Query 006386
Match_columns 647
No_of_seqs 432 out of 2644
Neff 9.0
Searched_HMMs 46136
Date Thu Mar 28 22:32:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006386.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006386hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1803 DNA helicase [Replicat 100.0 6E-119 1E-123 927.9 44.6 628 16-646 3-639 (649)
2 TIGR00376 DNA helicase, putati 100.0 6E-101 1E-105 852.9 60.9 596 28-643 1-636 (637)
3 KOG1802 RNA helicase nonsense 100.0 3.9E-92 8.4E-97 726.9 42.2 587 11-640 235-839 (935)
4 KOG1805 DNA replication helica 100.0 3.1E-85 6.6E-90 704.1 32.4 570 15-639 480-1077(1100)
5 KOG1807 Helicases [Replication 100.0 7.7E-55 1.7E-59 456.8 31.1 284 344-642 693-981 (1025)
6 COG1112 Superfamily I DNA and 100.0 8.6E-52 1.9E-56 482.4 36.9 615 14-642 90-754 (767)
7 KOG1804 RNA helicase [RNA proc 100.0 2.1E-41 4.5E-46 369.8 12.7 388 195-641 310-723 (775)
8 KOG1801 tRNA-splicing endonucl 100.0 5.5E-40 1.2E-44 373.5 21.3 292 347-645 512-817 (827)
9 PF13087 AAA_12: AAA domain; P 100.0 4.1E-37 8.9E-42 298.7 7.9 194 419-617 1-200 (200)
10 PF13086 AAA_11: AAA domain; P 100.0 1.1E-35 2.4E-40 296.1 14.0 216 196-412 1-236 (236)
11 PRK11054 helD DNA helicase IV; 100.0 2.4E-32 5.2E-37 305.3 24.9 220 369-629 430-674 (684)
12 PRK11773 uvrD DNA-dependent he 100.0 4E-30 8.6E-35 293.9 24.1 304 195-539 8-354 (721)
13 TIGR01075 uvrD DNA helicase II 100.0 3.4E-30 7.4E-35 294.8 23.2 308 195-539 3-349 (715)
14 TIGR01073 pcrA ATP-dependent D 100.0 6.9E-30 1.5E-34 293.1 21.9 308 195-539 3-351 (726)
15 KOG1806 DEAD box containing he 100.0 8.8E-31 1.9E-35 283.1 11.4 430 196-637 738-1268(1320)
16 PRK10919 ATP-dependent DNA hel 100.0 2.1E-29 4.6E-34 284.3 23.0 252 196-460 2-294 (672)
17 TIGR01447 recD exodeoxyribonuc 100.0 2.8E-27 6.2E-32 260.2 19.8 63 199-262 148-215 (586)
18 TIGR01074 rep ATP-dependent DN 99.9 6.6E-27 1.4E-31 267.1 22.9 251 196-459 1-292 (664)
19 TIGR01448 recD_rel helicase, p 99.9 2.8E-26 6E-31 259.6 22.6 169 194-456 321-497 (720)
20 PRK10875 recD exonuclease V su 99.9 1.5E-26 3.2E-31 254.6 18.6 65 197-262 153-221 (615)
21 TIGR02768 TraA_Ti Ti-type conj 99.9 2E-24 4.3E-29 245.4 23.8 168 195-461 351-522 (744)
22 TIGR02785 addA_Gpos recombinat 99.9 5.6E-23 1.2E-27 246.1 25.0 64 196-262 1-67 (1232)
23 COG0210 UvrD Superfamily I DNA 99.9 4.3E-23 9.4E-28 235.5 21.9 312 196-548 2-365 (655)
24 PRK13826 Dtr system oriT relax 99.9 1.1E-22 2.4E-27 233.4 23.4 168 195-461 380-551 (1102)
25 TIGR00609 recB exodeoxyribonuc 99.9 6.8E-23 1.5E-27 242.7 20.6 167 368-549 295-486 (1087)
26 PRK13889 conjugal transfer rel 99.9 1.3E-22 2.9E-27 232.1 22.2 169 195-462 345-517 (988)
27 PRK13909 putative recombinatio 99.9 9.2E-22 2E-26 229.8 23.9 150 367-548 326-487 (910)
28 COG1074 RecB ATP-dependent exo 99.9 1.4E-21 2.9E-26 231.9 19.1 175 368-550 377-572 (1139)
29 PF13604 AAA_30: AAA domain; P 99.9 2.3E-21 5E-26 186.1 12.8 172 196-462 1-178 (196)
30 TIGR02784 addA_alphas double-s 99.9 6.8E-20 1.5E-24 219.9 28.4 85 368-459 390-496 (1141)
31 PRK10876 recB exonuclease V su 99.9 1.3E-20 2.8E-25 223.6 20.3 167 368-549 376-568 (1181)
32 COG3973 Superfamily I DNA and 99.8 1.9E-19 4.2E-24 187.7 21.5 205 368-616 527-746 (747)
33 PRK13709 conjugal transfer nic 99.8 8.1E-18 1.7E-22 201.5 24.1 172 195-461 966-1146(1747)
34 PRK14712 conjugal transfer nic 99.8 8E-18 1.7E-22 198.8 22.6 172 195-461 834-1014(1623)
35 PF01443 Viral_helicase1: Vira 99.7 6.7E-18 1.5E-22 168.0 8.9 49 562-613 184-233 (234)
36 TIGR02760 TraI_TIGR conjugativ 99.7 4.1E-16 8.9E-21 192.3 18.7 170 195-461 1018-1198(1960)
37 PF00580 UvrD-helicase: UvrD/R 99.7 1.6E-16 3.5E-21 165.3 10.4 64 197-263 1-68 (315)
38 PF09848 DUF2075: Uncharacteri 99.6 1.1E-14 2.5E-19 153.2 15.6 166 213-462 2-184 (352)
39 COG0507 RecD ATP-dependent exo 99.5 2E-14 4.3E-19 165.1 8.1 64 195-259 318-381 (696)
40 PF13245 AAA_19: Part of AAA d 99.5 5.4E-14 1.2E-18 112.1 7.3 57 204-260 2-62 (76)
41 COG3972 Superfamily I DNA and 99.5 9E-13 1.9E-17 135.1 16.5 373 195-631 161-585 (660)
42 PF05970 PIF1: PIF1-like helic 99.4 4.1E-13 8.8E-18 141.7 8.3 61 196-256 1-66 (364)
43 TIGR02760 TraI_TIGR conjugativ 99.4 1.3E-12 2.9E-17 161.6 13.1 65 195-259 428-493 (1960)
44 PF02562 PhoH: PhoH-like prote 99.4 4.2E-12 9.1E-17 120.7 12.4 150 195-405 3-158 (205)
45 PRK10536 hypothetical protein; 99.2 2.7E-10 5.8E-15 111.2 15.1 57 193-250 56-114 (262)
46 PF13361 UvrD_C: UvrD-like hel 99.1 6.5E-11 1.4E-15 124.9 5.2 58 559-616 286-350 (351)
47 TIGR02773 addB_Gpos ATP-depend 99.0 3.3E-08 7.3E-13 119.8 21.7 150 369-553 196-358 (1158)
48 smart00487 DEXDc DEAD-like hel 98.9 1.1E-08 2.4E-13 98.1 13.7 70 194-263 6-77 (201)
49 cd00046 DEXDc DEAD-like helica 98.8 3.8E-08 8.2E-13 88.6 10.5 50 214-263 2-53 (144)
50 PF00270 DEAD: DEAD/DEAH box h 98.7 1.5E-07 3.3E-12 88.2 13.4 65 198-263 1-67 (169)
51 COG1875 NYN ribonuclease and A 98.7 1.3E-07 2.9E-12 94.8 12.2 58 192-249 224-285 (436)
52 PF07652 Flavi_DEAD: Flaviviru 98.7 1.4E-07 3E-12 83.4 9.9 53 212-264 4-57 (148)
53 PF04851 ResIII: Type III rest 98.6 6.4E-08 1.4E-12 92.0 7.4 63 196-261 3-71 (184)
54 KOG1804 RNA helicase [RNA proc 98.6 5.5E-09 1.2E-13 116.1 -1.0 379 195-639 119-544 (775)
55 PRK05580 primosome assembly pr 98.6 5.4E-07 1.2E-11 102.7 14.9 70 194-263 142-213 (679)
56 PF13538 UvrD_C_2: UvrD-like h 98.5 1.8E-08 4E-13 86.3 -0.2 51 559-613 54-104 (104)
57 PHA02558 uvsW UvsW helicase; P 98.5 8.7E-07 1.9E-11 97.9 12.8 68 195-263 113-181 (501)
58 cd00268 DEADc DEAD-box helicas 98.5 1.5E-06 3.3E-11 84.2 12.8 68 195-263 20-92 (203)
59 PRK10917 ATP-dependent DNA hel 98.5 2.1E-06 4.5E-11 98.3 14.5 71 193-263 258-333 (681)
60 TIGR00643 recG ATP-dependent D 98.4 2E-06 4.4E-11 97.6 14.0 72 192-263 231-307 (630)
61 PRK11192 ATP-dependent RNA hel 98.4 1.9E-06 4.2E-11 93.9 12.6 67 195-262 22-95 (434)
62 PTZ00424 helicase 45; Provisio 98.4 2.8E-06 6.1E-11 91.7 12.9 68 195-263 49-119 (401)
63 PRK02362 ski2-like helicase; P 98.4 1.5E-06 3.2E-11 100.8 11.1 69 195-263 22-90 (737)
64 PRK11776 ATP-dependent RNA hel 98.3 2.8E-06 6E-11 93.3 11.7 67 195-262 25-94 (460)
65 COG1702 PhoH Phosphate starvat 98.3 2.3E-06 4.9E-11 86.1 9.6 53 195-248 127-181 (348)
66 COG1061 SSL2 DNA or RNA helica 98.3 3.2E-06 6.9E-11 91.7 11.5 69 192-263 32-103 (442)
67 PRK10590 ATP-dependent RNA hel 98.3 4.2E-06 9.2E-11 91.6 12.5 68 195-263 22-98 (456)
68 TIGR00580 mfd transcription-re 98.3 5.6E-06 1.2E-10 96.6 14.0 70 193-262 448-522 (926)
69 PRK11634 ATP-dependent RNA hel 98.3 4.1E-06 8.9E-11 94.5 12.4 67 195-262 27-96 (629)
70 PRK01172 ski2-like helicase; P 98.3 3.8E-06 8.2E-11 96.6 11.4 67 195-262 21-87 (674)
71 KOG0989 Replication factor C, 98.3 1.7E-06 3.7E-11 85.2 7.2 27 212-238 57-83 (346)
72 PRK00254 ski2-like helicase; P 98.3 5.4E-06 1.2E-10 95.9 12.4 68 195-262 22-90 (720)
73 TIGR01054 rgy reverse gyrase. 98.3 4.8E-06 1E-10 99.6 12.2 68 195-263 77-144 (1171)
74 PRK04837 ATP-dependent RNA hel 98.3 7.5E-06 1.6E-10 88.9 12.8 66 195-261 29-104 (423)
75 PRK10689 transcription-repair 98.2 6E-06 1.3E-10 98.5 11.7 72 191-262 595-671 (1147)
76 PRK04296 thymidine kinase; Pro 98.2 2.5E-06 5.5E-11 81.6 6.6 36 213-248 3-38 (190)
77 TIGR01970 DEAH_box_HrpB ATP-de 98.2 7.3E-06 1.6E-10 94.6 10.9 62 201-262 6-67 (819)
78 PRK09401 reverse gyrase; Revie 98.2 1.5E-05 3.2E-10 95.4 13.5 68 195-263 79-146 (1176)
79 TIGR00603 rad25 DNA repair hel 98.2 1.9E-05 4E-10 89.0 13.4 66 195-263 254-321 (732)
80 COG4098 comFA Superfamily II D 98.2 9.4E-06 2E-10 80.7 9.6 72 192-263 93-167 (441)
81 PRK04537 ATP-dependent RNA hel 98.1 1.5E-05 3.2E-10 89.4 12.2 68 195-263 30-107 (572)
82 PRK14974 cell division protein 98.1 2.1E-05 4.5E-10 81.4 12.3 57 212-268 140-199 (336)
83 PRK11448 hsdR type I restricti 98.1 1.4E-05 3E-10 95.1 12.1 69 195-263 412-486 (1123)
84 PRK11664 ATP-dependent RNA hel 98.1 1.3E-05 2.8E-10 92.7 11.4 62 201-262 9-70 (812)
85 COG4096 HsdR Type I site-speci 98.1 6.5E-06 1.4E-10 91.0 7.9 68 196-263 165-238 (875)
86 TIGR00595 priA primosomal prot 98.1 1.5E-05 3.3E-10 87.6 10.8 48 216-263 1-48 (505)
87 PTZ00110 helicase; Provisional 98.1 3.3E-05 7.1E-10 86.2 13.1 68 195-263 151-226 (545)
88 PF05127 Helicase_RecD: Helica 98.1 4.3E-07 9.3E-12 84.4 -1.7 46 216-261 1-47 (177)
89 PF13401 AAA_22: AAA domain; P 98.1 7.8E-06 1.7E-10 73.0 6.5 50 212-261 4-59 (131)
90 PRK14701 reverse gyrase; Provi 98.0 4.8E-05 1E-09 93.4 13.9 67 196-263 79-145 (1638)
91 COG1198 PriA Primosomal protei 98.0 2.4E-05 5.2E-10 87.9 10.4 68 195-262 197-267 (730)
92 PLN00206 DEAD-box ATP-dependen 98.0 4.8E-05 1E-09 84.6 11.7 66 195-261 142-217 (518)
93 PRK08084 DNA replication initi 98.0 0.00011 2.3E-09 72.9 12.9 59 191-249 22-82 (235)
94 PF00448 SRP54: SRP54-type pro 98.0 0.00016 3.5E-09 69.3 13.6 57 213-269 2-61 (196)
95 PRK13766 Hef nuclease; Provisi 98.0 9.3E-05 2E-09 86.8 14.4 66 196-263 15-81 (773)
96 PRK14712 conjugal transfer nic 97.9 3.8E-05 8.3E-10 92.8 11.1 65 195-259 280-346 (1623)
97 TIGR00614 recQ_fam ATP-depende 97.9 9.1E-05 2E-09 81.4 13.4 74 195-272 10-83 (470)
98 PRK01297 ATP-dependent RNA hel 97.9 4.5E-05 9.7E-10 84.1 10.9 68 195-263 108-185 (475)
99 TIGR03817 DECH_helic helicase/ 97.9 5E-05 1.1E-09 87.6 11.6 68 195-263 35-104 (742)
100 TIGR00348 hsdR type I site-spe 97.9 6E-05 1.3E-09 86.0 11.9 68 197-264 239-317 (667)
101 COG1204 Superfamily II helicas 97.9 4E-05 8.7E-10 87.7 10.2 73 196-268 31-107 (766)
102 TIGR00064 ftsY signal recognit 97.9 0.00019 4E-09 72.6 13.3 59 213-271 73-134 (272)
103 PRK00771 signal recognition pa 97.9 0.00013 2.7E-09 78.3 12.7 36 213-248 96-131 (437)
104 TIGR01967 DEAH_box_HrpA ATP-de 97.9 5E-05 1.1E-09 90.4 9.8 64 200-263 70-134 (1283)
105 PHA02653 RNA helicase NPH-II; 97.9 7.5E-05 1.6E-09 84.3 10.8 63 199-262 167-244 (675)
106 COG1111 MPH1 ERCC4-like helica 97.8 7.2E-05 1.6E-09 78.6 9.5 130 198-389 17-151 (542)
107 PRK13767 ATP-dependent helicas 97.8 0.00014 3.1E-09 85.5 13.1 66 195-261 31-105 (876)
108 TIGR01407 dinG_rel DnaQ family 97.8 0.00017 3.7E-09 84.9 13.2 64 196-259 245-311 (850)
109 TIGR01389 recQ ATP-dependent D 97.8 0.00032 7E-09 79.5 14.0 73 195-271 12-84 (591)
110 cd03115 SRP The signal recogni 97.7 0.00038 8.1E-09 65.6 12.1 34 214-247 2-35 (173)
111 COG1110 Reverse gyrase [DNA re 97.7 0.00025 5.3E-09 80.3 12.3 67 196-263 82-148 (1187)
112 PRK11057 ATP-dependent DNA hel 97.7 0.00033 7.2E-09 79.4 13.5 70 195-268 24-93 (607)
113 COG0552 FtsY Signal recognitio 97.7 0.00021 4.6E-09 72.1 10.4 58 213-270 140-200 (340)
114 TIGR00604 rad3 DNA repair heli 97.7 0.00018 4E-09 83.0 11.6 66 197-262 11-82 (705)
115 PLN03025 replication factor C 97.7 0.00017 3.7E-09 75.1 9.7 43 198-240 18-62 (319)
116 KOG2108 3'-5' DNA helicase [Re 97.7 1.5E-05 3.2E-10 88.5 1.8 68 193-263 10-81 (853)
117 PRK10867 signal recognition pa 97.7 0.00039 8.5E-09 74.4 12.4 56 213-268 101-160 (433)
118 cd00561 CobA_CobO_BtuR ATP:cor 97.7 0.0012 2.7E-08 60.4 13.8 61 212-274 2-66 (159)
119 TIGR01587 cas3_core CRISPR-ass 97.7 0.00016 3.5E-09 76.7 9.3 49 215-263 2-52 (358)
120 PRK07246 bifunctional ATP-depe 97.7 0.00048 1E-08 80.3 13.6 62 196-258 245-309 (820)
121 TIGR03117 cas_csf4 CRISPR-asso 97.6 0.0002 4.2E-09 80.0 9.9 59 203-261 7-67 (636)
122 PRK13709 conjugal transfer nic 97.6 0.00036 7.8E-09 85.8 13.0 63 197-259 414-478 (1747)
123 PRK10416 signal recognition pa 97.6 0.0005 1.1E-08 71.0 12.2 56 213-268 115-173 (318)
124 TIGR03158 cas3_cyano CRISPR-as 97.6 0.00037 7.9E-09 73.7 11.6 60 201-263 2-62 (357)
125 KOG0991 Replication factor C, 97.6 7.2E-05 1.6E-09 70.9 5.2 28 212-239 48-75 (333)
126 PRK09694 helicase Cas3; Provis 97.6 0.00036 7.9E-09 80.9 12.1 67 195-262 285-353 (878)
127 COG2256 MGS1 ATPase related to 97.6 0.00012 2.7E-09 75.1 7.2 40 371-410 106-147 (436)
128 cd00009 AAA The AAA+ (ATPases 97.6 0.00017 3.7E-09 65.1 7.6 57 199-255 4-62 (151)
129 PF02399 Herpes_ori_bp: Origin 97.6 0.00023 5E-09 79.7 9.8 55 211-265 48-103 (824)
130 PRK04914 ATP-dependent helicas 97.6 0.0019 4E-08 75.7 17.7 62 194-255 150-214 (956)
131 PF00176 SNF2_N: SNF2 family N 97.6 7.8E-05 1.7E-09 76.8 5.7 140 201-404 2-174 (299)
132 PRK05986 cob(I)alamin adenolsy 97.6 0.003 6.5E-08 59.5 15.5 61 211-273 21-85 (191)
133 PRK11131 ATP-dependent RNA hel 97.6 0.00026 5.6E-09 84.2 10.0 62 201-263 78-141 (1294)
134 KOG2108 3'-5' DNA helicase [Re 97.6 0.00015 3.1E-09 80.9 7.3 54 560-613 674-740 (853)
135 PRK08181 transposase; Validate 97.6 0.00018 3.9E-09 72.3 7.3 55 194-248 85-142 (269)
136 PRK11889 flhF flagellar biosyn 97.6 0.00023 4.9E-09 74.1 8.2 47 213-259 242-291 (436)
137 PHA03311 helicase-primase subu 97.6 0.00021 4.6E-09 78.6 8.3 45 213-262 72-116 (828)
138 TIGR01425 SRP54_euk signal rec 97.5 0.0012 2.7E-08 70.2 13.7 45 213-257 101-148 (429)
139 PRK08074 bifunctional ATP-depe 97.5 0.0009 1.9E-08 79.4 14.1 64 196-259 257-324 (928)
140 cd01124 KaiC KaiC is a circadi 97.5 0.00011 2.4E-09 70.0 5.3 50 214-264 1-50 (187)
141 TIGR03015 pepcterm_ATPase puta 97.5 0.0013 2.9E-08 66.6 13.6 40 198-237 25-68 (269)
142 PF13173 AAA_14: AAA domain 97.5 0.00029 6.3E-09 62.7 7.5 41 212-253 2-42 (128)
143 PRK12723 flagellar biosynthesi 97.5 0.00031 6.6E-09 74.2 8.7 47 212-258 174-227 (388)
144 PRK07952 DNA replication prote 97.5 0.0002 4.3E-09 70.9 6.8 50 198-247 78-134 (244)
145 TIGR00959 ffh signal recogniti 97.5 0.00042 9.1E-09 74.2 9.8 57 213-269 100-160 (428)
146 TIGR02688 conserved hypothetic 97.5 0.00096 2.1E-08 70.1 12.1 30 211-240 208-238 (449)
147 PRK12377 putative replication 97.5 0.0002 4.3E-09 71.1 6.8 51 198-248 80-137 (248)
148 TIGR00708 cobA cob(I)alamin ad 97.5 0.0021 4.5E-08 59.7 12.9 58 212-272 5-66 (173)
149 KOG0952 DNA/RNA helicase MER3/ 97.5 0.00051 1.1E-08 77.8 10.4 68 195-262 109-186 (1230)
150 PRK14722 flhF flagellar biosyn 97.5 0.00041 8.9E-09 72.7 9.1 37 212-248 137-175 (374)
151 PRK07994 DNA polymerase III su 97.5 0.0006 1.3E-08 76.3 10.7 36 203-238 26-64 (647)
152 PRK12899 secA preprotein trans 97.4 0.00065 1.4E-08 77.7 10.6 65 197-262 93-157 (970)
153 COG1643 HrpA HrpA-like helicas 97.4 0.00069 1.5E-08 77.6 10.9 64 200-263 53-117 (845)
154 PRK06526 transposase; Provisio 97.4 0.00014 3.1E-09 72.6 4.8 55 194-248 78-134 (254)
155 COG4889 Predicted helicase [Ge 97.4 0.001 2.3E-08 73.8 11.4 60 194-256 159-222 (1518)
156 TIGR03499 FlhF flagellar biosy 97.4 0.00039 8.6E-09 70.8 7.7 36 213-248 195-232 (282)
157 PF01695 IstB_IS21: IstB-like 97.4 0.00034 7.5E-09 66.0 6.2 53 196-248 29-83 (178)
158 PRK12726 flagellar biosynthesi 97.4 0.00095 2.1E-08 69.3 9.9 54 212-265 206-262 (407)
159 PRK14956 DNA polymerase III su 97.4 0.00081 1.8E-08 72.3 9.6 24 214-237 42-65 (484)
160 PRK09183 transposase/IS protei 97.3 0.00044 9.5E-09 69.5 6.8 55 193-247 81-137 (259)
161 TIGR02621 cas3_GSU0051 CRISPR- 97.3 0.00074 1.6E-08 77.3 9.2 67 197-263 16-85 (844)
162 PRK12898 secA preprotein trans 97.3 0.0021 4.6E-08 71.9 12.5 66 194-262 101-166 (656)
163 smart00382 AAA ATPases associa 97.3 0.0002 4.3E-09 64.1 3.7 44 212-255 2-45 (148)
164 KOG0923 mRNA splicing factor A 97.3 0.00053 1.1E-08 74.0 7.3 56 208-263 276-333 (902)
165 PF06745 KaiC: KaiC; InterPro 97.3 0.00039 8.5E-09 68.5 5.9 53 211-264 18-71 (226)
166 PRK05703 flhF flagellar biosyn 97.3 0.00079 1.7E-08 72.4 8.6 36 213-248 222-259 (424)
167 PRK07003 DNA polymerase III su 97.3 0.0022 4.7E-08 72.1 12.1 34 204-237 27-63 (830)
168 PRK14958 DNA polymerase III su 97.3 0.002 4.4E-08 71.0 11.6 35 203-237 26-63 (509)
169 PRK12323 DNA polymerase III su 97.2 0.0011 2.4E-08 73.4 9.1 44 368-412 123-174 (700)
170 KOG0354 DEAD-box like helicase 97.2 0.0021 4.5E-08 71.7 11.2 68 194-263 60-129 (746)
171 TIGR03714 secA2 accessory Sec 97.2 0.00098 2.1E-08 75.5 8.8 64 197-261 69-132 (762)
172 PRK06893 DNA replication initi 97.2 0.0018 3.8E-08 64.0 9.7 38 212-249 39-76 (229)
173 PRK13342 recombination factor 97.2 0.0012 2.6E-08 71.3 9.2 34 369-402 92-127 (413)
174 COG1484 DnaC DNA replication p 97.2 0.00069 1.5E-08 67.7 6.4 38 212-249 105-142 (254)
175 PRK04195 replication factor C 97.2 0.0022 4.7E-08 70.8 10.9 40 197-236 18-63 (482)
176 PRK11747 dinG ATP-dependent DN 97.2 0.0043 9.2E-08 71.4 13.4 62 198-259 27-97 (697)
177 PRK08691 DNA polymerase III su 97.2 0.0038 8.2E-08 69.9 12.4 37 203-239 26-65 (709)
178 COG0513 SrmB Superfamily II DN 97.2 0.0027 5.8E-08 70.4 11.3 68 195-263 50-122 (513)
179 PRK05973 replicative DNA helic 97.1 0.00083 1.8E-08 66.0 6.3 53 211-264 63-115 (237)
180 cd01129 PulE-GspE PulE/GspE Th 97.1 0.00086 1.9E-08 67.5 6.7 52 196-247 63-115 (264)
181 PRK14960 DNA polymerase III su 97.1 0.0018 3.9E-08 71.9 9.4 35 203-237 25-62 (702)
182 COG1200 RecG RecG-like helicas 97.1 0.0029 6.2E-08 69.6 10.7 203 191-461 257-474 (677)
183 PRK13833 conjugal transfer pro 97.1 0.0011 2.3E-08 68.4 6.9 52 195-246 127-180 (323)
184 PRK12422 chromosomal replicati 97.1 0.0017 3.7E-08 70.3 8.8 36 213-248 142-177 (445)
185 TIGR03877 thermo_KaiC_1 KaiC d 97.1 0.00075 1.6E-08 67.0 5.6 53 211-264 20-72 (237)
186 PRK14951 DNA polymerase III su 97.1 0.0015 3.2E-08 73.1 8.3 35 204-238 27-64 (618)
187 PRK14948 DNA polymerase III su 97.1 0.0032 6.9E-08 71.0 10.8 26 213-238 39-64 (620)
188 COG1201 Lhr Lhr-like helicases 97.0 0.0014 3.1E-08 74.6 7.9 68 195-263 21-96 (814)
189 COG1199 DinG Rad3-related DNA 97.0 0.0043 9.4E-08 71.4 12.0 68 196-263 15-86 (654)
190 COG0541 Ffh Signal recognition 97.0 0.0066 1.4E-07 63.5 11.8 58 213-270 101-161 (451)
191 PRK08116 hypothetical protein; 97.0 0.0014 3.1E-08 66.1 7.0 50 198-247 90-149 (268)
192 PRK08533 flagellar accessory p 97.0 0.0011 2.3E-08 65.5 5.9 51 211-262 23-73 (230)
193 COG1197 Mfd Transcription-repa 97.0 0.0085 1.8E-07 69.9 13.8 77 191-267 589-674 (1139)
194 PRK14949 DNA polymerase III su 97.0 0.0017 3.8E-08 74.2 8.2 25 214-238 40-64 (944)
195 PRK08903 DnaA regulatory inact 97.0 0.0024 5.2E-08 63.0 8.2 58 191-248 18-78 (227)
196 PRK13341 recombination factor 97.0 0.0019 4.1E-08 73.9 8.3 35 369-403 109-145 (725)
197 PRK14969 DNA polymerase III su 97.0 0.0036 7.7E-08 69.5 10.1 36 202-237 25-63 (527)
198 PRK12727 flagellar biosynthesi 97.0 0.0049 1.1E-07 66.9 10.6 36 212-247 350-387 (559)
199 PRK07133 DNA polymerase III su 96.9 0.0053 1.2E-07 69.4 11.1 37 202-238 27-66 (725)
200 TIGR02782 TrbB_P P-type conjug 96.9 0.0019 4.1E-08 66.3 7.0 54 195-248 115-170 (299)
201 TIGR03878 thermo_KaiC_2 KaiC d 96.9 0.0011 2.4E-08 66.7 5.2 40 211-250 35-74 (259)
202 cd01120 RecA-like_NTPases RecA 96.9 0.0015 3.2E-08 60.3 5.7 41 214-254 1-41 (165)
203 KOG0744 AAA+-type ATPase [Post 96.9 0.00059 1.3E-08 67.9 3.1 26 211-236 176-201 (423)
204 PRK13894 conjugal transfer ATP 96.9 0.0017 3.7E-08 67.1 6.6 56 195-250 131-188 (319)
205 PRK06851 hypothetical protein; 96.9 0.00089 1.9E-08 69.9 4.5 47 212-258 30-78 (367)
206 KOG0987 DNA helicase PIF1/RRM3 96.9 0.0018 3.8E-08 72.1 7.1 61 193-254 114-179 (540)
207 COG0470 HolB ATPase involved i 96.9 0.00099 2.1E-08 69.5 4.9 27 214-240 26-52 (325)
208 PRK14963 DNA polymerase III su 96.9 0.0087 1.9E-07 65.9 12.4 26 214-239 38-63 (504)
209 PRK14087 dnaA chromosomal repl 96.9 0.0044 9.5E-08 67.4 9.9 36 213-248 142-179 (450)
210 COG1222 RPT1 ATP-dependent 26S 96.9 0.0015 3.2E-08 66.2 5.6 23 213-235 186-208 (406)
211 PRK06835 DNA replication prote 96.9 0.0019 4.2E-08 66.9 6.5 37 212-248 183-219 (329)
212 PRK10436 hypothetical protein; 96.9 0.0018 3.9E-08 70.1 6.6 50 195-244 200-250 (462)
213 KOG0333 U5 snRNP-like RNA heli 96.9 0.015 3.2E-07 61.7 12.8 76 196-272 267-358 (673)
214 TIGR03880 KaiC_arch_3 KaiC dom 96.9 0.0018 4E-08 63.7 6.1 53 212-265 16-68 (224)
215 PF00004 AAA: ATPase family as 96.9 0.00076 1.6E-08 60.0 3.1 22 215-236 1-22 (132)
216 PRK04328 hypothetical protein; 96.9 0.0017 3.8E-08 64.9 5.9 52 212-264 23-74 (249)
217 KOG0922 DEAH-box RNA helicase 96.8 0.0056 1.2E-07 66.8 9.8 61 203-263 57-118 (674)
218 PRK14952 DNA polymerase III su 96.8 0.0027 5.9E-08 70.7 7.8 24 214-237 37-60 (584)
219 TIGR03420 DnaA_homol_Hda DnaA 96.8 0.0038 8.1E-08 61.5 8.0 55 196-250 20-76 (226)
220 PF13191 AAA_16: AAA ATPase do 96.8 0.0026 5.6E-08 60.3 6.6 48 199-246 6-58 (185)
221 PRK06067 flagellar accessory p 96.8 0.0023 5.1E-08 63.4 6.4 54 211-265 24-77 (234)
222 PLN03137 ATP-dependent DNA hel 96.8 0.011 2.4E-07 69.5 12.6 72 195-270 459-530 (1195)
223 PF02689 Herpes_Helicase: Heli 96.8 0.013 2.8E-07 65.2 12.4 45 213-262 60-104 (818)
224 TIGR02533 type_II_gspE general 96.8 0.0017 3.8E-08 71.0 5.9 51 195-245 224-275 (486)
225 TIGR02774 rexB_recomb ATP-depe 96.8 0.11 2.4E-06 62.8 21.3 151 369-553 185-346 (1076)
226 smart00489 DEXDc3 DEAD-like he 96.8 0.005 1.1E-07 62.9 8.8 66 196-261 8-82 (289)
227 smart00488 DEXDc2 DEAD-like he 96.8 0.005 1.1E-07 62.9 8.8 66 196-261 8-82 (289)
228 COG0467 RAD55 RecA-superfamily 96.8 0.0022 4.9E-08 64.6 6.2 46 211-256 22-67 (260)
229 TIGR00963 secA preprotein tran 96.8 0.0083 1.8E-07 67.8 10.9 62 198-262 58-119 (745)
230 PRK05896 DNA polymerase III su 96.7 0.0083 1.8E-07 66.5 10.5 27 214-240 40-66 (605)
231 COG2804 PulE Type II secretory 96.7 0.0029 6.3E-08 67.5 6.7 47 196-242 241-288 (500)
232 cd01130 VirB11-like_ATPase Typ 96.7 0.0031 6.7E-08 60.1 5.9 51 195-246 8-58 (186)
233 PRK06921 hypothetical protein; 96.7 0.0026 5.5E-08 64.2 5.6 37 212-248 117-154 (266)
234 PHA03333 putative ATPase subun 96.7 0.04 8.7E-07 61.3 15.0 63 199-262 175-238 (752)
235 PLN03142 Probable chromatin-re 96.7 0.011 2.4E-07 69.8 11.5 149 195-404 168-331 (1033)
236 TIGR02640 gas_vesic_GvpN gas v 96.7 0.0036 7.8E-08 63.1 6.6 25 211-235 20-44 (262)
237 TIGR02237 recomb_radB DNA repa 96.6 0.0033 7.3E-08 61.1 6.0 39 212-250 12-50 (209)
238 PRK05563 DNA polymerase III su 96.6 0.0091 2E-07 66.7 10.0 25 213-237 39-63 (559)
239 PRK13104 secA preprotein trans 96.6 0.004 8.7E-08 71.4 7.2 48 215-262 98-145 (896)
240 TIGR02655 circ_KaiC circadian 96.6 0.0028 6E-08 69.9 5.8 53 211-264 262-314 (484)
241 PTZ00293 thymidine kinase; Pro 96.6 0.0081 1.8E-07 57.6 8.2 38 213-250 5-42 (211)
242 KOG0328 Predicted ATP-dependen 96.6 0.0014 3E-08 63.8 3.0 65 198-263 51-118 (400)
243 COG3854 SpoIIIAA ncharacterize 96.6 0.01 2.2E-07 56.7 8.6 37 214-250 139-180 (308)
244 PRK14873 primosome assembly pr 96.6 0.0099 2.2E-07 67.4 10.2 48 216-263 164-211 (665)
245 PRK05642 DNA replication initi 96.6 0.0068 1.5E-07 60.0 8.0 36 213-248 46-81 (234)
246 COG4581 Superfamily II RNA hel 96.6 0.011 2.3E-07 68.9 10.5 68 193-261 116-183 (1041)
247 PRK09111 DNA polymerase III su 96.6 0.012 2.6E-07 65.9 10.8 41 198-238 29-72 (598)
248 TIGR03881 KaiC_arch_4 KaiC dom 96.6 0.0033 7.1E-08 62.1 5.7 51 211-262 19-69 (229)
249 PF13481 AAA_25: AAA domain; P 96.6 0.004 8.8E-08 59.6 6.2 51 211-262 31-91 (193)
250 TIGR02538 type_IV_pilB type IV 96.6 0.0036 7.7E-08 70.2 6.5 50 195-244 298-348 (564)
251 cd01394 radB RadB. The archaea 96.6 0.0029 6.4E-08 61.9 5.2 37 212-248 19-55 (218)
252 PRK09112 DNA polymerase III su 96.6 0.016 3.4E-07 60.9 10.8 38 201-238 31-71 (351)
253 KOG2028 ATPase related to the 96.6 0.0026 5.7E-08 64.4 4.6 60 203-262 151-212 (554)
254 PF05496 RuvB_N: Holliday junc 96.6 0.0072 1.6E-07 58.2 7.4 72 213-287 51-124 (233)
255 KOG0342 ATP-dependent RNA heli 96.6 0.047 1E-06 57.6 13.8 65 195-260 103-174 (543)
256 PHA00350 putative assembly pro 96.6 0.0071 1.5E-07 63.8 8.1 58 214-272 3-63 (399)
257 PRK09361 radB DNA repair and r 96.5 0.0033 7.1E-08 61.9 5.3 38 212-249 23-60 (225)
258 PRK14965 DNA polymerase III su 96.5 0.0084 1.8E-07 67.3 9.1 38 200-237 23-63 (576)
259 TIGR01650 PD_CobS cobaltochela 96.5 0.0036 7.8E-08 64.1 5.6 42 195-236 47-88 (327)
260 PF06309 Torsin: Torsin; Inte 96.5 0.0045 9.7E-08 53.9 5.3 28 213-240 53-81 (127)
261 PRK09200 preprotein translocas 96.5 0.015 3.1E-07 66.8 10.9 63 197-262 79-141 (790)
262 PRK08727 hypothetical protein; 96.5 0.0033 7.2E-08 62.2 5.2 36 213-248 42-77 (233)
263 PF13207 AAA_17: AAA domain; P 96.5 0.0024 5.1E-08 56.0 3.7 23 214-236 1-23 (121)
264 cd01122 GP4d_helicase GP4d_hel 96.5 0.0048 1E-07 62.6 6.3 51 211-262 29-80 (271)
265 PRK08451 DNA polymerase III su 96.5 0.022 4.9E-07 62.6 11.7 25 214-238 38-62 (535)
266 cd00984 DnaB_C DnaB helicase C 96.4 0.0056 1.2E-07 61.0 6.3 48 212-260 13-61 (242)
267 cd01131 PilT Pilus retraction 96.4 0.0039 8.5E-08 60.0 5.0 36 212-247 1-37 (198)
268 COG2805 PilT Tfp pilus assembl 96.4 0.0054 1.2E-07 60.9 5.7 29 211-239 124-152 (353)
269 TIGR02012 tigrfam_recA protein 96.4 0.0062 1.4E-07 62.6 6.5 48 212-259 55-102 (321)
270 TIGR02881 spore_V_K stage V sp 96.4 0.0028 6.1E-08 63.9 4.0 26 213-238 43-68 (261)
271 PF07728 AAA_5: AAA domain (dy 96.4 0.0044 9.6E-08 55.8 4.9 28 215-245 2-29 (139)
272 PRK14959 DNA polymerase III su 96.4 0.021 4.5E-07 63.8 10.9 37 202-238 25-64 (624)
273 PRK07940 DNA polymerase III su 96.4 0.019 4.1E-07 61.1 10.3 26 214-239 38-63 (394)
274 TIGR02655 circ_KaiC circadian 96.4 0.0042 9.2E-08 68.4 5.5 52 212-264 21-73 (484)
275 COG1419 FlhF Flagellar GTP-bin 96.4 0.011 2.3E-07 61.8 8.0 51 198-248 183-241 (407)
276 PF00437 T2SE: Type II/IV secr 96.4 0.0041 8.9E-08 63.1 5.0 51 198-248 113-163 (270)
277 PRK08939 primosomal protein Dn 96.4 0.0045 9.7E-08 63.7 5.1 36 213-248 157-192 (306)
278 PRK06731 flhF flagellar biosyn 96.4 0.014 3E-07 58.8 8.5 50 212-261 75-127 (270)
279 PRK05707 DNA polymerase III su 96.4 0.02 4.3E-07 59.6 10.0 26 214-239 24-49 (328)
280 PF02492 cobW: CobW/HypB/UreG, 96.4 0.0082 1.8E-07 56.7 6.5 58 213-273 1-60 (178)
281 cd01983 Fer4_NifH The Fer4_Nif 96.3 0.0062 1.3E-07 50.6 5.0 33 215-247 2-34 (99)
282 KOG0743 AAA+-type ATPase [Post 96.3 0.0021 4.5E-08 67.4 2.3 23 214-236 237-259 (457)
283 PF05673 DUF815: Protein of un 96.3 0.017 3.7E-07 56.4 8.3 59 212-270 52-111 (249)
284 PF13177 DNA_pol3_delta2: DNA 96.3 0.033 7.2E-07 51.7 10.1 27 214-240 21-47 (162)
285 PRK12402 replication factor C 96.3 0.0058 1.3E-07 64.1 5.7 42 198-239 20-63 (337)
286 KOG0330 ATP-dependent RNA heli 96.3 0.015 3.2E-07 59.5 8.0 68 195-263 82-152 (476)
287 TIGR02928 orc1/cdc6 family rep 96.3 0.0057 1.2E-07 65.0 5.5 41 198-238 20-66 (365)
288 cd00544 CobU Adenosylcobinamid 96.2 0.0044 9.5E-08 57.9 3.9 46 214-262 1-46 (169)
289 PRK06851 hypothetical protein; 96.2 0.006 1.3E-07 63.8 5.1 45 212-256 214-260 (367)
290 cd00983 recA RecA is a bacter 96.2 0.0094 2E-07 61.3 6.4 46 212-257 55-100 (325)
291 cd03112 CobW_like The function 96.2 0.015 3.2E-07 53.8 7.2 34 213-248 1-34 (158)
292 PF05729 NACHT: NACHT domain 96.2 0.0049 1.1E-07 57.1 4.1 27 214-240 2-28 (166)
293 COG1205 Distinct helicase fami 96.2 0.036 7.8E-07 64.8 11.9 69 194-263 68-138 (851)
294 PRK12724 flagellar biosynthesi 96.2 0.0066 1.4E-07 64.2 5.2 36 213-248 224-260 (432)
295 PHA00729 NTP-binding motif con 96.2 0.0065 1.4E-07 58.9 4.8 24 214-237 19-42 (226)
296 cd02019 NK Nucleoside/nucleoti 96.2 0.0077 1.7E-07 47.0 4.4 30 215-246 2-31 (69)
297 PRK08769 DNA polymerase III su 96.2 0.022 4.7E-07 58.8 8.8 44 369-412 113-163 (319)
298 PRK00411 cdc6 cell division co 96.1 0.0094 2E-07 64.1 6.5 42 199-240 36-83 (394)
299 PF03308 ArgK: ArgK protein; 96.1 0.0056 1.2E-07 60.0 4.2 32 216-247 33-64 (266)
300 TIGR02880 cbbX_cfxQ probable R 96.1 0.0046 1E-07 63.1 3.9 27 214-240 60-86 (284)
301 PRK07764 DNA polymerase III su 96.1 0.039 8.5E-07 64.2 11.7 34 204-237 26-62 (824)
302 PF13671 AAA_33: AAA domain; P 96.1 0.0041 8.8E-08 56.3 3.0 22 214-235 1-22 (143)
303 PRK13768 GTPase; Provisional 96.1 0.007 1.5E-07 60.7 4.9 34 214-247 4-37 (253)
304 TIGR02525 plasmid_TraJ plasmid 96.1 0.013 2.9E-07 61.7 7.1 48 196-246 136-185 (372)
305 KOG0331 ATP-dependent RNA heli 96.1 0.022 4.8E-07 61.6 8.8 68 195-263 112-188 (519)
306 PRK11331 5-methylcytosine-spec 96.1 0.0085 1.8E-07 63.9 5.6 41 197-237 179-219 (459)
307 PF03205 MobB: Molybdopterin g 96.1 0.0088 1.9E-07 54.0 4.9 38 213-250 1-38 (140)
308 PRK09302 circadian clock prote 96.0 0.0094 2E-07 66.3 6.0 53 211-264 272-324 (509)
309 KOG0335 ATP-dependent RNA heli 96.0 0.015 3.1E-07 62.0 7.0 68 195-263 95-175 (482)
310 KOG0343 RNA Helicase [RNA proc 96.0 0.0088 1.9E-07 63.7 5.1 67 195-262 90-163 (758)
311 COG1618 Predicted nucleotide k 96.0 0.0083 1.8E-07 54.1 4.2 29 215-243 8-36 (179)
312 PRK11823 DNA repair protein Ra 96.0 0.011 2.4E-07 64.3 6.1 50 212-262 80-129 (446)
313 COG4088 Predicted nucleotide k 96.0 0.0064 1.4E-07 57.0 3.6 34 213-246 2-35 (261)
314 PRK10865 protein disaggregatio 96.0 0.026 5.7E-07 66.4 9.6 28 211-238 198-225 (857)
315 PF01078 Mg_chelatase: Magnesi 96.0 0.0092 2E-07 56.9 4.7 36 199-234 9-44 (206)
316 PRK09751 putative ATP-dependen 96.0 0.023 5E-07 69.4 9.1 45 217-261 1-58 (1490)
317 cd01121 Sms Sms (bacterial rad 96.0 0.012 2.7E-07 62.0 6.2 51 211-262 81-131 (372)
318 CHL00181 cbbX CbbX; Provisiona 95.9 0.007 1.5E-07 61.8 4.0 26 214-239 61-86 (287)
319 KOG0920 ATP-dependent RNA heli 95.9 0.034 7.3E-07 64.2 9.8 65 199-263 175-242 (924)
320 PF03266 NTPase_1: NTPase; In 95.9 0.0075 1.6E-07 56.2 3.9 28 215-242 2-29 (168)
321 PHA03368 DNA packaging termina 95.9 0.08 1.7E-06 58.7 12.1 51 212-262 254-306 (738)
322 COG2109 BtuR ATP:corrinoid ade 95.9 0.17 3.7E-06 47.0 12.5 61 211-272 27-91 (198)
323 PRK08058 DNA polymerase III su 95.9 0.041 9E-07 57.4 9.8 27 213-239 29-55 (329)
324 KOG4284 DEAD box protein [Tran 95.9 0.0032 7E-08 68.0 1.5 65 198-263 49-116 (980)
325 PRK09354 recA recombinase A; P 95.9 0.015 3.3E-07 60.3 6.4 48 212-259 60-107 (349)
326 TIGR00176 mobB molybdopterin-g 95.9 0.012 2.5E-07 54.2 4.9 35 215-249 2-36 (155)
327 PF13238 AAA_18: AAA domain; P 95.9 0.0073 1.6E-07 53.3 3.5 22 215-236 1-22 (129)
328 TIGR00750 lao LAO/AO transport 95.9 0.012 2.5E-07 60.7 5.4 36 212-247 34-69 (300)
329 PRK14723 flhF flagellar biosyn 95.9 0.018 4E-07 65.5 7.3 46 213-258 186-236 (767)
330 cd03114 ArgK-like The function 95.9 0.012 2.7E-07 53.6 4.9 34 215-248 2-35 (148)
331 KOG0345 ATP-dependent RNA heli 95.9 0.075 1.6E-06 55.8 11.0 66 195-261 27-100 (567)
332 COG1444 Predicted P-loop ATPas 95.8 0.11 2.3E-06 59.0 12.8 67 195-261 210-282 (758)
333 PF00308 Bac_DnaA: Bacterial d 95.8 0.023 5E-07 55.6 6.9 35 214-248 36-72 (219)
334 TIGR00150 HI0065_YjeE ATPase, 95.8 0.018 3.9E-07 51.1 5.5 38 211-251 21-58 (133)
335 PTZ00112 origin recognition co 95.8 0.013 2.8E-07 66.6 5.6 40 198-237 760-806 (1164)
336 COG1102 Cmk Cytidylate kinase 95.7 0.0082 1.8E-07 54.2 3.1 22 215-236 3-24 (179)
337 cd01393 recA_like RecA is a b 95.7 0.017 3.8E-07 56.7 5.8 40 211-250 18-63 (226)
338 PRK03992 proteasome-activating 95.7 0.014 3E-07 62.5 5.4 24 213-236 166-189 (389)
339 PF12846 AAA_10: AAA-like doma 95.7 0.029 6.3E-07 57.6 7.6 56 213-272 2-57 (304)
340 PRK10865 protein disaggregatio 95.7 0.045 9.7E-07 64.5 9.9 34 213-246 599-632 (857)
341 TIGR00416 sms DNA repair prote 95.7 0.018 3.8E-07 62.7 6.1 50 211-261 93-142 (454)
342 PRK07399 DNA polymerase III su 95.7 0.081 1.8E-06 54.7 10.7 28 213-240 27-54 (314)
343 TIGR00635 ruvB Holliday juncti 95.7 0.014 3.1E-07 60.3 5.1 24 213-236 31-54 (305)
344 PHA02244 ATPase-like protein 95.6 0.017 3.6E-07 60.1 5.4 33 203-235 110-142 (383)
345 COG3857 AddB ATP-dependent nuc 95.6 0.34 7.4E-06 56.1 16.1 51 214-264 3-56 (1108)
346 COG1474 CDC6 Cdc6-related prot 95.6 0.016 3.5E-07 61.1 5.4 63 198-260 22-93 (366)
347 PRK13900 type IV secretion sys 95.6 0.019 4E-07 59.8 5.8 46 200-246 148-193 (332)
348 PF12775 AAA_7: P-loop contain 95.6 0.014 3E-07 59.1 4.7 58 205-262 26-83 (272)
349 PRK09435 membrane ATPase/prote 95.6 0.016 3.5E-07 60.0 5.2 35 214-248 58-92 (332)
350 TIGR01420 pilT_fam pilus retra 95.6 0.017 3.6E-07 60.8 5.4 37 211-247 121-158 (343)
351 PRK05800 cobU adenosylcobinami 95.6 0.013 2.7E-07 54.9 4.0 47 214-263 3-49 (170)
352 PRK13764 ATPase; Provisional 95.6 0.021 4.6E-07 63.6 6.4 35 210-244 255-289 (602)
353 PRK07414 cob(I)yrinic acid a,c 95.6 0.51 1.1E-05 44.0 14.5 61 211-273 20-84 (178)
354 PRK07471 DNA polymerase III su 95.6 0.11 2.4E-06 54.9 11.4 37 203-239 29-68 (365)
355 PHA02544 44 clamp loader, smal 95.6 0.029 6.4E-07 58.3 7.2 50 197-249 25-77 (316)
356 TIGR03345 VI_ClpV1 type VI sec 95.6 0.055 1.2E-06 63.6 10.1 33 214-246 598-630 (852)
357 PRK09302 circadian clock prote 95.6 0.017 3.7E-07 64.3 5.6 53 211-264 30-83 (509)
358 COG0556 UvrB Helicase subunit 95.6 0.021 4.5E-07 60.9 5.8 62 199-263 15-80 (663)
359 PRK13531 regulatory ATPase Rav 95.6 0.017 3.7E-07 62.2 5.2 34 204-237 31-64 (498)
360 PRK05541 adenylylsulfate kinas 95.5 0.02 4.4E-07 53.9 5.3 35 212-246 7-41 (176)
361 PF04665 Pox_A32: Poxvirus A32 95.5 0.019 4.1E-07 56.4 5.1 35 214-248 15-49 (241)
362 PRK00080 ruvB Holliday junctio 95.5 0.016 3.5E-07 60.6 5.0 24 213-236 52-75 (328)
363 COG1703 ArgK Putative periplas 95.5 0.028 6.1E-07 56.1 6.2 34 214-247 53-86 (323)
364 TIGR00362 DnaA chromosomal rep 95.5 0.015 3.2E-07 62.7 4.7 35 213-247 137-173 (405)
365 TIGR02524 dot_icm_DotB Dot/Icm 95.5 0.023 5.1E-07 59.7 6.0 28 211-238 133-160 (358)
366 PRK00889 adenylylsulfate kinas 95.5 0.022 4.7E-07 53.6 5.3 35 212-246 4-38 (175)
367 KOG1533 Predicted GTPase [Gene 95.5 0.011 2.4E-07 56.4 3.2 36 215-250 5-42 (290)
368 PRK07667 uridine kinase; Provi 95.5 0.023 5E-07 54.5 5.3 37 214-250 19-55 (193)
369 PRK00149 dnaA chromosomal repl 95.4 0.044 9.6E-07 60.0 8.2 36 213-248 149-186 (450)
370 cd02034 CooC The accessory pro 95.4 0.024 5.2E-07 49.3 4.9 44 215-261 2-45 (116)
371 PF03029 ATP_bind_1: Conserved 95.4 0.012 2.6E-07 58.2 3.4 30 217-246 1-30 (238)
372 PRK14962 DNA polymerase III su 95.4 0.02 4.4E-07 62.5 5.3 36 202-237 23-61 (472)
373 COG0378 HypB Ni2+-binding GTPa 95.4 0.016 3.4E-07 54.2 3.7 55 214-272 15-72 (202)
374 PRK06762 hypothetical protein; 95.4 0.027 5.9E-07 52.4 5.5 40 213-260 3-42 (166)
375 PF07726 AAA_3: ATPase family 95.4 0.0088 1.9E-07 52.3 1.9 36 371-407 64-102 (131)
376 TIGR01359 UMP_CMP_kin_fam UMP- 95.4 0.012 2.6E-07 55.7 3.1 23 214-236 1-23 (183)
377 PRK14088 dnaA chromosomal repl 95.4 0.031 6.8E-07 60.7 6.6 35 214-248 132-168 (440)
378 TIGR01242 26Sp45 26S proteasom 95.4 0.021 4.5E-07 60.7 5.2 23 214-236 158-180 (364)
379 PF00910 RNA_helicase: RNA hel 95.4 0.014 3.1E-07 50.0 3.2 23 216-238 2-24 (107)
380 TIGR03574 selen_PSTK L-seryl-t 95.3 0.02 4.3E-07 57.3 4.7 33 214-246 1-33 (249)
381 smart00763 AAA_PrkA PrkA AAA d 95.3 0.024 5.2E-07 58.9 5.3 41 196-236 55-102 (361)
382 COG0714 MoxR-like ATPases [Gen 95.3 0.025 5.5E-07 59.1 5.6 56 198-254 29-84 (329)
383 TIGR01360 aden_kin_iso1 adenyl 95.3 0.016 3.5E-07 55.1 3.8 25 212-236 3-27 (188)
384 PF13555 AAA_29: P-loop contai 95.3 0.023 4.9E-07 43.0 3.7 26 213-238 24-49 (62)
385 TIGR03689 pup_AAA proteasome A 95.3 0.022 4.7E-07 62.4 5.0 25 213-237 217-241 (512)
386 PRK10463 hydrogenase nickel in 95.3 0.062 1.3E-06 54.3 7.9 73 198-272 88-162 (290)
387 PRK10751 molybdopterin-guanine 95.3 0.027 5.7E-07 52.6 4.9 39 212-250 6-44 (173)
388 PTZ00361 26 proteosome regulat 95.2 0.026 5.6E-07 60.8 5.4 24 213-236 218-241 (438)
389 PRK06871 DNA polymerase III su 95.2 0.18 4E-06 52.2 11.4 44 368-412 106-157 (325)
390 cd02028 UMPK_like Uridine mono 95.2 0.025 5.5E-07 53.4 4.7 34 214-247 1-34 (179)
391 PRK08118 topology modulation p 95.2 0.016 3.5E-07 54.0 3.3 22 215-236 4-25 (167)
392 TIGR00041 DTMP_kinase thymidyl 95.2 0.029 6.4E-07 53.7 5.2 35 213-247 4-38 (195)
393 PRK13851 type IV secretion sys 95.2 0.028 6E-07 58.7 5.2 50 198-248 148-197 (344)
394 PRK12326 preprotein translocas 95.2 0.055 1.2E-06 60.8 7.8 40 221-260 100-139 (764)
395 PRK00440 rfc replication facto 95.2 0.031 6.8E-07 58.1 5.7 41 199-239 23-65 (319)
396 PRK11034 clpA ATP-dependent Cl 95.1 0.068 1.5E-06 61.7 8.7 24 213-236 489-512 (758)
397 PRK06696 uridine kinase; Valid 95.1 0.03 6.5E-07 55.0 5.2 35 213-247 23-57 (223)
398 cd02027 APSK Adenosine 5'-phos 95.1 0.029 6.3E-07 51.2 4.7 33 214-246 1-33 (149)
399 PF08433 KTI12: Chromatin asso 95.1 0.029 6.3E-07 56.5 4.9 35 213-247 2-36 (270)
400 PF01583 APS_kinase: Adenylyls 95.1 0.039 8.4E-07 50.4 5.2 34 214-247 4-37 (156)
401 TIGR03346 chaperone_ClpB ATP-d 95.0 0.068 1.5E-06 63.2 8.6 37 213-249 596-632 (852)
402 COG1223 Predicted ATPase (AAA+ 95.0 0.017 3.8E-07 56.0 3.0 25 211-235 150-174 (368)
403 KOG0781 Signal recognition par 95.0 0.23 4.9E-06 52.6 11.2 43 215-257 381-426 (587)
404 PRK14493 putative bifunctional 95.0 0.03 6.6E-07 56.5 4.9 36 214-250 3-38 (274)
405 PF02572 CobA_CobO_BtuR: ATP:c 95.0 0.7 1.5E-05 43.0 13.4 59 212-272 3-65 (172)
406 PRK14494 putative molybdopteri 95.0 0.038 8.3E-07 54.0 5.3 38 214-251 3-40 (229)
407 KOG3347 Predicted nucleotide k 95.0 0.022 4.7E-07 50.7 3.1 22 212-233 7-28 (176)
408 KOG1131 RNA polymerase II tran 95.0 0.25 5.4E-06 52.7 11.3 64 197-260 17-87 (755)
409 PF03215 Rad17: Rad17 cell cyc 95.0 0.02 4.4E-07 63.0 3.7 25 212-236 45-69 (519)
410 cd02117 NifH_like This family 95.0 0.037 7.9E-07 53.9 5.2 32 215-246 3-34 (212)
411 KOG0348 ATP-dependent RNA heli 95.0 0.11 2.5E-06 55.4 8.9 67 195-262 158-233 (708)
412 KOG0738 AAA+-type ATPase [Post 94.9 0.0099 2.1E-07 61.0 1.1 40 214-261 247-286 (491)
413 cd00550 ArsA_ATPase Oxyanion-t 94.9 0.031 6.7E-07 56.1 4.7 35 214-248 2-36 (254)
414 KOG0780 Signal recognition par 94.9 0.09 1.9E-06 54.1 7.9 56 212-267 101-159 (483)
415 PF05707 Zot: Zonular occluden 94.9 0.023 5E-07 54.4 3.6 32 214-245 2-34 (193)
416 PRK14961 DNA polymerase III su 94.9 0.03 6.5E-07 59.4 4.8 24 214-237 40-63 (363)
417 COG0529 CysC Adenylylsulfate k 94.9 0.086 1.9E-06 48.5 6.9 59 195-261 8-67 (197)
418 cd03116 MobB Molybdenum is an 94.9 0.05 1.1E-06 50.2 5.6 37 214-250 3-39 (159)
419 PRK06620 hypothetical protein; 94.9 0.02 4.4E-07 55.7 3.2 19 213-231 45-63 (214)
420 cd02021 GntK Gluconate kinase 94.9 0.019 4.2E-07 52.4 2.9 22 214-235 1-22 (150)
421 PRK08233 hypothetical protein; 94.9 0.019 4.2E-07 54.2 3.0 24 213-236 4-27 (182)
422 PF06068 TIP49: TIP49 C-termin 94.9 0.033 7.2E-07 57.5 4.7 26 211-236 49-74 (398)
423 KOG0390 DNA repair protein, SN 94.9 0.4 8.7E-06 54.6 13.5 58 193-250 235-308 (776)
424 COG2255 RuvB Holliday junction 94.8 0.046 9.9E-07 54.1 5.3 23 212-235 52-74 (332)
425 PRK06995 flhF flagellar biosyn 94.8 0.037 8E-07 60.1 5.2 35 213-247 257-293 (484)
426 COG1202 Superfamily II helicas 94.8 0.038 8.3E-07 59.3 5.1 79 194-272 214-298 (830)
427 PRK06964 DNA polymerase III su 94.8 0.12 2.6E-06 53.9 8.8 44 368-412 131-182 (342)
428 cd01125 repA Hexameric Replica 94.8 0.045 9.8E-07 54.4 5.5 50 213-263 2-63 (239)
429 TIGR02639 ClpA ATP-dependent C 94.8 0.13 2.8E-06 59.9 10.0 102 201-390 459-574 (731)
430 cd01123 Rad51_DMC1_radA Rad51_ 94.8 0.027 5.9E-07 55.7 4.0 40 211-250 18-63 (235)
431 PRK00131 aroK shikimate kinase 94.8 0.028 6E-07 52.6 3.8 25 212-236 4-28 (175)
432 KOG0951 RNA helicase BRR2, DEA 94.8 0.092 2E-06 61.4 8.3 76 195-270 308-398 (1674)
433 PF02374 ArsA_ATPase: Anion-tr 94.8 0.042 9.1E-07 56.6 5.2 47 213-259 2-50 (305)
434 PF13521 AAA_28: AAA domain; P 94.7 0.023 5.1E-07 52.7 3.0 21 215-235 2-22 (163)
435 COG1936 Predicted nucleotide k 94.7 0.023 5.1E-07 52.0 2.9 20 214-233 2-21 (180)
436 PRK03839 putative kinase; Prov 94.7 0.027 5.9E-07 53.2 3.5 23 214-236 2-24 (180)
437 PRK14964 DNA polymerase III su 94.7 0.13 2.9E-06 56.1 9.2 34 203-236 23-59 (491)
438 cd01672 TMPK Thymidine monopho 94.7 0.046 1E-06 52.3 5.2 34 214-247 2-35 (200)
439 PRK14531 adenylate kinase; Pro 94.7 0.027 5.8E-07 53.5 3.4 23 214-236 4-26 (183)
440 cd02025 PanK Pantothenate kina 94.7 0.038 8.3E-07 54.1 4.5 34 215-248 2-37 (220)
441 PRK14489 putative bifunctional 94.7 0.08 1.7E-06 56.1 7.3 62 213-274 206-272 (366)
442 PRK04040 adenylate kinase; Pro 94.7 0.028 6.2E-07 53.5 3.5 24 213-236 3-26 (188)
443 KOG0338 ATP-dependent RNA heli 94.7 0.087 1.9E-06 55.9 7.2 60 198-258 205-270 (691)
444 PRK14530 adenylate kinase; Pro 94.6 0.032 6.9E-07 54.5 3.8 25 212-236 3-27 (215)
445 PRK06547 hypothetical protein; 94.6 0.043 9.3E-07 51.4 4.5 24 212-235 15-38 (172)
446 PRK14527 adenylate kinase; Pro 94.6 0.032 6.9E-07 53.4 3.7 25 212-236 6-30 (191)
447 KOG0733 Nuclear AAA ATPase (VC 94.6 0.02 4.4E-07 62.0 2.5 23 214-236 225-247 (802)
448 TIGR02322 phosphon_PhnN phosph 94.6 0.037 8E-07 52.2 4.1 24 213-236 2-25 (179)
449 PRK13107 preprotein translocas 94.6 0.083 1.8E-06 60.8 7.4 48 215-262 98-145 (908)
450 PF00406 ADK: Adenylate kinase 94.6 0.027 6E-07 51.5 3.0 20 217-236 1-20 (151)
451 PTZ00454 26S protease regulato 94.5 0.028 6.1E-07 60.0 3.4 23 213-235 180-202 (398)
452 PHA02533 17 large terminase pr 94.5 0.33 7.2E-06 53.9 11.9 67 194-261 57-125 (534)
453 COG4962 CpaF Flp pilus assembl 94.5 0.05 1.1E-06 55.5 5.0 54 195-249 156-209 (355)
454 PRK14532 adenylate kinase; Pro 94.5 0.027 5.9E-07 53.6 3.0 21 215-235 3-23 (188)
455 cd00227 CPT Chloramphenicol (C 94.5 0.038 8.1E-07 52.0 3.8 25 212-236 2-26 (175)
456 COG1224 TIP49 DNA helicase TIP 94.5 0.035 7.6E-07 56.5 3.7 25 212-236 65-89 (450)
457 PRK12608 transcription termina 94.5 0.059 1.3E-06 56.3 5.5 58 204-261 123-186 (380)
458 cd02037 MRP-like MRP (Multiple 94.5 0.05 1.1E-06 50.8 4.6 34 214-247 2-35 (169)
459 cd02023 UMPK Uridine monophosp 94.5 0.045 9.7E-07 52.6 4.3 32 215-248 2-33 (198)
460 cd01428 ADK Adenylate kinase ( 94.5 0.03 6.5E-07 53.5 3.1 21 215-235 2-22 (194)
461 PLN02200 adenylate kinase fami 94.4 0.033 7.2E-07 55.0 3.5 24 213-236 44-67 (234)
462 PRK07261 topology modulation p 94.4 0.033 7.1E-07 52.2 3.2 21 215-235 3-23 (171)
463 cd02035 ArsA ArsA ATPase funct 94.4 0.05 1.1E-06 53.2 4.6 35 214-248 1-35 (217)
464 PHA02542 41 41 helicase; Provi 94.4 0.063 1.4E-06 58.6 5.8 50 211-261 189-238 (473)
465 COG3267 ExeA Type II secretory 94.4 0.3 6.5E-06 47.8 9.6 49 211-260 50-99 (269)
466 PF03796 DnaB_C: DnaB-like hel 94.4 0.13 2.9E-06 51.7 7.8 51 211-262 18-69 (259)
467 KOG0346 RNA helicase [RNA proc 94.3 0.092 2E-06 54.7 6.4 61 198-259 43-112 (569)
468 PRK08154 anaerobic benzoate ca 94.3 0.068 1.5E-06 55.3 5.6 43 194-236 105-157 (309)
469 PLN00020 ribulose bisphosphate 94.3 0.034 7.4E-07 57.6 3.3 25 212-236 148-172 (413)
470 TIGR03600 phage_DnaB phage rep 94.3 0.076 1.6E-06 57.6 6.3 53 209-262 191-244 (421)
471 PRK07993 DNA polymerase III su 94.3 0.16 3.5E-06 53.0 8.4 45 368-412 107-158 (334)
472 PRK06645 DNA polymerase III su 94.3 0.05 1.1E-06 59.8 4.8 25 213-237 44-68 (507)
473 PRK09519 recA DNA recombinatio 94.3 0.073 1.6E-06 60.9 6.2 49 212-260 60-108 (790)
474 PRK04301 radA DNA repair and r 94.3 0.064 1.4E-06 55.8 5.4 49 211-259 101-156 (317)
475 TIGR01313 therm_gnt_kin carboh 94.3 0.028 6E-07 52.2 2.4 21 216-236 2-22 (163)
476 PF01656 CbiA: CobQ/CobB/MinD/ 94.3 0.068 1.5E-06 50.9 5.2 35 214-248 1-35 (195)
477 KOG0925 mRNA splicing factor A 94.3 0.13 2.8E-06 54.3 7.4 64 200-263 50-114 (699)
478 PRK12904 preprotein translocas 94.3 0.17 3.7E-06 58.3 9.0 48 215-262 97-144 (830)
479 PF10412 TrwB_AAD_bind: Type I 94.3 0.073 1.6E-06 56.9 5.9 43 213-255 16-58 (386)
480 KOG0926 DEAH-box RNA helicase 94.3 0.14 3.1E-06 57.1 8.0 64 197-262 258-327 (1172)
481 PRK02496 adk adenylate kinase; 94.3 0.038 8.2E-07 52.4 3.3 22 215-236 4-25 (184)
482 COG3911 Predicted ATPase [Gene 94.3 0.04 8.7E-07 48.9 3.1 23 213-235 10-32 (183)
483 PRK06761 hypothetical protein; 94.2 0.046 1E-06 55.2 4.0 33 213-245 4-36 (282)
484 PRK12906 secA preprotein trans 94.2 0.15 3.2E-06 58.5 8.5 45 216-260 97-141 (796)
485 PRK14528 adenylate kinase; Pro 94.2 0.039 8.4E-07 52.5 3.4 23 214-236 3-25 (186)
486 cd02020 CMPK Cytidine monophos 94.2 0.039 8.5E-07 49.9 3.3 22 215-236 2-23 (147)
487 PF12774 AAA_6: Hydrolytic ATP 94.2 0.075 1.6E-06 52.3 5.4 51 197-250 17-67 (231)
488 PRK05917 DNA polymerase III su 94.2 0.67 1.5E-05 47.0 12.2 39 201-239 5-46 (290)
489 cd02040 NifH NifH gene encodes 94.2 0.062 1.4E-06 54.4 4.9 32 214-246 4-35 (270)
490 COG0606 Predicted ATPase with 94.1 0.043 9.2E-07 58.3 3.6 35 199-233 185-219 (490)
491 CHL00195 ycf46 Ycf46; Provisio 94.1 0.038 8.2E-07 60.5 3.4 32 213-247 260-291 (489)
492 PRK05480 uridine/cytidine kina 94.1 0.062 1.3E-06 52.1 4.6 25 212-236 6-30 (209)
493 KOG0385 Chromatin remodeling c 94.1 0.16 3.4E-06 56.6 7.9 147 195-404 166-329 (971)
494 PRK00279 adk adenylate kinase; 94.1 0.042 9.2E-07 53.6 3.3 21 215-235 3-23 (215)
495 PRK14957 DNA polymerase III su 94.1 0.072 1.6E-06 59.0 5.4 24 214-237 40-63 (546)
496 COG2812 DnaX DNA polymerase II 94.0 0.11 2.4E-06 56.7 6.6 45 367-412 117-169 (515)
497 PF14532 Sigma54_activ_2: Sigm 94.0 0.061 1.3E-06 48.4 4.0 26 205-230 14-39 (138)
498 PRK14955 DNA polymerase III su 94.0 0.072 1.6E-06 57.2 5.3 37 202-238 25-64 (397)
499 KOG0350 DEAD-box ATP-dependent 94.0 0.079 1.7E-06 56.1 5.2 51 213-263 184-238 (620)
500 TIGR00764 lon_rel lon-related 94.0 0.078 1.7E-06 59.9 5.6 53 204-256 29-82 (608)
No 1
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=5.8e-119 Score=927.93 Aligned_cols=628 Identities=49% Similarity=0.750 Sum_probs=583.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccCCChHHHhHcCCeeecceEEeeeeccCCcEEEEEEecCCCCCCCCCcCCCCEE
Q 006386 16 QEFVSVMAPLIDLEKEAEISASITSGASRNLDTAQKKGSTILNLKCVDAQTGLMGKTLLEFQSTKGDVLPAHKFGTHDVV 95 (647)
Q Consensus 16 ~~y~~~~~~ll~~E~~~~~~~~~~~~~~~~~~~~~~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gD~v 95 (647)
++|.+++.+||++|+++|++.....+.+.+++.+++.|.+|.+|.++..++|++|+.++.|+... +.+|++.|.+||+|
T Consensus 3 ~~f~sk~~~ll~~er~~ei~~t~~~~~~~~ie~l~~~g~~i~nl~~v~~~tGl~g~~li~f~~~~-~~lp~~~~~~gd~v 81 (649)
T KOG1803|consen 3 EEFVSKMSELLDHERKAEISVTEKSLDNVPIEALQRKGLAILNLWLVSVRTGLGGKSLIVFSKNR-EVLPSNSFGPGDVV 81 (649)
T ss_pred hHHHHHHHHHHHhhhhcchhhhhHhhhcCCHHHHHhccceeeeEEEEEEeecccceEEEEeccCc-cccCcCCCCCCcEE
Confidence 78999999999999999999999999999999999999999999999999999999999999877 88999999999999
Q ss_pred EEeeCCCCCCCCceEEEEEEEEeCCEEEEEecCCCCCCCCC-CeEEEEeccchhHHHHHHHHHHHHhcccCCCCcCcccc
Q 006386 96 VLKPNKADLGSPALGQGVVYRLKDSSITVAFDDIPEEGLNS-PLRLEKLANEVTYRRMKDALIQLSKGVQNGPAAGLIPV 174 (647)
Q Consensus 96 ~~~~~~~~~~~~~~~~g~v~~~~~~~i~v~~~~~~~~~~~~-~~~~~~~~~~~t~~r~~~al~~~~~~~~~~~~~~l~~~ 174 (647)
.|+..+...+..++.+|+|+++....|++.|++..+..... .+++.++.|.+||+||..++..++......|...++..
