity=0.493 Sum_probs=22.2
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
...+|.||||+|||+.+.++...+..
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~ 167 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRE 167 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 35789999999999999988877764
No 427
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=90.47 E-value=0.23 Score=56.57 Aligned_cols=21 Identities=38% Similarity=0.589 Sum_probs=17.8
Q ss_pred CeEEEEcCCCCChhhHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li 293 (824)
+-.|+.||||||||+++..+.
T Consensus 109 ~~iLl~Gp~GtGKT~lAr~lA 129 (412)
T PRK05342 109 SNILLIGPTGSGKTLLAQTLA 129 (412)
T ss_pred ceEEEEcCCCCCHHHHHHHHH
Confidence 569999999999999776664
No 428
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=90.46 E-value=0.19 Score=52.44 Aligned_cols=28 Identities=29% Similarity=0.648 Sum_probs=24.5
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
++.+.|+++|.|+.||||+||+++++..
T Consensus 123 a~~kRGLviiVGaTGSGKSTtmAaMi~y 150 (375)
T COG5008 123 ALAKRGLVIIVGATGSGKSTTMAAMIGY 150 (375)
T ss_pred hcccCceEEEECCCCCCchhhHHHHhcc
Confidence 4556899999999999999999998854
No 429
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=90.45 E-value=0.23 Score=49.87 Aligned_cols=21 Identities=43% Similarity=0.746 Sum_probs=17.6
Q ss_pred EEEEcCCCCChhhHHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~ 295 (824)
.+|-||||+||||....|...
T Consensus 3 iiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 689999999999877776655
No 430
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=90.43 E-value=0.34 Score=52.18 Aligned_cols=40 Identities=20% Similarity=0.267 Sum_probs=29.4
Q ss_pred CHHHHHHHHHhhcCC--CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 258 NASQLEAIHEGLLRK--AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 258 N~sQ~~AI~~~l~~~--~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
|+...+..+.-+... -++-|.|+||+||||++..++..+.
T Consensus 88 n~~~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~ 129 (290)
T PRK10463 88 NNRLAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLK 129 (290)
T ss_pred hHHHHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 566666666655433 3577899999999999998887653
No 431
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=90.42 E-value=0.37 Score=53.46 Aligned_cols=36 Identities=31% Similarity=0.367 Sum_probs=23.8
Q ss_pred HHHHHHHhhcC--CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 261 QLEAIHEGLLR--KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 261 Q~~AI~~~l~~--~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+.|+..++.. -+=+||.||+|||||+++-.+...+
T Consensus 25 ~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l 62 (350)
T CHL00081 25 MKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL 62 (350)
T ss_pred HHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence 44455444332 2348899999999998777665433
No 432
>PF12846 AAA_10: AAA-like domain
Probab=90.41 E-value=0.25 Score=53.25 Aligned_cols=26 Identities=35% Similarity=0.604 Sum_probs=23.3
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+.++|.|++|+|||+++..++..++.
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~ 27 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIR 27 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHH
Confidence 57999999999999999999887775
No 433
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=90.39 E-value=0.25 Score=57.06 Aligned_cols=27 Identities=30% Similarity=0.442 Sum_probs=23.4
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..++++.||.|+|||||+..|...+..
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~ 282 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVM 282 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHH
Confidence 468999999999999999999877643
No 434
>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=90.38 E-value=0.29 Score=51.54 Aligned_cols=26 Identities=35% Similarity=0.630 Sum_probs=21.0
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
...=|.||||.||+|.+-.++..+..
T Consensus 30 ~~iGiTG~PGaGKSTli~~l~~~~~~ 55 (266)
T PF03308_consen 30 HVIGITGPPGAGKSTLIDALIRELRE 55 (266)
T ss_dssp EEEEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred eEEEeeCCCCCcHHHHHHHHHHHHhh
Confidence 35668999999999999999887764
No 435
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=90.37 E-value=0.23 Score=54.65 Aligned_cols=30 Identities=27% Similarity=0.347 Sum_probs=24.5
Q ss_pred HhhcCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 267 EGLLRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 267 ~~l~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..+-...+++|.||||||||+.+..++...
T Consensus 97 GGi~~g~vtei~G~~GsGKT~l~~~~~~~~ 126 (317)
T PRK04301 97 GGIETQSITEFYGEFGSGKTQICHQLAVNV 126 (317)
T ss_pred CCccCCcEEEEECCCCCCHhHHHHHHHHHh
Confidence 345557799999999999999999887544
No 436
>PTZ00301 uridine kinase; Provisional
Probab=90.29 E-value=0.26 Score=50.78 Aligned_cols=26 Identities=23% Similarity=0.489 Sum_probs=21.9
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
-+..|-||||+||||....++..+..