T Consensus 82 ~lr~~~~~~~~~~~~~GvV~~~~~~~i~~a~ee~~d~~~~~~~l~l~kl~n~vty~R~~~~~i~l~~~~~~~~~~~vv~~ 161 (649)
T KOG1803|consen 82 WLRTDKLNNKSKPCTEGVVYRVAEDSIDVAFEEEVDKPLTLSSLRLLKLENKVTYRRMKDTMICLSKFSNPGPSSDVVET 161 (649)
T ss_pred EEEcccccccCcccccceeEeeccchhhHhHHhhhcccchhhHHHHHHhhhhhhheecHHHHhhHhhhcCccchhhhHHH
Confidence 99855444555668899999999999999998877764433 78888999999999999999999885444467788889
Q ss_pred ccCCCCCCccc--ccccCCCCCCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHH
Q 006386 175 LFGEQKPTVLK--KDIAFKPFNSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIA 252 (647)
Q Consensus 175 l~~~~~p~~~~--~~~~~~~~~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~A 252 (647)
+++...+.... .......+++.||++|+.||..+.+...+.+|+||||||||+|++++|.++++++++||||||||.|
T Consensus 162 l~~~~~~~~~~~~~~~~~~~~~~~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn~A 241 (649)
T KOG1803|consen 162 LFGDRKPIPSPNIEIKKITFFNKNLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVA 241 (649)
T ss_pred HhccccCCCCchhhhcccccCCccccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHHHHcCCeEEEEcCchHH
Confidence 99987665544 3345677899999999999999998779999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcccCceEEEeCCCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHH
Q 006386 253 VDNIVERLVPHRVRLVRLGHPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLS 332 (647)
Q Consensus 253 vd~l~~rl~~~~~~~vr~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~ 332 (647)
||||.+||...+..++|+|++++..+.+..++++......++....++++++++.......+.++...++.++++++.++
T Consensus 242 VdNiverl~~~~~~l~R~g~paRl~~~~~~~sld~~~~t~d~~~~~~~~sk~~d~~~~~~~~tk~~~~~~~~~~~i~~lr 321 (649)
T KOG1803|consen 242 VDNIVERLTHLKLNLVRVGHPARLLESVADHSLDLLSNTKDNSQNAKDISKDIDILFQKNTKTKNDKLRKGIRKEIKLLR 321 (649)
T ss_pred HHHHHHHhcccccchhhcCchhhhhhhhhhhHHHHHHhcCchhhhhhhhHHHHHHHhhhhhcccchHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhcCceeeeccccccccccCCCCCCEEEEecCCCcchHHHHHHHHhcCeeeecCCCCCCCceeccH
Q 006386 333 KEERKRQQLAVTDVIKNADVVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIALLKGSRCILAGDHLQLPPTVQSV 412 (647)
Q Consensus 333 ~~~~~~~~~~~~~~l~~~~vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~vlvGD~~QL~p~v~s~ 412 (647)
++++++++..+.+++.+++|+++|..++..+.+++..||+||||||+|++||+||+|+++++++||+|||+||||++.|.
T Consensus 322 kdl~kre~~~v~eii~n~~VVfaTl~ga~~~~~~~~~fD~vIIDEaaQamE~~cWipvlk~kk~ILaGDp~QLpP~v~S~ 401 (649)
T KOG1803|consen 322 KDLRKRERKTVKEIISNSRVVFATLGGALDRLLRKRTFDLVIIDEAAQAMEPQCWIPVLKGKKFILAGDPKQLPPTVLSD 401 (649)
T ss_pred HHHHHHHHHHHHHhhcccceEEEeccchhhhhhcccCCCEEEEehhhhhccchhhhHHhcCCceEEeCCcccCCcccccc
Confidence 99999999999999999999999999999988888999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEE
Q 006386 413 EAEKKGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLI 492 (647)
Q Consensus 413 ~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~ 492 (647)
.+...|+..|+|+|+.+.++.....+|++|||||..|+.|+|..||+|+|+++.++..+.+.++++....+....|++|+
T Consensus 402 ~a~~~gl~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~wsn~~fY~~qlka~~~v~~~lL~dl~~v~~t~~t~~Plvlv 481 (649)
T KOG1803|consen 402 KAKRGGLQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWSNEVFYNGQLKAASSVASHLLRDLPNVLATESTKSPLVLV 481 (649)
T ss_pred hhhhccchhhHHHHHHHHcccchhhhhhhhhcchHHHhhCcHhhhcCCeeeecchhhhhhhhcccCCCCccccCCcEEEE
Confidence 99999999999999999999988999999999999999999999999999999999999999999998888899999999
Q ss_pred EecCCCccccccCC---CCccCHHHHHHHHHHHHHHHHcCCCCCeEEEEcccHHHHHHHHHHHhcCCCCCCeEEccCCCC
Q 006386 493 DIAGCDMEEKKDEE---DSTMNEGEAEVAMAHAKRLIQSGVHASDIGIITPYAAQVVLLKILRSKDDKLKNMEVSTVDGF 569 (647)
Q Consensus 493 d~~~~~~~~~~~~~---~s~~N~~Ea~~v~~~v~~l~~~g~~~~~I~IItpy~~Q~~~l~~l~~~~~~~~~i~v~Tvd~f 569 (647)
||.++...+..+.. +|++|..||+.|..+++.|+..|+++++|||||||++|+.+||.. ......+++|+|||+|
T Consensus 482 DT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~gV~p~dIaVIsPY~aQv~llR~~--~~~~~~~veV~TVD~f 559 (649)
T KOG1803|consen 482 DTQGEKDEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEAGVQPSDIAVISPYNAQVSLLREE--DEEDFRDVEVGTVDGF 559 (649)
T ss_pred ecccchhhhhccchhhccccCCHHHHHHHHHHHHHHHHcCCChhHeEEeccchHHHHHHhhc--ccccCccceeeccccc
Confidence 99998876665544 399999999999999999999999999999999999999999932 2345578999999999
Q ss_pred CCccccEEEEEEeecCCCCccccCCCCCceeeeecccccceEEEecCCccc-cchHHHHHHHHHHHcCccc--ccccccC
Q 006386 570 QGREKEAIIISMVRSNSKKEVGFLSDRRRMNVAVTRARRQCCLVCDTETVS-SDGFLKRLIEYFEEHAEYL--SGSEYLN 646 (647)
Q Consensus 570 QG~E~diVIis~vrs~~~~~~gfl~d~rrlnVAlTRAk~~l~ivG~~~~l~-~~~~~~~l~~~~~~~~~~~--~~~~~~~ 646 (647)
||+|+|+||||+||||+.+++||+.|.||||||+||||+++++|||..+++ .+.++++++.|+.+++.|+ +..+|..
T Consensus 560 QGrEkdvVIfsmVRSN~k~evGFL~e~RRLNVAiTRaRRh~~vIgds~tl~~~~~~l~k~~~f~~~~~~~~~p~~~~~~~ 639 (649)
T KOG1803|consen 560 QGREKDVVIFSLVRSNDKGEVGFLGETRRLNVAITRARRHFVVIGDSRTLKEGNEFLKKLVEFLEENKLVFGPSILEYFN 639 (649)
T ss_pred ccceeeEEEEEEEeecCcccccccCCcceeeEEEEeccceEEEEcCcHHHHhhHHHHHHHHHHhhhcceeccccchhhhh
Confidence 999999999999999999999999999999999999999999999999999 9999999999999999999 6666654
No 2
>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=6.3e-101 Score=852.85 Aligned_cols=596 Identities=43% Similarity=0.629 Sum_probs=505.4
Q ss_pred HHHHHHHHHHHhhccCCChHHHhHcCCeeecceEEeeeeccCCcEEEEEEecCCCCCCCCCcCCCCEEEEeeCCCCCCCC
Q 006386 28 LEKEAEISASITSGASRNLDTAQKKGSTILNLKCVDAQTGLMGKTLLEFQSTKGDVLPAHKFGTHDVVVLKPNKADLGSP 107 (647)
Q Consensus 28 ~E~~~~~~~~~~~~~~~~~~~~~~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gD~v~~~~~~~~~~~~ 107 (647)
+|+++|++...++++++|++++++.|+||.+|.+. ..+|++|+++++|.+.. ..++.|.+||+|+|+...+ ..
T Consensus 1 ~e~~~e~~~~~~~~~~~s~~~~~~~g~~~~~l~~~-~~~~~~g~~~~~f~~~~---~~~~~~~~GD~v~i~~~~~---~~ 73 (637)
T TIGR00376 1 LEREAEISAMMNEIRRLSLKQRERRGRAILNLQGK-IRGGLLGFLLVRFGRRK---AIATEISVGDIVLVSRGNP---LQ 73 (637)
T ss_pred CchHHHHHHHHHHHHhcCHHHHHhcCceEeceEEE-EEeCCCCeEEEEEecCC---CCCCcCCCCCEEEEecCCC---CC
Confidence 48999999999999999999999999999999998 78999999999999654 2457999999999996532 24
Q ss_pred ceEEEEEEEEeCCEEEEEecCCCCCCCCCCeEEEEeccchhHHHHHHHHHHHHhcccCCCCcCccccccCCCCCCccccc
Q 006386 108 ALGQGVVYRLKDSSITVAFDDIPEEGLNSPLRLEKLANEVTYRRMKDALIQLSKGVQNGPAAGLIPVLFGEQKPTVLKKD 187 (647)
Q Consensus 108 ~~~~g~v~~~~~~~i~v~~~~~~~~~~~~~~~~~~~~~~~t~~r~~~al~~~~~~~~~~~~~~l~~~l~~~~~p~~~~~~ 187 (647)
..+.|+|+++.++.|+|.++..++......+++++++|++||+||..||..+... ...++++|||...|.+....
T Consensus 74 ~~~~g~V~~v~~~~i~v~~~~~~~~~~~~~~~i~~~~~~~t~~rm~~aL~~l~~~-----~~~l~~~llg~~~p~~~~~~ 148 (637)
T TIGR00376 74 SDLTGVVTRVGKRFITVALEESVPQWSLKRVRIDLYANDVTFKRMKEALRALTEN-----HSRLLEFILGREAPSKASEI 148 (637)
T ss_pred CCcEEEEEEEcCcEEEEEECCCCCcccCceEEEEEecCccHHHHHHHHHHHHHhc-----hhhHHHHHhCCCCCCccccc
Confidence 5679999999999999999885443223459999999999999999999998763 23688999998888764333
Q ss_pred ccCCCCCCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCceE
Q 006386 188 IAFKPFNSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVRL 267 (647)
Q Consensus 188 ~~~~~~~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~ 267 (647)
..+.++++.||++|++||..++.+.++++|+||||||||+|+++++.++++.|.+||+|||||.|||++.++|.+.+.++
T Consensus 149 ~~~~~~~~~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a~sn~Avd~l~e~l~~~~~~v 228 (637)
T TIGR00376 149 HDFQFFDPNLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPSNIAVDNLLERLALCDQKI 228 (637)
T ss_pred ccccccCCCCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCcHHHHHHHHHHHHhCCCcE
Confidence 45566788999999999999998668999999999999999999999999999999999999999999999999989999
Q ss_pred EEeCCCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhcc-CCHHHHHH-------H---------------
Q 006386 268 VRLGHPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKT-KDKNTRRE-------I--------------- 324 (647)
Q Consensus 268 vr~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~-------~--------------- 324 (647)
+|+|++.++.+.+..+++++.+..++......+++++++++..+..+. +....+.. +
T Consensus 229 vRlg~~~r~~~~~~~~sl~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~ 308 (637)
T TIGR00376 229 VRLGHPARLLKSNKQHSLDYLIENHPKYQIVADIREKIDELIEERNKKLKPSPQKRRGLSDIKILRKALKKREARGIESL 308 (637)
T ss_pred EEeCCchhcchhHHhccHHHHHhcChhHHHHHHHHHHHHHHHHHHHhhccchHhHhhccchHHHHHHHHhhhhhcccchh
Confidence 999999999999999999999988888888888888888776653221 11111110 1
Q ss_pred -----------HHHHHHHHHHHHHHHHHHHHHHhhcCceeeeccccccccccCCCCCCEEEEecCCCcchHHHHHHHHhc
Q 006386 325 -----------QKELRTLSKEERKRQQLAVTDVIKNADVVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIALLKG 393 (647)
Q Consensus 325 -----------~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l~~~ 393 (647)
...+..+.+.+++.+.....+++..++++++|+ ++..+....||+||||||+|++||++|+|+.++
T Consensus 309 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~a~v~~st~---~~~~l~~~~Fd~vIIDEAsQ~~ep~~lipl~~~ 385 (637)
T TIGR00376 309 KIASMAEWIETNKSIDRLLKLLPEIEERIENEILAESDVVQSTN---SSAGLKGWEFDVAVIDEASQAMEPSCLIPLLKA 385 (637)
T ss_pred hhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhhCCEEEecc---CcHhhccCCCCEEEEECccccchHHHHHHHhhC
Confidence 111222223333444556778999999887774 456677889999999999999999999999999
Q ss_pred CeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhccc
Q 006386 394 SRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHML 473 (647)
Q Consensus 394 ~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~ 473 (647)
+++||||||+||||++.+.. ..+++.|+|+||...++.. ..+|++||||||+|++|+|..||+|+|.+++++..+.+
T Consensus 386 ~~~vLvGD~~QLpP~v~s~~--~~~l~~SlferL~~~~~~~-~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~l 462 (637)
T TIGR00376 386 RKLILAGDHKQLPPTILSHD--AEELELTLFERLIKEYPER-SRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANILL 462 (637)
T ss_pred CeEEEecChhhcCCcccccc--ccccchhHHHHHHHhCCCc-eeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhhh
Confidence 99999999999999999865 3588999999999987765 78999999999999999999999999999888877766
Q ss_pred ccccCCcCCC-----CCCCcEEEEEecCCCcccc-ccCCCCccCHHHHHHHHHHHHHHHHcCCCCCeEEEEcccHHHHHH
Q 006386 474 FDLEGVKRTS-----STEPTLLLIDIAGCDMEEK-KDEEDSTMNEGEAEVAMAHAKRLIQSGVHASDIGIITPYAAQVVL 547 (647)
Q Consensus 474 ~~~~~~~~~~-----~~~~~~~f~d~~~~~~~~~-~~~~~s~~N~~Ea~~v~~~v~~l~~~g~~~~~I~IItpy~~Q~~~ 547 (647)
.++|.....+ ....|++|+|+.|.+..+. ...+.|++|..||..|..++..|+..|+++.+|||||||++|+.+
T Consensus 463 ~~~~~~~~~~~~~~~~~~~p~~fidt~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~~~~IgVItPY~aQv~~ 542 (637)
T TIGR00376 463 RDLPKVEATDSEDDLETEIPLLFIDTSGCELFELKEADSTSKYNPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDL 542 (637)
T ss_pred hhcccccccccccccCCCCCEEEEECCCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcCCCcceEEEEcccHHHHHH
Confidence 5555432221 3446899999999865332 233579999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCCCCeEEccCCCCCCccccEEEEEEeecCCCCccccCCCCCceeeeecccccceEEEecCCccccchHHHH
Q 006386 548 LKILRSKDDKLKNMEVSTVDGFQGREKEAIIISMVRSNSKKEVGFLSDRRRMNVAVTRARRQCCLVCDTETVSSDGFLKR 627 (647)
Q Consensus 548 l~~l~~~~~~~~~i~v~Tvd~fQG~E~diVIis~vrs~~~~~~gfl~d~rrlnVAlTRAk~~l~ivG~~~~l~~~~~~~~ 627 (647)
|++++.. ....++|+|||+|||+|+|+||+|+||+|..+.+||+.|.||||||+||||++|+||||..+|+++++|+.
T Consensus 543 L~~~l~~--~~~~i~v~TVd~fQG~E~DvIi~S~vrsn~~~~~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~~~~~~~ 620 (637)
T TIGR00376 543 LRQLLEH--RHIDIEVSSVDGFQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKR 620 (637)
T ss_pred HHHHHHh--hCCCeEEccccccCCccccEEEEEEEecCCCCCcccccCcceeeeehhhhhCceEEEECHHHhccChHHHH
Confidence 9977642 23579999999999999999999999999988999999999999999999999999999999999999999
Q ss_pred HHHHHHHcCccccccc
Q 006386 628 LIEYFEEHAEYLSGSE 643 (647)
Q Consensus 628 l~~~~~~~~~~~~~~~ 643 (647)
|++|++++|+|+.+..
T Consensus 621 li~~~~~~~~~~~~~~ 636 (637)
T TIGR00376 621 LIEWCKQHGEVREAFK 636 (637)
T ss_pred HHHHHHHCCCEEcCCC
Confidence 9999999999998753
No 3
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=3.9e-92 Score=726.94 Aligned_cols=587 Identities=30% Similarity=0.414 Sum_probs=454.4
Q ss_pred CccCHHHHHHHHHHHHHHHHHHHHHHHHhhccCCChHHHhHcCCeeecceEEeeeeccCCcEEEEEEecCCCCCCCCCcC
Q 006386 11 SAVSLQEFVSVMAPLIDLEKEAEISASITSGASRNLDTAQKKGSTILNLKCVDAQTGLMGKTLLEFQSTKGDVLPAHKFG 90 (647)
Q Consensus 11 ~~~~~~~y~~~~~~ll~~E~~~~~~~~~~~~~~~~~~~~~~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (647)
++-...+|...|.||+.+|.+.+...- + ...-.+. .+.+..|+..+.+..|..+... .+-++.
T Consensus 235 ry~da~~y~~vf~pliklea~ydk~~K-e-------------s~~q~~~-tvRW~~gLnkk~~a~f~~~k~~--~e~kl~ 297 (935)
T KOG1802|consen 235 RYEDAYEYQNVFSPLIKLEADYDKRLK-E-------------SQTQENG-TVRWDIGLNKKRLAYFTLPKLD--SELKLA 297 (935)
T ss_pred cccchHHHhhhcchhhhhhhhhhhhhh-h-------------hcccccc-eEEeeeccccceEEEEecCCCc--chhccc
Confidence 445678999999999999998876321 1 1122232 3467889999999999887641 344788
Q ss_pred CCCEEEEeeCCCCCCCCceEEEEEEEEeCC---EEEEEe--cCCCCCCCCCCeEEEEeccchhHHHHHHHHHHHHhcccC
Q 006386 91 THDVVVLKPNKADLGSPALGQGVVYRLKDS---SITVAF--DDIPEEGLNSPLRLEKLANEVTYRRMKDALIQLSKGVQN 165 (647)
Q Consensus 91 ~gD~v~~~~~~~~~~~~~~~~g~v~~~~~~---~i~v~~--~~~~~~~~~~~~~~~~~~~~~t~~r~~~al~~~~~~~~~ 165 (647)
.||-..|...... .......|.|.++.++ ++.+.+ ...++......+.++..++.++|.||..||..|..+. .
T Consensus 298 ~GdE~~L~y~~~~-~~~w~~~g~v~~~pd~~~dE~~lEl~~~~~~p~e~~~~Ftvd~vwk~ts~drm~~alk~la~D~-~ 375 (935)
T KOG1802|consen 298 IGDEIRLTYSGGL-VLPWNGIGSVLKIPDNNGDEVKLELEFSQDPPIEVTHGFTVDFVWKSTSFDRMQLALKLLAVDE-K 375 (935)
T ss_pred cCCeeEEEecCCc-CCcccccceEEecCCCCcceeEEEeecCCCCCcccccceEEEEEEcCccHHHHHHHHHHhhhcc-c
Confidence 9999999765322 2224456888888553 555544 3333334456788999999999999999999988732 2
Q ss_pred CCCcCccccccCCCCCC-ccccc--cc-CCCCCCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC-
Q 006386 166 GPAAGLIPVLFGEQKPT-VLKKD--IA-FKPFNSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG- 240 (647)
Q Consensus 166 ~~~~~l~~~l~~~~~p~-~~~~~--~~-~~~~~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~- 240 (647)
.....+...++|...+. ..+.. .. ..+-.++||.+|..||.++|+ ++++|||||||||||.|.+++|.++++.+
T Consensus 376 ~vs~y~y~klLgh~~~~~~~k~~LP~~~s~~~lpkLN~SQ~~AV~~VL~-rplsLIQGPPGTGKTvtsa~IVyhl~~~~~ 454 (935)
T KOG1802|consen 376 KVSGYLYHKLLGHPVEDSSLKKLLPRRFSVPNLPKLNASQSNAVKHVLQ-RPLSLIQGPPGTGKTVTSATIVYHLARQHA 454 (935)
T ss_pred cchhhhhhHHhcCcchhhhhcccCchhhcCCCchhhchHHHHHHHHHHc-CCceeeecCCCCCceehhHHHHHHHHHhcC
Confidence 22234444556652211 11110 01 122346899999999999998 89999999999999999999999999874
Q ss_pred CeEEEeccchHHHHHHHHHhcccCceEEEeCCCCCCC--hhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCH
Q 006386 241 SKILACAASNIAVDNIVERLVPHRVRLVRLGHPARLL--PQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDK 318 (647)
Q Consensus 241 ~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~~~~~~--~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 318 (647)
.+||||||||.|||+|++++.+.|++++|+...++.. ..+....+..++...+. .|++.+.. .++.
T Consensus 455 ~~VLvcApSNiAVDqLaeKIh~tgLKVvRl~aksRE~~~S~vs~L~lh~~~~~~~~--------pELq~l~k----lkde 522 (935)
T KOG1802|consen 455 GPVLVCAPSNIAVDQLAEKIHKTGLKVVRLCAKSREDIESDVSFLSLHEQLRNMDK--------PELQKLLK----LKDE 522 (935)
T ss_pred CceEEEcccchhHHHHHHHHHhcCceEeeeehhhhhhccCCccHHHHHHHHhccCc--------HHHHHHHh----hhhh
Confidence 6999999999999999999999999999998876532 22222333333322222 12222211 1110
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeeccccccccccCCCCCCEEEEecCCCcchHHHHHHHHhc-Ceee
Q 006386 319 NTRREIQKELRTLSKEERKRQQLAVTDVIKNADVVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIALLKG-SRCI 397 (647)
Q Consensus 319 ~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l~~~-~~~v 397 (647)
...-.. .-.+.+++..+....+++..|+||||||.+++...+...+|..|+||||.|++||++|+||..| +++|
T Consensus 523 ~gelS~-----sD~~k~~~lk~~~e~ell~~AdVIccTcv~Agd~rl~~~kfr~VLiDEaTQatEpe~LiPlvlG~kq~V 597 (935)
T KOG1802|consen 523 GGELSS-----SDEKKYRKLKRAAEKELLNQADVICCTCVGAGDRRLSKFKFRTVLIDEATQATEPECLIPLVLGAKQLV 597 (935)
T ss_pred cccccc-----hhhHHHHHHHHHHHHHHHhhcCEEEEecccccchhhccccccEEEEecccccCCcchhhhhhhcceeEE
Confidence 000000 0011233344556678999999999999999999999999999999999999999999999988 8999
Q ss_pred ecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhccccccc
Q 006386 398 LAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLE 477 (647)
Q Consensus 398 lvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~ 477 (647)
|||||+||.|++....+...|+.+|||+||+..+-. .++|.+||||||.|++|+|+.||+|.|.++.....+.....+
T Consensus 598 lVGDh~QLgpvi~~kK~a~Agl~qsLferli~lg~~--P~~L~vQYRmhP~lSefpsn~fY~G~LqnGVT~~~R~~~g~~ 675 (935)
T KOG1802|consen 598 LVGDHKQLGPVIMCKKAATAGLSQSLFERLISLGIK--PIRLQVQYRMHPALSEFPSNMFYEGELQNGVTEIERSPLGVD 675 (935)
T ss_pred EeccccccCceeeeHHHHHhHHHHHHHHHHHhccCC--ceEEEEeeeeChhhhhcchhhhccchhhcCcchhhhccCCCC
Confidence 999999999999999999999999999999987544 789999999999999999999999999988766655433222
Q ss_pred CCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHHHHHHHHHHHHHcCCCCCeEEEEcccHHHHHHHHHHHhcC--
Q 006386 478 GVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEVAMAHAKRLIQSGVHASDIGIITPYAAQVVLLKILRSKD-- 555 (647)
Q Consensus 478 ~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g~~~~~I~IItpy~~Q~~~l~~l~~~~-- 555 (647)
.+++.+..|+.|+...|.+.. ...+.|+.|..||..+..+|..|+..|+.+++|||||||.+|..+|-.++...
T Consensus 676 --~pwp~p~~pl~fy~~~g~eei--sasGtSf~Nr~Ea~~~ekii~~l~~~gv~~~qIGVITpYegQr~~i~~ym~~~gs 751 (935)
T KOG1802|consen 676 --FPWPQPDKPLFFYVCYGQEEI--SASGTSFLNRTEAANCEKIITKLLKSGVKPSQIGVITPYEGQRSYIVNYMQTNGS 751 (935)
T ss_pred --CCCCCCCCccceEEeccceee--eccccceecHHHHHHHHHHHHHHHHcCCCHHHeeeecccchhHHHHHHHHHhcCc
Confidence 233446789999999886433 33458999999999999999999999999999999999999999998655332
Q ss_pred ---CCCCCeEEccCCCCCCccccEEEEEEeecCCCCccccCCCCCceeeeecccccceEEEecCCccccchHHHHHHHHH
Q 006386 556 ---DKLKNMEVSTVDGFQGREKEAIIISMVRSNSKKEVGFLSDRRRMNVAVTRARRQCCLVCDTETVSSDGFLKRLIEYF 632 (647)
Q Consensus 556 ---~~~~~i~v~Tvd~fQG~E~diVIis~vrs~~~~~~gfl~d~rrlnVAlTRAk~~l~ivG~~~~l~~~~~~~~l~~~~ 632 (647)
.-+..|+|.|||+|||+|+|+||+||||+|....|||+.|+||||||+||||++|+||||+..|++++.|..++.|+
T Consensus 752 l~~~ly~~veVasVDaFQGrEKdfIIlSCVRsn~~qgIGFl~d~RRlNVaLTRaK~glvivGN~~~L~k~~LW~~li~h~ 831 (935)
T KOG1802|consen 752 LHKDLYKEVEVASVDAFQGREKDFIILSCVRSNEHQGIGFLNDPRRLNVALTRAKYGLVIVGNPKVLRKHPLWGHLITHY 831 (935)
T ss_pred cccchhheeEEEeeccccCcccceEEEEEeecccccccccccCchhhhhhhhhcccceEEecCHHHhhhchHHHHHHHHh
Confidence 22356799999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHcCcccc
Q 006386 633 EEHAEYLS 640 (647)
Q Consensus 633 ~~~~~~~~ 640 (647)
++++.++.
T Consensus 832 ~eke~l~e 839 (935)
T KOG1802|consen 832 KEKEVLVE 839 (935)
T ss_pred hcccceee
Confidence 99998876
No 4
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=3.1e-85 Score=704.13 Aligned_cols=570 Identities=29% Similarity=0.406 Sum_probs=450.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH---HHHhhccCCChHHHhHcCCeeecceEEee-e-eccCCcEEEEEEecCCCCCCCCCc
Q 006386 15 LQEFVSVMAPLIDLEKEAEIS---ASITSGASRNLDTAQKKGSTILNLKCVDA-Q-TGLMGKTLLEFQSTKGDVLPAHKF 89 (647)
Q Consensus 15 ~~~y~~~~~~ll~~E~~~~~~---~~~~~~~~~~~~~~~~~g~~~~~l~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~ 89 (647)
-.+|+..|..++.+|.+.+-. .....+|..++.+.++.|.|+.+|.++.. . ....|.++..|..-....-+-..|
T Consensus 480 ~~~y~~~w~~~l~le~~~~~~~~~~~~~~~~~k~~~e~~~~g~~l~~L~~~~~~e~~~~~~~~~~~~~~~~~~~~~~s~~ 559 (1100)
T KOG1805|consen 480 HLEYLAGWTLLLGLESKNEHNRLLSQNLDFWLKGIIEEEREGRCLSRLSVVSPEEHEETEGVYIYAFDCFLRAGNSVSLF 559 (1100)
T ss_pred HHHHHHHHHHhccchhhhhhhhhhccccceeeccHHHHhhcCcceeceeeccceeeEeecceeeehhhhhhccCCccccc
Confidence 458999999999999885542 22346899999999999999999999872 2 335666777776544332235689
Q ss_pred CCCCEEEEeeCCCCCCCCceEEEEEEEEeCCEEEEEecCCCCCCCC-CCeEEEEeccchhHHHHHHHHHHHHhcccCCCC
Q 006386 90 GTHDVVVLKPNKADLGSPALGQGVVYRLKDSSITVAFDDIPEEGLN-SPLRLEKLANEVTYRRMKDALIQLSKGVQNGPA 168 (647)
Q Consensus 90 ~~gD~v~~~~~~~~~~~~~~~~g~v~~~~~~~i~v~~~~~~~~~~~-~~~~~~~~~~~~t~~r~~~al~~~~~~~~~~~~ 168 (647)
..||.|.|+...... -.+..|.+.......+....+........ ..|++++.....+..-+...|..+... ..++
T Consensus 560 ~~gd~v~iS~e~~~~--i~~~~~~~~~~~~~~l~~~~~~~~~s~~~~el~ridK~d~~ss~s~~r~nL~~l~~~--~~~~ 635 (1100)
T KOG1805|consen 560 HAGDRVIISSEEGHG--IGLAMIKVVLINRLRLDRSTPKDEQSVLEEELFRIDKEDIMSSASTKRGNLMSLLLN--DEGG 635 (1100)
T ss_pred ccCceEEEecCccce--eEeeeeeeecchhhhccccCCcchhhccccceeeccHHhhhhhhhhhhhhHHHHhcC--Cccc
Confidence 999999999753211 12222333333333332222222111111 236777655555555555555554431 2335
Q ss_pred cCccccccCCCCCCcccccc--cCCC----CCCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCe
Q 006386 169 AGLIPVLFGEQKPTVLKKDI--AFKP----FNSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSK 242 (647)
Q Consensus 169 ~~l~~~l~~~~~p~~~~~~~--~~~~----~~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ 242 (647)
..+++++....+|.+..... .... ....||..|++|+.+++.+.++++|.|.|||||||||+.+|+.|+..|++
T Consensus 636 ~~lRdlivd~~pP~f~~~~~~~~~p~~~~~~~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~~gkk 715 (1100)
T KOG1805|consen 636 KILRDLIVDLKPPKFVDALSKVLIPKIKKIILLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKILVALGKK 715 (1100)
T ss_pred hhHHHHhhhcCCchhhcccccccCchhhHHHHhhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHHHHHHHcCCe
Confidence 67888888888888754211 1111 33589999999999999999999999999999999999999999999999
Q ss_pred EEEeccchHHHHHHHHHhcccCceEEEeCCCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHH
Q 006386 243 ILACAASNIAVDNIVERLVPHRVRLVRLGHPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRR 322 (647)
Q Consensus 243 ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 322 (647)
||++|+||.|||||.-||...+..++|+|.++++.+.+..+++.... ..
T Consensus 716 VLLtsyThsAVDNILiKL~~~~i~~lRLG~~~kih~~v~e~~~~~~~----s~--------------------------- 764 (1100)
T KOG1805|consen 716 VLLTSYTHSAVDNILIKLKGFGIYILRLGSEEKIHPDVEEFTLTNET----SE--------------------------- 764 (1100)
T ss_pred EEEEehhhHHHHHHHHHHhccCcceeecCCccccchHHHHHhccccc----ch---------------------------
Confidence 99999999999999999999999999999999999998887752100 00
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeeccccccccccCCCCCCEEEEecCCCcchHHHHHHHHhcCeeeecCCC
Q 006386 323 EIQKELRTLSKEERKRQQLAVTDVIKNADVVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIALLKGSRCILAGDH 402 (647)
Q Consensus 323 ~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~vlvGD~ 402 (647)
+. .......++...||+|||.+..++.+.+..||+||||||+|+..|-+|.||..++|+||||||
T Consensus 765 ---ks------------~~~l~~~~~~~~IVa~TClgi~~plf~~R~FD~cIiDEASQI~lP~~LgPL~~s~kFVLVGDh 829 (1100)
T KOG1805|consen 765 ---KS------------YADLKKFLDQTSIVACTCLGINHPLFVNRQFDYCIIDEASQILLPLCLGPLSFSNKFVLVGDH 829 (1100)
T ss_pred ---hh------------HHHHHHHhCCCcEEEEEccCCCchhhhccccCEEEEccccccccchhhhhhhhcceEEEeccc
Confidence 00 012345688999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChh-hhhccccc------
Q 006386 403 LQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPS-VAAHMLFD------ 475 (647)
Q Consensus 403 ~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~-~~~~~~~~------ 475 (647)
.||||.|+|.+|+..|++.|||+||.+.+|.. +..|+.||||+.+|+.++|.+||+|+|+++.. +......+
T Consensus 830 ~QLpPLV~s~ear~~Gl~~SLFkrL~e~hpea-V~~Lt~QYRMn~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~ 908 (1100)
T KOG1805|consen 830 YQLPPLVRSSEARQEGLSESLFKRLSEKHPEA-VSSLTLQYRMNREIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALS 908 (1100)
T ss_pred ccCCccccchhhhhcCcchHHHHHHhhhCchH-HHhHHHHHhhcchHHhhhhhheECCeeeecChhhhhhhccccchhhh
Confidence 99999999999999999999999999998887 78899999999999999999999999997643 22111101
Q ss_pred --------ccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHHHHHHHHHHHHHcCCCCCeEEEEcccHHHHHH
Q 006386 476 --------LEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEVAMAHAKRLIQSGVHASDIGIITPYAAQVVL 547 (647)
Q Consensus 476 --------~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g~~~~~I~IItpy~~Q~~~ 547 (647)
.+++.....+..+++|++++.+...+.+.+.+...|..||..+.+++..++..|+++++|||||||++|+.+
T Consensus 909 ~~~~~s~s~~wl~~v~~p~~~v~f~~~D~~~~ie~~~e~~~i~N~~EA~li~~~~~~fv~sGv~~~dIGIis~YraQv~L 988 (1100)
T KOG1805|consen 909 VYMDDSSSDHWLQAVLEPTRDVCFVNTDTCSTIESQGEKGGITNHGEAKLISELVEDFVKSGVKPSDIGIISPYRAQVEL 988 (1100)
T ss_pred hhcccccchHHHHHhhcCCccceEEecCcccchhhhccccCcCchhHHHHHHHHHHHHHHcCCCHHHeeeeehHHHHHHH
Confidence 011222334667888988888766555666677889999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCCCCeEEccCCCCCCccccEEEEEEeecCCCCccc-cCCCCCceeeeecccccceEEEecCCccccchHHH
Q 006386 548 LKILRSKDDKLKNMEVSTVDGFQGREKEAIIISMVRSNSKKEVG-FLSDRRRMNVAVTRARRQCCLVCDTETVSSDGFLK 626 (647)
Q Consensus 548 l~~l~~~~~~~~~i~v~Tvd~fQG~E~diVIis~vrs~~~~~~g-fl~d~rrlnVAlTRAk~~l~ivG~~~~l~~~~~~~ 626 (647)
|+++++. ..++|.|||+|||+++|+||+|+||+|.....| .+.|+||+||||||||++||+||+..+|.+.|.++
T Consensus 989 i~~~l~~----~~lEinTVD~yQGRDKd~IivSfvrsn~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~l~~~~~~~ 1064 (1100)
T KOG1805|consen 989 IRKILSS----AVLEINTVDRYQGRDKDCIIVSFVRSNKKSKVGELLKDWRRLNVALTRAKKKLILVGSKSTLESYPPFR 1064 (1100)
T ss_pred HHhhccc----cceeeeehhhhcCCCCCEEEEEEEecCCcccHHHHHHhhHHHHHHHHhhhceEEEEecccccccCchHH
Confidence 9988754 239999999999999999999999999987666 78999999999999999999999999999999999
Q ss_pred HHHHHHHHcCccc
Q 006386 627 RLIEYFEEHAEYL 639 (647)
Q Consensus 627 ~l~~~~~~~~~~~ 639 (647)
.|+++.+++..+.
T Consensus 1065 ~l~~~l~~~~~l~ 1077 (1100)
T KOG1805|consen 1065 QLLKLLENRIELL 1077 (1100)
T ss_pred HHHhhhhhhhhHH
Confidence 9999998766543
No 5
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=7.7e-55 Score=456.80 Aligned_cols=284 Identities=29% Similarity=0.375 Sum_probs=241.7
Q ss_pred HHHhhcCceeeecccccccc--ccCCCCCCEEEEecCCCcchHHHHHHHHhc-CeeeecCCCCCCCceeccH-HHHhcCC
Q 006386 344 TDVIKNADVVLTTLTGAVSR--KLDNTSFDLVIIDEAAQALEIACWIALLKG-SRCILAGDHLQLPPTVQSV-EAEKKGL 419 (647)
Q Consensus 344 ~~~l~~~~vi~~T~~~~~~~--~l~~~~fd~vIIDEAsq~~e~~~l~~l~~~-~~~vlvGD~~QL~p~v~s~-~~~~~g~ 419 (647)
..+++.++||.+|+++++.. .+....+.+|||.||+.+.|+..+.++.+. .++||+|||+||.|.--.. -+...++
T Consensus 693 a~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal~p~~EhviLIGDHKQLrP~~~vy~L~q~fnL 772 (1025)
T KOG1807|consen 693 AFLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAALTPHTEHVILIGDHKQLRPFSGVYKLPQIFNL 772 (1025)
T ss_pred HHHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhhcccceeEEEecchhhcCCCcchhhHhHhcch
Confidence 45789999999999998743 366778999999999999999998888876 8999999999999974442 3345789
Q ss_pred CCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEEEecCCCc
Q 006386 420 GRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCDM 499 (647)
Q Consensus 420 ~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~~ 499 (647)
..|+||||.+..-+ ...|+.||||+|.|+++....+|++ |.+++++... |.+ .+....+.|+.+...+
T Consensus 773 ~iSlFERLVe~glp--fsrLn~QhRM~p~IsrllvpsiYdd-l~d~esvk~y-----edI---~gms~nlfFv~hnspe- 840 (1025)
T KOG1807|consen 773 SISLFERLVEAGLP--FSRLNLQHRMRPCISRLLVPSIYDD-LLDSESVKEY-----EDI---RGMSKNLFFVQHNSPE- 840 (1025)
T ss_pred hHHHHHHHHHcCCC--hhhhhHHhhhchHHHHHhhHHHhhh-hhcchhhccc-----ccc---ccccceeeEEecCCcc-
Confidence 99999999987544 5799999999999999999999985 6666665432 222 2355677888776542
Q ss_pred cccccCCCCccCHHHHHHHHHHHHHHHHcCCCCCeEEEEcccHHHHHHHHHHHhcCCCCCCeEEccCCCCCCccccEEEE
Q 006386 500 EEKKDEEDSTMNEGEAEVAMAHAKRLIQSGVHASDIGIITPYAAQVVLLKILRSKDDKLKNMEVSTVDGFQGREKEAIII 579 (647)
Q Consensus 500 ~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g~~~~~I~IItpy~~Q~~~l~~l~~~~~~~~~i~v~Tvd~fQG~E~diVIi 579 (647)
...++.|+.|..||.+++++++.|+++++.+++|.|+|+|++|..+|++++...-. ..|.|.|||+|||.|.|||++
T Consensus 841 --e~~de~S~~NlhEa~mlv~l~kyli~q~y~psdIviLttY~gQk~ci~rllp~~~~-stv~VatVDsfQGeEndIVLl 917 (1025)
T KOG1807|consen 841 --ECMDEMSIGNLHEAGMLVKLTKYLIQQQYKPSDIVILTTYNGQKECIKRLLPQNYR-STVQVATVDSFQGEENDIVLL 917 (1025)
T ss_pred --cCcchhhhhhHHHHHHHHHHHHHHHhcCCCccceEEEeechhHHHHHHHHhHHHhc-CcceEEEeccccCccccEEEE
Confidence 22234899999999999999999999999999999999999999999988754322 569999999999999999999
Q ss_pred EEeecCCCCccccCCCCCceeeeecccccceEEEecCCcccc-chHHHHHHHHHHHcCcccccc
Q 006386 580 SMVRSNSKKEVGFLSDRRRMNVAVTRARRQCCLVCDTETVSS-DGFLKRLIEYFEEHAEYLSGS 642 (647)
Q Consensus 580 s~vrs~~~~~~gfl~d~rrlnVAlTRAk~~l~ivG~~~~l~~-~~~~~~l~~~~~~~~~~~~~~ 642 (647)
|+||||..+.+|||...+|++||+||||++||||||...+.. .|.|.++++-+++++.+-.+-
T Consensus 918 SLVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~Ig~~l 981 (1025)
T KOG1807|consen 918 SLVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAIGEAL 981 (1025)
T ss_pred EEEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhcccccccc
Confidence 999999999999999999999999999999999999999985 899999999999998875543
No 6
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=8.6e-52 Score=482.36 Aligned_cols=615 Identities=34% Similarity=0.462 Sum_probs=421.1
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhccCCChHHHhHcCCeeecceEEeeeeccCCcEEEEEEecCCCCCCCCCcCCCC
Q 006386 14 SLQEFVSVMAPLIDLEKEAEISASITSGASRNLDTAQKKGSTILNLKCVDAQTGLMGKTLLEFQSTKGDVLPAHKFGTHD 93 (647)
Q Consensus 14 ~~~~y~~~~~~ll~~E~~~~~~~~~~~~~~~~~~~~~~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gD 93 (647)
-+..+......+...|...+.......++......+...+.++.++...-.....+...+..+..... ........|+
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~ 167 (767)
T COG1112 90 LIDSLSKKLGKLVEIEQEAEIKTKELEIKKLRLAKRSFKGRAILGLLAKVLGENLGSEALVKYGRLES--YINLEEFVGE 167 (767)
T ss_pred HHHHHHHHhccccHHHHHHhhhhhhhHhhhhcchhhhccchHhhhhhhhhhhhhhhhhHHHhcccccc--cCchhhhhhh
Confidence 35567777788888898888888777777777777777777777743322111111111112222111 1122334455
Q ss_pred EEEEeeCCCCCCCCceEEEEEEEEeCCEEEEEecCC-CCCCCCCCeEEEEecc------chhHHHHHHHHHHHHhcccCC
Q 006386 94 VVVLKPNKADLGSPALGQGVVYRLKDSSITVAFDDI-PEEGLNSPLRLEKLAN------EVTYRRMKDALIQLSKGVQNG 166 (647)
Q Consensus 94 ~v~~~~~~~~~~~~~~~~g~v~~~~~~~i~v~~~~~-~~~~~~~~~~~~~~~~------~~t~~r~~~al~~~~~~~~~~ 166 (647)
.+.++..... .....+.+.........+..+.. +........+++...+ ...+.++...+..+.......
T Consensus 168 ~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 244 (767)
T COG1112 168 LVLVSKLNKI---KSELAGLLIEYLKRLRKVLDKIIPPPLFEKEEVRVDIVENLLELSESILLRRELELLSKFALILKRL 244 (767)
T ss_pred hhhhccccch---hhcccccchhhhhhheeecccccCcccccccceEEEehhhccccchhHHHHhhhhhhHHHhhcccch
Confidence 5554433211 11111222211111111111111 1111123344444444 566777776666555421110
Q ss_pred CCcCccccccCCCCCCccc-ccccCCCCCCCCCHHHHHHHHHHHccCCeEEEE-cCCCCchHH--HHHHHHHHHHHC-CC
Q 006386 167 PAAGLIPVLFGEQKPTVLK-KDIAFKPFNSNLDHSQKDAISKALSSKNVFMLH-GPPGTGKTT--TVVEIILQEVKR-GS 241 (647)
Q Consensus 167 ~~~~l~~~l~~~~~p~~~~-~~~~~~~~~~~Ln~~Q~~Av~~~l~~~~~~lI~-GpPGTGKT~--ti~~~i~~l~~~-~~ 241 (647)
...+.....+...+.... ........+..++..|..++.......+..++. ||+|||||. ++.+.+...... +.
T Consensus 245 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 323 (767)
T COG1112 245 -LESLFEILRGKDLPIKLLDVELELVEINKELDNEQKLAVKRLLSLNDLFLIHQGPFGTGKTRSVTILELIIELLENNKL 323 (767)
T ss_pred -hhhHHHHhhccccccccCCcceeeeccchhccchhHHHHHHHhcccceeEeecCCCCCCcchHHHHHHHHHHHHHhccc
Confidence 001111111211121111 122344566788999999998887755666666 999999999 777777777766 89
Q ss_pred eEEEeccchHHHHHHHHHhccc--CceEEEeCCCCCCChhHHhhhHHHHHhcCCCch-hHHHHHHHHHHHHHHHhc----
Q 006386 242 KILACAASNIAVDNIVERLVPH--RVRLVRLGHPARLLPQVLESALDAQVLRGDNSS-LASDIRKEMKALNGKLLK---- 314 (647)
Q Consensus 242 ~ILv~a~tn~Avd~l~~rl~~~--~~~~vr~g~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~---- 314 (647)
+++.+++++.+++++..++.+. ....++++++......+...++........... ........+..+......
T Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 403 (767)
T COG1112 324 KILPTAESNAAVDNLLRRLKRTVIKVELLRIGHPSRVLKKLKLDTLEELLEKHEIPGNKIAALDKVIRELREEGERIIRE 403 (767)
T ss_pred ceEEecCcccchhhHHHHHHhhccccceEEcCCcchhhhhhhhhHHHHHHHhcccccchhHHHHHHHHHHhhhhhcccee
Confidence 9999999999999999999886 367899999998888887777776655443333 222111111111110000
Q ss_pred ------------------cC----CHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeeccccccccc
Q 006386 315 ------------------TK----DKN--------TRREIQKELRTLSKEERKRQQLAVTDVIKNADVVLTTLTGAVSRK 364 (647)
Q Consensus 315 ------------------~~----~~~--------~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~~~~ 364 (647)
.. .-. .............+..+.........+...++++++|++.+....
T Consensus 404 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~ 483 (767)
T COG1112 404 IAKLRERLERKRLDKISHLNVALRGILPALNKSEALWISLEEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSI 483 (767)
T ss_pred cHHHHhhhhhhHHHHHHHhhhhhcchhHHHHHHHHHHHhhhhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHH
Confidence 00 000 000000111111122222333445567777789999999999888
Q ss_pred cCCCCCCEEEEecCCCcchHHHHHHHHhcCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHhhc
Q 006386 365 LDNTSFDLVIIDEAAQALEIACWIALLKGSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQYR 444 (647)
Q Consensus 365 l~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qyR 444 (647)
+....||+||||||+|++++.+++|+.+++++|++|||+||||++.+......++..++|+++...++ ....+|+.|||
T Consensus 484 ~~~~~fd~viiDEAsQ~~~~~~~~~l~~~~~~il~GD~kQL~p~~~~~~~~~~~~~~slf~~~~~~~~-~~~~~L~~qyR 562 (767)
T COG1112 484 LKKYEFDYVIIDEASQATEPSALIALSRAKKVILVGDHKQLPPTVFFKESSPEGLSASLFERLIDNGP-EVVYLLRVQYR 562 (767)
T ss_pred hcccccCEEEEcchhcccchhHHHhHhhcCeEEEecCCccCCCeecchhhcccchhHhHHHHHHHhCC-chheeeeeecc
Confidence 87779999999999999999999999999999999999999999987655667899999999999877 44789999999
Q ss_pred ChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHHHHHHHHHH
Q 006386 445 MHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEVAMAHAKR 524 (647)
Q Consensus 445 m~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v~~~v~~ 524 (647)
|||.|+.|+|..||+|++..+.............. ......++.|+++.+... .....+.+|..||..+..++..
T Consensus 563 m~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~---~~~~~~~~n~~e~~~~~~~~~~ 637 (767)
T COG1112 563 MHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIP--EVVISNPLEFYDTLGAEE---FFESKSKLNELEAEIVKVIVDE 637 (767)
T ss_pred cChhhhhCchhhccCCccccCcchhhhhhhccccc--cccccCceEEEEecCccc---ccCccceecHHHHHHHHHHHHH
Confidence 99999999999999999998877655443221111 111367899999988654 3345899999999999999999
Q ss_pred HHHcCCCCCeEEEEcccHHHHHHHHHHHhcCCCCCCeEEccCCCCCCccccEEEEEEeecCCC-CccccCCCCCceeeee
Q 006386 525 LIQSGVHASDIGIITPYAAQVVLLKILRSKDDKLKNMEVSTVDGFQGREKEAIIISMVRSNSK-KEVGFLSDRRRMNVAV 603 (647)
Q Consensus 525 l~~~g~~~~~I~IItpy~~Q~~~l~~l~~~~~~~~~i~v~Tvd~fQG~E~diVIis~vrs~~~-~~~gfl~d~rrlnVAl 603 (647)
++..++.+.+||||+||++|+.++++.+.... .+++|.|||+|||+|+|+||+|+||++.. +.+||+.|+||||||+
T Consensus 638 ~~~~~~~~~~igvis~y~~q~~~i~~~~~~~~--~~v~v~tvd~fQG~EkdvIi~S~v~s~~~~~~i~~l~d~rRLNVAl 715 (767)
T COG1112 638 LLKDGLEENDIGVISPYRAQVSLIRRLLNEAG--KGVEVGTVDGFQGREKDVIILSLVRSNDDKGEIGFLGDPRRLNVAL 715 (767)
T ss_pred HHHcCCcHHHcceecccHHHHHHHHHHHHhcC--CceEEeeccccCCccCcEEEEEEEeecCCCccccccCchhhhhhhh
Confidence 99999999999999999999999998764322 68999999999999999999999999998 6999999999999999
Q ss_pred cccccceEEEecCCccccchHHHHHHHHHHHcCcccccc
Q 006386 604 TRARRQCCLVCDTETVSSDGFLKRLIEYFEEHAEYLSGS 642 (647)
Q Consensus 604 TRAk~~l~ivG~~~~l~~~~~~~~l~~~~~~~~~~~~~~ 642 (647)
||||++|+|||+..++..++.|+.++.+++..+.+....
T Consensus 716 TRAk~~livvg~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 754 (767)
T COG1112 716 TRAKRKLIVVGSSSTLESDPLYKRLINDLKRKGLLAELN 754 (767)
T ss_pred hcccceEEEEcChhHhhhchhHHHHHHHHHhcCcEeecc
Confidence 999999999999999999999999999999999987654
No 7
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.1e-41 Score=369.79 Aligned_cols=388 Identities=26% Similarity=0.268 Sum_probs=289.3
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHH--HCCCeEEEeccchHHHHHHHHHhcccCceEEE-eC
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEV--KRGSKILACAASNIAVDNIVERLVPHRVRLVR-LG 271 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~--~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr-~g 271 (647)
.....+|+.++...- -.....+.||||||||.++++.+.++. .....+++|+++|+++|....|+... .-+-+ .+
T Consensus 310 s~~~~~~~~~~~~~~-~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~~~rl~~p-~~~~~~~~ 387 (775)
T KOG1804|consen 310 SVAREEQALHLLLCR-LPEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQPAHRLHYP-LTFSTARG 387 (775)
T ss_pred hhhhhhhhhhhcccc-cccccccccCCCcCCccchHHHHHHHHhcchHHHhhccccccccccccccccccc-cccccccc
Confidence 344555555522111 246789999999999999988777763 45679999999999999999997321 11100 11
Q ss_pred CCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCc
Q 006386 272 HPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKNAD 351 (647)
Q Consensus 272 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~ 351 (647)
.+.+....... ....++ ..+...... ........
T Consensus 388 ~~~~~~~~~~~-----------------~~~~~v-----------------------~~~~~~~e~------~~~~~~~~ 421 (775)
T KOG1804|consen 388 EDVRAKSSTAW-----------------YNNAEV-----------------------SEVVEKVEE------LRKVWPYR 421 (775)
T ss_pred ccccccchhHH-----------------hhhHHH-----------------------HHHHHHHHH------HhhccceE
Confidence 11100000000 000000 000000000 01345678
Q ss_pred eeeecccccc---ccccCCCCCCEEEEecCCCcchHHHHHHHHhc---CeeeecCCCCCCCceeccHHHHhcCCCCCHHH
Q 006386 352 VVLTTLTGAV---SRKLDNTSFDLVIIDEAAQALEIACWIALLKG---SRCILAGDHLQLPPTVQSVEAEKKGLGRTLFE 425 (647)
Q Consensus 352 vi~~T~~~~~---~~~l~~~~fd~vIIDEAsq~~e~~~l~~l~~~---~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~ 425 (647)
++++||++++ ...+.-.+|.++++|||++++||++++|+..- .++||.|||+||+|++.|..+...|++.+||+
T Consensus 422 i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLle 501 (775)
T KOG1804|consen 422 WGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLE 501 (775)
T ss_pred EEEeeccceeeeecccccccceeeeeecccccccCcccccccccccceeEEEEccCcccccccccchhhhhhcccHHHHH
Confidence 8899998876 33456679999999999999999999998643 48999999999999999999999999999999
Q ss_pred HHHHH----------cCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEEEec
Q 006386 426 RLADL----------YGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIA 495 (647)
Q Consensus 426 rl~~~----------~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~ 495 (647)
|+... +...+.+.|-.|||+||.|....|+.||++.|............. . ....++|.-+.
T Consensus 502 r~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~eL~~~~~~~~v~~~~------~--w~~liif~g~~ 573 (775)
T KOG1804|consen 502 RALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGELTAEASEVDVRGLE------L--WSGLILFYGAP 573 (775)
T ss_pred HHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccccccccceeeeccHHHHHHHH------h--cccceeccccc
Confidence 98742 223457889999999999999999999999998654333221110 0 12237888888
Q ss_pred CCCccccccCCCCccCHHHHHHHHHHHHHHHHcC-CCCCeEEEEcccHHHHHHHHHHHhcCCCCCCeEEccCCCCCCccc
Q 006386 496 GCDMEEKKDEEDSTMNEGEAEVAMAHAKRLIQSG-VHASDIGIITPYAAQVVLLKILRSKDDKLKNMEVSTVDGFQGREK 574 (647)
Q Consensus 496 ~~~~~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g-~~~~~I~IItpy~~Q~~~l~~l~~~~~~~~~i~v~Tvd~fQG~E~ 574 (647)
|....+.. ..|++|..||..|..+++.+.... ....||||||||++|+..|+.++.. .+..++.|++|..|||+|+
T Consensus 574 G~~~r~~~--s~S~~n~~Ea~~V~~~~k~l~~~~~~~~~DIgvitpy~aq~~~i~~~l~~-~~~~~~~vgsVe~fqGqE~ 650 (775)
T KOG1804|consen 574 GFTERAGN--SPSWLNLEEAAVVVRMTKALPLGEVAQPQDIGVITPYTAQVSEIRKALRR-LGVPGVKVGSVEEFQGQEP 650 (775)
T ss_pred cccccccC--ChhhccHHHHHHHHHHHhccCCCCccccccceeeCcHHHHHHHHHHHhcc-cCCCCCcccceeeeccccc
Confidence 87655443 489999999999998888887654 4556999999999999999987644 3568999999999999999
Q ss_pred cEEEEEEeecCCCC------ccccCCCCCceeeeecccccceEEEecCCccccchHHHHHHHHHHHcCccccc
Q 006386 575 EAIIISMVRSNSKK------EVGFLSDRRRMNVAVTRARRQCCLVCDTETVSSDGFLKRLIEYFEEHAEYLSG 641 (647)
Q Consensus 575 diVIis~vrs~~~~------~~gfl~d~rrlnVAlTRAk~~l~ivG~~~~l~~~~~~~~l~~~~~~~~~~~~~ 641 (647)
.+||+|+|||.... .-+|+.+++++|||+|||+..++++|+...+..++.|+.++.++.++|.|...
T Consensus 651 ~viiiStVrS~~~~~~~~~~~~~fls~pk~l~v~V~rp~~l~i~~~~~h~~~~~~~~~~~l~~~~~n~~y~~c 723 (775)
T KOG1804|consen 651 WVILGSTVRSFALPLLDDRYFGLFLSRPKRLLVAVGRPRALLINLGNPHLLGGDPPWGLLLLLRVENGRYPGC 723 (775)
T ss_pred eeeEeecccccCCCcccccccceeecCcccceeeccCccccccccCCcccccCCCChhhheeeeecCCcccCC
Confidence 99999999998641 22389999999999999999999999999999999999999999999998764
No 8
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=5.5e-40 Score=373.53 Aligned_cols=292 Identities=32% Similarity=0.398 Sum_probs=246.4
Q ss_pred hhcCceeeecccccccccc--CCCCCCEEEEecCCCcchHHHHHHHHh-c-CeeeecCCCCCCCceeccHHHHhcCCCCC
Q 006386 347 IKNADVVLTTLTGAVSRKL--DNTSFDLVIIDEAAQALEIACWIALLK-G-SRCILAGDHLQLPPTVQSVEAEKKGLGRT 422 (647)
Q Consensus 347 l~~~~vi~~T~~~~~~~~l--~~~~fd~vIIDEAsq~~e~~~l~~l~~-~-~~~vlvGD~~QL~p~v~s~~~~~~g~~~S 422 (647)
..++.+|++|+.+.++... ....|+.++||||+|+.++..++||.. + .+++++||+.|||++|.+..+...++..|
T Consensus 512 ~~~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~s 591 (827)
T KOG1801|consen 512 REEAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATVHSSPAGCFKYMTS 591 (827)
T ss_pred cccceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccccCChhhccchhccccchhh
Confidence 3488999999998876443 345899999999999999999999986 4 89999999999999999998888999999
Q ss_pred HHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEEEecCCCcccc
Q 006386 423 LFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCDMEEK 502 (647)
Q Consensus 423 lf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~~~~~ 502 (647)
+|+|+...... ...|++||||||+|..|+|..||+++|...+.+........ +.......++.|+++.... +.
T Consensus 592 lf~rl~l~~~~--~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~---~~~~~~~~~y~f~~v~~g~--e~ 664 (827)
T KOG1801|consen 592 LFERLELAGHK--TLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKL---WHSGETFGPYPFFNVHYGK--ER 664 (827)
T ss_pred HHHHHHHccCc--cceecceeecCCccccCccccccccccccCcccchhhcccc---CcCCCccCceEEEEecccc--cc
Confidence 99999976444 56899999999999999999999999998887775443322 1223356789999988432 33
Q ss_pred ccCCCCccCHHHHHHHHHHHHHHHHcC----CCCCeEEEEcccHHHHHHHHHHHhc-C----CCCCCeEEccCCCCCCcc
Q 006386 503 KDEEDSTMNEGEAEVAMAHAKRLIQSG----VHASDIGIITPYAAQVVLLKILRSK-D----DKLKNMEVSTVDGFQGRE 573 (647)
Q Consensus 503 ~~~~~s~~N~~Ea~~v~~~v~~l~~~g----~~~~~I~IItpy~~Q~~~l~~l~~~-~----~~~~~i~v~Tvd~fQG~E 573 (647)
..++.|..|..|+.++..++..|.+.- ..+..+|||+||+.|+..+++.... . .....+.+.|||+|||.|
T Consensus 665 ~~~~~s~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fqg~e 744 (827)
T KOG1801|consen 665 AGGGKSPVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQGGE 744 (827)
T ss_pred cCCCCCcccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEecccccCCC
Confidence 444589999999999999999998742 3377899999999999998853221 1 112579999999999999
Q ss_pred ccEEEEEEeecCCCCccccCCCCCceeeeecccccceEEEecCCccccchH-HHHHHHHHHHcCccccccccc
Q 006386 574 KEAIIISMVRSNSKKEVGFLSDRRRMNVAVTRARRQCCLVCDTETVSSDGF-LKRLIEYFEEHAEYLSGSEYL 645 (647)
Q Consensus 574 ~diVIis~vrs~~~~~~gfl~d~rrlnVAlTRAk~~l~ivG~~~~l~~~~~-~~~l~~~~~~~~~~~~~~~~~ 645 (647)
.|++|+|+||++..+.+||+.+++|+|||+||||.++|++||..+|..+.. |..++.-.+..|++..+....
T Consensus 745 ~diii~s~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~~~~w~~li~da~~r~~~~~~~~~~ 817 (827)
T KOG1801|consen 745 RDIIIISTVRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPSCSIWASLILDAKGRGCFMDRAADV 817 (827)
T ss_pred CceeEEEEEEecccCccchhhhHHHHHHhhcccccceEEecCccccccccchhhhhcchhccccccccccccc
Confidence 999999999999999999999999999999999999999999999997766 999999999999999887643
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=4.1e-37 Score=298.71 Aligned_cols=194 Identities=39% Similarity=0.592 Sum_probs=135.5
Q ss_pred CCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEEEecCCC
Q 006386 419 LGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCD 498 (647)
Q Consensus 419 ~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~ 498 (647)
++.|||+|+.... ....++|++||||||+|++|+|..||+|+|.+.++....... ..........++.|+|+.+..
T Consensus 1 ~~~Slferl~~~~-~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~---~~~~~~~~~~~~~~i~v~~~~ 76 (200)
T PF13087_consen 1 LDRSLFERLIKNG-SVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAP---LLKLLPSPQNPIVFIDVSGSE 76 (200)
T ss_dssp TTS-HHHHHHHCT-----EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T--------SSTTSSEEEEE----E
T ss_pred CCccHHHHHHHcC-CCCceecccccCCCHHHHHHHHHHHhchhcccCccccccccc---ccccccCCCCceEEEeccccc
Confidence 4689999999976 233789999999999999999999999999987765443322 111223456779999999865
Q ss_pred ccccccCCCCccCHHHHHHHHHHHHHHHHcCCCC---CeEEEEcccHHHHHHHHHHHhcCCCC---CCeEEccCCCCCCc
Q 006386 499 MEEKKDEEDSTMNEGEAEVAMAHAKRLIQSGVHA---SDIGIITPYAAQVVLLKILRSKDDKL---KNMEVSTVDGFQGR 572 (647)
Q Consensus 499 ~~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g~~~---~~I~IItpy~~Q~~~l~~l~~~~~~~---~~i~v~Tvd~fQG~ 572 (647)
...... ..|++|..||+.++.++..|...+... .+|||||||++|+.+|++.+...... ..+.|+|||+|||+
T Consensus 77 ~~~~~~-~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~~~~~v~Tvd~~QG~ 155 (200)
T PF13087_consen 77 SSSESS-QTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPIKDIKVSTVDSFQGQ 155 (200)
T ss_dssp EEETTC--SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHHHCSEEEEHHHHTT-
T ss_pred cccccc-ccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccccceEEEecHHHhccc
Confidence 432211 279999999999999999999988665 89999999999999999876542221 13999999999999
Q ss_pred cccEEEEEEeecCCCCccccCCCCCceeeeecccccceEEEecCC
Q 006386 573 EKEAIIISMVRSNSKKEVGFLSDRRRMNVAVTRARRQCCLVCDTE 617 (647)
Q Consensus 573 E~diVIis~vrs~~~~~~gfl~d~rrlnVAlTRAk~~l~ivG~~~ 617 (647)
|+|+||+|+|+++....+||+.+.+|+|||+||||++|+||||.+
T Consensus 156 E~diVi~s~v~~~~~~~~~f~~~~~r~nVA~SRAk~~liiig~~~ 200 (200)
T PF13087_consen 156 EADIVIVSLVRTNSSSNIGFLNDPNRLNVALSRAKSGLIIIGNPE 200 (200)
T ss_dssp -EEEEEEEE---STTS-SGGGC-HHHHHHHHTSEEEEEEEEE-H-
T ss_pred cceEEEEEeccCCccccccccCCcCeeeeeHHHHhcCEEEEecCC
Confidence 999999999999987889999999999999999999999999863
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=1.1e-35 Score=296.07 Aligned_cols=216 Identities=38% Similarity=0.572 Sum_probs=130.5
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHH--------HHCCCeEEEeccchHHHHHHHHHhcc-----
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQE--------VKRGSKILACAASNIAVDNIVERLVP----- 262 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l--------~~~~~~ILv~a~tn~Avd~l~~rl~~----- 262 (647)
+||++|++||..++....+++|+||||||||+|++.++..+ ...+.+||+||+||.|+|++.++|.+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~~~~~~ 80 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKKLLDED 80 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC-----
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHhhcccc
Confidence 58999999999999854469999999999999999999999 45689999999999999999999998
Q ss_pred ---cCceEEEeCCCC-CCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHH
Q 006386 263 ---HRVRLVRLGHPA-RLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKR 338 (647)
Q Consensus 263 ---~~~~~vr~g~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~ 338 (647)
....++|+|++. ...+.+..+.+...+..... .....+.++.+.+...+...........+...........+..
T Consensus 81 ~~~~~~~~ir~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 159 (236)
T PF13086_consen 81 GKVYKPKIIRLGSEEEKIHEDLQKFSLESKLEQRFE-SKLKRLREQLEELQQKIRLSELKEEKKKLKKSIKRLRKELEKI 159 (236)
T ss_dssp ---TT--EEE---GGTTS--TTGGGBHHHHHHTTT------------THHHCHHHHHHHHHHHCCSSCHHHHHHHHHHHH
T ss_pred ccccccchhhhccccccccccccccccccccccccc-ccchhhhHHHHHHHHhhhhhhhhhhhhhcchhccccccccccc
Confidence 357899999988 55666666666555433221 1112222222222221100000000000011112222233333
Q ss_pred HHHHHHHHhhcCceeeeccccccccccCCC--CCCEEEEecCCCcchHHHHHHHHhc-CeeeecCCCCCCCceeccH
Q 006386 339 QQLAVTDVIKNADVVLTTLTGAVSRKLDNT--SFDLVIIDEAAQALEIACWIALLKG-SRCILAGDHLQLPPTVQSV 412 (647)
Q Consensus 339 ~~~~~~~~l~~~~vi~~T~~~~~~~~l~~~--~fd~vIIDEAsq~~e~~~l~~l~~~-~~~vlvGD~~QL~p~v~s~ 412 (647)
.......++..++||+||+.++....+... .||+||||||+|++++++++||..+ +++||||||+||||++.|.
T Consensus 160 ~~~~~~~~l~~~~vi~~T~~~~~~~~~~~~~~~~d~vIvDEAsq~~e~~~l~~l~~~~~~~vlvGD~~QLpP~v~s~ 236 (236)
T PF13086_consen 160 REELRRFILKEADVIFTTLSSAASPFLSNFKEKFDVVIVDEASQITEPEALIPLSRAPKRIVLVGDPKQLPPVVKSE 236 (236)
T ss_dssp HHHHHHHHHHT-SEEEEETCGGG-CCGTT-----SEEEETTGGGS-HHHHHHHHTTTBSEEEEEE-TTS-----S--
T ss_pred ccchhhhhcccccccccccccchhhHhhhhcccCCEEEEeCCCCcchHHHHHHHHHhCCEEEEECChhhcCCeeCCC
Confidence 334457789999999999999977766665 8999999999999999999999888 9999999999999998763
No 11
>PRK11054 helD DNA helicase IV; Provisional
Probab=100.00 E-value=2.4e-32 Score=305.26 Aligned_cols=220 Identities=17% Similarity=0.233 Sum_probs=143.1
Q ss_pred CCCEEEEecCCCcchHH--HHHHHHh---cCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHhh
Q 006386 369 SFDLVIIDEAAQALEIA--CWIALLK---GSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQY 443 (647)
Q Consensus 369 ~fd~vIIDEAsq~~e~~--~l~~l~~---~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qy 443 (647)
.|++|+|||+|++...+ ++..|.. +.++++|||+.|....+ .|.+..++..+...++....+.|+++|
T Consensus 430 ~~~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~QsIY~f-------rGa~~~~~~~f~~~f~~~~~~~L~~nY 502 (684)
T PRK11054 430 PWKHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQAIYRF-------SGADLSLTTAFHERFGEGDRCHLDTTY 502 (684)
T ss_pred cccEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCcccccc-------CCCChHHHHHHHhhcCCCeEEEeCCCC
Confidence 69999999999998775 3444442 36899999999965542 355667788887777665578899999
Q ss_pred cChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHHHHHHHHH
Q 006386 444 RMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEVAMAHAK 523 (647)
Q Consensus 444 Rm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v~~~v~ 523 (647)
|++++|++++|.++-.+.-..... + .. ...+..+.+..+. ..+.+.+++.+.
T Consensus 503 Rs~~~I~~~An~~i~~n~~~~~k~-----l---~s--~~~g~~p~v~~~~------------------~~~~~~il~~l~ 554 (684)
T PRK11054 503 RFNSRIGEVANRFIQQNPHQLKKP-----L---NS--LTKGDKKAVTLLP------------------EDQLEALLDKLS 554 (684)
T ss_pred CCCHHHHHHHHHHHHhCccccCCc-----c---cc--cCCCCCceEEEeC------------------CHHHHHHHHHHH
Confidence 999999999998764422100000 0 00 0111222333221 024555555555
Q ss_pred HHHHcCCCCCeEEEEcccHHHHHH-HHHHHhcCCCCCCeEEccCCCCCCccccEEEEEEeecCCCC--------------
Q 006386 524 RLIQSGVHASDIGIITPYAAQVVL-LKILRSKDDKLKNMEVSTVDGFQGREKEAIIISMVRSNSKK-------------- 588 (647)
Q Consensus 524 ~l~~~g~~~~~I~IItpy~~Q~~~-l~~l~~~~~~~~~i~v~Tvd~fQG~E~diVIis~vrs~~~~-------------- 588 (647)
.+.. +.++|+||++|+.+... ++...... ...+|.+.|+|++||+|+|+|||..+.....+
T Consensus 555 ~~~~---~~~~I~IL~R~~~~~~~~l~~~~~~~-~~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~~~ 630 (684)
T PRK11054 555 GYAK---PDERILLLARYHHLRPALLDKAATRW-PKLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEEAL 630 (684)
T ss_pred Hhhc---CCCcEEEEEechhhHHHHHHHHHhhc-ccCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhhcc
Confidence 5543 45799999999988754 44332222 22479999999999999999999876432200
Q ss_pred ---ccc--cCCCCCceeeeecccccceEEEecCCccccchHHHHHH
Q 006386 589 ---EVG--FLSDRRRMNVAVTRARRQCCLVCDTETVSSDGFLKRLI 629 (647)
Q Consensus 589 ---~~g--fl~d~rrlnVAlTRAk~~l~ivG~~~~l~~~~~~~~l~ 629 (647)
.-. ...++|.+|||+||||+.|+|+.+... .+++...|.
T Consensus 631 ~~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~~~--~S~fv~el~ 674 (684)
T PRK11054 631 LPPPEDFPDAEERRLLYVALTRAKHRVWLLFNKGN--PSPFVEELK 674 (684)
T ss_pred cccccccccHHHHHHHHHHhhhhhcEEEEEEcCCC--CCHHHHHHh
Confidence 001 123467899999999999999987442 244444443
No 12
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.97 E-value=4e-30 Score=293.91 Aligned_cols=304 Identities=16% Similarity=0.164 Sum_probs=172.3
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC----CCeEEEeccchHHHHHHHHHhccc-C--ceE
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR----GSKILACAASNIAVDNIVERLVPH-R--VRL 267 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~----~~~ILv~a~tn~Avd~l~~rl~~~-~--~~~ 267 (647)
..||++|++||.. ..+.++|.|+||||||+|++++|++|+.. +.+||++||||+|+++|.+|+.+. + ..-
T Consensus 8 ~~Ln~~Q~~av~~---~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~~~~ 84 (721)
T PRK11773 8 DSLNDKQREAVAA---PLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTSQGG 84 (721)
T ss_pred HhcCHHHHHHHhC---CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhccCCCC
Confidence 4699999999985 46789999999999999999999999963 479999999999999999999765 1 111
Q ss_pred EEeCCCCCCChhHHhhhHHHHHhc--C-CCchhH--HHHHHHHHHHHHH----------------HhccCC----HHHH-
Q 006386 268 VRLGHPARLLPQVLESALDAQVLR--G-DNSSLA--SDIRKEMKALNGK----------------LLKTKD----KNTR- 321 (647)
Q Consensus 268 vr~g~~~~~~~~~~~~~l~~~~~~--~-~~~~~~--~~~~~~~~~~~~~----------------l~~~~~----~~~~- 321 (647)
+.+++.+.+.-.+ +...... . .+..+. .+...-++.+... +...++ ....
T Consensus 85 ~~i~TfHs~~~~i----Lr~~~~~~g~~~~f~i~d~~d~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~ 160 (721)
T PRK11773 85 MWVGTFHGLAHRL----LRAHWQDANLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAQWYINGQKDEGLRPQHIQ 160 (721)
T ss_pred CEEEcHHHHHHHH----HHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHcCCCHHHHH
Confidence 2233332221111 1111100 0 000000 0000001111000 000000 0000
Q ss_pred ---HHHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeecccccc-cccc---CCCCCCEEEEecCCCcchHH--HHHHHHh
Q 006386 322 ---REIQKELRTLSKEERKRQQLAVTDVIKNADVVLTTLTGAV-SRKL---DNTSFDLVIIDEAAQALEIA--CWIALLK 392 (647)
Q Consensus 322 ---~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~-~~~l---~~~~fd~vIIDEAsq~~e~~--~l~~l~~ 392 (647)
......+..+.+.|..... ....++..+++..+..... ++.+ -..+|++|+|||+|++...+ ++..|..
T Consensus 161 ~~~~~~~~~~~~iy~~Y~~~~~--~~~~~DfdDll~~~~~lL~~~~~~~~~~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~ 238 (721)
T PRK11773 161 SYGDPVEQTWLKIYQAYQEACD--RAGLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAIQYAWIRLLAG 238 (721)
T ss_pred hccChHHHHHHHHHHHHHHHHH--HcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEchhcCCHHHHHHHHHHhC
Confidence 0001111111111111110 0112222233322222221 1111 13489999999999997765 3444443
Q ss_pred -cCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhc
Q 006386 393 -GSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAH 471 (647)
Q Consensus 393 -~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~ 471 (647)
+.++++|||++|-...+ .|.+...|.++...++....+.|+.|||+++.|++++|.++-++.-.....
T Consensus 239 ~~~~l~vVGD~dQsIY~f-------RGA~~~~~~~f~~~~~~~~~i~L~~NyRSt~~Il~~an~li~~n~~r~~k~---- 307 (721)
T PRK11773 239 DTGKVMIVGDDDQSIYGW-------RGAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNGRLGKE---- 307 (721)
T ss_pred CCCeEEEEecCccccccc-------CCCChHHHHHHHHhCCCCeEEECCcCCCCCHHHHHHHHHHHHhcccccCcc----
Confidence 47899999999955443 355667788888888776678899999999999999998886543211100
Q ss_pred ccccccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHHHHHHHHHHHHHcCCCCCeEEEEc
Q 006386 472 MLFDLEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEVAMAHAKRLIQSGVHASDIGIIT 539 (647)
Q Consensus 472 ~~~~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g~~~~~I~IIt 539 (647)
+ ......+.++.++... ....||..|++.|..++..|.++++|+|++
T Consensus 308 -~------~~~~~~g~~v~~~~~~--------------~~~~Ea~~ia~~I~~l~~~g~~~~diAVL~ 354 (721)
T PRK11773 308 -L------WTDGGDGEPISLYCAF--------------NELDEARFVVERIKTWQDNGGALSDCAILY 354 (721)
T ss_pred -c------ccCCCCCCeeEEEeCC--------------CHHHHHHHHHHHHHHHHHcCCCcccEEEEE
Confidence 0 0000111223332111 124689999999999998898999999995
No 13
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.97 E-value=3.4e-30 Score=294.83 Aligned_cols=308 Identities=15% Similarity=0.158 Sum_probs=171.1
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC----CCeEEEeccchHHHHHHHHHhcccC---ceE
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR----GSKILACAASNIAVDNIVERLVPHR---VRL 267 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~----~~~ILv~a~tn~Avd~l~~rl~~~~---~~~ 267 (647)
..||++|++||.. ..+.++|.|+||||||+|++++|++|+.. +.+||++||||+|+++|.+|+.+.- ..-
T Consensus 3 ~~Ln~~Q~~av~~---~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~~~~~ 79 (715)
T TIGR01075 3 DGLNDKQREAVAA---PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGTSARG 79 (715)
T ss_pred cccCHHHHHHHcC---CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcccccC
Confidence 4699999999986 35789999999999999999999999974 3799999999999999999997751 112
Q ss_pred EEeCCCCCCChhHHhhhHHHHHhcC-----CCchhHHHHHHHHHH------------HHHHHhccC----CHHHHH----
Q 006386 268 VRLGHPARLLPQVLESALDAQVLRG-----DNSSLASDIRKEMKA------------LNGKLLKTK----DKNTRR---- 322 (647)
Q Consensus 268 vr~g~~~~~~~~~~~~~l~~~~~~~-----~~~~~~~~~~~~~~~------------~~~~l~~~~----~~~~~~---- 322 (647)
+.+++.+.+.-.+........-... +......-+++.+.. +...+...+ ......
T Consensus 80 ~~i~TfHs~~~~iLr~~~~~~g~~~~f~i~d~~d~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~ 159 (715)
T TIGR01075 80 MWIGTFHGLAHRLLRAHHLDAGLPQDFQILDSDDQLRLLKRLIKALNLDEKQWPPRQAMWYINNQKDEGLRPSHIQAFDN 159 (715)
T ss_pred cEEEcHHHHHHHHHHHHHHHhCCCCCCeecCHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHHHHHHCCCCHHHHHhccC
Confidence 2333332222111111000000000 000000001111110 000000000 000000
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeecccccc-cccc---CCCCCCEEEEecCCCcchHH--HHHHHHh-cCe
Q 006386 323 EIQKELRTLSKEERKRQQLAVTDVIKNADVVLTTLTGAV-SRKL---DNTSFDLVIIDEAAQALEIA--CWIALLK-GSR 395 (647)
Q Consensus 323 ~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~-~~~l---~~~~fd~vIIDEAsq~~e~~--~l~~l~~-~~~ 395 (647)
...+.+..+...|..... ....++..+++..+..... ++.+ -..+|++|+|||+|++...+ ++..|.. +++
T Consensus 160 ~~~~~~~~iy~~Y~~~~~--~~~~lDfdDll~~~~~lL~~~~~~~~~~~~~~~~ilVDEfQDtn~~Q~~ll~~L~~~~~~ 237 (715)
T TIGR01075 160 PVERTWIKIYQAYQEACD--RAGLVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEFQDTNKIQYAWIRLLAGNTGN 237 (715)
T ss_pred hHHHHHHHHHHHHHHHHH--HcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEccccCCHHHHHHHHHHhCCCCe
Confidence 000111111111111110 0012222222222222111 1111 12489999999999997765 3333443 478
Q ss_pred eeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhccccc
Q 006386 396 CILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFD 475 (647)
Q Consensus 396 ~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~ 475 (647)
+++|||++|-...+ .|.+...|.++...++....+.|++|||+++.|++++|.++-++.-..... +
T Consensus 238 l~vVGD~~QsIY~f-------RGA~~~~i~~f~~~~~~~~~~~L~~NyRS~~~Il~~an~li~~~~~r~~~~-----~-- 303 (715)
T TIGR01075 238 VMIVGDDDQSIYGW-------RGAQVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDERLGKN-----L-- 303 (715)
T ss_pred EEEEeCCccccccc-------CCCCHHHHHHHHHhCCCCeEEECcccCCCCHHHHHHHHHHHHhcccccccc-----c--
Confidence 99999999955443 355566777888778766578999999999999999998886543111100 0
Q ss_pred ccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHHHHHHHHHHHHHcCCCCCeEEEEc
Q 006386 476 LEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEVAMAHAKRLIQSGVHASDIGIIT 539 (647)
Q Consensus 476 ~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g~~~~~I~IIt 539 (647)
......+.++.++...+ ...||+.|++.|..++..|.++++|+||+
T Consensus 304 ----~~~~~~g~~i~~~~~~~--------------~~~Ea~~ia~~I~~l~~~g~~~~diAVL~ 349 (715)
T TIGR01075 304 ----WTDGEVGEPISLYSAFN--------------ELDEARFVVSRIKTWQRNGGALDECAVLY 349 (715)
T ss_pred ----cCCCCCCCceEEEeCCC--------------HHHHHHHHHHHHHHHHHcCCCccCEEEEE
Confidence 00001122333332211 23689999999999998888899999994
No 14
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.97 E-value=6.9e-30 Score=293.08 Aligned_cols=308 Identities=17% Similarity=0.222 Sum_probs=172.6
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC----CCeEEEeccchHHHHHHHHHhccc-C--ceE
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR----GSKILACAASNIAVDNIVERLVPH-R--VRL 267 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~----~~~ILv~a~tn~Avd~l~~rl~~~-~--~~~ 267 (647)
..||++|++||.. ..+..+|.|+||||||+|++.+|++++.. +.+||++||||.|+.+|.+|+.+. + ..-
T Consensus 3 ~~Ln~~Q~~av~~---~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~~~~~ 79 (726)
T TIGR01073 3 AHLNPEQREAVKT---TEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPVAED 79 (726)
T ss_pred cccCHHHHHHHhC---CCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhccccCC
Confidence 4699999999985 46789999999999999999999999964 379999999999999999999754 1 122
Q ss_pred EEeCCCCCCChhHHhhhHHHHHhcC-----CCc---hhHHHHHH----------------HHHHHHHHHhccCCHHH--H
Q 006386 268 VRLGHPARLLPQVLESALDAQVLRG-----DNS---SLASDIRK----------------EMKALNGKLLKTKDKNT--R 321 (647)
Q Consensus 268 vr~g~~~~~~~~~~~~~l~~~~~~~-----~~~---~~~~~~~~----------------~~~~~~~~l~~~~~~~~--~ 321 (647)
+.+++.+++.-.+........-... +.. .+++.+.+ .+..+........+... .
T Consensus 80 ~~i~TFHs~~~~iLr~~~~~~g~~~~f~i~d~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~ 159 (726)
T TIGR01073 80 IWISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTILKDKNLDPKKFEPRSILGTISNAKNELLPPEDFAKEAT 159 (726)
T ss_pred cEEEcHHHHHHHHHHHHHHHhCCCCCCCcCCHHHHHHHHHHHHHhcCCCcccCCHHHHHHHHHHHHHcCCCHHHHHHhhc
Confidence 2344433322222211100000000 000 01111111 11111000000000000 0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeecccccc-cccc---CCCCCCEEEEecCCCcchHHH--HHHHHh-cC
Q 006386 322 REIQKELRTLSKEERKRQQLAVTDVIKNADVVLTTLTGAV-SRKL---DNTSFDLVIIDEAAQALEIAC--WIALLK-GS 394 (647)
Q Consensus 322 ~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~-~~~l---~~~~fd~vIIDEAsq~~e~~~--l~~l~~-~~ 394 (647)
....+.+..+.+.|..... ....++..+++..+..... ++.+ -..+|++|+|||+|++...+. +..|.. ++
T Consensus 160 ~~~~~~~~~iy~~Y~~~l~--~~~~lDfdDll~~~~~lL~~~~~v~~~~~~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~ 237 (726)
T TIGR01073 160 NYFEKVVAEVYQEYQKRLL--RNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEYQDTNRAQYTLVRLLASRFR 237 (726)
T ss_pred chHHHHHHHHHHHHHHHHH--HcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEccccCCHHHHHHHHHHhCCCC
Confidence 0001111112222211111 0112222233222222111 1111 124899999999999987763 334443 47
Q ss_pred eeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhcccc
Q 006386 395 RCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLF 474 (647)
Q Consensus 395 ~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~ 474 (647)
++++|||++|-...+ .|.+...|.++...++....+.|++|||+++.|++++|.++-++.-.....
T Consensus 238 ~l~vVGD~~QsIY~f-------RgA~~~~~~~f~~~~~~~~~i~L~~NyRS~~~Il~~an~li~~~~~r~~~~------- 303 (726)
T TIGR01073 238 NLCVVGDADQSIYGW-------RGADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKPKN------- 303 (726)
T ss_pred EEEEEeCCCcccccc-------CCCChHHHHHHHHhCCCCeEEECccCCCCCHHHHHHHHHHHHhcccccccc-------
Confidence 899999999954432 355566777787778766578999999999999999998886542111000
Q ss_pred cccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHHHHHHHHHHHHHcC-CCCCeEEEEc
Q 006386 475 DLEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEVAMAHAKRLIQSG-VHASDIGIIT 539 (647)
Q Consensus 475 ~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g-~~~~~I~IIt 539 (647)
+......+.++.++.... ...||..|+..|..++..| +++++|+||+
T Consensus 304 ----l~~~~~~g~~v~~~~~~~--------------~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~ 351 (726)
T TIGR01073 304 ----LWTENSSGDKITYYEADT--------------ERDEAQFVAGEIDKLVKNGERKYGDFAILY 351 (726)
T ss_pred ----cccCCCCCcceEEEeCCC--------------HHHHHHHHHHHHHHHHHcCCCCcCCEEEEE
Confidence 000001122333432211 2368899999999998877 6889999995
No 15
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.97 E-value=8.8e-31 Score=283.09 Aligned_cols=430 Identities=27% Similarity=0.356 Sum_probs=291.1
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC--CCeEEEeccchHHHHHHHHHhcccCc---eEEEe
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR--GSKILACAASNIAVDNIVERLVPHRV---RLVRL 270 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~--~~~ILv~a~tn~Avd~l~~rl~~~~~---~~vr~ 270 (647)
..|+.|.+|+..-.. ++.+.+.||||||||.+++.++..+..+ ..+.+++++||.|...+.+++.+.++ -.+|+
T Consensus 738 ~ft~~qveai~sg~q-pgltmvvgppgtgktd~avqil~~lyhn~p~qrTlivthsnqaln~lfeKi~~~d~d~rhLlrl 816 (1320)
T KOG1806|consen 738 KFTPTQVEAILSGMQ-PGLTMVVGPPGTGKTDVAVQILSVLYHNSPNQRTLIVTHSNQALNQLFEKIMALDVDERHLLRL 816 (1320)
T ss_pred ccCHHHHHHHHhcCC-CCceeeecCCCCCCcchhhhhhhhhhhcCCCcceEEEEecccchhHHHHHHHhcccchhhHHHh
Confidence 458999999998887 8999999999999999999999888654 68999999999999999999987632 33455
Q ss_pred CCCCCCChhHHhh--------------hHHHHHhc--------CC--------CchhHHHHHHHHHHHHHHHhccC----
Q 006386 271 GHPARLLPQVLES--------------ALDAQVLR--------GD--------NSSLASDIRKEMKALNGKLLKTK---- 316 (647)
Q Consensus 271 g~~~~~~~~~~~~--------------~l~~~~~~--------~~--------~~~~~~~~~~~~~~~~~~l~~~~---- 316 (647)
|+...-.....++ -+-+.+.+ .+ .+.....+.+...+...++.+..
T Consensus 817 g~ge~eletd~dfsrygrvn~~l~~r~~ll~ev~rla~sl~~pgdv~ytcetagyf~~~~V~~~wee~l~~v~~~~~~~~ 896 (1320)
T KOG1806|consen 817 GHGEEELETDKDFSRYGRVNYVLSRRLELLREVERLAKSLQAPGDVDYTCETAGYFFLAYVKRRWEEYLAKVDKGCDKDS 896 (1320)
T ss_pred cccHHhhhcccchhheeeEeeeeccchHHHHHHHHhhhhhcCccccccccchhhhhhhhHHHhhhHHHHHHhccCCCchh
Confidence 5432111100000 00000000 00 00001111111122222111100
Q ss_pred -----------------------------CHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHhhcCceeeeccc
Q 006386 317 -----------------------------DKNTRREIQKELRTLSKEERKR---------QQLAVTDVIKNADVVLTTLT 358 (647)
Q Consensus 317 -----------------------------~~~~~~~~~~~l~~l~~~~~~~---------~~~~~~~~l~~~~vi~~T~~ 358 (647)
+.......++.++.......+. ......-+.+.+.+|.+||.
T Consensus 897 ~~~~~~~fpf~~~f~d~p~~vfeg~n~~~d~~~a~~cf~hl~~ifqqLee~rafellr~~~dr~~Yll~kqakiiamtct 976 (1320)
T KOG1806|consen 897 VDIVSNRFPFHSYFGDKPKPPFEGYNKENDMDYATGCFRHLEYIFQQLEEFRAFELLRSGEDRELYLLVKQAKIIAMTCT 976 (1320)
T ss_pred hhhHhhhCcchhhhhcCCCccccccchhhhhhhhhhhHHHHHHHHHHHHhcccccccccchhHhhccCcccceeeecccC
Confidence 0011122233333222222110 11112224578999999999
Q ss_pred cccccc---c-CCCCCCEEEEecCCCcchHHHHHHHHhc---------CeeeecCCCCCCCceeccH-HHHhcCCCCCHH
Q 006386 359 GAVSRK---L-DNTSFDLVIIDEAAQALEIACWIALLKG---------SRCILAGDHLQLPPTVQSV-EAEKKGLGRTLF 424 (647)
Q Consensus 359 ~~~~~~---l-~~~~fd~vIIDEAsq~~e~~~l~~l~~~---------~~~vlvGD~~QL~p~v~s~-~~~~~g~~~Slf 424 (647)
.+..+. + .+..||-+++.|++|++|.+..+|++.. ++++++|||.|+||++... -+.....++|+|
T Consensus 977 haalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm~qslf 1056 (1320)
T KOG1806|consen 977 HAALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNMEQSLF 1056 (1320)
T ss_pred ChhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcchhhhh
Confidence 887443 2 2458999999999999999999988731 7899999999999999654 444556788999
Q ss_pred HHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEEEecCCCcccccc
Q 006386 425 ERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCDMEEKKD 504 (647)
Q Consensus 425 ~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~ 504 (647)
.|+....-+ .+-|+.|+|.-+.|+.+.+. -|.+ |...+.+......+ ....+...++.|+++.+.....+..
T Consensus 1057 ~r~vRl~ip--~i~lnaqgrar~sI~~Ly~w-ry~l-Lg~l~~v~~lp~f~----~aNagf~~~~qlinv~Df~g~gEt~ 1128 (1320)
T KOG1806|consen 1057 TRLVRLGVP--IIDLNAQGRARASIASLYNW-RYPL-LGNLPHVSPLPRFQ----YANAGFAYEFQFINVPDFKGSGETE 1128 (1320)
T ss_pred hcceecccc--eecchhhhhHHHHHHHHHHh-hhcc-cccCcCCccchhhh----ccccCceeeEEEecchhhccccccC
Confidence 999986544 78999999999999999974 4543 22222221111000 1223456788999987643322222
Q ss_pred C-CCCccCHHHHHHHHHHHHHHHHcCCCCCeEEEEcccHHHHHHHHHHHhcCCCC-----CCeEEccCCCCCCccccEEE
Q 006386 505 E-EDSTMNEGEAEVAMAHAKRLIQSGVHASDIGIITPYAAQVVLLKILRSKDDKL-----KNMEVSTVDGFQGREKEAII 578 (647)
Q Consensus 505 ~-~~s~~N~~Ea~~v~~~v~~l~~~g~~~~~I~IItpy~~Q~~~l~~l~~~~~~~-----~~i~v~Tvd~fQG~E~diVI 578 (647)
+ ..-+.|..||+.++....++..-|.+...|.|+|.|++|+.+++++++..... ..-.|.|||.|||+..|.||
T Consensus 1129 p~p~fyQnlgeaey~vAly~YMr~Lgypa~Kisilttyngq~~lirdii~rrc~~nPfig~pAkv~tvdk~qgqqndfiI 1208 (1320)
T KOG1806|consen 1129 PSPGFYQNLGEAEYAVALFQYMRLLGYPANKISILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVDKFQGQQNDFII 1208 (1320)
T ss_pred CCcccccCCchhhhHHHHHHHHHHhCCchhHeeEEEeecchHHHHHHHHHHhccCCCccCCcccCCccccccccccceEE
Confidence 1 24456999999999999999999999999999999999999999876543221 33579999999999999999
Q ss_pred EEEeecCCCCccccCCCCCceeeeecccccceEEEecCCccc----cchHHHHHHHHHHHcCc
Q 006386 579 ISMVRSNSKKEVGFLSDRRRMNVAVTRARRQCCLVCDTETVS----SDGFLKRLIEYFEEHAE 637 (647)
Q Consensus 579 is~vrs~~~~~~gfl~d~rrlnVAlTRAk~~l~ivG~~~~l~----~~~~~~~l~~~~~~~~~ 637 (647)
+|+|++. .+|.+.|.||+.||++||+-+|++++...... --|.|..|.++-.....
T Consensus 1209 lslv~tr---~~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eLtp~~~~l~k~p~~lll 1268 (1320)
T KOG1806|consen 1209 LSLVRTR---EVGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCRELTPAFNELEKRPDKLLL 1268 (1320)
T ss_pred eeehhhh---hhhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhccHHHHHHhhCcchhcc
Confidence 9999885 46789999999999999999999999877654 45777777665444443
No 16
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.97 E-value=2.1e-29 Score=284.34 Aligned_cols=252 Identities=16% Similarity=0.153 Sum_probs=141.9
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC----CCeEEEeccchHHHHHHHHHhccc-Cc---eE
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR----GSKILACAASNIAVDNIVERLVPH-RV---RL 267 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~----~~~ILv~a~tn~Avd~l~~rl~~~-~~---~~ 267 (647)
.||++|++||.. ..+.++|.|+||||||+|++.+|++|+.. +.+||++||||+|+++|.+|+... +. .-
T Consensus 2 ~Ln~~Q~~av~~---~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~~~~~ 78 (672)
T PRK10919 2 RLNPGQQQAVEF---VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKEARG 78 (672)
T ss_pred CCCHHHHHHHhC---CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCcccccC
Confidence 599999999986 36789999999999999999999999963 368999999999999999999764 21 11
Q ss_pred EEeCCCCCCChhHHhhhHHHHHhcCCCch---------hHHHHHHH--------HHHHHHHHhcc----CCHHHHH----
Q 006386 268 VRLGHPARLLPQVLESALDAQVLRGDNSS---------LASDIRKE--------MKALNGKLLKT----KDKNTRR---- 322 (647)
Q Consensus 268 vr~g~~~~~~~~~~~~~l~~~~~~~~~~~---------~~~~~~~~--------~~~~~~~l~~~----~~~~~~~---- 322 (647)
+.+++.+.+.-.+........-. ..... +++.+..+ +..+...+... .+.....
T Consensus 79 v~i~TfHS~~~~iLr~~~~~~g~-~~~~~i~d~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~ 157 (672)
T PRK10919 79 LMISTFHTLGLDIIKREYAALGM-KSNFSLFDDTDQLALLKELTEGLIEDDKVLLQQLISTISNWKNDLKTPAQAAAGAK 157 (672)
T ss_pred cEEEcHHHHHHHHHHHHHHHhCC-CCCCeeCCHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHcCCCHHHHHHHhc
Confidence 23333332221111110000000 00000 01111000 00000000000 0000000
Q ss_pred -HHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeecccccc-cccc---CCCCCCEEEEecCCCcchHH--HHHHHHh-cC
Q 006386 323 -EIQKELRTLSKEERKRQQLAVTDVIKNADVVLTTLTGAV-SRKL---DNTSFDLVIIDEAAQALEIA--CWIALLK-GS 394 (647)
Q Consensus 323 -~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~-~~~l---~~~~fd~vIIDEAsq~~e~~--~l~~l~~-~~ 394 (647)
.....+..+...|.+... ....++..+++..+..... .+.+ ...+|++|+|||+|++...+ ++..|.. ..
T Consensus 158 ~~~~~~~~~~~~~Ye~~l~--~~~~lDf~Dll~~~~~ll~~~~~~~~~~~~~~~~ilVDE~QDtn~~Q~~ll~~l~~~~~ 235 (672)
T PRK10919 158 GERDRIFAHCYGLYDAHLK--ACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRA 235 (672)
T ss_pred chhHHHHHHHHHHHHHHHH--HCCCCCHHHHHHHHHHHHhhCHHHHHHHHhcCCEEEEEchhcCCHHHHHHHHHHHcCCC
Confidence 000011111111111100 0112222222222211111 1111 12479999999999998775 3334433 47
Q ss_pred eeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCC
Q 006386 395 RCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNS 460 (647)
Q Consensus 395 ~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~ 460 (647)
++++|||++|-...+ .|.+...|.++...++....+.|++|||++++|.+++|.++-++
T Consensus 236 ~l~~VGD~~QsIY~f-------rGA~~~~~~~f~~~~~~~~~~~L~~NyRs~~~I~~~an~li~~n 294 (672)
T PRK10919 236 RFTVVGDDDQSIYSW-------RGARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANN 294 (672)
T ss_pred EEEEEcCCccccccc-------CCCChHHHHHHHHhCCCCcEEECCCCCCCcHHHHHHHHHHHhhC
Confidence 899999999965543 35667788888888877667899999999999999999888543
No 17
>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=99.95 E-value=2.8e-27 Score=260.17 Aligned_cols=63 Identities=38% Similarity=0.487 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC-----CeEEEeccchHHHHHHHHHhcc
Q 006386 199 HSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG-----SKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 199 ~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~-----~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
+.|+.|+..++. +++++|.||||||||||+..++..+.+.. .+|+++|||++|+..|.+.+..
T Consensus 148 ~~Qk~A~~~al~-~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~ 215 (586)
T TIGR01447 148 NWQKVAVALALK-SNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRK 215 (586)
T ss_pred HHHHHHHHHHhh-CCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHh
Confidence 789999999998 78999999999999999999998886532 4799999999999999998754
No 18
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.95 E-value=6.6e-27 Score=267.06 Aligned_cols=251 Identities=15% Similarity=0.157 Sum_probs=138.4
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC----CCeEEEeccchHHHHHHHHHhccc-C---ceE
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR----GSKILACAASNIAVDNIVERLVPH-R---VRL 267 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~----~~~ILv~a~tn~Avd~l~~rl~~~-~---~~~ 267 (647)
.||++|++||.. ..+.++|.|+||||||+|++.+|.+++.. +++||++||||.|+.++.+|+.+. + ..-
T Consensus 1 ~Ln~~Q~~av~~---~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~~~~~ 77 (664)
T TIGR01074 1 KLNPQQQEAVEY---VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKGEARG 77 (664)
T ss_pred CCCHHHHHHHhC---CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCccccCC
Confidence 489999999986 36789999999999999999999999963 378999999999999999999763 1 112
Q ss_pred EEeCCCCCCChhHHhhhHHHHHhcCCCch---------hHHHHHHH--------HHHHHHHHhccC----CHHHHHH---
Q 006386 268 VRLGHPARLLPQVLESALDAQVLRGDNSS---------LASDIRKE--------MKALNGKLLKTK----DKNTRRE--- 323 (647)
Q Consensus 268 vr~g~~~~~~~~~~~~~l~~~~~~~~~~~---------~~~~~~~~--------~~~~~~~l~~~~----~~~~~~~--- 323 (647)
+.+++.+++.-.+........-. ..... ++..+..+ +..+...+...+ .......
T Consensus 78 v~v~TfHs~a~~il~~~~~~~g~-~~~~~il~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~ 156 (664)
T TIGR01074 78 LTISTFHTLGLDIIKREYNALGY-KSNFSLFDETDQLALLKELTEGLIKDDKDLLDKLISTISNWKNDLLTPEQALASAR 156 (664)
T ss_pred eEEEeHHHHHHHHHHHHHHHhCC-CCCCEEeCHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHcCCCHHHHHHhcc
Confidence 33444333222221111000000 00000 11111000 000100000000 0000000
Q ss_pred --HHHHHHHHHHHHHHHHHHHHHHHhhcCceeeecccccc-ccccC---CCCCCEEEEecCCCcchHH--HHHHHHh-cC
Q 006386 324 --IQKELRTLSKEERKRQQLAVTDVIKNADVVLTTLTGAV-SRKLD---NTSFDLVIIDEAAQALEIA--CWIALLK-GS 394 (647)
Q Consensus 324 --~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~-~~~l~---~~~fd~vIIDEAsq~~e~~--~l~~l~~-~~ 394 (647)
....+..+...|..... ....++..+++........ .+.+. ..+|++|+|||+|++...+ ++..|.. +.
T Consensus 157 ~~~~~~~~~i~~~Y~~~l~--~~~~ldf~Dll~~~~~~L~~~~~i~~~~~~~~~~ilVDEfQD~~~~Q~~ll~~L~~~~~ 234 (664)
T TIGR01074 157 GEREQTFAHCYALYQAHLR--AYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTSQYELVKLLVGDRA 234 (664)
T ss_pred ChHHHHHHHHHHHHHHHHH--HcCCCCHHHHHHHHHHHHhhChHHHHHHHHhCCEEEEeehccCCHHHHHHHHHHhcCCC
Confidence 00111111111111110 0002222222222111111 11111 2478999999999998775 4444443 36
Q ss_pred eeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcC
Q 006386 395 RCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYN 459 (647)
Q Consensus 395 ~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~ 459 (647)
.+++|||++|-...++ |.+...|.++...++....+.|.+|||++++|++++|.++-+
T Consensus 235 ~l~~vGD~~QsIY~fr-------ga~~~~~~~~~~~~~~~~~~~L~~NyRs~~~Il~~~n~l~~~ 292 (664)
T TIGR01074 235 RFTVVGDDDQSIYSWR-------GARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIAN 292 (664)
T ss_pred eEEEEcCCcccccCCC-------CCCHHHHHHHHHhCCCCeEEECCCCCCChHHHHHHHHHHHhc
Confidence 8999999999554332 444556667777676655678999999999999999987644
No 19
>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=99.94 E-value=2.8e-26 Score=259.61 Aligned_cols=169 Identities=28% Similarity=0.322 Sum_probs=117.6
Q ss_pred CCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC--CeEEEeccchHHHHHHHHHhcccCceEEEeC
Q 006386 194 NSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG--SKILACAASNIAVDNIVERLVPHRVRLVRLG 271 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g 271 (647)
...||++|++|+..++. .++++|+|+|||||||++..++..+...+ .+|++||||+.|++.|.+.+ |
T Consensus 321 ~~~l~~~Q~~Ai~~~~~-~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~----------g 389 (720)
T TIGR01448 321 RKGLSEEQKQALDTAIQ-HKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVT----------G 389 (720)
T ss_pred CCCCCHHHHHHHHHHHh-CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhc----------C
Confidence 46799999999999986 77999999999999999999888887777 89999999999999887762 3
Q ss_pred CCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCc
Q 006386 272 HPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKNAD 351 (647)
Q Consensus 272 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~ 351 (647)
.++...+.+...... ..
T Consensus 390 ~~a~Tih~lL~~~~~--------~~------------------------------------------------------- 406 (720)
T TIGR01448 390 LTASTIHRLLGYGPD--------TF------------------------------------------------------- 406 (720)
T ss_pred CccccHHHHhhccCC--------cc-------------------------------------------------------
Confidence 333222221110000 00
Q ss_pred eeeeccccccccccCCCCCCEEEEecCCCcchHHHHHHHH----hcCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHH
Q 006386 352 VVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIALL----KGSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERL 427 (647)
Q Consensus 352 vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l~----~~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl 427 (647)
.....-.....++|||||||++.... +..|+ .+.++|||||+.||||+-. + ..|..+
T Consensus 407 --------~~~~~~~~~~~~llIvDEaSMvd~~~-~~~Ll~~~~~~~rlilvGD~~QLpsV~~---------G-~v~~dl 467 (720)
T TIGR01448 407 --------RHNHLEDPIDCDLLIVDESSMMDTWL-ALSLLAALPDHARLLLVGDTDQLPSVGP---------G-QVLKDL 467 (720)
T ss_pred --------chhhhhccccCCEEEEeccccCCHHH-HHHHHHhCCCCCEEEEECccccccCCCC---------C-chHHHH
Confidence 00000001357999999999765543 33333 3589999999999999832 2 346556
Q ss_pred HHHcCCcccchhhHhhcCh--hHHHHhhHhh
Q 006386 428 ADLYGDEVTSMLTVQYRMH--EHIMNWSSKQ 456 (647)
Q Consensus 428 ~~~~~~~~~~~L~~qyRm~--~~I~~~~s~~ 456 (647)
.... ...++.|+.+||.. ..|..+++..
T Consensus 468 ~~~~-~~~~~~L~~i~RQ~~~s~i~~~a~~i 497 (720)
T TIGR01448 468 ILSQ-AIPVTRLTKVYRQAAGSPIITLAHGI 497 (720)
T ss_pred HhcC-CCCEEEeCeeeccCCCcHHHHHHHHH
Confidence 5532 22377999999986 4688888654
No 20
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.94 E-value=1.5e-26 Score=254.65 Aligned_cols=65 Identities=31% Similarity=0.373 Sum_probs=57.7
Q ss_pred CCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC----CCeEEEeccchHHHHHHHHHhcc
Q 006386 197 LDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR----GSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~----~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..+.|+.|+..++. .++++|.||||||||||+..++..+.+. +.+|+++|||++|+..|.+++..
T Consensus 153 ~~d~Qk~Av~~a~~-~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~ 221 (615)
T PRK10875 153 EVDWQKVAAAVALT-RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGK 221 (615)
T ss_pred CCHHHHHHHHHHhc-CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHh
Confidence 45899999999997 7899999999999999999999988653 35899999999999999998743
No 21
>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=99.93 E-value=2e-24 Score=245.44 Aligned_cols=168 Identities=23% Similarity=0.251 Sum_probs=116.0
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCceEEEeCCCC
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVRLVRLGHPA 274 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~~~ 274 (647)
..||++|++||..++.+.++++|+|+|||||||++..++..+...|.+|++||||+.|+..|.+. .|.++
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~~~----------~g~~a 420 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQAE----------SGIES 420 (744)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHhc----------cCCce
Confidence 57999999999999876689999999999999999998888778899999999999999999765 23222
Q ss_pred CCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceee
Q 006386 275 RLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKNADVVL 354 (647)
Q Consensus 275 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~ 354 (647)
....... .. . .
T Consensus 421 ~Ti~~~~---~~--~----------------------------------------------------------~------ 431 (744)
T TIGR02768 421 RTLASLE---YA--W----------------------------------------------------------A------ 431 (744)
T ss_pred eeHHHHH---hh--h----------------------------------------------------------c------
Confidence 2111100 00 0 0
Q ss_pred eccccccccccCCCCCCEEEEecCCCcchHHHHHHH----HhcCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHH
Q 006386 355 TTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIAL----LKGSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADL 430 (647)
Q Consensus 355 ~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l----~~~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~ 430 (647)
...-.....++||||||+++........+ ..+.++|||||+.||||+-.+ ..|..|...
T Consensus 432 -------~~~~~~~~~~llIvDEasMv~~~~~~~Ll~~~~~~~~kliLVGD~~QLpsVgaG----------~~f~~l~~~ 494 (744)
T TIGR02768 432 -------NGRDLLSDKDVLVIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAG----------AAFRAIAER 494 (744)
T ss_pred -------cCcccCCCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECChHHccccccC----------cHHHHHHHh
Confidence 00000136799999999976544322212 135899999999999999432 356666654
Q ss_pred cCCcccchhhHhhcChhHHHHhhHhhhcCCC
Q 006386 431 YGDEVTSMLTVQYRMHEHIMNWSSKQLYNSK 461 (647)
Q Consensus 431 ~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~ 461 (647)
.+ .+.|+..||....-..-+...+-.|.
T Consensus 495 ~~---~~~Lt~I~RQ~~~~~~~aa~~i~~G~ 522 (744)
T TIGR02768 495 IG---YAELETIRRQREAWARQASLELARGD 522 (744)
T ss_pred hC---eEEeeeEEecCCHHHHHHHHHHHcCC
Confidence 33 57899999986543333334444443
No 22
>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=99.91 E-value=5.6e-23 Score=246.05 Aligned_cols=64 Identities=27% Similarity=0.438 Sum_probs=56.3
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC---CeEEEeccchHHHHHHHHHhcc
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG---SKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~---~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
++|++|++||.. .....+|.|+||||||+|+++++..++..| .+||++||||+|+.+|.+|+.+
T Consensus 1 ~~t~~Q~~ai~~---~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~ 67 (1232)
T TIGR02785 1 QWTDEQWQAIYT---RGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEE 67 (1232)
T ss_pred CCCHHHHHHHhC---CCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHH
Confidence 479999999984 456789999999999999999999988755 4699999999999999998865
No 23
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=99.91 E-value=4.3e-23 Score=235.54 Aligned_cols=312 Identities=21% Similarity=0.233 Sum_probs=179.9
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC----CeEEEeccchHHHHHHHHHhcccCce----E
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG----SKILACAASNIAVDNIVERLVPHRVR----L 267 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~----~~ILv~a~tn~Avd~l~~rl~~~~~~----~ 267 (647)
.||++|++||.. ..+..+|.++||||||+|++++|++++..+ .+||++++||+|+.+|.+|+.+.... .
T Consensus 2 ~Ln~~Q~~av~~---~~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~~~~~~ 78 (655)
T COG0210 2 KLNPEQREAVLH---PDGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLGLPAAEG 78 (655)
T ss_pred CCCHHHHHHHhc---CCCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhCcccccC
Confidence 699999999997 368899999999999999999999999864 68999999999999999999876221 0
Q ss_pred EEeCCCCCCChhHHhhhHHHHHhcC---CCch--hHHHHHHHHHHHHH------------------------HHhccCCH
Q 006386 268 VRLGHPARLLPQVLESALDAQVLRG---DNSS--LASDIRKEMKALNG------------------------KLLKTKDK 318 (647)
Q Consensus 268 vr~g~~~~~~~~~~~~~l~~~~~~~---~~~~--~~~~~~~~~~~~~~------------------------~l~~~~~~ 318 (647)
+.++.. +.+....+....... .+.. ...+....+..+.. ........
T Consensus 79 ~~v~Tf----Hs~~~~~lr~~~~~~~~~~~~~i~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~ 154 (655)
T COG0210 79 LTVGTF----HSFALRILRRHGERLGLNANFTILDSDDQLALIKELLRRELNLDDKELLPREALRYISEAKNALLSPLEA 154 (655)
T ss_pred cEEeeH----HHHHHHHHHHHHHhcCCCCCCEEecHHHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHhhCCChhhh
Confidence 122222 222222222111110 0000 00111111111111 00000000
Q ss_pred H---HH---HHHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeecccccc-ccc-c--CCCCCCEEEEecCCCcchHH--H
Q 006386 319 N---TR---REIQKELRTLSKEERKRQQLAVTDVIKNADVVLTTLTGAV-SRK-L--DNTSFDLVIIDEAAQALEIA--C 386 (647)
Q Consensus 319 ~---~~---~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~-~~~-l--~~~~fd~vIIDEAsq~~e~~--~ 386 (647)
. .. ....+.+..+...|..... ....++..+.+.-++.-.. .+. + ...+|++|+|||+|+....+ +
T Consensus 155 ~~~~~~~~~~~~~~~~~~~y~~Y~~~~~--~~~~~df~dll~~~~~l~~~~~~v~~~~~~rf~~iLvDE~QDtn~~Q~~l 232 (655)
T COG0210 155 SALLLAAIKSEAEKKLAELYEEYQELLR--LNNALDFDDLLLLALRLLEENPEVLEALQARFRYILVDEFQDTNPLQYEL 232 (655)
T ss_pred hhhhhhccccHHHHHHHHHHHHHHHHHH--HcCCCCHHHHHHHHHHHHhcCHHHHHHHHhhCCEEEEeCcCCCCHHHHHH
Confidence 0 00 0001111111111111111 0012222222222222211 111 1 13589999999999887654 3
Q ss_pred HHHHHhc-CeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCCCCCC
Q 006386 387 WIALLKG-SRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAH 465 (647)
Q Consensus 387 l~~l~~~-~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~ 465 (647)
+..|... ..+++|||+.|-...+ .|.....+..+...++....+.|..|||+.+.|..++|..+-++.-...
T Consensus 233 l~~la~~~~~l~~VGD~dQsIY~f-------rGA~~~ni~~f~~df~~~~~i~Le~NyRSt~~Il~~An~~i~~n~~r~~ 305 (655)
T COG0210 233 LKLLAGNAANLFVVGDDDQSIYGF-------RGADPENILDFEKDFPAAKVIKLEQNYRSTPNILAAANKVIANNKKRQA 305 (655)
T ss_pred HHHHhCCCCCEEEEcCCcccccee-------CCCChHHHHHHHhhCCCCcEEEecCCCCCcHHHHHHHHHHHhcCCccCC
Confidence 3344432 6888999999955543 4677788899999998766889999999999999999988873322111
Q ss_pred hhhhhcccccccCCcCC-CCCCCcEEEEEecCCCccccccCCCCccCHHHHHHHHHHHHHHHHcC-CCCCeEEEEcccHH
Q 006386 466 PSVAAHMLFDLEGVKRT-SSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEVAMAHAKRLIQSG-VHASDIGIITPYAA 543 (647)
Q Consensus 466 ~~~~~~~~~~~~~~~~~-~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g-~~~~~I~IItpy~~ 543 (647)
.. +... ......+.++ .......||..+...+..+...| ...++|+|+...+.
T Consensus 306 k~-----------l~~~~~~~~~~~~~~--------------~~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~ 360 (655)
T COG0210 306 KT-----------LRTEVEGSGEKVVLL--------------LANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNA 360 (655)
T ss_pred Cc-----------ceeccCCCCCCceEE--------------eCCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCc
Confidence 11 0000 1122222222 22234589999999999999988 88899999976555
Q ss_pred HHHHH
Q 006386 544 QVVLL 548 (647)
Q Consensus 544 Q~~~l 548 (647)
|...+
T Consensus 361 ~s~~~ 365 (655)
T COG0210 361 QSRLI 365 (655)
T ss_pred chHHH
Confidence 55444
No 24
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.90 E-value=1.1e-22 Score=233.44 Aligned_cols=168 Identities=23% Similarity=0.286 Sum_probs=117.2
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCceEEEeCCCC
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVRLVRLGHPA 274 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~~~ 274 (647)
..||++|++||..+...+++.+|+|+|||||||++..++..+-..|.+|+.+|||+.|+..|.+. .|.++
T Consensus 380 ~~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkAA~~L~e~----------~Gi~a 449 (1102)
T PRK13826 380 ARLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGLEKE----------AGIQS 449 (1102)
T ss_pred CCCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHHHHHHHHh----------hCCCe
Confidence 47999999999988766789999999999999999998888888899999999999999998765 23333
Q ss_pred CCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceee
Q 006386 275 RLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKNADVVL 354 (647)
Q Consensus 275 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~ 354 (647)
++...+ .+.. ..
T Consensus 450 ~TIas~---ll~~------------------------------------------------------------~~----- 461 (1102)
T PRK13826 450 RTLSSW---ELRW------------------------------------------------------------NQ----- 461 (1102)
T ss_pred eeHHHH---Hhhh------------------------------------------------------------cc-----
Confidence 221110 0000 00
Q ss_pred eccccccccccCCCCCCEEEEecCCCcchHHHHHHH--H--hcCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHH
Q 006386 355 TTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIAL--L--KGSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADL 430 (647)
Q Consensus 355 ~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l--~--~~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~ 430 (647)
... .-..-++||||||+++........+ . .+.++|||||+.||||+-.+ ..|..|...
T Consensus 462 ------~~~--~l~~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG----------~~f~~l~~~ 523 (1102)
T PRK13826 462 ------GRD--QLDNKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAG----------AAFRAIADR 523 (1102)
T ss_pred ------Ccc--CCCCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCC----------cHHHHHHhh
Confidence 000 0113479999999977555433222 1 35899999999999999332 366667654
Q ss_pred cCCcccchhhHhhcChhHHHHhhHhhhcCCC
Q 006386 431 YGDEVTSMLTVQYRMHEHIMNWSSKQLYNSK 461 (647)
Q Consensus 431 ~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~ 461 (647)
.+ ...|+..||...+-..-++..+-.|.
T Consensus 524 i~---~a~LteI~RQ~~~~~r~Aa~~i~~G~ 551 (1102)
T PRK13826 524 IG---YAELETIYRQREQWMRDASLDLARGN 551 (1102)
T ss_pred cC---EEEeeeeeecCChHHHHHHHHHHcCC
Confidence 33 57899999987653333445565554
No 25
>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=99.90 E-value=6.8e-23 Score=242.67 Aligned_cols=167 Identities=13% Similarity=0.094 Sum_probs=98.8
Q ss_pred CCCCEEEEecCCCcchHH--HHHHHHhc-C--eeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHh
Q 006386 368 TSFDLVIIDEAAQALEIA--CWIALLKG-S--RCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQ 442 (647)
Q Consensus 368 ~~fd~vIIDEAsq~~e~~--~l~~l~~~-~--~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~q 442 (647)
.+|++|+|||+|+....+ ++..|..+ . .+++||||+|-..-++ |.+...|.++...++. .+.|.+|
T Consensus 295 ~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQSIY~FR-------GAD~~~~~~~~~~~~~--~~~L~~N 365 (1087)
T TIGR00609 295 EQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQAIYSFR-------GADIFTYLQAKSKADA--RYTLGTN 365 (1087)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCccccccCC-------CCCHHHHHHHHHhcCc--EEECCCC
Confidence 489999999999987765 44445443 2 7999999999665543 4555666666665553 6799999
Q ss_pred hcChhHHHHhhHhhhcCCCCC-----CChhhhhcccccccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHHH
Q 006386 443 YRMHEHIMNWSSKQLYNSKIK-----AHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEV 517 (647)
Q Consensus 443 yRm~~~I~~~~s~~fY~~~L~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~ 517 (647)
||++|.|++++|.+|-...-. +...+...................++.++...+.. . +...+-..+|+.
T Consensus 366 yRS~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~~----~--~~~~~~~~~a~~ 439 (1087)
T TIGR00609 366 WRSTPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVES----E--GVDDYRQTIAQK 439 (1087)
T ss_pred CCCcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCcc----c--ccchHHHHHHHH
Confidence 999999999999988642211 00011000000000000011123455555443210 0 011122345666
Q ss_pred HHHHHHHHHHc---------------CCCCCeEEEEcccHHHHHHHH
Q 006386 518 AMAHAKRLIQS---------------GVHASDIGIITPYAAQVVLLK 549 (647)
Q Consensus 518 v~~~v~~l~~~---------------g~~~~~I~IItpy~~Q~~~l~ 549 (647)
+...+..++.. +++++||+|+++.+.|...++
T Consensus 440 ~a~~I~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~ 486 (1087)
T TIGR00609 440 CAREIALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIR 486 (1087)
T ss_pred HHHHHHHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHH
Confidence 77777776643 467889999987776665544
No 26
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.90 E-value=1.3e-22 Score=232.07 Aligned_cols=169 Identities=22% Similarity=0.214 Sum_probs=116.0
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCceEEEeCCCC
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVRLVRLGHPA 274 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~~~ 274 (647)
..||++|++||..++.+.++++|+|+|||||||++..++..+-..|.+|++||||+.|+..|.+. .|..+
T Consensus 345 ~~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~e~----------tGi~a 414 (988)
T PRK13889 345 LVLSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLEGG----------SGIAS 414 (988)
T ss_pred CCCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHhhc----------cCcch
Confidence 46999999999999986789999999999999998776666666799999999999999988753 22222
Q ss_pred CCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceee
Q 006386 275 RLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKNADVVL 354 (647)
Q Consensus 275 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~ 354 (647)
++ +...... +..
T Consensus 415 ~T--------I~sll~~-------------------------------------------------------~~~----- 426 (988)
T PRK13889 415 RT--------IASLEHG-------------------------------------------------------WGQ----- 426 (988)
T ss_pred hh--------HHHHHhh-------------------------------------------------------hcc-----
Confidence 11 1110000 000
Q ss_pred eccccccccccCCCCCCEEEEecCCCcchHHHHHHH----HhcCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHH
Q 006386 355 TTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIAL----LKGSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADL 430 (647)
Q Consensus 355 ~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l----~~~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~ 430 (647)
....-...++||||||+++........| ..+.++|||||+.||||+-. | ..|.-|...
T Consensus 427 --------~~~~l~~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~a-------G---~~f~~L~~~ 488 (988)
T PRK13889 427 --------GRDLLTSRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEA-------G---AAFRSIHER 488 (988)
T ss_pred --------cccccccCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCC-------C---chHHHHHHh
Confidence 0000125689999999976544332222 13589999999999999922 2 456666654
Q ss_pred cCCcccchhhHhhcChhHHHHhhHhhhcCCCC
Q 006386 431 YGDEVTSMLTVQYRMHEHIMNWSSKQLYNSKI 462 (647)
Q Consensus 431 ~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L 462 (647)
.+ ...|+..+|...+...-+...+..|+.
T Consensus 489 ~~---~a~LteI~RQ~~~~~r~aa~~i~~G~~ 517 (988)
T PRK13889 489 HG---GAEIGEVRRQREDWQRDATRDLATGRT 517 (988)
T ss_pred cC---eEEeceeecCCCHHHHHHHHHHHcCCc
Confidence 44 468999999976555445556666653
No 27
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.89 E-value=9.2e-22 Score=229.84 Aligned_cols=150 Identities=15% Similarity=0.244 Sum_probs=100.4
Q ss_pred CCCCCEEEEecCCCcchHH--HHHHHHh----------cCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCc
Q 006386 367 NTSFDLVIIDEAAQALEIA--CWIALLK----------GSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDE 434 (647)
Q Consensus 367 ~~~fd~vIIDEAsq~~e~~--~l~~l~~----------~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~ 434 (647)
..+|++|+|||+|++...+ .+.+|.. ...+++|||++|-..- ..|.+..+|.++...++.
T Consensus 326 ~~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQSIY~-------FRGA~~~~f~~~~~~~~~- 397 (910)
T PRK13909 326 DSKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQSIYR-------FRGGKKELFDKVSKDFKQ- 397 (910)
T ss_pred hcCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchhhhhh-------hcCCChHHHHHHHHHhhh-
Confidence 4589999999999998775 4556542 2479999999995443 245666789998877665
Q ss_pred ccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHH
Q 006386 435 VTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGE 514 (647)
Q Consensus 435 ~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~E 514 (647)
....|++|||+++.|++|+|..|-... ...+. . .. ........+.++... .....+
T Consensus 398 ~~~~L~~NyRS~~~Iv~~~N~~f~~~~-~~~~~---~----~~---~~~~~~g~v~i~~~~-------------~~~~~~ 453 (910)
T PRK13909 398 KVDNLDTNYRSAPLIVDFVNEVFKKKY-KNYKT---Q----YA---EQHKSGGYVEVVEVA-------------DESEEL 453 (910)
T ss_pred hhcccccCCCCChHHHHHHHHHHHHHH-Hhhhh---h----hc---ccccCCCcEEEEECC-------------CccHHH
Confidence 367899999999999999999885421 00000 0 00 000011222222110 012346
Q ss_pred HHHHHHHHHHHHHcCCCCCeEEEEcccHHHHHHH
Q 006386 515 AEVAMAHAKRLIQSGVHASDIGIITPYAAQVVLL 548 (647)
Q Consensus 515 a~~v~~~v~~l~~~g~~~~~I~IItpy~~Q~~~l 548 (647)
++.+++.+..++..|++++||+||++.+.|...+
T Consensus 454 a~~ia~~I~~l~~~g~~~~dIaILvR~~~~~~~l 487 (910)
T PRK13909 454 LEQLLQEIQFLLEKGIDPDDIAILCWTNDDALEI 487 (910)
T ss_pred HHHHHHHHHHHHHcCCCcCCEEEEEecCccHHHH
Confidence 7889999999999999999999999877655433
No 28
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.87 E-value=1.4e-21 Score=231.90 Aligned_cols=175 Identities=17% Similarity=0.153 Sum_probs=104.7
Q ss_pred CCCCEEEEecCCCcchHH--HHHHHHhc-----CeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhh
Q 006386 368 TSFDLVIIDEAAQALEIA--CWIALLKG-----SRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLT 440 (647)
Q Consensus 368 ~~fd~vIIDEAsq~~e~~--~l~~l~~~-----~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~ 440 (647)
.+|++|+|||+||....+ .+-.|..+ ..++|||||+|...-+ .|.+..+|............+.|.
T Consensus 377 ~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQSIY~F-------RgAD~~~f~~a~~~~~~~~~~~L~ 449 (1139)
T COG1074 377 EQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQSIYRF-------RGADIFTFLEAASSEKAFARITLE 449 (1139)
T ss_pred hcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchHHhhhh-------cCCChHHHHHHhhccccCceeecc
Confidence 489999999999876654 44455544 4899999999955443 467778887777632233478999
Q ss_pred HhhcChhHHHHhhHhhhcCC---CCC--CChhhhhcccc-cccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHH
Q 006386 441 VQYRMHEHIMNWSSKQLYNS---KIK--AHPSVAAHMLF-DLEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGE 514 (647)
Q Consensus 441 ~qyRm~~~I~~~~s~~fY~~---~L~--~~~~~~~~~~~-~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~E 514 (647)
+|||+.++++++.|.+|-.- .-. ....+...... ..+.....+ ..+...+++...........+........+
T Consensus 450 ~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~ 528 (1139)
T COG1074 450 TNYRSTPELLNAVNALFKQAMFAYPGEIDYDPVAELGARNGSPGSVNGE-PLPALKFWEEEDDWTAPENEEDEREIADLE 528 (1139)
T ss_pred cccCCcHHHHHHHHHHHhhhhhhcCCCCCCchhhhhhcccCCCCCCCcc-cchhhhhhcCcccccCCCCchhHHHHHHHH
Confidence 99999999999999888642 110 11111111100 011111110 111222222111100111110113446677
Q ss_pred HHHHHHHHHHHHH--------cCCCCCeEEEEcccHHHHHHHHH
Q 006386 515 AEVAMAHAKRLIQ--------SGVHASDIGIITPYAAQVVLLKI 550 (647)
Q Consensus 515 a~~v~~~v~~l~~--------~g~~~~~I~IItpy~~Q~~~l~~ 550 (647)
|..|...+..+.. ..+.++||+|++.-+.+...|++
T Consensus 529 a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~ 572 (1139)
T COG1074 529 ARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIER 572 (1139)
T ss_pred HHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHH
Confidence 8888888888885 45889999999988887766654
No 29
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.86 E-value=2.3e-21 Score=186.11 Aligned_cols=172 Identities=27% Similarity=0.321 Sum_probs=110.2
Q ss_pred CCCHHHHHHHHHHHcc-CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCceEEEeCCCC
Q 006386 196 NLDHSQKDAISKALSS-KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVRLVRLGHPA 274 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~-~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~~~ 274 (647)
+||++|++|+..++.+ ..+.+|+||||||||+++..++..+...|.+|+++||||.|+++|.+++. ...