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l~~ 29 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSELMA 29 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHHHh
Confidence 47889999999999998888777653
No 437
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=90.28 E-value=0.29 Score=59.01 Aligned_cols=38 Identities=24% Similarity=0.297 Sum_probs=26.7
Q ss_pred HHHHHHHhhcC---CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 261 QLEAIHEGLLR---KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 261 Q~~AI~~~l~~---~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..+.+..++.. ....|+.||||||||+++..+...+..
T Consensus 26 ~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC 66 (725)
T PRK07133 26 IVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNC 66 (725)
T ss_pred HHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence 33444555543 234799999999999999888776653
No 438
>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=90.28 E-value=0.23 Score=52.62 Aligned_cols=23 Identities=26% Similarity=0.564 Sum_probs=18.9
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+.++.|+||+||||.+..+...+
T Consensus 1 LIvl~G~pGSGKST~a~~La~~l 23 (249)
T TIGR03574 1 LIILTGLPGVGKSTFSKELAKKL 23 (249)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHH
Confidence 46899999999999888776554
No 439
>PRK06696 uridine kinase; Validated
Probab=90.22 E-value=0.33 Score=50.49 Aligned_cols=25 Identities=32% Similarity=0.264 Sum_probs=20.7
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.-+..|.||||+||||+...|...|
T Consensus 22 ~~iI~I~G~sgsGKSTlA~~L~~~l 46 (223)
T PRK06696 22 PLRVAIDGITASGKTTFADELAEEI 46 (223)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHH
Confidence 4579999999999999887776554
No 440
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=90.17 E-value=0.3 Score=57.88 Aligned_cols=26 Identities=23% Similarity=0.402 Sum_probs=22.0
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
...|+.||||||||+++..+...+..
T Consensus 39 hayLf~Gp~G~GKTt~Ar~lAk~L~c 64 (563)
T PRK06647 39 NAYIFSGPRGVGKTSSARAFARCLNC 64 (563)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhhcc
Confidence 35799999999999999888877753
No 441
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=90.16 E-value=0.34 Score=58.05 Aligned_cols=37 Identities=24% Similarity=0.286 Sum_probs=25.9
Q ss_pred HHHHHHHhhcCC---CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 261 QLEAIHEGLLRK---AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 261 Q~~AI~~~l~~~---~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
-.+.+..++..+ ...|+.||||||||+++..+...|.
T Consensus 24 vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~Ln 63 (709)
T PRK08691 24 VVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLN 63 (709)
T ss_pred HHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc
Confidence 334444444432 3479999999999999888877664
No 442
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=90.15 E-value=0.18 Score=51.76 Aligned_cols=23 Identities=35% Similarity=0.705 Sum_probs=18.4
Q ss_pred EEEEcCCCCChhhHHHHHHHHHHh
Q 003388 275 VLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.+|.||||+||||-..++- ++++
T Consensus 5 qvVIGPPgSGKsTYc~g~~-~fls 27 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMS-QFLS 27 (290)
T ss_pred eEEEcCCCCCccchhhhHH-HHHH
Confidence 5789999999999888775 4444
No 443
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=90.10 E-value=0.36 Score=54.51 Aligned_cols=22 Identities=36% Similarity=0.567 Sum_probs=17.9
Q ss_pred CeEEEEcCCCCChhhHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~ 294 (824)
.-.|+.||||||||++...+..
T Consensus 48 ~~ILLiGppG~GKT~lAraLA~ 69 (441)
T TIGR00390 48 KNILMIGPTGVGKTEIARRLAK 69 (441)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 4689999999999987766643
No 444
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=90.09 E-value=0.78 Score=46.37 Aligned_cols=37 Identities=16% Similarity=0.280 Sum_probs=27.1
Q ss_pred HHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 261 QLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 261 Q~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
|...+.......+..+|.|++|+|||+.++++....+
T Consensus 11 ~~~~~~~~~~~~g~v~v~~g~GkGKtt~a~g~a~ra~ 47 (191)
T PRK05986 11 VDARIAAAQEEKGLLIVHTGNGKGKSTAAFGMALRAV 47 (191)
T ss_pred HHHHHHHhhccCCeEEEECCCCCChHHHHHHHHHHHH
Confidence 3333333333568999999999999999999876554
No 445
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=90.04 E-value=0.24 Score=58.10 Aligned_cols=24 Identities=42% Similarity=0.526 Sum_probs=19.5
Q ss_pred CCCeEEEEcCCCCChhhHHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li~ 294 (824)
.....|+.||||||||.+..++..