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~~----------~~a 70 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKTG----------IEA 70 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHHT----------S-E
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhhC----------cch
Confidence 5899999999999864 35899999999999999999988888889999999999999999998842 111
Q ss_pred CCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceee
Q 006386 275 RLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKNADVVL 354 (647)
Q Consensus 275 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~ 354 (647)
. +++..+......
T Consensus 71 ~--------Ti~~~l~~~~~~----------------------------------------------------------- 83 (196)
T PF13604_consen 71 Q--------TIHSFLYRIPNG----------------------------------------------------------- 83 (196)
T ss_dssp E--------EHHHHTTEECCE-----------------------------------------------------------
T ss_pred h--------hHHHHHhcCCcc-----------------------------------------------------------
Confidence 1 111110000000
Q ss_pred eccccccccccCCCCCCEEEEecCCCcchHHHHHHHHh----cCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHH
Q 006386 355 TTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIALLK----GSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADL 430 (647)
Q Consensus 355 ~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l~~----~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~ 430 (647)
..........+++||||||+++....+...+.. +.++|++|||+||||+-. .+.|..+...
T Consensus 84 -----~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~~----------g~~~~~l~~~ 148 (196)
T PF13604_consen 84 -----DDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVGA----------GSPFADLQES 148 (196)
T ss_dssp -----ECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCST----------TCHHHHHCGC
T ss_pred -----cccccccCCcccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCcC----------CcHHHHHHhc
Confidence 000000023568999999998877665443332 478999999999999943 2467666665
Q ss_pred cCCcccchhhHhhcCh-hHHHHhhHhhhcCCCC
Q 006386 431 YGDEVTSMLTVQYRMH-EHIMNWSSKQLYNSKI 462 (647)
Q Consensus 431 ~~~~~~~~L~~qyRm~-~~I~~~~s~~fY~~~L 462 (647)
.+. .+.|+..+|.. +.+. -+...+.+|..
T Consensus 149 ~~~--~~~L~~i~Rq~~~~~~-~~~~~~~~g~~ 178 (196)
T PF13604_consen 149 GGI--TVELTEIRRQKDPELR-EAAKAIREGDA 178 (196)
T ss_dssp STT--EEEE---SCCCCTHHH-HHHHHHCTT--
T ss_pred CCC--eEEeChhhcCCChHHH-HHHHHHHcCCC
Confidence 443 68899999997 5555 44456666653
No 30
>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=99.86 E-value=6.8e-20 Score=219.90 Aligned_cols=85 Identities=16% Similarity=0.152 Sum_probs=65.6
Q ss_pred CCCCEEEEecCCCcchHH--HHHHHHh------------cCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCC
Q 006386 368 TSFDLVIIDEAAQALEIA--CWIALLK------------GSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGD 433 (647)
Q Consensus 368 ~~fd~vIIDEAsq~~e~~--~l~~l~~------------~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~ 433 (647)
.+|++|+|||+|+....+ ++.+|.. ...+++|||++|-.+-++ |.+..+|.++...++.
T Consensus 390 ~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQSIY~FR-------GAd~~~f~~~~~~~~~ 462 (1141)
T TIGR02784 390 RGIDHILVDEAQDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQSIYSFQ-------GADPDRFAEERREFNR 462 (1141)
T ss_pred cCCCEEEEECCcCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcccCcccc-------CCCHHHHHHHHHHHHH
Confidence 589999999999997765 5555653 257999999999666543 5667788876654421
Q ss_pred --------cccchhhHhhcChhHHHHhhHhhhcC
Q 006386 434 --------EVTSMLTVQYRMHEHIMNWSSKQLYN 459 (647)
Q Consensus 434 --------~~~~~L~~qyRm~~~I~~~~s~~fY~ 459 (647)
...+.|++|||+++.|+++.|.+|-+
T Consensus 463 ~~~~~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~ 496 (1141)
T TIGR02784 463 KVRAVGAKFEDLSLNYSFRSTPDVLAAVDLVFAD 496 (1141)
T ss_pred hhhhccCCceEeeCCcCCCChHHHHHHHHHHHhC
Confidence 12578999999999999999999965
No 31
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.85 E-value=1.3e-20 Score=223.60 Aligned_cols=167 Identities=17% Similarity=0.180 Sum_probs=94.9
Q ss_pred CCCCEEEEecCCCcchHH--HHHHHHh---cCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcccchhhHh
Q 006386 368 TSFDLVIIDEAAQALEIA--CWIALLK---GSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEVTSMLTVQ 442 (647)
Q Consensus 368 ~~fd~vIIDEAsq~~e~~--~l~~l~~---~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~~~~L~~q 442 (647)
.+|++|+|||+|++...+ ++..|.. ...+++||||+|-...++ |.+...|-...... ...+.|.+|
T Consensus 376 ~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQsIY~FR-------GAd~~~~l~~~~~~--~~~~~L~~N 446 (1181)
T PRK10876 376 TRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQAIYAFR-------GADIFTYMKARSEV--SAHYTLDTN 446 (1181)
T ss_pred hCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCccccccCC-------CCCchHHHHHHhcc--CCeeECCCC
Confidence 489999999999997765 4455543 257999999999665443 33433333332222 225789999
Q ss_pred hcChhHHHHhhHhhhcCCCCC------CChhhhhcccccccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHH
Q 006386 443 YRMHEHIMNWSSKQLYNSKIK------AHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAE 516 (647)
Q Consensus 443 yRm~~~I~~~~s~~fY~~~L~------~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~ 516 (647)
||+++.|++++|.+|....-. +...+.......-..........+++.++-..+.. .....+...||+
T Consensus 447 yRS~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~------~~~~~~~~~eA~ 520 (1181)
T PRK10876 447 WRSAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLMEGEG------VGVGDYQQTMAQ 520 (1181)
T ss_pred cCcCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeecCCCc------cCcchHHHHHHH
Confidence 999999999999998653210 00000000000000000000111233333222210 011223456788
Q ss_pred HHHHHHHHHHHcC---------------CCCCeEEEEcccHHHHHHHH
Q 006386 517 VAMAHAKRLIQSG---------------VHASDIGIITPYAAQVVLLK 549 (647)
Q Consensus 517 ~v~~~v~~l~~~g---------------~~~~~I~IItpy~~Q~~~l~ 549 (647)
.++..|..++..| ++++||+|+++.+.|...++
T Consensus 521 ~iA~~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~ 568 (1181)
T PRK10876 521 QCAAQIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIR 568 (1181)
T ss_pred HHHHHHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHH
Confidence 8888888887543 56789999987666554443
No 32
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.84 E-value=1.9e-19 Score=187.73 Aligned_cols=205 Identities=20% Similarity=0.168 Sum_probs=139.0
Q ss_pred CCCCEEEEecCCCcchHH--HHHHHHhcCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCC--cccchhhHhh
Q 006386 368 TSFDLVIIDEAAQALEIA--CWIALLKGSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGD--EVTSMLTVQY 443 (647)
Q Consensus 368 ~~fd~vIIDEAsq~~e~~--~l~~l~~~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~--~~~~~L~~qy 443 (647)
..+.++||||||+....+ .+-.+..+..+-++||-.|-..- . --..+.++|+...+.. ...+.|..+|
T Consensus 527 ~~~kh~vIDeaqdys~~q~~~~r~l~~~as~tivgd~gq~i~~---~-----~~e~~~~e~~~~~fed~~~e~v~l~~sy 598 (747)
T COG3973 527 RRLKHTVIDEAQDYSRFQFTDNRTLAERASMTIVGDYGQVIYD---E-----AQELSPMERMDVFFEDPSFEYVGLIASY 598 (747)
T ss_pred ccccceeechhhhcchhhhHHHhhhhhhccceEeccCCceehh---h-----hcccCHHHHHHHHHhCCCchhhhhhhhh
Confidence 478999999999776554 34445567889999999993321 1 1124566776654432 3357899999
Q ss_pred cChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHHHHHHHHH
Q 006386 444 RMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEVAMAHAK 523 (647)
Q Consensus 444 Rm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v~~~v~ 523 (647)
|++.+|.+|+|.+.-+ .-...|-. .+...|.+. .+..|..=++.+.+++.
T Consensus 599 rSt~eI~efan~~l~d-~~~~~p~~--------------rsge~p~~i---------------~~~~ne~l~qr~~~ii~ 648 (747)
T COG3973 599 RSTAEIDEFANSLLPD-RFRIHPLT--------------RSGEKPAVI---------------MSVANEELVQRNPDIIP 648 (747)
T ss_pred cChHHHHHHHHHhccC-CCccchhh--------------cCCCCceee---------------eccchHHHHHhhHHHHH
Confidence 9999999999977663 11111110 012222221 23445556677778888
Q ss_pred HHHHcCCCCCeEEEEcccHHHHHHHHHHHhcC-----------CCCCCeEEccCCCCCCccccEEEEEEeecCCCCcccc
Q 006386 524 RLIQSGVHASDIGIITPYAAQVVLLKILRSKD-----------DKLKNMEVSTVDGFQGREKEAIIISMVRSNSKKEVGF 592 (647)
Q Consensus 524 ~l~~~g~~~~~I~IItpy~~Q~~~l~~l~~~~-----------~~~~~i~v~Tvd~fQG~E~diVIis~vrs~~~~~~gf 592 (647)
+|...|. +.|+|||+...|+..+...++.. .-..+..|.-|+-.||.|+|.||+.... +... -
T Consensus 649 ~mkk~~~--etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s-~~e~---t 722 (747)
T COG3973 649 RMKKRGS--ETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPS-IVEE---T 722 (747)
T ss_pred HHHhcCC--CceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecch-hhcc---c
Confidence 8877764 58999999999998877544321 2236788999999999999999985432 2111 2
Q ss_pred CCCCCceeeeecccccceEEEecC
Q 006386 593 LSDRRRMNVAVTRARRQCCLVCDT 616 (647)
Q Consensus 593 l~d~rrlnVAlTRAk~~l~ivG~~ 616 (647)
-.+.|.||||+|||-+.|+|+|..
T Consensus 723 e~~~r~LYva~TRAlh~l~if~~g 746 (747)
T COG3973 723 EQDLRDLYVAVTRALHSLYIFGEG 746 (747)
T ss_pred ccchhhHHHHHHHHHHHHHHhhcC
Confidence 345688999999999999999853
No 33
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.79 E-value=8.1e-18 Score=201.54 Aligned_cols=172 Identities=19% Similarity=0.243 Sum_probs=113.6
Q ss_pred CCCCHHHHHHHHHHHcc-CCeEEEEcCCCCchHHHHHHHHHHHHH----CCCeEEEeccchHHHHHHHHHhcccCceEEE
Q 006386 195 SNLDHSQKDAISKALSS-KNVFMLHGPPGTGKTTTVVEIILQEVK----RGSKILACAASNIAVDNIVERLVPHRVRLVR 269 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~-~~~~lI~GpPGTGKT~ti~~~i~~l~~----~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr 269 (647)
..||+.|++||..++.+ ..+++|+|+|||||||++..++..+-. .+.+|+.||||+.|+..|.+.
T Consensus 966 ~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e~---------- 1035 (1747)
T PRK13709 966 EGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRSA---------- 1035 (1747)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHhc----------
Confidence 46999999999999974 469999999999999999887766532 357899999999999988651
Q ss_pred eCCCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 006386 270 LGHPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKN 349 (647)
Q Consensus 270 ~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~ 349 (647)
|.++.. +...+. .
T Consensus 1036 -Gi~A~T--------I~s~L~----------------------------------------------------------~ 1048 (1747)
T PRK13709 1036 -GVDAQT--------LASFLH----------------------------------------------------------D 1048 (1747)
T ss_pred -Ccchhh--------HHHHhc----------------------------------------------------------c
Confidence 222211 111110 0
Q ss_pred CceeeeccccccccccCCCCCCEEEEecCCCcchHHHHHHH--H-h-cCeeeecCCCCCCCceeccHHHHhcCCCCCHHH
Q 006386 350 ADVVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIAL--L-K-GSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFE 425 (647)
Q Consensus 350 ~~vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l--~-~-~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~ 425 (647)
... ............+++||||||++........+ . . +.++|||||++||||+-. | ..|.
T Consensus 1049 ~~~------~~~~~~~~~~~~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~a-------G---~~f~ 1112 (1747)
T PRK13709 1049 TQL------QQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAP-------G---QPFR 1112 (1747)
T ss_pred ccc------ccccccCCCCCCcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCCC-------C---hHHH
Confidence 000 00000001124589999999977544332222 2 2 489999999999999922 2 5777
Q ss_pred HHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCC
Q 006386 426 RLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSK 461 (647)
Q Consensus 426 rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~ 461 (647)
.|..... ..+..|+..+|..+.+-. +...+..|.
T Consensus 1113 ~l~~~~~-i~~~~L~eI~RQ~~~lr~-Av~~~~~g~ 1146 (1747)
T PRK13709 1113 LMQTRSA-ADVAIMKEIVRQTPELRE-AVYSLINRD 1146 (1747)
T ss_pred HHHHhCC-CCeEEeCeEEcCcHHHHH-HHHHHHccC
Confidence 7776432 236789999999984443 334556554
No 34
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.78 E-value=8e-18 Score=198.76 Aligned_cols=172 Identities=19% Similarity=0.214 Sum_probs=114.5
Q ss_pred CCCCHHHHHHHHHHHc-cCCeEEEEcCCCCchHHHHHHHHHHH---HH-CCCeEEEeccchHHHHHHHHHhcccCceEEE
Q 006386 195 SNLDHSQKDAISKALS-SKNVFMLHGPPGTGKTTTVVEIILQE---VK-RGSKILACAASNIAVDNIVERLVPHRVRLVR 269 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~-~~~~~lI~GpPGTGKT~ti~~~i~~l---~~-~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr 269 (647)
..||+.|++||..++. .+.+++|+|+|||||||++..++..+ .+ .+.+|+.+|||+.|+..|.+.
T Consensus 834 ~~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e~---------- 903 (1623)
T PRK14712 834 EKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSA---------- 903 (1623)
T ss_pred cccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHHHh----------
Confidence 4799999999999997 35799999999999999987665543 22 467899999999999999652
Q ss_pred eCCCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 006386 270 LGHPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKN 349 (647)
Q Consensus 270 ~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~ 349 (647)
|.++. ++...+..... ..
T Consensus 904 -Gi~A~--------TIasfL~~~~~----------------------------------------------------~~- 921 (1623)
T PRK14712 904 -GVDAQ--------TLASFLHDTQL----------------------------------------------------QQ- 921 (1623)
T ss_pred -CchHh--------hHHHHhccccc----------------------------------------------------hh-
Confidence 21111 11111100000 00
Q ss_pred CceeeeccccccccccCCCCCCEEEEecCCCcchHHH--HHHHH-h-cCeeeecCCCCCCCceeccHHHHhcCCCCCHHH
Q 006386 350 ADVVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIAC--WIALL-K-GSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFE 425 (647)
Q Consensus 350 ~~vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~--l~~l~-~-~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~ 425 (647)
..........+++||||||++..... ++-+. . +.++|||||++||||+-.+ +.|+
T Consensus 922 -----------~~~~~~~~~~~llIVDEASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~aG----------~~F~ 980 (1623)
T PRK14712 922 -----------RSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPG----------QPFR 980 (1623)
T ss_pred -----------hcccCCCCCCcEEEEEccccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCCCC----------HHHH
Confidence 00000112458999999997765443 22222 2 4899999999999999332 4788
Q ss_pred HHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCC
Q 006386 426 RLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSK 461 (647)
Q Consensus 426 rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~ 461 (647)
.++..... .+..|+..+|..+++...+. ...+|.
T Consensus 981 ~lq~~~~~-~ta~L~eI~RQ~~elr~AV~-~~~~g~ 1014 (1623)
T PRK14712 981 LQQTRSAA-DVVIMKEIVRQTPELREAVY-SLINRD 1014 (1623)
T ss_pred HHHHcCCC-CeEEeCeeecCCHHHHHHHH-HHHcCC
Confidence 87764322 26789999999988777664 444443
No 35
>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=99.73 E-value=6.7e-18 Score=168.01 Aligned_cols=49 Identities=20% Similarity=0.318 Sum_probs=38.7
Q ss_pred EEccCCCCCCccccEEEEEEeecCCCCccccC-CCCCceeeeecccccceEEE
Q 006386 562 EVSTVDGFQGREKEAIIISMVRSNSKKEVGFL-SDRRRMNVAVTRARRQCCLV 613 (647)
Q Consensus 562 ~v~Tvd~fQG~E~diVIis~vrs~~~~~~gfl-~d~rrlnVAlTRAk~~l~iv 613 (647)
.+.|++++||.|+|.|++....... .... .+++++|||+||||+.|+|+
T Consensus 184 ~~~T~~e~qG~tf~~V~l~~~~~~~---~~~~~~~~~~~~VALTR~~~~l~i~ 233 (234)
T PF01443_consen 184 RVFTVHESQGLTFDNVTLVLLSDTD---NELYSESRNHLYVALTRHTKSLVIL 233 (234)
T ss_pred ceechHHcceEEeCCEEEEECCCcc---cccccCCcccEEEEccccccEEEEE
Confidence 6999999999999999875543322 1223 36899999999999999986
No 36
>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=99.69 E-value=4.1e-16 Score=192.32 Aligned_cols=170 Identities=23% Similarity=0.255 Sum_probs=108.4
Q ss_pred CCCCHHHHHHHHHHHcc-CCeEEEEcCCCCchHHHHHHHHH---HHH-HCCCeEEEeccchHHHHHHHHHhcccCceEEE
Q 006386 195 SNLDHSQKDAISKALSS-KNVFMLHGPPGTGKTTTVVEIIL---QEV-KRGSKILACAASNIAVDNIVERLVPHRVRLVR 269 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~-~~~~lI~GpPGTGKT~ti~~~i~---~l~-~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr 269 (647)
..||+.|+.|+..++.+ +.+++|+|+|||||||++..++. .+. ..|.+|+.+|||+.|+.+|.+.
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~~~---------- 1087 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELKSA---------- 1087 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHhc----------
Confidence 57999999999998863 46899999999999999954433 323 3578999999999999999642
Q ss_pred eCCCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 006386 270 LGHPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKN 349 (647)
Q Consensus 270 ~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~ 349 (647)
|-.+. ++...+ .+
T Consensus 1088 -g~~a~--------Ti~s~l----------------------------------------------------------~~ 1100 (1960)
T TIGR02760 1088 -GVQAQ--------TLDSFL----------------------------------------------------------TD 1100 (1960)
T ss_pred -CCchH--------hHHHHh----------------------------------------------------------cC
Confidence 21111 111110 00
Q ss_pred CceeeeccccccccccCCCCCCEEEEecCCCcchHHHHHHHH----hcCeeeecCCCCCCCceeccHHHHhcCCCCCHHH
Q 006386 350 ADVVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIALL----KGSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFE 425 (647)
Q Consensus 350 ~~vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l~----~~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~ 425 (647)
.. ...........+++|||||+++........+. .+.++|||||++||+|+ +.+ ..|+
T Consensus 1101 ~~--------~~~~~~~~~~~~v~ivDEasMv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV---------~aG-~~f~ 1162 (1960)
T TIGR02760 1101 IS--------LYRNSGGDFRNTLFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSL---------AAG-KPFE 1162 (1960)
T ss_pred cc--------cccccCCCCcccEEEEEccccccHHHHHHHHHhccCCCCEEEEeCChhhcCCC---------CCC-cCHH
Confidence 00 00000001245899999999775554333221 34899999999999998 222 3455
Q ss_pred HHHHHcCCcccchhhHhhcCh--hHHHHhhHhhhcCCC
Q 006386 426 RLADLYGDEVTSMLTVQYRMH--EHIMNWSSKQLYNSK 461 (647)
Q Consensus 426 rl~~~~~~~~~~~L~~qyRm~--~~I~~~~s~~fY~~~ 461 (647)
-++.. +......|+..+|.. |.+-... ..+-+|.
T Consensus 1163 ~~~~~-~~~~~~~L~~I~RQ~~~~~l~~a~-~~~~~~~ 1198 (1960)
T TIGR02760 1163 LAITF-DIIDTAIMKEIVRQNNSAELKAAH-NSLDKRS 1198 (1960)
T ss_pred HHHhc-CCCCeEEeeeEecCCCCHHHHHHH-HHHhcCc
Confidence 55543 222367899999994 5554444 4444444
No 37
>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=99.67 E-value=1.6e-16 Score=165.31 Aligned_cols=64 Identities=28% Similarity=0.418 Sum_probs=56.3
Q ss_pred CCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC----CeEEEeccchHHHHHHHHHhccc
Q 006386 197 LDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG----SKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~----~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
||++|+++|.. ..+.++|.|+||||||+|+++++.+++..+ .+||++||||+|+.+|.+|+...
T Consensus 1 l~~eQ~~~i~~---~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~ 68 (315)
T PF00580_consen 1 LTDEQRRIIRS---TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIREL 68 (315)
T ss_dssp S-HHHHHHHHS----SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC---CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHh
Confidence 79999999997 368999999999999999999999998764 79999999999999999999763
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=99.60 E-value=1.1e-14 Score=153.25 Aligned_cols=166 Identities=22% Similarity=0.316 Sum_probs=108.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH--HHCCCeEEEeccchHHHHHHHHHhcccCceEEEeCCCCCCChhHHhhhHHHHHh
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQE--VKRGSKILACAASNIAVDNIVERLVPHRVRLVRLGHPARLLPQVLESALDAQVL 290 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l--~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~~~~~~~~~~~~~l~~~~~ 290 (647)
.+++|+|+||||||.++..++..+ ...+.++++++++..-.+.+.+.+.... .+......+..
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~-------~~~~~~~~~~~-------- 66 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKY-------NPKLKKSDFRK-------- 66 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhc-------ccchhhhhhhh--------
Confidence 478999999999999999999999 7788999999999999888888765431 00000000000
Q ss_pred cCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeeccccccccccCCCCC
Q 006386 291 RGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKNADVVLTTLTGAVSRKLDNTSF 370 (647)
Q Consensus 291 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~~~~l~~~~f 370 (647)
....+.... ........|
T Consensus 67 ----------------------------------------------------~~~~i~~~~----------~~~~~~~~~ 84 (352)
T PF09848_consen 67 ----------------------------------------------------PTSFINNYS----------ESDKEKNKY 84 (352)
T ss_pred ----------------------------------------------------hHHHHhhcc----------cccccCCcC
Confidence 000000000 111224589
Q ss_pred CEEEEecCCCcch----------HHHHHHHH-hcCeeeecCCCCCCCceeccHHHHhcCCCCCHHHHHHHHcCCcc-c-c
Q 006386 371 DLVIIDEAAQALE----------IACWIALL-KGSRCILAGDHLQLPPTVQSVEAEKKGLGRTLFERLADLYGDEV-T-S 437 (647)
Q Consensus 371 d~vIIDEAsq~~e----------~~~l~~l~-~~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf~rl~~~~~~~~-~-~ 437 (647)
|+||||||+.+.+ ...+.-+. .++.+|++-|+.| ++...+ -.+...++.+....+... . +
T Consensus 85 DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q---~i~~~e----~~~~~~l~~~~~~~~~~~~~~~ 157 (352)
T PF09848_consen 85 DVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQ---SIRPSE----IGTLENLEEIAENLGIEVRHFF 157 (352)
T ss_pred CEEEEehhHhhhhccccccccccHHHHHHHHhcCCEEEEEEcccc---Eeeccc----CCCHHHHHHHHHhcCCccccCc
Confidence 9999999998877 24444444 4467888889998 332211 012234666665554432 1 3
Q ss_pred hhhHhhcC--hhHHHHhhHhhhcCCCC
Q 006386 438 MLTVQYRM--HEHIMNWSSKQLYNSKI 462 (647)
Q Consensus 438 ~L~~qyRm--~~~I~~~~s~~fY~~~L 462 (647)
.|+.|||| .+++.+|...+++....
T Consensus 158 ~L~~q~R~~~~~~~~~wI~~ll~~~~~ 184 (352)
T PF09848_consen 158 ELKTQFRCHGSKEYIDWIDNLLDNKNI 184 (352)
T ss_pred CcCcceecCCCHHHHHHHHHHHhcccc
Confidence 89999999 99999999999987543
No 39
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=99.51 E-value=2e-14 Score=165.10 Aligned_cols=64 Identities=31% Similarity=0.361 Sum_probs=57.5
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHH
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVER 259 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~r 259 (647)
..++++|..++..++. ++..++.||||||||+++..++..+..-+..+++.++|-.|+-.+.+.
T Consensus 318 ~~~~~~q~~a~~vl~~-de~smlt~~~~~~~~~~~~~~~~l~~~~~~~~l~aa~tG~a~~~l~e~ 381 (696)
T COG0507 318 LRLSLEQKEALDVLVV-DEVSMLTGGPGTGKTTAIKAIARLIKEGDGDQLLAAPTGKAAKRLNES 381 (696)
T ss_pred CCcCcccHHHHHHHhc-CCeeEEeccCCcchHHHHHHHHHHHHhcCCcEEeechhhHHHHHHHHh
Confidence 5789999999999997 789999999999999999998888777777799999999999888775
No 40
>PF13245 AAA_19: Part of AAA domain
Probab=99.50 E-value=5.4e-14 Score=112.11 Aligned_cols=57 Identities=40% Similarity=0.694 Sum_probs=51.4
Q ss_pred HHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC----CCeEEEeccchHHHHHHHHHh
Q 006386 204 AISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR----GSKILACAASNIAVDNIVERL 260 (647)
Q Consensus 204 Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~----~~~ILv~a~tn~Avd~l~~rl 260 (647)
||..++..+++++|+||||||||+|++.++..++.. +++||+++|||.|+++|.+|+
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 666566546788899999999999999999999976 899999999999999999998
No 41
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.48 E-value=9e-13 Score=135.11 Aligned_cols=373 Identities=16% Similarity=0.097 Sum_probs=195.9
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHH--CCCeEEEeccchHHHHHHHHHhccc---------
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVK--RGSKILACAASNIAVDNIVERLVPH--------- 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~--~~~~ILv~a~tn~Avd~l~~rl~~~--------- 263 (647)
.+++..|.+|+-... .+.-.|.|-+|||||.+++..++.|.. +..+|+++.+|......+..++.+.
T Consensus 161 anfD~~Q~kaa~~~~--~G~qrIrGLAGSGKT~~La~Kaa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~f~~~e~~p 238 (660)
T COG3972 161 ANFDTDQTKAAFQSG--FGKQRIRGLAGSGKTELLAHKAAELHSKNPDSRIAFTFFTKILASTMRTLVPEFFFMRVEKQP 238 (660)
T ss_pred hcccchhheeeeecC--CchhhhhcccCCCchhHHHHHHHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHHHHHhhcCC
Confidence 468889998876543 356699999999999999999999865 4589999999999998888877553
Q ss_pred --CceEEEeCCCCCCChhHHh-hhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHH
Q 006386 264 --RVRLVRLGHPARLLPQVLE-SALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQ 340 (647)
Q Consensus 264 --~~~~vr~g~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~ 340 (647)
+-..++.+......+.... ++..........+.. . .. +..+
T Consensus 239 dW~~~l~~h~wgG~t~~g~y~~~~~~~~~~~~~fsg~-------------------g----~~----F~~a--------- 282 (660)
T COG3972 239 DWGTKLFCHNWGGLTKEGFYGMYRYICHYYEIPFSGF-------------------G----NG----FDAA--------- 282 (660)
T ss_pred CccceEEEeccCCCCCCcchHHHHHHhcccccccCCC-------------------C----cc----hHHH---------
Confidence 2233444332222222111 111000000000000 0 00 0000
Q ss_pred HHHHHHhhcCceeeeccccccccccCCCCCCEEEEecCCCcchHH--HHHHHHh-cCeeeecCCCCCCCceeccHHH-Hh
Q 006386 341 LAVTDVIKNADVVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIA--CWIALLK-GSRCILAGDHLQLPPTVQSVEA-EK 416 (647)
Q Consensus 341 ~~~~~~l~~~~vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~--~l~~l~~-~~~~vlvGD~~QL~p~v~s~~~-~~ 416 (647)
.++++..++ ...-+|+|+|||+|+....- +..-+.+ .+++|.++|.-|--.-+.-..+ .-
T Consensus 283 --C~eli~~~~--------------~~~~yD~ilIDE~QDFP~~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~ppe~i 346 (660)
T COG3972 283 --CKELIADIN--------------NKKAYDYILIDESQDFPQSFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRPPEEI 346 (660)
T ss_pred --HHHHHHhhh--------------ccccccEEEecccccCCHHHHHHHHHHhcCcceEEEehHhhhcccccCCCCHHHh
Confidence 111111110 13368999999999875442 2222222 4899999999993111111101 00
Q ss_pred cCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhh---cCCCCC--CChhh--------hhcccccccCCcCCC
Q 006386 417 KGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQL---YNSKIK--AHPSV--------AAHMLFDLEGVKRTS 483 (647)
Q Consensus 417 ~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~f---Y~~~L~--~~~~~--------~~~~~~~~~~~~~~~ 483 (647)
.|-...---+..-...+..-+.|...||..|...-++-.+- |.|-.+ ..+.. ....+..-..+.-..
T Consensus 347 Fg~d~dg~P~V~l~radr~DiVL~kCYRnsp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~R 426 (660)
T COG3972 347 FGPDSDGEPRVNLARADRNDIVLKKCYRNSPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSR 426 (660)
T ss_pred cCcCCCCCcccccccCccccchHHHHhcCCchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeecc
Confidence 11000000000000001123689999999888776664432 322111 11100 000000000000000
Q ss_pred CCCCcEEEEEecCCCccccccCCCCccCHHHHHHHHHHHHHHHHcCCCCCeEEEEcccHH----HH-HHHHHHHhc----
Q 006386 484 STEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEVAMAHAKRLIQSGVHASDIGIITPYAA----QV-VLLKILRSK---- 554 (647)
Q Consensus 484 ~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g~~~~~I~IItpy~~----Q~-~~l~~l~~~---- 554 (647)
.+.....|++..+....-. .--.+..-+.|+..++..+..+.+.++.++||.||.+-.. -. .+++.+...
T Consensus 427 dpessp~fl~e~~~p~~i~-~fi~fd~~~deivwi~~qI~~~~edeLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~ 505 (660)
T COG3972 427 DPESSPEFLPENHKPTAIH-LFIGFDNGPDEIVWIIIQIKEFREDELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQ 505 (660)
T ss_pred CcccCcccccccCChhhhh-eeeccCCcchhhHHHHHHHHHhcccccccCCEEEEecCCccccchHHHHHHHHHHhhhhh
Confidence 1111222333322110000 0001222457888888888887788899999999986433 11 223333221
Q ss_pred ------------CCCCCCeEEccCCCCCCccccEEEEEEeecCCCCccccCCCCCceeeeecccccceEEEecCCccccc
Q 006386 555 ------------DDKLKNMEVSTVDGFQGREKEAIIISMVRSNSKKEVGFLSDRRRMNVAVTRARRQCCLVCDTETVSSD 622 (647)
Q Consensus 555 ------------~~~~~~i~v~Tvd~fQG~E~diVIis~vrs~~~~~~gfl~d~rrlnVAlTRAk~~l~ivG~~~~l~~~ 622 (647)
......|.+.+|.+.+|.|+.+|+...+..-. .|....++-+++||||.|.-+-|+|- .
T Consensus 506 hl~gvd~s~e~~f~~dgkvtis~IyrAKGnEapfV~aL~a~~ls---~~la~~RN~LfTamTRSkawvrv~gl------g 576 (660)
T COG3972 506 HLWGVDISHETKFKQDGKVTISRIYRAKGNEAPFVYALGAAYLS---TGLADWRNILFTAMTRSKAWVRVVGL------G 576 (660)
T ss_pred hccccCcccccccccCceEEeeeehhccCCCCcEEEEehhhhhC---ccchhHHhHHHHHHhhhhhhhhhhcc------C
Confidence 01114789999999999999999987654432 45455566899999999999999983 3
Q ss_pred hHHHHHHHH
Q 006386 623 GFLKRLIEY 631 (647)
Q Consensus 623 ~~~~~l~~~ 631 (647)
|...+++..
T Consensus 577 pqmqrLi~e 585 (660)
T COG3972 577 PQMQRLITE 585 (660)
T ss_pred hHHHHHHHH
Confidence 444555443
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=99.40 E-value=4.1e-13 Score=141.71 Aligned_cols=61 Identities=33% Similarity=0.480 Sum_probs=54.2
Q ss_pred CCCHHHHHHHHHHHc-----cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHH
Q 006386 196 NLDHSQKDAISKALS-----SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNI 256 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~-----~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l 256 (647)
+||++|++++..++. ......|.||+|||||+++-+++..+-..++.+++||||..|+.++
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhc
Confidence 599999999888743 3567789999999999999999998888889999999999999887
No 43
>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=99.39 E-value=1.3e-12 Score=161.60 Aligned_cols=65 Identities=25% Similarity=0.384 Sum_probs=59.9
Q ss_pred CCCCHHHHHHHHHHHcc-CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHH
Q 006386 195 SNLDHSQKDAISKALSS-KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVER 259 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~-~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~r 259 (647)
..||+.|++||..++.+ +.+.+|+|+||||||+++..++..+-..|.+|.++|||+.|+..|.+.
T Consensus 428 ~~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~~~~~~~G~~V~~lAPTgrAA~~L~e~ 493 (1960)
T TIGR02760 428 FALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLSAQELRQK 493 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHHHHH
Confidence 47999999999999874 579999999999999999999988888899999999999999999886
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=99.38 E-value=4.2e-12 Score=120.74 Aligned_cols=150 Identities=27% Similarity=0.383 Sum_probs=77.6
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC--CeEEEeccchHHHHHHHHHhcccCceEEEeCC
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG--SKILACAASNIAVDNIVERLVPHRVRLVRLGH 272 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~ 272 (647)
..+|..|..++...+. .+++++.||+|||||.++++...+++..| .+|+++-|+-.+-+. +|.
T Consensus 3 ~p~~~~Q~~~~~al~~-~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~--------------lGf 67 (205)
T PF02562_consen 3 KPKNEEQKFALDALLN-NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGED--------------LGF 67 (205)
T ss_dssp ---SHHHHHHHHHHHH--SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT------------------S
T ss_pred cCCCHHHHHHHHHHHh-CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccc--------------ccc
Confidence 3579999999999985 88999999999999999999999988876 478777665433111 111
Q ss_pred C-CCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCc
Q 006386 273 P-ARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKNAD 351 (647)
Q Consensus 273 ~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~ 351 (647)
- .........+ +.. +++.+..+. .......++.+..
T Consensus 68 lpG~~~eK~~p~-~~p------------------------------------~~d~l~~~~------~~~~~~~~~~~~~ 104 (205)
T PF02562_consen 68 LPGDLEEKMEPY-LRP------------------------------------IYDALEELF------GKEKLEELIQNGK 104 (205)
T ss_dssp S---------TT-THH------------------------------------HHHHHTTTS-------TTCHHHHHHTTS
T ss_pred CCCCHHHHHHHH-HHH------------------------------------HHHHHHHHh------ChHhHHHHhhcCe
Confidence 0 0000111100 000 000000000 0012234455666
Q ss_pred eeeeccccccccccCCCCCCEEEEecCCCcchHHHHHHHHh---cCeeeecCCCCCC
Q 006386 352 VVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIALLK---GSRCILAGDHLQL 405 (647)
Q Consensus 352 vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l~~---~~~~vlvGD~~QL 405 (647)
|-+..........+. -.+|||||||.++..+....|.+ ++++|+.||+.|.
T Consensus 105 Ie~~~~~~iRGrt~~---~~~iIvDEaQN~t~~~~k~ilTR~g~~skii~~GD~~Q~ 158 (205)
T PF02562_consen 105 IEIEPLAFIRGRTFD---NAFIIVDEAQNLTPEELKMILTRIGEGSKIIITGDPSQI 158 (205)
T ss_dssp EEEEEGGGGTT--B----SEEEEE-SGGG--HHHHHHHHTTB-TT-EEEEEE-----
T ss_pred EEEEehhhhcCcccc---ceEEEEecccCCCHHHHHHHHcccCCCcEEEEecCceee
Confidence 666665544433332 27999999998888877666654 4899999999994
No 45
>PRK10536 hypothetical protein; Provisional
Probab=99.21 E-value=2.7e-10 Score=111.23 Aligned_cols=57 Identities=16% Similarity=0.135 Sum_probs=44.1
Q ss_pred CCCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC--CeEEEeccch
Q 006386 193 FNSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG--SKILACAASN 250 (647)
Q Consensus 193 ~~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~~ILv~a~tn 250 (647)
.....|..|..++..... .+++++.||+|||||+++.+.....+..+ .+|+++-|+=
T Consensus 56 ~i~p~n~~Q~~~l~al~~-~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v 114 (262)
T PRK10536 56 PILARNEAQAHYLKAIES-KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVL 114 (262)
T ss_pred cccCCCHHHHHHHHHHhc-CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCC
Confidence 346789999999987765 78999999999999999999998766333 3555554443
No 46
>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=99.10 E-value=6.5e-11 Score=124.93 Aligned_cols=58 Identities=19% Similarity=0.312 Sum_probs=43.4
Q ss_pred CCeEEccCCCCCCccccEEEEEEeecCCCCc---c----ccCCCCCceeeeecccccceEEEecC
Q 006386 559 KNMEVSTVDGFQGREKEAIIISMVRSNSKKE---V----GFLSDRRRMNVAVTRARRQCCLVCDT 616 (647)
Q Consensus 559 ~~i~v~Tvd~fQG~E~diVIis~vrs~~~~~---~----gfl~d~rrlnVAlTRAk~~l~ivG~~ 616 (647)
++|.|+|+|++||.|+|+|++..+..+.... + .+..++|.+|||+||||+.|+|++..
T Consensus 286 ~~V~i~TiH~sKGLEf~~V~v~~~~~~~~p~~~~~~~~~~~~Ee~rl~YVA~TRAk~~L~l~~~~ 350 (351)
T PF13361_consen 286 DGVQIMTIHKSKGLEFDIVFVPGLNEGTFPSYRSIEDRQELEEERRLFYVAMTRAKERLYLSYPK 350 (351)
T ss_dssp GSEEEEECGGGTT--EEEEEEETTBTBTTTCHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEEC
T ss_pred cCcEEeeheeccccCCCeEEEecccCCcChHHHHHhhHhhhHHHHhHheEecchhhceEEEEEec
Confidence 5789999999999999999998765543111 1 23345678999999999999999864
No 47
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=98.96 E-value=3.3e-08 Score=119.76 Aligned_cols=150 Identities=13% Similarity=0.038 Sum_probs=83.4
Q ss_pred CCCEEEEecCCCcchHH--HHHHHHh-cCeeeecCCCCCCCceeccHHHH-hcCCCCCHHHHHHHH---c--CCcccchh
Q 006386 369 SFDLVIIDEAAQALEIA--CWIALLK-GSRCILAGDHLQLPPTVQSVEAE-KKGLGRTLFERLADL---Y--GDEVTSML 439 (647)
Q Consensus 369 ~fd~vIIDEAsq~~e~~--~l~~l~~-~~~~vlvGD~~QL~p~v~s~~~~-~~g~~~Slf~rl~~~---~--~~~~~~~L 439 (647)
.+.+|+|||+++++..+ ++-.|.. +..++++||..|.. ...... -..+....+.++... . +....+.+
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 45799999999998774 4555554 57899999999951 100000 000111122222211 1 11112223
Q ss_pred hHhhcC--hhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHHH
Q 006386 440 TVQYRM--HEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEV 517 (647)
Q Consensus 440 ~~qyRm--~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~ 517 (647)
..+++. ++.+..+...++-... . .......++.++...+ -..|++.
T Consensus 273 ~~~~~~~~~~~l~~Lek~l~~~~~-~-----------------~~~~~~~~I~i~~~~~--------------~~~Eae~ 320 (1158)
T TIGR02773 273 NEYRPNKKNKELAHLEKQFDARPF-N-----------------AYIEEDGSISIFEANN--------------RRAEVEG 320 (1158)
T ss_pred ccccCCCCCHHHHHHHHHHhhCCC-C-----------------CCCCCCCCeEEEEcCC--------------HHHHHHH
Confidence 334442 5555555443332110 0 0001122343433222 2379999
Q ss_pred HHHHHHHHHHc-CCCCCeEEEEccc-HHHHHHHHHHHh
Q 006386 518 AMAHAKRLIQS-GVHASDIGIITPY-AAQVVLLKILRS 553 (647)
Q Consensus 518 v~~~v~~l~~~-g~~~~~I~IItpy-~~Q~~~l~~l~~ 553 (647)
|+..|..++.. |+.++||+|+++- +.+...|...+.
T Consensus 321 va~~I~~l~~~~g~~~~DIAVL~R~~~~y~~~i~~~f~ 358 (1158)
T TIGR02773 321 VARQILRLTRDKQYRYQDIAILTRDLEDYAKLVEAVFS 358 (1158)
T ss_pred HHHHHHHHHHcCCCChhheEEEeCCHHHHHHHHHHHHH
Confidence 99999999886 8999999999999 888888886553
No 48
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.95 E-value=1.1e-08 Score=98.10 Aligned_cols=70 Identities=29% Similarity=0.364 Sum_probs=60.7
Q ss_pred CCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC--CeEEEeccchHHHHHHHHHhccc
Q 006386 194 NSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG--SKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
...+++.|.+++..++......+|.||+|||||+++...+...+..+ .++|+++||+.++.++..++...
T Consensus 6 ~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 6 FEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred CCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHH
Confidence 35689999999999887327899999999999999999888887765 89999999999999998887654
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=98.79 E-value=3.8e-08 Score=88.62 Aligned_cols=50 Identities=28% Similarity=0.459 Sum_probs=44.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHH--CCCeEEEeccchHHHHHHHHHhccc
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVK--RGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~--~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+|.||||||||+++...+..+.. .+.++++++|++..+++..+++...
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHH
Confidence 4789999999999999999999876 5689999999999999998887654
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=98.74 E-value=1.5e-07 Score=88.17 Aligned_cols=65 Identities=23% Similarity=0.389 Sum_probs=55.5
Q ss_pred CHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCC--eEEEeccchHHHHHHHHHhccc
Q 006386 198 DHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGS--KILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~--~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
++.|.+++..+.. ...++|.||+|+|||++..-.+...+..++ ++++++|+...++.+.+++...
T Consensus 1 t~~Q~~~~~~i~~-~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~ 67 (169)
T PF00270_consen 1 TPLQQEAIEAIIS-GKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKF 67 (169)
T ss_dssp -HHHHHHHHHHHT-TSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHc-CCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeeccccccccccccccc
Confidence 5789999999995 677999999999999998877777666544 9999999999999999888664
No 51
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=98.71 E-value=1.3e-07 Score=94.83 Aligned_cols=58 Identities=26% Similarity=0.227 Sum_probs=42.0
Q ss_pred CCCCCCCHHHHHHHHHHHc-cCCeEEEEcCCCCchHHHHHHHHH-HHHHC--CCeEEEeccc
Q 006386 192 PFNSNLDHSQKDAISKALS-SKNVFMLHGPPGTGKTTTVVEIIL-QEVKR--GSKILACAAS 249 (647)
Q Consensus 192 ~~~~~Ln~~Q~~Av~~~l~-~~~~~lI~GpPGTGKT~ti~~~i~-~l~~~--~~~ILv~a~t 249 (647)
|-....|-+|+-|+...+. .-+++-+.|.+|||||-.+.+... +-+.+ -.+|+|+-|+
T Consensus 224 wGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~ 285 (436)
T COG1875 224 WGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPT 285 (436)
T ss_pred hccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCC
Confidence 4446789999999998887 336788999999999986544433 33333 3678887764
No 52
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=98.67 E-value=1.4e-07 Score=83.42 Aligned_cols=53 Identities=26% Similarity=0.422 Sum_probs=44.9
Q ss_pred CCeEEEEcCCCCchHH-HHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccC
Q 006386 212 KNVFMLHGPPGTGKTT-TVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHR 264 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~-ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~ 264 (647)
..+++|.=.||+|||+ ++.+++.+.++++.++||++||...++++.+-|....
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~~~~ 57 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALKGLP 57 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTTSS
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHhcCC
Confidence 4578999999999999 7999999999999999999999999999999997654
No 53
>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=98.63 E-value=6.4e-08 Score=91.95 Aligned_cols=63 Identities=24% Similarity=0.440 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHHHc------cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhc
Q 006386 196 NLDHSQKDAISKALS------SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~------~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
+|.+.|.+|+..+.. ..+..+|.+|+|||||.++..++..+.. ++++++|+...++...+.+.
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~---~~l~~~p~~~l~~Q~~~~~~ 71 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR---KVLIVAPNISLLEQWYDEFD 71 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC---EEEEEESSHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc---ceeEecCHHHHHHHHHHHHH
Confidence 578999999999985 1578999999999999999999999887 99999999999999988883
No 54
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.60 E-value=5.5e-09 Score=116.14 Aligned_cols=379 Identities=25% Similarity=0.301 Sum_probs=224.6
Q ss_pred CCCCHHHHHHHHHHHc----cCCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEeccchHHHHHHHHHhccc----Cc
Q 006386 195 SNLDHSQKDAISKALS----SKNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACAASNIAVDNIVERLVPH----RV 265 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~----~~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a~tn~Avd~l~~rl~~~----~~ 265 (647)
..++..|..++..... .....++.|+ |+|+|.++..-+...... -.+++++.+++.+++......... +.
T Consensus 119 ~~~~~~~~~~l~~~~~~~l~e~~P~L~~G~-~~~~~~~~~~~~~~~~~~~~~k~~~~l~~~~~~~~~ir~y~~~~v~~~~ 197 (775)
T KOG1804|consen 119 PRLNALQKGALLAITVPLLRELPPSLLIGP-GTGETLELAQAVKSLLQQEEAKILILLHSESAADIYIREYLHPYVEEGL 197 (775)
T ss_pred hhhhhhhcccccceeccccccCCcccccCC-ccccceeecchhhcccccccccceEeechhHHHHHHHHHhhcccccccc
Confidence 4566666665554322 3456888898 999999888877766433 578999999999966655544321 11
Q ss_pred eE---EEeCCCCCCC----hhHHhhh--HHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHH
Q 006386 266 RL---VRLGHPARLL----PQVLESA--LDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEER 336 (647)
Q Consensus 266 ~~---vr~g~~~~~~----~~~~~~~--l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~ 336 (647)
+. .|+....+.. +.+..++ ++..+.
T Consensus 198 ~~~~~~r~~~~~r~l~~~~pvv~~~~~if~~~~~---------------------------------------------- 231 (775)
T KOG1804|consen 198 PEATPLRVYSRKRPLAQVNPVVLQYCFIFDSHIT---------------------------------------------- 231 (775)
T ss_pred cccccccceeecccccccCCceeeeeeeccchhh----------------------------------------------
Confidence 10 1222211111 1111110 010000
Q ss_pred HHHHHHHHHHhhcCceeeeccccccc---cccCCCCCCEEEEecCCCcchHHHHHHHH---hcCeeeecCCCCCCCceec
Q 006386 337 KRQQLAVTDVIKNADVVLTTLTGAVS---RKLDNTSFDLVIIDEAAQALEIACWIALL---KGSRCILAGDHLQLPPTVQ 410 (647)
Q Consensus 337 ~~~~~~~~~~l~~~~vi~~T~~~~~~---~~l~~~~fd~vIIDEAsq~~e~~~l~~l~---~~~~~vlvGD~~QL~p~v~ 410 (647)
........+++ .+|++.|...... .......|.+++.|||.++++...+.||. .+.+++|+||+.|+-|.+.
T Consensus 232 -~~~pq~~~~~~-Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~ 309 (775)
T KOG1804|consen 232 -FRRPQVEDLFK-HRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLN 309 (775)
T ss_pred -hccchhhhhcc-cceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchh
Confidence 00011223344 7788887776652 23445578999999999999999999975 3489999999999999987
Q ss_pred cHHHHhcCCCCCHHHHHHHHcC--CcccchhhHhhcChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCc
Q 006386 411 SVEAEKKGLGRTLFERLADLYG--DEVTSMLTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPT 488 (647)
Q Consensus 411 s~~~~~~g~~~Slf~rl~~~~~--~~~~~~L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~ 488 (647)
+.......+. .+..++...|. ..+.+-.+.|||++-.|..|.+..+|.... .++.+...... .....+
T Consensus 310 s~~~~~~~~~-~~~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~--~p~~a~~k~~~-------~rl~~p 379 (775)
T KOG1804|consen 310 SVAREEQALH-LLLCRLPEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVC--APSNASGKQPA-------HRLHYP 379 (775)
T ss_pred hhhhhhhhhh-hcccccccccccccCCCcCCccchHHHHHHHHhcchHHHhhcc--ccccccccccc-------cccccc
Confidence 7654433332 22223222221 112467899999999999999999997533 22222211100 001345
Q ss_pred EEEEEecCCCccccccCCCCccCHHHHHHHHHHHHHHHHcC------CCCCeEEEEcccHHHHHHHHHHHhcCCCCCCeE
Q 006386 489 LLLIDIAGCDMEEKKDEEDSTMNEGEAEVAMAHAKRLIQSG------VHASDIGIITPYAAQVVLLKILRSKDDKLKNME 562 (647)
Q Consensus 489 ~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g------~~~~~I~IItpy~~Q~~~l~~l~~~~~~~~~i~ 562 (647)
..|....+.+..... ...++|..|+..++.-+..+.+.. .....+|++++|..|+..++..+-+. .++.
T Consensus 380 ~~~~~~~~~~~~~~~--~~~~~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~De---Ag~s 454 (775)
T KOG1804|consen 380 LTFSTARGEDVRAKS--STAWYNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDE---AGVS 454 (775)
T ss_pred ccccccccccccccc--hhHHhhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecc---cccc
Confidence 566655554332221 245677788888887777777532 23457899999999998888543211 2222
Q ss_pred EccCCCCCCcccc---EEEEEEeec--------CCCCccccCCCCCceeeeecccccceEEEecCCcccc----chHHHH
Q 006386 563 VSTVDGFQGREKE---AIIISMVRS--------NSKKEVGFLSDRRRMNVAVTRARRQCCLVCDTETVSS----DGFLKR 627 (647)
Q Consensus 563 v~Tvd~fQG~E~d---iVIis~vrs--------~~~~~~gfl~d~rrlnVAlTRAk~~l~ivG~~~~l~~----~~~~~~ 627 (647)
+.-.---+|...- .|++++... ..... +-.++..+|-|+|||-...-.+|+.+.+.. ..+|..
T Consensus 455 tEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~--~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrsh 532 (775)
T KOG1804|consen 455 TEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEE--LGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSH 532 (775)
T ss_pred cCcccccccccccceeEEEEccCcccccccccchhhhh--hcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhh
Confidence 2222222333222 555554321 11122 233467899999999999999999998874 346777
Q ss_pred HHHHHHHcCccc
Q 006386 628 LIEYFEEHAEYL 639 (647)
Q Consensus 628 l~~~~~~~~~~~ 639 (647)
..-.+-.+..|.
T Consensus 533 p~il~l~~~l~y 544 (775)
T KOG1804|consen 533 PIILCLENRLYY 544 (775)
T ss_pred hHhhhccccccc
Confidence 766666666543
No 55
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.60 E-value=5.4e-07 Score=102.69 Aligned_cols=70 Identities=20% Similarity=0.334 Sum_probs=62.4
Q ss_pred CCCCCHHHHHHHHHHHcc--CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 194 NSNLDHSQKDAISKALSS--KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l~~--~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
...|++.|++|+..+... ....+++||+|||||.+....+...+..|.++|+++||..-+..+.+++.+.
T Consensus 142 ~~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~ 213 (679)
T PRK05580 142 PPTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRAR 213 (679)
T ss_pred CCCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 457999999999998862 4579999999999999999988888888999999999999999999998763
No 56
>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=98.51 E-value=1.8e-08 Score=86.33 Aligned_cols=51 Identities=27% Similarity=0.268 Sum_probs=39.3
Q ss_pred CCeEEccCCCCCCccccEEEEEEeecCCCCccccCCCCCceeeeecccccceEEE
Q 006386 559 KNMEVSTVDGFQGREKEAIIISMVRSNSKKEVGFLSDRRRMNVAVTRARRQCCLV 613 (647)
Q Consensus 559 ~~i~v~Tvd~fQG~E~diVIis~vrs~~~~~~gfl~d~rrlnVAlTRAk~~l~iv 613 (647)
..+.+.|+|++||+|+|.||+....... .-....|++|||+||||+.|+||
T Consensus 54 ~~~~~~Tih~akGle~d~V~v~~~~~~~----~~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 54 SHAYAMTIHKAKGLEFDAVIVVDPDSSN----FDELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCCSEEETGGCTT--EEEEEEEEGGGGS----GCGCHHHHHHHHHTTEEEEEEEE
T ss_pred CcEEEEEhHHhcCccccEEEEEcCCccc----CCchhhccEEeeHhHhhhhhCCC
Confidence 3788999999999999999998765441 11334577999999999999987
No 57
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.50 E-value=8.7e-07 Score=97.94 Aligned_cols=68 Identities=19% Similarity=0.204 Sum_probs=58.9
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCC-eEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGS-KILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~-~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..|.+.|.+||..++. .+-.++++|.|+|||.++..++..++..++ ++|+++||...+++..+++.+.
T Consensus 113 ~~~r~~Q~~av~~~l~-~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 113 IEPHWYQYDAVYEGLK-NNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred CCCCHHHHHHHHHHHh-cCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHh
Confidence 4689999999999997 556799999999999998887777666665 9999999999999999998764
No 58
>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=98.49 E-value=1.5e-06 Score=84.23 Aligned_cols=68 Identities=22% Similarity=0.183 Sum_probs=54.2
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHH-HHHHHHHHHHC----CCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTT-VVEIILQEVKR----GSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t-i~~~i~~l~~~----~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+++-|++|+...+. ...++|.+|+|+|||.+ +..++..+... +.++++++||...+..+...+...
T Consensus 20 ~~~~~~Q~~~~~~~~~-~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~ 92 (203)
T cd00268 20 EKPTPIQARAIPPLLS-GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKL 92 (203)
T ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 3589999999999987 66799999999999987 44455555443 568999999999999887776543
No 59
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.45 E-value=2.1e-06 Score=98.28 Aligned_cols=71 Identities=23% Similarity=0.285 Sum_probs=61.4
Q ss_pred CCCCCCHHHHHHHHHHHcc-----CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 193 FNSNLDHSQKDAISKALSS-----KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 193 ~~~~Ln~~Q~~Av~~~l~~-----~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
+...|++.|++|+..+... ....|++||.|||||.+....+...+..|.++++++||...+....+.+.+.
T Consensus 258 l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l 333 (681)
T PRK10917 258 LPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKL 333 (681)
T ss_pred CCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHH
Confidence 5568999999999988862 1257999999999999998888888889999999999999999998887654
No 60
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.44 E-value=2e-06 Score=97.63 Aligned_cols=72 Identities=21% Similarity=0.296 Sum_probs=60.5
Q ss_pred CCCCCCCHHHHHHHHHHHcc--C---CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 192 PFNSNLDHSQKDAISKALSS--K---NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 192 ~~~~~Ln~~Q~~Av~~~l~~--~---~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
.++..|++.|++|+..++.. . -..+|+||.|||||.+....+...+..|.++++++||...+..+.+.+.+.
T Consensus 231 ~lpf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 231 SLPFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred hCCCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHH
Confidence 34568999999999988862 1 147999999999999988777788888999999999999999988877653
No 61
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.41 E-value=1.9e-06 Score=93.86 Aligned_cols=67 Identities=22% Similarity=0.260 Sum_probs=52.1
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHH-H------CCCeEEEeccchHHHHHHHHHhcc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEV-K------RGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~-~------~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..+++-|.+|+..++. ..-+++++|+|||||.+..-.+.+.+ . .+.++|+++||...+..+.+.+..
T Consensus 22 ~~p~~iQ~~ai~~~~~-g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~ 95 (434)
T PRK11192 22 TRPTAIQAEAIPPALD-GRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARE 95 (434)
T ss_pred CCCCHHHHHHHHHHhC-CCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHH
Confidence 3578999999999997 45699999999999987554443333 2 135899999999999888776654
No 62
>PTZ00424 helicase 45; Provisional
Probab=98.39 E-value=2.8e-06 Score=91.67 Aligned_cols=68 Identities=22% Similarity=0.203 Sum_probs=54.6
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHH---CCCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVK---RGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~---~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+++.|.+|+..++. ..-.++++|+|||||.+..-.+...+. .+.++|+++||...+..+.+.+...
T Consensus 49 ~~~~~~Q~~ai~~i~~-~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 49 EKPSAIQQRGIKPILD-GYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred CCCCHHHHHHHHHHhC-CCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHH
Confidence 4689999999999997 455789999999999987666655554 3568999999999988887765443
No 63
>PRK02362 ski2-like helicase; Provisional
Probab=98.38 E-value=1.5e-06 Score=100.85 Aligned_cols=69 Identities=20% Similarity=0.243 Sum_probs=59.0
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..|++.|.+|+...+.....++|.+|.|||||.+..-.+...+.++.++++++|+.+-+.+..+++.+.
T Consensus 22 ~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 22 EELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred CcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHHHHh
Confidence 468999999998855557789999999999999987666666667889999999999999999887654
No 64
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.34 E-value=2.8e-06 Score=93.30 Aligned_cols=67 Identities=15% Similarity=0.228 Sum_probs=53.1
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC---CCeEEEeccchHHHHHHHHHhcc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR---GSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~---~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..+++-|.+|+..++. ..-.+++||.|||||.+..-.+.+.+.. +.++|+++||...++.+.+.+..
T Consensus 25 ~~~t~iQ~~ai~~~l~-g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~ 94 (460)
T PRK11776 25 TEMTPIQAQSLPAILA-GKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRR 94 (460)
T ss_pred CCCCHHHHHHHHHHhc-CCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHH
Confidence 4589999999999997 5679999999999998755444444433 34799999999999998876654
No 65
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=98.33 E-value=2.3e-06 Score=86.06 Aligned_cols=53 Identities=21% Similarity=0.238 Sum_probs=47.5
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC--CeEEEecc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG--SKILACAA 248 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~~ILv~a~ 248 (647)
...++.|...+.++.. ..+.+=.||.|||||...+.....++..+ ++|+++=|
T Consensus 127 ~~kt~~Q~~y~eai~~-~di~fGiGpAGTGKTyLava~av~al~~~~v~rIiLtRP 181 (348)
T COG1702 127 IPKTPGQNMYPEAIEE-HDIVFGIGPAGTGKTYLAVAKAVDALGAGQVRRIILTRP 181 (348)
T ss_pred EecChhHHHHHHHHHh-cCeeeeecccccCChhhhHHhHhhhhhhcccceeeecCc
Confidence 3579999999998886 88999999999999999999999988877 69999888
No 66
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=98.32 E-value=3.2e-06 Score=91.69 Aligned_cols=69 Identities=22% Similarity=0.274 Sum_probs=58.9
Q ss_pred CCCCCCCHHHHHHHHHHHcc---CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 192 PFNSNLDHSQKDAISKALSS---KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 192 ~~~~~Ln~~Q~~Av~~~l~~---~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
.....|.+-|++|+...... ..-.+|.-|+|+|||.+.++++..+..+ +||++||...++...+++...
T Consensus 32 ~~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~~~---~Lvlv~~~~L~~Qw~~~~~~~ 103 (442)
T COG1061 32 AFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELKRS---TLVLVPTKELLDQWAEALKKF 103 (442)
T ss_pred ccCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhcCC---EEEEECcHHHHHHHHHHHHHh
Confidence 34567999999999998874 6788999999999999999999887443 999999999999998776554
No 67
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.32 E-value=4.2e-06 Score=91.61 Aligned_cols=68 Identities=22% Similarity=0.197 Sum_probs=53.0
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC---------CCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR---------GSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~---------~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+++-|.+|+..++. ..-+++++|.|||||.+..--+.+.+.. +.++|+++||...+..+.+.+...
T Consensus 22 ~~pt~iQ~~ai~~il~-g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~ 98 (456)
T PRK10590 22 REPTPIQQQAIPAVLE-GRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDY 98 (456)
T ss_pred CCCCHHHHHHHHHHhC-CCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 4689999999999997 4568999999999998755444443321 237999999999999888877543
No 68
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=98.32 E-value=5.6e-06 Score=96.60 Aligned_cols=70 Identities=17% Similarity=0.211 Sum_probs=59.3
Q ss_pred CCCCCCHHHHHHHHHHHcc-----CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 193 FNSNLDHSQKDAISKALSS-----KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 193 ~~~~Ln~~Q~~Av~~~l~~-----~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
+...+++.|.+|+..++.. ..-.+|+||.|||||.++...+...+..|.++++++||...+....+.+.+
T Consensus 448 ~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~ 522 (926)
T TIGR00580 448 FPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKE 522 (926)
T ss_pred CCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHH
Confidence 4556899999999998862 124799999999999998888777778899999999999999998877654
No 69
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.31 E-value=4.1e-06 Score=94.50 Aligned_cols=67 Identities=18% Similarity=0.247 Sum_probs=52.7
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHH---CCCeEEEeccchHHHHHHHHHhcc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVK---RGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~---~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..+++-|.+++..++. ..-+++++|.|||||.+..--+...+. .+.++||++||...+..+.+.+..
T Consensus 27 ~~ptpiQ~~ai~~ll~-g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~ 96 (629)
T PRK11634 27 EKPSPIQAECIPHLLN-GRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTD 96 (629)
T ss_pred CCCCHHHHHHHHHHHc-CCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHH
Confidence 3578999999999987 566899999999999876444433332 245899999999999988777654
No 70
>PRK01172 ski2-like helicase; Provisional
Probab=98.28 E-value=3.8e-06 Score=96.64 Aligned_cols=67 Identities=19% Similarity=0.140 Sum_probs=57.2
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..|++.|.+|+..... +..++|.+|.|||||.+..-.+...+..+.++++++|+.+.+++..+.+.+
T Consensus 21 ~~l~~~Q~~ai~~l~~-~~nvlv~apTGSGKTl~a~lail~~l~~~~k~v~i~P~raLa~q~~~~~~~ 87 (674)
T PRK01172 21 FELYDHQRMAIEQLRK-GENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAMEKYEELSR 87 (674)
T ss_pred CCCCHHHHHHHHHHhc-CCcEEEECCCCchHHHHHHHHHHHHHHhCCcEEEEechHHHHHHHHHHHHH
Confidence 4589999999998765 678999999999999987766666667788999999999999998887654
No 71
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=98.28 E-value=1.7e-06 Score=85.16 Aligned_cols=27 Identities=33% Similarity=0.517 Sum_probs=24.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
-+..|.+||||||||+|+....++|.-
T Consensus 57 lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 57 LPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred CceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 468899999999999999999988754
No 72
>PRK00254 ski2-like helicase; Provisional
Probab=98.27 E-value=5.4e-06 Score=95.94 Aligned_cols=68 Identities=15% Similarity=0.227 Sum_probs=56.5
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHH-HHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTV-VEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti-~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..|++.|.+|+...+.+...++|.+|.|||||.+. ..++..+...+.++++++|+.+.+.+..+++..
T Consensus 22 ~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 22 EELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHHHHH
Confidence 56899999999874444778999999999999987 445555666788999999999999999988764
No 73
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=98.27 E-value=4.8e-06 Score=99.62 Aligned_cols=68 Identities=24% Similarity=0.277 Sum_probs=57.5
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+.+-|+.++..++. ..-+++++|+|||||+.+.-++..+...+.++|+++||...+.++.+++...
T Consensus 77 ~~p~~iQ~~~i~~il~-G~d~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l 144 (1171)
T TIGR01054 77 SEPWSIQKMWAKRVLR-GDSFAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSL 144 (1171)
T ss_pred CCCcHHHHHHHHHHhC-CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHH
Confidence 3578999999999997 5567899999999998766666666667899999999999999998887654
No 74
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.27 E-value=7.5e-06 Score=88.89 Aligned_cols=66 Identities=18% Similarity=0.112 Sum_probs=51.1
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHH-HHHH---------CCCeEEEeccchHHHHHHHHHhc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIIL-QEVK---------RGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~-~l~~---------~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
..+++-|.+|+..++. ..-.++++|.|||||.+..-.+. .+.. .+.++||++||...+.++.+.+.
T Consensus 29 ~~pt~iQ~~aip~il~-g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~ 104 (423)
T PRK04837 29 HNCTPIQALALPLTLA-GRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAE 104 (423)
T ss_pred CCCCHHHHHHHHHHhC-CCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHH
Confidence 4578999999999997 55688999999999987544333 3332 23589999999999998876554
No 75
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.22 E-value=6e-06 Score=98.49 Aligned_cols=72 Identities=17% Similarity=0.218 Sum_probs=59.8
Q ss_pred CCCCCCCCHHHHHHHHHHHcc-----CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 191 KPFNSNLDHSQKDAISKALSS-----KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 191 ~~~~~~Ln~~Q~~Av~~~l~~-----~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..++..+++.|.+|+..++.. ..-.|++||.|||||.++...+...+..|.++||++||..-+..+.+.+.+
T Consensus 595 ~~~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 595 DSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred HhCCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHH
Confidence 345668999999999998872 135799999999999998777767778899999999999999888777654
No 76
>PRK04296 thymidine kinase; Provisional
Probab=98.20 E-value=2.5e-06 Score=81.59 Aligned_cols=36 Identities=22% Similarity=0.370 Sum_probs=32.7
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
.+.+|.||||+||||.+..++..+...|.++++..|
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~ 38 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKP 38 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEec
Confidence 378999999999999999999999999999998854
No 77
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=98.18 E-value=7.3e-06 Score=94.55 Aligned_cols=62 Identities=29% Similarity=0.448 Sum_probs=51.3
Q ss_pred HHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 201 QKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 201 Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
.+..|..++.+++.++|+|++||||||.+...+......+.+|+|+.|+..|+..+.+++.+
T Consensus 6 ~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 6 VLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred HHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcHHHHHHHHHHHHH
Confidence 34556666666789999999999999988877766555567999999999999999999864
No 78
>PRK09401 reverse gyrase; Reviewed
Probab=98.17 E-value=1.5e-05 Score=95.43 Aligned_cols=68 Identities=26% Similarity=0.306 Sum_probs=58.0
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+++-|+.++..++. ..-+++++|.|||||..+.-++..+...+.++|+++||...+.++.+++...
T Consensus 79 ~~pt~iQ~~~i~~il~-g~dv~i~ApTGsGKT~f~l~~~~~l~~~g~~alIL~PTreLa~Qi~~~l~~l 146 (1176)
T PRK09401 79 SKPWSLQRTWAKRLLL-GESFAIIAPTGVGKTTFGLVMSLYLAKKGKKSYIIFPTRLLVEQVVEKLEKF 146 (1176)
T ss_pred CCCcHHHHHHHHHHHC-CCcEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHHHH
Confidence 3678999999999997 5678899999999998766556666667899999999999999999998765
No 79
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.17 E-value=1.9e-05 Score=88.99 Aligned_cols=66 Identities=17% Similarity=0.194 Sum_probs=55.3
Q ss_pred CCCCHHHHHHHHHHHccC--CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSK--NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~--~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..|=+-|.+|+...+... +-.+|.-|+|+|||.+.+.++..+ ++++||++||...+++..+.+.+.
T Consensus 254 ~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l---~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 254 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV---KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred CCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh---CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 568899999999988632 357899999999999998887664 578999999999999988887654
No 80
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.16 E-value=9.4e-06 Score=80.75 Aligned_cols=72 Identities=19% Similarity=0.272 Sum_probs=64.4
Q ss_pred CCCCCCCHHHHHHHHHHHc---cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 192 PFNSNLDHSQKDAISKALS---SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 192 ~~~~~Ln~~Q~~Av~~~l~---~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
.+..+|++-|+.|-...+. ...-+|||+..|+|||..+-..|.+.+++|.+|.+.+|--.-+-++..||.+.
T Consensus 93 ~W~G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~a 167 (441)
T COG4098 93 QWKGTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQA 167 (441)
T ss_pred eeccccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCcccchHHHHHHHHHh
Confidence 3567899999998777665 46789999999999999999999999999999999999999999999998764
No 81
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.15 E-value=1.5e-05 Score=89.39 Aligned_cols=68 Identities=19% Similarity=0.144 Sum_probs=53.7
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHH-HHHHHC---------CCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEII-LQEVKR---------GSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i-~~l~~~---------~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+++-|.++|-.++. ..-+++++|.|||||.+..-.+ ..+... +.++|+++||...+..+.+.+...
T Consensus 30 ~~ptpiQ~~~ip~~l~-G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~l 107 (572)
T PRK04537 30 TRCTPIQALTLPVALP-GGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKF 107 (572)
T ss_pred CCCCHHHHHHHHHHhC-CCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 4679999999999997 5568999999999998765444 334321 358999999999999998876554
No 82
>PRK14974 cell division protein FtsY; Provisional
Probab=98.15 E-value=2.1e-05 Score=81.41 Aligned_cols=57 Identities=26% Similarity=0.372 Sum_probs=42.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc-c--hHHHHHHHHHhcccCceEE
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA-S--NIAVDNIVERLVPHRVRLV 268 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~-t--n~Avd~l~~rl~~~~~~~v 268 (647)
..+.++.||||+|||||+..++..+...|.+|++++. | ..|++.+.......++.++
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~ 199 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVI 199 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCcee
Confidence 3477899999999999999999998888888876643 2 4566666555444454443
No 83
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.13 E-value=1.4e-05 Score=95.08 Aligned_cols=69 Identities=22% Similarity=0.255 Sum_probs=57.6
Q ss_pred CCCCHHHHHHHHHHHc----cCCeEEEEcCCCCchHHHHHHHHHHHHHCC--CeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALS----SKNVFMLHGPPGTGKTTTVVEIILQEVKRG--SKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~----~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..|-+-|.+||..+.. ...-.||+.|.|||||.|++.++..+++.+ ++||++++++..++...+.+...
T Consensus 412 ~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~ 486 (1123)
T PRK11448 412 LGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDT 486 (1123)
T ss_pred CCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhc
Confidence 3578999999987763 234689999999999999999999887653 79999999999999998877654
No 84
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=98.12 E-value=1.3e-05 Score=92.69 Aligned_cols=62 Identities=26% Similarity=0.347 Sum_probs=48.3
Q ss_pred HHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 201 QKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 201 Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
.+..|..++.+++.++|+||||||||+.+.-.+......+.+|+|+.||..|+.++.+++.+
T Consensus 9 ~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 9 VLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred HHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECChHHHHHHHHHHHHH
Confidence 34456666666788999999999999988765544322345899999999999999999854
No 85
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.10 E-value=6.5e-06 Score=91.04 Aligned_cols=68 Identities=29% Similarity=0.308 Sum_probs=56.4
Q ss_pred CCCHHHHHHHHHHHc----cCCeEEEEcCCCCchHHHHHHHHHHHHHCC--CeEEEeccchHHHHHHHHHhccc
Q 006386 196 NLDHSQKDAISKALS----SKNVFMLHGPPGTGKTTTVVEIILQEVKRG--SKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~----~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
.+-.-|..||++... .+.-+||.=.+|||||.|+.++|..|++.+ +|||.+|-.|+.++........+
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHh
Confidence 456789999988765 234477777799999999999999999987 79999999999999888765543
No 86
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.09 E-value=1.5e-05 Score=87.61 Aligned_cols=48 Identities=21% Similarity=0.360 Sum_probs=44.2
Q ss_pred EEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 216 MLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 216 lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
|++||.|+|||.+...++...+..|+++|+++|+..-+.++.+++.+.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 589999999999999999988999999999999999999999998753
No 87
>PTZ00110 helicase; Provisional
Probab=98.07 E-value=3.3e-05 Score=86.23 Aligned_cols=68 Identities=21% Similarity=0.187 Sum_probs=52.6
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHH-HHHHHHHHH-------CCCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTV-VEIILQEVK-------RGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti-~~~i~~l~~-------~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+++-|.+|+-.++. ..-+++.+|.|||||.+. .-++..+.. .+..+||++||...+..+.+.+.+.
T Consensus 151 ~~pt~iQ~~aip~~l~-G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~ 226 (545)
T PTZ00110 151 TEPTPIQVQGWPIALS-GRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKF 226 (545)
T ss_pred CCCCHHHHHHHHHHhc-CCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHH
Confidence 4689999999999997 456789999999999863 333333332 2467999999999999888876654
No 88
>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=98.07 E-value=4.3e-07 Score=84.38 Aligned_cols=46 Identities=24% Similarity=0.315 Sum_probs=32.0
Q ss_pred EEEcCCCCchHHHHHHHHHHHHHCCC-eEEEeccchHHHHHHHHHhc
Q 006386 216 MLHGPPGTGKTTTVVEIILQEVKRGS-KILACAASNIAVDNIVERLV 261 (647)
Q Consensus 216 lI~GpPGTGKT~ti~~~i~~l~~~~~-~ILv~a~tn~Avd~l~~rl~ 261 (647)
+|.|+.|.|||+++-..+.+++..+. +|+||||+..++..+.+-+.
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~ 47 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAE 47 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC-
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHH
Confidence 58999999999999988888887764 99999999999999988754
No 89
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=98.06 E-value=7.8e-06 Score=73.02 Aligned_cols=50 Identities=22% Similarity=0.424 Sum_probs=32.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH------CCCeEEEeccchHHHHHHHHHhc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVK------RGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~------~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
++..+|.||||+|||+++..++..+.. ...-+.+.++.......+...+.
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ 59 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEIL 59 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHH
Confidence 568899999999999999999998865 33344455555544555555543
No 90
>PRK14701 reverse gyrase; Provisional
Probab=98.02 E-value=4.8e-05 Score=93.38 Aligned_cols=67 Identities=24% Similarity=0.269 Sum_probs=55.6
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
.+++-|+.++..++. ..-+++++|.|||||.+..-....+..+|.++||++||...+.++.+++...
T Consensus 79 ~pt~iQ~~~i~~il~-G~d~li~APTGsGKTl~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~~l~~l 145 (1638)
T PRK14701 79 EFWSIQKTWAKRILR-GKSFSIVAPTGMGKSTFGAFIALFLALKGKKCYIILPTTLLVKQTVEKIESF 145 (1638)
T ss_pred CCCHHHHHHHHHHHc-CCCEEEEEcCCCCHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHHHHHHH
Confidence 478999999999998 5567899999999999654444444557889999999999999999888763
No 91
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.01 E-value=2.4e-05 Score=87.90 Aligned_cols=68 Identities=26% Similarity=0.415 Sum_probs=60.9
Q ss_pred CCCCHHHHHHHHHHHcc---CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 195 SNLDHSQKDAISKALSS---KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~---~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..||++|..|+..+..+ ....|++|.+|+|||-+-.++|...+..|+.+|++.|--+-...+.+|+..
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~ 267 (730)
T COG1198 197 LALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKA 267 (730)
T ss_pred cccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHH
Confidence 57999999999998875 367999999999999999999999999999999999988777777777754
No 92
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.96 E-value=4.8e-05 Score=84.56 Aligned_cols=66 Identities=21% Similarity=0.238 Sum_probs=51.2
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHH-HHHHHHHHH---------CCCeEEEeccchHHHHHHHHHhc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTV-VEIILQEVK---------RGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti-~~~i~~l~~---------~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
..+++-|.+|+..++. ..-+++.+|.|||||.+. .-++..+.. .+.++|+++||...+..+.+.+.
T Consensus 142 ~~ptpiQ~~aip~il~-g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~ 217 (518)
T PLN00206 142 EFPTPIQMQAIPAALS-GRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAK 217 (518)
T ss_pred CCCCHHHHHHHHHHhc-CCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHH
Confidence 5789999999999997 667999999999999753 334444321 35689999999999887766544
No 93
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.96 E-value=0.00011 Score=72.90 Aligned_cols=59 Identities=17% Similarity=0.211 Sum_probs=44.9
Q ss_pred CCCCCCCCHHHHHHHHHHHc--cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccc
Q 006386 191 KPFNSNLDHSQKDAISKALS--SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAAS 249 (647)
Q Consensus 191 ~~~~~~Ln~~Q~~Av~~~l~--~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~t 249 (647)
..|...-|.....++..... ..+..+|+||||||||+.+..+...+...|.+++++...
T Consensus 22 d~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~ 82 (235)
T PRK08084 22 ASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLD 82 (235)
T ss_pred cccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHH
Confidence 34444467777777766543 235789999999999999999888888888888887663
No 94
>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=97.95 E-value=0.00016 Score=69.30 Aligned_cols=57 Identities=28% Similarity=0.328 Sum_probs=39.5
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc-c--hHHHHHHHHHhcccCceEEE
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA-S--NIAVDNIVERLVPHRVRLVR 269 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~-t--n~Avd~l~~rl~~~~~~~vr 269 (647)
.+.++.||+|+|||||++.+++++...+++|.++|- | ..|++.+..--...++.+..
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~ 61 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYV 61 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEE
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccch
Confidence 367899999999999999999999888888876653 2 25666664433333555444
No 95
>PRK13766 Hef nuclease; Provisional
Probab=97.95 E-value=9.3e-05 Score=86.79 Aligned_cols=66 Identities=24% Similarity=0.287 Sum_probs=53.3
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHH-CCCeEEEeccchHHHHHHHHHhccc
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVK-RGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~-~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
+.-+-|+.++..++. . .++|..|.|+|||.+...++..++. .+.++|+++||...+.+..+.+.+.
T Consensus 15 ~~r~yQ~~~~~~~l~-~-n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~ 81 (773)
T PRK13766 15 EARLYQQLLAATALK-K-NTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKF 81 (773)
T ss_pred CccHHHHHHHHHHhc-C-CeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 456779999998887 3 6899999999999987777766653 5789999999999998877776543
No 96
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.95 E-value=3.8e-05 Score=92.81 Aligned_cols=65 Identities=18% Similarity=0.302 Sum_probs=54.8
Q ss_pred CCCCHHHHHHHHHHHccC-CeEEEEcCCC-CchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHH
Q 006386 195 SNLDHSQKDAISKALSSK-NVFMLHGPPG-TGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVER 259 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~-~~~lI~GpPG-TGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~r 259 (647)
..++..|..|+..++.+. .+.+|.|..| ||||+++.+++..+-.+|.+|.++|||+.|+..+.+.
T Consensus 280 ~~~~~~q~~Av~~il~dr~~v~iv~~~GgAtGKtt~l~~l~~~a~~~G~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 280 VPRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred cccchhHHHHHHHHhcCCCceEEEEecccccccHHHHHHHHHHHHhCCcEEEEEeCCHHHHHHHHhc
Confidence 457889999999999744 4566666666 9999999988888888999999999999999998764
No 97
>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=97.95 E-value=9.1e-05 Score=81.44 Aligned_cols=74 Identities=16% Similarity=0.115 Sum_probs=56.5
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCceEEEeCC
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVRLVRLGH 272 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~ 272 (647)
..+.+-|.+||..++. ..-+++.+|.|||||.+.. +-.+ ..+...||++|+.+.+....+++...++...-++.
T Consensus 10 ~~~r~~Q~~ai~~~l~-g~dvlv~apTGsGKTl~y~--lp~l-~~~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~ 83 (470)
T TIGR00614 10 SSFRPVQLEVINAVLL-GRDCFVVMPTGGGKSLCYQ--LPAL-CSDGITLVISPLISLMEDQVLQLKASGIPATFLNS 83 (470)
T ss_pred CCCCHHHHHHHHHHHc-CCCEEEEcCCCCcHhHHHH--HHHH-HcCCcEEEEecHHHHHHHHHHHHHHcCCcEEEEeC
Confidence 4689999999999998 4568899999999996532 2222 34668999999999988888888776665544443
No 98
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.94 E-value=4.5e-05 Score=84.12 Aligned_cols=68 Identities=21% Similarity=0.194 Sum_probs=52.8
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHH-HHHHHHHHC---------CCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVV-EIILQEVKR---------GSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~-~~i~~l~~~---------~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+++-|.+|+..++. ..-+++.+|.|||||.+.. -++..+... +.++|+++||...+..+.+.+...
T Consensus 108 ~~~~~iQ~~ai~~~~~-G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~l 185 (475)
T PRK01297 108 PYCTPIQAQVLGYTLA-GHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAAL 185 (475)
T ss_pred CCCCHHHHHHHHHHhC-CCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHHh
Confidence 4589999999999987 5567899999999997643 334444432 358999999999999988876543
No 99
>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=97.94 E-value=5e-05 Score=87.56 Aligned_cols=68 Identities=10% Similarity=-0.007 Sum_probs=55.0
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHH-HHHHHH-CCCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEI-ILQEVK-RGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~-i~~l~~-~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+++-|.+|+..++. ..-+++..|.|||||.+..-- +..+.. ++.++|+++||.+.+.....++.+.
T Consensus 35 ~~p~~~Q~~ai~~il~-G~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 35 HRPWQHQARAAELAHA-GRHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred CcCCHHHHHHHHHHHC-CCCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHh
Confidence 4689999999999987 667999999999999865433 333333 3569999999999999999988765
No 100
>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=97.93 E-value=6e-05 Score=86.03 Aligned_cols=68 Identities=15% Similarity=0.159 Sum_probs=56.3
Q ss_pred CCHHHHHHHHHHHcc---------CCeEEEEcCCCCchHHHHHHHHHHHHH--CCCeEEEeccchHHHHHHHHHhcccC
Q 006386 197 LDHSQKDAISKALSS---------KNVFMLHGPPGTGKTTTVVEIILQEVK--RGSKILACAASNIAVDNIVERLVPHR 264 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~---------~~~~lI~GpPGTGKT~ti~~~i~~l~~--~~~~ILv~a~tn~Avd~l~~rl~~~~ 264 (647)
.-..|..||.+++.. ..-.+|+-|.|||||.|++.++..+.. .+.+||+++++...++.+.+.+...+
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 467899999887651 246899999999999999999988874 35799999999999999998876653
No 101
>COG1204 Superfamily II helicase [General function prediction only]
Probab=97.92 E-value=4e-05 Score=87.71 Aligned_cols=73 Identities=23% Similarity=0.356 Sum_probs=60.8
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEeccchHHHHHHHHHhc---ccCceEE
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACAASNIAVDNIVERLV---PHRVRLV 268 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a~tn~Avd~l~~rl~---~~~~~~v 268 (647)
.|.+.|+.||...+..+..+||..|-|+|||-++.-.+..-+.. +.+++.++|+++.+.+..+++. ..|.++.
T Consensus 31 el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~ 107 (766)
T COG1204 31 ELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRVG 107 (766)
T ss_pred HhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEE
Confidence 78889999999888766899999999999999876666665554 6899999999999999999887 4455543
No 102
>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=97.89 E-value=0.00019 Score=72.58 Aligned_cols=59 Identities=27% Similarity=0.391 Sum_probs=42.3
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec---cchHHHHHHHHHhcccCceEEEeC
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA---ASNIAVDNIVERLVPHRVRLVRLG 271 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a---~tn~Avd~l~~rl~~~~~~~vr~g 271 (647)
.+.++.||||+|||||++.++..+.+.|++|++++ +...|.+.+.......+..++..+
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~ 134 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQK 134 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCC
Confidence 46677799999999999999999988888888775 333455666554444455554333
No 103
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=97.88 E-value=0.00013 Score=78.31 Aligned_cols=36 Identities=39% Similarity=0.439 Sum_probs=31.2
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
.+.++.|+||+|||||+..++..+.+.|.+|++++.
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~ 131 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAA 131 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecC
Confidence 467899999999999999999999888888886653
No 104
>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=97.85 E-value=5e-05 Score=90.40 Aligned_cols=64 Identities=22% Similarity=0.411 Sum_probs=49.1
Q ss_pred HHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHH-CCCeEEEeccchHHHHHHHHHhccc
Q 006386 200 SQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVK-RGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 200 ~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~-~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
+.+..|..++..+++++|.|+|||||||-+-.++...-. ...+|+++-|-..|+-.+.+|+.+.
T Consensus 70 ~~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~e 134 (1283)
T TIGR01967 70 AKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEE 134 (1283)
T ss_pred HHHHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHH
Confidence 334566677766889999999999999987666654321 1247888899999999999998764
No 105
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.85 E-value=7.5e-05 Score=84.31 Aligned_cols=63 Identities=21% Similarity=0.199 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHH---------H---H---CCCeEEEeccchHHHHHHHHHhcc
Q 006386 199 HSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQE---------V---K---RGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 199 ~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l---------~---~---~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
.-|++++..++. +..++++|+.|||||+.+-..+.+. + . .+.+|++++||..+|..+..++.+
T Consensus 167 ~iQ~qil~~i~~-gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~ 244 (675)
T PHA02653 167 DVQLKIFEAWIS-RKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLK 244 (675)
T ss_pred HHHHHHHHHHHh-CCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHH
Confidence 467777777775 7789999999999999865544321 1 1 246899999999999998888754
No 106
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=97.84 E-value=7.2e-05 Score=78.58 Aligned_cols=130 Identities=22% Similarity=0.191 Sum_probs=87.2
Q ss_pred CHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHH-HCCCeEEEeccchHHHHHHHHHhcccCceEEEeCCCCCC
Q 006386 198 DHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEV-KRGSKILACAASNIAVDNIVERLVPHRVRLVRLGHPARL 276 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~-~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~~~~~ 276 (647)
-.-|...+..++. ..+||.=|-|=|||.+++-.+...+ ..+.++|++|||.-.|..=.+.+.+. +|-+..-
T Consensus 17 R~YQ~~i~a~al~--~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v------~~ip~~~ 88 (542)
T COG1111 17 RLYQLNIAAKALF--KNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKV------TGIPEDE 88 (542)
T ss_pred HHHHHHHHHHHhh--cCeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHH------hCCChhh
Confidence 4568888888886 4799999999999999988887554 44558999999999998877766543 1111100
Q ss_pred ChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCceeeec
Q 006386 277 LPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDVIKNADVVLTT 356 (647)
Q Consensus 277 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~l~~~~vi~~T 356 (647)
... | ...-...+| ...+..++|+++|
T Consensus 89 i~~-----l---------------------------tGev~p~~R----------------------~~~w~~~kVfvaT 114 (542)
T COG1111 89 IAA-----L---------------------------TGEVRPEER----------------------EELWAKKKVFVAT 114 (542)
T ss_pred eee-----e---------------------------cCCCChHHH----------------------HHHHhhCCEEEec
Confidence 000 0 000011112 3356778999999
Q ss_pred ccccccccc----CCCCCCEEEEecCCCcchHHHHHH
Q 006386 357 LTGAVSRKL----DNTSFDLVIIDEAAQALEIACWIA 389 (647)
Q Consensus 357 ~~~~~~~~l----~~~~fd~vIIDEAsq~~e~~~l~~ 389 (647)
.....+..+ .-..+.+||+|||..++--....-
T Consensus 115 PQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAYv~ 151 (542)
T COG1111 115 PQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAYVF 151 (542)
T ss_pred cHHHHhHHhcCccChHHceEEEechhhhccCcchHHH
Confidence 998875544 344899999999988865543333
No 107
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.83 E-value=0.00014 Score=85.54 Aligned_cols=66 Identities=18% Similarity=0.188 Sum_probs=52.0
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHH-HHHHHH--------CCCeEEEeccchHHHHHHHHHhc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEI-ILQEVK--------RGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~-i~~l~~--------~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
..+++-|.+|+..++. ...++|.+|.|||||.+..-. +..+.. .+.++|+++|+.+.+.++..++.
T Consensus 31 ~~~tpiQ~~Ai~~il~-g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 31 GTFTPPQRYAIPLIHE-GKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred CCCCHHHHHHHHHHHc-CCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 3599999999999886 668999999999999875443 334432 23479999999999998877654
No 108
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=97.80 E-value=0.00017 Score=84.93 Aligned_cols=64 Identities=16% Similarity=0.240 Sum_probs=48.5
Q ss_pred CCCHHHHH---HHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHH
Q 006386 196 NLDHSQKD---AISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVER 259 (647)
Q Consensus 196 ~Ln~~Q~~---Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~r 259 (647)
+..+.|.+ +|..++......+|.+|+|||||..-.--+......+++|+|.+||..-.+.+..+
T Consensus 245 ~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~~~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 245 EYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAITEKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred ccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHH
Confidence 45788986 56666665678899999999999765444333334788999999999988887654
No 109
>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=97.75 E-value=0.00032 Score=79.51 Aligned_cols=73 Identities=16% Similarity=0.183 Sum_probs=56.2
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCceEEEeC
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVRLVRLG 271 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g 271 (647)
..+++-|.+|+..++. ..-+++..|.|+|||.+.. +-.++ .+..++|++|+.+.+..-.+++...+..+..++
T Consensus 12 ~~fr~~Q~~~i~~il~-g~dvlv~~PTG~GKTl~y~--lpal~-~~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~~ 84 (591)
T TIGR01389 12 DDFRPGQEEIISHVLD-GRDVLVVMPTGGGKSLCYQ--VPALL-LKGLTVVISPLISLMKDQVDQLRAAGVAAAYLN 84 (591)
T ss_pred CCCCHHHHHHHHHHHc-CCCEEEEcCCCccHhHHHH--HHHHH-cCCcEEEEcCCHHHHHHHHHHHHHcCCcEEEEe
Confidence 3589999999999997 4568899999999998753 22333 345788999999998888888877766554444
No 110
>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=97.74 E-value=0.00038 Score=65.55 Aligned_cols=34 Identities=44% Similarity=0.613 Sum_probs=30.1
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
+.++.||||+|||+++..++..+.+.|.+|+++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 5689999999999999999999988888887655
No 111
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.74 E-value=0.00025 Score=80.29 Aligned_cols=67 Identities=22% Similarity=0.284 Sum_probs=59.4
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
.+-..|+-=....+. ..-+-|.+|+|+||||....+...+...|++++++-||...|.+..+||.+.
T Consensus 82 ~~ws~QR~WakR~~r-g~SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~ 148 (1187)
T COG1110 82 RPWSAQRVWAKRLVR-GKSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKF 148 (1187)
T ss_pred CchHHHHHHHHHHHc-CCceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHH
Confidence 566788888888887 4556689999999999999999999999999999999999999999999875
No 112
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.73 E-value=0.00033 Score=79.37 Aligned_cols=70 Identities=20% Similarity=0.223 Sum_probs=54.0
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCceEE
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVRLV 268 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~v 268 (647)
..+.+.|++|+..++. ..-+++.+|.|+|||.+.. +-.+.. +..+||++|+.+-+....+.+...++...
T Consensus 24 ~~~r~~Q~~ai~~il~-g~dvlv~apTGsGKTl~y~--lpal~~-~g~tlVisPl~sL~~dqv~~l~~~gi~~~ 93 (607)
T PRK11057 24 QQFRPGQQEIIDAVLS-GRDCLVVMPTGGGKSLCYQ--IPALVL-DGLTLVVSPLISLMKDQVDQLLANGVAAA 93 (607)
T ss_pred CCCCHHHHHHHHHHHc-CCCEEEEcCCCchHHHHHH--HHHHHc-CCCEEEEecHHHHHHHHHHHHHHcCCcEE
Confidence 3678999999999997 5567899999999996542 333333 45799999999999888888877665443
No 113
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=97.72 E-value=0.00021 Score=72.06 Aligned_cols=58 Identities=22% Similarity=0.255 Sum_probs=47.4
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec---cchHHHHHHHHHhcccCceEEEe
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA---ASNIAVDNIVERLVPHRVRLVRL 270 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a---~tn~Avd~l~~rl~~~~~~~vr~ 270 (647)
-+.++.|..||||||||..++.++.+.|++|++.| |--.|++.|..--.+.++.++.-
T Consensus 140 ~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~ 200 (340)
T COG0552 140 FVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISG 200 (340)
T ss_pred EEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEcc
Confidence 35689999999999999999999999999999875 55567777766655567777763
No 114
>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=97.72 E-value=0.00018 Score=82.98 Aligned_cols=66 Identities=20% Similarity=0.274 Sum_probs=49.0
Q ss_pred CCHHHHHHHHHHH---ccCCeEEEEcCCCCchHH-HHHHHHHHHHHCC--CeEEEeccchHHHHHHHHHhcc
Q 006386 197 LDHSQKDAISKAL---SSKNVFMLHGPPGTGKTT-TVVEIILQEVKRG--SKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 197 Ln~~Q~~Av~~~l---~~~~~~lI~GpPGTGKT~-ti~~~i~~l~~~~--~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
+=+.|++....+. ...+..++.+|.|||||. ++...+++..+.+ .+|.+|+.|++-...+.+-|.+
T Consensus 11 ~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 11 IYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred CCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 3467877666554 467899999999999996 4555555555455 7999999999877777766654
No 115
>PLN03025 replication factor C subunit; Provisional
Probab=97.69 E-value=0.00017 Score=75.09 Aligned_cols=43 Identities=23% Similarity=0.434 Sum_probs=30.8
Q ss_pred CHHHHHHHHHHHcc--CCeEEEEcCCCCchHHHHHHHHHHHHHCC
Q 006386 198 DHSQKDAISKALSS--KNVFMLHGPPGTGKTTTVVEIILQEVKRG 240 (647)
Q Consensus 198 n~~Q~~Av~~~l~~--~~~~lI~GpPGTGKT~ti~~~i~~l~~~~ 240 (647)
++...+.+...+.. .+..+++||||||||+++..++..+...+
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~~ 62 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGPN 62 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccc
Confidence 44445555555442 24679999999999999999988876443
No 116
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.69 E-value=1.5e-05 Score=88.50 Aligned_cols=68 Identities=28% Similarity=0.361 Sum_probs=54.5
Q ss_pred CCCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC----CeEEEeccchHHHHHHHHHhccc
Q 006386 193 FNSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG----SKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 193 ~~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~----~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
+...|+.+|..++..-+ +..-+|.| ||||||.++...+.+++.-. ..|++.|.||.|+|.+.+++...
T Consensus 10 ~~~~l~~~q~~~~~~~~--~~~rviag-pgsgkt~~lt~~v~yli~~~~ik~~eI~~~t~tnka~~~~~~~l~~i 81 (853)
T KOG2108|consen 10 LYSLLNKSQRFSALSPL--RRKRVIAG-PGSGKTLVLTERVAYLINFNNIKPDEILINTGTNKAADSIKLNLIAI 81 (853)
T ss_pred hhhhhhhhhhhhhcCCC--cccceeec-CCCCccchhhHHHHHHHhccCCCHHHHHHHhcCCccHHHHHHhHHHH
Confidence 34567888887766432 34567777 99999999999999997643 57999999999999999998764
No 117
>PRK10867 signal recognition particle protein; Provisional
Probab=97.68 E-value=0.00039 Score=74.43 Aligned_cols=56 Identities=27% Similarity=0.264 Sum_probs=39.1
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEec-cchH--HHHHHHHHhcccCceEE
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACA-ASNI--AVDNIVERLVPHRVRLV 268 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a-~tn~--Avd~l~~rl~~~~~~~v 268 (647)
.+.++.||||+|||||++.++..+... |.+|++++ -+.. |++.+.......++.++
T Consensus 101 ~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~ 160 (433)
T PRK10867 101 TVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVF 160 (433)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEE
Confidence 367899999999999999999999888 88877554 3333 44455433333344444
No 118
>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=97.67 E-value=0.0012 Score=60.44 Aligned_cols=61 Identities=21% Similarity=0.315 Sum_probs=48.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccc----hHHHHHHHHHhcccCceEEEeCCCC
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAAS----NIAVDNIVERLVPHRVRLVRLGHPA 274 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~t----n~Avd~l~~rl~~~~~~~vr~g~~~ 274 (647)
.+...|.+|||+|||+.+..+..+.+..|.+|+++=|- ...-.++.+++. ++.+.+.|...
T Consensus 2 ~G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~--~v~~~~~g~~~ 66 (159)
T cd00561 2 KGLIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGWKYGELKALERLP--NIEIHRMGRGF 66 (159)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCccCHHHHHHhCC--CcEEEECCCCC
Confidence 47889999999999999999999999999999995332 334456666763 67888887653
No 119
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=97.66 E-value=0.00016 Score=76.66 Aligned_cols=49 Identities=16% Similarity=0.407 Sum_probs=42.3
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHH--CCCeEEEeccchHHHHHHHHHhccc
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVK--RGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~--~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
++|.||.|||||.+....+...+. .+.++++++|+.+.+..+.+++...
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~ 52 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKEL 52 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHH
Confidence 689999999999998777776653 3579999999999999999998774
No 120
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.65 E-value=0.00048 Score=80.30 Aligned_cols=62 Identities=16% Similarity=0.261 Sum_probs=48.7
Q ss_pred CCCHHHHH---HHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHH
Q 006386 196 NLDHSQKD---AISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVE 258 (647)
Q Consensus 196 ~Ln~~Q~~---Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~ 258 (647)
..-+.|.+ +|..++......+|++|+|||||..-.--+... ..+.+++|.+||..-.+.+..
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~-~~~~~vvI~t~T~~Lq~Ql~~ 309 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQ-SDQRQIIVSVPTKILQDQIMA 309 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHh-cCCCcEEEEeCcHHHHHHHHH
Confidence 45788988 888888877889999999999998643332221 257899999999999998853
No 121
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=97.65 E-value=0.0002 Score=80.02 Aligned_cols=59 Identities=19% Similarity=0.191 Sum_probs=44.0
Q ss_pred HHHHHHHccCCeEEEEcCCCCchHHHHHHH-HHHHHH-CCCeEEEeccchHHHHHHHHHhc
Q 006386 203 DAISKALSSKNVFMLHGPPGTGKTTTVVEI-ILQEVK-RGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 203 ~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~-i~~l~~-~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
++|..++......+|.+|.|||||..-.-- +..+.. .+.+|+|++||..-.+.+.+.+.
T Consensus 7 ~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~ 67 (636)
T TIGR03117 7 LNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELE 67 (636)
T ss_pred HHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHH
Confidence 345566666788999999999999754443 344333 57899999999999988877443
No 122
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.65 E-value=0.00036 Score=85.80 Aligned_cols=63 Identities=19% Similarity=0.302 Sum_probs=50.1
Q ss_pred CCHHHHHHHHHHHcc-CCeEEEEcCCCC-chHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHH
Q 006386 197 LDHSQKDAISKALSS-KNVFMLHGPPGT-GKTTTVVEIILQEVKRGSKILACAASNIAVDNIVER 259 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~-~~~~lI~GpPGT-GKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~r 259 (647)
.+..|.+|+..++.. ..+.+++|+.|. |+++++.+++..+-.+|..|.++|||+.|+..|.+.
T Consensus 414 ~~~~~~~av~~~~q~~~~~~il~g~~G~aG~g~~l~~l~~~a~~~G~~V~glAPt~~a~~~L~~~ 478 (1747)
T PRK13709 414 RTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQILAADRRSQMNLKQD 478 (1747)
T ss_pred cchhhhHHHHHHhcccCcEEEEEcCCcchHHHHHHHHHHHHHHhCCcEEEEEeCcHHHHHHHHHh
Confidence 356888899888773 357889988884 776666666666667899999999999999998764
No 123
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=97.65 E-value=0.0005 Score=71.02 Aligned_cols=56 Identities=25% Similarity=0.305 Sum_probs=39.9
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec-cch--HHHHHHHHHhcccCceEE
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA-ASN--IAVDNIVERLVPHRVRLV 268 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a-~tn--~Avd~l~~rl~~~~~~~v 268 (647)
.+.++.||||+|||||+..++..+...|.+|++++ .+. .|++.+...-...++.++
T Consensus 115 ~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~ 173 (318)
T PRK10416 115 FVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVI 173 (318)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEE
Confidence 46789999999999999999999988888888765 332 345555443333344443
No 124
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=97.65 E-value=0.00037 Score=73.70 Aligned_cols=60 Identities=18% Similarity=0.287 Sum_probs=47.4
Q ss_pred HHHHHHHHHccC-CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 201 QKDAISKALSSK-NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 201 Q~~Av~~~l~~~-~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
|.+|+..+...+ +.++|.+|+|+|||.+....+. ..+.+.++++|+++.++...+++.+.
T Consensus 2 Q~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l---~~~~~~~~~~P~~aL~~~~~~~~~~~ 62 (357)
T TIGR03158 2 QVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLL---HGENDTIALYPTNALIEDQTEAIKEF 62 (357)
T ss_pred HHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHH---HcCCCEEEEeChHHHHHHHHHHHHHH
Confidence 888998888744 4789999999999987643333 34568899999999999988887654
No 125
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=97.63 E-value=7.2e-05 Score=70.86 Aligned_cols=28 Identities=32% Similarity=0.605 Sum_probs=24.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
-+..+|.|||||||||.+..++..|+..
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~LLG~ 75 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLARELLGD 75 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHHhCh
Confidence 4678999999999999999999888743
No 126
>PRK09694 helicase Cas3; Provisional
Probab=97.63 E-value=0.00036 Score=80.95 Aligned_cols=67 Identities=15% Similarity=0.262 Sum_probs=56.0
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC--CeEEEeccchHHHHHHHHHhcc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG--SKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
...++-|..+.... ..+++++|.+|.|+|||..+...+..+...+ .+|+++.||.+.++.|.+|+.+
T Consensus 285 ~~p~p~Q~~~~~~~-~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~ 353 (878)
T PRK09694 285 YQPRQLQTLVDALP-LQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEA 353 (878)
T ss_pred CCChHHHHHHHhhc-cCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHH
Confidence 35788898764332 2478999999999999999988888887665 7999999999999999999865
No 127
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=97.62 E-value=0.00012 Score=75.07 Aligned_cols=40 Identities=15% Similarity=0.224 Sum_probs=32.2
Q ss_pred CEEEEecCCCcch--HHHHHHHHhcCeeeecCCCCCCCceec
Q 006386 371 DLVIIDEAAQALE--IACWIALLKGSRCILAGDHLQLPPTVQ 410 (647)
Q Consensus 371 d~vIIDEAsq~~e--~~~l~~l~~~~~~vlvGD~~QL~p~v~ 410 (647)
.+++|||...+.- -+.+.|......++|||=.-.=|....
T Consensus 106 tiLflDEIHRfnK~QQD~lLp~vE~G~iilIGATTENPsF~l 147 (436)
T COG2256 106 TILFLDEIHRFNKAQQDALLPHVENGTIILIGATTENPSFEL 147 (436)
T ss_pred eEEEEehhhhcChhhhhhhhhhhcCCeEEEEeccCCCCCeee
Confidence 6899999987744 468888888899999999888666533
No 128
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=97.62 E-value=0.00017 Score=65.11 Aligned_cols=57 Identities=32% Similarity=0.419 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHcc--CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHH
Q 006386 199 HSQKDAISKALSS--KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDN 255 (647)
Q Consensus 199 ~~Q~~Av~~~l~~--~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~ 255 (647)
+.+..++...+.. ....+|+||||||||+++..++..+...+..++.+..+......
T Consensus 4 ~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~ 62 (151)
T cd00009 4 EEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGL 62 (151)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhh
Confidence 4555666666653 56899999999999999988888887777788877766544433
No 129
>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=97.61 E-value=0.00023 Score=79.73 Aligned_cols=55 Identities=20% Similarity=0.405 Sum_probs=48.6
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHH-HCCCeEEEeccchHHHHHHHHHhcccCc
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEV-KRGSKILACAASNIAVDNIVERLVPHRV 265 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~-~~~~~ILv~a~tn~Avd~l~~rl~~~~~ 265 (647)
.+++.+|.+|=|||||+.+..-+...+ .++.+||++++-++-+.++..|+...+.
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~l 103 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAGL 103 (824)
T ss_pred CCCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcCC
Confidence 468999999999999999988888876 5689999999999999999999976643
No 130
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=97.61 E-value=0.0019 Score=75.73 Aligned_cols=62 Identities=19% Similarity=0.160 Sum_probs=49.2
Q ss_pred CCCCCHHHHHHHHHHHcc-CCeEEEEcCCCCchHHHHHHHHHHHHHCC--CeEEEeccchHHHHH
Q 006386 194 NSNLDHSQKDAISKALSS-KNVFMLHGPPGTGKTTTVVEIILQEVKRG--SKILACAASNIAVDN 255 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l~~-~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~~ILv~a~tn~Avd~ 255 (647)
...|-+.|..++..++.. .+-+||-=..|.|||-.+..++.++...| ++|||++|+.-.-..
T Consensus 150 ~~~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL~~QW 214 (956)
T PRK04914 150 RASLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETLQHQW 214 (956)
T ss_pred CCCCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHHHHHH
Confidence 356889999999887762 34578888999999999998988887776 699999998654333
No 131
>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=97.60 E-value=7.8e-05 Score=76.75 Aligned_cols=140 Identities=24% Similarity=0.251 Sum_probs=78.7
Q ss_pred HHHHHHHHHcc------------CCeEEEEcCCCCchHHHHHHHHHHHHHCCC-----eEEEeccchHHHHHHHHHhccc
Q 006386 201 QKDAISKALSS------------KNVFMLHGPPGTGKTTTVVEIILQEVKRGS-----KILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 201 Q~~Av~~~l~~------------~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~-----~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
|.+||...+.. .+-.++.-.+|+|||.+++.++..+...+. ++||++|+ ..+..-...+.+.
T Consensus 2 Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~ 80 (299)
T PF00176_consen 2 QLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKW 80 (299)
T ss_dssp HHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhccc
Confidence 77777766442 245677778999999999999998876532 59999999 4444444444332
Q ss_pred ----CceEEEeCCCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHH
Q 006386 264 ----RVRLVRLGHPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQ 339 (647)
Q Consensus 264 ----~~~~vr~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~ 339 (647)
..+++...... ..
T Consensus 81 ~~~~~~~v~~~~~~~-----------~~---------------------------------------------------- 97 (299)
T PF00176_consen 81 FDPDSLRVIIYDGDS-----------ER---------------------------------------------------- 97 (299)
T ss_dssp SGT-TS-EEEESSSC-----------HH----------------------------------------------------
T ss_pred ccccccccccccccc-----------cc----------------------------------------------------
Confidence 23344333222 00
Q ss_pred HHHHHHHhhcCceeeecccccc-------ccccCCCCCCEEEEecCCCcchH--HHHHHHH---hcCeeeecCCCCC
Q 006386 340 QLAVTDVIKNADVVLTTLTGAV-------SRKLDNTSFDLVIIDEAAQALEI--ACWIALL---KGSRCILAGDHLQ 404 (647)
Q Consensus 340 ~~~~~~~l~~~~vi~~T~~~~~-------~~~l~~~~fd~vIIDEAsq~~e~--~~l~~l~---~~~~~vlvGD~~Q 404 (647)
...........+++++|..... ...+....|++||||||..+... .....+. ...+++|-|-|.+
T Consensus 98 ~~~~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~~s~~~~~l~~l~~~~~~lLSgTP~~ 174 (299)
T PF00176_consen 98 RRLSKNQLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNKDSKRYKALRKLRARYRWLLSGTPIQ 174 (299)
T ss_dssp HHTTSSSCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTTTSHHHHHHHCCCECEEEEE-SS-SS
T ss_pred ccccccccccceeeeccccccccccccccccccccccceeEEEecccccccccccccccccccccceEEeecccccc
Confidence 0001122455677777776655 11234457999999999877322 2222222 2378899999887
No 132
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=97.59 E-value=0.003 Score=59.49 Aligned_cols=61 Identities=23% Similarity=0.293 Sum_probs=47.6
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchH----HHHHHHHHhcccCceEEEeCCC
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNI----AVDNIVERLVPHRVRLVRLGHP 273 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~----Avd~l~~rl~~~~~~~vr~g~~ 273 (647)
..+.++|.+++|+|||+.+..++.+.+..|.+|+++=|=.. .-..+.+++. ++.+.+.|..
T Consensus 21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~--~v~~~~~g~~ 85 (191)
T PRK05986 21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGERNLLEFGG--GVEFHVMGTG 85 (191)
T ss_pred cCCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCHHHHHhcCC--CcEEEECCCC
Confidence 46899999999999999999999999999999999866442 3344445442 5677777754
No 133
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=97.57 E-value=0.00026 Score=84.24 Aligned_cols=62 Identities=27% Similarity=0.432 Sum_probs=46.2
Q ss_pred HHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC--CeEEEeccchHHHHHHHHHhccc
Q 006386 201 QKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG--SKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 201 Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
.++.|..++..+++++|.|++||||||.+-.++..+- .| ..|.++-|-..|+-+++.|+.+.
T Consensus 78 ~r~~Il~ai~~~~VviI~GeTGSGKTTqlPq~lle~g-~g~~g~I~~TQPRRlAArsLA~RVA~E 141 (1294)
T PRK11131 78 KKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELG-RGVKGLIGHTQPRRLAARTVANRIAEE 141 (1294)
T ss_pred HHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHcC-CCCCCceeeCCCcHHHHHHHHHHHHHH
Confidence 3445666666688999999999999997765555432 22 36777789999999999998653
No 134
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=97.56 E-value=0.00015 Score=80.87 Aligned_cols=54 Identities=20% Similarity=0.238 Sum_probs=39.9
Q ss_pred CeEEccCCCCCCccccEEEEEEeecCCCCccc------------cC-CCCCceeeeecccccceEEE
Q 006386 560 NMEVSTVDGFQGREKEAIIISMVRSNSKKEVG------------FL-SDRRRMNVAVTRARRQCCLV 613 (647)
Q Consensus 560 ~i~v~Tvd~fQG~E~diVIis~vrs~~~~~~g------------fl-~d~rrlnVAlTRAk~~l~iv 613 (647)
.+..+|+|..+|.|+|+|-+.+.+....+..- +. ..++-+|||+||||+++|.-
T Consensus 674 ~~~l~Tih~akglefd~v~~~n~~~~~~~s~~~~~r~~~~r~~t~~~~e~n~lyV~vtRakkrl~~~ 740 (853)
T KOG2108|consen 674 NVILGTIHQAKGLEFDNVHLQNDFVKVFGSVSNFERLPSFRVETYNEDEWNFLYVAVTRAKKRLIMC 740 (853)
T ss_pred hhhhHHHHhccCcccceeecccCcccccccccchhhcchhhhhhhhhhhhhheeeeecchhhhcccc
Confidence 36789999999999999999876543322211 11 23688999999999977764
No 135
>PRK08181 transposase; Validated
Probab=97.56 E-value=0.00018 Score=72.27 Aligned_cols=55 Identities=25% Similarity=0.368 Sum_probs=46.0
Q ss_pred CCCCCHHHHHHHHHHH---ccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 194 NSNLDHSQKDAISKAL---SSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l---~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
.+.++..|..++..+- ......+++||||||||+.+.++...++..|.+|+++..
T Consensus 85 ~~~~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~ 142 (269)
T PRK08181 85 VPMVSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT 142 (269)
T ss_pred CCCCCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeH
Confidence 4678999999987552 245578999999999999999999999999999988763
No 136
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.56 E-value=0.00023 Score=74.07 Aligned_cols=47 Identities=23% Similarity=0.307 Sum_probs=37.3
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc-ch--HHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA-SN--IAVDNIVER 259 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~-tn--~Avd~l~~r 259 (647)
...++.||+|+|||||+..++..+...|.+|++++- +. .|++.+..-
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~y 291 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDY 291 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHH
Confidence 467899999999999999999999988888876654 43 366666553
No 137
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=97.55 E-value=0.00021 Score=78.60 Aligned_cols=45 Identities=22% Similarity=0.463 Sum_probs=39.8
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
...+|.|-+||||||.|..+...+ +.+|+++|..|+.|+..+|..
T Consensus 72 s~~~itG~AGsGKst~i~~l~~~l-----~cvitg~T~vAAqN~~~~L~~ 116 (828)
T PHA03311 72 SVYLITGTAGAGKSTSIQTLNENL-----DCVITGATRVAAQNLSAKLSR 116 (828)
T ss_pred EEEEEecCCCCChHHHHHHHHHhc-----CEEEEcchHHHHHhhhccccc
Confidence 367999999999999998887776 888999999999999988763
No 138
>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=97.54 E-value=0.0012 Score=70.23 Aligned_cols=45 Identities=31% Similarity=0.368 Sum_probs=35.4
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec-cch--HHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA-ASN--IAVDNIV 257 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a-~tn--~Avd~l~ 257 (647)
.+.++.||||+|||||+..++..+.+.|.+|++++ -+. .|++.+.
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk 148 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLK 148 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHH
Confidence 46789999999999999999999888888877654 333 4555553
No 139
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.54 E-value=0.0009 Score=79.44 Aligned_cols=64 Identities=14% Similarity=0.245 Sum_probs=50.8
Q ss_pred CCCHHHHH---HHHHHHccCCeEEEEcCCCCchHHH-HHHHHHHHHHCCCeEEEeccchHHHHHHHHH
Q 006386 196 NLDHSQKD---AISKALSSKNVFMLHGPPGTGKTTT-VVEIILQEVKRGSKILACAASNIAVDNIVER 259 (647)
Q Consensus 196 ~Ln~~Q~~---Av~~~l~~~~~~lI~GpPGTGKT~t-i~~~i~~l~~~~~~ILv~a~tn~Avd~l~~r 259 (647)
..-+.|.+ +|..++......+|.+|+|||||.. ++-.+......+++|+|.|+|..--+.+..+
T Consensus 257 e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 257 EKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred cCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHh
Confidence 44578888 7888887778889999999999975 3333444455789999999999999998765
No 140
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=97.54 E-value=0.00011 Score=70.03 Aligned_cols=50 Identities=26% Similarity=0.410 Sum_probs=41.1
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHR 264 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~ 264 (647)
.++|.||||||||+.+..++...++.|.++++++... ..+.+.+++...+
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~-~~~~~~~~~~~~g 50 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEE-SPEELIENAESLG 50 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCC-CHHHHHHHHHHcC
Confidence 3689999999999999999999999999999998754 4566666665443
No 141
>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=97.53 E-value=0.0013 Score=66.59 Aligned_cols=40 Identities=23% Similarity=0.350 Sum_probs=28.3
Q ss_pred CHHHHHHHHHHH---c-cCCeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 198 DHSQKDAISKAL---S-SKNVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 198 n~~Q~~Av~~~l---~-~~~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
++.+++++.... . ..++.+|.||||+||||++..+...+.
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 455555555432 2 245899999999999999988766543
No 142
>PF13173 AAA_14: AAA domain
Probab=97.53 E-value=0.00029 Score=62.72 Aligned_cols=41 Identities=24% Similarity=0.375 Sum_probs=33.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAV 253 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Av 253 (647)
+++.+|.||.|+||||++..++..+. .+.+++.+.......
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~ 42 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRD 42 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHH
Confidence 57899999999999999999998877 666777777655443
No 143
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.51 E-value=0.00031 Score=74.22 Aligned_cols=47 Identities=32% Similarity=0.369 Sum_probs=33.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHH----CCCeEEEec-cc--hHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVK----RGSKILACA-AS--NIAVDNIVE 258 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~----~~~~ILv~a-~t--n~Avd~l~~ 258 (647)
..+.++.||+|+|||||++.++..+.. .|.+|.+++ -| ..|++.+..
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~ 227 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQT 227 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHH
Confidence 357889999999999999999988763 466776554 33 445555433
No 144
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.51 E-value=0.0002 Score=70.90 Aligned_cols=50 Identities=32% Similarity=0.454 Sum_probs=41.0
Q ss_pred CHHHHHHHHHHHc-----c--CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 198 DHSQKDAISKALS-----S--KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 198 n~~Q~~Av~~~l~-----~--~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
++.|+.|+..+.. . ....++.||||||||+++.+++.++...|.+|++++
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it 134 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT 134 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 5667777766653 1 146899999999999999999999999999998884
No 145
>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=97.51 E-value=0.00042 Score=74.18 Aligned_cols=57 Identities=26% Similarity=0.288 Sum_probs=38.3
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHH-HCCCeEEEec-cchH--HHHHHHHHhcccCceEEE
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEV-KRGSKILACA-ASNI--AVDNIVERLVPHRVRLVR 269 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~-~~~~~ILv~a-~tn~--Avd~l~~rl~~~~~~~vr 269 (647)
.+.++.||||+|||||++.++..+. +.|.+|++++ -+.. |.+.+...-...++.++.
T Consensus 100 ~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~ 160 (428)
T TIGR00959 100 TVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFA 160 (428)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEe
Confidence 3678999999999999999999986 5777776554 4443 344444333333444443
No 146
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=97.51 E-value=0.00096 Score=70.07 Aligned_cols=30 Identities=23% Similarity=0.300 Sum_probs=24.8
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHH-HHHCC
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQ-EVKRG 240 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~-l~~~~ 240 (647)
.+...+..||||||||++..++... .+..|
T Consensus 208 ~~~Nli~lGp~GTGKThla~~l~~~~a~~sG 238 (449)
T TIGR02688 208 PNYNLIELGPKGTGKSYIYNNLSPYVILISG 238 (449)
T ss_pred cCCcEEEECCCCCCHHHHHHHHhHHHHHHcC
Confidence 4567899999999999999987776 56666
No 147
>PRK12377 putative replication protein; Provisional
Probab=97.51 E-value=0.0002 Score=71.06 Aligned_cols=51 Identities=27% Similarity=0.442 Sum_probs=39.4
Q ss_pred CHHHHHHHHHHHc-------cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 198 DHSQKDAISKALS-------SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 198 n~~Q~~Av~~~l~-------~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
++.|..|+..+.. .....+++||||||||+.+.+++..+...|..|++++.
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~ 137 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTV 137 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEH
Confidence 4566666654432 22468999999999999999999999999988876654
No 148
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=97.50 E-value=0.0021 Score=59.69 Aligned_cols=58 Identities=22% Similarity=0.311 Sum_probs=43.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHH----HHHHHHHhcccCceEEEeCC
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIA----VDNIVERLVPHRVRLVRLGH 272 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~A----vd~l~~rl~~~~~~~vr~g~ 272 (647)
.+.+.|.+|+|.||||.+..++.+.+..|.+|+++=|-... =.++.+++ ++.+.+.|.
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~---~~~~~~~g~ 66 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPH---GVEFQVMGT 66 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhc---CcEEEECCC
Confidence 57899999999999999999999999999999988443322 23344443 556666664
No 149
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.49 E-value=0.00051 Score=77.85 Aligned_cols=68 Identities=22% Similarity=0.354 Sum_probs=59.6
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHH----------CCCeEEEeccchHHHHHHHHHhcc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVK----------RGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~----------~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..||.-|..+.-.|..++...||++|-|+|||-++.-.|.++++ .+-+|+.+||+.+.|.++.+...+
T Consensus 109 ~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~k 186 (1230)
T KOG0952|consen 109 EEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSK 186 (1230)
T ss_pred HHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhh
Confidence 46899999999999999999999999999999988777777776 346999999999999999887654
No 150
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.49 E-value=0.00041 Score=72.65 Aligned_cols=37 Identities=43% Similarity=0.627 Sum_probs=30.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHC-C-CeEEEecc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKR-G-SKILACAA 248 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~-~~ILv~a~ 248 (647)
.+++++.||+|+|||||+..++..++.. | .+|.+++.
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~ 175 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTT 175 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEec
Confidence 4689999999999999999999987643 5 57766653
No 151
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=97.47 E-value=0.0006 Score=76.33 Aligned_cols=36 Identities=25% Similarity=0.331 Sum_probs=26.8
Q ss_pred HHHHHHHccCCe---EEEEcCCCCchHHHHHHHHHHHHH
Q 006386 203 DAISKALSSKNV---FMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 203 ~Av~~~l~~~~~---~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
+++..++..+.+ .|++||||+||||++..++..+..
T Consensus 26 ~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c 64 (647)
T PRK07994 26 TALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNC 64 (647)
T ss_pred HHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence 345555554433 689999999999999888877754
No 152
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=97.44 E-value=0.00065 Score=77.66 Aligned_cols=65 Identities=15% Similarity=0.152 Sum_probs=50.2
Q ss_pred CCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 197 LDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
+++-|.+++-.++...+ .+.+.+.|||||.+.+--+..-+..+..++|++||...+....+-+..
T Consensus 93 ~tp~qvQ~I~~i~l~~g-vIAeaqTGeGKTLAf~LP~l~~aL~g~~v~IVTpTrELA~Qdae~m~~ 157 (970)
T PRK12899 93 MVPYDVQILGAIAMHKG-FITEMQTGEGKTLTAVMPLYLNALTGKPVHLVTVNDYLAQRDCEWVGS 157 (970)
T ss_pred CChHHHHHhhhhhcCCC-eEEEeCCCCChHHHHHHHHHHHHhhcCCeEEEeCCHHHHHHHHHHHHH
Confidence 78999998888877444 889999999999987655554444566799999999888777666543
No 153
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=97.44 E-value=0.00069 Score=77.63 Aligned_cols=64 Identities=28% Similarity=0.450 Sum_probs=52.7
Q ss_pred HHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHH-HCCCeEEEeccchHHHHHHHHHhccc
Q 006386 200 SQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEV-KRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 200 ~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~-~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+..+..++..+.+++|.||||+||||-+-..+...- ..+.+|.++=|-..|+-++.+|+.+.
T Consensus 53 ~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAee 117 (845)
T COG1643 53 AVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEE 117 (845)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHH
Confidence 44555667777789999999999999999988887764 33468999999999999999999764
No 154
>PRK06526 transposase; Provisional
Probab=97.44 E-value=0.00014 Score=72.55 Aligned_cols=55 Identities=24% Similarity=0.475 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHH--HccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 194 NSNLDHSQKDAISKA--LSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~--l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
...++..|...+... +......++.||||||||+++.++...++..|.+|++.+.
T Consensus 78 ~~~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~ 134 (254)
T PRK06526 78 QRSLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATA 134 (254)
T ss_pred CCCcchHHHHHHhcCchhhcCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhH
Confidence 356788776654322 1235678999999999999999999999999999877544
No 155
>COG4889 Predicted helicase [General function prediction only]
Probab=97.42 E-value=0.001 Score=73.84 Aligned_cols=60 Identities=23% Similarity=0.175 Sum_probs=47.5
Q ss_pred CCCCCHHHHHHHHHHHc----cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHH
Q 006386 194 NSNLDHSQKDAISKALS----SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNI 256 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l~----~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l 256 (647)
..++-+.|+.|+.+++. +..=-||.+ ||||||.|...+...+.. .+||.++||-+..-.-
T Consensus 159 ~kk~R~hQq~Aid~a~~~F~~n~RGkLIMA-cGTGKTfTsLkisEala~--~~iL~LvPSIsLLsQT 222 (1518)
T COG4889 159 PKKPRPHQQTAIDAAKEGFSDNDRGKLIMA-CGTGKTFTSLKISEALAA--ARILFLVPSISLLSQT 222 (1518)
T ss_pred CCCCChhHHHHHHHHHhhcccccCCcEEEe-cCCCccchHHHHHHHHhh--hheEeecchHHHHHHH
Confidence 45789999999999986 223356666 899999999988887765 7999999998765443
No 156
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=97.41 E-value=0.00039 Score=70.79 Aligned_cols=36 Identities=36% Similarity=0.540 Sum_probs=30.2
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHC-C-CeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKR-G-SKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~-~-~~ILv~a~ 248 (647)
.++++.||+|+|||||+..++..+... | .+|.+++.
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 478899999999999999999998765 4 78776654
No 157
>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=97.37 E-value=0.00034 Score=65.98 Aligned_cols=53 Identities=30% Similarity=0.547 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHH--HccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 196 NLDHSQKDAISKA--LSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~--l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
..+..|...+... +......+++||||||||+.+++++..++..|.+++++..
T Consensus 29 ~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~ 83 (178)
T PF01695_consen 29 GIDKAQIAQLAALEFIENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITA 83 (178)
T ss_dssp -----HHHHHHHH-S-SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEH
T ss_pred hHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeec
Confidence 3444444444222 1234568999999999999999999999999999988864
No 158
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.37 E-value=0.00095 Score=69.32 Aligned_cols=54 Identities=26% Similarity=0.240 Sum_probs=40.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec-cch--HHHHHHHHHhcccCc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA-ASN--IAVDNIVERLVPHRV 265 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a-~tn--~Avd~l~~rl~~~~~ 265 (647)
..++++.||.|+|||||+..++..+...|.+|.+++ -|- .|++.+...-...++
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgv 262 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDV 262 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCC
Confidence 457889999999999999999999888888886554 343 356666555443333
No 159
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.36 E-value=0.00081 Score=72.31 Aligned_cols=24 Identities=29% Similarity=0.494 Sum_probs=20.9
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
..|++||||||||+++..++..+.
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~Ln 65 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKRLN 65 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcC
Confidence 369999999999999988887764
No 160
>PRK09183 transposase/IS protein; Provisional
Probab=97.33 E-value=0.00044 Score=69.49 Aligned_cols=55 Identities=22% Similarity=0.404 Sum_probs=43.6
Q ss_pred CCCCCCHHHHHHHHHH--HccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 193 FNSNLDHSQKDAISKA--LSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 193 ~~~~Ln~~Q~~Av~~~--l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
+.+.+|..|...+... +.....++|.||||||||+.+..+...+...|.+|+++.
T Consensus 81 ~~~~~~~~~i~~L~~~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~ 137 (259)
T PRK09183 81 FATGAPQKQLQSLRSLSFIERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT 137 (259)
T ss_pred cCCCCCHHHHHHHhcCCchhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 4567888887777543 234567889999999999999999888888899998775
No 161
>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=97.32 E-value=0.00074 Score=77.28 Aligned_cols=67 Identities=15% Similarity=0.109 Sum_probs=50.2
Q ss_pred CCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHH---CCCeEEEeccchHHHHHHHHHhccc
Q 006386 197 LDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVK---RGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~---~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
.++-|.+++..++......+++.|.|||||.+++.-+..+.. ..+++++++||..-|+.+.+.+.+.
T Consensus 16 PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~ 85 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKI 85 (844)
T ss_pred CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHH
Confidence 789999999999974457888999999999866422222211 1346777889999999998887654
No 162
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=97.31 E-value=0.0021 Score=71.87 Aligned_cols=66 Identities=17% Similarity=0.051 Sum_probs=53.9
Q ss_pred CCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 194 NSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
.....+-|..++-.++. .. +.+...|+|||.+.+-.+......|..++|+|||...+....+-+.+
T Consensus 101 g~~p~~VQ~~~~~~ll~-G~--Iae~~TGeGKTla~~lp~~~~al~G~~v~VvTptreLA~qdae~~~~ 166 (656)
T PRK12898 101 GQRHFDVQLMGGLALLS-GR--LAEMQTGEGKTLTATLPAGTAALAGLPVHVITVNDYLAERDAELMRP 166 (656)
T ss_pred CCCCChHHHHHHHHHhC-CC--eeeeeCCCCcHHHHHHHHHHHhhcCCeEEEEcCcHHHHHHHHHHHHH
Confidence 34567899999988886 33 89999999999988877777677899999999999888777666544
No 163
>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=97.30 E-value=0.0002 Score=64.08 Aligned_cols=44 Identities=25% Similarity=0.423 Sum_probs=34.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDN 255 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~ 255 (647)
...++|.||||||||+++..++..+...+..+++++.+......
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~ 45 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEV 45 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccC
Confidence 46789999999999999999988877666567777776644433
No 164
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.30 E-value=0.00053 Score=74.01 Aligned_cols=56 Identities=25% Similarity=0.450 Sum_probs=45.4
Q ss_pred HHccCCeEEEEcCCCCchHHHHHHHHHHH--HHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 208 ALSSKNVFMLHGPPGTGKTTTVVEIILQE--VKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 208 ~l~~~~~~lI~GpPGTGKT~ti~~~i~~l--~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
+...+.+.+|.|-+||||||-|-..+... .+.|++|-++-|-..|+..++.|+.+.
T Consensus 276 av~e~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~E 333 (902)
T KOG0923|consen 276 AVKEHQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAEE 333 (902)
T ss_pred HHHhCcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHHH
Confidence 33357899999999999999887766543 345677999999999999999998764
No 165
>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=97.28 E-value=0.00039 Score=68.55 Aligned_cols=53 Identities=26% Similarity=0.560 Sum_probs=42.2
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEeccchHHHHHHHHHhcccC
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACAASNIAVDNIVERLVPHR 264 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a~tn~Avd~l~~rl~~~~ 264 (647)
....++|.||||||||+.+...+...+++ |.++++++.... .+++.+.+...+
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~-~~~l~~~~~s~g 71 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEP-PEELIENMKSFG 71 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS--HHHHHHHHHTTT
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCC-HHHHHHHHHHcC
Confidence 35689999999999999999999998888 999999997554 477777776654
No 166
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=97.28 E-value=0.00079 Score=72.44 Aligned_cols=36 Identities=31% Similarity=0.411 Sum_probs=29.5
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHH--HCCCeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEV--KRGSKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~--~~~~~ILv~a~ 248 (647)
.++++.||+|+|||||++.++..+. ..|.+|.+++.
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~ 259 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITL 259 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 4788999999999999999998887 45677776543
No 167
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=97.28 E-value=0.0022 Score=72.10 Aligned_cols=34 Identities=26% Similarity=0.369 Sum_probs=25.3
Q ss_pred HHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 204 AISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 204 Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
.+.+++..+ ..+|++|||||||||++..+.+.+.
T Consensus 27 ~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLn 63 (830)
T PRK07003 27 ALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALN 63 (830)
T ss_pred HHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 444545432 3568999999999999988888775
No 168
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.26 E-value=0.002 Score=70.96 Aligned_cols=35 Identities=29% Similarity=0.390 Sum_probs=25.7
Q ss_pred HHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 203 DAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 203 ~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
+++.+++..+ ...|++||||||||+++..++..+.