T Consensus 275 ~~~giLl~GpPGtGKT~lAkava~ 298 (494)
T COG0464 275 PPKGVLLYGPPGTGKTLLAKAVAL 298 (494)
T ss_pred CCCeeEEECCCCCCHHHHHHHHHh
Confidence 344699999999999998877653
No 446
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.04 E-value=0.35 Score=57.65 Aligned_cols=46 Identities=28% Similarity=0.430 Sum_probs=29.6
Q ss_pred CCcCEEEEcCCCCCCchh--hHhhhh---ccCceEEEE-cCCCCCCceeeCh
Q 003388 482 HGFDVVIIDEAAQAVEPA--TLVPLA---TGCKQVFLV-GDPVQLPATVISP 527 (824)
Q Consensus 482 ~~fd~vIIDEAsq~~e~~--~lipL~---~~~~k~VLV-GD~~QLpP~v~s~ 527 (824)
..|.++||||+.+++... .|+... .....+||+ .|+..+++++.|.
T Consensus 123 g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSR 174 (618)
T PRK14951 123 GRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSR 174 (618)
T ss_pred CCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHHh
Confidence 468999999999987543 233222 122345544 5899999886653
No 447
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=90.04 E-value=0.31 Score=46.88 Aligned_cols=26 Identities=31% Similarity=0.514 Sum_probs=23.1
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
++..|.||.|||||+.+..++..+..
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~ 26 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKR 26 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhH
Confidence 46899999999999999999999875
No 448
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=90.04 E-value=0.56 Score=55.21 Aligned_cols=30 Identities=37% Similarity=0.474 Sum_probs=24.1
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+-+..++||.|+||||||+....++...+
T Consensus 27 G~p~Gs~~li~G~pGsGKT~l~~qf~~~~~ 56 (509)
T PRK09302 27 GLPKGRPTLVSGTAGTGKTLFALQFLVNGI 56 (509)
T ss_pred CCCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 444567999999999999999888765544
No 449
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=90.04 E-value=0.37 Score=47.84 Aligned_cols=23 Identities=35% Similarity=0.393 Sum_probs=17.3
Q ss_pred cCCCeEEEEcCCCCChhhHHHHH
Q 003388 270 LRKAFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 270 ~~~~~~LIqGPPGTGKT~ti~~l 292 (824)
..+..+||+|++||||+.++..+
T Consensus 20 ~~~~pVlI~GE~GtGK~~lA~~I 42 (168)
T PF00158_consen 20 SSDLPVLITGETGTGKELLARAI 42 (168)
T ss_dssp TSTS-EEEECSTTSSHHHHHHHH
T ss_pred CCCCCEEEEcCCCCcHHHHHHHH
Confidence 34578999999999999865443
No 450
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=90.02 E-value=0.34 Score=57.76 Aligned_cols=41 Identities=20% Similarity=0.243 Sum_probs=28.9
Q ss_pred CHHHHHHHHHhhcC---CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 258 NASQLEAIHEGLLR---KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 258 N~sQ~~AI~~~l~~---~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
++...+.+..++.. ..-.|++||||||||+++..+...|+.
T Consensus 29 q~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c 72 (598)
T PRK09111 29 QEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNY 72 (598)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCc
Confidence 34444555555543 235899999999999999888877653
No 451
>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=90.01 E-value=0.26 Score=49.41 Aligned_cols=23 Identities=39% Similarity=0.538 Sum_probs=18.5
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+..|.|+||+|||+....+...+
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l 23 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQL 23 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHH
Confidence 46899999999999877666554
No 452
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=89.98 E-value=0.25 Score=52.26 Aligned_cols=25 Identities=44% Similarity=0.735 Sum_probs=20.4
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
..-.||-||||||||-..+++...|
T Consensus 64 GravLlaGppgtGKTAlAlaisqEL 88 (456)
T KOG1942|consen 64 GRAVLLAGPPGTGKTALALAISQEL 88 (456)
T ss_pred CcEEEEecCCCCchhHHHHHHHHHh
Confidence 3579999999999999888776544
No 453
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=89.93 E-value=0.33 Score=56.83 Aligned_cols=25 Identities=28% Similarity=0.349 Sum_probs=21.5
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..|+.||||||||+++..+...++.
T Consensus 38 ayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 38 AYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred eEEEECCCCCcHHHHHHHHHHHhcC
Confidence 4599999999999999988877753
No 454
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=89.93 E-value=0.47 Score=52.02 Aligned_cols=40 Identities=25% Similarity=0.320 Sum_probs=31.6
Q ss_pred ccCCCHHHHHHHHHhhc----------CCCeEEEEcCCCCChhhHHHHHH
Q 003388 254 KENHNASQLEAIHEGLL----------RKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 254 ~~~lN~sQ~~AI~~~l~----------~~~~~LIqGPPGTGKT~ti~~li 293 (824)
-..+++.|++++...+. .....+|.|+||+|||++...+.
T Consensus 105 l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La 154 (309)
T PRK08154 105 LEQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLA 154 (309)
T ss_pred HhcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHH
Confidence 35799999999886552 35678999999999998776654
No 455
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.90 E-value=0.31 Score=58.20 Aligned_cols=25 Identities=24% Similarity=0.220 Sum_probs=21.1
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
-.|++||||||||+++..+...|+.