T Consensus 26 ~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (509)
T PRK14958 26 RALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLN 63 (509)
T ss_pred HHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhc
Confidence 3455555422 3468999999999999988887774
No 169
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.24 E-value=0.0011 Score=73.38 Aligned_cols=44 Identities=36% Similarity=0.434 Sum_probs=30.4
Q ss_pred CCCCEEEEecCCCcchHHHHHHHHh-------cCeeeecC-CCCCCCceeccH
Q 006386 368 TSFDLVIIDEAAQALEIACWIALLK-------GSRCILAG-DHLQLPPTVQSV 412 (647)
Q Consensus 368 ~~fd~vIIDEAsq~~e~~~l~~l~~-------~~~~vlvG-D~~QL~p~v~s~ 412 (647)
.+|.++||||+.+++... .-.|++ ...|||+. |+.+++|++.|.
T Consensus 123 gr~KViIIDEah~Ls~~A-aNALLKTLEEPP~~v~FILaTtep~kLlpTIrSR 174 (700)
T PRK12323 123 GRFKVYMIDEVHMLTNHA-FNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR 174 (700)
T ss_pred CCceEEEEEChHhcCHHH-HHHHHHhhccCCCCceEEEEeCChHhhhhHHHHH
Confidence 378999999998776543 334443 24666665 577789998875
No 170
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=97.23 E-value=0.0021 Score=71.72 Aligned_cols=68 Identities=21% Similarity=0.258 Sum_probs=57.2
Q ss_pred CCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHH--CCCeEEEeccchHHHHHHHHHhccc
Q 006386 194 NSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVK--RGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~--~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
+..|-.-|.+.+..||. ..++|..|-|+|||.+++-++...++ ++.+|+++|||.--|..-..++...
T Consensus 60 ~~~lR~YQ~eivq~ALg--kNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~ 129 (746)
T KOG0354|consen 60 NLELRNYQEELVQPALG--KNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIY 129 (746)
T ss_pred cccccHHHHHHhHHhhc--CCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhc
Confidence 45688999999999994 67999999999999999999988875 3579999999998887766665443
No 171
>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=97.23 E-value=0.00098 Score=75.49 Aligned_cols=64 Identities=11% Similarity=0.098 Sum_probs=46.4
Q ss_pred CCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhc
Q 006386 197 LDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
+.+-|.+++.......+ .+++-+.|||||.|.+--+......|..++|++||...+....+.+.
T Consensus 69 lrpydVQlig~l~l~~G-~Iaem~TGeGKTLta~Lpa~l~aL~g~~V~VVTpn~yLA~Rdae~m~ 132 (762)
T TIGR03714 69 MFPYDVQVLGAIVLHQG-NIAEMKTGEGKTLTATMPLYLNALTGKGAMLVTTNDYLAKRDAEEMG 132 (762)
T ss_pred CCccHHHHHHHHHhcCC-ceeEecCCcchHHHHHHHHHHHhhcCCceEEeCCCHHHHHHHHHHHH
Confidence 44445555554443345 69999999999998776655545578899999999988877776653
No 172
>PRK06893 DNA replication initiation factor; Validated
Probab=97.22 E-value=0.0018 Score=63.97 Aligned_cols=38 Identities=13% Similarity=0.189 Sum_probs=33.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAAS 249 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~t 249 (647)
++..+++||||||||+.+.++...+...+.++.++..+
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~ 76 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS 76 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence 45679999999999999999999998888888777664
No 173
>PRK13342 recombination factor protein RarA; Reviewed
Probab=97.21 E-value=0.0012 Score=71.25 Aligned_cols=34 Identities=15% Similarity=0.208 Sum_probs=23.4
Q ss_pred CCCEEEEecCCCcchH--HHHHHHHhcCeeeecCCC
Q 006386 369 SFDLVIIDEAAQALEI--ACWIALLKGSRCILAGDH 402 (647)
Q Consensus 369 ~fd~vIIDEAsq~~e~--~~l~~l~~~~~~vlvGD~ 402 (647)
...+|||||+..+... ..+.+.+....++++|-.
T Consensus 92 ~~~vL~IDEi~~l~~~~q~~LL~~le~~~iilI~at 127 (413)
T PRK13342 92 RRTILFIDEIHRFNKAQQDALLPHVEDGTITLIGAT 127 (413)
T ss_pred CceEEEEechhhhCHHHHHHHHHHhhcCcEEEEEeC
Confidence 4579999999877543 345555555677777754
No 174
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=97.19 E-value=0.00069 Score=67.75 Aligned_cols=38 Identities=34% Similarity=0.504 Sum_probs=33.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAAS 249 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~t 249 (647)
....++.||||||||+.++++...+++.|.+|++++.+
T Consensus 105 ~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~ 142 (254)
T COG1484 105 GENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAP 142 (254)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence 45789999999999999999999999889999988753
No 175
>PRK04195 replication factor C large subunit; Provisional
Probab=97.18 E-value=0.0022 Score=70.77 Aligned_cols=40 Identities=28% Similarity=0.468 Sum_probs=29.0
Q ss_pred CCHHHHHHHHHHHcc------CCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 197 LDHSQKDAISKALSS------KNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~------~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.++.+.+.+...+.. ...++|+||||||||+++..++..+
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 355555556555431 4679999999999999998877664
No 176
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=97.16 E-value=0.0043 Score=71.38 Aligned_cols=62 Identities=18% Similarity=0.327 Sum_probs=48.9
Q ss_pred CHHHHH---HHHHHHcc-----CCeEEEEcCCCCchHHH-HHHHHHHHHHCCCeEEEeccchHHHHHHHHH
Q 006386 198 DHSQKD---AISKALSS-----KNVFMLHGPPGTGKTTT-VVEIILQEVKRGSKILACAASNIAVDNIVER 259 (647)
Q Consensus 198 n~~Q~~---Av~~~l~~-----~~~~lI~GpPGTGKT~t-i~~~i~~l~~~~~~ILv~a~tn~Avd~l~~r 259 (647)
=+.|.+ +|..++.. ....+|.+|.|||||.- ++-.+....+.+++|+|-|.|..--+.|..+
T Consensus 27 R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k~vVIST~T~~LQeQL~~k 97 (697)
T PRK11747 27 RAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKKKLVISTATVALQEQLVSK 97 (697)
T ss_pred CHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCCeEEEEcCCHHHHHHHHhh
Confidence 456766 77778874 36889999999999974 4445555567899999999999998888765
No 177
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=97.15 E-value=0.0038 Score=69.94 Aligned_cols=37 Identities=27% Similarity=0.364 Sum_probs=26.7
Q ss_pred HHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 203 DAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 203 ~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
+.+..++..+ ..+|++||||+|||+++..++..+...
T Consensus 26 ~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 26 KALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred HHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 3444545433 246999999999999999888877543
No 178
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=97.15 E-value=0.0027 Score=70.41 Aligned_cols=68 Identities=21% Similarity=0.174 Sum_probs=52.4
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHH-HHHHHHHHH--HCCC-e-EEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTT-VVEIILQEV--KRGS-K-ILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t-i~~~i~~l~--~~~~-~-ILv~a~tn~Avd~l~~rl~~~ 263 (647)
...++-|..++-.++. ..-.+++++.|||||.. ++-++..+. .... . .||++||...+..+.+-+...
T Consensus 50 ~~pt~IQ~~~IP~~l~-g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~ 122 (513)
T COG0513 50 EEPTPIQLAAIPLILA-GRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKL 122 (513)
T ss_pred CCCCHHHHHHHHHHhC-CCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHH
Confidence 4568999999999997 56788999999999864 445555544 2222 2 899999999999998877654
No 179
>PRK05973 replicative DNA helicase; Provisional
Probab=97.14 E-value=0.00083 Score=65.98 Aligned_cols=53 Identities=21% Similarity=0.326 Sum_probs=45.2
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccC
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHR 264 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~ 264 (647)
...+++|.|+||+|||+....++...++.|.++++.+.--. .+.+.+|+...+
T Consensus 63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes-~~~i~~R~~s~g 115 (237)
T PRK05973 63 PGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYT-EQDVRDRLRALG 115 (237)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCC-HHHHHHHHHHcC
Confidence 45689999999999999999999999889999999987655 578888876654
No 180
>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=97.14 E-value=0.00086 Score=67.53 Aligned_cols=52 Identities=23% Similarity=0.419 Sum_probs=42.1
Q ss_pred CCCHHHHHHHHHHHc-cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 196 NLDHSQKDAISKALS-SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~-~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
.+.+.|.+++..++. ..++++|.||+||||||++..++..+...+.+|+.+-
T Consensus 63 g~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiE 115 (264)
T cd01129 63 GLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVE 115 (264)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEEC
Confidence 478889999888775 4679999999999999999988887755556666654
No 181
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.13 E-value=0.0018 Score=71.88 Aligned_cols=35 Identities=29% Similarity=0.362 Sum_probs=25.8
Q ss_pred HHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 203 DAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 203 ~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
+.+..++..+ ..+|+.||||||||+++..++..+.
T Consensus 25 ~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 25 RALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred HHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence 3445555422 3569999999999999988887764
No 182
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.12 E-value=0.0029 Score=69.64 Aligned_cols=203 Identities=18% Similarity=0.248 Sum_probs=120.7
Q ss_pred CCCCCCCCHHHHHHHHHHHc--cCC---eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc--
Q 006386 191 KPFNSNLDHSQKDAISKALS--SKN---VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH-- 263 (647)
Q Consensus 191 ~~~~~~Ln~~Q~~Av~~~l~--~~~---~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~-- 263 (647)
..++.+|+..|++++..+.. +.+ .-||||-=|||||-+++-.+...+..|.++.++|||...+..-.+.+.+.
T Consensus 257 ~~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~ 336 (677)
T COG1200 257 AALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWLE 336 (677)
T ss_pred HhCCCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHhh
Confidence 34567999999999999886 122 35899999999999999999999999999999999998887766665443
Q ss_pred --CceEEEeCCCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 006386 264 --RVRLVRLGHPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQL 341 (647)
Q Consensus 264 --~~~~vr~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~ 341 (647)
++.+.-+-..-. ...++ .
T Consensus 337 ~~~i~V~lLtG~~k------------------------------------------gk~r~------------------~ 356 (677)
T COG1200 337 PLGIRVALLTGSLK------------------------------------------GKARK------------------E 356 (677)
T ss_pred hcCCeEEEeecccc------------------------------------------hhHHH------------------H
Confidence 433322211100 00111 1
Q ss_pred HHHHHh-hcCceeeeccccccccccCCCCCCEEEEecCCCcchHHHHHHHHhcCeeeecCCCCCCC----ceeccH-HHH
Q 006386 342 AVTDVI-KNADVVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIALLKGSRCILAGDHLQLP----PTVQSV-EAE 415 (647)
Q Consensus 342 ~~~~~l-~~~~vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~vlvGD~~QL~----p~v~s~-~~~ 415 (647)
....+. .+.++|+.|-.-. .......+.-+|||||=...=-.+-....-+|.. -|++|- |+=++- -..
T Consensus 357 ~l~~l~~G~~~ivVGTHALi-Qd~V~F~~LgLVIiDEQHRFGV~QR~~L~~KG~~-----~Ph~LvMTATPIPRTLAlt~ 430 (677)
T COG1200 357 ILEQLASGEIDIVVGTHALI-QDKVEFHNLGLVIIDEQHRFGVHQRLALREKGEQ-----NPHVLVMTATPIPRTLALTA 430 (677)
T ss_pred HHHHHhCCCCCEEEEcchhh-hcceeecceeEEEEeccccccHHHHHHHHHhCCC-----CCcEEEEeCCCchHHHHHHH
Confidence 112222 3578888885432 2333344678999999766655554444445543 344431 111110 111
Q ss_pred hcCCCCCHHHHHHHHcCCcccchhhHhhcChhHHHHhhHhhhcCCC
Q 006386 416 KKGLGRTLFERLADLYGDEVTSMLTVQYRMHEHIMNWSSKQLYNSK 461 (647)
Q Consensus 416 ~~g~~~Slf~rl~~~~~~~~~~~L~~qyRm~~~I~~~~s~~fY~~~ 461 (647)
...++.|....+-. +..+..........-+.+.++..+..-+|+
T Consensus 431 fgDldvS~IdElP~--GRkpI~T~~i~~~~~~~v~e~i~~ei~~Gr 474 (677)
T COG1200 431 FGDLDVSIIDELPP--GRKPITTVVIPHERRPEVYERIREEIAKGR 474 (677)
T ss_pred hccccchhhccCCC--CCCceEEEEeccccHHHHHHHHHHHHHcCC
Confidence 23355554443321 111233444555677888888877776664
No 183
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=97.10 E-value=0.0011 Score=68.39 Aligned_cols=52 Identities=23% Similarity=0.356 Sum_probs=42.3
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHH--CCCeEEEe
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVK--RGSKILAC 246 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~--~~~~ILv~ 246 (647)
..++++|.+.+..++......+|.||+||||||++.+++..+.. .+.+|+++
T Consensus 127 g~~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivti 180 (323)
T PRK13833 127 KIMTEAQASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVIL 180 (323)
T ss_pred CCCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEe
Confidence 35789999999999887788999999999999999888877653 34566553
No 184
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=97.10 E-value=0.0017 Score=70.33 Aligned_cols=36 Identities=33% Similarity=0.484 Sum_probs=31.6
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
...+|+||||+|||+.+.++...+...+.+|+.++.
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeH
Confidence 467899999999999999999998888888887764
No 185
>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=97.08 E-value=0.00075 Score=67.02 Aligned_cols=53 Identities=21% Similarity=0.318 Sum_probs=43.8
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccC
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHR 264 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~ 264 (647)
....++|.||||||||+.+..++...++.|.++++++.. ...+++.+++...+
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~e-e~~~~i~~~~~~~g 72 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALE-EHPVQVRRNMAQFG 72 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEee-CCHHHHHHHHHHhC
Confidence 356899999999999999999998888899999999964 46667777766543
No 186
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.08 E-value=0.0015 Score=73.12 Aligned_cols=35 Identities=26% Similarity=0.399 Sum_probs=26.0
Q ss_pred HHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 204 AISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 204 Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
.+..++..+ ..+|++|||||||||++..++..+..
T Consensus 27 ~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 27 ALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 444555432 34699999999999999888888754
No 187
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.06 E-value=0.0032 Score=70.99 Aligned_cols=26 Identities=27% Similarity=0.439 Sum_probs=22.4
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
...|++||||||||+++..++..+..
T Consensus 39 ~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 39 PAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred ceEEEECCCCCChHHHHHHHHHHhcC
Confidence 35699999999999999999888754
No 188
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=97.04 E-value=0.0014 Score=74.57 Aligned_cols=68 Identities=24% Similarity=0.290 Sum_probs=55.5
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHH-HHHHHHHHCC-------CeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVV-EIILQEVKRG-------SKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~-~~i~~l~~~~-------~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+++.|..|+..+.. ...+||.+|-|||||-++. -++..+++.+ -.+|+++|=.+....+..||...
T Consensus 21 ~~~t~~Q~~a~~~i~~-G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~ 96 (814)
T COG1201 21 TSLTPPQRYAIPEIHS-GENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEP 96 (814)
T ss_pred CCCCHHHHHHHHHHhC-CCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHH
Confidence 4689999999999996 7789999999999998764 4445555552 47899999999999998888654
No 189
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=97.03 E-value=0.0043 Score=71.39 Aligned_cols=68 Identities=19% Similarity=0.363 Sum_probs=51.7
Q ss_pred CCCHHHHHHHH---HHHccCCeEEEEcCCCCchHHHH-HHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 196 NLDHSQKDAIS---KALSSKNVFMLHGPPGTGKTTTV-VEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 196 ~Ln~~Q~~Av~---~~l~~~~~~lI~GpPGTGKT~ti-~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..-+.|...+. .++......+|++|.|||||... +..+......+++|++++.|+..-+.+.++....
T Consensus 15 ~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~~lq~q~~~~~~~~ 86 (654)
T COG1199 15 EPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTKALQEQLLEEDLPI 86 (654)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCHHHHHHHHHhhcch
Confidence 44567766554 44555566999999999999854 4445555667899999999999999999987654
No 190
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=97.02 E-value=0.0066 Score=63.50 Aligned_cols=58 Identities=26% Similarity=0.314 Sum_probs=44.5
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec---cchHHHHHHHHHhcccCceEEEe
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA---ASNIAVDNIVERLVPHRVRLVRL 270 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a---~tn~Avd~l~~rl~~~~~~~vr~ 270 (647)
.+.+..|-=|+|||||+..++.++.+.|+++|++| +--+|.+.|..--.+.++.++..
T Consensus 101 ~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~ 161 (451)
T COG0541 101 TVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGS 161 (451)
T ss_pred eEEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecC
Confidence 35678999999999999999999999998888764 44567777766555556655444
No 191
>PRK08116 hypothetical protein; Validated
Probab=97.02 E-value=0.0014 Score=66.09 Aligned_cols=50 Identities=24% Similarity=0.309 Sum_probs=38.5
Q ss_pred CHHHHHHHHHHHc----------cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 198 DHSQKDAISKALS----------SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 198 n~~Q~~Av~~~l~----------~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
++.|..|+..+.. .+..++++|+||||||+.+.+++..+.+.+.+++++.
T Consensus 90 ~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~ 149 (268)
T PRK08116 90 DKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN 149 (268)
T ss_pred ChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence 5666666555431 1224889999999999999999999998888887775
No 192
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=97.02 E-value=0.0011 Score=65.54 Aligned_cols=51 Identities=10% Similarity=0.270 Sum_probs=40.8
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
...+++|.||||||||+.+..++..++++|.++++++..... +++.+.+.+
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~-~~~~~~~~~ 73 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTT-TEFIKQMMS 73 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHHHH
Confidence 356899999999999999999999998999999999865544 455554443
No 193
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=97.02 E-value=0.0085 Score=69.91 Aligned_cols=77 Identities=21% Similarity=0.297 Sum_probs=62.5
Q ss_pred CCCCCCCCHHHHHHHHHHHc---cCCe--EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHH----HHHHHhc
Q 006386 191 KPFNSNLDHSQKDAISKALS---SKNV--FMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVD----NIVERLV 261 (647)
Q Consensus 191 ~~~~~~Ln~~Q~~Av~~~l~---~~~~--~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd----~l~~rl~ 261 (647)
..|+..-++.|..||..+.. +..+ -||+|--|=|||-+++.++-..+..|++|.|++||--.+. ++.+|+.
T Consensus 589 ~~FPyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~GKQVAvLVPTTlLA~QHy~tFkeRF~ 668 (1139)
T COG1197 589 ASFPYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDGKQVAVLVPTTLLAQQHYETFKERFA 668 (1139)
T ss_pred hcCCCcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCCCeEEEEcccHHhHHHHHHHHHHHhc
Confidence 34677889999999998876 2233 4999999999999999999999999999999999998875 4566665
Q ss_pred ccCceE
Q 006386 262 PHRVRL 267 (647)
Q Consensus 262 ~~~~~~ 267 (647)
...+++
T Consensus 669 ~fPV~I 674 (1139)
T COG1197 669 GFPVRI 674 (1139)
T ss_pred CCCeeE
Confidence 554443
No 194
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.01 E-value=0.0017 Score=74.21 Aligned_cols=25 Identities=20% Similarity=0.258 Sum_probs=21.4
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
.+|++||||||||+++..++..+..
T Consensus 40 AyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 40 AYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred EEEEECCCCCCHHHHHHHHHHhccC
Confidence 4589999999999999888887753
No 195
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=96.99 E-value=0.0024 Score=62.97 Aligned_cols=58 Identities=14% Similarity=0.249 Sum_probs=43.0
Q ss_pred CCCCCCCCHHHHHHHHHHHc---cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 191 KPFNSNLDHSQKDAISKALS---SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 191 ~~~~~~Ln~~Q~~Av~~~l~---~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
..+...-|.....++..... ..+.++|+||||||||+.+..+..++...+..+.++..
T Consensus 18 d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~ 78 (227)
T PRK08903 18 DNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDA 78 (227)
T ss_pred cccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeh
Confidence 34445567777777666543 34679999999999999999999888777777666553
No 196
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=96.98 E-value=0.0019 Score=73.85 Aligned_cols=35 Identities=14% Similarity=0.215 Sum_probs=24.8
Q ss_pred CCCEEEEecCCCcchH--HHHHHHHhcCeeeecCCCC
Q 006386 369 SFDLVIIDEAAQALEI--ACWIALLKGSRCILAGDHL 403 (647)
Q Consensus 369 ~fd~vIIDEAsq~~e~--~~l~~l~~~~~~vlvGD~~ 403 (647)
...++||||+..+... ..|.+.....+++++|+..
T Consensus 109 ~~~IL~IDEIh~Ln~~qQdaLL~~lE~g~IiLI~aTT 145 (725)
T PRK13341 109 KRTILFIDEVHRFNKAQQDALLPWVENGTITLIGATT 145 (725)
T ss_pred CceEEEEeChhhCCHHHHHHHHHHhcCceEEEEEecC
Confidence 4579999999876543 3455555667888988754
No 197
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.97 E-value=0.0036 Score=69.46 Aligned_cols=36 Identities=25% Similarity=0.382 Sum_probs=25.6
Q ss_pred HHHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 202 KDAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 202 ~~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
.+++..++..+ ...|++||||+|||+++..++..+.
T Consensus 25 ~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (527)
T PRK14969 25 VRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLN 63 (527)
T ss_pred HHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence 34455555432 2458999999999999888887764
No 198
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.96 E-value=0.0049 Score=66.85 Aligned_cols=36 Identities=28% Similarity=0.440 Sum_probs=29.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHC--CCeEEEec
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKR--GSKILACA 247 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~--~~~ILv~a 247 (647)
.+++.|.||+|+||||++..++..+... +++|.+++
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 4688899999999999999999888765 45676554
No 199
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=96.94 E-value=0.0053 Score=69.41 Aligned_cols=37 Identities=22% Similarity=0.368 Sum_probs=26.7
Q ss_pred HHHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 202 KDAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 202 ~~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
.+.+..++..+ ..+|++||||||||+++..++..+..
T Consensus 27 v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC 66 (725)
T PRK07133 27 VQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNC 66 (725)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence 34455555432 34689999999999999888877653
No 200
>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=96.93 E-value=0.0019 Score=66.29 Aligned_cols=54 Identities=19% Similarity=0.367 Sum_probs=43.7
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC--CCeEEEecc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR--GSKILACAA 248 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~--~~~ILv~a~ 248 (647)
..+++.|.+.+..++......+|.||+||||||++..++..+... +.+|+++-.
T Consensus 115 g~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd 170 (299)
T TIGR02782 115 GIMTAAQRDVLREAVLARKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIED 170 (299)
T ss_pred CCCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECC
Confidence 347888888999888877889999999999999998888776553 567766544
No 201
>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=96.93 E-value=0.0011 Score=66.75 Aligned_cols=40 Identities=23% Similarity=0.394 Sum_probs=35.6
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN 250 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn 250 (647)
...+++|.||||||||+....++.+.++.|.++++++.-.
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee 74 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES 74 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence 3568999999999999999999999888999999999764
No 202
>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=96.92 E-value=0.0015 Score=60.32 Aligned_cols=41 Identities=24% Similarity=0.520 Sum_probs=35.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVD 254 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd 254 (647)
+++|.||||||||+++..++..+...+.+|++.+......+
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~ 41 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEE 41 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHH
Confidence 36899999999999999999999888899998887655443
No 203
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.92 E-value=0.00059 Score=67.93 Aligned_cols=26 Identities=38% Similarity=0.695 Sum_probs=22.4
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.+.+.|++||||||||+...+++..|
T Consensus 176 ~NRliLlhGPPGTGKTSLCKaLaQkL 201 (423)
T KOG0744|consen 176 WNRLILLHGPPGTGKTSLCKALAQKL 201 (423)
T ss_pred eeeEEEEeCCCCCChhHHHHHHHHhh
Confidence 46899999999999999887777666
No 204
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.92 E-value=0.0017 Score=67.08 Aligned_cols=56 Identities=25% Similarity=0.373 Sum_probs=44.3
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHH--HCCCeEEEeccch
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEV--KRGSKILACAASN 250 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~--~~~~~ILv~a~tn 250 (647)
..+++.|.+.+..++......+|.||+||||||++.+++..+. .+..+|+++-.+.
T Consensus 131 g~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~ 188 (319)
T PRK13894 131 GIMTAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTG 188 (319)
T ss_pred CCCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCC
Confidence 3478889999998888788999999999999999988887764 3456776655443
No 205
>PRK06851 hypothetical protein; Provisional
Probab=96.92 E-value=0.00089 Score=69.88 Aligned_cols=47 Identities=32% Similarity=0.631 Sum_probs=41.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCe--EEEeccchHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSK--ILACAASNIAVDNIVE 258 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~--ILv~a~tn~Avd~l~~ 258 (647)
..+.+|.|||||||||++..++..+.+.|.. .+.|+..|.++|-+.-
T Consensus 30 ~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvii 78 (367)
T PRK06851 30 NRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVII 78 (367)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEEe
Confidence 5789999999999999999999999888865 7789999999987753
No 206
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning]
Probab=96.91 E-value=0.0018 Score=72.09 Aligned_cols=61 Identities=33% Similarity=0.373 Sum_probs=48.4
Q ss_pred CCCCCCHHHHHHHHHHH----ccC-CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHH
Q 006386 193 FNSNLDHSQKDAISKAL----SSK-NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVD 254 (647)
Q Consensus 193 ~~~~Ln~~Q~~Av~~~l----~~~-~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd 254 (647)
+...||++|+.....++ ... ++.. .|++|||||...-+++..+...|..++.+|.|..|.-
T Consensus 114 ~~~~l~~eqk~v~d~~~~~v~~~~g~~ff-~g~~gtgKt~l~~t~~~~~~~~g~~~~~v~~s~ia~~ 179 (540)
T KOG0987|consen 114 LPKKLTPEQKRVYDAILEAVENNLGGVFF-YGFGGTGKTYLLKTLIAALRSRGKIVLNVASSGIAAL 179 (540)
T ss_pred hhhhcCHHHHHHHHHHHHHHhccccceee-eccCCccceeeHHHHHHHHhcCCceEEEeeecchhhh
Confidence 45689999997766332 222 4455 9999999999999999999888999999999887753
No 207
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=96.91 E-value=0.00099 Score=69.53 Aligned_cols=27 Identities=30% Similarity=0.605 Sum_probs=23.9
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRG 240 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~ 240 (647)
..|+.||||||||+++..++..+...+
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~~ 52 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCEN 52 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCCC
Confidence 489999999999999999999987543
No 208
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.91 E-value=0.0087 Score=65.87 Aligned_cols=26 Identities=35% Similarity=0.526 Sum_probs=21.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
..|++|||||||||++..++..+...
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~c~ 63 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVNCS 63 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 34999999999999998888877543
No 209
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=96.90 E-value=0.0044 Score=67.39 Aligned_cols=36 Identities=19% Similarity=0.168 Sum_probs=28.1
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHH--CCCeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVK--RGSKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~--~~~~ILv~a~ 248 (647)
+..+|+||||||||+.+.++...+.. ++.+|++++.
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 45789999999999999888776653 4677776554
No 210
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.0015 Score=66.25 Aligned_cols=23 Identities=43% Similarity=0.626 Sum_probs=17.9
Q ss_pred CeEEEEcCCCCchHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~ 235 (647)
.=+|++||||||||..+.+.+.+
T Consensus 186 KGVLLYGPPGTGKTLLAkAVA~~ 208 (406)
T COG1222 186 KGVLLYGPPGTGKTLLAKAVANQ 208 (406)
T ss_pred CceEeeCCCCCcHHHHHHHHHhc
Confidence 34899999999999877665544
No 211
>PRK06835 DNA replication protein DnaC; Validated
Probab=96.87 E-value=0.0019 Score=66.90 Aligned_cols=37 Identities=27% Similarity=0.361 Sum_probs=33.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
....+++||||||||+.+.+++..++..|.+|++++.
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~ 219 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTA 219 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEH
Confidence 4678999999999999999999999999999988764
No 212
>PRK10436 hypothetical protein; Provisional
Probab=96.87 E-value=0.0018 Score=70.14 Aligned_cols=50 Identities=22% Similarity=0.355 Sum_probs=40.1
Q ss_pred CCCCHHHHHHHHHHHc-cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEE
Q 006386 195 SNLDHSQKDAISKALS-SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKIL 244 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~-~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~IL 244 (647)
-.+.+.|.+.+..++. ..++.||.||.|||||||+.+++..+...+.+|+
T Consensus 200 LG~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~ 250 (462)
T PRK10436 200 LGMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLNTAQINIC 250 (462)
T ss_pred cCcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEE
Confidence 3578889988887765 6789999999999999999888877655554543
No 213
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=96.87 E-value=0.015 Score=61.66 Aligned_cols=76 Identities=18% Similarity=0.173 Sum_probs=52.8
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHH-HHHHHHHHHH-----------HCCCeEEEeccchHHHHHHHHHhccc
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTT-TVVEIILQEV-----------KRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~-ti~~~i~~l~-----------~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
.-++-|+.|+-..++ ++-.+-.+-.|||||. .+.-++..+. ..|..-+++|||...+..|.+--.+.
T Consensus 267 eptpIqR~aipl~lQ-~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~kf 345 (673)
T KOG0333|consen 267 EPTPIQRQAIPLGLQ-NRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETNKF 345 (673)
T ss_pred CCchHHHhhccchhc-cCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHHHh
Confidence 458899999988887 4556667779999994 4444444432 13678899999999988887654443
Q ss_pred ----CceEEEeCC
Q 006386 264 ----RVRLVRLGH 272 (647)
Q Consensus 264 ----~~~~vr~g~ 272 (647)
+.+++++-.
T Consensus 346 ~~~lg~r~vsvig 358 (673)
T KOG0333|consen 346 GKPLGIRTVSVIG 358 (673)
T ss_pred cccccceEEEEec
Confidence 456666543
No 214
>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=96.86 E-value=0.0018 Score=63.65 Aligned_cols=53 Identities=25% Similarity=0.327 Sum_probs=45.1
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRV 265 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~ 265 (647)
..+++|.|+||+|||+....++...+++|.++++++... ..+.+.+++...+.
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~-~~~~l~~~~~~~~~ 68 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE-REERILGYAKSKGW 68 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CHHHHHHHHHHcCC
Confidence 458899999999999999999999888999999998865 57888888766543
No 215
>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=96.86 E-value=0.00076 Score=59.98 Aligned_cols=22 Identities=50% Similarity=0.791 Sum_probs=19.5
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.+|+||||||||+++..++..+
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 4899999999999998888775
No 216
>PRK04328 hypothetical protein; Provisional
Probab=96.85 E-value=0.0017 Score=64.86 Aligned_cols=52 Identities=23% Similarity=0.371 Sum_probs=42.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccC
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHR 264 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~ 264 (647)
...++|.||||||||+....++...++.|.++++++.....- .+.+++...+
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~~~-~i~~~~~~~g 74 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEHPV-QVRRNMRQFG 74 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCCHH-HHHHHHHHcC
Confidence 568899999999999999999999889999999999766444 4666655543
No 217
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=96.84 E-value=0.0056 Score=66.85 Aligned_cols=61 Identities=21% Similarity=0.398 Sum_probs=47.5
Q ss_pred HHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHH-HHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 203 DAISKALSSKNVFMLHGPPGTGKTTTVVEIILQE-VKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 203 ~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l-~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
.-+-.++..+.+++|.|.-|+||||-+-..+... .....+|.++=|-..||-.++.|+.+.
T Consensus 57 ~~il~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAeE 118 (674)
T KOG0922|consen 57 DQILYAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAEE 118 (674)
T ss_pred HHHHHHHHHCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHHH
Confidence 3344455568999999999999999888777654 222234999999999999999999764
No 218
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.84 E-value=0.0027 Score=70.67 Aligned_cols=24 Identities=25% Similarity=0.486 Sum_probs=21.0
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
.+|++||||||||+++..++..+.
T Consensus 37 a~Lf~Gp~G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 37 AYLFSGPRGCGKTSSARILARSLN 60 (584)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 468999999999999988887765
No 219
>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=96.82 E-value=0.0038 Score=61.46 Aligned_cols=55 Identities=15% Similarity=0.224 Sum_probs=39.1
Q ss_pred CCCHHHHHHHHHHHc--cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch
Q 006386 196 NLDHSQKDAISKALS--SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN 250 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~--~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn 250 (647)
.-|.+-.+++...+. .....+|.||||||||+++..+...+...+..++.+..++
T Consensus 20 ~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~ 76 (226)
T TIGR03420 20 GGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAE 76 (226)
T ss_pred CCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHH
Confidence 344444555555432 3568899999999999999999988877777776655433
No 220
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=96.82 E-value=0.0026 Score=60.28 Aligned_cols=48 Identities=21% Similarity=0.423 Sum_probs=30.4
Q ss_pred HHHHHHHHHHH-----ccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 199 HSQKDAISKAL-----SSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 199 ~~Q~~Av~~~l-----~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
++|.+.+...+ .....++|+|+||+|||+++.++...+...+.-++.+
T Consensus 6 ~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~ 58 (185)
T PF13191_consen 6 EEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVISI 58 (185)
T ss_dssp HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEE
T ss_pred HHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEE
Confidence 35666677776 2356899999999999999999888887764334433
No 221
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=96.81 E-value=0.0023 Score=63.40 Aligned_cols=54 Identities=17% Similarity=0.402 Sum_probs=44.6
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCc
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRV 265 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~ 265 (647)
...+++|.||||||||+.+..++...+++|.++++++..+. .+.+.+++.+.+.
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~-~~~~~~~~~~~g~ 77 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENT-SKSYLKQMESVKI 77 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCC-HHHHHHHHHHCCC
Confidence 35689999999999999999999988889999999998764 4667777666543
No 222
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.81 E-value=0.011 Score=69.48 Aligned_cols=72 Identities=15% Similarity=0.200 Sum_probs=54.4
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCceEEEe
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVRLVRL 270 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~ 270 (647)
..+.+.|++||..++. ..-+++..|.|+|||.+-. +-.+. .+..+||++|+.+.+..-..+|...++...-+
T Consensus 459 ~sFRp~Q~eaI~aiL~-GrDVLVimPTGSGKSLcYQ--LPAL~-~~GiTLVISPLiSLmqDQV~~L~~~GI~Aa~L 530 (1195)
T PLN03137 459 HSFRPNQREIINATMS-GYDVFVLMPTGGGKSLTYQ--LPALI-CPGITLVISPLVSLIQDQIMNLLQANIPAASL 530 (1195)
T ss_pred CCCCHHHHHHHHHHHc-CCCEEEEcCCCccHHHHHH--HHHHH-cCCcEEEEeCHHHHHHHHHHHHHhCCCeEEEE
Confidence 5789999999999997 5669999999999996532 22222 35689999999999877777776666554433
No 223
>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=96.81 E-value=0.013 Score=65.16 Aligned_cols=45 Identities=22% Similarity=0.460 Sum_probs=39.3
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
...||.|-+|+||||.|..+...| ..+++..|..|+.|+..+|..
T Consensus 60 ~~ylITGtAGaGKStsIq~L~~~l-----dCviTGaT~vAaQNls~~L~~ 104 (818)
T PF02689_consen 60 SVYLITGTAGAGKSTSIQTLAENL-----DCVITGATVVAAQNLSSKLSR 104 (818)
T ss_pred EEEEEeccCCCCccchHHHHHhhh-----CeEEecchhhhHhHHHHHhcc
Confidence 467999999999999987766554 799999999999999999974
No 224
>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=96.80 E-value=0.0017 Score=71.01 Aligned_cols=51 Identities=20% Similarity=0.370 Sum_probs=40.1
Q ss_pred CCCCHHHHHHHHHHHc-cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEE
Q 006386 195 SNLDHSQKDAISKALS-SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILA 245 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~-~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv 245 (647)
-.++++|.+.+..++. ..++++|.||+|||||||+..++..+...+.+|+.
T Consensus 224 Lg~~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiT 275 (486)
T TIGR02533 224 LGMSPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLNTPERNILT 275 (486)
T ss_pred cCCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEE
Confidence 3578999999988776 46799999999999999998887776544444443
No 225
>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.
Probab=96.80 E-value=0.11 Score=62.75 Aligned_cols=151 Identities=13% Similarity=0.081 Sum_probs=90.6
Q ss_pred CCCEEEEecCCCcchHH--HHHHHH-hcCeeeecCCCCCCCceeccHHHHhcCCCCCHH-------HHHHHHcCCcccch
Q 006386 369 SFDLVIIDEAAQALEIA--CWIALL-KGSRCILAGDHLQLPPTVQSVEAEKKGLGRTLF-------ERLADLYGDEVTSM 438 (647)
Q Consensus 369 ~fd~vIIDEAsq~~e~~--~l~~l~-~~~~~vlvGD~~QL~p~v~s~~~~~~g~~~Slf-------~rl~~~~~~~~~~~ 438 (647)
+-..|+|||+++++..+ ++-.|. .++++.+++|..|..+. .+ ..+ ..|| .++...++-. ...
T Consensus 185 ~~~~i~IDgF~~FTp~Q~~vIe~L~~~~~~v~v~l~~D~~~~~-~~----~~~--~~LF~~s~~~L~~la~~~~i~-v~~ 256 (1076)
T TIGR02774 185 KNTVLVIDGFTRFSAEEEALVSLLHGKGVEIIIGAYASQKAYK-SS----FSE--GNLYQASVKFLHDLAQKYQTK-AEF 256 (1076)
T ss_pred CCCEEEEccCCCCCHHHHHHHHHHHHhCCEEEEEEEcCccccc-cC----CCc--ccchHHHHHHHHHHHHHcCCC-ccc
Confidence 44799999999998775 455555 45889999998885531 00 000 1222 2333333322 334
Q ss_pred hhHhhcChhHHHHhhHhhhcCCCCCCChhhhhcccccccCCcCCCCCCCcEEEEEecCCCccccccCCCCccCHHHHHHH
Q 006386 439 LTVQYRMHEHIMNWSSKQLYNSKIKAHPSVAAHMLFDLEGVKRTSSTEPTLLLIDIAGCDMEEKKDEEDSTMNEGEAEVA 518 (647)
Q Consensus 439 L~~qyRm~~~I~~~~s~~fY~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~d~~~~~~~~~~~~~~s~~N~~Ea~~v 518 (647)
+..+||.+|+|..+.+..+-.... .... .. ........+.++...+ -..|++.|
T Consensus 257 ~~~~~R~~~~L~~Le~~~~~~~~~-~~~~----------~~-~~~~~~~~I~i~~a~n--------------~~~Eve~v 310 (1076)
T TIGR02774 257 ISSTHESKDSFDKLSRLLEASHDF-SELA----------LD-LDDKDKDNLTIWSCLT--------------QKEEVEHV 310 (1076)
T ss_pred CccccccCHHHHHHHHHHhhcccC-Cccc----------cc-CCCCCCCceEEEEcCC--------------HHHHHHHH
Confidence 457899999998888733221000 0000 00 0000112333332222 23799999
Q ss_pred HHHHHHHHHcCCCCCeEEEEcccHHH-HHHHHHHHh
Q 006386 519 MAHAKRLIQSGVHASDIGIITPYAAQ-VVLLKILRS 553 (647)
Q Consensus 519 ~~~v~~l~~~g~~~~~I~IItpy~~Q-~~~l~~l~~ 553 (647)
...|.+|+..|+.++||+|+++-..+ ...|...+.
T Consensus 311 a~~I~~lv~~g~ry~DIaVl~rd~~~Y~~~i~~iF~ 346 (1076)
T TIGR02774 311 ARSIRQKLYEGYRYKDILVLLGDVDSYQLQLGKIFD 346 (1076)
T ss_pred HHHHHHHHHcCCChhheEEEcCCHHHHHHHHHHHHh
Confidence 99999999889999999999998887 667776654
No 226
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=96.79 E-value=0.005 Score=62.94 Aligned_cols=66 Identities=18% Similarity=0.217 Sum_probs=47.5
Q ss_pred CCCHHHHHH---HHHHHccCCeEEEEcCCCCchHHHHHHHH-HHHHHCCC-----eEEEeccchHHHHHHHHHhc
Q 006386 196 NLDHSQKDA---ISKALSSKNVFMLHGPPGTGKTTTVVEII-LQEVKRGS-----KILACAASNIAVDNIVERLV 261 (647)
Q Consensus 196 ~Ln~~Q~~A---v~~~l~~~~~~lI~GpPGTGKT~ti~~~i-~~l~~~~~-----~ILv~a~tn~Avd~l~~rl~ 261 (647)
..-+.|.+. |..++...+..+|.+|.|||||..+...+ .++...+. +|++++.|+.-.......+.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~ 82 (289)
T smart00489 8 EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELR 82 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHH
Confidence 347888884 44455567889999999999997655544 45554444 89999999987666655554
No 227
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=96.79 E-value=0.005 Score=62.94 Aligned_cols=66 Identities=18% Similarity=0.217 Sum_probs=47.5
Q ss_pred CCCHHHHHH---HHHHHccCCeEEEEcCCCCchHHHHHHHH-HHHHHCCC-----eEEEeccchHHHHHHHHHhc
Q 006386 196 NLDHSQKDA---ISKALSSKNVFMLHGPPGTGKTTTVVEII-LQEVKRGS-----KILACAASNIAVDNIVERLV 261 (647)
Q Consensus 196 ~Ln~~Q~~A---v~~~l~~~~~~lI~GpPGTGKT~ti~~~i-~~l~~~~~-----~ILv~a~tn~Avd~l~~rl~ 261 (647)
..-+.|.+. |..++...+..+|.+|.|||||..+...+ .++...+. +|++++.|+.-.......+.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~ 82 (289)
T smart00488 8 EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELR 82 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHH
Confidence 347888884 44455567889999999999997655544 45554444 89999999987666655554
No 228
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=96.79 E-value=0.0022 Score=64.63 Aligned_cols=46 Identities=24% Similarity=0.532 Sum_probs=40.3
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHH
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNI 256 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l 256 (647)
....++|.|+||||||+.+.+.+...++.|.+++.+|....+.+-+
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~~~l~ 67 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPEELL 67 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCHHHHH
Confidence 4678999999999999999999999999999999999876655443
No 229
>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=96.77 E-value=0.0083 Score=67.78 Aligned_cols=62 Identities=15% Similarity=0.006 Sum_probs=43.2
Q ss_pred CHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 198 DHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
.+.|....-..+ .+. +.+.+.|+|||.+++-.+....-.|++++|+|||...+....+.+..
T Consensus 58 ~~vQlig~~~l~--~G~-Iaem~TGeGKTLva~lpa~l~aL~G~~V~VvTpt~~LA~qdae~~~~ 119 (745)
T TIGR00963 58 FDVQLIGGIALH--KGK-IAEMKTGEGKTLTATLPAYLNALTGKGVHVVTVNDYLAQRDAEWMGQ 119 (745)
T ss_pred cchHHhhhhhhc--CCc-eeeecCCCccHHHHHHHHHHHHHhCCCEEEEcCCHHHHHHHHHHHHH
Confidence 455555544333 343 88999999999876655533334688999999999888877776544
No 230
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=96.74 E-value=0.0083 Score=66.49 Aligned_cols=27 Identities=22% Similarity=0.324 Sum_probs=22.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRG 240 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~ 240 (647)
..|++||||||||+++..++..+...+
T Consensus 40 A~Lf~GP~GvGKTTlA~~lAk~L~C~~ 66 (605)
T PRK05896 40 AYIFSGPRGIGKTSIAKIFAKAINCLN 66 (605)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhcCCC
Confidence 478999999999999999988876433
No 231
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.74 E-value=0.0029 Score=67.53 Aligned_cols=47 Identities=21% Similarity=0.370 Sum_probs=40.7
Q ss_pred CCCHHHHHHHHHHHc-cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCe
Q 006386 196 NLDHSQKDAISKALS-SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSK 242 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~-~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ 242 (647)
.+++.|...+..++. ..|+.||.||-|||||||+-..+..+-....+
T Consensus 241 g~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~n 288 (500)
T COG2804 241 GMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNTPERN 288 (500)
T ss_pred CCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCce
Confidence 568889889988887 67899999999999999999999888766655
No 232
>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=96.68 E-value=0.0031 Score=60.10 Aligned_cols=51 Identities=18% Similarity=0.326 Sum_probs=40.4
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
..+++.|.+.+..++.....++|.||+|+||||++..++.. +....+++.+
T Consensus 8 g~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~-i~~~~~~i~i 58 (186)
T cd01130 8 GTFSPLQAAYLWLAVEARKNILISGGTGSGKTTLLNALLAF-IPPDERIITI 58 (186)
T ss_pred CCCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhh-cCCCCCEEEE
Confidence 45789999999999988889999999999999999776544 4455555543
No 233
>PRK06921 hypothetical protein; Provisional
Probab=96.68 E-value=0.0026 Score=64.18 Aligned_cols=37 Identities=30% Similarity=0.464 Sum_probs=32.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEecc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACAA 248 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a~ 248 (647)
....+++||||||||+.+.+++..+.+. |..|+.++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence 4568999999999999999999999987 888888775
No 234
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=96.68 E-value=0.04 Score=61.26 Aligned_cols=63 Identities=19% Similarity=0.139 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHH-CCCeEEEeccchHHHHHHHHHhcc
Q 006386 199 HSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVK-RGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 199 ~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~-~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..+..++-..+. +..+++..|=|.|||+++.-++..++. .|.+|+++||....+.++.+++..
T Consensus 175 ~~~id~~~~~fk-q~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~ 238 (752)
T PHA03333 175 LREIDRIFDEYG-KCYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVET 238 (752)
T ss_pred HHHHHHHHHHHh-hcceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHH
Confidence 345555555554 789999999999999999877777665 689999999999999998888654
No 235
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.68 E-value=0.011 Score=69.80 Aligned_cols=149 Identities=18% Similarity=0.184 Sum_probs=89.0
Q ss_pred CCCCHHHHHHHHHHHc---cCCeEEEEcCCCCchHHHHHHHHHHHHHC---CCeEEEeccchHHHHHHHHHhccc--Cce
Q 006386 195 SNLDHSQKDAISKALS---SKNVFMLHGPPGTGKTTTVVEIILQEVKR---GSKILACAASNIAVDNIVERLVPH--RVR 266 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~---~~~~~lI~GpPGTGKT~ti~~~i~~l~~~---~~~ILv~a~tn~Avd~l~~rl~~~--~~~ 266 (647)
..|-+-|..++...+. ...-.++-=..|.|||.+++.++..+... ..++||++|.... .+-..-+.+. ...
T Consensus 168 ~~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~SlL-~nW~~Ei~kw~p~l~ 246 (1033)
T PLN03142 168 GKMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKSTL-GNWMNEIRRFCPVLR 246 (1033)
T ss_pred cchHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHHH-HHHHHHHHHHCCCCc
Confidence 4688999999998764 23345667779999999998888887542 3589999997654 3333333322 111
Q ss_pred EEEeCCCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006386 267 LVRLGHPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDV 346 (647)
Q Consensus 267 ~vr~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~ 346 (647)
++.+... ...+..+.. ....
T Consensus 247 v~~~~G~--------------------------------------------~~eR~~~~~----------------~~~~ 266 (1033)
T PLN03142 247 AVKFHGN--------------------------------------------PEERAHQRE----------------ELLV 266 (1033)
T ss_pred eEEEeCC--------------------------------------------HHHHHHHHH----------------HHhc
Confidence 2211110 000000000 0001
Q ss_pred hhcCceeeeccccccc--cccCCCCCCEEEEecCCCcchHHH-----HHHHHhcCeeeecCCCCC
Q 006386 347 IKNADVVLTTLTGAVS--RKLDNTSFDLVIIDEAAQALEIAC-----WIALLKGSRCILAGDHLQ 404 (647)
Q Consensus 347 l~~~~vi~~T~~~~~~--~~l~~~~fd~vIIDEAsq~~e~~~-----l~~l~~~~~~vlvGD~~Q 404 (647)
....+|+++|...+.. ..+....|++||||||..+-.+.+ +..+....+++|.|=|-|
T Consensus 267 ~~~~dVvITSYe~l~~e~~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlq 331 (1033)
T PLN03142 267 AGKFDVCVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQ 331 (1033)
T ss_pred ccCCCcceecHHHHHHHHHHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCC
Confidence 1346777777665542 235667899999999988755432 222223378999999988
No 236
>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=96.66 E-value=0.0036 Score=63.14 Aligned_cols=25 Identities=40% Similarity=0.562 Sum_probs=21.3
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHH
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~ 235 (647)
.+...++.||||||||+++..+...
T Consensus 20 ~g~~vLL~G~~GtGKT~lA~~la~~ 44 (262)
T TIGR02640 20 SGYPVHLRGPAGTGKTTLAMHVARK 44 (262)
T ss_pred cCCeEEEEcCCCCCHHHHHHHHHHH
Confidence 4678899999999999999877764
No 237
>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=96.63 E-value=0.0033 Score=61.06 Aligned_cols=39 Identities=23% Similarity=0.532 Sum_probs=34.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN 250 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn 250 (647)
..+++|.||||||||+.+..++......|.++++++..+
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~ 50 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG 50 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 468999999999999999999999888888888887754
No 238
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=96.62 E-value=0.0091 Score=66.74 Aligned_cols=25 Identities=28% Similarity=0.498 Sum_probs=21.1
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
...|++||||||||+++..++..+.
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAkal~ 63 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKAVN 63 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3578899999999999988887764
No 239
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=96.62 E-value=0.004 Score=71.39 Aligned_cols=48 Identities=13% Similarity=0.109 Sum_probs=37.8
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
.+.+.+.|+|||.+.+--+...+..|+.|+|+|||...+....+.+..
T Consensus 98 ~Iaem~TGeGKTL~a~Lpa~~~al~G~~V~VvTpn~yLA~qd~e~m~~ 145 (896)
T PRK13104 98 NIAEMRTGEGKTLVATLPAYLNAISGRGVHIVTVNDYLAKRDSQWMKP 145 (896)
T ss_pred ccccccCCCCchHHHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHH
Confidence 467889999999987766655455788999999999888777766544
No 240
>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=96.62 E-value=0.0028 Score=69.86 Aligned_cols=53 Identities=15% Similarity=0.248 Sum_probs=44.5
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccC
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHR 264 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~ 264 (647)
....++|.||||||||+.+...+...+++|.+++++++ ....+.+..+....|
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~-eEs~~~i~~~~~~lg 314 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKFLENACANKERAILFAY-EESRAQLLRNAYSWG 314 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEe-eCCHHHHHHHHHHcC
Confidence 35689999999999999999999999999999999996 555667777765544
No 241
>PTZ00293 thymidine kinase; Provisional
Probab=96.62 E-value=0.0081 Score=57.63 Aligned_cols=38 Identities=21% Similarity=0.276 Sum_probs=34.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN 250 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn 250 (647)
.+.+|.||-|+|||+-+..++......|++++++-|..
T Consensus 5 ~i~vi~GpMfSGKTteLLr~i~~y~~ag~kv~~~kp~~ 42 (211)
T PTZ00293 5 TISVIIGPMFSGKTTELMRLVKRFTYSEKKCVVIKYSK 42 (211)
T ss_pred EEEEEECCCCChHHHHHHHHHHHHHHcCCceEEEEecc
Confidence 47899999999999989999999888999999998854
No 242
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=96.62 E-value=0.0014 Score=63.84 Aligned_cols=65 Identities=22% Similarity=0.243 Sum_probs=52.7
Q ss_pred CHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC---CCeEEEeccchHHHHHHHHHhccc
Q 006386 198 DHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR---GSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~---~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
+.-|++||-.++. ..-++.|+-.|||||.|..--+.+.+.- .-++|+++||...+-.+.+-+...
T Consensus 51 S~IQqrAi~~Ilk-GrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~al 118 (400)
T KOG0328|consen 51 SAIQQRAIPQILK-GRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILAL 118 (400)
T ss_pred hHHHhhhhhhhhc-ccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHh
Confidence 5678999999997 5678899999999999877666665543 357999999999988887776554
No 243
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=96.62 E-value=0.01 Score=56.71 Aligned_cols=37 Identities=24% Similarity=0.259 Sum_probs=29.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHH-----CCCeEEEeccch
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVK-----RGSKILACAASN 250 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~-----~~~~ILv~a~tn 250 (647)
.+||.||||+||||.+-.++..+.. .+++|.++--++
T Consensus 139 ntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 139 NTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred eeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 4899999999999999988877643 256777776655
No 244
>PRK14873 primosome assembly protein PriA; Provisional
Probab=96.61 E-value=0.0099 Score=67.42 Aligned_cols=48 Identities=15% Similarity=0.214 Sum_probs=43.3
Q ss_pred EEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 216 MLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 216 lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
+..+.||+|||.+..+++...+..|+.+|++.|.-..+..+.+++.+.
T Consensus 164 i~~~~~GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~ 211 (665)
T PRK14873 164 VWQALPGEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRAL 211 (665)
T ss_pred HhhcCCCCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHH
Confidence 445557999999999999999999999999999999999999999764
No 245
>PRK05642 DNA replication initiation factor; Validated
Probab=96.61 E-value=0.0068 Score=60.00 Aligned_cols=36 Identities=19% Similarity=0.323 Sum_probs=31.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
...+|+||+|||||+.+.++..++...+.++++++.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~ 81 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL 81 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeH
Confidence 568899999999999999888888878888887764
No 246
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=96.60 E-value=0.011 Score=68.91 Aligned_cols=68 Identities=18% Similarity=0.274 Sum_probs=59.0
Q ss_pred CCCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhc
Q 006386 193 FNSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 193 ~~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
+...|++-|++|+...-. ..-++|.+|-|+|||.+.-..+...+..|+++..++|..+-.......|.
T Consensus 116 ~~F~LD~fQ~~a~~~Ler-~esVlV~ApTssGKTvVaeyAi~~al~~~qrviYTsPIKALsNQKyrdl~ 183 (1041)
T COG4581 116 YPFELDPFQQEAIAILER-GESVLVCAPTSSGKTVVAEYAIALALRDGQRVIYTSPIKALSNQKYRDLL 183 (1041)
T ss_pred CCCCcCHHHHHHHHHHhC-CCcEEEEccCCCCcchHHHHHHHHHHHcCCceEeccchhhhhhhHHHHHH
Confidence 567899999999987665 67899999999999999999999999999999999998887776665543
No 247
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=96.60 E-value=0.012 Score=65.94 Aligned_cols=41 Identities=27% Similarity=0.340 Sum_probs=29.4
Q ss_pred CHHHHHHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 198 DHSQKDAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
.+...+.+..++... ...|++||||+|||+++..++..+..
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 344445555555422 35799999999999999998888754
No 248
>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=96.60 E-value=0.0033 Score=62.10 Aligned_cols=51 Identities=18% Similarity=0.364 Sum_probs=39.6
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
...+++|.||||||||+.+..++...+.+|.++++++.- ...+.+.++...
T Consensus 19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e-~~~~~i~~~~~~ 69 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTE-ESRESIIRQAAQ 69 (229)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEcc-CCHHHHHHHHHH
Confidence 356899999999999999999988888889898888763 334566555443
No 249
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=96.59 E-value=0.004 Score=59.56 Aligned_cols=51 Identities=25% Similarity=0.460 Sum_probs=38.3
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHH----------CCCeEEEeccchHHHHHHHHHhcc
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVK----------RGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~----------~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
...+++|.||||+|||+.+..++..+.. .+.+||++..-+. ...+.+|+..
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~ 91 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRA 91 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHH
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHH
Confidence 3579999999999999999999999886 4678999988776 5566677643
No 250
>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=96.59 E-value=0.0036 Score=70.16 Aligned_cols=50 Identities=20% Similarity=0.338 Sum_probs=39.1
Q ss_pred CCCCHHHHHHHHHHHc-cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEE
Q 006386 195 SNLDHSQKDAISKALS-SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKIL 244 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~-~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~IL 244 (647)
-.+.+.|.+.+..++. ..++.+|.||+|||||||+..++..+-..+.+|+
T Consensus 298 lg~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~ 348 (564)
T TIGR02538 298 LGFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNILNTEEVNIS 348 (564)
T ss_pred cCCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEE
Confidence 3578899988888776 5789999999999999999888876643333433
No 251
>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=96.58 E-value=0.0029 Score=61.91 Aligned_cols=37 Identities=30% Similarity=0.558 Sum_probs=32.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
..+++|.||||||||+.+..++......|.++++.+.
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~ 55 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDT 55 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence 4578999999999999999999999888989988853
No 252
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=96.58 E-value=0.016 Score=60.88 Aligned_cols=38 Identities=18% Similarity=0.392 Sum_probs=28.2
Q ss_pred HHHHHHHHHccCC---eEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 201 QKDAISKALSSKN---VFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 201 Q~~Av~~~l~~~~---~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
-.+.+..++.... ..||+||+|+|||+++-.++..++.
T Consensus 31 a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc 71 (351)
T PRK09112 31 AEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILS 71 (351)
T ss_pred HHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence 3344555554333 5899999999999999999888865
No 253
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=96.57 E-value=0.0026 Score=64.37 Aligned_cols=60 Identities=23% Similarity=0.367 Sum_probs=40.3
Q ss_pred HHHHHHHcc--CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 203 DAISKALSS--KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 203 ~Av~~~l~~--~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
-.+...+.. -+-.++|||||||||+.+--++..--+...+.+-++-||+-+..++.-+.+
T Consensus 151 gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~ 212 (554)
T KOG2028|consen 151 GLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQ 212 (554)
T ss_pred hHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHH
Confidence 344454442 356789999999999877655554333345677778888887777665543
No 254
>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=96.56 E-value=0.0072 Score=58.18 Aligned_cols=72 Identities=25% Similarity=0.320 Sum_probs=35.9
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe-ccchHHHHHHHHHhccc-CceEEEeCCCCCCChhHHhhhHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC-AASNIAVDNIVERLVPH-RVRLVRLGHPARLLPQVLESALDA 287 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~-a~tn~Avd~l~~rl~~~-~~~~vr~g~~~~~~~~~~~~~l~~ 287 (647)
+.++.+||||+||||.+ .+|+.-+ +..+-.+ ++.-.-+..+..-+... ...++-+...+++.+...+..+..
T Consensus 51 ~h~lf~GPPG~GKTTLA-~IIA~e~--~~~~~~~sg~~i~k~~dl~~il~~l~~~~ILFIDEIHRlnk~~qe~Llpa 124 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLA-RIIANEL--GVNFKITSGPAIEKAGDLAAILTNLKEGDILFIDEIHRLNKAQQEILLPA 124 (233)
T ss_dssp -EEEEESSTTSSHHHHH-HHHHHHC--T--EEEEECCC--SCHHHHHHHHT--TT-EEEECTCCC--HHHHHHHHHH
T ss_pred ceEEEECCCccchhHHH-HHHHhcc--CCCeEeccchhhhhHHHHHHHHHhcCCCcEEEEechhhccHHHHHHHHHH
Confidence 46899999999998655 4444433 3333333 23212122333333332 234666666677766666655544
No 255
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=96.56 E-value=0.047 Score=57.62 Aligned_cols=65 Identities=20% Similarity=0.230 Sum_probs=49.4
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHH-HHHHHHHHHH------CCCeEEEeccchHHHHHHHHHh
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTT-VVEIILQEVK------RGSKILACAASNIAVDNIVERL 260 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t-i~~~i~~l~~------~~~~ILv~a~tn~Avd~l~~rl 260 (647)
.++++-|...+.-++. ..-++..+--|||||.. ++-.+..+++ ++-.++|+|||...+-.+..-+
T Consensus 103 ~~MT~VQ~~ti~pll~-gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~ea 174 (543)
T KOG0342|consen 103 ETMTPVQQKTIPPLLE-GKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEA 174 (543)
T ss_pred cchhHHHHhhcCccCC-CccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHH
Confidence 4689999999988887 44788999999999974 4445544443 3568999999998777665443
No 256
>PHA00350 putative assembly protein
Probab=96.56 E-value=0.0071 Score=63.76 Aligned_cols=58 Identities=22% Similarity=0.401 Sum_probs=36.1
Q ss_pred eEEEEcCCCCchHHHHHH-HHHHHHHCCCeEEEeccchHHHHHHHHHhcc--cCceEEEeCC
Q 006386 214 VFMLHGPPGTGKTTTVVE-IILQEVKRGSKILACAASNIAVDNIVERLVP--HRVRLVRLGH 272 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~-~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~--~~~~~vr~g~ 272 (647)
+.+++|.||||||..++. .+...++.|.+| ++--..--.+.+.+++.. ...+++|+.+
T Consensus 3 I~l~tG~pGSGKT~~aV~~~i~palk~GR~V-~TNI~Gl~le~i~~~~~~~p~~~~li~i~~ 63 (399)
T PHA00350 3 IYAIVGRPGSYKSYEAVVYHIIPALKDGRKV-ITNIPGLNLDVFEKVFGEFPSTARLIRIVD 63 (399)
T ss_pred eEEEecCCCCchhHHHHHHHHHHHHHCCCEE-EECCCCCCHHHHHhhcccCcccceeEEecc
Confidence 679999999999998886 677788889655 432221333444444433 1234455543
No 257
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=96.55 E-value=0.0033 Score=61.93 Aligned_cols=38 Identities=26% Similarity=0.594 Sum_probs=33.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAAS 249 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~t 249 (647)
..+++|.||||||||+.+..++...+..+.++++++.-
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 45899999999999999999999998888888888764
No 258
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.54 E-value=0.0084 Score=67.35 Aligned_cols=38 Identities=21% Similarity=0.356 Sum_probs=27.1
Q ss_pred HHHHHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 200 SQKDAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 200 ~Q~~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
...+.+..++..+ ..+|++||||||||+++..++..+.
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 3334555555432 3468999999999999988887765
No 259
>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=96.54 E-value=0.0036 Score=64.11 Aligned_cols=42 Identities=26% Similarity=0.372 Sum_probs=35.8
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
..++++-..+|...+..++..+|.||||||||+++..++..+
T Consensus 47 y~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 47 YLFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred ccCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHH
Confidence 357888888888888777889999999999999998888776
No 260
>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=96.53 E-value=0.0045 Score=53.93 Aligned_cols=28 Identities=32% Similarity=0.335 Sum_probs=23.7
Q ss_pred CeE-EEEcCCCCchHHHHHHHHHHHHHCC
Q 006386 213 NVF-MLHGPPGTGKTTTVVEIILQEVKRG 240 (647)
Q Consensus 213 ~~~-lI~GpPGTGKT~ti~~~i~~l~~~~ 240 (647)
+++ ..+||||||||.+.--++..+...|
T Consensus 53 pLVlSfHG~tGtGKn~v~~liA~~ly~~G 81 (127)
T PF06309_consen 53 PLVLSFHGWTGTGKNFVSRLIAEHLYKSG 81 (127)
T ss_pred CEEEEeecCCCCcHHHHHHHHHHHHHhcc
Confidence 444 3899999999999999998888776
No 261
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=96.53 E-value=0.015 Score=66.81 Aligned_cols=63 Identities=13% Similarity=0.025 Sum_probs=46.8
Q ss_pred CCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 197 LDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
-.+-|..+.-..+ .+. +.....|+|||.+.+-.+......|..++|+|||...+....+.+..
T Consensus 79 p~~vQl~~~~~l~--~G~-Iaem~TGeGKTL~a~lp~~l~al~G~~v~VvTpt~~LA~qd~e~~~~ 141 (790)
T PRK09200 79 PYDVQLIGALVLH--EGN-IAEMQTGEGKTLTATMPLYLNALEGKGVHLITVNDYLAKRDAEEMGQ 141 (790)
T ss_pred CchHHHHhHHHHc--CCc-eeeecCCCcchHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHHH
Confidence 3566666554333 343 89999999999987766665556799999999999888777776544
No 262
>PRK08727 hypothetical protein; Validated
Probab=96.53 E-value=0.0033 Score=62.19 Aligned_cols=36 Identities=25% Similarity=0.368 Sum_probs=32.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
...+|+||||||||+.+.++...+.+.|.++.+++.
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~ 77 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPL 77 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeH
Confidence 468999999999999999999999888988887763
No 263
>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=96.52 E-value=0.0024 Score=56.03 Aligned_cols=23 Identities=39% Similarity=0.751 Sum_probs=20.0
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
+.+|.|||||||||++..+...+
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 36899999999999998888766
No 264
>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=96.49 E-value=0.0048 Score=62.62 Aligned_cols=51 Identities=24% Similarity=0.349 Sum_probs=41.9
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEeccchHHHHHHHHHhcc
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
...+++|.||||+|||+.+..++..++.. |.+|++++.-. ..+.+..|+..
T Consensus 29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~-~~~~~~~r~~~ 80 (271)
T cd01122 29 KGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE-PVVRTARRLLG 80 (271)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc-CHHHHHHHHHH
Confidence 45699999999999999999999998877 99999998755 44566666543
No 265
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=96.48 E-value=0.022 Score=62.63 Aligned_cols=25 Identities=24% Similarity=0.369 Sum_probs=21.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
..|++||||||||+++..++..+..
T Consensus 38 ayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 38 AYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred eEEEECCCCCcHHHHHHHHHHHhcC
Confidence 4589999999999999998888763
No 266
>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=96.44 E-value=0.0056 Score=60.98 Aligned_cols=48 Identities=21% Similarity=0.369 Sum_probs=40.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEeccchHHHHHHHHHh
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACAASNIAVDNIVERL 260 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a~tn~Avd~l~~rl 260 (647)
..+++|.|+||||||+.+..++..++.. |.++++++.-.... ++..|+
T Consensus 13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~-~~~~r~ 61 (242)
T cd00984 13 GDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKE-QLLQRL 61 (242)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHH-HHHHHH
Confidence 4589999999999999999999999887 99999999866444 455554
No 267
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=96.44 E-value=0.0039 Score=60.01 Aligned_cols=36 Identities=31% Similarity=0.520 Sum_probs=27.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEec
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACA 247 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a 247 (647)
+++.+|.||+||||||++..++..+... +.+|+..-
T Consensus 1 ~GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 1 RGLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 3789999999999999998888777644 34555443
No 268
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.42 E-value=0.0054 Score=60.89 Aligned_cols=29 Identities=31% Similarity=0.586 Sum_probs=25.9
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
..++.||.||-|||||||++++|-++=+.
T Consensus 124 ~~GLILVTGpTGSGKSTTlAamId~iN~~ 152 (353)
T COG2805 124 PRGLILVTGPTGSGKSTTLAAMIDYINKH 152 (353)
T ss_pred CCceEEEeCCCCCcHHHHHHHHHHHHhcc
Confidence 57999999999999999999999887544
No 269
>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=96.42 E-value=0.0062 Score=62.59 Aligned_cols=48 Identities=21% Similarity=0.266 Sum_probs=38.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVER 259 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~r 259 (647)
..+++|.||||||||+.+..++....+.|.+++++..-+..-....++
T Consensus 55 G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~ 102 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARK 102 (321)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHH
Confidence 458999999999999999999999999998988887665444443333
No 270
>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=96.42 E-value=0.0028 Score=63.93 Aligned_cols=26 Identities=31% Similarity=0.316 Sum_probs=21.9
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
...+++||||||||+++..++..+..
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~ 68 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKE 68 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 45789999999999999888877654
No 271
>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=96.41 E-value=0.0044 Score=55.83 Aligned_cols=28 Identities=43% Similarity=0.697 Sum_probs=22.5
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEE
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILA 245 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv 245 (647)
+++.||||||||+++-.++..+ +.++..
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~---~~~~~~ 29 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL---GRPVIR 29 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH---TCEEEE
T ss_pred EEEECCCCCCHHHHHHHHHHHh---hcceEE
Confidence 6899999999999998888777 544433
No 272
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.41 E-value=0.021 Score=63.77 Aligned_cols=37 Identities=24% Similarity=0.301 Sum_probs=26.7
Q ss_pred HHHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 202 KDAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 202 ~~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
.+.+.+++..+ ..+|++||||||||+++..++..+..
T Consensus 25 ~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 25 KAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred HHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence 33445555432 45789999999999999888877753
No 273
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=96.40 E-value=0.019 Score=61.14 Aligned_cols=26 Identities=19% Similarity=0.502 Sum_probs=22.1
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
-.|++||||+|||+++..++..+...
T Consensus 38 a~Lf~Gp~G~GKt~lA~~lA~~l~c~ 63 (394)
T PRK07940 38 AWLFTGPPGSGRSVAARAFAAALQCT 63 (394)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhCCC
Confidence 47899999999999999988876543
No 274
>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=96.39 E-value=0.0042 Score=68.41 Aligned_cols=52 Identities=13% Similarity=0.208 Sum_probs=42.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEeccchHHHHHHHHHhcccC
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACAASNIAVDNIVERLVPHR 264 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a~tn~Avd~l~~rl~~~~ 264 (647)
...++|.||||||||+.+...+..-+.+ |.++|++++- ...+++.+...+.+
T Consensus 21 g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e-E~~~~l~~~~~~~G 73 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE-ESPQDIIKNARSFG 73 (484)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe-cCHHHHHHHHHHcC
Confidence 5689999999999999999998886666 8999999985 56677777766654
No 275
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=96.38 E-value=0.011 Score=61.83 Aligned_cols=51 Identities=29% Similarity=0.392 Sum_probs=37.7
Q ss_pred CHHHHHHHHHHHc-c-----CCeEEEEcCCCCchHHHHHHHHHHHH--HCCCeEEEecc
Q 006386 198 DHSQKDAISKALS-S-----KNVFMLHGPPGTGKTTTVVEIILQEV--KRGSKILACAA 248 (647)
Q Consensus 198 n~~Q~~Av~~~l~-~-----~~~~lI~GpPGTGKT~ti~~~i~~l~--~~~~~ILv~a~ 248 (647)
-.++...+..++. + .++..+.||-|-|||||++.+++.+. ...++|-+++-
T Consensus 183 ~~~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITt 241 (407)
T COG1419 183 FSEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITT 241 (407)
T ss_pred HHHHHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEe
Confidence 3445555544443 3 57899999999999999999999987 55567776654
No 276
>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=96.38 E-value=0.0041 Score=63.12 Aligned_cols=51 Identities=18% Similarity=0.365 Sum_probs=37.6
Q ss_pred CHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 198 DHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
.+...+.+..+....+..+|.||+||||||++..++..+-..+.+|+++--
T Consensus 113 ~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd 163 (270)
T PF00437_consen 113 PEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIED 163 (270)
T ss_dssp HHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEES
T ss_pred HHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhccccccceEEecc
Confidence 345555565554557899999999999999998887665544478777654
No 277
>PRK08939 primosomal protein DnaI; Reviewed
Probab=96.37 E-value=0.0045 Score=63.68 Aligned_cols=36 Identities=22% Similarity=0.203 Sum_probs=32.2
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
.-.+++||||||||+.+.+++..++..|.+++++..
T Consensus 157 ~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~ 192 (306)
T PRK08939 157 KGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHF 192 (306)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEH
Confidence 358899999999999999999999999988887755
No 278
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.37 E-value=0.014 Score=58.76 Aligned_cols=50 Identities=22% Similarity=0.278 Sum_probs=37.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc-ch--HHHHHHHHHhc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA-SN--IAVDNIVERLV 261 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~-tn--~Avd~l~~rl~ 261 (647)
.+...+.||+|+|||+++..+...+...+.++.+++. +. .++..+.....
T Consensus 75 ~~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~ 127 (270)
T PRK06731 75 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVK 127 (270)
T ss_pred CCEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhh
Confidence 3688999999999999999999888777777776654 33 35666555433
No 279
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=96.36 E-value=0.02 Score=59.56 Aligned_cols=26 Identities=27% Similarity=0.555 Sum_probs=22.7
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
..|++||+|+|||+++..++..+.-.
T Consensus 24 a~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 24 AYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred eeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 57899999999999999999888643
No 280
>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=96.35 E-value=0.0082 Score=56.72 Aligned_cols=58 Identities=24% Similarity=0.429 Sum_probs=38.3
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc--chHHHHHHHHHhcccCceEEEeCCC
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA--SNIAVDNIVERLVPHRVRLVRLGHP 273 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~--tn~Avd~l~~rl~~~~~~~vr~g~~ 273 (647)
|+++|.|..||||||++.+++. ....+.++.++.. -...+|. +.+.+.+..++.+.+.
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~ne~g~~~iD~--~~l~~~~~~v~~l~~g 60 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK-RNRQGERVAVIVNEFGEVNIDA--ELLQEDGVPVVELNNG 60 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH-HHTTTS-EEEEECSTTSTHHHH--HHHHTTT-EEEEECTT
T ss_pred CEEEEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEccccccccch--hhhcccceEEEEecCC
Confidence 5789999999999999999998 6667888887753 2222332 2333445666666654
No 281
>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=96.33 E-value=0.0062 Score=50.60 Aligned_cols=33 Identities=30% Similarity=0.500 Sum_probs=30.7
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
.++.|.+|+|||+++..++..+.+.|.+++++.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 578899999999999999999999999999888
No 282
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.30 E-value=0.0021 Score=67.36 Aligned_cols=23 Identities=35% Similarity=0.657 Sum_probs=21.0
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
-.|+.||||||||+.|++++..|
T Consensus 237 GYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 237 GYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred cceeeCCCCCCHHHHHHHHHhhc
Confidence 48999999999999999998876
No 283
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=96.30 E-value=0.017 Score=56.40 Aligned_cols=59 Identities=17% Similarity=0.369 Sum_probs=43.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch-HHHHHHHHHhcccCceEEEe
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN-IAVDNIVERLVPHRVRLVRL 270 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn-~Avd~l~~rl~~~~~~~vr~ 270 (647)
...+|++|++|||||+++.+++..+...|-+++=+.... .....+.+.|.....++|-+
T Consensus 52 annvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l~~l~~~l~~~~~kFIlf 111 (249)
T PF05673_consen 52 ANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDLPELLDLLRDRPYKFILF 111 (249)
T ss_pred CcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccHHHHHHHHhcCCCCEEEE
Confidence 356899999999999999999999999998877766555 34555666655444444433
No 284
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=96.29 E-value=0.033 Score=51.66 Aligned_cols=27 Identities=26% Similarity=0.529 Sum_probs=23.3
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRG 240 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~ 240 (647)
..|++||+|+||++.+..++..++...
T Consensus 21 a~L~~G~~g~gk~~~a~~~a~~ll~~~ 47 (162)
T PF13177_consen 21 ALLFHGPSGSGKKTLALAFARALLCSN 47 (162)
T ss_dssp EEEEECSTTSSHHHHHHHHHHHHC-TT
T ss_pred eEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 579999999999999999999987654
No 285
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=96.29 E-value=0.0058 Score=64.13 Aligned_cols=42 Identities=29% Similarity=0.517 Sum_probs=32.0
Q ss_pred CHHHHHHHHHHHccCC--eEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 198 DHSQKDAISKALSSKN--VFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~--~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
++...+.+..++.... ..+++||||||||+++..++..+...
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 4555666666665443 78999999999999999988887644
No 286
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.28 E-value=0.015 Score=59.54 Aligned_cols=68 Identities=19% Similarity=0.192 Sum_probs=55.8
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHH-HHHHHHHHHHCC--CeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTT-VVEIILQEVKRG--SKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t-i~~~i~~l~~~~--~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
...++-|++|+=.++. ..-++..+--|||||-+ +.-++..|+..+ ...||++||...+-.|.+-....
T Consensus 82 ~~PT~IQ~~aiP~~L~-g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~L 152 (476)
T KOG0330|consen 82 KKPTKIQSEAIPVALG-GRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEAL 152 (476)
T ss_pred CCCchhhhhhcchhhC-CCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHh
Confidence 4568899999999998 66788899999999975 556777777654 47999999999999998877665
No 287
>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=96.25 E-value=0.0057 Score=65.01 Aligned_cols=41 Identities=24% Similarity=0.347 Sum_probs=31.0
Q ss_pred CHHHHHHHHHHHc------cCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 198 DHSQKDAISKALS------SKNVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 198 n~~Q~~Av~~~l~------~~~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
-++|.+.+...+. ..+..+|+||||||||+++..++.++..
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4566666666653 2357899999999999999888887753
No 288
>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=96.24 E-value=0.0044 Score=57.86 Aligned_cols=46 Identities=17% Similarity=0.323 Sum_probs=37.7
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
+++|.||||||||+.+..++.. .+.++++++.....-+++.+|+..
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccCcCCHHHHHHHHH
Confidence 4789999999999998888755 577888888877777788888755
No 289
>PRK06851 hypothetical protein; Provisional
Probab=96.21 E-value=0.006 Score=63.79 Aligned_cols=45 Identities=33% Similarity=0.570 Sum_probs=36.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEE--eccchHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILA--CAASNIAVDNI 256 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv--~a~tn~Avd~l 256 (647)
....+|.|||||||||++..++..+.++|.+|.+ |+.-+..+|-+
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dPdslD~v 260 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDPDSLDMV 260 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCcceE
Confidence 4689999999999999999999999999987665 45555444443
No 290
>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=96.20 E-value=0.0094 Score=61.34 Aligned_cols=46 Identities=22% Similarity=0.271 Sum_probs=37.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIV 257 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~ 257 (647)
..++.|.||||||||+.+..++....+.|.+++++..-+..-....
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a 100 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYA 100 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHH
Confidence 4589999999999999999999999889989998887654443333
No 291
>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=96.20 E-value=0.015 Score=53.76 Aligned_cols=34 Identities=35% Similarity=0.466 Sum_probs=26.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
++++|.|++|+||||.+..++... .+.++.++..
T Consensus 1 p~~~l~G~~GsGKTtl~~~l~~~~--~~~~~~~i~~ 34 (158)
T cd03112 1 PVTVLTGFLGAGKTTLLNHILTEQ--HGRKIAVIEN 34 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHhcc--cCCcEEEEec
Confidence 478999999999999998877653 3666655543
No 292
>PF05729 NACHT: NACHT domain
Probab=96.20 E-value=0.0049 Score=57.05 Aligned_cols=27 Identities=30% Similarity=0.538 Sum_probs=24.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRG 240 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~ 240 (647)
+.+|.|+||+|||+++..++..+...+
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 689999999999999999999887664
No 293
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=96.20 E-value=0.036 Score=64.84 Aligned_cols=69 Identities=20% Similarity=0.228 Sum_probs=56.2
Q ss_pred CCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHH-HHHHHHHHHHCC-CeEEEeccchHHHHHHHHHhccc
Q 006386 194 NSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTT-VVEIILQEVKRG-SKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t-i~~~i~~l~~~~-~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
...|=..|.+|.+.+.+ ...++|.-|.|||||-+ +.-++.++++.+ .+-|++-|||+.+..=.+||.+.
T Consensus 68 ~~~lY~HQ~~A~~~~~~-G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~ 138 (851)
T COG1205 68 IERLYSHQVDALRLIRE-GRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLREL 138 (851)
T ss_pred cccccHHHHHHHHHHHC-CCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHH
Confidence 34588999999999886 56889999999999975 556666666554 47899999999999988888765
No 294
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.18 E-value=0.0066 Score=64.23 Aligned_cols=36 Identities=25% Similarity=0.525 Sum_probs=30.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH-HHCCCeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQE-VKRGSKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l-~~~~~~ILv~a~ 248 (647)
.++++.||+|+|||||+..++..+ ...|.+|++++.
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~ 260 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTT 260 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecc
Confidence 467899999999999999999876 567888876653
No 295
>PHA00729 NTP-binding motif containing protein
Probab=96.17 E-value=0.0065 Score=58.95 Aligned_cols=24 Identities=25% Similarity=0.419 Sum_probs=21.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
..+|.|+||||||+.+..++..+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 578999999999999999888764
No 296
>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=96.17 E-value=0.0077 Score=47.02 Aligned_cols=30 Identities=23% Similarity=0.421 Sum_probs=22.9
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
..|.|+||+||||.+..+...+ .+.++.++
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l--~~~~~~~i 31 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL--GGRSVVVL 31 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh--cCCCEEEE
Confidence 5689999999999998888777 44444444
No 297
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=96.15 E-value=0.022 Score=58.81 Aligned_cols=44 Identities=30% Similarity=0.393 Sum_probs=31.7
Q ss_pred CCCEEEEecCCCcchHHH--HHHHH----hcCeeeecCC-CCCCCceeccH
Q 006386 369 SFDLVIIDEAAQALEIAC--WIALL----KGSRCILAGD-HLQLPPTVQSV 412 (647)
Q Consensus 369 ~fd~vIIDEAsq~~e~~~--l~~l~----~~~~~vlvGD-~~QL~p~v~s~ 412 (647)
.+.+||||+|..+++... |.-.+ ....+||+.+ +.+|.|+++|.
T Consensus 113 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSR 163 (319)
T PRK08769 113 IAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSR 163 (319)
T ss_pred CcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhh
Confidence 679999999998877642 22222 1256888887 78899998874
No 298
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=96.15 E-value=0.0094 Score=64.10 Aligned_cols=42 Identities=33% Similarity=0.453 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHc------cCCeEEEEcCCCCchHHHHHHHHHHHHHCC
Q 006386 199 HSQKDAISKALS------SKNVFMLHGPPGTGKTTTVVEIILQEVKRG 240 (647)
Q Consensus 199 ~~Q~~Av~~~l~------~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~ 240 (647)
+.|.+.+...+. ..+..+|+||||||||+++..++..+...+
T Consensus 36 e~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~ 83 (394)
T PRK00411 36 EEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIA 83 (394)
T ss_pred HHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence 445555555542 235689999999999999999998876554
No 299
>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=96.14 E-value=0.0056 Score=60.04 Aligned_cols=32 Identities=34% Similarity=0.630 Sum_probs=26.6
Q ss_pred EEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 216 MLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 216 lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
=|.||||.||+|.+-+++..+.+.|++|-|+|
T Consensus 33 GiTG~PGaGKSTli~~l~~~~~~~g~~VaVlA 64 (266)
T PF03308_consen 33 GITGPPGAGKSTLIDALIRELRERGKRVAVLA 64 (266)
T ss_dssp EEEE-TTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred EeeCCCCCcHHHHHHHHHHHHhhcCCceEEEE
Confidence 38999999999999999999999999887776
No 300
>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=96.14 E-value=0.0046 Score=63.06 Aligned_cols=27 Identities=33% Similarity=0.493 Sum_probs=23.0
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRG 240 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~ 240 (647)
..++.||||||||+++..+...+...|
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g 86 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLG 86 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 588999999999999988888776654
No 301
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=96.13 E-value=0.039 Score=64.15 Aligned_cols=34 Identities=29% Similarity=0.486 Sum_probs=25.5
Q ss_pred HHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 204 AISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 204 Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
.+..++..+ ..+|++||||+|||+++..+++.|.
T Consensus 26 ~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~ 62 (824)
T PRK07764 26 PLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLN 62 (824)
T ss_pred HHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence 344444422 3468999999999999998888875
No 302
>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=96.11 E-value=0.0041 Score=56.26 Aligned_cols=22 Identities=36% Similarity=0.767 Sum_probs=18.6
Q ss_pred eEEEEcCCCCchHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~ 235 (647)
++++.|||||||||.+..+...
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~ 22 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKR 22 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999998777655
No 303
>PRK13768 GTPase; Provisional
Probab=96.11 E-value=0.007 Score=60.67 Aligned_cols=34 Identities=21% Similarity=0.297 Sum_probs=31.0
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
..+|.||+|+||||++..++..+...|.+++++.
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~ 37 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVN 37 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHhcCCceEEEE
Confidence 5789999999999999999999988999988875
No 304
>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=96.11 E-value=0.013 Score=61.66 Aligned_cols=48 Identities=19% Similarity=0.326 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC--CCeEEEe
Q 006386 196 NLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR--GSKILAC 246 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~--~~~ILv~ 246 (647)
.|.++..+.+ ....+.++|.||+||||||++..++..+... +.+|+.+
T Consensus 136 gl~~~~~~~l---~~~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivti 185 (372)
T TIGR02525 136 GIEPDLFNSL---LPAAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTY 185 (372)
T ss_pred CCCHHHHHHH---HhcCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEE
Confidence 3555544443 3357899999999999999999988887643 3455543
No 305
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.08 E-value=0.022 Score=61.57 Aligned_cols=68 Identities=18% Similarity=0.165 Sum_probs=49.7
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHH-HHHHHHHHHH--------CCCeEEEeccchHHHHHHHHHhccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTT-VVEIILQEVK--------RGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t-i~~~i~~l~~--------~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
...++-|...+-.++... -.+..+--|||||.. ++-+|.++.. .+..+||++||...+..+..-..++
T Consensus 112 ~~PtpIQaq~wp~~l~Gr-D~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~ 188 (519)
T KOG0331|consen 112 EKPTPIQAQGWPIALSGR-DLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREF 188 (519)
T ss_pred CCCchhhhcccceeccCC-ceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHH
Confidence 356788888888888744 455667799999973 4444545543 1578999999999999888776654
No 306
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=96.08 E-value=0.0085 Score=63.90 Aligned_cols=41 Identities=29% Similarity=0.476 Sum_probs=32.2
Q ss_pred CCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 197 LDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
..+...+.+..++...+..++.||||||||+++..+...+.
T Consensus 179 i~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l~ 219 (459)
T PRK11331 179 IPETTIETILKRLTIKKNIILQGPPGVGKTFVARRLAYLLT 219 (459)
T ss_pred CCHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhc
Confidence 45666667777776688999999999999999877666553
No 307
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=96.07 E-value=0.0088 Score=53.96 Aligned_cols=38 Identities=26% Similarity=0.456 Sum_probs=30.8
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN 250 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn 250 (647)
+...|.||.||||||.+..++..|.++|.++.++-.++
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~~~ 38 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKHTD 38 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE-S
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEEcc
Confidence 36789999999999999999999999999988776654
No 308
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=96.04 E-value=0.0094 Score=66.33 Aligned_cols=53 Identities=19% Similarity=0.310 Sum_probs=44.6
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccC
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHR 264 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~ 264 (647)
....++|.||||||||+.+..++...+..|.+++++++... .+.+.+++...+
T Consensus 272 ~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~-~~~i~~~~~~~g 324 (509)
T PRK09302 272 RGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEES-RAQLIRNARSWG 324 (509)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCC-HHHHHHHHHHcC
Confidence 35688999999999999999999999999999999998765 666777765544
No 309
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.04 E-value=0.015 Score=61.97 Aligned_cols=68 Identities=22% Similarity=0.195 Sum_probs=54.1
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHH-HHHHHHHHHHHC------------CCeEEEeccchHHHHHHHHHhc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTT-TVVEIILQEVKR------------GSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~-ti~~~i~~l~~~------------~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
...++-|+-+|..+.. ..-.++.|+-|+|||. -+.-++.++.+. ..+.|++|||+..|+.+.++-.
T Consensus 95 ~~ptpvQk~sip~i~~-Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~ 173 (482)
T KOG0335|consen 95 TKPTPVQKYSIPIISG-GRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEAR 173 (482)
T ss_pred cCCCcceeeccceeec-CCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHH
Confidence 4568888888887776 4456899999999998 466677777654 2589999999999999998866
Q ss_pred cc
Q 006386 262 PH 263 (647)
Q Consensus 262 ~~ 263 (647)
+.
T Consensus 174 k~ 175 (482)
T KOG0335|consen 174 KF 175 (482)
T ss_pred hh
Confidence 54
No 310
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=96.01 E-value=0.0088 Score=63.67 Aligned_cols=67 Identities=21% Similarity=0.204 Sum_probs=52.3
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHH-HHHHHHHHHHHC------CCeEEEeccchHHHHHHHHHhcc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTT-TVVEIILQEVKR------GSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~-ti~~~i~~l~~~------~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..+++-|+..|-.+|. ..-+|=.+-.|||||. .++-.+..|... |-..||++||...+-.+.+-|.+
T Consensus 90 v~~teiQ~~~Ip~aL~-G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~k 163 (758)
T KOG0343|consen 90 VKMTEIQRDTIPMALQ-GHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNK 163 (758)
T ss_pred ccHHHHHHhhcchhcc-CcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHH
Confidence 3679999999999998 3345566678999997 456666666653 57899999999999888887755
No 311
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=96.00 E-value=0.0083 Score=54.15 Aligned_cols=29 Identities=38% Similarity=0.654 Sum_probs=24.8
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeE
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKI 243 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~I 243 (647)
..|.||||+||||.+..++..|-..|.+|
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g~kv 36 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKGYKV 36 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcCcee
Confidence 57999999999999999998887776554
No 312
>PRK11823 DNA repair protein RadA; Provisional
Probab=96.00 E-value=0.011 Score=64.26 Aligned_cols=50 Identities=24% Similarity=0.428 Sum_probs=40.5
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..+++|.|+||+|||+.+..++..+.+.+.++|+++... ..+.+..|...
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ee-s~~qi~~ra~r 129 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEE-SASQIKLRAER 129 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccc-cHHHHHHHHHH
Confidence 458999999999999999999999888889999988654 34566655443
No 313
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=95.99 E-value=0.0064 Score=56.98 Aligned_cols=34 Identities=26% Similarity=0.384 Sum_probs=28.7
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
++.++.|+||+||||.+-+++..|-+.+.++..+
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~vi~l 35 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVIHL 35 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhhhhcccc
Confidence 4788999999999999999999988777665544
No 314
>PRK10865 protein disaggregation chaperone; Provisional
Probab=95.99 E-value=0.026 Score=66.43 Aligned_cols=28 Identities=36% Similarity=0.504 Sum_probs=22.9
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
..+..++.||||+|||+++-.++..+..
T Consensus 198 ~~~n~lL~G~pGvGKT~l~~~la~~i~~ 225 (857)
T PRK10865 198 TKNNPVLIGEPGVGKTAIVEGLAQRIIN 225 (857)
T ss_pred CcCceEEECCCCCCHHHHHHHHHHHhhc
Confidence 3457889999999999999887777653
No 315
>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=95.99 E-value=0.0092 Score=56.92 Aligned_cols=36 Identities=33% Similarity=0.481 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHH
Q 006386 199 HSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIIL 234 (647)
Q Consensus 199 ~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~ 234 (647)
+.-++|+.-+.......++.||||||||+.+..+..
T Consensus 9 e~aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~~ 44 (206)
T PF01078_consen 9 EEAKRALEIAAAGGHHLLLIGPPGTGKTMLARRLPS 44 (206)
T ss_dssp HHHHHHHHHHHHCC--EEEES-CCCTHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHHH
Confidence 455667776666567899999999999987755543
No 316
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=95.96 E-value=0.023 Score=69.43 Aligned_cols=45 Identities=20% Similarity=0.264 Sum_probs=35.3
Q ss_pred EEcCCCCchHHHHHH-HHHHHHHC------------CCeEEEeccchHHHHHHHHHhc
Q 006386 217 LHGPPGTGKTTTVVE-IILQEVKR------------GSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 217 I~GpPGTGKT~ti~~-~i~~l~~~------------~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
|.+|.|||||.+..- ++..++.. +.++|+++|+++-+..+.++|.
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~ 58 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQ 58 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHH
Confidence 578999999997654 55566532 4589999999999988888764
No 317
>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=95.96 E-value=0.012 Score=62.04 Aligned_cols=51 Identities=27% Similarity=0.463 Sum_probs=40.8
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
...+++|.|+||+|||+.+..++..+...+.++++++.... .+.+..|..+
T Consensus 81 ~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs-~~qi~~Ra~r 131 (372)
T cd01121 81 PGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEES-PEQIKLRADR 131 (372)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcC-HHHHHHHHHH
Confidence 34689999999999999999999999888889999876543 4556655443
No 318
>CHL00181 cbbX CbbX; Provisional
Probab=95.94 E-value=0.007 Score=61.77 Aligned_cols=26 Identities=35% Similarity=0.442 Sum_probs=22.1
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
..++.||||||||+++..++..+...
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 47899999999999999888877654
No 319
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=95.93 E-value=0.034 Score=64.17 Aligned_cols=65 Identities=28% Similarity=0.468 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHH-HC--CCeEEEeccchHHHHHHHHHhccc
Q 006386 199 HSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEV-KR--GSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 199 ~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~-~~--~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
-.+++.|..++..+++++|.|-+|+||||-+-..|.... .. ..+|+++-|-.-||-.+.+|+...
T Consensus 175 ~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~E 242 (924)
T KOG0920|consen 175 YKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVAKE 242 (924)
T ss_pred HHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHH
Confidence 355666777777789999999999999998888877653 33 368999999999999999998764
No 320
>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=95.93 E-value=0.0075 Score=56.25 Aligned_cols=28 Identities=39% Similarity=0.710 Sum_probs=22.8
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCe
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSK 242 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ 242 (647)
.+|.|+||+||||.+..++..+.+.|.+
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~~~~~ 29 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKKKGLP 29 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHHTCGG
T ss_pred EEEECcCCCCHHHHHHHHHHHhhccCCc
Confidence 5899999999999999999888665533
No 321
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=95.92 E-value=0.08 Score=58.74 Aligned_cols=51 Identities=25% Similarity=0.238 Sum_probs=43.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHH--HCCCeEEEeccchHHHHHHHHHhcc
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEV--KRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~--~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
+..+++.-|==.|||+.++.++..++ ..|.+|+++||....++.+.+++..
T Consensus 254 qk~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~ 306 (738)
T PHA03368 254 QRATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGA 306 (738)
T ss_pred ccceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHH
Confidence 56789999999999999987777666 3699999999999999888887654
No 322
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=95.92 E-value=0.17 Score=47.05 Aligned_cols=61 Identities=18% Similarity=0.302 Sum_probs=45.5
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHH----HHHHHHhcccCceEEEeCC
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAV----DNIVERLVPHRVRLVRLGH 272 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Av----d~l~~rl~~~~~~~vr~g~ 272 (647)
..++.+|+=++|=||||.+..++.+.+-.|.+|+|+=+=..+- ..+.+++ ...+....+|.
T Consensus 27 ~~Gli~V~TG~GKGKTTAAlG~alRa~GhG~rv~vvQFiKg~~~~GE~~~~~~~-~~~v~~~~~~~ 91 (198)
T COG2109 27 EKGLIIVFTGNGKGKTTAALGLALRALGHGLRVGVVQFIKGGWKYGEEAALEKF-GLGVEFHGMGE 91 (198)
T ss_pred ccCeEEEEecCCCChhHHHHHHHHHHhcCCCEEEEEEEeecCcchhHHHHHHhh-ccceeEEecCC
Confidence 4689999999999999999999999999999999997755542 2333333 22345555553
No 323
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=95.92 E-value=0.041 Score=57.42 Aligned_cols=27 Identities=22% Similarity=0.372 Sum_probs=22.9
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
...|++||||+|||+++..++..++..
T Consensus 29 ha~Lf~G~~G~gk~~~a~~la~~l~c~ 55 (329)
T PRK08058 29 HAYLFEGAKGTGKKATALWLAKSLFCL 55 (329)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHCCC
Confidence 356999999999999999998887643
No 324
>KOG4284 consensus DEAD box protein [Transcription]
Probab=95.92 E-value=0.0032 Score=67.95 Aligned_cols=65 Identities=18% Similarity=0.201 Sum_probs=48.5
Q ss_pred CHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC---CCeEEEeccchHHHHHHHHHhccc
Q 006386 198 DHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR---GSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~---~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
++-|..||-.++. .--.+||+-.|||||-+-+-++.+-+.. .-.+++++||..-+-.+.+-+.+.
T Consensus 49 tkiQaaAIP~~~~-kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v 116 (980)
T KOG4284|consen 49 TKIQAAAIPAIFS-KMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKV 116 (980)
T ss_pred Cchhhhhhhhhhc-ccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHh
Confidence 6778899988886 4457899999999998765555443332 358999999998887777765443
No 325
>PRK09354 recA recombinase A; Provisional
Probab=95.91 E-value=0.015 Score=60.33 Aligned_cols=48 Identities=21% Similarity=0.265 Sum_probs=38.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVER 259 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~r 259 (647)
..++.|.||||||||+....++....+.|.+++++..-+..-....++
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a~~ 107 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKK 107 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHHHH
Confidence 458999999999999999999999989998988888766554443333
No 326
>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=95.90 E-value=0.012 Score=54.24 Aligned_cols=35 Identities=23% Similarity=0.419 Sum_probs=31.3
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccc
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILACAAS 249 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~t 249 (647)
..|.|++||||||++..++..+...|.+|.++-+.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK~~ 36 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARGYRVATIKHD 36 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecc
Confidence 56889999999999999999998889999888765
No 327
>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=95.89 E-value=0.0073 Score=53.31 Aligned_cols=22 Identities=36% Similarity=0.514 Sum_probs=19.8
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.+|.|+|||||||++.++...+
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 4799999999999999988886
No 328
>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=95.87 E-value=0.012 Score=60.72 Aligned_cols=36 Identities=28% Similarity=0.447 Sum_probs=32.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
..++.|.||||+||||++..++..+...|.++.+++
T Consensus 34 ~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~ 69 (300)
T TIGR00750 34 AHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIA 69 (300)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence 457789999999999999999999998999998866
No 329
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.87 E-value=0.018 Score=65.49 Aligned_cols=46 Identities=30% Similarity=0.461 Sum_probs=33.3
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHH-HCC-CeEEEecc-chH--HHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEV-KRG-SKILACAA-SNI--AVDNIVE 258 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~-~~~-~~ILv~a~-tn~--Avd~l~~ 258 (647)
.++.+.||.|+|||||+..+...+. ..| ++|.+++. |-. |++.+..
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~ 236 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRI 236 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHH
Confidence 5788999999999999999998874 455 57765543 433 5555443
No 330
>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=95.86 E-value=0.012 Score=53.61 Aligned_cols=34 Identities=29% Similarity=0.477 Sum_probs=30.3
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
..+.|++|+|||+++..+...+...|.+++++..
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii~~ 35 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARGKRVAVLAI 35 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEe
Confidence 4678999999999999999999999999988764
No 331
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.86 E-value=0.075 Score=55.84 Aligned_cols=66 Identities=18% Similarity=0.218 Sum_probs=49.1
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHH-HC-----CC--eEEEeccchHHHHHHHHHhc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEV-KR-----GS--KILACAASNIAVDNIVERLV 261 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~-~~-----~~--~ILv~a~tn~Avd~l~~rl~ 261 (647)
..+++-|..+|-..+. +.=+++.+|-|||||..-+-=+...+ .+ +. .-||+|||...+-.|.+-+.
T Consensus 27 ~~mTpVQa~tIPlll~-~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~ 100 (567)
T KOG0345|consen 27 EKMTPVQAATIPLLLK-NKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQ 100 (567)
T ss_pred cccCHHHHhhhHHHhc-CCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHH
Confidence 4689999999998887 55678999999999986544444443 22 22 56899999988877766543
No 332
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=95.81 E-value=0.11 Score=58.96 Aligned_cols=67 Identities=18% Similarity=0.232 Sum_probs=49.8
Q ss_pred CCCCHHHHHHHHHHH---c-cCCeEEEEcCCCCchHHHHHHHHHHHHHCC--CeEEEeccchHHHHHHHHHhc
Q 006386 195 SNLDHSQKDAISKAL---S-SKNVFMLHGPPGTGKTTTVVEIILQEVKRG--SKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l---~-~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~~ILv~a~tn~Avd~l~~rl~ 261 (647)
..+++.|.+++.... . .....+|.+.=|=|||..+--.+..+...+ .+|+|+|||-.+++.+.+-+.
T Consensus 210 l~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~ 282 (758)
T COG1444 210 LCLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIALAAAARLAGSVRIIVTAPTPANVQTLFEFAG 282 (758)
T ss_pred hhcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHhHHHHHHHHhcCCceEEEeCCCHHHHHHHHHHHH
Confidence 357888888776543 2 234889999999999998764444443334 499999999999999887653
No 333
>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=95.80 E-value=0.023 Score=55.56 Aligned_cols=35 Identities=31% Similarity=0.489 Sum_probs=28.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHH--CCCeEEEecc
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVK--RGSKILACAA 248 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~--~~~~ILv~a~ 248 (647)
..+|+||+|+|||+.+.++...+.+ ++.+|+.+..
T Consensus 36 ~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~ 72 (219)
T PF00308_consen 36 PLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA 72 (219)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH
T ss_pred ceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH
Confidence 5789999999999999999888875 4677777653
No 334
>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=95.79 E-value=0.018 Score=51.11 Aligned_cols=38 Identities=26% Similarity=0.271 Sum_probs=28.8
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchH
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNI 251 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~ 251 (647)
...+.++.|+.|+||||.+..++..+ |..--|.+||=.
T Consensus 21 ~~~~i~l~G~lGaGKTtl~~~l~~~l---g~~~~v~SPTf~ 58 (133)
T TIGR00150 21 FGTVVLLKGDLGAGKTTLVQGLLQGL---GIQGNVTSPTFT 58 (133)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHHHc---CCCCcccCCCee
Confidence 45688999999999999998888775 322347777743
No 335
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=95.78 E-value=0.013 Score=66.60 Aligned_cols=40 Identities=30% Similarity=0.448 Sum_probs=29.8
Q ss_pred CHHHHHHHHHHHc-----c--CCeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 198 DHSQKDAISKALS-----S--KNVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 198 n~~Q~~Av~~~l~-----~--~~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
=++|.+.|..++. . ..+.+|.|+||||||.|+..++..|.
T Consensus 760 REeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELq 806 (1164)
T PTZ00112 760 REKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQ 806 (1164)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence 3667777776664 1 12356999999999999999887774
No 336
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=95.73 E-value=0.0082 Score=54.17 Aligned_cols=22 Identities=36% Similarity=0.563 Sum_probs=18.8
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l 236 (647)
..|.|||||||||+...+...+
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 4689999999999988877664
No 337
>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=95.73 E-value=0.017 Score=56.75 Aligned_cols=40 Identities=18% Similarity=0.342 Sum_probs=32.6
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCC------CeEEEeccch
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRG------SKILACAASN 250 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~------~~ILv~a~tn 250 (647)
...++.|.||||||||+.+..++.....++ .++++++..+
T Consensus 18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~ 63 (226)
T cd01393 18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG 63 (226)
T ss_pred CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence 356899999999999999999998887766 6777766544
No 338
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=95.71 E-value=0.014 Score=62.46 Aligned_cols=24 Identities=38% Similarity=0.601 Sum_probs=19.6
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.-+|++||||||||+++.++...+
T Consensus 166 ~gvLL~GppGtGKT~lAkaia~~~ 189 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLAKAVAHET 189 (389)
T ss_pred CceEEECCCCCChHHHHHHHHHHh
Confidence 348999999999999887776653
No 339
>PF12846 AAA_10: AAA-like domain
Probab=95.70 E-value=0.029 Score=57.60 Aligned_cols=56 Identities=16% Similarity=0.293 Sum_probs=44.2
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCceEEEeCC
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVRLVRLGH 272 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~ 272 (647)
+.++|.|++|+|||+++..++.+++..|..+++.=+...-.. +++. .+..++.++.
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g~~~~-~~~~---~~~~~i~~~~ 57 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKGDYSP-LARA---LGGQYIDIDP 57 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCchHHH-HHHh---cCceEEEeec
Confidence 578999999999999999999999999999999988765555 2222 4556665443
No 340
>PRK10865 protein disaggregation chaperone; Provisional
Probab=95.70 E-value=0.045 Score=64.51 Aligned_cols=34 Identities=21% Similarity=0.364 Sum_probs=26.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
+.+++.||||||||+++..+...+...+..++.+
T Consensus 599 ~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~i 632 (857)
T PRK10865 599 GSFLFLGPTGVGKTELCKALANFMFDSDDAMVRI 632 (857)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEE
Confidence 3689999999999999988887776555554433
No 341
>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=95.68 E-value=0.018 Score=62.71 Aligned_cols=50 Identities=24% Similarity=0.439 Sum_probs=40.3
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhc
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
...+++|.|+||+|||+.+..++..+.+.+.++|+++.-.. .+.+..|..
T Consensus 93 ~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs-~~qi~~ra~ 142 (454)
T TIGR00416 93 PGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEES-LQQIKMRAI 142 (454)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCC-HHHHHHHHH
Confidence 35689999999999999999999999888889998887543 455655543
No 342
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=95.68 E-value=0.081 Score=54.71 Aligned_cols=28 Identities=21% Similarity=0.532 Sum_probs=24.5
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCC
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRG 240 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~ 240 (647)
+..|++||+|+||++++..++..++..+
T Consensus 27 ha~Lf~G~~G~Gk~~~A~~~a~~llc~~ 54 (314)
T PRK07399 27 PAYLFAGPEGVGRKLAALCFIEGLLSQG 54 (314)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 5789999999999999999998887544
No 343
>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=95.65 E-value=0.014 Score=60.25 Aligned_cols=24 Identities=42% Similarity=0.594 Sum_probs=20.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
+.++++||||||||+++..+...+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 458999999999999988776653
No 344
>PHA02244 ATPase-like protein
Probab=95.65 E-value=0.017 Score=60.10 Aligned_cols=33 Identities=24% Similarity=0.366 Sum_probs=25.7
Q ss_pred HHHHHHHccCCeEEEEcCCCCchHHHHHHHHHH
Q 006386 203 DAISKALSSKNVFMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 203 ~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~ 235 (647)
..+..++.....++|.||||||||+.+..+...
T Consensus 110 ~ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 110 ADIAKIVNANIPVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred HHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHH
Confidence 344555555677899999999999998887765
No 345
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=95.65 E-value=0.34 Score=56.11 Aligned_cols=51 Identities=31% Similarity=0.518 Sum_probs=44.4
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHH---HHHHHhcccC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVD---NIVERLVPHR 264 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd---~l~~rl~~~~ 264 (647)
.-+|.|-.|||||+.+++-+...++.|++|..++|+-..-. ++++++...|
T Consensus 3 m~~lyg~~gtgkT~~l~~e~~~~~~~gkpviyIvP~q~sFe~E~~~L~~~~~~g 56 (1108)
T COG3857 3 MQLLYGRAGTGKTEILTEEIQEELEKGKPVIYIVPSQMSFEKEKEILERLRQGG 56 (1108)
T ss_pred eeeehhhccccHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHHhCcccCC
Confidence 35789999999999999999999999999999999887654 7777777766
No 346
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=95.63 E-value=0.016 Score=61.07 Aligned_cols=63 Identities=16% Similarity=0.254 Sum_probs=41.6
Q ss_pred CHHHHHHHHHHHc------cCCeEEEEcCCCCchHHHHHHHHHHHHHCC--C-eEEEeccchHHHHHHHHHh
Q 006386 198 DHSQKDAISKALS------SKNVFMLHGPPGTGKTTTVVEIILQEVKRG--S-KILACAASNIAVDNIVERL 260 (647)
Q Consensus 198 n~~Q~~Av~~~l~------~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~--~-~ILv~a~tn~Avd~l~~rl 260 (647)
=++|.+.+..++. .+...+|.||||||||.|+-.++.++.... . -+-|=|..+..-..+..++
T Consensus 22 Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i 93 (366)
T COG1474 22 REEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKI 93 (366)
T ss_pred cHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHH
Confidence 4667777766664 234589999999999999999998886552 2 2334455444444444444
No 347
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=95.63 E-value=0.019 Score=59.81 Aligned_cols=46 Identities=22% Similarity=0.322 Sum_probs=34.0
Q ss_pred HHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 200 SQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 200 ~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
.....+..+.......+|.||+||||||++.+++.. +....+|+++
T Consensus 148 ~~~~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~-ip~~~ri~ti 193 (332)
T PRK13900 148 KIKEFLEHAVISKKNIIISGGTSTGKTTFTNAALRE-IPAIERLITV 193 (332)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhh-CCCCCeEEEe
Confidence 344556666666789999999999999999877654 4455676654
No 348
>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=95.62 E-value=0.014 Score=59.06 Aligned_cols=58 Identities=21% Similarity=0.326 Sum_probs=34.2
Q ss_pred HHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 205 ISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 205 v~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
+...+.++..+++.||+|||||.++...+..+-....-+..+.+|....-+...++.+
T Consensus 26 l~~l~~~~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~Tts~~~q~~ie 83 (272)
T PF12775_consen 26 LDLLLSNGRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQTTSNQLQKIIE 83 (272)
T ss_dssp HHHHHHCTEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTHHHHHHHHCCC
T ss_pred HHHHHHcCCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCCCHHHHHHHHh
Confidence 4444456778999999999999999887765432222233333433222233444444
No 349
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=95.62 E-value=0.016 Score=60.00 Aligned_cols=35 Identities=26% Similarity=0.455 Sum_probs=30.9
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
+.-|.||||+||||++..++..+...|.+|.|++-
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~ 92 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAV 92 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEe
Confidence 45699999999999999999999888988888764
No 350
>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=95.61 E-value=0.017 Score=60.76 Aligned_cols=37 Identities=27% Similarity=0.529 Sum_probs=28.6
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEec
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACA 247 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a 247 (647)
..++.+|.||+|+||||++..++..+... +.+|+.+-
T Consensus 121 ~~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiE 158 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIE 158 (343)
T ss_pred cCcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEc
Confidence 46899999999999999998888776543 34555543
No 351
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=95.61 E-value=0.013 Score=54.90 Aligned_cols=47 Identities=21% Similarity=0.367 Sum_probs=35.6
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
..+|.||||||||+.+..++..+ +.+++.++.....-+++.+|+..+
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~---~~~~~~iat~~~~~~e~~~ri~~h 49 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS---GLQVLYIATAQPFDDEMAARIAHH 49 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc---CCCcEeCcCCCCChHHHHHHHHHH
Confidence 57999999999999988776543 556777776666667788887544
No 352
>PRK13764 ATPase; Provisional
Probab=95.61 E-value=0.021 Score=63.58 Aligned_cols=35 Identities=20% Similarity=0.319 Sum_probs=27.9
Q ss_pred ccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEE
Q 006386 210 SSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKIL 244 (647)
Q Consensus 210 ~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~IL 244 (647)
......+|.|||||||||++.+++..+...+..|+
T Consensus 255 ~~~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~ 289 (602)
T PRK13764 255 ERAEGILIAGAPGAGKSTFAQALAEFYADMGKIVK 289 (602)
T ss_pred hcCCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEE
Confidence 34577999999999999999998888766554443
No 353
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=95.60 E-value=0.51 Score=44.00 Aligned_cols=61 Identities=15% Similarity=0.138 Sum_probs=47.7
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch----HHHHHHHHHhcccCceEEEeCCC
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN----IAVDNIVERLVPHRVRLVRLGHP 273 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn----~Avd~l~~rl~~~~~~~vr~g~~ 273 (647)
.++++.|.=++|=||||.+...+.+.+-.|.+|+++=|=. ..-+.+.+++. ++.+.+.|..
T Consensus 20 ~~Gli~VYtGdGKGKTTAAlGlalRAaG~G~rV~iiQFlKg~~~~GE~~~l~~~~--~v~~~~~g~~ 84 (178)
T PRK07414 20 IEGLVQVFTSSQRNFFTSVMAQALRIAGQGTPVLIVQFLKGGIQQGPDRPIQLGQ--NLDWVRCDLP 84 (178)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHhcCCCEEEEEEEecCCCcchHHHHHHhCC--CcEEEECCCC
Confidence 4788999889999999999999999999999999986532 34455555543 5677777753
No 354
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=95.59 E-value=0.11 Score=54.91 Aligned_cols=37 Identities=24% Similarity=0.380 Sum_probs=28.0
Q ss_pred HHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 203 DAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 203 ~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
+.+..++..+ .-.|++||+|+||++++..++..++-.
T Consensus 29 ~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~ 68 (365)
T PRK07471 29 AALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLAT 68 (365)
T ss_pred HHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCC
Confidence 3455555432 257899999999999999999998743
No 355
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=95.59 E-value=0.029 Score=58.26 Aligned_cols=50 Identities=26% Similarity=0.429 Sum_probs=32.0
Q ss_pred CCHHHHHHHHHHHcc---CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccc
Q 006386 197 LDHSQKDAISKALSS---KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAAS 249 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~---~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~t 249 (647)
.+++..+.+...+.. ....+++||||||||+++..+..++ +..++.+.++
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~---~~~~~~i~~~ 77 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV---GAEVLFVNGS 77 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---CccceEeccC
Confidence 455555566655542 2356679999999999988776654 3444444443
No 356
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=95.58 E-value=0.055 Score=63.59 Aligned_cols=33 Identities=30% Similarity=0.505 Sum_probs=25.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
.+++.||||||||.++..+...+......+..+
T Consensus 598 ~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~ 630 (852)
T TIGR03345 598 VFLLVGPSGVGKTETALALAELLYGGEQNLITI 630 (852)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhCCCcceEEE
Confidence 579999999999999998888876554444433
No 357
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=95.57 E-value=0.017 Score=64.28 Aligned_cols=53 Identities=17% Similarity=0.328 Sum_probs=43.0
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEeccchHHHHHHHHHhcccC
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACAASNIAVDNIVERLVPHR 264 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a~tn~Avd~l~~rl~~~~ 264 (647)
...+++|.|+||||||+.+...+...+.+ |.++|+++... ..+++.+++...+
T Consensus 30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee-~~~~i~~~~~~~g 83 (509)
T PRK09302 30 KGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEE-SPEDIIRNVASFG 83 (509)
T ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccC-CHHHHHHHHHHcC
Confidence 35689999999999999999999888777 99999998755 5556666666554
No 358
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=95.57 E-value=0.021 Score=60.85 Aligned_cols=62 Identities=21% Similarity=0.256 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHc----cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhccc
Q 006386 199 HSQKDAISKALS----SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 199 ~~Q~~Av~~~l~----~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
-.|-+||..... ....-.+.|.-|||||.|++..|+.. +++.||+||+...+..|..-+.+.
T Consensus 15 GDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~---~rPtLV~AhNKTLAaQLy~Efk~f 80 (663)
T COG0556 15 GDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV---QRPTLVLAHNKTLAAQLYSEFKEF 80 (663)
T ss_pred CCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHh---CCCeEEEecchhHHHHHHHHHHHh
Confidence 356667776654 23467899999999999999999874 788999999999999999888764
No 359
>PRK13531 regulatory ATPase RavA; Provisional
Probab=95.55 E-value=0.017 Score=62.21 Aligned_cols=34 Identities=24% Similarity=0.238 Sum_probs=25.9
Q ss_pred HHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 204 AISKALSSKNVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 204 Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
.+..++.+.+.+++.||||||||+++..+...+.
T Consensus 31 lll~aalag~hVLL~GpPGTGKT~LAraLa~~~~ 64 (498)
T PRK13531 31 LCLLAALSGESVFLLGPPGIAKSLIARRLKFAFQ 64 (498)
T ss_pred HHHHHHccCCCEEEECCCChhHHHHHHHHHHHhc
Confidence 3334444688999999999999998877776543
No 360
>PRK05541 adenylylsulfate kinase; Provisional
Probab=95.55 E-value=0.02 Score=53.86 Aligned_cols=35 Identities=23% Similarity=0.257 Sum_probs=28.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
..+.++.|+|||||||++..+...+...+..+.++
T Consensus 7 ~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 7 GYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 44788999999999999988888887666665555
No 361
>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=95.54 E-value=0.019 Score=56.41 Aligned_cols=35 Identities=20% Similarity=0.328 Sum_probs=30.6
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
-.+|.||+|||||+.+..++..+.+.-..|.++++
T Consensus 15 r~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 15 RMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP 49 (241)
T ss_pred eEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence 56799999999999999999888776678888877
No 362
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=95.54 E-value=0.016 Score=60.58 Aligned_cols=24 Identities=42% Similarity=0.564 Sum_probs=20.5
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
+.++|+||||||||+++..++..+
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHHh
Confidence 468999999999999998777654
No 363
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=95.53 E-value=0.028 Score=56.05 Aligned_cols=34 Identities=29% Similarity=0.468 Sum_probs=30.9
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
..=|.|+||.||+|.+-+++..+...|.+|-|+|
T Consensus 53 viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlA 86 (323)
T COG1703 53 VIGITGVPGAGKSTLIEALGRELRERGHRVAVLA 86 (323)
T ss_pred EEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEE
Confidence 4459999999999999999999999999988876
No 364
>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=95.50 E-value=0.015 Score=62.75 Aligned_cols=35 Identities=23% Similarity=0.311 Sum_probs=29.1
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHC--CCeEEEec
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKR--GSKILACA 247 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~--~~~ILv~a 247 (647)
...+|+||||||||+.+.++...+.+. +.+++.+.
T Consensus 137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS 173 (405)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE
Confidence 357899999999999999988888765 56777765
No 365
>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=95.49 E-value=0.023 Score=59.71 Aligned_cols=28 Identities=25% Similarity=0.532 Sum_probs=24.7
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
..++++|.||.||||||++..++..+..
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~ 160 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAE 160 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 5789999999999999999888877754
No 366
>PRK00889 adenylylsulfate kinase; Provisional
Probab=95.49 E-value=0.022 Score=53.62 Aligned_cols=35 Identities=20% Similarity=0.204 Sum_probs=29.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
..+.+|.|+||+||||++..+...+...|.++.++
T Consensus 4 g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~i 38 (175)
T PRK00889 4 GVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVL 38 (175)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 34778999999999999999998887777677665
No 367
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=95.48 E-value=0.011 Score=56.40 Aligned_cols=36 Identities=25% Similarity=0.372 Sum_probs=27.7
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe--ccch
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILAC--AASN 250 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~--a~tn 250 (647)
-+|.||||+||||-....-.-+-..|.++.++ -|-|
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vVNLDPaN 42 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVVNLDPAN 42 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCCceEEEecCCcc
Confidence 47999999999998888777776777766654 4544
No 368
>PRK07667 uridine kinase; Provisional
Probab=95.46 E-value=0.023 Score=54.45 Aligned_cols=37 Identities=19% Similarity=0.241 Sum_probs=29.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN 250 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn 250 (647)
++.|.|+|||||||++..+...+-..|.++.++..-+
T Consensus 19 iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd 55 (193)
T PRK07667 19 ILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD 55 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence 5679999999999999888888877777776665544
No 369
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=95.45 E-value=0.044 Score=59.96 Aligned_cols=36 Identities=22% Similarity=0.299 Sum_probs=29.9
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHC--CCeEEEecc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKR--GSKILACAA 248 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~--~~~ILv~a~ 248 (647)
+..+|+||||||||+.+.++...+.+. +.+++.+..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~ 186 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS 186 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 468999999999999999999888776 567776654
No 370
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=95.44 E-value=0.024 Score=49.33 Aligned_cols=44 Identities=32% Similarity=0.456 Sum_probs=34.2
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhc
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
.++.|.+|+|||++...+...+.+.+.+|+++---. +.+.+++.
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id~D~---~~~~~~~~ 45 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAIDADP---DDLPERLS 45 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECCc---hhhHHHHh
Confidence 579999999999999999999988888887665332 55555544
No 371
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=95.42 E-value=0.012 Score=58.20 Aligned_cols=30 Identities=27% Similarity=0.365 Sum_probs=22.2
Q ss_pred EEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 217 LHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 217 I~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
|.|||||||||-...+...+...|.++.++
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~v 30 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIV 30 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT-S-EEEE
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccCCceEE
Confidence 689999999998888888776666666554
No 372
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.41 E-value=0.02 Score=62.46 Aligned_cols=36 Identities=33% Similarity=0.468 Sum_probs=25.5
Q ss_pred HHHHHHHHccCC---eEEEEcCCCCchHHHHHHHHHHHH
Q 006386 202 KDAISKALSSKN---VFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 202 ~~Av~~~l~~~~---~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
...+..++..+. ..+++|||||||||++..++..+.
T Consensus 23 ~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 23 KKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 334455554332 368999999999999988877764
No 373
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=95.39 E-value=0.016 Score=54.21 Aligned_cols=55 Identities=18% Similarity=0.259 Sum_probs=37.3
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec---cchHHHHHHHHHhcccCceEEEeCC
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA---ASNIAVDNIVERLVPHRVRLVRLGH 272 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a---~tn~Avd~l~~rl~~~~~~~vr~g~ 272 (647)
..-|-||||||||+.+-..+..|... .++.|++ +|+.=++.+.+. .+..++-+.+
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~Di~t~~Da~~l~~~---~g~~i~~v~T 72 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITGDIYTKEDADRLRKL---PGEPIIGVET 72 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEeceeechhhHHHHHhC---CCCeeEEecc
Confidence 34589999999999999999998776 6777775 454444444332 4555554433
No 374
>PRK06762 hypothetical protein; Provisional
Probab=95.38 E-value=0.027 Score=52.40 Aligned_cols=40 Identities=23% Similarity=0.402 Sum_probs=28.2
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHh
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERL 260 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl 260 (647)
.+.+|.|+|||||||.+..+...+ +..+.++. .|.+...+
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~l---~~~~~~i~-----~D~~r~~l 42 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQERL---GRGTLLVS-----QDVVRRDM 42 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh---CCCeEEec-----HHHHHHHh
Confidence 477899999999999888777665 33454443 36666543
No 375
>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=95.37 E-value=0.0088 Score=52.30 Aligned_cols=36 Identities=25% Similarity=0.389 Sum_probs=23.5
Q ss_pred CEEEEecCCCcchHHHHHHHH---hcCeeeecCCCCCCCc
Q 006386 371 DLVIIDEAAQALEIACWIALL---KGSRCILAGDHLQLPP 407 (647)
Q Consensus 371 d~vIIDEAsq~~e~~~l~~l~---~~~~~vlvGD~~QL~p 407 (647)
.++++||-..+.+- .-.+|+ .-.++-+-|....||.
T Consensus 64 ~ill~DEiNrappk-tQsAlLeam~Er~Vt~~g~~~~lp~ 102 (131)
T PF07726_consen 64 NILLADEINRAPPK-TQSALLEAMEERQVTIDGQTYPLPD 102 (131)
T ss_dssp SEEEEETGGGS-HH-HHHHHHHHHHHSEEEETTEEEE--S
T ss_pred ceeeecccccCCHH-HHHHHHHHHHcCeEEeCCEEEECCC
Confidence 69999999866543 333333 3478888888888887
No 376
>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=95.37 E-value=0.012 Score=55.74 Aligned_cols=23 Identities=35% Similarity=0.570 Sum_probs=19.1
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
+.+|.|||||||||....++..+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHc
Confidence 36899999999999988776654
No 377
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=95.37 E-value=0.031 Score=60.71 Aligned_cols=35 Identities=20% Similarity=0.242 Sum_probs=29.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHC--CCeEEEecc
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKR--GSKILACAA 248 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~--~~~ILv~a~ 248 (647)
..+|+||||||||+.+.++...+.+. +.+|++++.
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 58999999999999999998888764 567887754
No 378
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=95.37 E-value=0.021 Score=60.68 Aligned_cols=23 Identities=39% Similarity=0.615 Sum_probs=19.4
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
-++++||||||||+++..++..+
T Consensus 158 gvLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 158 GVLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred eEEEECCCCCCHHHHHHHHHHhC
Confidence 48899999999999888776653
No 379
>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=95.36 E-value=0.014 Score=49.97 Aligned_cols=23 Identities=39% Similarity=0.651 Sum_probs=20.1
Q ss_pred EEEcCCCCchHHHHHHHHHHHHH
Q 006386 216 MLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 216 lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
.|.||||+|||+.+-.++..+.+
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~ 24 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLK 24 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHH
Confidence 68999999999999888877764
No 380
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=95.34 E-value=0.02 Score=57.31 Aligned_cols=33 Identities=24% Similarity=0.447 Sum_probs=27.3
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
+.++.|+|||||||.+..+...+-..+.++.++
T Consensus 1 LIvl~G~pGSGKST~a~~La~~l~~~~~~v~~i 33 (249)
T TIGR03574 1 LIILTGLPGVGKSTFSKELAKKLSEKNIDVIIL 33 (249)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCCceEEE
Confidence 368999999999999999998887666666555
No 381
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=95.33 E-value=0.024 Score=58.88 Aligned_cols=41 Identities=22% Similarity=0.303 Sum_probs=28.6
Q ss_pred CCCHHHHHHHHHHHc-------cCCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 196 NLDHSQKDAISKALS-------SKNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 196 ~Ln~~Q~~Av~~~l~-------~~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.+++...+.|..+-. .+.+.++.|||||||||.+-.++..+
T Consensus 55 G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l 102 (361)
T smart00763 55 GMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL 102 (361)
T ss_pred CcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 345555555543322 24688999999999999888777766
No 382
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=95.33 E-value=0.025 Score=59.09 Aligned_cols=56 Identities=23% Similarity=0.278 Sum_probs=36.1
Q ss_pred CHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHH
Q 006386 198 DHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVD 254 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd 254 (647)
.++...++..++...+.+++.||||||||+.+-.++..+- .+-..+-|++.-.+.|
T Consensus 29 ~~~~~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l~-~~~~~i~~t~~l~p~d 84 (329)
T COG0714 29 DEEVIELALLALLAGGHVLLEGPPGVGKTLLARALARALG-LPFVRIQCTPDLLPSD 84 (329)
T ss_pred cHHHHHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHhC-CCeEEEecCCCCCHHH
Confidence 4444555555555689999999999999988877766653 3333344444333333
No 383
>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=95.31 E-value=0.016 Score=55.09 Aligned_cols=25 Identities=28% Similarity=0.518 Sum_probs=21.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.++.+|.|||||||||++..++..+
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4688999999999999988887654
No 384
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=95.29 E-value=0.023 Score=43.01 Aligned_cols=26 Identities=31% Similarity=0.460 Sum_probs=21.6
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
+.++|.||.|+||||++-++...|..
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~ 49 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYG 49 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 38999999999999988777766553
No 385
>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=95.28 E-value=0.022 Score=62.39 Aligned_cols=25 Identities=32% Similarity=0.477 Sum_probs=20.9
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
.-.|++||||||||+++..++..+.
T Consensus 217 ~GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 217 KGVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred cceEEECCCCCcHHHHHHHHHHhhc
Confidence 3589999999999998888777663
No 386
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=95.27 E-value=0.062 Score=54.31 Aligned_cols=73 Identities=16% Similarity=0.266 Sum_probs=43.8
Q ss_pred CHHHHHHHHHHHccCC--eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCceEEEeCC
Q 006386 198 DHSQKDAISKALSSKN--VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVRLVRLGH 272 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~--~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~~vr~g~ 272 (647)
|+...+..+..+...+ ++-|.|+||+||||++..++..+... .++.|+.--.... +=.+++...+..++.+..
T Consensus 88 n~~~a~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~-~~~~VI~gD~~t~-~Da~rI~~~g~pvvqi~t 162 (290)
T PRK10463 88 NNRLAERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKDS-VPCAVIEGDQQTV-NDAARIRATGTPAIQVNT 162 (290)
T ss_pred hHHHHHHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhccC-CCEEEECCCcCcH-HHHHHHHhcCCcEEEecC
Confidence 4444445555554333 34589999999999999999887544 3555543221111 124556666666666644
No 387
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=95.27 E-value=0.027 Score=52.56 Aligned_cols=39 Identities=23% Similarity=0.236 Sum_probs=32.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN 250 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn 250 (647)
.+++.|.|++||||||.+..++..+...|.+|-++-++.
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~Ik~~~ 44 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTH 44 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhhcCCeEEEEEEcC
Confidence 357789999999999999999999887788887776544
No 388
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=95.24 E-value=0.026 Score=60.83 Aligned_cols=24 Identities=38% Similarity=0.581 Sum_probs=19.9
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.-++++||||||||+++-.++..+
T Consensus 218 ~gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhh
Confidence 357899999999999988777654
No 389
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=95.24 E-value=0.18 Score=52.15 Aligned_cols=44 Identities=34% Similarity=0.351 Sum_probs=31.1
Q ss_pred CCCCEEEEecCCCcchHHHHHHHHh-------cCeeeecCC-CCCCCceeccH
Q 006386 368 TSFDLVIIDEAAQALEIACWIALLK-------GSRCILAGD-HLQLPPTVQSV 412 (647)
Q Consensus 368 ~~fd~vIIDEAsq~~e~~~l~~l~~-------~~~~vlvGD-~~QL~p~v~s~ 412 (647)
..+.++|||+|..+++... -+|++ ..-++|+.+ +.+|+|++.|.
T Consensus 106 g~~KV~iI~~a~~m~~~Aa-NaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SR 157 (325)
T PRK06871 106 GGNKVVYIQGAERLTEAAA-NALLKTLEEPRPNTYFLLQADLSAALLPTIYSR 157 (325)
T ss_pred CCceEEEEechhhhCHHHH-HHHHHHhcCCCCCeEEEEEECChHhCchHHHhh
Confidence 3679999999998876542 23332 256677766 67899998874
No 390
>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=95.21 E-value=0.025 Score=53.41 Aligned_cols=34 Identities=29% Similarity=0.339 Sum_probs=26.9
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
+..|.|+|||||||++..++..+-..|.++.+++
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~ 34 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVIS 34 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEe
Confidence 3579999999999999888877766666665554
No 391
>PRK08118 topology modulation protein; Reviewed
Probab=95.19 E-value=0.016 Score=54.03 Aligned_cols=22 Identities=27% Similarity=0.385 Sum_probs=18.0
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.+|.||||+||||.+..+...+
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6899999999998777666553
No 392
>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=95.19 E-value=0.029 Score=53.70 Aligned_cols=35 Identities=23% Similarity=0.261 Sum_probs=29.3
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
.+.+|.|+||+||||.+..+...+-..|.+++++.
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~ 38 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTR 38 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 46789999999999999998888877787776553
No 393
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=95.17 E-value=0.028 Score=58.70 Aligned_cols=50 Identities=18% Similarity=0.333 Sum_probs=36.3
Q ss_pred CHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 198 DHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
+.+....+..+.......+|.||+||||||++.+++..+ ....+++.+=.
T Consensus 148 ~~~~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i-~~~~rivtiEd 197 (344)
T PRK13851 148 NGDLEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAI-PPQERLITIED 197 (344)
T ss_pred cHHHHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHccc-CCCCCEEEECC
Confidence 445556666666677899999999999999998876553 44566655433
No 394
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=95.17 E-value=0.055 Score=60.79 Aligned_cols=40 Identities=15% Similarity=0.150 Sum_probs=33.2
Q ss_pred CCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHh
Q 006386 221 PGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERL 260 (647)
Q Consensus 221 PGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl 260 (647)
-|.|||.|++-.+......|+.|-|+|+|.-.+..=.+.+
T Consensus 100 TGEGKTLvA~l~a~l~AL~G~~VhvvT~NdyLA~RDae~m 139 (764)
T PRK12326 100 TGEGKTLAGAIAAAGYALQGRRVHVITVNDYLARRDAEWM 139 (764)
T ss_pred CCCCHHHHHHHHHHHHHHcCCCeEEEcCCHHHHHHHHHHH
Confidence 4999999998888877889999999999987766555544
No 395
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=95.15 E-value=0.031 Score=58.05 Aligned_cols=41 Identities=22% Similarity=0.398 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHcc--CCeEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 199 HSQKDAISKALSS--KNVFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 199 ~~Q~~Av~~~l~~--~~~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
+++.+.+...+.. .+..+++||||||||+++..+...+...