T Consensus 40 a~Lf~Gp~GvGKttlA~~lAk~L~c 64 (620)
T PRK14954 40 GYIFSGLRGVGKTTAARVFAKAVNC 64 (620)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhCC
Confidence 4889999999999998888777653
No 456
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=89.85 E-value=0.23 Score=49.88 Aligned_cols=25 Identities=40% Similarity=0.593 Sum_probs=21.2
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..-|-||||+|||+.|..++..|-.
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~ 39 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKD 39 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHh
Confidence 4667899999999999999887754
No 457
>PRK06761 hypothetical protein; Provisional
Probab=89.85 E-value=0.26 Score=53.02 Aligned_cols=24 Identities=33% Similarity=0.562 Sum_probs=20.4
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+.+|.||||+||||++..+...+
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L 27 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDIL 27 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhc
Confidence 589999999999999888776554
No 458
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=89.84 E-value=0.36 Score=54.68 Aligned_cols=25 Identities=28% Similarity=0.555 Sum_probs=21.4
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
-.|++||||+|||+++..+...++.
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 4889999999999999888777653
No 459
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.82 E-value=0.36 Score=57.56 Aligned_cols=38 Identities=24% Similarity=0.247 Sum_probs=26.8
Q ss_pred HHHHHHHHhhcC---CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 260 SQLEAIHEGLLR---KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 260 sQ~~AI~~~l~~---~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
...+.+..++.. ....|+.||||||||+++..+...+.
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 334444444433 23579999999999999988877765
No 460
>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=89.75 E-value=0.29 Score=47.23 Aligned_cols=20 Identities=30% Similarity=0.316 Sum_probs=16.1
Q ss_pred EEEEcCCCCChhhHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~ 294 (824)
.+|.||||+|||+....+..
T Consensus 2 i~l~G~~GsGKstla~~la~ 21 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAK 21 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 57899999999987766643
No 461
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=89.72 E-value=1.7 Score=52.59 Aligned_cols=36 Identities=22% Similarity=0.183 Sum_probs=27.4
Q ss_pred cCCCHHHHHHHHH---hhcC-CCeEEEEcCCCCChhhHHH
Q 003388 255 ENHNASQLEAIHE---GLLR-KAFVLIQGPPGTGKTQTIL 290 (824)
Q Consensus 255 ~~lN~sQ~~AI~~---~l~~-~~~~LIqGPPGTGKT~ti~ 290 (824)
..+++.|.+|+.. .+.. +...+|.+.=|=|||..+=
T Consensus 210 l~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lG 249 (758)
T COG1444 210 LCLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALG 249 (758)
T ss_pred hhcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHh
Confidence 4688999998874 3333 4489999999999997543
No 462
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=89.72 E-value=0.48 Score=52.94 Aligned_cols=26 Identities=35% Similarity=0.597 Sum_probs=23.6
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+++..+.||-|.|||||++-|...+.
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~ 228 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYV 228 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHH
Confidence 68999999999999999999987765
No 463
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=89.67 E-value=1.3 Score=52.87 Aligned_cols=29 Identities=34% Similarity=0.557 Sum_probs=22.8
Q ss_pred HHHhhcCCCeEEEEcCCCCChhhHHHHHH
Q 003388 265 IHEGLLRKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 265 I~~~l~~~~~~LIqGPPGTGKT~ti~~li 293 (824)
|..+++.+++++|.|--|+||||-+-..+
T Consensus 264 IMEaIn~n~vvIIcGeTGsGKTTQvPQFL 292 (1172)
T KOG0926|consen 264 IMEAINENPVVIICGETGSGKTTQVPQFL 292 (1172)
T ss_pred HHHHhhcCCeEEEecCCCCCccccchHHH
Confidence 33445558999999999999999877654
No 464
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=89.64 E-value=0.3 Score=50.13 Aligned_cols=22 Identities=27% Similarity=0.404 Sum_probs=17.3
Q ss_pred CeEEEEcCCCCChhhHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~ 294 (824)
.+..|.||+|+||||.+..+..
T Consensus 7 ~vi~I~G~sGsGKSTl~~~l~~ 28 (207)
T TIGR00235 7 IIIGIGGGSGSGKTTVARKIYE 28 (207)
T ss_pred EEEEEECCCCCCHHHHHHHHHH
Confidence 3677999999999986665543
No 465
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=89.64 E-value=0.25 Score=49.74 Aligned_cols=21 Identities=29% Similarity=0.653 Sum_probs=17.7
Q ss_pred CeEEEEcCCCCChhhHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li 293 (824)
.+++|.||+|+||||++..|.
T Consensus 3 ~~i~l~G~sGsGKsTl~~~l~ 23 (186)
T PRK10078 3 KLIWLMGPSGSGKDSLLAALR 23 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHh
Confidence 478999999999999877663
No 466
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.62 E-value=2.6 Score=48.80 Aligned_cols=40 Identities=30% Similarity=0.334 Sum_probs=29.7
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
..++-|..++-.++..+++. ...--||||| ++-++-++.+
T Consensus 113 ~PtpIQaq~wp~~l~GrD~v-~iA~TGSGKT--Lay~lP~i~~ 152 (519)
T KOG0331|consen 113 KPTPIQAQGWPIALSGRDLV-GIARTGSGKT--LAYLLPAIVH 152 (519)
T ss_pred CCchhhhcccceeccCCceE-EEeccCCcch--hhhhhHHHHH
Confidence 46788999999988876654 4577899997 5666666655
No 467
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=89.62 E-value=0.27 Score=49.03 Aligned_cols=21 Identities=38% Similarity=0.803 Sum_probs=17.4
Q ss_pred CeEEEEcCCCCChhhHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li 293 (824)
.+.+|.||+|+|||+.+..|.
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~ 22 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALL 22 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHH
Confidence 378999999999999766654
No 468
>PRK00889 adenylylsulfate kinase; Provisional
Probab=89.62 E-value=0.32 Score=48.37 Aligned_cols=24 Identities=29% Similarity=0.392 Sum_probs=19.9
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+..|.|+||+|||++...+...+
T Consensus 5 ~~i~~~G~~GsGKST~a~~la~~l 28 (175)
T PRK00889 5 VTVWFTGLSGAGKTTIARALAEKL 28 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHH
Confidence 478899999999999887776655
No 469
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=89.59 E-value=0.46 Score=51.87 Aligned_cols=48 Identities=23% Similarity=0.267 Sum_probs=38.7
Q ss_pred hhhhhc-cCCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 249 LHEYIK-ENHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 249 ~~~~~~-~~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+.++++ ..+++.|.+.+..++...-=.||.|.-||||||++-++...+
T Consensus 149 l~dli~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTlLNal~~~i 197 (355)
T COG4962 149 LLDLIIFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTLLNALSGFI 197 (355)
T ss_pred HHHHHHcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHHHHHHHhcC
Confidence 455555 469999999999988765569999999999999988776443
No 470
>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=89.53 E-value=0.32 Score=49.17 Aligned_cols=24 Identities=33% Similarity=0.488 Sum_probs=19.6
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.+..|.||||+||||.+..+...+
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l 27 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLL 27 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHH
Confidence 478999999999999877766544
No 471
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=89.49 E-value=1.9 Score=49.54 Aligned_cols=32 Identities=28% Similarity=0.285 Sum_probs=24.4
Q ss_pred CCCHHHHHHHHHhhcCCCeEEEEcCCCCChhhH
Q 003388 256 NHNASQLEAIHEGLLRKAFVLIQGPPGTGKTQT 288 (824)
Q Consensus 256 ~lN~sQ~~AI~~~l~~~~~~LIqGPPGTGKT~t 288 (824)
.+++-|+.+|-.||.... +|=-.-.|||||-.
T Consensus 91 ~~teiQ~~~Ip~aL~G~D-vlGAAkTGSGKTLA 122 (758)
T KOG0343|consen 91 KMTEIQRDTIPMALQGHD-VLGAAKTGSGKTLA 122 (758)
T ss_pred cHHHHHHhhcchhccCcc-cccccccCCCceee
Confidence 578999999999997543 44455679999864
No 472
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=89.45 E-value=0.35 Score=49.41 Aligned_cols=23 Identities=43% Similarity=0.641 Sum_probs=18.7
Q ss_pred eEEEEcCCCCChhhHHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~l 296 (824)
+.+|.||+|||||...+.+....
T Consensus 3 v~~i~GpT~tGKt~~ai~lA~~~ 25 (233)
T PF01745_consen 3 VYLIVGPTGTGKTALAIALAQKT 25 (233)
T ss_dssp EEEEE-STTSSHHHHHHHHHHHH
T ss_pred EEEEECCCCCChhHHHHHHHHHh
Confidence 78999999999999988876543
No 473
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=89.43 E-value=0.35 Score=48.20 Aligned_cols=26 Identities=31% Similarity=0.400 Sum_probs=22.3
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
.+++.|.||+||||||.+..++..+-
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~ 31 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALC 31 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHh
Confidence 46889999999999999999887653
No 474
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=89.42 E-value=0.28 Score=55.63 Aligned_cols=21 Identities=38% Similarity=0.589 Sum_probs=18.0
Q ss_pred CeEEEEcCCCCChhhHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li 293 (824)
+.+|+.||||||||+++..+.
T Consensus 117 ~~iLL~GP~GsGKT~lAraLA 137 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQTLA 137 (413)
T ss_pred ceEEEECCCCcCHHHHHHHHH
Confidence 469999999999999877664
No 475
>PRK09354 recA recombinase A; Provisional
Probab=89.41 E-value=0.35 Score=53.55 Aligned_cols=31 Identities=35% Similarity=0.479 Sum_probs=25.0
Q ss_pred hhcCCCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 268 GLLRKAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 268 ~l~~~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
.+-+..+++|.||||||||+..+.++.....