T Consensus 23 ~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~ 65 (319)
T PRK00440 23 EEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGE 65 (319)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 4555566665542 2457999999999999998888887543
No 396
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=95.14 E-value=0.068 Score=61.73 Aligned_cols=24 Identities=33% Similarity=0.619 Sum_probs=20.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
+.+++.||||||||.++..++..+
T Consensus 489 ~~~Lf~GP~GvGKT~lAk~LA~~l 512 (758)
T PRK11034 489 GSFLFAGPTGVGKTEVTVQLSKAL 512 (758)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 357999999999999998776655
No 397
>PRK06696 uridine kinase; Validated
Probab=95.14 E-value=0.03 Score=55.01 Aligned_cols=35 Identities=26% Similarity=0.327 Sum_probs=28.2
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
-+..|.|+|||||||++..++..|-..|..+++++
T Consensus 23 ~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~ 57 (223)
T PRK06696 23 LRVAIDGITASGKTTFADELAEEIKKRGRPVIRAS 57 (223)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence 36679999999999999888888766676666654
No 398
>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=95.13 E-value=0.029 Score=51.25 Aligned_cols=33 Identities=27% Similarity=0.415 Sum_probs=26.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
+++|.|+|||||||.+..+...+...+.+++++
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i 33 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRGRPVYVL 33 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 368999999999999988888877667555443
No 399
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=95.08 E-value=0.029 Score=56.53 Aligned_cols=35 Identities=26% Similarity=0.413 Sum_probs=25.6
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
++.+|.|.||||||+.+..+...+-..+.++.++.
T Consensus 2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~ 36 (270)
T PF08433_consen 2 PLIILCGLPCSGKTTRAKELKKYLEEKGKEVVIIS 36 (270)
T ss_dssp -EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEc
Confidence 57899999999999999888888888777877776
No 400
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=95.07 E-value=0.039 Score=50.45 Aligned_cols=34 Identities=32% Similarity=0.399 Sum_probs=29.0
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
+..+.|.|||||||++.++...|...|.++.++-
T Consensus 4 vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD 37 (156)
T PF01583_consen 4 VIWLTGLSGSGKTTLARALERRLFARGIKVYLLD 37 (156)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence 5679999999999999999999988998887775
No 401
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=95.04 E-value=0.068 Score=63.19 Aligned_cols=37 Identities=22% Similarity=0.332 Sum_probs=29.2
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAAS 249 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~t 249 (647)
+.+++.||||||||+++..+...+...+..++.+-.+
T Consensus 596 ~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s 632 (852)
T TIGR03346 596 GSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMS 632 (852)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEech
Confidence 3588999999999999998888877666666655444
No 402
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=95.04 E-value=0.017 Score=56.03 Aligned_cols=25 Identities=32% Similarity=0.573 Sum_probs=20.3
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHH
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~ 235 (647)
++..+|..||||||||.++.+++..
T Consensus 150 APknVLFyGppGTGKTm~Akalane 174 (368)
T COG1223 150 APKNVLFYGPPGTGKTMMAKALANE 174 (368)
T ss_pred CcceeEEECCCCccHHHHHHHHhcc
Confidence 3567999999999999988766543
No 403
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.03 E-value=0.23 Score=52.61 Aligned_cols=43 Identities=23% Similarity=0.317 Sum_probs=35.8
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec---cchHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILACA---ASNIAVDNIV 257 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a---~tn~Avd~l~ 257 (647)
..+.|-.|-||+|.++.+..+|++.+-+||+.| |---||..|.
T Consensus 381 i~fvGVNGVGKSTNLAKIayWLlqNkfrVLIAACDTFRsGAvEQLr 426 (587)
T KOG0781|consen 381 ISFVGVNGVGKSTNLAKIAYWLLQNKFRVLIAACDTFRSGAVEQLR 426 (587)
T ss_pred EEEEeecCccccchHHHHHHHHHhCCceEEEEeccchhhhHHHHHH
Confidence 458999999999999999999999999999875 3345666654
No 404
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=95.03 E-value=0.03 Score=56.50 Aligned_cols=36 Identities=28% Similarity=0.349 Sum_probs=31.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN 250 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn 250 (647)
+..|.|++||||||++..++..|.++| +|.++=+..
T Consensus 3 ~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IKhd~ 38 (274)
T PRK14493 3 VLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVKHMD 38 (274)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEEEcC
Confidence 567999999999999999999999999 777776543
No 405
>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.
Probab=95.00 E-value=0.7 Score=43.02 Aligned_cols=59 Identities=20% Similarity=0.333 Sum_probs=35.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchH----HHHHHHHHhcccCceEEEeCC
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNI----AVDNIVERLVPHRVRLVRLGH 272 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~----Avd~l~~rl~~~~~~~vr~g~ 272 (647)
.+.+.|.-++|=||||.+...+...+-.|.+|+++=|=.. .-..+.++|. ++.+.+.|.
T Consensus 3 ~G~i~vytG~GKGKTTAAlGlalRA~G~G~rV~ivQFlKg~~~~GE~~~l~~l~--~~~~~~~g~ 65 (172)
T PF02572_consen 3 RGLIQVYTGDGKGKTTAALGLALRAAGHGMRVLIVQFLKGGRYSGELKALKKLP--NVEIERFGK 65 (172)
T ss_dssp ---EEEEESSSS-HHHHHHHHHHHHHCTT--EEEEESS--SS--HHHHHHGGGT----EEEE--T
T ss_pred CcEEEEEeCCCCCchHHHHHHHHHHHhCCCEEEEEEEecCCCCcCHHHHHHhCC--eEEEEEcCC
Confidence 5677888889999999999999999999999999976333 2333344442 245555554
No 406
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=95.00 E-value=0.038 Score=54.01 Aligned_cols=38 Identities=21% Similarity=0.295 Sum_probs=33.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNI 251 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~ 251 (647)
+.-|.|++|+||||++..++..|...|.+|.++-+++.
T Consensus 3 vi~ivG~~gsGKTtl~~~l~~~L~~~G~~V~viK~~~~ 40 (229)
T PRK14494 3 AIGVIGFKDSGKTTLIEKILKNLKERGYRVATAKHTHH 40 (229)
T ss_pred EEEEECCCCChHHHHHHHHHHHHHhCCCeEEEEEeccc
Confidence 56799999999999999999999999999999976554
No 407
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=94.97 E-value=0.022 Score=50.69 Aligned_cols=22 Identities=32% Similarity=0.628 Sum_probs=19.0
Q ss_pred CCeEEEEcCCCCchHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEII 233 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i 233 (647)
.+..||.|-|||||||+...++
T Consensus 7 ~PNILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 7 RPNILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CCCEEEeCCCCCCchhHHHHHH
Confidence 5779999999999999886665
No 408
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=94.96 E-value=0.25 Score=52.71 Aligned_cols=64 Identities=23% Similarity=0.472 Sum_probs=46.3
Q ss_pred CCHHHHHH---HHHHHccCCeEEEEcCCCCchHHHHHHHHHHH-HH---CCCeEEEeccchHHHHHHHHHh
Q 006386 197 LDHSQKDA---ISKALSSKNVFMLHGPPGTGKTTTVVEIILQE-VK---RGSKILACAASNIAVDNIVERL 260 (647)
Q Consensus 197 Ln~~Q~~A---v~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l-~~---~~~~ILv~a~tn~Avd~l~~rl 260 (647)
.-|+|-+. +..+|.+.+..++.=|.|||||..+..++... +. ...+++.|+.|-.-++-..+-|
T Consensus 17 iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El 87 (755)
T KOG1131|consen 17 IYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEEL 87 (755)
T ss_pred cCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHH
Confidence 45677554 55667788999999999999999887776544 22 2469999999976555544433
No 409
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=94.96 E-value=0.02 Score=62.98 Aligned_cols=25 Identities=44% Similarity=0.690 Sum_probs=21.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
..+.|+.||||||||||+..++..+
T Consensus 45 ~~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 45 KRILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHh
Confidence 3578999999999999997777665
No 410
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=94.96 E-value=0.037 Score=53.91 Aligned_cols=32 Identities=28% Similarity=0.410 Sum_probs=29.1
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
.-|.|-.|+||||+.+.++..|.+.|++||++
T Consensus 3 iav~gKGGvGKTt~~~nLA~~la~~G~rvLli 34 (212)
T cd02117 3 IAIYGKGGIGKSTTSQNLSAALAEMGKKVLQV 34 (212)
T ss_pred EEEECCCcCcHHHHHHHHHHHHHHCCCcEEEE
Confidence 34559999999999999999999999999988
No 411
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.95 E-value=0.11 Score=55.37 Aligned_cols=67 Identities=22% Similarity=0.209 Sum_probs=50.4
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHH-HHHHHHHHH--------CCCeEEEeccchHHHHHHHHHhcc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTV-VEIILQEVK--------RGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti-~~~i~~l~~--------~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
..++.-|+.+|=..|. ..=++|.++-|||||-.- .-+|..|.. .|.=-||++||...+-.+.+-+.+
T Consensus 158 ~~pTsVQkq~IP~lL~-grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qK 233 (708)
T KOG0348|consen 158 SAPTSVQKQAIPVLLE-GRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQK 233 (708)
T ss_pred CccchHhhcchhhhhc-CcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHH
Confidence 4678899999999997 667899999999999753 344444433 245579999999988777655443
No 412
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.95 E-value=0.0099 Score=60.96 Aligned_cols=40 Identities=25% Similarity=0.439 Sum_probs=28.3
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhc
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
-+|..||||||||..+.+++-. .| ++|-|...-.+..+..
T Consensus 247 gvLm~GPPGTGKTlLAKAvATE---c~-----tTFFNVSsstltSKwR 286 (491)
T KOG0738|consen 247 GVLMVGPPGTGKTLLAKAVATE---CG-----TTFFNVSSSTLTSKWR 286 (491)
T ss_pred eeeeeCCCCCcHHHHHHHHHHh---hc-----CeEEEechhhhhhhhc
Confidence 4789999999999877665544 23 6666766666666643
No 413
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=94.94 E-value=0.031 Score=56.09 Aligned_cols=35 Identities=26% Similarity=0.437 Sum_probs=32.3
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
+.++.|.||+||||+.+.+...+.+.|++||++.-
T Consensus 2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd~ 36 (254)
T cd00550 2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVST 36 (254)
T ss_pred EEEEECCCCchHHHHHHHHHHHHHHCCCCceEEeC
Confidence 67899999999999999999999999999998864
No 414
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.94 E-value=0.09 Score=54.08 Aligned_cols=56 Identities=34% Similarity=0.476 Sum_probs=41.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCe-EEEeccchH--HHHHHHHHhcccCceE
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSK-ILACAASNI--AVDNIVERLVPHRVRL 267 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~-ILv~a~tn~--Avd~l~~rl~~~~~~~ 267 (647)
..+.++.|--|+|||||...++.++-++|.+ -||||-|=. |-|.+..--.+.++.+
T Consensus 101 psVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ 159 (483)
T KOG0780|consen 101 PSVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPF 159 (483)
T ss_pred CcEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCee
Confidence 3577899999999999999999999999865 567776654 5566655433334444
No 415
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=94.93 E-value=0.023 Score=54.42 Aligned_cols=32 Identities=28% Similarity=0.724 Sum_probs=21.9
Q ss_pred eEEEEcCCCCchHHHHHHH-HHHHHHCCCeEEE
Q 006386 214 VFMLHGPPGTGKTTTVVEI-ILQEVKRGSKILA 245 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~-i~~l~~~~~~ILv 245 (647)
+.+|.|.||+|||..++.. +...++.|.+|..
T Consensus 2 I~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t 34 (193)
T PF05707_consen 2 IYLITGKPGSGKSYYAVSYVIIPALKKGRPVYT 34 (193)
T ss_dssp EEEEE--TTSSHHHHHHHHHHH-GGGS---EEE
T ss_pred EEEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE
Confidence 5789999999999998888 8787887766654
No 416
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.93 E-value=0.03 Score=59.38 Aligned_cols=24 Identities=29% Similarity=0.380 Sum_probs=20.8
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
..+++||||||||+++..++..+.
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHhc
Confidence 458999999999999988887764
No 417
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=94.92 E-value=0.086 Score=48.51 Aligned_cols=59 Identities=20% Similarity=0.354 Sum_probs=43.5
Q ss_pred CCCCHHHHHHHHHHHccCC-eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhc
Q 006386 195 SNLDHSQKDAISKALSSKN-VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~-~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
..++.+++.+... .++ +.-..|.+|+||||++.++-..|...|..+-++-- |+++.-|.
T Consensus 8 ~~v~~~~r~~~~~---~~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDG-----DnvR~gL~ 67 (197)
T COG0529 8 HSVTKQEREALKG---QKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDG-----DNVRHGLN 67 (197)
T ss_pred cccCHHHHHHHhC---CCCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecC-----hhHhhccc
Confidence 3567777666543 344 44589999999999999999999999988887753 55555543
No 418
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=94.91 E-value=0.05 Score=50.21 Aligned_cols=37 Identities=27% Similarity=0.370 Sum_probs=31.4
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN 250 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn 250 (647)
+..|.|++||||||++..++..+...|.+|-++-+.+
T Consensus 3 vi~i~G~~gsGKTTli~~L~~~l~~~g~~V~~iK~~~ 39 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIPALSARGLRVAVIKHDH 39 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEecC
Confidence 5679999999999999999999988888887765543
No 419
>PRK06620 hypothetical protein; Validated
Probab=94.90 E-value=0.02 Score=55.72 Aligned_cols=19 Identities=26% Similarity=0.462 Sum_probs=16.6
Q ss_pred CeEEEEcCCCCchHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVE 231 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~ 231 (647)
+..+|+||||||||+.+..
T Consensus 45 ~~l~l~Gp~G~GKThLl~a 63 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKI 63 (214)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 3489999999999999875
No 420
>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=94.89 E-value=0.019 Score=52.36 Aligned_cols=22 Identities=23% Similarity=0.440 Sum_probs=18.6
Q ss_pred eEEEEcCCCCchHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~ 235 (647)
+.+|.|+||+||||++..+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 3689999999999998877665
No 421
>PRK08233 hypothetical protein; Provisional
Probab=94.89 E-value=0.019 Score=54.16 Aligned_cols=24 Identities=21% Similarity=0.306 Sum_probs=20.1
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.+..|.|+|||||||.+..++..+
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 467899999999999987777664
No 422
>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=94.88 E-value=0.033 Score=57.48 Aligned_cols=26 Identities=35% Similarity=0.647 Sum_probs=21.1
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
+....|+.||||||||..+.++...|
T Consensus 49 aGr~iLiaGppGtGKTAlA~~ia~eL 74 (398)
T PF06068_consen 49 AGRAILIAGPPGTGKTALAMAIAKEL 74 (398)
T ss_dssp TT-EEEEEE-TTSSHHHHHHHHHHHC
T ss_pred cCcEEEEeCCCCCCchHHHHHHHHHh
Confidence 35688999999999999999888776
No 423
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=94.87 E-value=0.4 Score=54.58 Aligned_cols=58 Identities=21% Similarity=0.318 Sum_probs=44.3
Q ss_pred CCCCCCHHHHHHHHHHHcc--------C-CeEEEEcCCCCchHHHHHHHHHHHHHC--C-----CeEEEeccch
Q 006386 193 FNSNLDHSQKDAISKALSS--------K-NVFMLHGPPGTGKTTTVVEIILQEVKR--G-----SKILACAASN 250 (647)
Q Consensus 193 ~~~~Ln~~Q~~Av~~~l~~--------~-~~~lI~GpPGTGKT~ti~~~i~~l~~~--~-----~~ILv~a~tn 250 (647)
....|-+.|++.+.....+ . +=.++.=-||+|||...+..+..++++ + .+.||+||+-
T Consensus 235 l~~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~s 308 (776)
T KOG0390|consen 235 LKKILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSS 308 (776)
T ss_pred HhhhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHH
Confidence 3457899999999987641 1 113455569999999999999999875 4 6899999954
No 424
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=94.85 E-value=0.046 Score=54.09 Aligned_cols=23 Identities=48% Similarity=0.775 Sum_probs=17.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~ 235 (647)
-+.+|+.||||.||||.+ .+|+.
T Consensus 52 lDHvLl~GPPGlGKTTLA-~IIA~ 74 (332)
T COG2255 52 LDHVLLFGPPGLGKTTLA-HIIAN 74 (332)
T ss_pred cCeEEeeCCCCCcHHHHH-HHHHH
Confidence 468999999999999765 44444
No 425
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.84 E-value=0.037 Score=60.13 Aligned_cols=35 Identities=43% Similarity=0.668 Sum_probs=28.2
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHH-HCC-CeEEEec
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEV-KRG-SKILACA 247 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~-~~~-~~ILv~a 247 (647)
.++.+.||.|+|||||+..+...+. +.| .+|.+++
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 5788999999999999999998885 444 4676554
No 426
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=94.84 E-value=0.038 Score=59.33 Aligned_cols=79 Identities=20% Similarity=0.222 Sum_probs=60.9
Q ss_pred CCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHH-HHHHHHHHHCCCeEEEeccc----hHHHHHHHHHhcccCceE-
Q 006386 194 NSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTV-VEIILQEVKRGSKILACAAS----NIAVDNIVERLVPHRVRL- 267 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti-~~~i~~l~~~~~~ILv~a~t----n~Avd~l~~rl~~~~~~~- 267 (647)
...|-|-|..||.+-|-.....+|..+.+||||-+. .+-|..++..|++.|.+.|= |.--+++.+|..+.+.++
T Consensus 214 ~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~g~KmlfLvPLVALANQKy~dF~~rYs~Lglkva 293 (830)
T COG1202 214 IEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVALANQKYEDFKERYSKLGLKVA 293 (830)
T ss_pred cceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhCCCeEEEEehhHHhhcchHHHHHHHhhcccceEE
Confidence 457899999999988876667888888999999754 23355667779999988774 445567888887778776
Q ss_pred EEeCC
Q 006386 268 VRLGH 272 (647)
Q Consensus 268 vr~g~ 272 (647)
+|+|.
T Consensus 294 irVG~ 298 (830)
T COG1202 294 IRVGM 298 (830)
T ss_pred EEech
Confidence 78874
No 427
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=94.83 E-value=0.12 Score=53.88 Aligned_cols=44 Identities=30% Similarity=0.264 Sum_probs=30.8
Q ss_pred CCCCEEEEecCCCcchHHHHHHHHh-------cCeeeecCC-CCCCCceeccH
Q 006386 368 TSFDLVIIDEAAQALEIACWIALLK-------GSRCILAGD-HLQLPPTVQSV 412 (647)
Q Consensus 368 ~~fd~vIIDEAsq~~e~~~l~~l~~-------~~~~vlvGD-~~QL~p~v~s~ 412 (647)
..+.++|||+|..+++... -.|++ ...+||+.. +.+|+|++.|.
T Consensus 131 ~~~kV~iI~~ae~m~~~Aa-NaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SR 182 (342)
T PRK06964 131 GGARVVVLYPAEALNVAAA-NALLKTLEEPPPGTVFLLVSARIDRLLPTILSR 182 (342)
T ss_pred CCceEEEEechhhcCHHHH-HHHHHHhcCCCcCcEEEEEECChhhCcHHHHhc
Confidence 4679999999988876642 22222 255676665 58899998874
No 428
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=94.82 E-value=0.045 Score=54.36 Aligned_cols=50 Identities=24% Similarity=0.311 Sum_probs=36.5
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHH------------CCCeEEEeccchHHHHHHHHHhccc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVK------------RGSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~------------~~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
.+.+|.||||||||+.+..++..+.. .+.+||+++-=+. .+++.+|+...
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~-~~~i~~Rl~~i 63 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDP-REEIHRRLEAI 63 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCC-HHHHHHHHHHH
Confidence 36799999999999999999877542 3457888875443 34677776543
No 429
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=94.82 E-value=0.13 Score=59.92 Aligned_cols=102 Identities=25% Similarity=0.322 Sum_probs=0.0
Q ss_pred HHHHHHHHHc--------------cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcccCce
Q 006386 201 QKDAISKALS--------------SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVPHRVR 266 (647)
Q Consensus 201 Q~~Av~~~l~--------------~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~~~~~ 266 (647)
|..|+..... ..+..++.||||||||+++..+...+ +..+..+..+.-.-..-..++
T Consensus 459 Q~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l---~~~~~~~d~se~~~~~~~~~l------ 529 (731)
T TIGR02639 459 QDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL---GVHLERFDMSEYMEKHTVSRL------ 529 (731)
T ss_pred cHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh---cCCeEEEeCchhhhcccHHHH------
Q ss_pred EEEeCCCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006386 267 LVRLGHPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDV 346 (647)
Q Consensus 267 ~vr~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~ 346 (647)
+|++......-..-.+...+...
T Consensus 530 ---ig~~~gyvg~~~~~~l~~~~~~~------------------------------------------------------ 552 (731)
T TIGR02639 530 ---IGAPPGYVGFEQGGLLTEAVRKH------------------------------------------------------ 552 (731)
T ss_pred ---hcCCCCCcccchhhHHHHHHHhC------------------------------------------------------
Q ss_pred hhcCceeeeccccccccccCCCCCCEEEEecCCCcchHHHHHHH
Q 006386 347 IKNADVVLTTLTGAVSRKLDNTSFDLVIIDEAAQALEIACWIAL 390 (647)
Q Consensus 347 l~~~~vi~~T~~~~~~~~l~~~~fd~vIIDEAsq~~e~~~l~~l 390 (647)
.+.+|++||+..+.+...-..+
T Consensus 553 ----------------------p~~VvllDEieka~~~~~~~Ll 574 (731)
T TIGR02639 553 ----------------------PHCVLLLDEIEKAHPDIYNILL 574 (731)
T ss_pred ----------------------CCeEEEEechhhcCHHHHHHHH
No 430
>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=94.82 E-value=0.027 Score=55.69 Aligned_cols=40 Identities=15% Similarity=0.192 Sum_probs=30.5
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHC------CCeEEEeccch
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKR------GSKILACAASN 250 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~------~~~ILv~a~tn 250 (647)
...++.|.||||||||+.+..++.....+ +.+++..+.-+
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~ 63 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG 63 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence 45689999999999999999998775543 25666666544
No 431
>PRK00131 aroK shikimate kinase; Reviewed
Probab=94.82 E-value=0.028 Score=52.62 Aligned_cols=25 Identities=24% Similarity=0.155 Sum_probs=21.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
....+|.|||||||||++..+...+
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence 4568899999999999998888775
No 432
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=94.79 E-value=0.092 Score=61.40 Aligned_cols=76 Identities=32% Similarity=0.447 Sum_probs=61.9
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC-----------CeEEEeccchHHHHHHHH----H
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG-----------SKILACAASNIAVDNIVE----R 259 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~-----------~~ILv~a~tn~Avd~l~~----r 259 (647)
..||..|.+.-..++......+++||.|+|||-+++--+.+-+..+ -+|...||..+.|++++. |
T Consensus 308 ~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkR 387 (1674)
T KOG0951|consen 308 QSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKR 387 (1674)
T ss_pred hhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhh
Confidence 4699999999999998888999999999999998877776665542 389999999999988866 6
Q ss_pred hcccCceEEEe
Q 006386 260 LVPHRVRLVRL 270 (647)
Q Consensus 260 l~~~~~~~vr~ 270 (647)
+..+|+.+..+
T Consensus 388 la~~GI~V~El 398 (1674)
T KOG0951|consen 388 LAPLGITVLEL 398 (1674)
T ss_pred ccccCcEEEEe
Confidence 66667665544
No 433
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=94.75 E-value=0.042 Score=56.58 Aligned_cols=47 Identities=23% Similarity=0.439 Sum_probs=37.4
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec--cchHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA--ASNIAVDNIVER 259 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a--~tn~Avd~l~~r 259 (647)
.+.++.|.-|+||||+.++.+..+...|+++|+++ |.+...|-+-.+
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS~Dpa~~L~d~l~~~ 50 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALALALARRGKRTLLVSTDPAHSLSDVLGQK 50 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEESSTTTHHHHHHTS-
T ss_pred eEEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEeecCCCccHHHHhCCc
Confidence 36789999999999999999999999999999985 555555555443
No 434
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=94.75 E-value=0.023 Score=52.71 Aligned_cols=21 Identities=33% Similarity=0.597 Sum_probs=16.3
Q ss_pred EEEEcCCCCchHHHHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~ 235 (647)
.+|.|+|||||||++..+...
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 479999999999999877766
No 435
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=94.75 E-value=0.023 Score=52.02 Aligned_cols=20 Identities=35% Similarity=0.604 Sum_probs=15.8
Q ss_pred eEEEEcCCCCchHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEII 233 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i 233 (647)
..+|.|.|||||||+.-.+-
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH
Confidence 46899999999998764443
No 436
>PRK03839 putative kinase; Provisional
Probab=94.74 E-value=0.027 Score=53.24 Aligned_cols=23 Identities=30% Similarity=0.494 Sum_probs=18.7
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
..+|.|+|||||||+...+...+
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 36899999999999877766654
No 437
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.73 E-value=0.13 Score=56.09 Aligned_cols=34 Identities=29% Similarity=0.364 Sum_probs=24.3
Q ss_pred HHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHH
Q 006386 203 DAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 203 ~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
+.+..++..+ ...|++|||||||||++..++..+
T Consensus 23 ~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~L 59 (491)
T PRK14964 23 RILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCL 59 (491)
T ss_pred HHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHH
Confidence 3444444422 358999999999999888777665
No 438
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=94.72 E-value=0.046 Score=52.27 Aligned_cols=34 Identities=24% Similarity=0.357 Sum_probs=29.0
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
+.+|.||+|+||||.+..+...+-..|.++.++.
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~ 35 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTR 35 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 5689999999999999999888877788876664
No 439
>PRK14531 adenylate kinase; Provisional
Probab=94.71 E-value=0.027 Score=53.50 Aligned_cols=23 Identities=30% Similarity=0.644 Sum_probs=18.9
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
-.+|.|||||||||....++..+
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~ 26 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAH 26 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 47899999999999977766553
No 440
>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=94.70 E-value=0.038 Score=54.07 Aligned_cols=34 Identities=15% Similarity=0.134 Sum_probs=23.7
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHH--CCCeEEEecc
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVK--RGSKILACAA 248 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~--~~~~ILv~a~ 248 (647)
+-|.||+|+||||++..+...+-. .+.+|.+++-
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~ 37 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITT 37 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEec
Confidence 458899999999998766665543 3445655443
No 441
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=94.68 E-value=0.08 Score=56.13 Aligned_cols=62 Identities=27% Similarity=0.290 Sum_probs=46.8
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHH-----HHHHHhcccCceEEEeCCCC
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVD-----NIVERLVPHRVRLVRLGHPA 274 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd-----~l~~rl~~~~~~~vr~g~~~ 274 (647)
.+.-|.|+|||||||.+..++..|...|.+|-++-++....| .=..|+.+.|...+-+.++.
T Consensus 206 ~~~~~~g~~~~GKtt~~~~l~~~l~~~g~~v~~iKh~~h~~~~d~~g~Ds~r~~~aGa~~v~~~~~~ 272 (366)
T PRK14489 206 PLLGVVGYSGTGKTTLLEKLIPELIARGYRIGLIKHSHHRVDIDKPGKDSHRLRAAGANPTMIVCPE 272 (366)
T ss_pred cEEEEecCCCCCHHHHHHHHHHHHHHcCCEEEEEEECCcccCCCCCCChhHHHHhCCCceEEEEcCC
Confidence 477899999999999999999999999999999988776542 12445555565555544443
No 442
>PRK04040 adenylate kinase; Provisional
Probab=94.68 E-value=0.028 Score=53.48 Aligned_cols=24 Identities=33% Similarity=0.555 Sum_probs=20.4
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.+.+|.|+|||||||++..+...+
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHh
Confidence 367899999999999988777765
No 443
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.68 E-value=0.087 Score=55.89 Aligned_cols=60 Identities=20% Similarity=0.206 Sum_probs=38.1
Q ss_pred CHHHHHHHHHHHccCCeEEEEcCCCCchHH-HHHHHHHHHHHCC-----CeEEEeccchHHHHHHHH
Q 006386 198 DHSQKDAISKALSSKNVFMLHGPPGTGKTT-TVVEIILQEVKRG-----SKILACAASNIAVDNIVE 258 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~-ti~~~i~~l~~~~-----~~ILv~a~tn~Avd~l~~ 258 (647)
+|-|...|=-+|... -.+-.+.-|||||. .++-++..|+.++ -+|||++||...+-.+..
T Consensus 205 TpIQ~a~IPvallgk-DIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~s 270 (691)
T KOG0338|consen 205 TPIQVATIPVALLGK-DICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHS 270 (691)
T ss_pred CchhhhcccHHhhcc-hhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHH
Confidence 344444444444322 23445667999997 4556677777654 489999999987665544
No 444
>PRK14530 adenylate kinase; Provisional
Probab=94.64 E-value=0.032 Score=54.49 Aligned_cols=25 Identities=28% Similarity=0.445 Sum_probs=20.6
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.+..+|.|||||||||.+..+...+
T Consensus 3 ~~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 3 QPRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHh
Confidence 3567899999999999888777664
No 445
>PRK06547 hypothetical protein; Provisional
Probab=94.64 E-value=0.043 Score=51.41 Aligned_cols=24 Identities=25% Similarity=0.400 Sum_probs=19.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~ 235 (647)
..+.+|.|||||||||++..+...
T Consensus 15 ~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 15 MITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHH
Confidence 346678899999999998777665
No 446
>PRK14527 adenylate kinase; Provisional
Probab=94.62 E-value=0.032 Score=53.36 Aligned_cols=25 Identities=32% Similarity=0.611 Sum_probs=20.8
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
..+.+|.||||+||||.+..+...+
T Consensus 6 ~~~i~i~G~pGsGKsT~a~~La~~~ 30 (191)
T PRK14527 6 NKVVIFLGPPGAGKGTQAERLAQEL 30 (191)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4678999999999999887776554
No 447
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=94.62 E-value=0.02 Score=61.99 Aligned_cols=23 Identities=43% Similarity=0.661 Sum_probs=20.4
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
=+|+|||||||||..+-+++.++
T Consensus 225 GvLlHGPPGCGKT~lA~AiAgel 247 (802)
T KOG0733|consen 225 GVLLHGPPGCGKTSLANAIAGEL 247 (802)
T ss_pred ceeeeCCCCccHHHHHHHHhhhc
Confidence 37999999999999998888776
No 448
>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=94.62 E-value=0.037 Score=52.22 Aligned_cols=24 Identities=25% Similarity=0.362 Sum_probs=20.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.+.+|.||||+||||++-.+...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 367899999999999998766654
No 449
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=94.59 E-value=0.083 Score=60.83 Aligned_cols=48 Identities=17% Similarity=0.112 Sum_probs=37.1
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
.+.+-+-|+|||.+++-.+......|+.|.|+|+|.-.+....+.+..
T Consensus 98 ~IaEm~TGEGKTL~a~lp~~l~al~g~~VhIvT~ndyLA~RD~e~m~~ 145 (908)
T PRK13107 98 RIAEMRTGEGKTLTATLPAYLNALTGKGVHVITVNDYLARRDAENNRP 145 (908)
T ss_pred ccccccCCCCchHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHH
Confidence 456678999999987766665566788999999999777766665543
No 450
>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=94.56 E-value=0.027 Score=51.50 Aligned_cols=20 Identities=35% Similarity=0.659 Sum_probs=17.2
Q ss_pred EEcCCCCchHHHHHHHHHHH
Q 006386 217 LHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 217 I~GpPGTGKT~ti~~~i~~l 236 (647)
|.|||||||||.+..+...+
T Consensus 1 i~G~PgsGK~t~~~~la~~~ 20 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRY 20 (151)
T ss_dssp EEESTTSSHHHHHHHHHHHH
T ss_pred CcCCCCCChHHHHHHHHHhc
Confidence 68999999999988877764
No 451
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=94.54 E-value=0.028 Score=60.00 Aligned_cols=23 Identities=39% Similarity=0.624 Sum_probs=19.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~ 235 (647)
.-++++||||||||+++-.++..
T Consensus 180 kgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 180 RGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred ceEEEECCCCCCHHHHHHHHHHh
Confidence 45889999999999988776654
No 452
>PHA02533 17 large terminase protein; Provisional
Probab=94.54 E-value=0.33 Score=53.90 Aligned_cols=67 Identities=16% Similarity=0.158 Sum_probs=54.0
Q ss_pred CCCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHH--HHCCCeEEEeccchHHHHHHHHHhc
Q 006386 194 NSNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQE--VKRGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l--~~~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
+..|++.|+..+..... ....+|.=|=..|||++++.++..+ ...+..|+++|++...+..+.+++.
T Consensus 57 Pf~L~p~Q~~i~~~~~~-~R~~ii~~aRq~GKStl~a~~al~~a~~~~~~~v~i~A~~~~QA~~vF~~ik 125 (534)
T PHA02533 57 KVQMRDYQKDMLKIMHK-NRFNACNLSRQLGKTTVVAIFLLHYVCFNKDKNVGILAHKASMAAEVLDRTK 125 (534)
T ss_pred ecCCcHHHHHHHHHHhc-CeEEEEEEcCcCChHHHHHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHH
Confidence 35699999998887643 5677899999999999998766443 3567899999999999999887764
No 453
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=94.54 E-value=0.05 Score=55.51 Aligned_cols=54 Identities=13% Similarity=0.276 Sum_probs=43.4
Q ss_pred CCCCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccc
Q 006386 195 SNLDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAAS 249 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~t 249 (647)
..+++.|...+..+....-..||.|+-||||||++-++... +....+|+.+=-|
T Consensus 156 gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTlLNal~~~-i~~~eRvItiEDt 209 (355)
T COG4962 156 GTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTLLNALSGF-IDSDERVITIEDT 209 (355)
T ss_pred CCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHHHHHHHhc-CCCcccEEEEeeh
Confidence 57899999999999986568999999999999998777655 3445588877554
No 454
>PRK14532 adenylate kinase; Provisional
Probab=94.52 E-value=0.027 Score=53.61 Aligned_cols=21 Identities=33% Similarity=0.732 Sum_probs=17.8
Q ss_pred EEEEcCCCCchHHHHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~ 235 (647)
.+|.|||||||||....++..
T Consensus 3 i~~~G~pGsGKsT~a~~la~~ 23 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEE 23 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 678999999999998777654
No 455
>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=94.49 E-value=0.038 Score=52.03 Aligned_cols=25 Identities=16% Similarity=0.298 Sum_probs=20.9
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
..+.++.||||+||||.+..+...+
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhh
Confidence 3578999999999999988877653
No 456
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=94.49 E-value=0.035 Score=56.46 Aligned_cols=25 Identities=36% Similarity=0.585 Sum_probs=22.3
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
..-.|+.||||||||..++.+...|
T Consensus 65 GrgiLi~GppgTGKTAlA~gIa~eL 89 (450)
T COG1224 65 GRGILIVGPPGTGKTALAMGIAREL 89 (450)
T ss_pred ccEEEEECCCCCcHHHHHHHHHHHh
Confidence 4578999999999999999988887
No 457
>PRK12608 transcription termination factor Rho; Provisional
Probab=94.48 E-value=0.059 Score=56.30 Aligned_cols=58 Identities=14% Similarity=0.174 Sum_probs=40.2
Q ss_pred HHHHHHc--cCCeEEEEcCCCCchHHHHHHHHHHHHHCCC----eEEEeccchHHHHHHHHHhc
Q 006386 204 AISKALS--SKNVFMLHGPPGTGKTTTVVEIILQEVKRGS----KILACAASNIAVDNIVERLV 261 (647)
Q Consensus 204 Av~~~l~--~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~----~ILv~a~tn~Avd~l~~rl~ 261 (647)
+|...+- ...-.+|.||||||||+.+..++..+..... .++++.....-+.++.+.+.
T Consensus 123 vID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~ 186 (380)
T PRK12608 123 VVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVK 186 (380)
T ss_pred hhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHh
Confidence 5554432 2345799999999999999998888876532 34455666666677777654
No 458
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=94.48 E-value=0.05 Score=50.83 Aligned_cols=34 Identities=29% Similarity=0.412 Sum_probs=30.6
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
+++..+-+|+||||+.+.++..+...|++||++=
T Consensus 2 i~v~s~kgG~GKTt~a~~LA~~la~~g~~vllvD 35 (169)
T cd02037 2 IAVMSGKGGVGKSTVAVNLALALAKLGYKVGLLD 35 (169)
T ss_pred EEEecCCCcCChhHHHHHHHHHHHHcCCcEEEEe
Confidence 4678889999999999999999999999999863
No 459
>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=94.45 E-value=0.045 Score=52.62 Aligned_cols=32 Identities=34% Similarity=0.434 Sum_probs=23.2
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
+.|.||+|+||||++..+...+ .+.++.++..
T Consensus 2 igi~G~~GsGKSTl~~~l~~~l--~~~~~~v~~~ 33 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEIIEQL--GNPKVVIISQ 33 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHHh--CCCCeEEEEe
Confidence 5799999999999997776655 4445555443
No 460
>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=94.45 E-value=0.03 Score=53.51 Aligned_cols=21 Identities=38% Similarity=0.746 Sum_probs=17.7
Q ss_pred EEEEcCCCCchHHHHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~ 235 (647)
.+|.|||||||||.+..+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999888776655
No 461
>PLN02200 adenylate kinase family protein
Probab=94.44 E-value=0.033 Score=55.00 Aligned_cols=24 Identities=29% Similarity=0.430 Sum_probs=19.9
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.+.+|.|||||||||....++..+
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~~~ 67 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVETF 67 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 467899999999999888776653
No 462
>PRK07261 topology modulation protein; Provisional
Probab=94.43 E-value=0.033 Score=52.22 Aligned_cols=21 Identities=24% Similarity=0.403 Sum_probs=17.7
Q ss_pred EEEEcCCCCchHHHHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~ 235 (647)
.+|.|+||+||||.+..+...
T Consensus 3 i~i~G~~GsGKSTla~~l~~~ 23 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQH 23 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 689999999999998776544
No 463
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=94.42 E-value=0.05 Score=53.18 Aligned_cols=35 Identities=29% Similarity=0.490 Sum_probs=31.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
+.++.|.||+|||++.+.+...+.+.|++++++..
T Consensus 1 ~~~~~g~~g~Gkt~~~~~la~~~a~~g~~~~l~~~ 35 (217)
T cd02035 1 VIFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVST 35 (217)
T ss_pred CEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEEC
Confidence 36789999999999999999999999999888753
No 464
>PHA02542 41 41 helicase; Provisional
Probab=94.41 E-value=0.063 Score=58.65 Aligned_cols=50 Identities=18% Similarity=0.246 Sum_probs=40.8
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhc
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLV 261 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~ 261 (647)
...+++|-|+||.|||+.+..++....+.|++||+.+.=- ..+.+..|+.
T Consensus 189 ~G~LiiIaarPgmGKTtfalniA~~~a~~g~~Vl~fSLEM-~~~ql~~Rl~ 238 (473)
T PHA02542 189 RKTLNVLLAGVNVGKSLGLCSLAADYLQQGYNVLYISMEM-AEEVIAKRID 238 (473)
T ss_pred CCcEEEEEcCCCccHHHHHHHHHHHHHhcCCcEEEEeccC-CHHHHHHHHH
Confidence 4568999999999999999999999888899999998633 3356666663
No 465
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=94.39 E-value=0.3 Score=47.82 Aligned_cols=49 Identities=14% Similarity=0.321 Sum_probs=30.3
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEE-EeccchHHHHHHHHHh
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKIL-ACAASNIAVDNIVERL 260 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~IL-v~a~tn~Avd~l~~rl 260 (647)
..++..|.|+-|||||.+.- ++......+.... +.--.+.+...+.+++
T Consensus 50 ~qg~~~vtGevGsGKTv~~R-al~~s~~~d~~~~v~i~~~~~s~~~~~~ai 99 (269)
T COG3267 50 GQGILAVTGEVGSGKTVLRR-ALLASLNEDQVAVVVIDKPTLSDATLLEAI 99 (269)
T ss_pred CCceEEEEecCCCchhHHHH-HHHHhcCCCceEEEEecCcchhHHHHHHHH
Confidence 45699999999999999988 4444444333333 3333344444555554
No 466
>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=94.36 E-value=0.13 Score=51.67 Aligned_cols=51 Identities=22% Similarity=0.395 Sum_probs=40.3
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEeccchHHHHHHHHHhcc
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
...+++|-|+||.|||+.+..++..+... +.+|++.+.=. ..+++..|+..
T Consensus 18 ~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm-~~~~l~~R~la 69 (259)
T PF03796_consen 18 PGELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEM-SEEELAARLLA 69 (259)
T ss_dssp TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS--HHHHHHHHHH
T ss_pred cCcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCC-CHHHHHHHHHH
Confidence 34699999999999999999999999887 59999999744 34456666543
No 467
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=94.34 E-value=0.092 Score=54.70 Aligned_cols=61 Identities=16% Similarity=0.262 Sum_probs=44.1
Q ss_pred CHHHHHHHHHHHccCCeEEEEcCCCCchHHH-HHHHHHHHHH--------CCCeEEEeccchHHHHHHHHH
Q 006386 198 DHSQKDAISKALSSKNVFMLHGPPGTGKTTT-VVEIILQEVK--------RGSKILACAASNIAVDNIVER 259 (647)
Q Consensus 198 n~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t-i~~~i~~l~~--------~~~~ILv~a~tn~Avd~l~~r 259 (647)
|.-|..||--+|. ..-.+..+--|||||-+ +.-++..++. .|..-+|++||...+..+..-
T Consensus 43 TlIQs~aIplaLE-gKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~v 112 (569)
T KOG0346|consen 43 TLIQSSAIPLALE-GKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKV 112 (569)
T ss_pred chhhhcccchhhc-CcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHH
Confidence 5568889998997 45678899999999975 3444444443 245788999999877665544
No 468
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=94.34 E-value=0.068 Score=55.28 Aligned_cols=43 Identities=23% Similarity=0.212 Sum_probs=34.8
Q ss_pred CCCCCHHHHHHHHHHHc----------cCCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 194 NSNLDHSQKDAISKALS----------SKNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 194 ~~~Ln~~Q~~Av~~~l~----------~~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
...|+++|++++...+. .....++.|+||||||++...+...+
T Consensus 105 l~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~L 157 (309)
T PRK08154 105 LEQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARL 157 (309)
T ss_pred HhcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence 45799999999888774 34578899999999999988776654
No 469
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=94.34 E-value=0.034 Score=57.55 Aligned_cols=25 Identities=16% Similarity=0.227 Sum_probs=20.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
+...+|+||||||||..+-.++..+
T Consensus 148 PlgllL~GPPGcGKTllAraiA~el 172 (413)
T PLN00020 148 PLILGIWGGKGQGKSFQCELVFKKM 172 (413)
T ss_pred CeEEEeeCCCCCCHHHHHHHHHHHc
Confidence 3467899999999998887777664
No 470
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=94.33 E-value=0.076 Score=57.62 Aligned_cols=53 Identities=23% Similarity=0.422 Sum_probs=42.3
Q ss_pred HccCCeEEEEcCCCCchHHHHHHHHHHHH-HCCCeEEEeccchHHHHHHHHHhcc
Q 006386 209 LSSKNVFMLHGPPGTGKTTTVVEIILQEV-KRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 209 l~~~~~~lI~GpPGTGKT~ti~~~i~~l~-~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
+....+++|-|+||+|||+.+..++..+. ..|.+|++++.= ...+++..|+..
T Consensus 191 ~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlE-m~~~~l~~Rl~~ 244 (421)
T TIGR03600 191 LVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLE-MSAEQLGERLLA 244 (421)
T ss_pred CCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECC-CCHHHHHHHHHH
Confidence 33456999999999999999999998876 678999999854 456677777643
No 471
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=94.33 E-value=0.16 Score=52.95 Aligned_cols=45 Identities=22% Similarity=0.214 Sum_probs=31.3
Q ss_pred CCCCEEEEecCCCcchHHH--HHHHH----hcCeeeecCC-CCCCCceeccH
Q 006386 368 TSFDLVIIDEAAQALEIAC--WIALL----KGSRCILAGD-HLQLPPTVQSV 412 (647)
Q Consensus 368 ~~fd~vIIDEAsq~~e~~~--l~~l~----~~~~~vlvGD-~~QL~p~v~s~ 412 (647)
..+.++|||+|..+++... |.-.+ ...-++|+-+ +.+|.||+.|.
T Consensus 107 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSR 158 (334)
T PRK07993 107 GGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSR 158 (334)
T ss_pred CCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhc
Confidence 3679999999998877642 22222 1256677766 68899998874
No 472
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=94.32 E-value=0.05 Score=59.80 Aligned_cols=25 Identities=32% Similarity=0.360 Sum_probs=22.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
+..|++|||||||||++..++..+.
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Ln 68 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVN 68 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhc
Confidence 4689999999999999988888774
No 473
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=94.32 E-value=0.073 Score=60.95 Aligned_cols=49 Identities=20% Similarity=0.284 Sum_probs=40.4
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHh
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERL 260 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl 260 (647)
..+++|.||||||||+.+..++......|.+++++.+-+..-.+.++++
T Consensus 60 GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~~A~~l 108 (790)
T PRK09519 60 GRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKL 108 (790)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHHHHHHc
Confidence 5689999999999999999999888888989988887666654555554
No 474
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=94.31 E-value=0.064 Score=55.77 Aligned_cols=49 Identities=14% Similarity=0.179 Sum_probs=33.7
Q ss_pred cCCeEEEEcCCCCchHHHHHHHHHHHHHC------CCeEEEeccchH-HHHHHHHH
Q 006386 211 SKNVFMLHGPPGTGKTTTVVEIILQEVKR------GSKILACAASNI-AVDNIVER 259 (647)
Q Consensus 211 ~~~~~lI~GpPGTGKT~ti~~~i~~l~~~------~~~ILv~a~tn~-Avd~l~~r 259 (647)
...+++|.||||||||+.+..++.....+ +.++++++.-+. -.+.+.+.
T Consensus 101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~ 156 (317)
T PRK04301 101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQM 156 (317)
T ss_pred CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHH
Confidence 35689999999999999999998876543 236666654332 23444443
No 475
>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=94.30 E-value=0.028 Score=52.17 Aligned_cols=21 Identities=29% Similarity=0.455 Sum_probs=17.4
Q ss_pred EEEcCCCCchHHHHHHHHHHH
Q 006386 216 MLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 216 lI~GpPGTGKT~ti~~~i~~l 236 (647)
+|.|||||||||++..+...+
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 688999999998887777664
No 476
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=94.30 E-value=0.068 Score=50.95 Aligned_cols=35 Identities=26% Similarity=0.414 Sum_probs=30.6
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEecc
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAA 248 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~ 248 (647)
+++..+-.|+||||+++.++..+...|++||++-.
T Consensus 1 I~v~~~kGG~GKTt~a~~la~~la~~g~~VlliD~ 35 (195)
T PF01656_consen 1 IAVTSGKGGVGKTTIAANLAQALARKGKKVLLIDL 35 (195)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEE
T ss_pred CEEEcCCCCccHHHHHHHHHhcccccccccccccc
Confidence 46788999999999999999999999999998755
No 477
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.29 E-value=0.13 Score=54.27 Aligned_cols=64 Identities=22% Similarity=0.363 Sum_probs=49.6
Q ss_pred HHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHC-CCeEEEeccchHHHHHHHHHhccc
Q 006386 200 SQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKR-GSKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 200 ~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~-~~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
+|+.-.-..+..+...++.|-.|+||||-|-..+.....+ ...|.++-|-..|+-.++.|+.+.
T Consensus 50 ~~k~~F~~~l~~nQ~~v~vGetgsGKttQiPq~~~~~~~~~~~~v~CTQprrvaamsva~RVadE 114 (699)
T KOG0925|consen 50 EQKEEFLKLLLNNQIIVLVGETGSGKTTQIPQFVLEYELSHLTGVACTQPRRVAAMSVAQRVADE 114 (699)
T ss_pred HhHHHHHHHHhcCceEEEEecCCCCccccCcHHHHHHHHhhccceeecCchHHHHHHHHHHHHHH
Confidence 3455555566668899999999999999988877766543 456777778889999999998764
No 478
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=94.28 E-value=0.17 Score=58.27 Aligned_cols=48 Identities=15% Similarity=0.127 Sum_probs=35.9
Q ss_pred EEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHhcc
Q 006386 215 FMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
.+.+-.-|+|||.+++-.+....-.|+.|-|+|||...+..-.+.+..
T Consensus 97 ~Iaem~TGeGKTLva~lpa~l~aL~G~~V~IvTpn~yLA~rd~e~~~~ 144 (830)
T PRK12904 97 KIAEMKTGEGKTLVATLPAYLNALTGKGVHVVTVNDYLAKRDAEWMGP 144 (830)
T ss_pred chhhhhcCCCcHHHHHHHHHHHHHcCCCEEEEecCHHHHHHHHHHHHH
Confidence 467778999999987665543344688899999999877776665543
No 479
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=94.27 E-value=0.073 Score=56.89 Aligned_cols=43 Identities=19% Similarity=0.351 Sum_probs=35.1
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDN 255 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~ 255 (647)
..++|.|.||||||+++..++.++..+|.+.+|.-++..-+..
T Consensus 16 ~~~li~G~~GsGKT~~i~~ll~~~~~~g~~~iI~D~kg~~~~~ 58 (386)
T PF10412_consen 16 RHILIIGATGSGKTQAIRHLLDQIRARGDRAIIYDPKGEFTER 58 (386)
T ss_dssp G-EEEEE-TTSSHHHHHHHHHHHHHHTT-EEEEEEETTHHHHH
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHcCCEEEEEECCchHHHH
Confidence 5689999999999999999999999999999999998754443
No 480
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=94.27 E-value=0.14 Score=57.13 Aligned_cols=64 Identities=19% Similarity=0.269 Sum_probs=48.3
Q ss_pred CCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHH--H----CCCeEEEeccchHHHHHHHHHhcc
Q 006386 197 LDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEV--K----RGSKILACAASNIAVDNIVERLVP 262 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~--~----~~~~ILv~a~tn~Avd~l~~rl~~ 262 (647)
+-++|+ .+..+. .+++++|.|--|+||||-+-..+...= . .+.-|-|+-|-..|+-.+++|+..
T Consensus 258 ~aeEq~-IMEaIn-~n~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAkRVa~ 327 (1172)
T KOG0926|consen 258 VAEEQR-IMEAIN-ENPVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAKRVAF 327 (1172)
T ss_pred hHHHHH-HHHHhh-cCCeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHHHHHHHH
Confidence 455664 455444 489999999999999998877776541 1 134688899999999999999754
No 481
>PRK02496 adk adenylate kinase; Provisional
Probab=94.26 E-value=0.038 Score=52.44 Aligned_cols=22 Identities=36% Similarity=0.667 Sum_probs=18.4
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l 236 (647)
.+|.||||+||||++..+...+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6899999999999887776554
No 482
>COG3911 Predicted ATPase [General function prediction only]
Probab=94.26 E-value=0.04 Score=48.94 Aligned_cols=23 Identities=39% Similarity=0.678 Sum_probs=19.2
Q ss_pred CeEEEEcCCCCchHHHHHHHHHH
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~ 235 (647)
..+++.|+||.||||.+.++...
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa~~ 32 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALARA 32 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHHHc
Confidence 48999999999999988766543
No 483
>PRK06761 hypothetical protein; Provisional
Probab=94.25 E-value=0.046 Score=55.20 Aligned_cols=33 Identities=24% Similarity=0.360 Sum_probs=26.7
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEE
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILA 245 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv 245 (647)
.+.+|.||||+||||++..+...+...+-.+-+
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~~ 36 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDILSQNGIEVEL 36 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhcCcCceEEEE
Confidence 578999999999999999999887655555443
No 484
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=94.25 E-value=0.15 Score=58.47 Aligned_cols=45 Identities=13% Similarity=0.145 Sum_probs=36.0
Q ss_pred EEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccchHHHHHHHHHh
Q 006386 216 MLHGPPGTGKTTTVVEIILQEVKRGSKILACAASNIAVDNIVERL 260 (647)
Q Consensus 216 lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn~Avd~l~~rl 260 (647)
+.+=.-|.|||.|++-.+......|+.|-++|||.-.+..=.+.+
T Consensus 97 iaEm~TGEGKTLvA~l~a~l~al~G~~v~vvT~neyLA~Rd~e~~ 141 (796)
T PRK12906 97 IAEMKTGEGKTLTATLPVYLNALTGKGVHVVTVNEYLSSRDATEM 141 (796)
T ss_pred cccccCCCCCcHHHHHHHHHHHHcCCCeEEEeccHHHHHhhHHHH
Confidence 555678999999988888888889999999999987665444443
No 485
>PRK14528 adenylate kinase; Provisional
Probab=94.25 E-value=0.039 Score=52.51 Aligned_cols=23 Identities=30% Similarity=0.515 Sum_probs=18.4
Q ss_pred eEEEEcCCCCchHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
..+|.||||+||||++..+...+
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~ 25 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERL 25 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 47899999999999887665443
No 486
>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=94.24 E-value=0.039 Score=49.94 Aligned_cols=22 Identities=27% Similarity=0.517 Sum_probs=19.2
Q ss_pred EEEEcCCCCchHHHHHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~l 236 (647)
..|.|+|||||||++..+...+
T Consensus 2 I~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5799999999999988888764
No 487
>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=94.24 E-value=0.075 Score=52.28 Aligned_cols=51 Identities=29% Similarity=0.326 Sum_probs=33.2
Q ss_pred CCHHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEeccch
Q 006386 197 LDHSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACAASN 250 (647)
Q Consensus 197 Ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a~tn 250 (647)
|++-=-.++..++...-...+.||+|||||.|+..+...+ |+.+++.-.++
T Consensus 17 lt~r~~~~l~~al~~~~~~~~~GpagtGKtetik~La~~l---G~~~~vfnc~~ 67 (231)
T PF12774_consen 17 LTDRCFLTLTQALSLNLGGALSGPAGTGKTETIKDLARAL---GRFVVVFNCSE 67 (231)
T ss_dssp HHHHHHHHHHHHHCTTTEEEEESSTTSSHHHHHHHHHHCT---T--EEEEETTS
T ss_pred HHHHHHHHHHHHhccCCCCCCcCCCCCCchhHHHHHHHHh---CCeEEEecccc
Confidence 3333334555566655667899999999999988877654 66666654443
No 488
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=94.18 E-value=0.67 Score=47.00 Aligned_cols=39 Identities=15% Similarity=0.241 Sum_probs=28.6
Q ss_pred HHHHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHHHC
Q 006386 201 QKDAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEVKR 239 (647)
Q Consensus 201 Q~~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~~~ 239 (647)
+.+.+..++..+ .-.++.||+|+||++++.+++..++-.
T Consensus 5 ~~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~ 46 (290)
T PRK05917 5 AWEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKE 46 (290)
T ss_pred HHHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCC
Confidence 344455555432 357899999999999999999887643
No 489
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=94.15 E-value=0.062 Score=54.36 Aligned_cols=32 Identities=25% Similarity=0.426 Sum_probs=29.2
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEe
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEVKRGSKILAC 246 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~ 246 (647)
++++ |-.|+||||+.+.++..|.+.|++||++
T Consensus 4 iav~-~KGGvGKTT~~~nLA~~La~~G~kVlli 35 (270)
T cd02040 4 IAIY-GKGGIGKSTTTQNLSAALAEMGKKVMIV 35 (270)
T ss_pred EEEE-eCCcCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 4555 8999999999999999999999999988
No 490
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=94.14 E-value=0.043 Score=58.34 Aligned_cols=35 Identities=34% Similarity=0.525 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHccCCeEEEEcCCCCchHHHHHHHH
Q 006386 199 HSQKDAISKALSSKNVFMLHGPPGTGKTTTVVEII 233 (647)
Q Consensus 199 ~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i 233 (647)
+.=++|+.-+.......++.||||||||.++..+-
T Consensus 185 ~~AKrAleiAAAGgHnLl~~GpPGtGKTmla~Rl~ 219 (490)
T COG0606 185 EQAKRALEIAAAGGHNLLLVGPPGTGKTMLASRLP 219 (490)
T ss_pred HHHHHHHHHHHhcCCcEEEecCCCCchHHhhhhhc
Confidence 34455666555545678999999999998775543
No 491
>CHL00195 ycf46 Ycf46; Provisional
Probab=94.13 E-value=0.038 Score=60.51 Aligned_cols=32 Identities=28% Similarity=0.263 Sum_probs=23.1
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHHCCCeEEEec
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVKRGSKILACA 247 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~~~~~ILv~a 247 (647)
.-.|+.||||||||.++.+++..+ +..++.+.
T Consensus 260 kGILL~GPpGTGKTllAkaiA~e~---~~~~~~l~ 291 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTAKAIANDW---QLPLLRLD 291 (489)
T ss_pred ceEEEECCCCCcHHHHHHHHHHHh---CCCEEEEE
Confidence 458999999999998887776654 44444443
No 492
>PRK05480 uridine/cytidine kinase; Provisional
Probab=94.13 E-value=0.062 Score=52.14 Aligned_cols=25 Identities=28% Similarity=0.347 Sum_probs=20.2
Q ss_pred CCeEEEEcCCCCchHHHHHHHHHHH
Q 006386 212 KNVFMLHGPPGTGKTTTVVEIILQE 236 (647)
Q Consensus 212 ~~~~lI~GpPGTGKT~ti~~~i~~l 236 (647)
..++.|.||+||||||++..+...+
T Consensus 6 ~~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 6 PIIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHh
Confidence 3467899999999998887776665
No 493
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=94.09 E-value=0.16 Score=56.63 Aligned_cols=147 Identities=21% Similarity=0.283 Sum_probs=89.5
Q ss_pred CCCCHHHHHHHHHHHc--cCCeEEE-EcCCCCchHHHHHHHHHHHHH-C--CCeEEEeccchHHHHHHHHHhccc--Cce
Q 006386 195 SNLDHSQKDAISKALS--SKNVFML-HGPPGTGKTTTVVEIILQEVK-R--GSKILACAASNIAVDNIVERLVPH--RVR 266 (647)
Q Consensus 195 ~~Ln~~Q~~Av~~~l~--~~~~~lI-~GpPGTGKT~ti~~~i~~l~~-~--~~~ILv~a~tn~Avd~l~~rl~~~--~~~ 266 (647)
..|-+-|.+-+.-..+ .+++-.| ---=|=|||--.++++.++.. . ..+.||++| -+..+|-...+.+. +++
T Consensus 166 g~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P-~StL~NW~~Ef~rf~P~l~ 244 (971)
T KOG0385|consen 166 GELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAP-KSTLDNWMNEFKRFTPSLN 244 (971)
T ss_pred CccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEee-HhhHHHHHHHHHHhCCCcc
Confidence 4577778777776554 3455444 445799999876677777754 2 368999999 44555555555443 233
Q ss_pred EEEeCCCCCCChhHHhhhHHHHHhcCCCchhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 006386 267 LVRLGHPARLLPQVLESALDAQVLRGDNSSLASDIRKEMKALNGKLLKTKDKNTRREIQKELRTLSKEERKRQQLAVTDV 346 (647)
Q Consensus 267 ~vr~g~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~ 346 (647)
++.... +..+|..+ .+++
T Consensus 245 ~~~~~G--------------------------------------------dk~eR~~~------------------~r~~ 262 (971)
T KOG0385|consen 245 VVVYHG--------------------------------------------DKEERAAL------------------RRDI 262 (971)
T ss_pred eEEEeC--------------------------------------------CHHHHHHH------------------HHHh
Confidence 332211 11111111 1122
Q ss_pred hh--cCceeeecccccc--ccccCCCCCCEEEEecCCCcchHH-HHHHHHh----cCeeeecCCCCC
Q 006386 347 IK--NADVVLTTLTGAV--SRKLDNTSFDLVIIDEAAQALEIA-CWIALLK----GSRCILAGDHLQ 404 (647)
Q Consensus 347 l~--~~~vi~~T~~~~~--~~~l~~~~fd~vIIDEAsq~~e~~-~l~~l~~----~~~~vlvGD~~Q 404 (647)
+. ..+|+++|.-.+. ...+....+.++|||||..+-... .|.-+++ ..++.+.|=|-|
T Consensus 263 ~~~~~fdV~iTsYEi~i~dk~~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQ 329 (971)
T KOG0385|consen 263 MLPGRFDVCITSYEIAIKDKSFLKKFNWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQ 329 (971)
T ss_pred hccCCCceEeehHHHHHhhHHHHhcCCceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCccc
Confidence 22 4567776665554 234677799999999999885554 3333332 389999999999
No 494
>PRK00279 adk adenylate kinase; Reviewed
Probab=94.07 E-value=0.042 Score=53.59 Aligned_cols=21 Identities=43% Similarity=0.686 Sum_probs=17.5
Q ss_pred EEEEcCCCCchHHHHHHHHHH
Q 006386 215 FMLHGPPGTGKTTTVVEIILQ 235 (647)
Q Consensus 215 ~lI~GpPGTGKT~ti~~~i~~ 235 (647)
.+|.||||+||||+...+...
T Consensus 3 I~v~G~pGsGKsT~a~~la~~ 23 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAEK 23 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 689999999999887766554
No 495
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.05 E-value=0.072 Score=58.99 Aligned_cols=24 Identities=25% Similarity=0.279 Sum_probs=21.0
Q ss_pred eEEEEcCCCCchHHHHHHHHHHHH
Q 006386 214 VFMLHGPPGTGKTTTVVEIILQEV 237 (647)
Q Consensus 214 ~~lI~GpPGTGKT~ti~~~i~~l~ 237 (647)
..|++||||||||+++..++..+.
T Consensus 40 a~Lf~Gp~GvGKTTlAr~lAk~L~ 63 (546)
T PRK14957 40 AYLFTGTRGVGKTTLGRLLAKCLN 63 (546)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhC
Confidence 478999999999999988888775
No 496
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=94.04 E-value=0.11 Score=56.70 Aligned_cols=45 Identities=29% Similarity=0.405 Sum_probs=33.0
Q ss_pred CCCCCEEEEecCCCcchHHHHHHHHhc-----Ce---eeecCCCCCCCceeccH
Q 006386 367 NTSFDLVIIDEAAQALEIACWIALLKG-----SR---CILAGDHLQLPPTVQSV 412 (647)
Q Consensus 367 ~~~fd~vIIDEAsq~~e~~~l~~l~~~-----~~---~vlvGD~~QL~p~v~s~ 412 (647)
..+|.+.||||+. |+-...+-+|++. .+ ++..=|++-+|+++.|.
T Consensus 117 ~~ryKVyiIDEvH-MLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlSR 169 (515)
T COG2812 117 EGRYKVYIIDEVH-MLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSR 169 (515)
T ss_pred cccceEEEEecHH-hhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhhc
Confidence 4589999999997 6666667777753 22 33456788899998874
No 497
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=94.03 E-value=0.061 Score=48.37 Aligned_cols=26 Identities=27% Similarity=0.511 Sum_probs=18.7
Q ss_pred HHHHHccCCeEEEEcCCCCchHHHHH
Q 006386 205 ISKALSSKNVFMLHGPPGTGKTTTVV 230 (647)
Q Consensus 205 v~~~l~~~~~~lI~GpPGTGKT~ti~ 230 (647)
+..+......++|+|+|||||++++-
T Consensus 14 l~~~a~~~~pvli~GE~GtGK~~~A~ 39 (138)
T PF14532_consen 14 LERLAKSSSPVLITGEPGTGKSLLAR 39 (138)
T ss_dssp HHHHHCSSS-EEEECCTTSSHHHHHH
T ss_pred HHHHhCCCCcEEEEcCCCCCHHHHHH
Confidence 34444456789999999999998653
No 498
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.02 E-value=0.072 Score=57.19 Aligned_cols=37 Identities=22% Similarity=0.251 Sum_probs=26.3
Q ss_pred HHHHHHHHccC---CeEEEEcCCCCchHHHHHHHHHHHHH
Q 006386 202 KDAISKALSSK---NVFMLHGPPGTGKTTTVVEIILQEVK 238 (647)
Q Consensus 202 ~~Av~~~l~~~---~~~lI~GpPGTGKT~ti~~~i~~l~~ 238 (647)
.+.+..++..+ ...|++||||+|||+++..++..+.-
T Consensus 25 ~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 25 TRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred HHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 33455555432 24789999999999999888877653
No 499
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.01 E-value=0.079 Score=56.08 Aligned_cols=51 Identities=18% Similarity=0.223 Sum_probs=37.0
Q ss_pred CeEEEEcCCCCchHHHHHHHHHHHHH-CC---CeEEEeccchHHHHHHHHHhccc
Q 006386 213 NVFMLHGPPGTGKTTTVVEIILQEVK-RG---SKILACAASNIAVDNIVERLVPH 263 (647)
Q Consensus 213 ~~~lI~GpPGTGKT~ti~~~i~~l~~-~~---~~ILv~a~tn~Avd~l~~rl~~~ 263 (647)
+=.+|.+|-|||||-.-+-=|.+++. +. -+-+|+-||...+..+..-+...
T Consensus 184 rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~ 238 (620)
T KOG0350|consen 184 RDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRL 238 (620)
T ss_pred CceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHh
Confidence 45789999999999765444555543 32 47889999999888877665543
No 500
>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=93.99 E-value=0.078 Score=59.92 Aligned_cols=53 Identities=23% Similarity=0.206 Sum_probs=34.1
Q ss_pred HHHHHHccCCeEEEEcCCCCchHHHHHHHHHHHHHCC-CeEEEeccchHHHHHH
Q 006386 204 AISKALSSKNVFMLHGPPGTGKTTTVVEIILQEVKRG-SKILACAASNIAVDNI 256 (647)
Q Consensus 204 Av~~~l~~~~~~lI~GpPGTGKT~ti~~~i~~l~~~~-~~ILv~a~tn~Avd~l 256 (647)
++..++......++.||||||||+.+..++..+-... ..++++..++.....+
T Consensus 29 ~l~~a~~~~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~~~~ 82 (608)
T TIGR00764 29 IIKKAAKQKRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPNMPR 82 (608)
T ss_pred HHHHHHHcCCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCchHH
Confidence 4444454567889999999999999888776553332 4555555443333333
Done!