T Consensus 56 Gip~G~IteI~G~~GsGKTtLal~~~~~~~~ 86 (349)
T PRK09354 56 GLPRGRIVEIYGPESSGKTTLALHAIAEAQK 86 (349)
T ss_pred CCcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4545669999999999999999888766543
No 476
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=89.41 E-value=0.27 Score=51.07 Aligned_cols=19 Identities=53% Similarity=0.702 Sum_probs=15.1
Q ss_pred eEEEEcCCCCChhhHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~l 292 (824)
=+|..||||||||-...+-
T Consensus 207 GvLmYGPPGTGKTlmARAc 225 (424)
T KOG0652|consen 207 GVLMYGPPGTGKTLMARAC 225 (424)
T ss_pred ceEeeCCCCCcHHHHHHHH
Confidence 4899999999999755443
No 477
>PRK13949 shikimate kinase; Provisional
Probab=89.39 E-value=0.29 Score=48.61 Aligned_cols=19 Identities=32% Similarity=0.394 Sum_probs=15.4
Q ss_pred EEEEcCCCCChhhHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li 293 (824)
.+|.||||+|||++...+.
T Consensus 4 I~liG~~GsGKstl~~~La 22 (169)
T PRK13949 4 IFLVGYMGAGKTTLGKALA 22 (169)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6788999999998776544
No 478
>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=89.39 E-value=0.53 Score=45.69 Aligned_cols=23 Identities=39% Similarity=0.639 Sum_probs=19.1
Q ss_pred EEEEcCCCCChhhHHHHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~~ll 297 (824)
..+.|++|+|||+++..+...+.
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~ 24 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALR 24 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHH
Confidence 56789999999999998876653
No 479
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=89.37 E-value=0.35 Score=55.86 Aligned_cols=26 Identities=31% Similarity=0.239 Sum_probs=22.0
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
...|+.||||||||+++..+...++.
T Consensus 40 ha~Lf~Gp~G~GKtt~A~~lAk~l~c 65 (451)
T PRK06305 40 HAYLFSGIRGTGKTTLARIFAKALNC 65 (451)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 35789999999999999888877753
No 480
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=89.34 E-value=0.26 Score=53.54 Aligned_cols=22 Identities=27% Similarity=0.486 Sum_probs=17.9
Q ss_pred CeEEEEcCCCCChhhHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~ 294 (824)
.+.++.|||||||||....+..
T Consensus 3 ~liil~G~pGSGKSTla~~L~~ 24 (300)
T PHA02530 3 KIILTVGVPGSGKSTWAREFAA 24 (300)
T ss_pred EEEEEEcCCCCCHHHHHHHHHH
Confidence 3688899999999987777654
No 481
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=89.15 E-value=0.53 Score=54.37 Aligned_cols=26 Identities=27% Similarity=0.313 Sum_probs=21.5
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
...+|+||||||||+.+.++...+..
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~ 167 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIES 167 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHH
Confidence 35889999999999999888776654
No 482
>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=89.14 E-value=0.38 Score=41.80 Aligned_cols=25 Identities=28% Similarity=0.494 Sum_probs=20.7
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+.++.|.+|+|||++...+...+..
T Consensus 1 ~~~~~g~~G~Gktt~~~~l~~~l~~ 25 (99)
T cd01983 1 VIVVTGKGGVGKTTLAANLAAALAK 25 (99)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3678899999999999998876643
No 483
>PTZ00088 adenylate kinase 1; Provisional
Probab=89.07 E-value=0.33 Score=50.76 Aligned_cols=20 Identities=30% Similarity=0.444 Sum_probs=15.9
Q ss_pred EEEEcCCCCChhhHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~ 294 (824)
.+|.||||+||||....+..
T Consensus 9 Ivl~G~PGsGK~T~a~~La~ 28 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSK 28 (229)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 78899999999986665543
No 484
>PRK14526 adenylate kinase; Provisional
Probab=89.07 E-value=0.33 Score=50.13 Aligned_cols=19 Identities=37% Similarity=0.623 Sum_probs=15.1
Q ss_pred EEEEcCCCCChhhHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li 293 (824)
.+|.||||+||||....+.
T Consensus 3 i~l~G~pGsGKsT~a~~La 21 (211)
T PRK14526 3 LVFLGPPGSGKGTIAKILS 21 (211)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 5789999999998765543
No 485
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=89.04 E-value=4 Score=47.97 Aligned_cols=27 Identities=26% Similarity=0.342 Sum_probs=22.0
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+..++--=|=--|||..++.||+.+|.
T Consensus 202 QkaTVFLVPRRHGKTWf~VpiIsllL~ 228 (668)
T PHA03372 202 QKATVFLVPRRHGKTWFIIPIISFLLK 228 (668)
T ss_pred ccceEEEecccCCceehHHHHHHHHHH
Confidence 345555568999999999999998886
No 486
>PRK12608 transcription termination factor Rho; Provisional
Probab=89.03 E-value=0.32 Score=54.12 Aligned_cols=25 Identities=32% Similarity=0.417 Sum_probs=21.1
Q ss_pred eEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 274 FVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
=.+|.||||||||+.+..++..+..
T Consensus 135 R~LIvG~pGtGKTTLl~~la~~i~~ 159 (380)
T PRK12608 135 RGLIVAPPRAGKTVLLQQIAAAVAA 159 (380)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHh
Confidence 4799999999999998888777653
No 487
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.02 E-value=0.45 Score=56.53 Aligned_cols=25 Identities=28% Similarity=0.292 Sum_probs=21.1
Q ss_pred CeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
+..|++||||||||+++..+...++
T Consensus 39 ha~Lf~GPpG~GKTtiArilAk~L~ 63 (624)
T PRK14959 39 PAYLFSGTRGVGKTTIARIFAKALN 63 (624)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhcc
Confidence 4588999999999998888776665
No 488
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=88.95 E-value=5 Score=48.77 Aligned_cols=48 Identities=19% Similarity=0.222 Sum_probs=35.8
Q ss_pred hccCCCHHHHHHHHHhhc---------CCCeEEEEcCCCCChhhHHHHHHHHHHhhC
Q 003388 253 IKENHNASQLEAIHEGLL---------RKAFVLIQGPPGTGKTQTILGLLSAILHAT 300 (824)
Q Consensus 253 ~~~~lN~sQ~~AI~~~l~---------~~~~~LIqGPPGTGKT~ti~~li~~ll~~~ 300 (824)
+...|=+.|++++..... ..+=+++-=-||+|||..++.++..+|...
T Consensus 235 l~~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~ 291 (776)
T KOG0390|consen 235 LKKILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQF 291 (776)
T ss_pred HhhhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhC
Confidence 455688999999985321 112256666799999999999999999743
No 489
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=88.92 E-value=0.42 Score=56.58 Aligned_cols=25 Identities=32% Similarity=0.562 Sum_probs=21.9
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAI 296 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~l 296 (824)
.++.++.||||+|||+....+..++
T Consensus 350 GpILcLVGPPGVGKTSLgkSIA~al 374 (782)
T COG0466 350 GPILCLVGPPGVGKTSLGKSIAKAL 374 (782)
T ss_pred CcEEEEECCCCCCchhHHHHHHHHh
Confidence 5799999999999999888887665
No 490
>PRK14737 gmk guanylate kinase; Provisional
Probab=88.91 E-value=0.33 Score=49.03 Aligned_cols=24 Identities=29% Similarity=0.477 Sum_probs=20.0
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
..+.+|.||+|+|||+++-.|+..
T Consensus 4 ~~~ivl~GpsG~GK~tl~~~l~~~ 27 (186)
T PRK14737 4 PKLFIISSVAGGGKSTIIQALLEE 27 (186)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhc
Confidence 457999999999999988877643
No 491
>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]
Probab=88.91 E-value=0.17 Score=54.27 Aligned_cols=26 Identities=46% Similarity=0.691 Sum_probs=21.9
Q ss_pred CCeEEEEcCCCCChhhHHHHHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLLSAIL 297 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li~~ll 297 (824)
-+..|..||||||||.||.+....|.
T Consensus 62 lPh~L~YgPPGtGktsti~a~a~~ly 87 (360)
T KOG0990|consen 62 LPHLLFYGPPGTGKTSTILANARDFY 87 (360)
T ss_pred CCcccccCCCCCCCCCchhhhhhhhc
Confidence 46799999999999999998765553
No 492
>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=88.90 E-value=0.34 Score=47.51 Aligned_cols=22 Identities=27% Similarity=0.462 Sum_probs=19.2
Q ss_pred CeEEEEcCCCCChhhHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~ 294 (824)
|+++|.|++|+|||+.+..++.
T Consensus 1 p~~~l~G~~GsGKTtl~~~l~~ 22 (158)
T cd03112 1 PVTVLTGFLGAGKTTLLNHILT 22 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHh
Confidence 5789999999999999887664
No 493
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=88.90 E-value=0.31 Score=49.27 Aligned_cols=22 Identities=32% Similarity=0.246 Sum_probs=17.9
Q ss_pred eEEEEcCCCCChhhHHHHHHHH
Q 003388 274 FVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 274 ~~LIqGPPGTGKT~ti~~li~~ 295 (824)
+..|.|+|||||||....+...
T Consensus 1 ii~i~G~sgsGKTtla~~l~~~ 22 (187)
T cd02024 1 IVGISGVTNSGKTTLAKLLQRI 22 (187)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4678999999999988776654
No 494
>PRK14738 gmk guanylate kinase; Provisional
Probab=88.89 E-value=0.32 Score=50.00 Aligned_cols=22 Identities=32% Similarity=0.631 Sum_probs=17.9
Q ss_pred CCeEEEEcCCCCChhhHHHHHH
Q 003388 272 KAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 272 ~~~~LIqGPPGTGKT~ti~~li 293 (824)
..+.+|.||||+|||+++..+.
T Consensus 13 ~~~ivi~GpsG~GK~tl~~~L~ 34 (206)
T PRK14738 13 PLLVVISGPSGVGKDAVLARMR 34 (206)
T ss_pred CeEEEEECcCCCCHHHHHHHHH
Confidence 3578899999999999776653
No 495
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=88.83 E-value=0.37 Score=44.15 Aligned_cols=20 Identities=35% Similarity=0.571 Sum_probs=16.9
Q ss_pred EEEEcCCCCChhhHHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLLS 294 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li~ 294 (824)
.+|.|++|+|||+.|..++.
T Consensus 2 I~V~G~~g~GKTsLi~~l~~ 21 (119)
T PF08477_consen 2 IVVLGDSGVGKTSLIRRLCG 21 (119)
T ss_dssp EEEECSTTSSHHHHHHHHHH
T ss_pred EEEECcCCCCHHHHHHHHhc
Confidence 57899999999998877653
No 496
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=88.83 E-value=0.35 Score=44.14 Aligned_cols=23 Identities=48% Similarity=0.619 Sum_probs=19.2
Q ss_pred CCCeEEEEcCCCCChhhHHHHHH
Q 003388 271 RKAFVLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 271 ~~~~~LIqGPPGTGKT~ti~~li 293 (824)
...+++|.||.|+|||+++..+.
T Consensus 14 ~ge~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 14 GKVGVLITGDSGIGKTELALELI 36 (107)
T ss_pred CCEEEEEEcCCCCCHHHHHHHhh
Confidence 34689999999999999887754
No 497
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=88.83 E-value=0.26 Score=54.38 Aligned_cols=19 Identities=53% Similarity=0.796 Sum_probs=16.7
Q ss_pred EEEEcCCCCChhhHHHHHH
Q 003388 275 VLIQGPPGTGKTQTILGLL 293 (824)
Q Consensus 275 ~LIqGPPGTGKT~ti~~li 293 (824)
.|..||||||||.....|.
T Consensus 387 ilfyGPPGTGKTm~ArelA 405 (630)
T KOG0742|consen 387 ILFYGPPGTGKTMFARELA 405 (630)
T ss_pred eeeeCCCCCCchHHHHHHH
Confidence 7899999999999887764
No 498
>PRK13975 thymidylate kinase; Provisional
Probab=88.81 E-value=0.38 Score=48.68 Aligned_cols=23 Identities=30% Similarity=0.482 Sum_probs=18.1
Q ss_pred CeEEEEcCCCCChhhHHHHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGLLSA 295 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~li~~ 295 (824)
.+..|.||||+||||.+..+...
T Consensus 3 ~~I~ieG~~GsGKtT~~~~L~~~ 25 (196)
T PRK13975 3 KFIVFEGIDGSGKTTQAKLLAEK 25 (196)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 37899999999999876655433
No 499
>PRK08356 hypothetical protein; Provisional
Probab=88.77 E-value=0.32 Score=49.46 Aligned_cols=20 Identities=25% Similarity=0.195 Sum_probs=16.5
Q ss_pred CeEEEEcCCCCChhhHHHHH
Q 003388 273 AFVLIQGPPGTGKTQTILGL 292 (824)
Q Consensus 273 ~~~LIqGPPGTGKT~ti~~l 292 (824)
.+.+|.||||+||||....|
T Consensus 6 ~~i~~~G~~gsGK~t~a~~l 25 (195)
T PRK08356 6 MIVGVVGKIAAGKTTVAKFF 25 (195)
T ss_pred EEEEEECCCCCCHHHHHHHH
Confidence 36789999999999877655
No 500
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=88.77 E-value=0.53 Score=52.48 Aligned_cols=40 Identities=23% Similarity=0.342 Sum_probs=28.7
Q ss_pred HHHHHHHHHhhcCC---CeEEEEcCCCCChhhHHHHHHHHHHh
Q 003388 259 ASQLEAIHEGLLRK---AFVLIQGPPGTGKTQTILGLLSAILH 298 (824)
Q Consensus 259 ~sQ~~AI~~~l~~~---~~~LIqGPPGTGKT~ti~~li~~ll~ 298 (824)
+.-.+.+..++... ...||.||+|+|||+++..+...++.
T Consensus 29 ~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc 71 (351)
T PRK09112 29 EEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILS 71 (351)
T ss_pred HHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence 33344445555432 36999999999999999988877764
Done!